Multiple sequence alignment - TraesCS7D01G120200

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Download Multiple Sequence Alignment: (Fasta) (Clustal)


BLAST Results


Shown here are the results of a BLAST search against the genome using the input sequence. The pipeline uses this to extract flanking regions for cloning. If the result of the multiple sequence alignment is not as expected, these results could be used for further investigation.

qseqid sseqid percentage.identical alignment.length no.mismatch no.gap.openings qstart qend sstart send evalue bitscore
0 TraesCS7D01G120200 chr7D 100.000 8348 0 0 1 8348 74588653 74580306 0.000000e+00 15416.0
1 TraesCS7D01G120200 chr7D 89.241 1041 84 18 6410 7434 74421486 74422514 0.000000e+00 1277.0
2 TraesCS7D01G120200 chr7D 89.980 998 84 11 6445 7429 74447505 74446511 0.000000e+00 1275.0
3 TraesCS7D01G120200 chr7D 87.131 847 94 7 4205 5041 149176617 149177458 0.000000e+00 946.0
4 TraesCS7D01G120200 chr7D 91.453 585 47 3 1546 2127 74452176 74451592 0.000000e+00 800.0
5 TraesCS7D01G120200 chr7D 93.204 515 34 1 1539 2053 74417859 74418372 0.000000e+00 756.0
6 TraesCS7D01G120200 chr7D 84.152 448 49 19 1000 1441 74452676 74452245 1.680000e-111 414.0
7 TraesCS7D01G120200 chr7D 86.207 348 25 16 7639 7981 74579791 74580120 1.030000e-93 355.0
8 TraesCS7D01G120200 chr7D 81.710 421 58 13 1020 1438 74417384 74417787 4.830000e-87 333.0
9 TraesCS7D01G120200 chr7D 94.872 195 7 3 7394 7587 74430784 74430592 1.360000e-77 302.0
10 TraesCS7D01G120200 chr7D 83.981 206 24 7 3801 3998 626027008 626026804 1.110000e-43 189.0
11 TraesCS7D01G120200 chr7D 74.854 342 61 22 3544 3875 571008985 571009311 1.890000e-26 132.0
12 TraesCS7D01G120200 chr7D 88.182 110 9 4 3801 3908 465489966 465489859 2.450000e-25 128.0
13 TraesCS7D01G120200 chr7D 84.884 86 11 2 5867 5950 74582454 74582369 1.490000e-12 86.1
14 TraesCS7D01G120200 chr7D 84.884 86 11 2 6200 6285 74582787 74582704 1.490000e-12 86.1
15 TraesCS7D01G120200 chr7B 93.613 1597 70 21 5955 7538 18098588 18097011 0.000000e+00 2355.0
16 TraesCS7D01G120200 chr7B 91.194 1499 76 29 1 1492 18104427 18102978 0.000000e+00 1986.0
17 TraesCS7D01G120200 chr7B 90.084 948 85 9 6445 7384 17843195 17842249 0.000000e+00 1221.0
18 TraesCS7D01G120200 chr7B 89.333 975 84 15 6445 7403 17665936 17666906 0.000000e+00 1206.0
19 TraesCS7D01G120200 chr7B 87.082 1076 118 11 3921 4983 519303820 519304887 0.000000e+00 1197.0
20 TraesCS7D01G120200 chr7B 88.889 936 69 14 5042 5960 18099553 18098636 0.000000e+00 1120.0
21 TraesCS7D01G120200 chr7B 93.118 712 41 2 1511 2214 18102930 18102219 0.000000e+00 1037.0
22 TraesCS7D01G120200 chr7B 88.406 828 82 8 4225 5041 643456752 643455928 0.000000e+00 985.0
23 TraesCS7D01G120200 chr7B 91.639 598 49 1 1539 2135 17847002 17846405 0.000000e+00 826.0
24 TraesCS7D01G120200 chr7B 91.167 600 48 5 1539 2135 17662906 17663503 0.000000e+00 809.0
25 TraesCS7D01G120200 chr7B 86.992 738 64 14 2742 3477 18100802 18100095 0.000000e+00 802.0
26 TraesCS7D01G120200 chr7B 82.927 451 55 18 1000 1441 17662402 17662839 3.650000e-103 387.0
27 TraesCS7D01G120200 chr7B 82.998 447 54 17 1000 1440 17847497 17847067 1.310000e-102 385.0
28 TraesCS7D01G120200 chr7B 84.925 199 26 3 2550 2745 18101029 18100832 1.840000e-46 198.0
29 TraesCS7D01G120200 chr7B 86.047 86 10 2 6200 6285 18098730 18098647 3.210000e-14 91.6
30 TraesCS7D01G120200 chr7A 94.065 1112 51 9 6487 7587 78464788 78463681 0.000000e+00 1674.0
31 TraesCS7D01G120200 chr7A 87.202 1469 144 24 5032 6477 78466558 78465111 0.000000e+00 1631.0
32 TraesCS7D01G120200 chr7A 94.218 761 28 5 1546 2299 78468984 78468233 0.000000e+00 1147.0
33 TraesCS7D01G120200 chr7A 91.027 691 62 0 6530 7220 78459135 78459825 0.000000e+00 933.0
34 TraesCS7D01G120200 chr7A 92.282 596 44 1 1543 2136 78452938 78453533 0.000000e+00 845.0
35 TraesCS7D01G120200 chr7A 86.726 678 47 17 2742 3405 78467805 78467157 0.000000e+00 713.0
36 TraesCS7D01G120200 chr7A 86.239 545 29 27 912 1441 78469562 78469049 4.400000e-152 549.0
37 TraesCS7D01G120200 chr7A 86.250 400 33 8 2349 2745 78468232 78467852 1.680000e-111 414.0
38 TraesCS7D01G120200 chr7A 91.416 233 20 0 1206 1438 78452626 78452858 3.760000e-83 320.0
39 TraesCS7D01G120200 chr7A 87.361 269 19 11 156 413 78469902 78469638 2.280000e-75 294.0
40 TraesCS7D01G120200 chr7A 85.507 207 20 7 3801 3998 721508925 721508720 3.050000e-49 207.0
41 TraesCS7D01G120200 chr7A 90.196 102 7 1 1020 1121 78452456 78452554 6.800000e-26 130.0
42 TraesCS7D01G120200 chr7A 88.660 97 10 1 7638 7734 689293793 689293698 5.290000e-22 117.0
43 TraesCS7D01G120200 chr7A 74.380 363 43 29 480 835 604505926 604505607 8.860000e-20 110.0
44 TraesCS7D01G120200 chr7A 90.625 64 5 1 3528 3590 636754493 636754556 5.370000e-12 84.2
45 TraesCS7D01G120200 chr2A 88.458 1135 94 20 3922 5041 16387647 16386535 0.000000e+00 1336.0
46 TraesCS7D01G120200 chr2A 96.078 51 2 0 7585 7635 549648798 549648848 5.370000e-12 84.2
47 TraesCS7D01G120200 chr2B 88.272 1134 107 14 3920 5041 786919539 786918420 0.000000e+00 1334.0
48 TraesCS7D01G120200 chr2B 88.183 1134 108 14 3920 5041 786962569 786961450 0.000000e+00 1328.0
49 TraesCS7D01G120200 chr2B 77.839 361 55 21 3528 3875 548910311 548909963 5.110000e-47 200.0
50 TraesCS7D01G120200 chr2B 96.000 50 2 0 7586 7635 797121307 797121356 1.930000e-11 82.4
51 TraesCS7D01G120200 chr4D 87.424 1153 107 18 3918 5041 38144101 38145244 0.000000e+00 1291.0
52 TraesCS7D01G120200 chr4D 84.047 771 109 10 4170 4934 486169292 486168530 0.000000e+00 730.0
53 TraesCS7D01G120200 chr4D 82.730 359 33 19 3816 4149 418588024 418588378 8.200000e-75 292.0
54 TraesCS7D01G120200 chr4D 89.474 95 8 2 3816 3908 472878116 472878022 1.470000e-22 119.0
55 TraesCS7D01G120200 chr4D 97.500 40 0 1 3521 3560 21654439 21654477 5.410000e-07 67.6
56 TraesCS7D01G120200 chr4D 81.481 81 14 1 3528 3607 461208671 461208591 1.940000e-06 65.8
57 TraesCS7D01G120200 chr5D 83.728 1266 116 54 3816 5041 63254363 63253148 0.000000e+00 1114.0
58 TraesCS7D01G120200 chr5D 73.819 508 92 36 3579 4068 243225073 243224589 6.700000e-36 163.0
59 TraesCS7D01G120200 chr5D 89.091 110 9 3 3801 3908 550397551 550397443 5.260000e-27 134.0
60 TraesCS7D01G120200 chr5D 74.296 284 53 16 3544 3822 220101275 220101543 1.480000e-17 102.0
61 TraesCS7D01G120200 chr5D 92.727 55 4 0 7581 7635 51066846 51066900 6.950000e-11 80.5
62 TraesCS7D01G120200 chr5D 84.615 78 11 1 3528 3604 119656007 119655930 8.990000e-10 76.8
63 TraesCS7D01G120200 chr5D 87.692 65 7 1 3528 3591 76568077 76568141 3.230000e-09 75.0
64 TraesCS7D01G120200 chr5D 83.333 78 12 1 3528 3604 558750271 558750348 4.180000e-08 71.3
65 TraesCS7D01G120200 chr4A 85.095 1107 111 28 3953 5041 598857061 598858131 0.000000e+00 1081.0
66 TraesCS7D01G120200 chr4A 77.000 300 53 13 3546 3842 598856777 598857063 3.120000e-34 158.0
67 TraesCS7D01G120200 chr4A 81.250 176 21 9 3696 3870 715533830 715533994 1.890000e-26 132.0
68 TraesCS7D01G120200 chr4A 88.571 70 7 1 3527 3595 715653172 715653103 5.370000e-12 84.2
69 TraesCS7D01G120200 chr4A 81.609 87 14 2 3528 3612 146315645 146315559 4.180000e-08 71.3
70 TraesCS7D01G120200 chr3D 88.841 690 70 5 4354 5041 584541926 584541242 0.000000e+00 841.0
71 TraesCS7D01G120200 chr3D 81.818 253 29 13 575 819 487225447 487225204 6.610000e-46 196.0
72 TraesCS7D01G120200 chr3D 88.000 125 13 2 3775 3897 340749070 340748946 6.750000e-31 147.0
73 TraesCS7D01G120200 chr5A 81.809 1039 153 20 3975 4996 221280217 221279198 0.000000e+00 839.0
74 TraesCS7D01G120200 chr5A 88.660 388 25 10 7974 8348 331734568 331734949 9.880000e-124 455.0
75 TraesCS7D01G120200 chr5A 87.629 388 29 10 7974 8348 331730342 331730723 4.630000e-117 433.0
76 TraesCS7D01G120200 chr5A 87.629 388 28 10 7974 8348 331732454 331732834 4.630000e-117 433.0
77 TraesCS7D01G120200 chr5A 87.629 388 29 9 7974 8348 331736681 331737062 4.630000e-117 433.0
78 TraesCS7D01G120200 chr5A 87.629 388 29 9 7974 8348 331740866 331741247 4.630000e-117 433.0
79 TraesCS7D01G120200 chr5A 87.371 388 30 10 7974 8348 331745040 331745421 2.150000e-115 427.0
80 TraesCS7D01G120200 chr5A 87.113 388 31 9 7974 8348 331742967 331743348 1.000000e-113 422.0
81 TraesCS7D01G120200 chr5A 86.340 388 34 9 7974 8348 331738782 331739163 1.010000e-108 405.0
82 TraesCS7D01G120200 chr5A 90.588 85 7 1 7639 7723 331744958 331745041 2.460000e-20 111.0
83 TraesCS7D01G120200 chr5A 87.059 85 10 1 7639 7723 331740784 331740867 2.480000e-15 95.3
84 TraesCS7D01G120200 chr5A 88.462 78 8 1 3528 3604 83181914 83181837 8.920000e-15 93.5
85 TraesCS7D01G120200 chr5A 85.882 85 11 1 7639 7723 331736599 331736682 1.150000e-13 89.8
86 TraesCS7D01G120200 chr2D 89.587 653 47 11 7640 8277 555722521 555721875 0.000000e+00 809.0
87 TraesCS7D01G120200 chr2D 84.419 353 28 17 7637 7981 555663277 555663610 1.050000e-83 322.0
88 TraesCS7D01G120200 chr2D 86.842 114 14 1 3758 3870 257497142 257497029 8.800000e-25 126.0
89 TraesCS7D01G120200 chr2D 93.750 64 3 1 3528 3590 203561069 203561132 2.480000e-15 95.3
90 TraesCS7D01G120200 chr2D 90.141 71 6 1 3528 3597 126094972 126094902 3.210000e-14 91.6
91 TraesCS7D01G120200 chr6A 84.561 842 82 26 3926 4727 586370319 586371152 0.000000e+00 791.0
