Multiple sequence alignment - TraesCS5A01G108200

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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 TraesCS5A01G108200 chr5A 100.000 3351 0 0 1 3351 191316168 191312818 0.000000e+00 6189.0
1 TraesCS5A01G108200 chr5A 93.656 2538 145 8 622 3153 191340875 191338348 0.000000e+00 3781.0
2 TraesCS5A01G108200 chr5A 84.643 827 90 26 2334 3146 260137640 260138443 0.000000e+00 789.0
3 TraesCS5A01G108200 chr5A 81.714 875 103 45 627 1485 192730973 192730140 0.000000e+00 676.0
4 TraesCS5A01G108200 chr5A 81.171 871 107 40 627 1485 192760212 192759387 0.000000e+00 647.0
5 TraesCS5A01G108200 chr5A 93.023 129 9 0 1650 1778 32623509 32623381 4.410000e-44 189.0
6 TraesCS5A01G108200 chr5A 91.729 133 11 0 1646 1778 621684476 621684344 5.710000e-43 185.0
7 TraesCS5A01G108200 chr5A 87.261 157 15 4 1626 1778 358326853 358327008 1.240000e-39 174.0
8 TraesCS5A01G108200 chr5A 86.047 86 10 1 2183 2266 57246528 57246443 1.280000e-14 91.6
9 TraesCS5A01G108200 chr6A 92.475 1196 82 5 1179 2371 175910467 175911657 0.000000e+00 1703.0
10 TraesCS5A01G108200 chr6A 86.174 622 73 13 2529 3146 154882400 154883012 0.000000e+00 660.0
11 TraesCS5A01G108200 chr6A 84.768 604 67 18 2549 3146 125596553 125595969 1.730000e-162 582.0
12 TraesCS5A01G108200 chr6A 78.475 892 125 42 627 1487 547706987 547706132 3.830000e-144 521.0
13 TraesCS5A01G108200 chr6A 78.475 892 125 42 627 1487 547714990 547714135 3.830000e-144 521.0
14 TraesCS5A01G108200 chr6A 83.243 555 76 15 2605 3148 438490901 438490353 8.350000e-136 494.0
15 TraesCS5A01G108200 chr6A 80.858 606 93 20 2558 3146 333784773 333784174 3.940000e-124 455.0
16 TraesCS5A01G108200 chr6A 79.867 601 90 25 2557 3144 353541410 353541992 8.650000e-111 411.0
17 TraesCS5A01G108200 chr6A 80.314 574 85 23 2501 3053 353571939 353572505 3.110000e-110 409.0
18 TraesCS5A01G108200 chr6A 93.633 267 15 1 1767 2033 113836326 113836062 6.740000e-107 398.0
19 TraesCS5A01G108200 chr6A 84.615 403 56 6 2747 3146 362830908 362830509 2.420000e-106 396.0
20 TraesCS5A01G108200 chr6A 84.019 413 56 10 2739 3146 369257922 369257515 4.050000e-104 388.0
21 TraesCS5A01G108200 chr6A 92.537 268 19 1 1767 2033 113826588 113826321 1.890000e-102 383.0
22 TraesCS5A01G108200 chr6A 92.453 265 20 0 1767 2031 380107846 380108110 2.440000e-101 379.0
23 TraesCS5A01G108200 chr6A 83.252 412 61 8 2739 3146 343350685 343351092 4.080000e-99 372.0
24 TraesCS5A01G108200 chr6A 97.573 206 5 0 3146 3351 511026881 511026676 1.480000e-93 353.0
25 TraesCS5A01G108200 chr6A 77.778 630 94 36 888 1487 51876597 51877210 2.470000e-91 346.0
26 TraesCS5A01G108200 chr6A 90.189 265 26 0 1767 2031 380099995 380100259 2.470000e-91 346.0
27 TraesCS5A01G108200 chr6A 80.719 306 36 5 1205 1487 371689046 371688741 2.020000e-52 217.0
28 TraesCS5A01G108200 chr6A 89.041 146 13 3 1750 1893 353664574 353664718 9.550000e-41 178.0
29 TraesCS5A01G108200 chr6A 87.023 131 17 0 1897 2027 341510062 341509932 7.490000e-32 148.0
30 TraesCS5A01G108200 chr6A 88.350 103 9 3 1446 1548 282860359 282860458 1.630000e-23 121.0
31 TraesCS5A01G108200 chr6A 82.707 133 21 2 1505 1637 26867709 26867839 2.110000e-22 117.0
32 TraesCS5A01G108200 chr6A 87.129 101 11 2 1448 1548 282784752 282784850 2.730000e-21 113.0
33 TraesCS5A01G108200 chr6A 89.157 83 8 1 2185 2266 491983227 491983145 5.910000e-18 102.0
34 TraesCS5A01G108200 chr6A 79.699 133 25 2 1505 1637 26859720 26859850 9.900000e-16 95.3
35 TraesCS5A01G108200 chr6A 100.000 29 0 0 2231 2259 467883830 467883858 2.000000e-03 54.7
36 TraesCS5A01G108200 chr4A 88.732 852 77 17 21 862 275088567 275087725 0.000000e+00 1024.0
37 TraesCS5A01G108200 chr4A 88.480 625 58 10 2528 3146 420999851 420999235 0.000000e+00 743.0
38 TraesCS5A01G108200 chr4A 87.656 640 61 14 2515 3146 404672687 404673316 0.000000e+00 728.0
39 TraesCS5A01G108200 chr4A 85.388 657 64 19 2501 3140 426446561 426447202 0.000000e+00 652.0
40 TraesCS5A01G108200 chr4A 85.980 592 66 15 2558 3146 232098958 232099535 4.750000e-173 617.0
41 TraesCS5A01G108200 chr4A 91.089 404 29 5 2528 2928 401968992 401968593 1.060000e-149 540.0
42 TraesCS5A01G108200 chr4A 78.829 888 124 45 627 1487 539307262 539306412 1.060000e-149 540.0
43 TraesCS5A01G108200 chr4A 90.943 265 24 0 1767 2031 541699564 541699300 1.140000e-94 357.0
44 TraesCS5A01G108200 chr4A 90.977 266 22 2 1767 2031 541754674 541754410 1.140000e-94 357.0
45 TraesCS5A01G108200 chr4A 81.793 357 34 20 1161 1487 516605857 516606212 1.530000e-68 270.0
46 TraesCS5A01G108200 chr4A 79.837 367 46 20 1146 1487 276603652 276603289 3.340000e-60 243.0
47 TraesCS5A01G108200 chr4A 87.742 155 13 3 1629 1778 413898902 413898749 3.440000e-40 176.0
48 TraesCS5A01G108200 chr4A 90.517 116 8 3 1434 1548 361180165 361180052 2.080000e-32 150.0
49 TraesCS5A01G108200 chr4A 88.060 67 8 0 2275 2341 344286682 344286748 2.770000e-11 80.5
50 TraesCS5A01G108200 chr4D 94.762 630 30 3 1 627 164194528 164195157 0.000000e+00 977.0
51 TraesCS5A01G108200 chr4D 94.436 629 33 2 1 627 164173895 164174523 0.000000e+00 966.0
52 TraesCS5A01G108200 chr4D 94.418 627 31 4 1 623 154805125 154805751 0.000000e+00 961.0
53 TraesCS5A01G108200 chr4D 83.578 408 44 17 2744 3146 180969373 180968984 8.840000e-96 361.0
54 TraesCS5A01G108200 chr4D 97.573 206 5 0 3146 3351 89221194 89221399 1.480000e-93 353.0
55 TraesCS5A01G108200 chr4D 97.573 206 5 0 3146 3351 326936210 326936415 1.480000e-93 353.0
56 TraesCS5A01G108200 chr4D 98.020 202 4 0 3150 3351 64484522 64484723 5.320000e-93 351.0
57 TraesCS5A01G108200 chr4D 83.417 398 47 13 2752 3146 408414300 408414681 5.320000e-93 351.0
58 TraesCS5A01G108200 chr4D 97.087 206 6 0 3146 3351 75767566 75767771 6.880000e-92 348.0
59 TraesCS5A01G108200 chr4D 82.278 395 61 8 2756 3146 296049444 296049055 1.930000e-87 333.0
60 TraesCS5A01G108200 chr4D 81.325 332 51 11 2739 3063 286343930 286343603 3.320000e-65 259.0
61 TraesCS5A01G108200 chr4D 83.276 293 35 7 2856 3146 143161746 143161466 1.190000e-64 257.0
62 TraesCS5A01G108200 chr4D 92.857 70 5 0 1767 1836 145388393 145388462 5.910000e-18 102.0
63 TraesCS5A01G108200 chr7D 94.313 633 30 6 1 627 246201905 246202537 0.000000e+00 965.0
64 TraesCS5A01G108200 chr7D 94.286 630 32 4 1 626 65084122 65083493 0.000000e+00 961.0
65 TraesCS5A01G108200 chr7D 82.660 594 82 18 2560 3146 320420968 320420389 1.070000e-139 507.0