92 TraesCS7D01G120200 chr6A 78.643 398 64 19 427 810 566427454 566427844 2.330000e-60 244.0
93 TraesCS7D01G120200 chr6A 75.148 338 64 17 3544 3875 586369836 586370159 3.140000e-29 141.0
94 TraesCS7D01G120200 chr6A 95.556 45 2 0 7588 7632 13455503 13455547 1.160000e-08 73.1
95 TraesCS7D01G120200 chr5B 78.665 1303 189 54 3756 5037 152549081 152547847 0.000000e+00 784.0
96 TraesCS7D01G120200 chr5B 82.540 378 42 13 7639 8005 185557354 185557718 2.260000e-80 311.0
97 TraesCS7D01G120200 chr5B 76.243 181 31 9 3660 3839 695655181 695655012 1.490000e-12 86.1
98 TraesCS7D01G120200 chr5B 94.444 54 3 0 7585 7638 517701612 517701559 5.370000e-12 84.2
99 TraesCS7D01G120200 chr5B 81.818 77 8 5 3486 3560 702408247 702408175 9.050000e-05 60.2
100 TraesCS7D01G120200 chr6D 82.788 947 94 38 3920 4809 168985751 168984817 0.000000e+00 782.0
101 TraesCS7D01G120200 chr6D 74.751 301 55 19 3544 3839 320653782 320653498 1.900000e-21 115.0
102 TraesCS7D01G120200 chr6D 98.000 50 1 0 7586 7635 84276285 84276334 4.150000e-13 87.9
103 TraesCS7D01G120200 chr6D 89.231 65 6 1 3528 3591 18117901 18117965 6.950000e-11 80.5
104 TraesCS7D01G120200 chr6D 86.111 72 6 1 3920 3987 311785740 311785811 3.230000e-09 75.0
105 TraesCS7D01G120200 chr6D 89.474 57 1 4 3504 3560 48526599 48526548 5.410000e-07 67.6
106 TraesCS7D01G120200 chr6D 100.000 35 0 0 3526 3560 406928769 406928735 1.940000e-06 65.8
107 TraesCS7D01G120200 chr1D 89.614 414 34 6 3974 4384 486762881 486762474 1.240000e-142 518.0
108 TraesCS7D01G120200 chr1D 82.234 197 21 12 3801 3987 396327809 396327617 3.120000e-34 158.0
109 TraesCS7D01G120200 chr1D 76.125 289 44 16 3546 3824 486763141 486762868 2.450000e-25 128.0
110 TraesCS7D01G120200 chr1D 90.526 95 7 2 3816 3908 10146481 10146387 3.160000e-24 124.0
111 TraesCS7D01G120200 chr1D 86.316 95 11 2 3816 3908 390851343 390851437 1.480000e-17 102.0
112 TraesCS7D01G120200 chr1D 89.024 82 8 1 3524 3604 224592126 224592207 5.330000e-17 100.0
113 TraesCS7D01G120200 chr1D 100.000 36 0 0 3525 3560 90265593 90265558 5.410000e-07 67.6
114 TraesCS7D01G120200 chr1D 100.000 35 0 0 3526 3560 139666815 139666781 1.940000e-06 65.8
115 TraesCS7D01G120200 chr1D 90.000 50 2 3 3511 3560 7464110 7464064 2.520000e-05 62.1
116 TraesCS7D01G120200 chr1D 100.000 33 0 0 3528 3560 49583242 49583210 2.520000e-05 62.1
117 TraesCS7D01G120200 chr6B 87.675 357 34 6 3920 4274 78199733 78199385 2.810000e-109 407.0
118 TraesCS7D01G120200 chr6B 84.450 418 47 14 427 830 68386151 68385738 6.070000e-106 396.0
119 TraesCS7D01G120200 chr6B 87.179 78 9 1 3528 3604 458587177 458587254 4.150000e-13 87.9
120 TraesCS7D01G120200 chr6B 90.625 64 5 1 3528 3590 719506314 719506251 5.370000e-12 84.2
121 TraesCS7D01G120200 chr6B 84.615 78 11 1 3528 3604 591345261 591345338 8.990000e-10 76.8
122 TraesCS7D01G120200 chr1A 85.864 382 43 10 428 803 65808141 65807765 6.070000e-106 396.0
123 TraesCS7D01G120200 chr3B 82.725 411 55 15 428 830 11582693 11582291 1.330000e-92 351.0
124 TraesCS7D01G120200 chr3B 83.611 360 45 11 427 779 452460647 452460999 8.080000e-85 326.0
125 TraesCS7D01G120200 chr3B 88.462 78 8 1 3528 3604 562056584 562056507 8.920000e-15 93.5
126 TraesCS7D01G120200 chr3B 85.897 78 10 1 3528 3604 665873940 665873863 1.930000e-11 82.4
127 TraesCS7D01G120200 chr3B 87.324 71 8 1 3528 3597 375805127 375805057 6.950000e-11 80.5
128 TraesCS7D01G120200 chrUn 75.224 335 62 18 3545 3873 87823873 87824192 1.130000e-28 139.0
129 TraesCS7D01G120200 chrUn 75.224 335 62 18 3545 3873 250789649 250789968 1.130000e-28 139.0
130 TraesCS7D01G120200 chrUn 75.224 335 62 18 3545 3873 371847609 371847928 1.130000e-28 139.0
131 TraesCS7D01G120200 chrUn 74.925 335 63 18 3545 3873 87821149 87821468 5.260000e-27 134.0
132 TraesCS7D01G120200 chrUn 90.526 95 7 2 3816 3908 111017225 111017319 3.160000e-24 124.0
133 TraesCS7D01G120200 chrUn 86.316 95 11 2 3816 3908 24466398 24466492 1.480000e-17 102.0
134 TraesCS7D01G120200 chrUn 92.647 68 5 0 3920 3987 111017292 111017225 1.920000e-16 99.0
135 TraesCS7D01G120200 chrUn 92.000 50 4 0 3775 3824 16259199 16259248 4.180000e-08 71.3
136 TraesCS7D01G120200 chrUn 92.000 50 4 0 3775 3824 16290310 16290359 4.180000e-08 71.3
137 TraesCS7D01G120200 chrUn 82.716 81 13 1 3528 3607 52087100 52087020 4.180000e-08 71.3
138 TraesCS7D01G120200 chrUn 88.136 59 7 0 3775 3833 213639278 213639220 4.180000e-08 71.3
139 TraesCS7D01G120200 chrUn 88.136 59 7 0 3775 3833 363549041 363548983 4.180000e-08 71.3
140 TraesCS7D01G120200 chrUn 92.000 50 4 0 3775 3824 425805386 425805435 4.180000e-08 71.3
141 TraesCS7D01G120200 chrUn 100.000 34 0 0 3528 3561 47878028 47877995 7.000000e-06 63.9
142 TraesCS7D01G120200 chrUn 100.000 34 0 0 3528 3561 56113058 56113091 7.000000e-06 63.9
143 TraesCS7D01G120200 chrUn 100.000 34 0 0 3527 3560 135194427 135194394 7.000000e-06 63.9
144 TraesCS7D01G120200 chrUn 100.000 34 0 0 3527 3560 158243278 158243245 7.000000e-06 63.9
145 TraesCS7D01G120200 chrUn 100.000 34 0 0 3528 3561 243833666 243833633 7.000000e-06 63.9
146 TraesCS7D01G120200 chrUn 100.000 33 0 0 3528 3560 12990235 12990203 2.520000e-05 62.1
147 TraesCS7D01G120200 chrUn 97.222 36 1 0 3525 3560 37438291 37438256 2.520000e-05 62.1
148 TraesCS7D01G120200 chrUn 97.297 37 0 1 3525 3560 42003015 42002979 2.520000e-05 62.1
149 TraesCS7D01G120200 chrUn 100.000 33 0 0 3525 3557 258613633 258613665 2.520000e-05 62.1
150 TraesCS7D01G120200 chrUn 85.455 55 7 1 3528 3581 304305808 304305754 1.000000e-03 56.5
151 TraesCS7D01G120200 chr1B 93.548 62 4 0 3776 3837 662604273 662604212 8.920000e-15 93.5
152 TraesCS7D01G120200 chr1B 97.619 42 1 0 3519 3560 584202060 584202101 1.160000e-08 73.1
153 TraesCS7D01G120200 chr1B 83.099 71 11 1 3528 3597 623008978 623008908 7.000000e-06 63.9
154 TraesCS7D01G120200 chr4B 78.102 137 25 4 1554 1689 632399613 632399745 1.930000e-11 82.4


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS7D01G120200 chr7D 74580306 74588653 8347 True 15416.000000 15416 100.000000 1 8348 1 chr7D.!!$R3 8347
1 TraesCS7D01G120200 chr7D 74446511 74447505 994 True 1275.000000 1275 89.980000 6445 7429 1 chr7D.!!$R2 984
2 TraesCS7D01G120200 chr7D 149176617 149177458 841 False 946.000000 946 87.131000 4205 5041 1 chr7D.!!$F2 836
3 TraesCS7D01G120200 chr7D 74417384 74422514 5130 False 788.666667 1277 88.051667 1020 7434 3 chr7D.!!$F4 6414
4 TraesCS7D01G120200 chr7D 74451592 74452676 1084 True 607.000000 800 87.802500 1000 2127 2 chr7D.!!$R6 1127
5 TraesCS7D01G120200 chr7B 519303820 519304887 1067 False 1197.000000 1197 87.082000 3921 4983 1 chr7B.!!$F1 1062
6 TraesCS7D01G120200 chr7B 18097011 18104427 7416 True 1084.228571 2355 89.254000 1 7538 7 chr7B.!!$R3 7537
7 TraesCS7D01G120200 chr7B 643455928 643456752 824 True 985.000000 985 88.406000 4225 5041 1 chr7B.!!$R1 816
8 TraesCS7D01G120200 chr7B 17842249 17847497 5248 True 810.666667 1221 88.240333 1000 7384 3 chr7B.!!$R2 6384
9 TraesCS7D01G120200 chr7B 17662402 17666906 4504 False 800.666667 1206 87.809000 1000 7403 3 chr7B.!!$F2 6403
10 TraesCS7D01G120200 chr7A 78459135 78459825 690 False 933.000000 933 91.027000 6530 7220 1 chr7A.!!$F1 690
11 TraesCS7D01G120200 chr7A 78463681 78469902 6221 True 917.428571 1674 88.865857 156 7587 7 chr7A.!!$R4 7431
12 TraesCS7D01G120200 chr7A 78452456 78453533 1077 False 431.666667 845 91.298000 1020 2136 3 chr7A.!!$F3 1116
13 TraesCS7D01G120200 chr2A 16386535 16387647 1112 True 1336.000000 1336 88.458000 3922 5041 1 chr2A.!!$R1 1119
14 TraesCS7D01G120200 chr2B 786918420 786919539 1119 True 1334.000000 1334 88.272000 3920 5041 1 chr2B.!!$R2 1121
15 TraesCS7D01G120200 chr2B 786961450 786962569 1119 True 1328.000000 1328 88.183000 3920 5041 1 chr2B.!!$R3 1121
16 TraesCS7D01G120200 chr4D 38144101 38145244 1143 False 1291.000000 1291 87.424000 3918 5041 1 chr4D.!!$F2 1123
17 TraesCS7D01G120200 chr4D 486168530 486169292 762 True 730.000000 730 84.047000 4170 4934 1 chr4D.!!$R3 764
18 TraesCS7D01G120200 chr5D 63253148 63254363 1215 True 1114.000000 1114 83.728000 3816 5041 1 chr5D.!!$R1 1225
19 TraesCS7D01G120200 chr4A 598856777 598858131 1354 False 619.500000 1081 81.047500 3546 5041 2 chr4A.!!$F2 1495
20 TraesCS7D01G120200 chr3D 584541242 584541926 684 True 841.000000 841 88.841000 4354 5041 1 chr3D.!!$R3 687
21 TraesCS7D01G120200 chr5A 221279198 221280217 1019 True 839.000000 839 81.809000 3975 4996 1 chr5A.!!$R2 1021
22 TraesCS7D01G120200 chr5A 331730342 331745421 15079 False 339.736364 455 87.593545 7639 8348 11 chr5A.!!$F1 709
23 TraesCS7D01G120200 chr2D 555721875 555722521 646 True 809.000000 809 89.587000 7640 8277 1 chr2D.!!$R3 637
24 TraesCS7D01G120200 chr6A 586369836 586371152 1316 False 466.000000 791 79.854500 3544 4727 2 chr6A.!!$F3 1183
25 TraesCS7D01G120200 chr5B 152547847 152549081 1234 True 784.000000 784 78.665000 3756 5037 1 chr5B.!!$R1 1281
26 TraesCS7D01G120200 chr6D 168984817 168985751 934 True 782.000000 782 82.788000 3920 4809 1 chr6D.!!$R2 889
27 TraesCS7D01G120200 chr1D 486762474 486763141 667 True 323.000000 518 82.869500 3546 4384 2 chr1D.!!$R7 838

AutoCloner calculated primer pairs

These primer pairs were selected by Autocloner to minimize primer penalty (calculated by Primer3), whilst remaining within the specified product range where possible.