66 TraesCS5A01G108200 chr7D 97.573 206 5 0 3146 3351 373775529 373775734 1.480000e-93 353.0
67 TraesCS5A01G108200 chr7D 78.657 417 60 18 2739 3148 322241501 322241107 2.000000e-62 250.0
68 TraesCS5A01G108200 chr7D 77.108 415 65 23 2739 3146 322249142 322248751 2.620000e-51 213.0
69 TraesCS5A01G108200 chr7D 95.714 70 3 0 1767 1836 357305313 357305382 2.730000e-21 113.0
70 TraesCS5A01G108200 chr7D 94.286 70 4 0 1767 1836 160894397 160894466 1.270000e-19 108.0
71 TraesCS5A01G108200 chr7D 94.286 70 4 0 1767 1836 357313405 357313474 1.270000e-19 108.0
72 TraesCS5A01G108200 chr5D 94.304 632 30 6 1 626 95840012 95839381 0.000000e+00 963.0
73 TraesCS5A01G108200 chr5D 78.069 953 145 48 627 1548 163619218 163620137 8.180000e-151 544.0
74 TraesCS5A01G108200 chr5D 97.087 206 6 0 3146 3351 51056528 51056323 6.880000e-92 348.0
75 TraesCS5A01G108200 chr5D 97.087 206 6 0 3146 3351 117463909 117464114 6.880000e-92 348.0
76 TraesCS5A01G108200 chr5D 97.087 206 6 0 3146 3351 527037534 527037329 6.880000e-92 348.0
77 TraesCS5A01G108200 chr5D 79.837 367 52 13 2744 3104 179521044 179520694 7.180000e-62 248.0
78 TraesCS5A01G108200 chr5D 78.378 407 62 21 2747 3146 208156703 208156316 1.200000e-59 241.0
79 TraesCS5A01G108200 chr5D 95.714 70 3 0 1767 1836 26446708 26446777 2.730000e-21 113.0
80 TraesCS5A01G108200 chr5D 84.112 107 15 2 3040 3146 249239378 249239274 5.910000e-18 102.0
81 TraesCS5A01G108200 chr5D 89.744 78 7 1 1471 1548 163709734 163709810 7.650000e-17 99.0
82 TraesCS5A01G108200 chr5D 84.694 98 11 4 1453 1548 126482425 126482520 9.900000e-16 95.3
83 TraesCS5A01G108200 chr2D 94.295 631 31 5 1 627 316645497 316646126 0.000000e+00 961.0
84 TraesCS5A01G108200 chr2D 97.573 206 5 0 3146 3351 551324117 551324322 1.480000e-93 353.0
85 TraesCS5A01G108200 chr2D 92.857 70 5 0 1767 1836 86857628 86857559 5.910000e-18 102.0
86 TraesCS5A01G108200 chr1D 94.286 630 32 4 1 626 199294704 199294075 0.000000e+00 961.0
87 TraesCS5A01G108200 chr1D 97.573 206 5 0 3146 3351 72023849 72023644 1.480000e-93 353.0
88 TraesCS5A01G108200 chr1D 97.087 206 6 0 3146 3351 205250836 205250631 6.880000e-92 348.0
89 TraesCS5A01G108200 chr1D 96.209 211 7 1 3142 3351 367539228 367539438 8.900000e-91 344.0
90 TraesCS5A01G108200 chr1D 96.602 206 7 0 3146 3351 9962454 9962659 3.200000e-90 342.0
91 TraesCS5A01G108200 chr1D 96.602 206 7 0 3146 3351 208669784 208669989 3.200000e-90 342.0
92 TraesCS5A01G108200 chr1D 94.931 217 7 3 3138 3351 203763699 203763484 1.490000e-88 337.0
93 TraesCS5A01G108200 chr1D 81.159 414 49 10 2739 3150 186715079 186714693 4.200000e-79 305.0
94 TraesCS5A01G108200 chr1D 80.523 421 58 14 2739 3147 406244740 406244332 5.430000e-78 302.0
95 TraesCS5A01G108200 chr1D 81.218 394 47 17 2752 3144 398762514 398762881 3.270000e-75 292.0
96 TraesCS5A01G108200 chr1D 79.853 407 55 22 2747 3146 438010636 438011022 4.260000e-69 272.0
97 TraesCS5A01G108200 chr1D 78.378 407 62 21 2747 3146 69542731 69543118 1.200000e-59 241.0
98 TraesCS5A01G108200 chr1D 92.079 101 6 2 1434 1533 230528563 230528662 1.250000e-29 141.0
99 TraesCS5A01G108200 chr1D 86.207 116 13 3 1434 1548 230551585 230551698 4.540000e-24 122.0
100 TraesCS5A01G108200 chr3A 88.942 624 56 9 2528 3146 566362616 566362001 0.000000e+00 758.0
101 TraesCS5A01G108200 chr3A 87.879 627 61 7 2525 3146 331397151 331397767 0.000000e+00 723.0
102 TraesCS5A01G108200 chr3A 86.957 621 54 16 2528 3143 566344930 566344332 0.000000e+00 673.0
103 TraesCS5A01G108200 chr3A 92.453 265 20 0 1767 2031 444965874 444966138 2.440000e-101 379.0
104 TraesCS5A01G108200 chr3A 93.023 129 9 0 1650 1778 632681263 632681135 4.410000e-44 189.0
105 TraesCS5A01G108200 chr3A 89.474 114 11 1 1435 1548 538924288 538924400 3.490000e-30 143.0
106 TraesCS5A01G108200 chr3A 89.041 73 6 2 2461 2532 683303285 683303356 4.610000e-14 89.8
107 TraesCS5A01G108200 chr7A 85.484 682 89 10 2477 3150 300169502 300168823 0.000000e+00 702.0
108 TraesCS5A01G108200 chr7A 85.835 593 59 16 2565 3146 591933941 591933363 1.030000e-169 606.0
109 TraesCS5A01G108200 chr7A 79.018 896 121 49 622 1487 200592533 200593391 4.890000e-153 551.0
110 TraesCS5A01G108200 chr7A 78.532 899 134 50 622 1487 445123194 445122322 1.370000e-148 536.0
111 TraesCS5A01G108200 chr7A 78.381 902 136 43 622 1487 82184134 82185012 6.370000e-147 531.0
112 TraesCS5A01G108200 chr7A 77.569 905 134 50 627 1489 319141308 319140431 1.810000e-132 483.0
113 TraesCS5A01G108200 chr7A 76.768 891 152 40 627 1487 382388056 382387191 6.600000e-122 448.0
114 TraesCS5A01G108200 chr7A 83.824 408 59 7 2743 3146 327232088 327231684 6.780000e-102 381.0
115 TraesCS5A01G108200 chr7A 92.453 265 20 0 1767 2031 320867570 320867834 2.440000e-101 379.0
116 TraesCS5A01G108200 chr7A 91.729 266 21 1 1767 2031 354075147 354074882 5.280000e-98 368.0
117 TraesCS5A01G108200 chr7A 97.573 206 5 0 3146 3351 48160391 48160186 1.480000e-93 353.0
118 TraesCS5A01G108200 chr7A 90.566 265 25 0 1767 2031 320859762 320860026 5.320000e-93 351.0
119 TraesCS5A01G108200 chr7A 85.938 256 12 11 2332 2572 591934214 591933968 5.550000e-63 252.0
120 TraesCS5A01G108200 chr7A 93.077 130 9 0 1646 1775 346862941 346862812 1.230000e-44 191.0
121 TraesCS5A01G108200 chr7A 82.090 134 22 2 1505 1638 71469478 71469609 2.730000e-21 113.0
122 TraesCS5A01G108200 chr7A 91.026 78 6 1 1471 1548 529360067 529359991 1.640000e-18 104.0
123 TraesCS5A01G108200 chr7A 79.851 134 23 4 1505 1638 518580056 518580185 9.900000e-16 95.3
124 TraesCS5A01G108200 chr7A 79.851 134 23 4 1505 1638 518588245 518588374 9.900000e-16 95.3
125 TraesCS5A01G108200 chr7A 96.875 32 0 1 2461 2492 309208623 309208653 6.000000e-03 52.8
126 TraesCS5A01G108200 chr2A 81.414 877 122 33 622 1489 361432271 361431427 0.000000e+00 678.0
127 TraesCS5A01G108200 chr2A 82.314 752 102 29 628 1365 279066064 279065330 1.020000e-174 623.0
128 TraesCS5A01G108200 chr2A 83.585 597 83 14 2560 3146 279063511 279062920 2.270000e-151 545.0
129 TraesCS5A01G108200 chr2A 83.220 590 81 17 2560 3138 279055193 279054611 2.960000e-145 525.0
130 TraesCS5A01G108200 chr2A 82.638 599 83 19 2560 3146 236938494 236937905 8.290000e-141 510.0
131 TraesCS5A01G108200 chr2A 93.130 262 18 0 1767 2028 567787608 567787869 5.240000e-103 385.0
132 TraesCS5A01G108200 chr2A 92.453 265 20 0 1767 2031 288354243 288353979 2.440000e-101 379.0