Download AutoCloner chosen primers as CSV: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
982 1023 0.234884 CAAGGGCGAAAGAACACGAC 59.765 55.0 0.0 0.0 36.75 4.34 F
1442 1518 0.179205 CGTCCGTCCTCGTAAGTCAC 60.179 60.0 0.0 0.0 39.48 3.67 F
2590 4381 0.520404 CTCCACAAGTGCATCACTGC 59.480 55.0 0.0 0.0 44.62 4.40 F
3416 5275 0.730834 CTCTCCTCTTGCGACACACG 60.731 60.0 0.0 0.0 45.66 4.49 F
3615 5514 0.034337 AACGGTAGTGCGGTTGACAT 59.966 50.0 3.4 0.0 38.86 3.06 F
4421 6626 0.100503 GCACAACGGTTGCAGACTTT 59.899 50.0 20.2 0.0 0.00 2.66 F
5452 8604 0.972983 CCTCGATGTCCCTGTCCAGT 60.973 60.0 0.0 0.0 0.00 4.00 F
6401 10628 0.878416 TGCAACTACAAATGGTCGCC 59.122 50.0 0.0 0.0 0.00 5.54 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2572 4363 0.109153 AGCAGTGATGCACTTGTGGA 59.891 50.000 2.73 0.0 42.59 4.02 R
3416 5275 0.036858 GTTGGTGGGAGAGAGAGTGC 60.037 60.000 0.00 0.0 0.00 4.40 R
3418 5277 0.545548 GGGTTGGTGGGAGAGAGAGT 60.546 60.000 0.00 0.0 0.00 3.24 R
4327 6523 0.904649 TGTGAATGATCGCAGGGAGT 59.095 50.000 0.00 0.0 41.02 3.85 R
5452 8604 2.808933 CGAAGGTGGGAGTTAACTTGCA 60.809 50.000 10.02 0.0 0.00 4.08 R
5586 8740 3.088532 AGCCAATATTTTTCGTGCCTGA 58.911 40.909 0.00 0.0 0.00 3.86 R
7095 11699 0.745468 GCGGGAACTCCTGGTAGTAG 59.255 60.000 6.71 0.0 42.72 2.57 R
7625 12236 0.321298 CGAACCCGGTCTCAAATGGT 60.321 55.000 0.00 0.0 0.00 3.55 R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
259 263 2.035961 GTCACTGACAGCTGGTTGTAGA 59.964 50.000 19.93 5.81 32.09 2.59
363 367 3.177884 TGGCTGGCCAACTCCACT 61.178 61.111 12.27 0.00 44.12 4.00
387 398 5.011635 TGTCTACCAGTCTAGTTGCAATCAA 59.988 40.000 0.59 0.00 0.00 2.57
439 464 5.968387 AATAAGCGAGAAATACACTTCGG 57.032 39.130 0.00 0.00 0.00 4.30
440 465 3.587797 AAGCGAGAAATACACTTCGGA 57.412 42.857 0.00 0.00 0.00 4.55
441 466 3.152261 AGCGAGAAATACACTTCGGAG 57.848 47.619 0.00 0.00 0.00 4.63
442 467 1.588861 GCGAGAAATACACTTCGGAGC 59.411 52.381 0.00 0.00 0.00 4.70
443 468 2.194271 CGAGAAATACACTTCGGAGCC 58.806 52.381 0.00 0.00 0.00 4.70
458 483 3.192001 TCGGAGCCGGATTGTATATACAC 59.808 47.826 15.20 5.10 40.25 2.90
460 485 3.514309 GGAGCCGGATTGTATATACACCT 59.486 47.826 15.20 6.00 35.64 4.00
591 619 6.425577 AAAAACTAACGTGACTTTAGTGCA 57.574 33.333 14.13 0.00 39.28 4.57
592 620 6.425577 AAAACTAACGTGACTTTAGTGCAA 57.574 33.333 14.13 0.00 39.28 4.08
681 709 5.777850 TTTTTAAAAGAAGTCGAAGGGGG 57.222 39.130 0.14 0.00 0.00 5.40
698 726 2.894765 GGGGGATTTTCTTTTCGTGGAA 59.105 45.455 0.00 0.00 0.00 3.53
705 733 7.225734 GGGATTTTCTTTTCGTGGAATTTTTCA 59.774 33.333 0.00 0.00 0.00 2.69
706 734 8.608317 GGATTTTCTTTTCGTGGAATTTTTCAA 58.392 29.630 0.00 0.00 0.00 2.69
719 747 9.092876 GTGGAATTTTTCAAACAAGTACAATGA 57.907 29.630 5.77 0.00 0.00 2.57
845 874 3.065233 TGCGTCCATAATAAGCTTGCTTG 59.935 43.478 17.04 1.51 0.00 4.01
847 876 3.313526 CGTCCATAATAAGCTTGCTTGCT 59.686 43.478 17.04 7.09 46.40 3.91
890 919 6.002082 ACTACACATACTCACACAGTAGTCA 58.998 40.000 0.00 0.00 41.13 3.41
899 928 3.699538 TCACACAGTAGTCACACTCACTT 59.300 43.478 0.00 0.00 0.00 3.16
900 929 3.798878 CACACAGTAGTCACACTCACTTG 59.201 47.826 0.00 0.00 0.00 3.16
902 931 4.081642 ACACAGTAGTCACACTCACTTGTT 60.082 41.667 0.00 0.00 0.00 2.83
940 981 1.173913 ATAACTGTTTTGGGCGAGCC 58.826 50.000 5.37 5.37 0.00 4.70
981 1022 1.503818 GCAAGGGCGAAAGAACACGA 61.504 55.000 0.00 0.00 0.00 4.35
982 1023 0.234884 CAAGGGCGAAAGAACACGAC 59.765 55.000 0.00 0.00 36.75 4.34
984 1025 0.878961 AGGGCGAAAGAACACGACAC 60.879 55.000 0.00 0.00 39.47 3.67
989 1030 1.071239 CGAAAGAACACGACACAGCAG 60.071 52.381 0.00 0.00 0.00 4.24
994 1035 0.461870 AACACGACACAGCAGCAGAA 60.462 50.000 0.00 0.00 0.00 3.02
1133 1188 0.606401 GCAGGTTTGTGCCTCAGCTA 60.606 55.000 0.00 0.00 40.80 3.32
1134 1189 1.446907 CAGGTTTGTGCCTCAGCTAG 58.553 55.000 0.00 0.00 40.80 3.42
1135 1190 0.322008 AGGTTTGTGCCTCAGCTAGC 60.322 55.000 6.62 6.62 40.80 3.42
1139 1194 0.979665 TTGTGCCTCAGCTAGCTCTT 59.020 50.000 16.15 0.00 40.80 2.85
1173 1228 1.712056 TCCTCAAGGAAACCGAGACA 58.288 50.000 0.00 0.00 42.18 3.41
1174 1229 2.043992 TCCTCAAGGAAACCGAGACAA 58.956 47.619 0.00 0.00 42.18 3.18
1176 1231 2.808543 CCTCAAGGAAACCGAGACAAAG 59.191 50.000 0.00 0.00 37.39 2.77
1178 1233 1.266989 CAAGGAAACCGAGACAAAGGC 59.733 52.381 0.00 0.00 0.00 4.35
1179 1234 0.472471 AGGAAACCGAGACAAAGGCA 59.528 50.000 0.00 0.00 0.00 4.75
1180 1235 0.875059 GGAAACCGAGACAAAGGCAG 59.125 55.000 0.00 0.00 0.00 4.85
1195 1250 2.597455 AGGCAGGCATGTTTACAAGTT 58.403 42.857 0.00 0.00 0.00 2.66
1196 1251 2.965147 AGGCAGGCATGTTTACAAGTTT 59.035 40.909 0.00 0.00 0.00 2.66
1199 1254 3.490526 GCAGGCATGTTTACAAGTTTGTG 59.509 43.478 7.73 0.00 42.31 3.33
1442 1518 0.179205 CGTCCGTCCTCGTAAGTCAC 60.179 60.000 0.00 0.00 39.48 3.67
1444 1520 0.877071 TCCGTCCTCGTAAGTCACAC 59.123 55.000 0.00 0.00 39.48 3.82
1445 1521 0.879765 CCGTCCTCGTAAGTCACACT 59.120 55.000 0.00 0.00 39.48 3.55
1446 1522 1.135746 CCGTCCTCGTAAGTCACACTC 60.136 57.143 0.00 0.00 39.48 3.51
1447 1523 1.534163 CGTCCTCGTAAGTCACACTCA 59.466 52.381 0.00 0.00 39.48 3.41
1467 1543 4.285863 TCACACCAACTTCCTTCCAAATT 58.714 39.130 0.00 0.00 0.00 1.82
1471 1547 6.478673 CACACCAACTTCCTTCCAAATTAAAC 59.521 38.462 0.00 0.00 0.00 2.01
1473 1549 5.221362 ACCAACTTCCTTCCAAATTAAACGG 60.221 40.000 0.00 0.00 0.00 4.44
1475 1551 3.257375 ACTTCCTTCCAAATTAAACGGCC 59.743 43.478 0.00 0.00 0.00 6.13
1492 1570 3.032609 CGATGATCGGTCTGCGCC 61.033 66.667 7.00 0.00 36.00 6.53
1493 1571 2.419198 GATGATCGGTCTGCGCCT 59.581 61.111 4.18 0.00 0.00 5.52
1495 1573 2.635229 GATGATCGGTCTGCGCCTGT 62.635 60.000 4.18 0.00 0.00 4.00
2017 2143 1.367840 GAAGGTCAGTGTCGTGGCT 59.632 57.895 0.00 0.00 0.00 4.75
2202 2340 1.488390 TAATCCACCCCACTACGTCC 58.512 55.000 0.00 0.00 0.00 4.79
2261 3491 7.962441 AGAAACCTATGGTGCAAATAGTTTTT 58.038 30.769 11.90 11.41 35.34 1.94
2304 3534 9.577222 AGTAGGGAATAATAACTACTCTCTGTC 57.423 37.037 0.00 0.00 41.53 3.51
2305 3535 9.577222 GTAGGGAATAATAACTACTCTCTGTCT 57.423 37.037 0.00 0.00 34.47 3.41
2306 3536 8.700439 AGGGAATAATAACTACTCTCTGTCTC 57.300 38.462 0.00 0.00 0.00 3.36
2307 3537 8.282982 AGGGAATAATAACTACTCTCTGTCTCA 58.717 37.037 0.00 0.00 0.00 3.27
2308 3538 8.354426 GGGAATAATAACTACTCTCTGTCTCAC 58.646 40.741 0.00 0.00 0.00 3.51
2309 3539 8.354426 GGAATAATAACTACTCTCTGTCTCACC 58.646 40.741 0.00 0.00 0.00 4.02
2313 3543 3.417101 ACTACTCTCTGTCTCACCAGTG 58.583 50.000 0.00 0.00 34.02 3.66
2314 3544 2.373335 ACTCTCTGTCTCACCAGTGT 57.627 50.000 0.00 0.00 34.02 3.55
2315 3545 2.235016 ACTCTCTGTCTCACCAGTGTC 58.765 52.381 0.00 0.00 34.02 3.67
2316 3546 2.234143 CTCTCTGTCTCACCAGTGTCA 58.766 52.381 0.00 0.00 34.02 3.58
2317 3547 2.625314 CTCTCTGTCTCACCAGTGTCAA 59.375 50.000 0.00 0.00 34.02 3.18
2319 3549 3.450817 TCTCTGTCTCACCAGTGTCAAAA 59.549 43.478 0.00 0.00 34.02 2.44
2321 3551 3.938963 TCTGTCTCACCAGTGTCAAAAAC 59.061 43.478 0.00 0.00 34.02 2.43
2323 3553 4.269183 TGTCTCACCAGTGTCAAAAACAT 58.731 39.130 0.00 0.00 40.80 2.71
2324 3554 4.335315 TGTCTCACCAGTGTCAAAAACATC 59.665 41.667 0.00 0.00 40.80 3.06
2325 3555 4.576463 GTCTCACCAGTGTCAAAAACATCT 59.424 41.667 0.00 0.00 40.80 2.90
2327 3557 5.066375 TCTCACCAGTGTCAAAAACATCTTG 59.934 40.000 0.00 0.00 40.80 3.02
2328 3558 3.798337 CACCAGTGTCAAAAACATCTTGC 59.202 43.478 0.00 0.00 40.80 4.01
2331 3561 5.051816 CCAGTGTCAAAAACATCTTGCATT 58.948 37.500 0.00 0.00 40.80 3.56
2332 3562 6.183360 ACCAGTGTCAAAAACATCTTGCATTA 60.183 34.615 0.00 0.00 40.80 1.90
2333 3563 6.869913 CCAGTGTCAAAAACATCTTGCATTAT 59.130 34.615 0.00 0.00 40.80 1.28
2334 3564 7.148705 CCAGTGTCAAAAACATCTTGCATTATG 60.149 37.037 7.13 7.13 40.80 1.90
2335 3565 6.869913 AGTGTCAAAAACATCTTGCATTATGG 59.130 34.615 12.05 0.00 40.80 2.74
2336 3566 6.091169 GTGTCAAAAACATCTTGCATTATGGG 59.909 38.462 12.05 0.00 40.80 4.00
2337 3567 6.014755 TGTCAAAAACATCTTGCATTATGGGA 60.015 34.615 12.05 1.63 31.20 4.37
2338 3568 6.311200 GTCAAAAACATCTTGCATTATGGGAC 59.689 38.462 12.05 8.08 0.00 4.46
2339 3569 4.637483 AAACATCTTGCATTATGGGACG 57.363 40.909 12.05 0.00 0.00 4.79
2341 3571 3.884895 ACATCTTGCATTATGGGACGAA 58.115 40.909 12.05 0.00 0.00 3.85
2342 3572 3.627577 ACATCTTGCATTATGGGACGAAC 59.372 43.478 12.05 0.00 0.00 3.95
2343 3573 3.627395 TCTTGCATTATGGGACGAACT 57.373 42.857 0.00 0.00 0.00 3.01
2344 3574 4.746535 TCTTGCATTATGGGACGAACTA 57.253 40.909 0.00 0.00 0.00 2.24
2345 3575 4.693283 TCTTGCATTATGGGACGAACTAG 58.307 43.478 0.00 0.00 0.00 2.57
2352 3582 7.870954 TGCATTATGGGACGAACTAGTAATAAG 59.129 37.037 0.00 0.00 0.00 1.73
2362 4151 9.460906 GACGAACTAGTAATAAGTAGGGAAATG 57.539 37.037 0.00 0.00 33.54 2.32
2373 4162 8.934023 ATAAGTAGGGAAATGTGAAAGAACAA 57.066 30.769 0.00 0.00 32.81 2.83
2374 4163 7.839680 AAGTAGGGAAATGTGAAAGAACAAT 57.160 32.000 0.00 0.00 32.81 2.71
2417 4206 3.403038 CTCGCCGGGATGATTTTCTTAT 58.597 45.455 2.18 0.00 0.00 1.73
2418 4207 3.138304 TCGCCGGGATGATTTTCTTATG 58.862 45.455 2.18 0.00 0.00 1.90
2449 4240 2.717580 AATAGACGCTCACGAACACA 57.282 45.000 0.00 0.00 43.93 3.72
2488 4279 3.873361 CCTCAATGAAGACATACACGCAT 59.127 43.478 0.00 0.00 35.50 4.73
2498 4289 7.749126 TGAAGACATACACGCATATAATACTCG 59.251 37.037 0.00 0.00 0.00 4.18
2499 4290 7.142306 AGACATACACGCATATAATACTCGT 57.858 36.000 0.00 0.00 0.00 4.18
2500 4291 8.260270 AGACATACACGCATATAATACTCGTA 57.740 34.615 0.00 0.00 0.00 3.43
2501 4292 8.890718 AGACATACACGCATATAATACTCGTAT 58.109 33.333 0.00 0.00 0.00 3.06
2502 4293 8.836959 ACATACACGCATATAATACTCGTATG 57.163 34.615 0.00 0.00 39.53 2.39
2503 4294 8.671028 ACATACACGCATATAATACTCGTATGA 58.329 33.333 11.47 0.00 37.92 2.15
2507 4298 6.021390 CACGCATATAATACTCGTATGAGCAC 60.021 42.308 12.04 0.00 46.69 4.40
2508 4299 5.455849 CGCATATAATACTCGTATGAGCACC 59.544 44.000 12.04 0.00 46.69 5.01
2509 4300 6.565234 GCATATAATACTCGTATGAGCACCT 58.435 40.000 12.04 0.00 46.69 4.00
2511 4302 7.539436 CATATAATACTCGTATGAGCACCTGT 58.461 38.462 12.04 0.00 46.69 4.00
2512 4303 8.674607 CATATAATACTCGTATGAGCACCTGTA 58.325 37.037 12.04 0.00 46.69 2.74
2513 4304 5.847111 AATACTCGTATGAGCACCTGTAA 57.153 39.130 12.04 0.00 46.69 2.41
2514 4305 3.784701 ACTCGTATGAGCACCTGTAAG 57.215 47.619 12.04 0.00 46.69 2.34
2515 4306 3.353557 ACTCGTATGAGCACCTGTAAGA 58.646 45.455 12.04 0.00 46.69 2.10
2516 4307 3.378742 ACTCGTATGAGCACCTGTAAGAG 59.621 47.826 12.04 0.00 46.69 2.85
2517 4308 3.617284 TCGTATGAGCACCTGTAAGAGA 58.383 45.455 0.00 0.00 34.07 3.10
2518 4309 4.207955 TCGTATGAGCACCTGTAAGAGAT 58.792 43.478 0.00 0.00 34.07 2.75
2519 4310 4.645136 TCGTATGAGCACCTGTAAGAGATT 59.355 41.667 0.00 0.00 34.07 2.40
2520 4311 4.742167 CGTATGAGCACCTGTAAGAGATTG 59.258 45.833 0.00 0.00 34.07 2.67
2538 4329 9.918630 AAGAGATTGGTTCAACAAATCTTAATG 57.081 29.630 19.47 0.00 38.04 1.90
2572 4363 6.146347 GTCAAAGTCTTAAGATTGACGAAGCT 59.854 38.462 25.22 7.99 41.33 3.74
2590 4381 0.520404 CTCCACAAGTGCATCACTGC 59.480 55.000 0.00 0.00 44.62 4.40
2598 4389 2.570181 GCATCACTGCTGTTGGCC 59.430 61.111 0.00 0.00 45.32 5.36
2656 4447 8.655935 ATTCTGAAATAAATCCAGGAAACACT 57.344 30.769 0.00 0.00 0.00 3.55
2659 4452 7.890127 TCTGAAATAAATCCAGGAAACACTCAT 59.110 33.333 0.00 0.00 0.00 2.90
2702 4495 9.240734 AGAACTTGAATTTAGATGAGCAGATTT 57.759 29.630 0.00 0.00 0.00 2.17
2747 4590 3.533606 TGAGAGGATAGTGCTGCTTTC 57.466 47.619 0.00 0.00 0.00 2.62
2771 4614 2.836360 TACCGGCCCATCCTCGAC 60.836 66.667 0.00 0.00 0.00 4.20
2811 4654 4.673375 AAGGGCCCTGCTGCACTG 62.673 66.667 29.50 0.00 46.51 3.66
2868 4715 1.532868 GGCCACGATCATAAGCACATC 59.467 52.381 0.00 0.00 0.00 3.06
2889 4736 3.964688 TCCTCTCCGTGGCTAAAATCATA 59.035 43.478 0.00 0.00 0.00 2.15
2890 4737 4.039245 TCCTCTCCGTGGCTAAAATCATAG 59.961 45.833 0.00 0.00 0.00 2.23
2952 4805 3.879912 GCATATGTGCCTGCAATCC 57.120 52.632 2.47 0.00 45.76 3.01
3032 4889 1.470098 GATGGCGCACAATCTTCAACT 59.530 47.619 10.83 0.00 0.00 3.16
3041 4898 2.742053 ACAATCTTCAACTATTGCGCGT 59.258 40.909 8.43 0.00 36.72 6.01
3042 4899 3.093574 CAATCTTCAACTATTGCGCGTG 58.906 45.455 8.43 0.00 0.00 5.34
3049 4906 2.435234 TATTGCGCGTGTGGACCC 60.435 61.111 8.43 0.00 0.00 4.46
3068 4925 2.289444 CCCTGTTGGATCGTACACAACT 60.289 50.000 15.88 0.00 43.54 3.16
3198 5055 4.393062 CCGACAGCACAATACTTGAGAATT 59.607 41.667 0.00 0.00 0.00 2.17
3204 5061 5.183904 AGCACAATACTTGAGAATTGGTTCC 59.816 40.000 0.00 0.00 37.40 3.62
3212 5069 3.599343 TGAGAATTGGTTCCGTCAGATG 58.401 45.455 0.00 0.00 34.81 2.90
3216 5073 4.935808 AGAATTGGTTCCGTCAGATGTAAC 59.064 41.667 0.00 0.00 34.81 2.50
3325 5182 9.968743 GTAGGTTAGATATATACATTTTTGCGC 57.031 33.333 0.00 0.00 0.00 6.09
3327 5186 8.721478 AGGTTAGATATATACATTTTTGCGCAG 58.279 33.333 11.31 0.00 0.00 5.18
3350 5209 6.153680 CAGTAAGACCATCTCTAACACTTCCT 59.846 42.308 0.00 0.00 0.00 3.36
3391 5250 9.349713 TCCTTTCAAAAAGCTTTCTATCAGTAA 57.650 29.630 13.10 0.00 0.00 2.24
3402 5261 7.068226 AGCTTTCTATCAGTAACTTCTCTCTCC 59.932 40.741 0.00 0.00 0.00 3.71
3405 5264 7.446106 TCTATCAGTAACTTCTCTCTCCTCT 57.554 40.000 0.00 0.00 0.00 3.69
3406 5265 7.867921 TCTATCAGTAACTTCTCTCTCCTCTT 58.132 38.462 0.00 0.00 0.00 2.85
3412 5271 1.815613 CTTCTCTCTCCTCTTGCGACA 59.184 52.381 0.00 0.00 0.00 4.35
3416 5275 0.730834 CTCTCCTCTTGCGACACACG 60.731 60.000 0.00 0.00 45.66 4.49
3426 5285 1.576920 CGACACACGCACTCTCTCT 59.423 57.895 0.00 0.00 34.51 3.10
3427 5286 0.453615 CGACACACGCACTCTCTCTC 60.454 60.000 0.00 0.00 34.51 3.20
3436 5295 0.610687 CACTCTCTCTCCCACCAACC 59.389 60.000 0.00 0.00 0.00 3.77
3445 5304 3.931247 CCACCAACCCCACGACGA 61.931 66.667 0.00 0.00 0.00 4.20
3447 5306 4.289245 ACCAACCCCACGACGACG 62.289 66.667 5.58 5.58 45.75 5.12
3453 5312 4.477975 CCCACGACGACGCTCCTC 62.478 72.222 7.30 0.00 43.96 3.71
3458 5317 3.063084 GACGACGCTCCTCCCTGT 61.063 66.667 0.00 0.00 0.00 4.00
3460 5320 4.180946 CGACGCTCCTCCCTGTCG 62.181 72.222 0.00 0.00 46.57 4.35
3467 5327 2.037367 CCTCCCTGTCGTCCCTGA 59.963 66.667 0.00 0.00 0.00 3.86
3474 5334 2.125106 GTCGTCCCTGACCATGGC 60.125 66.667 13.04 5.35 32.61 4.40
3476 5336 3.402681 CGTCCCTGACCATGGCCT 61.403 66.667 13.04 0.00 0.00 5.19
3478 5338 1.622607 CGTCCCTGACCATGGCCTTA 61.623 60.000 13.04 0.00 0.00 2.69
3479 5339 0.846693 GTCCCTGACCATGGCCTTAT 59.153 55.000 13.04 0.00 0.00 1.73
3481 5341 0.846015 CCCTGACCATGGCCTTATGA 59.154 55.000 13.04 0.00 0.00 2.15
3485 5345 1.490490 TGACCATGGCCTTATGACCTC 59.510 52.381 13.04 0.00 0.00 3.85
3486 5346 1.771255 GACCATGGCCTTATGACCTCT 59.229 52.381 13.04 0.00 0.00 3.69
3502 5398 2.880963 CTCTGACGAGGATTCCCTTC 57.119 55.000 0.00 0.00 44.53 3.46
3525 5421 4.208047 CGATTTCTCATCTTCCACATCGTC 59.792 45.833 0.00 0.00 0.00 4.20
3528 5424 1.482182 CTCATCTTCCACATCGTCCCA 59.518 52.381 0.00 0.00 0.00 4.37
3529 5425 1.207089 TCATCTTCCACATCGTCCCAC 59.793 52.381 0.00 0.00 0.00 4.61
3530 5426 1.208052 CATCTTCCACATCGTCCCACT 59.792 52.381 0.00 0.00 0.00 4.00
3533 5429 1.825474 CTTCCACATCGTCCCACTACT 59.175 52.381 0.00 0.00 0.00 2.57
3534 5430 2.812836 TCCACATCGTCCCACTACTA 57.187 50.000 0.00 0.00 0.00 1.82
3535 5431 2.651455 TCCACATCGTCCCACTACTAG 58.349 52.381 0.00 0.00 0.00 2.57
3577 5476 2.484062 GGGGCGCGCTACTAGTACA 61.484 63.158 32.29 0.00 0.00 2.90
3597 5496 6.925165 AGTACAGCGCTACAACTAAAGTTTAA 59.075 34.615 10.99 0.00 35.83 1.52
3599 5498 5.070862 CAGCGCTACAACTAAAGTTTAACG 58.929 41.667 10.99 0.00 35.83 3.18
3604 5503 6.363357 CGCTACAACTAAAGTTTAACGGTAGT 59.637 38.462 18.64 7.57 35.83 2.73
3611 5510 2.137523 AGTTTAACGGTAGTGCGGTTG 58.862 47.619 13.23 0.00 40.23 3.77
3615 5514 0.034337 AACGGTAGTGCGGTTGACAT 59.966 50.000 3.40 0.00 38.86 3.06
3616 5515 0.669318 ACGGTAGTGCGGTTGACATG 60.669 55.000 0.00 0.00 0.00 3.21
3619 5519 0.953471 GTAGTGCGGTTGACATGGCA 60.953 55.000 0.00 0.00 0.00 4.92
3626 5526 1.337728 CGGTTGACATGGCACTACTGA 60.338 52.381 0.00 0.00 0.00 3.41
3647 5547 6.611613 TGATAAATCAGATAGCAGTAGGGG 57.388 41.667 0.00 0.00 32.11 4.79
3650 5550 2.848678 TCAGATAGCAGTAGGGGTGT 57.151 50.000 0.00 0.00 0.00 4.16
3662 5562 2.671963 GGGTGTCCCAAAGACCGC 60.672 66.667 0.00 0.00 45.68 5.68
3663 5563 3.047877 GGTGTCCCAAAGACCGCG 61.048 66.667 0.00 0.00 45.68 6.46
3664 5564 3.723348 GTGTCCCAAAGACCGCGC 61.723 66.667 0.00 0.00 45.68 6.86
3688 5591 2.678836 CGGCTATATACTAGCAGCGAGT 59.321 50.000 13.21 13.21 42.06 4.18
3709 5612 1.076192 AGGACCCGGGCTACTACTG 60.076 63.158 24.08 0.00 0.00 2.74
3716 5619 2.796500 GGGCTACTACTGCTCGTCT 58.204 57.895 0.00 0.00 0.00 4.18
3729 5632 5.931532 ACTGCTCGTCTTGTATTTCATTTG 58.068 37.500 0.00 0.00 0.00 2.32
3852 5755 8.192774 ACGAGTTATTATATCAGTCGGTGAAAA 58.807 33.333 6.24 0.00 39.19 2.29
3864 5768 2.846693 CGGTGAAAAAGCGTGGATTAC 58.153 47.619 0.00 0.00 44.71 1.89
3902 5807 4.225042 ACATGGTGCAGATCCAAAGTACTA 59.775 41.667 0.00 0.00 38.52 1.82
3903 5808 4.202245 TGGTGCAGATCCAAAGTACTAC 57.798 45.455 0.00 0.00 31.50 2.73
3907 5812 6.156256 TGGTGCAGATCCAAAGTACTACTAAT 59.844 38.462 0.00 0.00 31.50 1.73
3910 5815 8.391106 GTGCAGATCCAAAGTACTACTAATTTG 58.609 37.037 0.00 0.00 37.57 2.32
3911 5816 8.318412 TGCAGATCCAAAGTACTACTAATTTGA 58.682 33.333 0.00 0.00 39.33 2.69
3912 5817 9.331282 GCAGATCCAAAGTACTACTAATTTGAT 57.669 33.333 0.00 0.00 39.33 2.57
3957 5999 3.991773 TCTAATCCACGTTTCTTTCACCG 59.008 43.478 0.00 0.00 0.00 4.94
4090 6225 9.538508 TCATAGTCATCTAACAACTCATCATTG 57.461 33.333 0.00 0.00 0.00 2.82
4106 6245 9.920133 ACTCATCATTGTAGTACATCATATCAC 57.080 33.333 3.28 0.00 0.00 3.06
4168 6318 9.254133 CATCATAGTCATAACCAACACTAGAAG 57.746 37.037 0.00 0.00 0.00 2.85
4218 6372 0.187851 TAGCTAGGACCTGCTACCCC 59.812 60.000 16.90 0.00 40.35 4.95