133 TraesCS5A01G108200 chr2A 92.075 265 21 0 1767 2031 567795682 567795946 1.140000e-99 374.0
134 TraesCS5A01G108200 chr2A 91.589 214 16 2 2327 2539 366719858 366719646 9.090000e-76 294.0
135 TraesCS5A01G108200 chr2A 93.798 129 8 0 1650 1778 90469924 90469796 9.490000e-46 195.0
136 TraesCS5A01G108200 chr2A 88.596 114 12 1 1435 1548 284301699 284301811 1.620000e-28 137.0
137 TraesCS5A01G108200 chr2A 87.069 116 12 3 1434 1548 294895653 294895766 9.760000e-26 128.0
138 TraesCS5A01G108200 chr2A 89.474 76 7 1 1541 1616 267674360 267674286 9.900000e-16 95.3
139 TraesCS5A01G108200 chr2A 78.632 117 21 4 1522 1638 114184139 114184027 1.290000e-09 75.0
140 TraesCS5A01G108200 chr7B 81.741 827 124 27 627 1443 428262654 428263463 0.000000e+00 665.0
141 TraesCS5A01G108200 chr7B 82.384 755 94 36 627 1365 568633480 568632749 3.670000e-174 621.0
142 TraesCS5A01G108200 chr4B 82.808 762 93 36 627 1379 530849145 530849877 0.000000e+00 647.0
143 TraesCS5A01G108200 chr4B 81.806 764 113 26 627 1379 574743274 574742526 4.750000e-173 617.0
144 TraesCS5A01G108200 chrUn 82.147 773 108 29 627 1386 53201937 53202692 1.310000e-178 636.0
145 TraesCS5A01G108200 chrUn 96.117 206 8 0 3146 3351 327025037 327025242 1.490000e-88 337.0
146 TraesCS5A01G108200 chrUn 96.078 204 8 0 3146 3349 32537517 32537720 1.930000e-87 333.0
147 TraesCS5A01G108200 chrUn 95.631 206 9 0 3146 3351 20211583 20211788 6.930000e-87 331.0
148 TraesCS5A01G108200 chrUn 95.631 206 9 0 3146 3351 364298184 364298389 6.930000e-87 331.0
149 TraesCS5A01G108200 chrUn 95.146 206 10 0 3146 3351 1535771 1535976 3.220000e-85 326.0
150 TraesCS5A01G108200 chrUn 95.146 206 10 0 3146 3351 58110085 58110290 3.220000e-85 326.0
151 TraesCS5A01G108200 chrUn 95.146 206 10 0 3146 3351 246245074 246244869 3.220000e-85 326.0
152 TraesCS5A01G108200 chrUn 95.146 206 10 0 3146 3351 247260224 247260429 3.220000e-85 326.0
153 TraesCS5A01G108200 chrUn 94.660 206 11 0 3146 3351 111450969 111450764 1.500000e-83 320.0
154 TraesCS5A01G108200 chrUn 79.118 340 54 9 2752 3090 476857161 476856838 5.630000e-53 219.0
155 TraesCS5A01G108200 chrUn 80.068 296 35 20 2856 3146 435026369 435026093 7.330000e-47 198.0
156 TraesCS5A01G108200 chrUn 80.205 293 29 12 2856 3146 369403012 369402747 3.410000e-45 193.0
157 TraesCS5A01G108200 chrUn 88.806 134 15 0 1324 1457 354781754 354781887 7.440000e-37 165.0
158 TraesCS5A01G108200 chrUn 87.302 63 7 1 1428 1489 82967714 82967776 1.670000e-08 71.3
159 TraesCS5A01G108200 chr2B 82.438 763 97 34 628 1379 778383153 778383889 1.700000e-177 632.0
160 TraesCS5A01G108200 chr2B 82.376 766 96 35 628 1381 778391006 778391744 6.100000e-177 630.0
161 TraesCS5A01G108200 chr1A 82.006 678 92 27 2477 3146 42701888 42701233 1.760000e-152 549.0
162 TraesCS5A01G108200 chr1A 79.012 891 117 47 627 1487 170264386 170263536 2.270000e-151 545.0
163 TraesCS5A01G108200 chr1A 81.351 681 93 29 2477 3146 42677185 42676528 1.070000e-144 523.0
164 TraesCS5A01G108200 chr1A 77.691 892 136 44 627 1491 311436854 311435999 1.400000e-133 486.0
165 TraesCS5A01G108200 chr1A 77.652 886 139 40 627 1487 311428090 311427239 5.030000e-133 484.0
166 TraesCS5A01G108200 chr1A 77.463 883 141 38 622 1471 438104385 438103528 3.030000e-130 475.0
167 TraesCS5A01G108200 chr1A 80.826 605 84 23 2560 3149 362594482 362595069 2.370000e-121 446.0
168 TraesCS5A01G108200 chr1A 86.232 414 53 3 2734 3146 482716295 482716705 2.370000e-121 446.0
169 TraesCS5A01G108200 chr1A 76.517 890 138 44 628 1487 184892957 184892109 1.440000e-113 420.0
170 TraesCS5A01G108200 chr1A 79.934 603 87 26 2560 3146 362586660 362587244 2.410000e-111 412.0
171 TraesCS5A01G108200 chr1A 87.651 332 36 5 2813 3141 115462491 115462820 6.780000e-102 381.0
172 TraesCS5A01G108200 chr1A 78.405 602 93 31 2556 3144 318322023 318321446 1.140000e-94 357.0
173 TraesCS5A01G108200 chr1A 97.561 205 5 0 3146 3350 496013296 496013092 5.320000e-93 351.0
174 TraesCS5A01G108200 chr1A 81.169 462 64 19 2558 3003 219600461 219600007 1.910000e-92 350.0
175 TraesCS5A01G108200 chr1A 80.344 407 54 16 2742 3146 188565085 188564703 5.470000e-73 285.0
176 TraesCS5A01G108200 chr1A 84.300 293 40 6 2856 3147 201821033 201821320 7.080000e-72 281.0
177 TraesCS5A01G108200 chr1A 84.354 294 36 8 2856 3146 201813155 201813441 2.550000e-71 279.0
178 TraesCS5A01G108200 chr1A 83.444 302 42 8 2754 3051 545990514 545990217 1.180000e-69 274.0
179 TraesCS5A01G108200 chr1A 90.419 167 13 2 1323 1486 170271781 170271615 2.020000e-52 217.0
180 TraesCS5A01G108200 chr1A 80.511 313 36 14 1199 1487 437397138 437397449 2.020000e-52 217.0
181 TraesCS5A01G108200 chr1A 87.429 175 19 3 1316 1487 81449459 81449285 7.330000e-47 198.0
182 TraesCS5A01G108200 chr1A 84.615 195 23 4 2560 2751 224334977 224335167 1.590000e-43 187.0
183 TraesCS5A01G108200 chr1A 89.655 116 9 3 1434 1548 157581905 157582018 9.690000e-31 145.0
184 TraesCS5A01G108200 chr1A 90.541 74 6 1 1475 1548 168235374 168235446 2.750000e-16 97.1
185 TraesCS5A01G108200 chr1A 91.549 71 5 1 1478 1548 168259619 168259688 2.750000e-16 97.1
186 TraesCS5A01G108200 chr1A 91.549 71 5 1 1478 1548 469357353 469357284 2.750000e-16 97.1
187 TraesCS5A01G108200 chr6D 97.525 202 5 0 3150 3351 194286217 194286016 2.470000e-91 346.0
188 TraesCS5A01G108200 chr6D 96.602 206 7 0 3146 3351 99335277 99335072 3.200000e-90 342.0
189 TraesCS5A01G108200 chr6D 96.602 206 7 0 3146 3351 251130233 251130028 3.200000e-90 342.0
190 TraesCS5A01G108200 chr6D 96.602 206 7 0 3146 3351 416766141 416766346 3.200000e-90 342.0
191 TraesCS5A01G108200 chr6D 97.030 202 6 0 3150 3351 61058968 61058767 1.150000e-89 340.0
192 TraesCS5A01G108200 chr6D 96.602 206 6 1 3146 3351 344908076 344908280 1.150000e-89 340.0
193 TraesCS5A01G108200 chr6D 96.585 205 7 0 3146 3350 369816450 369816654 1.150000e-89 340.0
194 TraesCS5A01G108200 chr6D 95.735 211 8 1 3142 3351 127549860 127549650 4.140000e-89 339.0
195 TraesCS5A01G108200 chr6D 79.369 412 67 16 2739 3146 179238396 179237999 1.180000e-69 274.0
196 TraesCS5A01G108200 chr6D 79.369 412 66 16 2739 3146 258026962 258026566 4.260000e-69 272.0
197 TraesCS5A01G108200 chr6D 79.310 406 59 20 2747 3146 176601630 176601244 9.220000e-66 261.0
198 TraesCS5A01G108200 chr6D 79.064 406 59 20 2747 3146 176594159 176593774 4.290000e-64 255.0
199 TraesCS5A01G108200 chr6D 79.532 342 48 17 2813 3146 210530639 210530966 1.210000e-54 224.0
200 TraesCS5A01G108200 chr6D 77.616 411 61 22 2739 3146 182663655 182663273 1.570000e-53 220.0
201 TraesCS5A01G108200 chr6D 77.396 407 61 22 2739 3142 182643134 182642756 2.620000e-51 213.0
202 TraesCS5A01G108200 chr5B 77.885 624 79 33 2542 3146 159683293 159683876 1.930000e-87 333.0
203 TraesCS5A01G108200 chr3D 94.286 70 4 0 1767 1836 420476615 420476684 1.270000e-19 108.0


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 TraesCS5A01G108200 chr5A 191312818 191316168 3350 True 6189 6189 100.0000 1 3351 1 chr5A.!!$R3 3350
1 TraesCS5A01G108200 chr5A 191338348 191340875 2527 True 3781 3781 93.6560 622 3153 1 chr5A.!!$R4 2531
2 TraesCS5A01G108200 chr5A 260137640 260138443 803 False 789 789 84.6430 2334 3146 1 chr5A.!!$F1 812
3 TraesCS5A01G108200 chr5A 192730140 192730973 833 True 676 676 81.7140 627 1485 1 chr5A.!!$R5 858
4 TraesCS5A01G108200 chr5A 192759387 192760212 825 True 647 647 81.1710 627 1485 1 chr5A.!!$R6 858
5 TraesCS5A01G108200 chr6A 175910467 175911657 1190 False 1703 1703 92.4750 1179 2371 1 chr6A.!!$F5 1192
6 TraesCS5A01G108200 chr6A 154882400 154883012 612 False 660 660 86.1740 2529 3146 1 chr6A.!!$F4 617
7 TraesCS5A01G108200 chr6A 125595969 125596553 584 True 582 582 84.7680 2549 3146 1 chr6A.!!$R3 597
8 TraesCS5A01G108200 chr6A 547706132 547706987 855 True 521 521 78.4750 627 1487 1 chr6A.!!$R12 860
9 TraesCS5A01G108200 chr6A 547714135 547714990 855 True 521 521 78.4750 627 1487 1 chr6A.!!$R13 860
10 TraesCS5A01G108200 chr6A 438490353 438490901 548 True 494 494 83.2430 2605 3148 1 chr6A.!!$R9 543
11 TraesCS5A01G108200 chr6A 333784174 333784773 599 True 455 455 80.8580 2558 3146 1 chr6A.!!$R4 588
12 TraesCS5A01G108200 chr6A 353541410 353541992 582 False 411 411 79.8670 2557 3144 1 chr6A.!!$F9 587
13 TraesCS5A01G108200 chr6A 353571939 353572505 566 False 409 409 80.3140 2501 3053 1 chr6A.!!$F10 552
14 TraesCS5A01G108200 chr6A 51876597 51877210 613 False 346 346 77.7780 888 1487 1 chr6A.!!$F3 599
15 TraesCS5A01G108200 chr4A 275087725 275088567 842 True 1024 1024 88.7320 21 862 1 chr4A.!!$R1 841
16 TraesCS5A01G108200 chr4A 420999235 420999851 616 True 743 743 88.4800 2528 3146 1 chr4A.!!$R6 618
17 TraesCS5A01G108200 chr4A 404672687 404673316 629 False 728 728 87.6560 2515 3146 1 chr4A.!!$F3 631
18 TraesCS5A01G108200 chr4A 426446561 426447202 641 False 652 652 85.3880 2501 3140 1 chr4A.!!$F4 639
19 TraesCS5A01G108200 chr4A 232098958 232099535 577 False 617 617 85.9800 2558 3146 1 chr4A.!!$F1 588
20 TraesCS5A01G108200 chr4A 539306412 539307262 850 True 540 540 78.8290 627 1487 1 chr4A.!!$R7 860
21 TraesCS5A01G108200 chr4D 164194528 164195157 629 False 977 977 94.7620 1 627 1 chr4D.!!$F7 626
22 TraesCS5A01G108200 chr4D 164173895 164174523 628 False 966 966 94.4360 1 627 1 chr4D.!!$F6 626
23 TraesCS5A01G108200 chr4D 154805125 154805751 626 False 961 961 94.4180 1 623 1 chr4D.!!$F5 622
24 TraesCS5A01G108200 chr7D 246201905 246202537 632 False 965 965 94.3130 1 627 1 chr7D.!!$F2 626
25 TraesCS5A01G108200 chr7D 65083493 65084122 629 True 961 961 94.2860 1 626 1 chr7D.!!$R1 625
26 TraesCS5A01G108200 chr7D 320420389 320420968 579 True 507 507 82.6600 2560 3146 1 chr7D.!!$R2 586
27 TraesCS5A01G108200 chr5D 95839381 95840012 631 True 963 963 94.3040 1 626 1 chr5D.!!$R2 625
28 TraesCS5A01G108200 chr5D 163619218 163620137 919 False 544 544 78.0690 627 1548 1 chr5D.!!$F4 921
29 TraesCS5A01G108200 chr2D 316645497 316646126 629 False 961 961 94.2950 1 627 1 chr2D.!!$F1 626
30 TraesCS5A01G108200 chr1D 199294075 199294704 629 True 961 961 94.2860 1 626 1 chr1D.!!$R3 625
31 TraesCS5A01G108200 chr3A 566362001 566362616 615 True 758 758 88.9420 2528 3146 1 chr3A.!!$R2 618
32 TraesCS5A01G108200 chr3A 331397151 331397767 616 False 723 723 87.8790 2525 3146 1 chr3A.!!$F1 621
33 TraesCS5A01G108200 chr3A 566344332 566344930 598 True 673 673 86.9570 2528 3143 1 chr3A.!!$R1 615
34 TraesCS5A01G108200 chr7A 300168823 300169502 679 True 702 702 85.4840 2477 3150 1 chr7A.!!$R2 673
35 TraesCS5A01G108200 chr7A 200592533 200593391 858 False 551 551 79.0180 622 1487 1 chr7A.!!$F3 865
36 TraesCS5A01G108200 chr7A 445122322 445123194 872 True 536 536 78.5320 622 1487 1 chr7A.!!$R8 865
37 TraesCS5A01G108200 chr7A 82184134 82185012 878 False 531 531 78.3810 622 1487 1 chr7A.!!$F2 865
38 TraesCS5A01G108200 chr7A 319140431 319141308 877 True 483 483 77.5690 627 1489 1 chr7A.!!$R3 862
39 TraesCS5A01G108200 chr7A 382387191 382388056 865 True 448 448 76.7680 627 1487 1 chr7A.!!$R7 860
40 TraesCS5A01G108200 chr7A 591933363 591934214 851 True 429 606 85.8865 2332 3146 2 chr7A.!!$R10 814
41 TraesCS5A01G108200 chr2A 361431427 361432271 844 True 678 678 81.4140 622 1489 1 chr2A.!!$R7 867
42 TraesCS5A01G108200 chr2A 279062920 279066064 3144 True 584 623 82.9495 628 3146 2 chr2A.!!$R9 2518
43 TraesCS5A01G108200 chr2A 279054611 279055193 582 True 525 525 83.2200 2560 3138 1 chr2A.!!$R5 578
44 TraesCS5A01G108200 chr2A 236937905 236938494 589 True 510 510 82.6380 2560 3146 1 chr2A.!!$R3 586
45 TraesCS5A01G108200 chr7B 428262654 428263463 809 False 665 665 81.7410 627 1443 1 chr7B.!!$F1 816
46 TraesCS5A01G108200 chr7B 568632749 568633480 731 True 621 621 82.3840 627 1365 1 chr7B.!!$R1 738
47 TraesCS5A01G108200 chr4B 530849145 530849877 732 False 647 647 82.8080 627 1379 1 chr4B.!!$F1 752
48 TraesCS5A01G108200 chr4B 574742526 574743274 748 True 617 617 81.8060 627 1379 1 chr4B.!!$R1 752
49 TraesCS5A01G108200 chrUn 53201937 53202692 755 False 636 636 82.1470 627 1386 1 chrUn.!!$F4 759
50 TraesCS5A01G108200 chr2B 778383153 778383889 736 False 632 632 82.4380 628 1379 1 chr2B.!!$F1 751
51 TraesCS5A01G108200 chr2B 778391006 778391744 738 False 630 630 82.3760 628 1381 1 chr2B.!!$F2 753
52 TraesCS5A01G108200 chr1A 42701233 42701888 655 True 549 549 82.0060 2477 3146 1 chr1A.!!$R2 669
53 TraesCS5A01G108200 chr1A 170263536 170264386 850 True 545 545 79.0120 627 1487 1 chr1A.!!$R4 860
54 TraesCS5A01G108200 chr1A 42676528 42677185 657 True 523 523 81.3510 2477 3146 1 chr1A.!!$R1 669
55 TraesCS5A01G108200 chr1A 311435999 311436854 855 True 486 486 77.6910 627 1491 1 chr1A.!!$R10 864
56 TraesCS5A01G108200 chr1A 311427239 311428090 851 True 484 484 77.6520 627 1487 1 chr1A.!!$R9 860