4236 6391 5.970501 ACCCCCTCTAAGGTAAAATAGTG 57.029 43.478 0.00 0.00 33.52 2.74
4327 6523 3.161866 GGACCATTTTGCCTCCAAGTAA 58.838 45.455 0.00 0.00 31.52 2.24
4345 6541 2.029838 AACTCCCTGCGATCATTCAC 57.970 50.000 0.00 0.00 0.00 3.18
4421 6626 0.100503 GCACAACGGTTGCAGACTTT 59.899 50.000 20.20 0.00 0.00 2.66
4438 6644 6.109359 CAGACTTTGCTGTAGGCTAATAACT 58.891 40.000 0.00 0.00 42.39 2.24
4956 7390 1.405463 GTCAATTTCATCTTCGGGCCC 59.595 52.381 13.57 13.57 0.00 5.80
4959 7393 1.767759 ATTTCATCTTCGGGCCCAAG 58.232 50.000 24.92 22.83 0.00 3.61
5027 7462 1.876156 GTCCACTCCAAGTTGAGCAAG 59.124 52.381 3.87 0.00 35.72 4.01
5077 7729 3.195610 CCTTCAATTTGGGGAGTTAAGGC 59.804 47.826 0.00 0.00 0.00 4.35
5080 7732 4.086457 TCAATTTGGGGAGTTAAGGCTTC 58.914 43.478 1.30 0.00 0.00 3.86
5090 7742 4.120589 GAGTTAAGGCTTCGGGATAAGTG 58.879 47.826 1.30 0.00 0.00 3.16
5096 7748 2.037144 GCTTCGGGATAAGTGTAGGGA 58.963 52.381 0.00 0.00 0.00 4.20
5097 7749 2.633481 GCTTCGGGATAAGTGTAGGGAT 59.367 50.000 0.00 0.00 0.00 3.85
5102 7754 7.383156 TTCGGGATAAGTGTAGGGATTAAAT 57.617 36.000 0.00 0.00 0.00 1.40
5131 7789 7.057264 AGGGAAATGGCTAGAGATTCTTTAAC 58.943 38.462 0.00 0.00 0.00 2.01
5189 7856 5.552870 GAGAAGCTTATATTCTCCACCCA 57.447 43.478 0.00 0.00 44.52 4.51
5298 8095 6.318144 TCCGTCAAAATTTGTAGGTTTGTACA 59.682 34.615 16.65 0.00 34.55 2.90
5330 8127 4.771114 TCTGTCCCTATTGGTGGTTATG 57.229 45.455 0.00 0.00 34.77 1.90
5331 8128 3.118038 TCTGTCCCTATTGGTGGTTATGC 60.118 47.826 0.00 0.00 34.77 3.14
5340 8137 4.582701 TTGGTGGTTATGCAGAGTTTTG 57.417 40.909 0.00 0.00 0.00 2.44
5368 8481 9.607285 AAAACGTGACATAAATCTACAATCAAC 57.393 29.630 0.00 0.00 0.00 3.18
5452 8604 0.972983 CCTCGATGTCCCTGTCCAGT 60.973 60.000 0.00 0.00 0.00 4.00
5535 8687 7.587629 CAATGACATGGACATATTATCACACC 58.412 38.462 0.00 0.00 0.00 4.16
5732 8913 8.409358 TGCACTAGCTCATCAGTTAGAATATA 57.591 34.615 0.00 0.00 42.74 0.86
5733 8914 9.029368 TGCACTAGCTCATCAGTTAGAATATAT 57.971 33.333 0.00 0.00 42.74 0.86
5734 8915 9.299963 GCACTAGCTCATCAGTTAGAATATATG 57.700 37.037 0.00 0.00 37.01 1.78
5735 8916 9.299963 CACTAGCTCATCAGTTAGAATATATGC 57.700 37.037 0.00 0.00 37.01 3.14
5736 8917 9.253832 ACTAGCTCATCAGTTAGAATATATGCT 57.746 33.333 0.00 0.00 37.01 3.79
5793 8975 3.496870 GGTCCAGAGAGAGCCAAAAAGAA 60.497 47.826 0.00 0.00 0.00 2.52
5799 8981 6.405538 CAGAGAGAGCCAAAAAGAATACTCT 58.594 40.000 0.00 0.00 37.21 3.24
5859 9064 4.279671 ACCACGGCATTTATTTTGAGACAA 59.720 37.500 0.00 0.00 0.00 3.18
5905 9112 6.039717 ACATGGATCCAAGAACCAAATTATCG 59.960 38.462 23.35 0.00 37.99 2.92
6013 9281 7.940850 AGCACAATTTACAGTTTACAACTCAT 58.059 30.769 0.00 0.00 40.46 2.90
6294 10521 4.272748 GTCTCACCCACAAACTTGAGTAAC 59.727 45.833 0.00 0.00 37.38 2.50
6401 10628 0.878416 TGCAACTACAAATGGTCGCC 59.122 50.000 0.00 0.00 0.00 5.54
7314 11918 0.734942 GCTACTTCCTTACGTGCGCA 60.735 55.000 5.66 5.66 0.00 6.09
7404 12015 1.023502 CATGGTGTGTGTGTGCTTGA 58.976 50.000 0.00 0.00 0.00 3.02
7423 12034 2.811431 TGATTTGGGTGTGATGAACGAC 59.189 45.455 0.00 0.00 0.00 4.34
7424 12035 2.333688 TTTGGGTGTGATGAACGACA 57.666 45.000 0.00 0.00 0.00 4.35
7425 12036 1.877637 TTGGGTGTGATGAACGACAG 58.122 50.000 0.00 0.00 0.00 3.51
7426 12037 0.756294 TGGGTGTGATGAACGACAGT 59.244 50.000 0.00 0.00 0.00 3.55
7437 12048 0.663153 AACGACAGTTTTGGCAGAGC 59.337 50.000 0.00 0.00 37.26 4.09
7475 12086 1.754621 TGCGGTTTGCCTGGTTTGA 60.755 52.632 0.00 0.00 45.60 2.69
7542 12153 2.854963 TGCATGCTACCATCTCCATTC 58.145 47.619 20.33 0.00 0.00 2.67
7555 12166 2.959030 TCTCCATTCTCTGTATGGTCGG 59.041 50.000 0.00 0.00 42.58 4.79
7561 12172 2.803956 TCTCTGTATGGTCGGTTCTGT 58.196 47.619 0.00 0.00 0.00 3.41
7577 12188 5.390567 CGGTTCTGTAACAAGCTGGATAAAC 60.391 44.000 0.00 0.00 37.34 2.01
7583 12194 1.271379 ACAAGCTGGATAAACCGTGCT 60.271 47.619 0.00 0.00 46.91 4.40
7587 12198 2.890945 AGCTGGATAAACCGTGCTTTTT 59.109 40.909 0.00 0.00 44.26 1.94
7588 12199 2.986479 GCTGGATAAACCGTGCTTTTTG 59.014 45.455 0.00 0.00 42.61 2.44
7589 12200 3.552068 GCTGGATAAACCGTGCTTTTTGT 60.552 43.478 0.00 0.00 42.61 2.83
7590 12201 4.616953 CTGGATAAACCGTGCTTTTTGTT 58.383 39.130 0.00 0.00 42.61 2.83
7591 12202 4.363999 TGGATAAACCGTGCTTTTTGTTG 58.636 39.130 0.00 0.00 42.61 3.33
7592 12203 3.738791 GGATAAACCGTGCTTTTTGTTGG 59.261 43.478 0.00 0.00 0.00 3.77
7593 12204 2.017138 AAACCGTGCTTTTTGTTGGG 57.983 45.000 0.00 0.00 0.00 4.12
7594 12205 1.187087 AACCGTGCTTTTTGTTGGGA 58.813 45.000 0.00 0.00 0.00 4.37
7595 12206 1.408969 ACCGTGCTTTTTGTTGGGAT 58.591 45.000 0.00 0.00 0.00 3.85
7596 12207 2.588620 ACCGTGCTTTTTGTTGGGATA 58.411 42.857 0.00 0.00 0.00 2.59
7597 12208 3.161866 ACCGTGCTTTTTGTTGGGATAT 58.838 40.909 0.00 0.00 0.00 1.63
7598 12209 3.192633 ACCGTGCTTTTTGTTGGGATATC 59.807 43.478 0.00 0.00 0.00 1.63
7599 12210 3.428862 CCGTGCTTTTTGTTGGGATATCC 60.429 47.826 13.87 13.87 0.00 2.59
7600 12211 3.443681 CGTGCTTTTTGTTGGGATATCCT 59.556 43.478 21.18 0.00 36.20 3.24
7601 12212 4.438744 CGTGCTTTTTGTTGGGATATCCTC 60.439 45.833 21.18 11.84 36.20 3.71
7602 12213 4.023291 TGCTTTTTGTTGGGATATCCTCC 58.977 43.478 21.18 6.39 44.11 4.30
7603 12214 4.264352 TGCTTTTTGTTGGGATATCCTCCT 60.264 41.667 21.18 0.00 44.28 3.69
7604 12215 4.339530 GCTTTTTGTTGGGATATCCTCCTC 59.660 45.833 21.18 5.29 44.28 3.71
7605 12216 5.509498 CTTTTTGTTGGGATATCCTCCTCA 58.491 41.667 21.18 7.96 44.28 3.86
7606 12217 5.732331 TTTTGTTGGGATATCCTCCTCAT 57.268 39.130 21.18 0.00 44.28 2.90
7607 12218 4.712051 TTGTTGGGATATCCTCCTCATG 57.288 45.455 21.18 0.00 44.28 3.07
7608 12219 3.668821 TGTTGGGATATCCTCCTCATGT 58.331 45.455 21.18 0.00 44.28 3.21
7609 12220 3.392285 TGTTGGGATATCCTCCTCATGTG 59.608 47.826 21.18 0.00 44.28 3.21
7610 12221 2.624495 TGGGATATCCTCCTCATGTGG 58.376 52.381 21.18 7.52 44.28 4.17
7611 12222 1.912043 GGGATATCCTCCTCATGTGGG 59.088 57.143 21.18 7.47 44.28 4.61
7612 12223 2.495383 GGGATATCCTCCTCATGTGGGA 60.495 54.545 21.18 11.16 44.28 4.37
7613 12224 3.458831 GGATATCCTCCTCATGTGGGAT 58.541 50.000 14.97 11.31 41.29 3.85
7614 12225 3.199508 GGATATCCTCCTCATGTGGGATG 59.800 52.174 14.97 9.48 41.29 3.51
7615 12226 2.203120 ATCCTCCTCATGTGGGATGT 57.797 50.000 13.71 0.00 37.22 3.06
7616 12227 2.866923 TCCTCCTCATGTGGGATGTA 57.133 50.000 13.71 0.00 31.89 2.29
7617 12228 3.129262 TCCTCCTCATGTGGGATGTAA 57.871 47.619 13.71 0.00 31.89 2.41
7618 12229 3.041211 TCCTCCTCATGTGGGATGTAAG 58.959 50.000 13.71 2.87 31.89 2.34
7619 12230 2.105477 CCTCCTCATGTGGGATGTAAGG 59.895 54.545 13.71 8.07 31.89 2.69
7620 12231 3.041211 CTCCTCATGTGGGATGTAAGGA 58.959 50.000 13.71 4.10 31.89 3.36
7621 12232 3.041211 TCCTCATGTGGGATGTAAGGAG 58.959 50.000 13.71 0.00 0.00 3.69
7622 12233 3.041211 CCTCATGTGGGATGTAAGGAGA 58.959 50.000 5.87 0.00 0.00 3.71
7623 12234 3.649981 CCTCATGTGGGATGTAAGGAGAT 59.350 47.826 5.87 0.00 0.00 2.75
7624 12235 4.504514 CCTCATGTGGGATGTAAGGAGATG 60.505 50.000 5.87 0.00 0.00 2.90
7625 12236 4.297768 TCATGTGGGATGTAAGGAGATGA 58.702 43.478 0.00 0.00 0.00 2.92
7626 12237 4.101585 TCATGTGGGATGTAAGGAGATGAC 59.898 45.833 0.00 0.00 0.00 3.06
7627 12238 2.771943 TGTGGGATGTAAGGAGATGACC 59.228 50.000 0.00 0.00 0.00 4.02
7628 12239 2.771943 GTGGGATGTAAGGAGATGACCA 59.228 50.000 0.00 0.00 0.00 4.02
7629 12240 3.392616 GTGGGATGTAAGGAGATGACCAT 59.607 47.826 0.00 0.00 0.00 3.55
7630 12241 4.047166 TGGGATGTAAGGAGATGACCATT 58.953 43.478 0.00 0.00 0.00 3.16
7631 12242 4.478317 TGGGATGTAAGGAGATGACCATTT 59.522 41.667 0.00 0.00 0.00 2.32
7632 12243 4.823989 GGGATGTAAGGAGATGACCATTTG 59.176 45.833 0.00 0.00 0.00 2.32
7633 12244 5.397899 GGGATGTAAGGAGATGACCATTTGA 60.398 44.000 0.00 0.00 0.00 2.69
7634 12245 5.762218 GGATGTAAGGAGATGACCATTTGAG 59.238 44.000 0.00 0.00 0.00 3.02
7635 12246 6.408548 GGATGTAAGGAGATGACCATTTGAGA 60.409 42.308 0.00 0.00 0.00 3.27
7636 12247 5.734720 TGTAAGGAGATGACCATTTGAGAC 58.265 41.667 0.00 0.00 0.00 3.36
7637 12248 3.922171 AGGAGATGACCATTTGAGACC 57.078 47.619 0.00 0.00 0.00 3.85
7638 12249 2.169352 AGGAGATGACCATTTGAGACCG 59.831 50.000 0.00 0.00 0.00 4.79
7695 12306 5.690464 ATATTGTGCAGGCCCAATAAAAA 57.310 34.783 12.05 0.00 37.16 1.94
7709 12320 4.228899 AAAAACCGCCACGTGTCT 57.771 50.000 15.65 0.00 0.00 3.41
7723 12334 0.107831 GTGTCTGTGTGGGCCAACTA 59.892 55.000 8.40 0.00 0.00 2.24
7727 12338 0.396435 CTGTGTGGGCCAACTACTCA 59.604 55.000 8.40 1.75 33.80 3.41
7728 12339 0.840617 TGTGTGGGCCAACTACTCAA 59.159 50.000 8.40 0.00 32.26 3.02
7729 12340 1.213182 TGTGTGGGCCAACTACTCAAA 59.787 47.619 8.40 0.00 32.26 2.69
7734 12345 5.010213 GTGTGGGCCAACTACTCAAATTAAA 59.990 40.000 8.40 0.00 0.00 1.52
7735 12346 5.598830 TGTGGGCCAACTACTCAAATTAAAA 59.401 36.000 8.40 0.00 0.00 1.52
7736 12347 6.098409 TGTGGGCCAACTACTCAAATTAAAAA 59.902 34.615 8.40 0.00 0.00 1.94