57 TraesCS5A01G108200 chr1A 438103528 438104385 857 True 475 475 77.4630 622 1471 1 chr1A.!!$R12 849
58 TraesCS5A01G108200 chr1A 362594482 362595069 587 False 446 446 80.8260 2560 3149 1 chr1A.!!$F9 589
59 TraesCS5A01G108200 chr1A 184892109 184892957 848 True 420 420 76.5170 628 1487 1 chr1A.!!$R6 859
60 TraesCS5A01G108200 chr1A 362586660 362587244 584 False 412 412 79.9340 2560 3146 1 chr1A.!!$F8 586
61 TraesCS5A01G108200 chr1A 318321446 318322023 577 True 357 357 78.4050 2556 3144 1 chr1A.!!$R11 588
62 TraesCS5A01G108200 chr5B 159683293 159683876 583 False 333 333 77.8850 2542 3146 1 chr5B.!!$F1 604

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
619 634 0.039165 GCAACCCGGAAAGAAGCAAG 60.039 55.0 0.73 0.0 0.0 4.01 F
1408 1547 0.108520 GCGTTACATGGGTCTTCGGA 60.109 55.0 0.00 0.0 0.0 4.55 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1568 1730 0.387622 CCGTTACTCGAAGAACCGCA 60.388 55.0 4.07 0.0 42.86 5.69 R
2379 3454 0.476338 CGATCTCTCCCTCTCCCTCA 59.524 60.0 0.00 0.0 0.00 3.86 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
38 42 3.709141 AGGTGGCAAATGTAAAACCAAGT 59.291 39.130 0.00 0.00 30.82 3.16
86 90 5.165961 TCAAAGAGAACTATCAAGGGGTG 57.834 43.478 0.00 0.00 0.00 4.61
157 163 1.483415 GGTATGACGGAAACTAGGGCA 59.517 52.381 0.00 0.00 0.00 5.36
208 215 1.064389 GCTGAGCCTTCCACCCTTTAT 60.064 52.381 0.00 0.00 0.00 1.40
333 344 3.677156 ATAAGAGGGGCTGAGCAAAAT 57.323 42.857 6.82 0.00 0.00 1.82
427 439 7.441836 CATGATATAACAAGTGGTAGGTAGCA 58.558 38.462 0.00 0.00 0.00 3.49
435 447 3.788333 GTGGTAGGTAGCACGACATAA 57.212 47.619 3.71 0.00 43.57 1.90
536 549 4.703897 AGAAGAACGTGTCCATGAAGAAA 58.296 39.130 0.00 0.00 0.00 2.52
574 587 1.254026 ACGAATCCTCACAACTCCGA 58.746 50.000 0.00 0.00 0.00 4.55
592 605 2.414138 CCGAAACGAAACCGAAGCTAAT 59.586 45.455 0.00 0.00 0.00 1.73
619 634 0.039165 GCAACCCGGAAAGAAGCAAG 60.039 55.000 0.73 0.00 0.00 4.01
1077 1137 6.819397 AACATATCTGATGATCTGGCAATG 57.181 37.500 0.00 4.38 32.93 2.82
1084 1145 0.322366 TGATCTGGCAATGCGTGGAA 60.322 50.000 0.00 0.00 0.00 3.53
1127 1200 2.174107 CAGTGTGCGGAACATGCG 59.826 61.111 0.00 0.00 41.97 4.73
1138 1211 0.654683 GAACATGCGAGAGTGATGGC 59.345 55.000 0.00 0.00 0.00 4.40
1408 1547 0.108520 GCGTTACATGGGTCTTCGGA 60.109 55.000 0.00 0.00 0.00 4.55
1510 1663 0.877071 GTCGTCGTGGGAAGTAGTCA 59.123 55.000 0.00 0.00 0.00 3.41
1539 1701 1.182667 ACTTGTCGGATCCACGATGA 58.817 50.000 13.41 0.00 45.47 2.92
1568 1730 3.454587 TTCACGGCGCTTGTGACCT 62.455 57.895 27.46 0.00 45.42 3.85
1580 1742 1.006571 GTGACCTGCGGTTCTTCGA 60.007 57.895 1.80 0.00 35.25 3.71
1582 1744 1.289380 GACCTGCGGTTCTTCGAGT 59.711 57.895 1.80 0.00 35.25 4.18
1606 1872 2.159894 CGGTAGTCGTACACGTTCGTAA 60.160 50.000 1.19 0.00 40.80 3.18
1611 1877 3.908382 AGTCGTACACGTTCGTAAATGTC 59.092 43.478 1.19 0.00 40.80 3.06
1613 1879 2.025571 CGTACACGTTCGTAAATGTCCG 59.974 50.000 0.00 0.00 32.16 4.79
1618 1884 0.392060 GTTCGTAAATGTCCGGGGCT 60.392 55.000 0.00 0.00 0.00 5.19
1637 1903 2.444421 CTGTCGGTAGAGGTACTTGGT 58.556 52.381 0.00 0.00 41.55 3.67
1707 1973 2.527100 CTCATCGTGGTACTTCGTTCC 58.473 52.381 9.22 0.00 0.00 3.62
1733 1999 2.216046 TGTAGTCGTACTAGGCATCGG 58.784 52.381 0.00 0.00 30.12 4.18
1839 2172 2.651455 CAAGTGGAGGTGCATGATGAT 58.349 47.619 0.00 0.00 0.00 2.45
2017 2736 2.364317 CGGAGGGAGGAAGAGGCA 60.364 66.667 0.00 0.00 0.00 4.75
2089 2815 0.759346 AGCTGGAAGTTGAGGTCGTT 59.241 50.000 0.00 0.00 35.30 3.85
2100 2826 0.456628 GAGGTCGTTGGAGGACTAGC 59.543 60.000 0.00 0.00 33.80 3.42
2106 2832 2.415608 TTGGAGGACTAGCTCGCCG 61.416 63.158 0.00 0.00 0.00 6.46
2273 3002 2.048222 CAAAGCGGAGGTGCTCGA 60.048 61.111 0.00 0.00 46.60 4.04
2325 3054 0.612174 CTGACGGAGGAAGGAGGTCA 60.612 60.000 0.00 0.00 36.33 4.02
2348 3077 1.316266 CTGGAGGGAGATGGGGACT 59.684 63.158 0.00 0.00 0.00 3.85
2352 3081 1.055040 GAGGGAGATGGGGACTGATG 58.945 60.000 0.00 0.00 0.00 3.07
2737 3924 3.305608 CCAAAGGAGTTTGAATGCAGTCC 60.306 47.826 12.27 0.00 45.22 3.85
2846 4039 2.015587 CTTGAAGGAGAAGAGGCATGC 58.984 52.381 9.90 9.90 0.00 4.06
3149 4390 1.414919 GGTCTTGGGGCGTCACATATA 59.585 52.381 0.00 0.00 0.00 0.86
3151 4392 3.496160 GGTCTTGGGGCGTCACATATATT 60.496 47.826 0.00 0.00 0.00 1.28
3152 4393 3.746492 GTCTTGGGGCGTCACATATATTC 59.254 47.826 0.00 0.00 0.00 1.75
3153 4394 3.389656 TCTTGGGGCGTCACATATATTCA 59.610 43.478 0.00 0.00 0.00 2.57
3154 4395 4.041567 TCTTGGGGCGTCACATATATTCAT 59.958 41.667 0.00 0.00 0.00 2.57
3155 4396 5.247337 TCTTGGGGCGTCACATATATTCATA 59.753 40.000 0.00 0.00 0.00 2.15
3156 4397 5.491323 TGGGGCGTCACATATATTCATAA 57.509 39.130 0.00 0.00 0.00 1.90
3157 4398 5.487433 TGGGGCGTCACATATATTCATAAG 58.513 41.667 0.00 0.00 0.00 1.73
3158 4399 4.876107 GGGGCGTCACATATATTCATAAGG 59.124 45.833 0.00 0.00 0.00 2.69
3159 4400 5.488341 GGGCGTCACATATATTCATAAGGT 58.512 41.667 0.00 0.00 0.00 3.50
3160 4401 6.351541 GGGGCGTCACATATATTCATAAGGTA 60.352 42.308 0.00 0.00 0.00 3.08
3161 4402 7.101054 GGGCGTCACATATATTCATAAGGTAA 58.899 38.462 0.00 0.00 0.00 2.85
3162 4403 7.769044 GGGCGTCACATATATTCATAAGGTAAT 59.231 37.037 0.00 0.00 0.00 1.89
3163 4404 9.162764 GGCGTCACATATATTCATAAGGTAATT 57.837 33.333 0.00 0.00 0.00 1.40
3199 4440 3.303881 GAAAGTGTTCCATGCCTTTCC 57.696 47.619 0.00 0.00 37.76 3.13
3200 4441 2.683211 AAGTGTTCCATGCCTTTCCT 57.317 45.000 0.00 0.00 0.00 3.36
3201 4442 2.683211 AGTGTTCCATGCCTTTCCTT 57.317 45.000 0.00 0.00 0.00 3.36
3202 4443 3.806949 AGTGTTCCATGCCTTTCCTTA 57.193 42.857 0.00 0.00 0.00 2.69
3203 4444 4.112634 AGTGTTCCATGCCTTTCCTTAA 57.887 40.909 0.00 0.00 0.00 1.85
3204 4445 3.826729 AGTGTTCCATGCCTTTCCTTAAC 59.173 43.478 0.00 0.00 0.00 2.01
3205 4446 2.817258 TGTTCCATGCCTTTCCTTAACG 59.183 45.455 0.00 0.00 0.00 3.18
3206 4447 2.122783 TCCATGCCTTTCCTTAACGG 57.877 50.000 0.00 0.00 0.00 4.44
3207 4448 1.631388 TCCATGCCTTTCCTTAACGGA 59.369 47.619 0.00 0.00 41.06 4.69
3249 4490 9.761504 TTTTCTTCTTTCATATCAACAATTGCA 57.238 25.926 5.05 0.00 0.00 4.08
3250 4491 8.746922 TTCTTCTTTCATATCAACAATTGCAC 57.253 30.769 5.05 0.00 0.00 4.57
3251 4492 7.315142 TCTTCTTTCATATCAACAATTGCACC 58.685 34.615 5.05 0.00 0.00 5.01
3252 4493 6.587206 TCTTTCATATCAACAATTGCACCA 57.413 33.333 5.05 0.00 0.00 4.17
3253 4494 6.990798 TCTTTCATATCAACAATTGCACCAA 58.009 32.000 5.05 0.00 0.00 3.67
3254 4495 7.613585 TCTTTCATATCAACAATTGCACCAAT 58.386 30.769 5.05 0.00 35.39 3.16
3255 4496 7.760794 TCTTTCATATCAACAATTGCACCAATC 59.239 33.333 5.05 0.00 32.43 2.67
3256 4497 6.527057 TCATATCAACAATTGCACCAATCA 57.473 33.333 5.05 0.00 32.43 2.57
3257 4498 7.114866 TCATATCAACAATTGCACCAATCAT 57.885 32.000 5.05 0.00 32.43 2.45
3258 4499 7.557724 TCATATCAACAATTGCACCAATCATT 58.442 30.769 5.05 0.00 32.43 2.57
3259 4500 7.707464 TCATATCAACAATTGCACCAATCATTC 59.293 33.333 5.05 0.00 32.43 2.67
3260 4501 5.471556 TCAACAATTGCACCAATCATTCT 57.528 34.783 5.05 0.00 32.43 2.40
3261 4502 6.587206 TCAACAATTGCACCAATCATTCTA 57.413 33.333 5.05 0.00 32.43 2.10
3262 4503 6.990798 TCAACAATTGCACCAATCATTCTAA 58.009 32.000 5.05 0.00 32.43 2.10
3263 4504 7.092079 TCAACAATTGCACCAATCATTCTAAG 58.908 34.615 5.05 0.00 32.43 2.18
3264 4505 5.969423 ACAATTGCACCAATCATTCTAAGG 58.031 37.500 5.05 0.00 32.43 2.69
3265 4506 5.716228 ACAATTGCACCAATCATTCTAAGGA 59.284 36.000 5.05 0.00 32.43 3.36
3266 4507 6.211184 ACAATTGCACCAATCATTCTAAGGAA 59.789 34.615 5.05 0.00 32.43 3.36
3267 4508 6.855763 ATTGCACCAATCATTCTAAGGAAA 57.144 33.333 0.00 0.00 29.71 3.13
3268 4509 5.902613 TGCACCAATCATTCTAAGGAAAG 57.097 39.130 0.00 0.00 34.90 2.62
3269 4510 4.706476 TGCACCAATCATTCTAAGGAAAGG 59.294 41.667 0.00 0.00 34.90 3.11
3270 4511 4.706962 GCACCAATCATTCTAAGGAAAGGT 59.293 41.667 0.00 0.13 34.90 3.50
3271 4512 5.163612 GCACCAATCATTCTAAGGAAAGGTC 60.164 44.000 2.38 0.00 34.90 3.85
3272 4513 6.183347 CACCAATCATTCTAAGGAAAGGTCT 58.817 40.000 2.38 0.00 34.90 3.85
3273 4514 7.338710 CACCAATCATTCTAAGGAAAGGTCTA 58.661 38.462 2.38 0.00 34.90 2.59
3274 4515 7.281100 CACCAATCATTCTAAGGAAAGGTCTAC 59.719 40.741 2.38 0.00 34.90 2.59
3275 4516 6.768381 CCAATCATTCTAAGGAAAGGTCTACC 59.232 42.308 0.00 0.00 34.90 3.18
3276 4517 7.338710 CAATCATTCTAAGGAAAGGTCTACCA 58.661 38.462 1.26 0.00 34.90 3.25
3277 4518 6.945636 TCATTCTAAGGAAAGGTCTACCAA 57.054 37.500 1.26 0.00 34.90 3.67
3278 4519 6.947464 TCATTCTAAGGAAAGGTCTACCAAG 58.053 40.000 1.26 0.00 34.90 3.61
3279 4520 6.729100 TCATTCTAAGGAAAGGTCTACCAAGA 59.271 38.462 1.26 0.00 34.90 3.02
3280 4521 7.236847 TCATTCTAAGGAAAGGTCTACCAAGAA 59.763 37.037 1.26 0.00 34.90 2.52
3281 4522 7.569599 TTCTAAGGAAAGGTCTACCAAGAAT 57.430 36.000 1.26 0.00 38.89 2.40
3282 4523 8.674925 TTCTAAGGAAAGGTCTACCAAGAATA 57.325 34.615 1.26 0.00 38.89 1.75
3283 4524 8.674925 TCTAAGGAAAGGTCTACCAAGAATAA 57.325 34.615 1.26 0.00 38.89 1.40
3284 4525 9.280456 TCTAAGGAAAGGTCTACCAAGAATAAT 57.720 33.333 1.26 0.00 38.89 1.28
3287 4528 8.035448 AGGAAAGGTCTACCAAGAATAATAGG 57.965 38.462 1.26 0.00 38.89 2.57
3288 4529 7.849904 AGGAAAGGTCTACCAAGAATAATAGGA 59.150 37.037 1.26 0.00 38.89 2.94
3289 4530 7.932491 GGAAAGGTCTACCAAGAATAATAGGAC 59.068 40.741 1.26 0.00 38.89 3.85
3290 4531 7.989947 AAGGTCTACCAAGAATAATAGGACA 57.010 36.000 1.26 0.00 38.89 4.02
3291 4532 8.568617 AAGGTCTACCAAGAATAATAGGACAT 57.431 34.615 1.26 0.00 38.89 3.06
3292 4533 7.967908 AGGTCTACCAAGAATAATAGGACATG 58.032 38.462 1.26 0.00 38.89 3.21
3293 4534 7.569111 AGGTCTACCAAGAATAATAGGACATGT 59.431 37.037 0.00 0.00 38.89 3.21
3294 4535 8.867097 GGTCTACCAAGAATAATAGGACATGTA 58.133 37.037 0.00 0.00 32.16 2.29
3295 4536 9.915629 GTCTACCAAGAATAATAGGACATGTAG 57.084 37.037 0.00 0.00 32.16 2.74
3296 4537 9.090103 TCTACCAAGAATAATAGGACATGTAGG 57.910 37.037 0.00 0.00 0.00 3.18
3297 4538 7.931015 ACCAAGAATAATAGGACATGTAGGA 57.069 36.000 0.00 0.00 0.00 2.94
3298 4539 8.511748 ACCAAGAATAATAGGACATGTAGGAT 57.488 34.615 0.00 0.00 0.00 3.24
3299 4540 8.949421 ACCAAGAATAATAGGACATGTAGGATT 58.051 33.333 0.00 1.05 0.00 3.01
3300 4541 9.224267 CCAAGAATAATAGGACATGTAGGATTG 57.776 37.037 0.00 0.00 0.00 2.67
3301 4542 8.725148 CAAGAATAATAGGACATGTAGGATTGC 58.275 37.037 0.00 0.00 0.00 3.56
3302 4543 7.977818 AGAATAATAGGACATGTAGGATTGCA 58.022 34.615 0.00 0.00 0.00 4.08
3303 4544 8.439971 AGAATAATAGGACATGTAGGATTGCAA 58.560 33.333 0.00 0.00 0.00 4.08
3304 4545 9.236006 GAATAATAGGACATGTAGGATTGCAAT 57.764 33.333 12.83 12.83 0.00 3.56
3305 4546 8.798859 ATAATAGGACATGTAGGATTGCAATC 57.201 34.615 27.91 27.91 34.66 2.67
3306 4547 4.508551 AGGACATGTAGGATTGCAATCA 57.491 40.909 34.08 19.07 37.15 2.57
3307 4548 4.858850 AGGACATGTAGGATTGCAATCAA 58.141 39.130 34.08 21.85 37.15 2.57
3308 4549 5.452255 AGGACATGTAGGATTGCAATCAAT 58.548 37.500 34.08 25.39 45.04 2.57
3309 4550 6.604171 AGGACATGTAGGATTGCAATCAATA 58.396 36.000 34.08 24.49 42.60 1.90
3310 4551 7.236529 AGGACATGTAGGATTGCAATCAATAT 58.763 34.615 34.08 23.19 42.60 1.28
3311 4552 7.392673 AGGACATGTAGGATTGCAATCAATATC 59.607 37.037 34.08 21.19 42.60 1.63
3312 4553 7.175467 GGACATGTAGGATTGCAATCAATATCA 59.825 37.037 34.08 24.62 42.60 2.15
3313 4554 8.467963 ACATGTAGGATTGCAATCAATATCAA 57.532 30.769 34.08 18.24 42.60 2.57
3314 4555 8.573885 ACATGTAGGATTGCAATCAATATCAAG 58.426 33.333 34.08 23.18 42.60 3.02
3315 4556 8.789762 CATGTAGGATTGCAATCAATATCAAGA 58.210 33.333 34.08 13.90 42.60 3.02
3316 4557 8.750515 TGTAGGATTGCAATCAATATCAAGAA 57.249 30.769 34.08 10.53 42.60 2.52
3317 4558 8.623903 TGTAGGATTGCAATCAATATCAAGAAC 58.376 33.333 34.08 17.90 42.60 3.01
3318 4559 7.649533 AGGATTGCAATCAATATCAAGAACA 57.350 32.000 34.08 0.00 42.60 3.18
3319 4560 8.070034 AGGATTGCAATCAATATCAAGAACAA 57.930 30.769 34.08 0.00 42.60 2.83
3320 4561 8.701895 AGGATTGCAATCAATATCAAGAACAAT 58.298 29.630 34.08 0.00 42.60 2.71
3321 4562 8.761497 GGATTGCAATCAATATCAAGAACAATG 58.239 33.333 34.08 0.00 42.60 2.82
3322 4563 9.524106 GATTGCAATCAATATCAAGAACAATGA 57.476 29.630 30.15 0.00 42.60 2.57
3323 4564 9.878667 ATTGCAATCAATATCAAGAACAATGAA 57.121 25.926 5.99 0.00 40.89 2.57
3324 4565 9.708092 TTGCAATCAATATCAAGAACAATGAAA 57.292 25.926 0.00 0.00 0.00 2.69
3325 4566 9.878667 TGCAATCAATATCAAGAACAATGAAAT 57.121 25.926 0.00 0.00 0.00 2.17
3331 4572 9.655769 CAATATCAAGAACAATGAAATCTACGG 57.344 33.333 0.00 0.00 0.00 4.02
3332 4573 6.683974 ATCAAGAACAATGAAATCTACGGG 57.316 37.500 0.00 0.00 0.00 5.28
3333 4574 4.394920 TCAAGAACAATGAAATCTACGGGC 59.605 41.667 0.00 0.00 0.00 6.13
3334 4575 3.950397 AGAACAATGAAATCTACGGGCA 58.050 40.909 0.00 0.00 0.00 5.36
3335 4576 3.689649 AGAACAATGAAATCTACGGGCAC 59.310 43.478 0.00 0.00 0.00 5.01
3336 4577 3.066291 ACAATGAAATCTACGGGCACA 57.934 42.857 0.00 0.00 0.00 4.57
3337 4578 3.620488 ACAATGAAATCTACGGGCACAT 58.380 40.909 0.00 0.00 0.00 3.21
3338 4579 4.776349 ACAATGAAATCTACGGGCACATA 58.224 39.130 0.00 0.00 0.00 2.29