7738 12349 8.308207 GTGGGCCAACTACTCAAATTAAAAATA 58.692 33.333 8.40 0.00 0.00 1.40
7739 12350 8.527810 TGGGCCAACTACTCAAATTAAAAATAG 58.472 33.333 2.13 0.00 0.00 1.73
7740 12351 8.745590 GGGCCAACTACTCAAATTAAAAATAGA 58.254 33.333 4.39 0.00 0.00 1.98
7741 12352 9.569167 GGCCAACTACTCAAATTAAAAATAGAC 57.431 33.333 0.00 0.00 0.00 2.59
7763 13927 7.777095 AGACTTAATTTGATACGAGAAGAGCT 58.223 34.615 0.00 0.00 0.00 4.09
7764 13928 7.918562 AGACTTAATTTGATACGAGAAGAGCTC 59.081 37.037 5.27 5.27 40.38 4.09
7931 14099 4.175337 TGGCGCTACCAGATGGCC 62.175 66.667 7.64 0.00 46.36 5.36
7998 14470 1.309499 CGCTGGTCTCTCCTTCGACT 61.309 60.000 0.00 0.00 37.07 4.18
8047 14526 1.671742 GATGACGGTCCACACTGGT 59.328 57.895 5.55 0.00 39.03 4.00
8068 16648 1.480137 CTCTCCTTCGCAGAGGATGTT 59.520 52.381 5.58 0.00 38.43 2.71
8098 18764 1.823470 TTGCTATGCGGGATGTGGC 60.823 57.895 0.00 0.00 0.00 5.01
8144 18810 3.372060 CGAGTTTGATGCAGCGACTATA 58.628 45.455 10.29 0.00 0.00 1.31
8184 18850 1.137872 GCATCGGTTGGAGTCATCTCT 59.862 52.381 0.00 0.00 40.29 3.10
8188 18854 1.751351 CGGTTGGAGTCATCTCTAGCA 59.249 52.381 0.00 0.00 40.29 3.49
8189 18855 2.363680 CGGTTGGAGTCATCTCTAGCAT 59.636 50.000 0.00 0.00 40.29 3.79
8277 21048 1.354101 TTCAACTAGCCCCCTCGAAA 58.646 50.000 0.00 0.00 0.00 3.46
8286 21057 1.463674 CCCCCTCGAAAAACCATCTG 58.536 55.000 0.00 0.00 0.00 2.90
8327 23171 6.860539 TCACATTTTATTCGATTGGTTGTGTG 59.139 34.615 11.91 10.09 34.90 3.82
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
39 40 7.686438 ACATCAACAGCTTCATATAAACACA 57.314 32.000 0.00 0.00 0.00 3.72
58 59 7.452562 TGAGCAGGCTTATGATATTAACATCA 58.547 34.615 0.00 0.00 39.20 3.07
75 76 6.257630 TCAAACTTGTTTAAATTTGAGCAGGC 59.742 34.615 8.42 0.00 36.42 4.85
119 120 5.869888 ACTCTCATGTCGATTTTACAAGACC 59.130 40.000 0.00 0.00 33.04 3.85
233 237 1.004080 CAGCTGTCAGTGACCCTGG 60.004 63.158 23.37 12.85 41.83 4.45
363 367 4.526650 TGATTGCAACTAGACTGGTAGACA 59.473 41.667 0.00 0.00 0.00 3.41
380 384 3.131933 TCTCTAGGAGAGCTGTTGATTGC 59.868 47.826 0.00 0.00 42.04 3.56
387 398 5.700183 TCACATTATCTCTAGGAGAGCTGT 58.300 41.667 0.00 0.00 42.26 4.40
430 455 0.174845 CAATCCGGCTCCGAAGTGTA 59.825 55.000 10.28 0.00 42.83 2.90
432 457 0.174845 TACAATCCGGCTCCGAAGTG 59.825 55.000 10.28 0.96 42.83 3.16
433 458 1.120530 ATACAATCCGGCTCCGAAGT 58.879 50.000 10.28 5.22 42.83 3.01
435 460 3.827876 TGTATATACAATCCGGCTCCGAA 59.172 43.478 13.24 0.00 35.86 4.30
436 461 3.192001 GTGTATATACAATCCGGCTCCGA 59.808 47.826 17.07 0.00 38.73 4.55
437 462 3.508762 GTGTATATACAATCCGGCTCCG 58.491 50.000 17.07 0.48 38.04 4.63
439 464 4.803098 AGGTGTATATACAATCCGGCTC 57.197 45.455 17.07 2.59 38.04 4.70
440 465 6.869206 ATAAGGTGTATATACAATCCGGCT 57.131 37.500 17.07 8.12 38.04 5.52
441 466 8.418662 TCATATAAGGTGTATATACAATCCGGC 58.581 37.037 17.07 3.98 38.04 6.13
619 647 7.620880 AGCTAAAATAGTGTGAATAGTGACCA 58.379 34.615 0.00 0.00 0.00 4.02
661 689 4.710313 TCCCCCTTCGACTTCTTTTAAA 57.290 40.909 0.00 0.00 0.00 1.52
681 709 9.980780 TTTGAAAAATTCCACGAAAAGAAAATC 57.019 25.926 0.00 0.00 0.00 2.17
808 837 1.569493 CGCAGACGTTTGGTTCCTG 59.431 57.895 8.31 0.97 33.53 3.86
845 874 1.336755 GAGAGTGAGGCACTAGCTAGC 59.663 57.143 20.91 6.62 45.44 3.42
847 876 2.025793 AGTGAGAGTGAGGCACTAGCTA 60.026 50.000 0.00 0.00 45.44 3.32
890 919 1.597663 GCAAGCGTAACAAGTGAGTGT 59.402 47.619 0.00 0.00 0.00 3.55
981 1022 2.546494 GCCGTTTCTGCTGCTGTGT 61.546 57.895 0.00 0.00 0.00 3.72
982 1023 1.859427 ATGCCGTTTCTGCTGCTGTG 61.859 55.000 0.00 0.00 0.00 3.66
984 1025 1.154093 CATGCCGTTTCTGCTGCTG 60.154 57.895 0.00 0.00 0.00 4.41
989 1030 3.056313 GCCTCCATGCCGTTTCTGC 62.056 63.158 0.00 0.00 0.00 4.26
1092 1143 1.636003 AGGAAAGGGAAGGTGATCCAC 59.364 52.381 0.00 0.00 41.55 4.02
1133 1188 2.175202 ACTCGTCATCCTCAAAGAGCT 58.825 47.619 0.00 0.00 0.00 4.09
1134 1189 2.663826 ACTCGTCATCCTCAAAGAGC 57.336 50.000 0.00 0.00 0.00 4.09
1135 1190 3.194542 AGGAACTCGTCATCCTCAAAGAG 59.805 47.826 0.76 0.00 42.44 2.85
1168 1223 1.251251 AACATGCCTGCCTTTGTCTC 58.749 50.000 0.00 0.00 0.00 3.36
1169 1224 1.708341 AAACATGCCTGCCTTTGTCT 58.292 45.000 0.00 0.00 0.00 3.41
1170 1225 2.295909 TGTAAACATGCCTGCCTTTGTC 59.704 45.455 0.00 0.00 0.00 3.18
1171 1226 2.315176 TGTAAACATGCCTGCCTTTGT 58.685 42.857 0.00 0.00 0.00 2.83
1172 1227 3.243839 ACTTGTAAACATGCCTGCCTTTG 60.244 43.478 0.00 0.00 0.00 2.77
1173 1228 2.965147 ACTTGTAAACATGCCTGCCTTT 59.035 40.909 0.00 0.00 0.00 3.11
1174 1229 2.597455 ACTTGTAAACATGCCTGCCTT 58.403 42.857 0.00 0.00 0.00 4.35
1176 1231 3.059166 CAAACTTGTAAACATGCCTGCC 58.941 45.455 0.00 0.00 0.00 4.85
1178 1233 4.503734 CACACAAACTTGTAAACATGCCTG 59.496 41.667 0.00 0.00 39.91 4.85
1179 1234 4.159506 ACACACAAACTTGTAAACATGCCT 59.840 37.500 0.00 0.00 39.91 4.75
1180 1235 4.267452 CACACACAAACTTGTAAACATGCC 59.733 41.667 0.00 0.00 39.91 4.40
1195 1250 2.491298 ACTGCAAACATCACACACACAA 59.509 40.909 0.00 0.00 0.00 3.33
1196 1251 2.090760 ACTGCAAACATCACACACACA 58.909 42.857 0.00 0.00 0.00 3.72
1199 1254 1.865248 GCCACTGCAAACATCACACAC 60.865 52.381 0.00 0.00 37.47 3.82
1442 1518 2.222027 GGAAGGAAGTTGGTGTGAGTG 58.778 52.381 0.00 0.00 0.00 3.51
1444 1520 2.638480 TGGAAGGAAGTTGGTGTGAG 57.362 50.000 0.00 0.00 0.00 3.51
1445 1521 3.374042 TTTGGAAGGAAGTTGGTGTGA 57.626 42.857 0.00 0.00 0.00 3.58
1446 1522 4.670896 AATTTGGAAGGAAGTTGGTGTG 57.329 40.909 0.00 0.00 0.00 3.82
1447 1523 6.578944 GTTTAATTTGGAAGGAAGTTGGTGT 58.421 36.000 0.00 0.00 0.00 4.16
1475 1551 3.032609 GGCGCAGACCGATCATCG 61.033 66.667 10.83 0.00 40.02 3.84
1535 1644 2.096406 CTGCACGCACGCATGTAC 59.904 61.111 0.00 0.00 42.06 2.90
2017 2143 1.423794 AAAACTTCAGCTCCCCCGGA 61.424 55.000 0.73 0.00 0.00 5.14
2236 3466 7.539034 AAAACTATTTGCACCATAGGTTTCT 57.461 32.000 17.19 3.08 39.07 2.52
2261 3491 4.523083 CCTACTCCAATCATTTTCCCGAA 58.477 43.478 0.00 0.00 0.00 4.30
2262 3492 3.118038 CCCTACTCCAATCATTTTCCCGA 60.118 47.826 0.00 0.00 0.00 5.14
2263 3493 3.118038 TCCCTACTCCAATCATTTTCCCG 60.118 47.826 0.00 0.00 0.00 5.14
2264 3494 4.519906 TCCCTACTCCAATCATTTTCCC 57.480 45.455 0.00 0.00 0.00 3.97
2292 3522 3.181438 ACACTGGTGAGACAGAGAGTAGT 60.181 47.826 7.78 0.00 40.97 2.73
2300 3530 3.689161 TGTTTTTGACACTGGTGAGACAG 59.311 43.478 7.78 0.00 44.03 3.51
2302 3532 4.576463 AGATGTTTTTGACACTGGTGAGAC 59.424 41.667 7.78 0.21 42.04 3.36
2303 3533 4.780815 AGATGTTTTTGACACTGGTGAGA 58.219 39.130 7.78 0.00 42.04 3.27
2304 3534 5.276270 CAAGATGTTTTTGACACTGGTGAG 58.724 41.667 7.78 0.00 42.04 3.51
2305 3535 4.439974 GCAAGATGTTTTTGACACTGGTGA 60.440 41.667 7.78 0.00 42.04 4.02
2306 3536 3.798337 GCAAGATGTTTTTGACACTGGTG 59.202 43.478 0.00 0.00 42.04 4.17
2307 3537 3.446873 TGCAAGATGTTTTTGACACTGGT 59.553 39.130 0.00 0.00 42.04 4.00
2308 3538 4.044336 TGCAAGATGTTTTTGACACTGG 57.956 40.909 0.00 0.00 42.04 4.00
2309 3539 7.148705 CCATAATGCAAGATGTTTTTGACACTG 60.149 37.037 9.60 0.00 42.04 3.66
2313 3543 6.311200 GTCCCATAATGCAAGATGTTTTTGAC 59.689 38.462 9.60 5.47 0.00 3.18
2314 3544 6.397272 GTCCCATAATGCAAGATGTTTTTGA 58.603 36.000 9.60 0.00 0.00 2.69
2315 3545 5.289193 CGTCCCATAATGCAAGATGTTTTTG 59.711 40.000 9.60 0.00 0.00 2.44
2316 3546 5.184864 TCGTCCCATAATGCAAGATGTTTTT 59.815 36.000 9.60 0.00 0.00 1.94
2317 3547 4.704540 TCGTCCCATAATGCAAGATGTTTT 59.295 37.500 9.60 0.00 0.00 2.43
2319 3549 3.884895 TCGTCCCATAATGCAAGATGTT 58.115 40.909 9.60 0.00 0.00 2.71
2321 3551 3.879295 AGTTCGTCCCATAATGCAAGATG 59.121 43.478 0.00 0.00 0.00 2.90
2323 3553 3.627395 AGTTCGTCCCATAATGCAAGA 57.373 42.857 0.00 0.00 0.00 3.02
2324 3554 4.442706 ACTAGTTCGTCCCATAATGCAAG 58.557 43.478 0.00 0.00 0.00 4.01
2325 3555 4.481368 ACTAGTTCGTCCCATAATGCAA 57.519 40.909 0.00 0.00 0.00 4.08
2327 3557 7.871463 ACTTATTACTAGTTCGTCCCATAATGC 59.129 37.037 0.00 0.00 0.00 3.56
2331 3561 7.667219 CCCTACTTATTACTAGTTCGTCCCATA 59.333 40.741 0.00 0.00 0.00 2.74
2332 3562 6.492772 CCCTACTTATTACTAGTTCGTCCCAT 59.507 42.308 0.00 0.00 0.00 4.00
2333 3563 5.829924 CCCTACTTATTACTAGTTCGTCCCA 59.170 44.000 0.00 0.00 0.00 4.37
2334 3564 6.064717 TCCCTACTTATTACTAGTTCGTCCC 58.935 44.000 0.00 0.00 0.00 4.46
2335 3565 7.573968 TTCCCTACTTATTACTAGTTCGTCC 57.426 40.000 0.00 0.00 0.00 4.79
2336 3566 9.460906 CATTTCCCTACTTATTACTAGTTCGTC 57.539 37.037 0.00 0.00 0.00 4.20
2337 3567 8.975295 ACATTTCCCTACTTATTACTAGTTCGT 58.025 33.333 0.00 0.00 0.00 3.85
2338 3568 9.245962 CACATTTCCCTACTTATTACTAGTTCG 57.754 37.037 0.00 0.00 0.00 3.95
2352 3582 8.956426 TCATATTGTTCTTTCACATTTCCCTAC 58.044 33.333 0.00 0.00 0.00 3.18
2374 4163 9.145865 GCGAGGAAAAACCAAAATAAATTCATA 57.854 29.630 0.00 0.00 42.04 2.15
2417 4206 5.641636 TGAGCGTCTATTTCTATGTTTTGCA 59.358 36.000 0.00 0.00 0.00 4.08