3339 4580 5.189928 ACAATGAAATCTACGGGCACATAA 58.810 37.500 0.00 0.00 0.00 1.90
3340 4581 5.827797 ACAATGAAATCTACGGGCACATAAT 59.172 36.000 0.00 0.00 0.00 1.28
3341 4582 6.321181 ACAATGAAATCTACGGGCACATAATT 59.679 34.615 0.00 0.00 0.00 1.40
3342 4583 6.560253 ATGAAATCTACGGGCACATAATTC 57.440 37.500 0.00 0.00 0.00 2.17
3343 4584 4.819630 TGAAATCTACGGGCACATAATTCC 59.180 41.667 0.00 0.00 0.00 3.01
3344 4585 4.706842 AATCTACGGGCACATAATTCCT 57.293 40.909 0.00 0.00 0.00 3.36
3345 4586 5.818678 AATCTACGGGCACATAATTCCTA 57.181 39.130 0.00 0.00 0.00 2.94
3346 4587 6.374417 AATCTACGGGCACATAATTCCTAT 57.626 37.500 0.00 0.00 0.00 2.57
3347 4588 5.818678 TCTACGGGCACATAATTCCTATT 57.181 39.130 0.00 0.00 0.00 1.73
3348 4589 6.182507 TCTACGGGCACATAATTCCTATTT 57.817 37.500 0.00 0.00 0.00 1.40
3349 4590 5.995282 TCTACGGGCACATAATTCCTATTTG 59.005 40.000 0.00 0.00 0.00 2.32
3350 4591 3.317993 ACGGGCACATAATTCCTATTTGC 59.682 43.478 0.00 0.00 41.23 3.68
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
38 42 2.118076 CCTCCAGCAAGGCCCAAA 59.882 61.111 0.00 0.00 37.29 3.28
86 90 2.706834 GCGGTTGGGTGTTATGGGC 61.707 63.158 0.00 0.00 0.00 5.36
157 163 2.427095 GGTGTTTTGTTCCACTCTTGCT 59.573 45.455 0.00 0.00 0.00 3.91
190 196 2.274542 TGATAAAGGGTGGAAGGCTCA 58.725 47.619 0.00 0.00 0.00 4.26
276 287 4.036734 GCAGGTGAAGATGAAGTTTGTTCA 59.963 41.667 0.00 0.00 0.00 3.18
333 344 2.134346 GTTGTTTGGCTACGTTACCGA 58.866 47.619 0.00 0.00 37.88 4.69
427 439 4.740268 TGTTCGCTCTATTGTTATGTCGT 58.260 39.130 0.00 0.00 0.00 4.34
435 447 4.188247 TGCTAGTTGTTCGCTCTATTGT 57.812 40.909 0.00 0.00 0.00 2.71
536 549 2.727798 CGTTCGACTACGTCCATTTGTT 59.272 45.455 0.00 0.00 40.69 2.83
574 587 4.312443 TCTCATTAGCTTCGGTTTCGTTT 58.688 39.130 0.00 0.00 37.69 3.60
592 605 0.762418 TTTCCGGGTTGCTTCTCTCA 59.238 50.000 0.00 0.00 0.00 3.27
989 1045 2.611751 CGTTCCGCCATGATGACAAATA 59.388 45.455 0.00 0.00 0.00 1.40
1084 1145 2.904866 TTCTTTTGCACCGGCGCT 60.905 55.556 16.69 0.00 45.35 5.92
1127 1200 2.288518 GGGATTACTCGCCATCACTCTC 60.289 54.545 0.00 0.00 0.00 3.20
1160 1235 0.240945 CTTGCCACCGTCATTGGAAC 59.759 55.000 0.00 0.00 36.02 3.62
1161 1236 0.893270 CCTTGCCACCGTCATTGGAA 60.893 55.000 0.00 0.00 36.02 3.53
1162 1237 1.303236 CCTTGCCACCGTCATTGGA 60.303 57.895 0.00 0.00 36.02 3.53
1164 1239 0.958091 TTTCCTTGCCACCGTCATTG 59.042 50.000 0.00 0.00 0.00 2.82
1165 1240 0.958822 GTTTCCTTGCCACCGTCATT 59.041 50.000 0.00 0.00 0.00 2.57
1510 1663 3.181489 GGATCCGACAAGTTCACGAGTAT 60.181 47.826 0.00 0.00 0.00 2.12
1568 1730 0.387622 CCGTTACTCGAAGAACCGCA 60.388 55.000 4.07 0.00 42.86 5.69
1613 1879 1.076485 TACCTCTACCGACAGCCCC 60.076 63.158 0.00 0.00 0.00 5.80
1618 1884 2.592102 ACCAAGTACCTCTACCGACA 57.408 50.000 0.00 0.00 0.00 4.35
1637 1903 4.558697 CGAATCGCCAAGTCCAGTGATATA 60.559 45.833 0.00 0.00 33.03 0.86
1707 1973 2.208431 CCTAGTACGACTACAGGACCG 58.792 57.143 0.00 0.00 0.00 4.79
1733 1999 2.593956 AAGCCCCTCGAAGGTCCAC 61.594 63.158 0.00 0.00 31.93 4.02
1936 2655 2.110835 TTTCGCTGCCTGCTGACA 59.889 55.556 0.00 0.00 40.11 3.58
1996 2715 0.614979 CCTCTTCCTCCCTCCGTTCA 60.615 60.000 0.00 0.00 0.00 3.18
2070 2796 0.759346 AACGACCTCAACTTCCAGCT 59.241 50.000 0.00 0.00 0.00 4.24
2080 2806 1.835494 CTAGTCCTCCAACGACCTCA 58.165 55.000 0.00 0.00 0.00 3.86
2089 2815 2.829003 CGGCGAGCTAGTCCTCCA 60.829 66.667 0.00 0.00 0.00 3.86
2127 2853 2.628696 CGCTGCCATTGCCACAAGA 61.629 57.895 0.00 0.00 36.33 3.02
2257 2986 2.262915 CTCGAGCACCTCCGCTTT 59.737 61.111 0.00 0.00 44.01 3.51
2289 3018 2.044946 GCTCCGCCCCATGACTTT 60.045 61.111 0.00 0.00 0.00 2.66
2325 3054 3.160047 CATCTCCCTCCAGCGCCT 61.160 66.667 2.29 0.00 0.00 5.52
2348 3077 2.060383 CGCCAGAGAGACCCCATCA 61.060 63.158 0.00 0.00 0.00 3.07
2379 3454 0.476338 CGATCTCTCCCTCTCCCTCA 59.524 60.000 0.00 0.00 0.00 3.86
2737 3924 2.472695 TTGGACACTCCGAAATCCTG 57.527 50.000 0.00 0.00 40.17 3.86
2846 4039 6.922957 ACCATAACACACTTGCATTTTAGTTG 59.077 34.615 0.00 0.00 0.00 3.16
2938 4145 7.578310 AATTGAGGGAATTCACATAGTGATG 57.422 36.000 11.02 0.00 42.40 3.07
3183 4424 6.393849 CCGTTAAGGAAAGGCATGGAACAC 62.394 50.000 0.00 0.00 43.21 3.32
3184 4425 4.370375 CCGTTAAGGAAAGGCATGGAACA 61.370 47.826 0.00 0.00 44.47 3.18
3185 4426 2.163613 CCGTTAAGGAAAGGCATGGAAC 59.836 50.000 0.00 0.00 45.00 3.62
3186 4427 2.442413 CCGTTAAGGAAAGGCATGGAA 58.558 47.619 0.00 0.00 45.00 3.53
3187 4428 2.122783 CCGTTAAGGAAAGGCATGGA 57.877 50.000 0.00 0.00 45.00 3.41
3223 4464 9.761504 TGCAATTGTTGATATGAAAGAAGAAAA 57.238 25.926 7.40 0.00 0.00 2.29
3224 4465 9.195411 GTGCAATTGTTGATATGAAAGAAGAAA 57.805 29.630 7.40 0.00 0.00 2.52
3225 4466 7.814107 GGTGCAATTGTTGATATGAAAGAAGAA 59.186 33.333 7.40 0.00 0.00 2.52
3226 4467 7.039853 TGGTGCAATTGTTGATATGAAAGAAGA 60.040 33.333 7.40 0.00 0.00 2.87
3227 4468 7.092079 TGGTGCAATTGTTGATATGAAAGAAG 58.908 34.615 7.40 0.00 0.00 2.85
3228 4469 6.990798 TGGTGCAATTGTTGATATGAAAGAA 58.009 32.000 7.40 0.00 0.00 2.52
3229 4470 6.587206 TGGTGCAATTGTTGATATGAAAGA 57.413 33.333 7.40 0.00 0.00 2.52
3230 4471 7.546316 TGATTGGTGCAATTGTTGATATGAAAG 59.454 33.333 7.40 0.00 33.90 2.62
3231 4472 7.384477 TGATTGGTGCAATTGTTGATATGAAA 58.616 30.769 7.40 0.00 33.90 2.69
3232 4473 6.932947 TGATTGGTGCAATTGTTGATATGAA 58.067 32.000 7.40 0.00 33.90 2.57
3233 4474 6.527057 TGATTGGTGCAATTGTTGATATGA 57.473 33.333 7.40 0.00 33.90 2.15
3234 4475 7.709182 AGAATGATTGGTGCAATTGTTGATATG 59.291 33.333 7.40 0.00 33.90 1.78
3235 4476 7.788026 AGAATGATTGGTGCAATTGTTGATAT 58.212 30.769 7.40 0.00 33.90 1.63
3236 4477 7.172868 AGAATGATTGGTGCAATTGTTGATA 57.827 32.000 7.40 0.00 33.90 2.15
3237 4478 6.045072 AGAATGATTGGTGCAATTGTTGAT 57.955 33.333 7.40 0.00 33.90 2.57
3238 4479 5.471556 AGAATGATTGGTGCAATTGTTGA 57.528 34.783 7.40 0.00 33.90 3.18
3239 4480 6.311935 CCTTAGAATGATTGGTGCAATTGTTG 59.688 38.462 7.40 0.00 33.90 3.33
3240 4481 6.211184 TCCTTAGAATGATTGGTGCAATTGTT 59.789 34.615 7.40 0.00 33.90 2.83
3241 4482 5.716228 TCCTTAGAATGATTGGTGCAATTGT 59.284 36.000 7.40 0.00 33.90 2.71
3242 4483 6.211587 TCCTTAGAATGATTGGTGCAATTG 57.788 37.500 0.00 0.00 33.90 2.32
3243 4484 6.855763 TTCCTTAGAATGATTGGTGCAATT 57.144 33.333 0.00 0.00 33.90 2.32
3244 4485 6.127253 CCTTTCCTTAGAATGATTGGTGCAAT 60.127 38.462 0.00 0.00 36.72 3.56
3245 4486 5.185635 CCTTTCCTTAGAATGATTGGTGCAA 59.814 40.000 0.00 0.00 30.53 4.08
3246 4487 4.706476 CCTTTCCTTAGAATGATTGGTGCA 59.294 41.667 0.00 0.00 30.53 4.57
3247 4488 4.706962 ACCTTTCCTTAGAATGATTGGTGC 59.293 41.667 0.00 0.00 30.53 5.01
3248 4489 6.183347 AGACCTTTCCTTAGAATGATTGGTG 58.817 40.000 0.00 0.00 30.53 4.17
3249 4490 6.394345 AGACCTTTCCTTAGAATGATTGGT 57.606 37.500 0.00 0.00 30.53 3.67
3250 4491 6.768381 GGTAGACCTTTCCTTAGAATGATTGG 59.232 42.308 0.00 0.00 30.53 3.16
3251 4492 7.338710 TGGTAGACCTTTCCTTAGAATGATTG 58.661 38.462 0.00 0.00 36.82 2.67
3252 4493 7.510675 TGGTAGACCTTTCCTTAGAATGATT 57.489 36.000 0.00 0.00 36.82 2.57
3253 4494 7.403231 TCTTGGTAGACCTTTCCTTAGAATGAT 59.597 37.037 0.00 0.00 36.82 2.45
3254 4495 6.729100 TCTTGGTAGACCTTTCCTTAGAATGA 59.271 38.462 0.00 0.00 36.82 2.57
3255 4496 6.947464 TCTTGGTAGACCTTTCCTTAGAATG 58.053 40.000 0.00 0.00 36.82 2.67
3256 4497 7.569599 TTCTTGGTAGACCTTTCCTTAGAAT 57.430 36.000 0.00 0.00 36.82 2.40
3257 4498 7.569599 ATTCTTGGTAGACCTTTCCTTAGAA 57.430 36.000 0.00 0.00 36.82 2.10
3258 4499 8.674925 TTATTCTTGGTAGACCTTTCCTTAGA 57.325 34.615 0.00 0.00 36.82 2.10
3261 4502 8.495260 CCTATTATTCTTGGTAGACCTTTCCTT 58.505 37.037 0.00 0.00 36.82 3.36
3262 4503 7.849904 TCCTATTATTCTTGGTAGACCTTTCCT 59.150 37.037 0.00 0.00 36.82 3.36
3263 4504 7.932491 GTCCTATTATTCTTGGTAGACCTTTCC 59.068 40.741 0.00 0.00 36.82 3.13
3264 4505 8.483758 TGTCCTATTATTCTTGGTAGACCTTTC 58.516 37.037 0.00 0.00 36.82 2.62
3265 4506 8.388656 TGTCCTATTATTCTTGGTAGACCTTT 57.611 34.615 0.00 0.00 36.82 3.11
3266 4507 7.989947 TGTCCTATTATTCTTGGTAGACCTT 57.010 36.000 0.00 0.00 36.82 3.50
3267 4508 7.569111 ACATGTCCTATTATTCTTGGTAGACCT 59.431 37.037 0.00 0.00 36.82 3.85
3268 4509 7.736893 ACATGTCCTATTATTCTTGGTAGACC 58.263 38.462 0.00 0.00 0.00 3.85
3269 4510 9.915629 CTACATGTCCTATTATTCTTGGTAGAC 57.084 37.037 0.00 0.00 0.00 2.59
3270 4511 9.090103 CCTACATGTCCTATTATTCTTGGTAGA 57.910 37.037 0.00 0.00 0.00 2.59
3271 4512 9.090103 TCCTACATGTCCTATTATTCTTGGTAG 57.910 37.037 0.00 0.00 0.00 3.18
3272 4513 9.615660 ATCCTACATGTCCTATTATTCTTGGTA 57.384 33.333 0.00 0.00 0.00 3.25
3273 4514 7.931015 TCCTACATGTCCTATTATTCTTGGT 57.069 36.000 0.00 0.00 0.00 3.67
3274 4515 9.224267 CAATCCTACATGTCCTATTATTCTTGG 57.776 37.037 0.00 0.00 0.00 3.61
3275 4516 8.725148 GCAATCCTACATGTCCTATTATTCTTG 58.275 37.037 0.00 0.00 0.00 3.02
3276 4517 8.439971 TGCAATCCTACATGTCCTATTATTCTT 58.560 33.333 0.00 0.00 0.00 2.52
3277 4518 7.977818 TGCAATCCTACATGTCCTATTATTCT 58.022 34.615 0.00 0.00 0.00 2.40
3278 4519 8.621532 TTGCAATCCTACATGTCCTATTATTC 57.378 34.615 0.00 0.00 0.00 1.75
3279 4520 9.236006 GATTGCAATCCTACATGTCCTATTATT 57.764 33.333 26.03 0.00 0.00 1.40
3280 4521 8.385491 TGATTGCAATCCTACATGTCCTATTAT 58.615 33.333 31.35 0.00 34.50 1.28
3281 4522 7.744733 TGATTGCAATCCTACATGTCCTATTA 58.255 34.615 31.35 8.62 34.50 0.98
3282 4523 6.604171 TGATTGCAATCCTACATGTCCTATT 58.396 36.000 31.35 0.00 34.50 1.73
3283 4524 6.191657 TGATTGCAATCCTACATGTCCTAT 57.808 37.500 31.35 0.00 34.50 2.57
3284 4525 5.628797 TGATTGCAATCCTACATGTCCTA 57.371 39.130 31.35 9.82 34.50 2.94
3285 4526 4.508551 TGATTGCAATCCTACATGTCCT 57.491 40.909 31.35 0.00 34.50 3.85
3286 4527 5.779529 ATTGATTGCAATCCTACATGTCC 57.220 39.130 31.35 8.48 40.65 4.02
3287 4528 8.102800 TGATATTGATTGCAATCCTACATGTC 57.897 34.615 31.35 23.40 43.43 3.06
3288 4529 8.467963 TTGATATTGATTGCAATCCTACATGT 57.532 30.769 31.35 17.92 43.43 3.21
3289 4530 8.789762 TCTTGATATTGATTGCAATCCTACATG 58.210 33.333 31.35 22.98 43.43 3.21
3290 4531 8.929260 TCTTGATATTGATTGCAATCCTACAT 57.071 30.769 31.35 20.26 43.43 2.29
3291 4532 8.623903 GTTCTTGATATTGATTGCAATCCTACA 58.376 33.333 31.35 21.31 43.43 2.74
3292 4533 8.623903 TGTTCTTGATATTGATTGCAATCCTAC 58.376 33.333 31.35 19.45 43.43 3.18
3293 4534 8.750515 TGTTCTTGATATTGATTGCAATCCTA 57.249 30.769 31.35 23.36 43.43 2.94
3294 4535 7.649533 TGTTCTTGATATTGATTGCAATCCT 57.350 32.000 31.35 22.18 43.43 3.24
3295 4536 8.761497 CATTGTTCTTGATATTGATTGCAATCC 58.239 33.333 31.35 18.44 43.43 3.01
3296 4537 9.524106 TCATTGTTCTTGATATTGATTGCAATC 57.476 29.630 28.83 28.83 43.43 2.67
3297 4538 9.878667 TTCATTGTTCTTGATATTGATTGCAAT 57.121 25.926 12.83 12.83 46.11 3.56
3298 4539 9.708092 TTTCATTGTTCTTGATATTGATTGCAA 57.292 25.926 0.00 0.00 38.60 4.08
3299 4540 9.878667 ATTTCATTGTTCTTGATATTGATTGCA 57.121 25.926 0.00 0.00 0.00 4.08
3305 4546 9.655769 CCGTAGATTTCATTGTTCTTGATATTG 57.344 33.333 0.00 0.00 0.00 1.90
3306 4547 8.840321 CCCGTAGATTTCATTGTTCTTGATATT 58.160 33.333 0.00 0.00 0.00 1.28
3307 4548 7.041098 GCCCGTAGATTTCATTGTTCTTGATAT 60.041 37.037 0.00 0.00 0.00 1.63
3308 4549 6.260050 GCCCGTAGATTTCATTGTTCTTGATA 59.740 38.462 0.00 0.00 0.00 2.15
3309 4550 5.066505 GCCCGTAGATTTCATTGTTCTTGAT 59.933 40.000 0.00 0.00 0.00 2.57
3310 4551 4.394920 GCCCGTAGATTTCATTGTTCTTGA 59.605 41.667 0.00 0.00 0.00 3.02
3311 4552 4.155826 TGCCCGTAGATTTCATTGTTCTTG 59.844 41.667 0.00 0.00 0.00 3.02
3312 4553 4.156008 GTGCCCGTAGATTTCATTGTTCTT 59.844 41.667 0.00 0.00 0.00 2.52
3313 4554 3.689649 GTGCCCGTAGATTTCATTGTTCT 59.310 43.478 0.00 0.00 0.00 3.01
3314 4555 3.438781 TGTGCCCGTAGATTTCATTGTTC 59.561 43.478 0.00 0.00 0.00 3.18
3315 4556 3.417101 TGTGCCCGTAGATTTCATTGTT 58.583 40.909 0.00 0.00 0.00 2.83
3316 4557 3.066291 TGTGCCCGTAGATTTCATTGT 57.934 42.857 0.00 0.00 0.00 2.71
3317 4558 5.749596 TTATGTGCCCGTAGATTTCATTG 57.250 39.130 0.00 0.00 0.00 2.82
3318 4559 6.016276 GGAATTATGTGCCCGTAGATTTCATT 60.016 38.462 0.00 0.00 0.00 2.57
3319 4560 5.473504 GGAATTATGTGCCCGTAGATTTCAT 59.526 40.000 0.00 0.00 0.00 2.57
3320 4561 4.819630 GGAATTATGTGCCCGTAGATTTCA 59.180 41.667 0.00 0.00 0.00 2.69
3321 4562 5.063880 AGGAATTATGTGCCCGTAGATTTC 58.936 41.667 0.00 0.00 0.00 2.17
3322 4563 5.048846 AGGAATTATGTGCCCGTAGATTT 57.951 39.130 0.00 0.00 0.00 2.17
3323 4564 4.706842 AGGAATTATGTGCCCGTAGATT 57.293 40.909 0.00 0.00 0.00 2.40
3324 4565 6.374417 AATAGGAATTATGTGCCCGTAGAT 57.626 37.500 0.00 0.00 0.00 1.98
3325 4566 5.818678 AATAGGAATTATGTGCCCGTAGA 57.181 39.130 0.00 0.00 0.00 2.59
3326 4567 5.334879 GCAAATAGGAATTATGTGCCCGTAG 60.335 44.000 0.00 0.00 44.16 3.51
3327 4568 4.517453 GCAAATAGGAATTATGTGCCCGTA 59.483 41.667 0.00 0.00 44.16 4.02
3328 4569 3.317993 GCAAATAGGAATTATGTGCCCGT 59.682 43.478 0.00 0.00 44.16 5.28
3329 4570 3.900941 GCAAATAGGAATTATGTGCCCG 58.099 45.455 0.00 0.00 44.16 6.13


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

AutoCloner maintained by Alex Coulton.