2418 4207 5.960105 GTGAGCGTCTATTTCTATGTTTTGC 59.040 40.000 0.00 0.00 0.00 3.68
2433 4224 1.284982 GCATGTGTTCGTGAGCGTCT 61.285 55.000 0.00 0.00 39.49 4.18
2449 4240 3.558033 TGAGGTGAATGTATGCATGCAT 58.442 40.909 33.92 33.92 42.26 3.96
2488 4279 8.625786 TTACAGGTGCTCATACGAGTATTATA 57.374 34.615 0.00 0.00 41.71 0.98
2498 4289 5.053145 CCAATCTCTTACAGGTGCTCATAC 58.947 45.833 0.00 0.00 0.00 2.39
2499 4290 4.716784 ACCAATCTCTTACAGGTGCTCATA 59.283 41.667 0.00 0.00 0.00 2.15
2500 4291 3.521126 ACCAATCTCTTACAGGTGCTCAT 59.479 43.478 0.00 0.00 0.00 2.90
2501 4292 2.906389 ACCAATCTCTTACAGGTGCTCA 59.094 45.455 0.00 0.00 0.00 4.26
2502 4293 3.618690 ACCAATCTCTTACAGGTGCTC 57.381 47.619 0.00 0.00 0.00 4.26
2503 4294 3.327757 TGAACCAATCTCTTACAGGTGCT 59.672 43.478 0.00 0.00 31.86 4.40
2507 4298 6.633500 TTTGTTGAACCAATCTCTTACAGG 57.367 37.500 0.00 0.00 0.00 4.00
2508 4299 8.103948 AGATTTGTTGAACCAATCTCTTACAG 57.896 34.615 16.24 0.00 0.00 2.74
2509 4300 8.463930 AAGATTTGTTGAACCAATCTCTTACA 57.536 30.769 20.55 0.00 30.85 2.41
2512 4303 9.918630 CATTAAGATTTGTTGAACCAATCTCTT 57.081 29.630 20.55 12.11 34.15 2.85
2513 4304 9.082313 ACATTAAGATTTGTTGAACCAATCTCT 57.918 29.630 20.55 14.42 0.00 3.10
2514 4305 9.696917 AACATTAAGATTTGTTGAACCAATCTC 57.303 29.630 20.55 0.86 34.87 2.75
2572 4363 0.109153 AGCAGTGATGCACTTGTGGA 59.891 50.000 2.73 0.00 42.59 4.02
2590 4381 2.684881 GTGATTAGTGATGGGCCAACAG 59.315 50.000 17.64 0.00 0.00 3.16
2593 4384 2.575735 TCAGTGATTAGTGATGGGCCAA 59.424 45.455 11.89 0.00 31.39 4.52
2656 4447 8.988546 AGTTCTAGAATCTAGACTTAGCATGA 57.011 34.615 18.73 0.00 0.00 3.07
2659 4452 8.809468 TCAAGTTCTAGAATCTAGACTTAGCA 57.191 34.615 18.73 1.49 0.00 3.49
2702 4495 3.153919 GTTGGTCAGCCTTTTATGGTGA 58.846 45.455 0.00 0.00 35.27 4.02
2747 4590 0.601841 GGATGGGCCGGTACAATACG 60.602 60.000 1.90 0.00 0.00 3.06
2771 4614 5.351233 TTGCACATACTTTTGTTACTCGG 57.649 39.130 0.00 0.00 0.00 4.63
2810 4653 0.963225 TGTCAAGCTACGTAGGTGCA 59.037 50.000 26.63 21.12 33.75 4.57
2811 4654 2.295253 ATGTCAAGCTACGTAGGTGC 57.705 50.000 26.63 19.10 33.75 5.01
2812 4655 4.365899 TGTATGTCAAGCTACGTAGGTG 57.634 45.455 26.63 19.44 33.75 4.00
2813 4656 4.995124 CTTGTATGTCAAGCTACGTAGGT 58.005 43.478 21.15 21.15 45.37 3.08
2868 4715 2.691409 TGATTTTAGCCACGGAGAGG 57.309 50.000 0.00 0.00 42.66 3.69
2889 4736 0.756903 AAGCACGGTTGGTACACTCT 59.243 50.000 0.00 0.00 39.29 3.24
2890 4737 2.334838 CTAAGCACGGTTGGTACACTC 58.665 52.381 0.00 0.00 39.29 3.51
3032 4889 2.435234 GGGTCCACACGCGCAATA 60.435 61.111 5.73 0.00 0.00 1.90
3041 4898 1.125093 ACGATCCAACAGGGTCCACA 61.125 55.000 0.00 0.00 38.11 4.17
3042 4899 0.899720 TACGATCCAACAGGGTCCAC 59.100 55.000 0.00 0.00 38.11 4.02
3049 4906 2.993899 GGAGTTGTGTACGATCCAACAG 59.006 50.000 12.42 0.00 40.64 3.16
3068 4925 0.181587 TTTGGAGCAAAGGTGTCGGA 59.818 50.000 0.00 0.00 0.00 4.55
3153 5010 0.621082 GGAGGAGACAAGGAAAGGGG 59.379 60.000 0.00 0.00 0.00 4.79
3198 5055 3.194116 GGTAGTTACATCTGACGGAACCA 59.806 47.826 0.00 0.00 0.00 3.67
3204 5061 2.479049 CCACGGGTAGTTACATCTGACG 60.479 54.545 0.00 0.00 0.00 4.35
3212 5069 0.251073 ATGGCACCACGGGTAGTTAC 59.749 55.000 0.00 0.00 32.11 2.50
3216 5073 1.048601 AGATATGGCACCACGGGTAG 58.951 55.000 0.00 0.00 32.11 3.18
3309 5166 7.496263 TGGTCTTACTGCGCAAAAATGTATATA 59.504 33.333 13.05 0.00 0.00 0.86
3310 5167 6.317642 TGGTCTTACTGCGCAAAAATGTATAT 59.682 34.615 13.05 0.00 0.00 0.86
3314 5171 2.621055 TGGTCTTACTGCGCAAAAATGT 59.379 40.909 13.05 8.15 0.00 2.71
3323 5180 4.106197 GTGTTAGAGATGGTCTTACTGCG 58.894 47.826 0.00 0.00 36.06 5.18
3325 5182 6.153680 AGGAAGTGTTAGAGATGGTCTTACTG 59.846 42.308 0.00 0.00 36.06 2.74
3327 5186 6.378848 AGAGGAAGTGTTAGAGATGGTCTTAC 59.621 42.308 0.00 0.00 36.64 2.34
3371 5230 9.818796 GAGAAGTTACTGATAGAAAGCTTTTTG 57.181 33.333 14.05 0.00 0.00 2.44
3374 5233 8.811994 AGAGAGAAGTTACTGATAGAAAGCTTT 58.188 33.333 12.53 12.53 0.00 3.51
3375 5234 8.361169 AGAGAGAAGTTACTGATAGAAAGCTT 57.639 34.615 0.00 0.00 0.00 3.74
3376 5235 7.068226 GGAGAGAGAAGTTACTGATAGAAAGCT 59.932 40.741 0.00 0.00 0.00 3.74
3377 5236 7.068226 AGGAGAGAGAAGTTACTGATAGAAAGC 59.932 40.741 0.00 0.00 0.00 3.51
3378 5237 8.519799 AGGAGAGAGAAGTTACTGATAGAAAG 57.480 38.462 0.00 0.00 0.00 2.62
3388 5247 3.440872 TCGCAAGAGGAGAGAGAAGTTAC 59.559 47.826 0.00 0.00 45.01 2.50
3391 5250 2.208132 TCGCAAGAGGAGAGAGAAGT 57.792 50.000 0.00 0.00 45.01 3.01
3412 5271 1.228583 TGGGAGAGAGAGTGCGTGT 60.229 57.895 0.00 0.00 0.00 4.49
3416 5275 0.036858 GTTGGTGGGAGAGAGAGTGC 60.037 60.000 0.00 0.00 0.00 4.40
3417 5276 0.610687 GGTTGGTGGGAGAGAGAGTG 59.389 60.000 0.00 0.00 0.00 3.51
3418 5277 0.545548 GGGTTGGTGGGAGAGAGAGT 60.546 60.000 0.00 0.00 0.00 3.24
3426 5285 3.562232 GTCGTGGGGTTGGTGGGA 61.562 66.667 0.00 0.00 0.00 4.37
3436 5295 4.477975 GAGGAGCGTCGTCGTGGG 62.478 72.222 3.66 0.00 39.49 4.61
3445 5304 3.063084 GACGACAGGGAGGAGCGT 61.063 66.667 0.00 0.00 37.97 5.07
3447 5306 3.462678 GGGACGACAGGGAGGAGC 61.463 72.222 0.00 0.00 0.00 4.70
3453 5312 1.990060 ATGGTCAGGGACGACAGGG 60.990 63.158 0.00 0.00 37.66 4.45
3458 5317 3.399181 GGCCATGGTCAGGGACGA 61.399 66.667 12.68 0.00 33.27 4.20
3460 5320 0.846693 ATAAGGCCATGGTCAGGGAC 59.153 55.000 20.74 2.14 41.55 4.46
3467 5327 1.492176 CAGAGGTCATAAGGCCATGGT 59.508 52.381 14.67 0.00 0.00 3.55
3485 5345 1.103803 TCGAAGGGAATCCTCGTCAG 58.896 55.000 10.15 1.87 44.07 3.51
3486 5346 1.776662 ATCGAAGGGAATCCTCGTCA 58.223 50.000 10.15 0.00 44.07 4.35
3497 5393 3.873952 GTGGAAGATGAGAAATCGAAGGG 59.126 47.826 0.00 0.00 0.00 3.95
3498 5394 4.507710 TGTGGAAGATGAGAAATCGAAGG 58.492 43.478 0.00 0.00 0.00 3.46
3502 5398 4.115516 ACGATGTGGAAGATGAGAAATCG 58.884 43.478 0.00 0.00 40.96 3.34
3537 5433 1.007580 GCGCTACTGCTAGGGTTTTC 58.992 55.000 0.00 0.00 35.73 2.29
3538 5434 0.739813 CGCGCTACTGCTAGGGTTTT 60.740 55.000 5.56 0.00 35.73 2.43
3539 5435 1.153628 CGCGCTACTGCTAGGGTTT 60.154 57.895 5.56 0.00 35.73 3.27
3540 5436 2.494918 CGCGCTACTGCTAGGGTT 59.505 61.111 5.56 0.00 35.73 4.11
3541 5437 3.528370 CCGCGCTACTGCTAGGGT 61.528 66.667 5.56 0.00 35.73 4.34
3542 5438 4.286320 CCCGCGCTACTGCTAGGG 62.286 72.222 5.56 1.30 43.33 3.53
3577 5476 4.151157 CCGTTAAACTTTAGTTGTAGCGCT 59.849 41.667 17.26 17.26 38.44 5.92
3597 5496 0.669318 CATGTCAACCGCACTACCGT 60.669 55.000 0.00 0.00 0.00 4.83
3599 5498 1.644786 GCCATGTCAACCGCACTACC 61.645 60.000 0.00 0.00 0.00 3.18
3604 5503 0.953471 GTAGTGCCATGTCAACCGCA 60.953 55.000 0.00 0.00 0.00 5.69
3626 5526 5.846714 ACACCCCTACTGCTATCTGATTTAT 59.153 40.000 0.00 0.00 0.00 1.40
3645 5545 2.671963 GCGGTCTTTGGGACACCC 60.672 66.667 0.00 0.00 46.16 4.61
3647 5547 3.723348 GCGCGGTCTTTGGGACAC 61.723 66.667 8.83 0.00 46.16 3.67
3663 5563 2.735762 GCTGCTAGTATATAGCCGTGGC 60.736 54.545 1.67 1.67 39.69 5.01
3664 5564 2.478031 CGCTGCTAGTATATAGCCGTGG 60.478 54.545 4.55 0.00 39.69 4.94
3665 5565 2.418976 TCGCTGCTAGTATATAGCCGTG 59.581 50.000 4.55 5.21 39.69 4.94
3666 5566 2.678836 CTCGCTGCTAGTATATAGCCGT 59.321 50.000 4.55 0.00 39.69 5.68
3667 5567 2.678836 ACTCGCTGCTAGTATATAGCCG 59.321 50.000 4.87 2.53 39.69 5.52
3668 5568 3.065648 GGACTCGCTGCTAGTATATAGCC 59.934 52.174 6.82 0.00 39.69 3.93
3673 5573 2.105993 TCCTGGACTCGCTGCTAGTATA 59.894 50.000 6.82 0.00 0.00 1.47
3674 5574 1.133761 TCCTGGACTCGCTGCTAGTAT 60.134 52.381 6.82 0.00 0.00 2.12
3688 5591 2.318966 TAGTAGCCCGGGTCCTGGA 61.319 63.158 24.63 0.00 0.00 3.86
3699 5602 1.473278 ACAAGACGAGCAGTAGTAGCC 59.527 52.381 0.00 0.00 0.00 3.93
3709 5612 6.170675 AGACAAATGAAATACAAGACGAGC 57.829 37.500 0.00 0.00 0.00 5.03
3754 5657 9.974980 AACTTGTTGAACGGTTGATAAATAATT 57.025 25.926 0.00 0.00 0.00 1.40
3755 5658 9.974980 AAACTTGTTGAACGGTTGATAAATAAT 57.025 25.926 0.00 0.00 0.00 1.28
3756 5659 9.804758 AAAACTTGTTGAACGGTTGATAAATAA 57.195 25.926 0.00 0.00 0.00 1.40
3757 5660 9.239002 CAAAACTTGTTGAACGGTTGATAAATA 57.761 29.630 0.00 0.00 0.00 1.40
3758 5661 7.976734 TCAAAACTTGTTGAACGGTTGATAAAT 59.023 29.630 0.00 0.00 34.59 1.40
3759 5662 7.313646 TCAAAACTTGTTGAACGGTTGATAAA 58.686 30.769 0.00 0.00 34.59 1.40
3760 5663 6.853720 TCAAAACTTGTTGAACGGTTGATAA 58.146 32.000 0.00 0.00 34.59 1.75
3764 5667 6.030849 TGTATCAAAACTTGTTGAACGGTTG 58.969 36.000 0.00 0.31 40.76 3.77
3765 5668 6.127842 ACTGTATCAAAACTTGTTGAACGGTT 60.128 34.615 0.00 0.00 40.76 4.44
3772 5675 8.801715 AATTGCTACTGTATCAAAACTTGTTG 57.198 30.769 8.02 0.00 0.00 3.33
3852 5755 3.009723 CCACTGAATGTAATCCACGCTT 58.990 45.455 0.00 0.00 0.00 4.68
3864 5768 1.475280 CCATGTTGCCTCCACTGAATG 59.525 52.381 0.00 0.00 0.00 2.67
4125 6264 2.632996 TGATGACGAGGAGGAGTTGTTT 59.367 45.455 0.00 0.00 0.00 2.83
4180 6330 9.839817 CCTAGCTAGCTAGTACTCATGATAATA 57.160 37.037 37.50 10.64 43.22 0.98
4183 6333 7.332557 GTCCTAGCTAGCTAGTACTCATGATA 58.667 42.308 37.50 11.98 43.22 2.15
4307 6503 3.826729 AGTTACTTGGAGGCAAAATGGTC 59.173 43.478 0.00 0.00 0.00 4.02
4327 6523 0.904649 TGTGAATGATCGCAGGGAGT 59.095 50.000 0.00 0.00 41.02 3.85
4428 6634 3.877508 AGGTCGCATTGAAGTTATTAGCC 59.122 43.478 0.00 0.00 0.00 3.93
4637 6862 4.828939 CCACATTATGGTCAATATGTGCCT 59.171 41.667 16.50 0.00 44.46 4.75
4866 7114 8.702163 ACCTTTTTGTGAGTTTGTCAATAAAG 57.298 30.769 0.00 0.00 36.74 1.85
4956 7390 9.277783 AGGATATGAAAATAACCTTCGATCTTG 57.722 33.333 0.00 0.00 0.00 3.02
4959 7393 8.097662 AGGAGGATATGAAAATAACCTTCGATC 58.902 37.037 0.00 0.00 31.78 3.69
5077 7729 4.957684 AATCCCTACACTTATCCCGAAG 57.042 45.455 0.00 0.00 0.00 3.79
5080 7732 8.459911 AAAATTTAATCCCTACACTTATCCCG 57.540 34.615 0.00 0.00 0.00 5.14
5090 7742 8.148351 GCCATTTCCCTAAAATTTAATCCCTAC 58.852 37.037 0.00 0.00 35.32 3.18
5096 7748 9.936329 TCTCTAGCCATTTCCCTAAAATTTAAT 57.064 29.630 0.00 0.00 35.32 1.40
5097 7749 9.936329 ATCTCTAGCCATTTCCCTAAAATTTAA 57.064 29.630 0.00 0.00 35.32 1.52
5102 7754 7.213178 AGAATCTCTAGCCATTTCCCTAAAA 57.787 36.000 0.00 0.00 0.00 1.52
5196 7863 9.784531 ATAGCTAGCAAATAATAGTGATGTGTT 57.215 29.630 18.83 0.00 0.00 3.32
5298 8095 6.215636 ACCAATAGGGACAGATGAAAAGTAGT 59.784 38.462 0.00 0.00 41.15 2.73
5330 8127 4.654015 TGTCACGTTTTACAAAACTCTGC 58.346 39.130 13.93 7.36 44.58 4.26
5331 8128 8.829514 TTTATGTCACGTTTTACAAAACTCTG 57.170 30.769 13.93 9.64 44.58 3.35
5365 8478 7.254084 GCTCAAAACCAAATTTGTGTAGAGTTG 60.254 37.037 16.73 14.09 40.40 3.16
5368 8481 6.272318 TGCTCAAAACCAAATTTGTGTAGAG 58.728 36.000 16.73 18.21 40.40 2.43
5452 8604 2.808933 CGAAGGTGGGAGTTAACTTGCA 60.809 50.000 10.02 0.00 0.00 4.08
5535 8687 6.199531 GCACCATTAATTTGTGTAGCATGATG 59.800 38.462 13.62 0.00 32.62 3.07
5585 8739 3.129287 AGCCAATATTTTTCGTGCCTGAG 59.871 43.478 0.00 0.00 0.00 3.35
5586 8740 3.088532 AGCCAATATTTTTCGTGCCTGA 58.911 40.909 0.00 0.00 0.00 3.86
5732 8913 9.555727 TTATTAGCTTTTTAGAACCGATAGCAT 57.444 29.630 0.00 0.00 0.00 3.79
5733 8914 8.951787 TTATTAGCTTTTTAGAACCGATAGCA 57.048 30.769 0.00 0.00 0.00 3.49
5773 8954 4.647564 ATTCTTTTTGGCTCTCTCTGGA 57.352 40.909 0.00 0.00 0.00 3.86
5793 8975 9.661954 TCACTTATTTTAGGATGGAGAGAGTAT 57.338 33.333 0.00 0.00 0.00 2.12
5840 9022 4.864247 CCCTTTGTCTCAAAATAAATGCCG 59.136 41.667 0.00 0.00 0.00 5.69
5859 9064 9.574516 CCATGTAAGCTTAAATTATACTCCCTT 57.425 33.333 7.99 0.00 0.00 3.95
6294 10521 8.174733 ACCTCCATAATCTTGCTTTCATTATG 57.825 34.615 0.00 0.00 39.03 1.90
6330 10557 9.715121 ACTTGATGCTTTCATATTGAAATGTTT 57.285 25.926 3.36 0.00 44.37 2.83
6339 10566 5.412594 ACGTCACACTTGATGCTTTCATATT 59.587 36.000 0.00 0.00 41.88 1.28
6341 10568 4.314961 ACGTCACACTTGATGCTTTCATA 58.685 39.130 0.00 0.00 41.88 2.15
7095 11699 0.745468 GCGGGAACTCCTGGTAGTAG 59.255 60.000 6.71 0.00 42.72 2.57
7314 11918 3.901844 TGTTCTGGTACCTGTAGAGCTTT 59.098 43.478 14.36 0.00 0.00 3.51
7404 12015 2.813754 CTGTCGTTCATCACACCCAAAT 59.186 45.455 0.00 0.00 0.00 2.32
7423 12034 3.427233 GCTTCATAGCTCTGCCAAAACTG 60.427 47.826 0.00 0.00 44.27 3.16
7424 12035 2.751806 GCTTCATAGCTCTGCCAAAACT 59.248 45.455 0.00 0.00 44.27 2.66
7425 12036 3.142404 GCTTCATAGCTCTGCCAAAAC 57.858 47.619 0.00 0.00 44.27 2.43
7437 12048 3.373439 GCACAGAGTTGGAAGCTTCATAG 59.627 47.826 27.02 11.67 0.00 2.23
7475 12086 7.482169 TCCACACAGTAATAACATCTCTTCT 57.518 36.000 0.00 0.00 0.00 2.85
7542 12153 4.082408 TGTTACAGAACCGACCATACAGAG 60.082 45.833 0.00 0.00 34.38 3.35
7555 12166 5.390567 CGGTTTATCCAGCTTGTTACAGAAC 60.391 44.000 0.00 0.00 35.57 3.01
7561 12172 2.745281 GCACGGTTTATCCAGCTTGTTA 59.255 45.455 0.00 0.00 35.08 2.41
7577 12188 3.428862 GGATATCCCAACAAAAAGCACGG 60.429 47.826 11.02 0.00 34.14 4.94
7593 12204 3.843027 ACATCCCACATGAGGAGGATATC 59.157 47.826 22.06 0.00 37.37 1.63
7594 12205 3.879346 ACATCCCACATGAGGAGGATAT 58.121 45.455 22.06 5.83 37.37 1.63
7595 12206 3.350992 ACATCCCACATGAGGAGGATA 57.649 47.619 22.06 0.83 37.37 2.59
7596 12207 2.203120 ACATCCCACATGAGGAGGAT 57.797 50.000 22.06 13.82 37.37 3.24
7597 12208 2.866923 TACATCCCACATGAGGAGGA 57.133 50.000 22.06 12.42 37.37 3.71
7598 12209 2.105477 CCTTACATCCCACATGAGGAGG 59.895 54.545 11.19 14.19 41.01 4.30
7599 12210 3.041211 TCCTTACATCCCACATGAGGAG 58.959 50.000 11.19 7.40 36.67 3.69
7600 12211 3.041211 CTCCTTACATCCCACATGAGGA 58.959 50.000 11.19 11.04 37.93 3.71
7601 12212 3.041211 TCTCCTTACATCCCACATGAGG 58.959 50.000 0.00 0.00 0.00 3.86
7602 12213 4.346127 TCATCTCCTTACATCCCACATGAG 59.654 45.833 0.00 0.00 0.00 2.90
7603 12214 4.101585 GTCATCTCCTTACATCCCACATGA 59.898 45.833 0.00 0.00 0.00 3.07
7604 12215 4.384056 GTCATCTCCTTACATCCCACATG 58.616 47.826 0.00 0.00 0.00 3.21
7605 12216 3.392616 GGTCATCTCCTTACATCCCACAT 59.607 47.826 0.00 0.00 0.00 3.21
7606 12217 2.771943 GGTCATCTCCTTACATCCCACA 59.228 50.000 0.00 0.00 0.00 4.17
7607 12218 2.771943 TGGTCATCTCCTTACATCCCAC 59.228 50.000 0.00 0.00 0.00 4.61
7608 12219 3.129262 TGGTCATCTCCTTACATCCCA 57.871 47.619 0.00 0.00 0.00 4.37
7609 12220 4.713792 AATGGTCATCTCCTTACATCCC 57.286 45.455 0.00 0.00 0.00 3.85
7610 12221 5.684704 TCAAATGGTCATCTCCTTACATCC 58.315 41.667 0.00 0.00 0.00 3.51
7611 12222 6.481644 GTCTCAAATGGTCATCTCCTTACATC 59.518 42.308 0.00 0.00 0.00 3.06
7612 12223 6.352516 GTCTCAAATGGTCATCTCCTTACAT 58.647 40.000 0.00 0.00 0.00 2.29
7613 12224 5.338381 GGTCTCAAATGGTCATCTCCTTACA 60.338 44.000 0.00 0.00 0.00 2.41
7614 12225 5.119694 GGTCTCAAATGGTCATCTCCTTAC 58.880 45.833 0.00 0.00 0.00 2.34
7615 12226 4.141937 CGGTCTCAAATGGTCATCTCCTTA 60.142 45.833 0.00 0.00 0.00 2.69
7616 12227 3.369892 CGGTCTCAAATGGTCATCTCCTT 60.370 47.826 0.00 0.00 0.00 3.36
7617 12228 2.169352 CGGTCTCAAATGGTCATCTCCT 59.831 50.000 0.00 0.00 0.00 3.69
7618 12229 2.555199 CGGTCTCAAATGGTCATCTCC 58.445 52.381 0.00 0.00 0.00 3.71
7619 12230 2.555199 CCGGTCTCAAATGGTCATCTC 58.445 52.381 0.00 0.00 0.00 2.75
7620 12231 1.210478 CCCGGTCTCAAATGGTCATCT 59.790 52.381 0.00 0.00 0.00 2.90
7621 12232 1.065418 ACCCGGTCTCAAATGGTCATC 60.065 52.381 0.00 0.00 0.00 2.92
7622 12233 0.991920 ACCCGGTCTCAAATGGTCAT 59.008 50.000 0.00 0.00 0.00 3.06
7623 12234 0.768622 AACCCGGTCTCAAATGGTCA 59.231 50.000 0.00 0.00 0.00 4.02
7624 12235 1.450025 GAACCCGGTCTCAAATGGTC 58.550 55.000 0.00 0.00 0.00 4.02
7625 12236 0.321298 CGAACCCGGTCTCAAATGGT 60.321 55.000 0.00 0.00 0.00 3.55
7626 12237 2.466867 CGAACCCGGTCTCAAATGG 58.533 57.895 0.00 0.00 0.00 3.16
7638 12249 4.329545 TGCAGGTGAGCCGAACCC 62.330 66.667 0.00 0.00 38.57 4.11
7666 12277 1.202452 GGCCTGCACAATATTTCCTGC 60.202 52.381 0.00 3.52 0.00 4.85
7695 12306 2.587753 CACAGACACGTGGCGGTT 60.588 61.111 25.19 7.62 33.05 4.44
7709 12320 0.840617 TTGAGTAGTTGGCCCACACA 59.159 50.000 10.02 0.12 0.00 3.72
7736 12347 9.685828 GCTCTTCTCGTATCAAATTAAGTCTAT 57.314 33.333 0.00 0.00 0.00 1.98
7738 12349 7.777095 AGCTCTTCTCGTATCAAATTAAGTCT 58.223 34.615 0.00 0.00 0.00 3.24
7739 12350 7.995463 AGCTCTTCTCGTATCAAATTAAGTC 57.005 36.000 0.00 0.00 0.00 3.01
7740 12351 7.995463 GAGCTCTTCTCGTATCAAATTAAGT 57.005 36.000 6.43 0.00 31.20 2.24
7754 13918 4.882396 GCCCCGCGAGCTCTTCTC 62.882 72.222 8.23 0.00 38.47 2.87
7765 13929 4.770874 TTCGCCTAACTGCCCCGC 62.771 66.667 0.00 0.00 0.00 6.13
7770 13934 1.009829 CTCCATGTTCGCCTAACTGC 58.990 55.000 0.00 0.00 38.99 4.40
7772 13936 1.207329 GTCCTCCATGTTCGCCTAACT 59.793 52.381 0.00 0.00 38.99 2.24
7773 13937 1.207329 AGTCCTCCATGTTCGCCTAAC 59.793 52.381 0.00 0.00 38.67 2.34
7774 13938 1.480954 GAGTCCTCCATGTTCGCCTAA 59.519 52.381 0.00 0.00 0.00 2.69
7775 13939 1.112113 GAGTCCTCCATGTTCGCCTA 58.888 55.000 0.00 0.00 0.00 3.93
7820 13988 3.108289 CACTGCTGCTCACGTCCG 61.108 66.667 0.00 0.00 0.00 4.79
7821 13989 2.024319 GACACTGCTGCTCACGTCC 61.024 63.158 0.00 0.00 0.00 4.79
7822 13990 2.024319 GGACACTGCTGCTCACGTC 61.024 63.158 0.00 2.58 0.00 4.34
7884 14052 3.771160 CCCCGGGAAGTCGTGGAG 61.771 72.222 26.32 0.00 29.10 3.86
7911 14079 2.028125 GCCATCTGGTAGCGCCACTA 62.028 60.000 2.29 0.00 43.61 2.74
7998 14470 4.308458 AACCGCAGCGTGCACCTA 62.308 61.111 15.05 0.00 45.36 3.08
8068 16648 1.078201 CATAGCAACAGCGCTCGACA 61.078 55.000 7.13 0.00 42.62 4.35
8144 18810 3.769300 TGCATATGCTAGGACGTCCATAT 59.231 43.478 35.00 24.27 42.66 1.78
8184 18850 4.682787 CTGGTTCTCACGTGAATATGCTA 58.317 43.478 20.49 5.58 0.00 3.49
8188 18854 2.236146 TGGCTGGTTCTCACGTGAATAT 59.764 45.455 20.49 0.00 0.00 1.28
8189 18855 1.621317 TGGCTGGTTCTCACGTGAATA 59.379 47.619 20.49 7.97 0.00 1.75
8277 21048 4.373156 AGTAGTTTGGAGCAGATGGTTT 57.627 40.909 0.00 0.00 0.00 3.27
8286 21057 2.494059 TGTGAGCAAGTAGTTTGGAGC 58.506 47.619 0.00 0.00 37.26 4.70


Based at the University of Bristol with support from BBSRC. BBSRC icon Bristol icon

AutoCloner maintained by Alex Coulton.