Multiple sequence alignment - TraesCS7B01G003000

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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 TraesCS7B01G003000 chr7B 100.000 5750 0 0 1 5750 1263214 1257465 0.000000e+00 10619.0
1 TraesCS7B01G003000 chr7B 100.000 3327 0 0 6075 9401 1257140 1253814 0.000000e+00 6144.0
2 TraesCS7B01G003000 chr7B 88.639 1822 144 24 3878 5672 1205738 1203953 0.000000e+00 2159.0
3 TraesCS7B01G003000 chr7B 91.237 1415 105 6 4277 5672 1027835 1026421 0.000000e+00 1908.0
4 TraesCS7B01G003000 chr7B 80.609 1150 135 53 2186 3314 1207235 1206153 0.000000e+00 808.0
5 TraesCS7B01G003000 chr7B 84.096 415 30 22 1324 1737 1207936 1207557 1.490000e-97 368.0
6 TraesCS7B01G003000 chr7B 90.741 216 15 5 3487 3699 1206113 1205900 5.560000e-72 283.0
7 TraesCS7B01G003000 chr7B 94.706 170 5 3 3697 3863 1205959 1205791 2.600000e-65 261.0
8 TraesCS7B01G003000 chr7B 80.184 217 28 7 853 1067 1208461 1208258 2.120000e-31 148.0
9 TraesCS7B01G003000 chr7B 90.323 93 7 2 6556 6647 1380806 1380897 4.610000e-23 121.0
10 TraesCS7B01G003000 chr7B 100.000 60 0 0 3640 3699 1259518 1259459 2.780000e-20 111.0
11 TraesCS7B01G003000 chr7B 100.000 60 0 0 3697 3756 1259575 1259516 2.780000e-20 111.0
12 TraesCS7B01G003000 chr5B 90.888 2974 162 59 795 3699 711625266 711628199 0.000000e+00 3890.0
13 TraesCS7B01G003000 chr5B 97.421 2016 39 2 3697 5702 711628140 711630152 0.000000e+00 3422.0
14 TraesCS7B01G003000 chr5B 95.812 1743 59 6 6516 8255 711630627 711632358 0.000000e+00 2802.0
15 TraesCS7B01G003000 chr5B 88.253 2009 176 28 3697 5672 711699924 711701905 0.000000e+00 2348.0
16 TraesCS7B01G003000 chr5B 83.678 821 82 29 3697 4479 711884050 711884856 0.000000e+00 726.0
17 TraesCS7B01G003000 chr5B 91.959 485 16 8 8303 8769 711632472 711632951 0.000000e+00 658.0
18 TraesCS7B01G003000 chr5B 94.710 397 17 4 8882 9276 711633057 711633451 1.740000e-171 614.0
19 TraesCS7B01G003000 chr5B 78.955 708 102 28 2186 2881 711698661 711699333 1.120000e-118 438.0
20 TraesCS7B01G003000 chr5B 97.333 225 5 1 2952 3175 711699349 711699573 1.920000e-101 381.0
21 TraesCS7B01G003000 chr5B 90.175 285 23 3 6075 6356 711630347 711630629 5.360000e-97 366.0
22 TraesCS7B01G003000 chr5B 82.824 425 46 15 8885 9285 703720459 703720038 1.160000e-93 355.0
23 TraesCS7B01G003000 chr5B 82.742 423 39 15 8885 9284 699600398 699599987 6.990000e-91 346.0
24 TraesCS7B01G003000 chr5B 93.458 214 14 0 3486 3699 711699770 711699983 1.520000e-82 318.0
25 TraesCS7B01G003000 chr5B 96.216 185 3 4 6336 6518 549419988 549420170 5.520000e-77 300.0
26 TraesCS7B01G003000 chr5B 96.216 185 3 4 6336 6518 549445632 549445814 5.520000e-77 300.0
27 TraesCS7B01G003000 chr5B 87.500 256 26 4 1263 1513 711697955 711698209 3.320000e-74 291.0
28 TraesCS7B01G003000 chr5B 91.304 207 18 0 3493 3699 711883903 711884109 5.560000e-72 283.0
29 TraesCS7B01G003000 chr5B 89.474 133 14 0 1606 1738 711698200 711698332 1.620000e-37 169.0
30 TraesCS7B01G003000 chr5B 80.000 220 26 9 3040 3259 711883672 711883873 7.610000e-31 147.0
31 TraesCS7B01G003000 chr5B 86.232 138 13 3 8560 8697 711707913 711708044 2.740000e-30 145.0
32 TraesCS7B01G003000 chr5B 77.209 215 29 9 854 1068 711697504 711697698 3.590000e-19 108.0
33 TraesCS7B01G003000 chr5B 91.549 71 6 0 9331 9401 703718287 703718217 2.160000e-16 99.0
34 TraesCS7B01G003000 chr5B 91.304 69 6 0 9333 9401 711633691 711633759 2.790000e-15 95.3
35 TraesCS7B01G003000 chr5B 92.188 64 5 0 6557 6620 711548324 711548261 3.620000e-14 91.6
36 TraesCS7B01G003000 chr5B 88.732 71 8 0 9331 9401 699599151 699599081 4.680000e-13 87.9
37 TraesCS7B01G003000 chr5B 100.000 36 0 0 9298 9333 711633449 711633484 6.090000e-07 67.6
38 TraesCS7B01G003000 chr5B 100.000 35 0 0 8851 8885 711633006 711633040 2.190000e-06 65.8
39 TraesCS7B01G003000 chr5B 96.970 33 1 0 618 650 711625093 711625125 1.000000e-03 56.5
40 TraesCS7B01G003000 chr5D 90.828 2584 133 47 1155 3699 561701009 561703527 0.000000e+00 3363.0
41 TraesCS7B01G003000 chr5D 95.519 2031 57 16 3697 5706 561703468 561705485 0.000000e+00 3216.0
42 TraesCS7B01G003000 chr5D 92.934 1755 95 9 6516 8255 561705745 561707485 0.000000e+00 2527.0
43 TraesCS7B01G003000 chr5D 88.270 1850 165 23 3848 5672 561795963 561797785 0.000000e+00 2167.0
44 TraesCS7B01G003000 chr5D 89.966 588 43 9 1 573 396426740 396427326 0.000000e+00 745.0
45 TraesCS7B01G003000 chr5D 87.436 589 41 8 1 576 256270451 256271019 0.000000e+00 647.0
46 TraesCS7B01G003000 chr5D 80.650 708 104 25 2186 2881 561794574 561795260 1.400000e-142 518.0
47 TraesCS7B01G003000 chr5D 88.000 425 14 19 8302 8696 561707575 561707992 1.430000e-127 468.0
48 TraesCS7B01G003000 chr5D 83.784 481 23 25 642 1097 561700427 561700877 1.140000e-108 405.0
49 TraesCS7B01G003000 chr5D 95.982 224 9 0 2952 3175 561795279 561795502 1.930000e-96 364.0
50 TraesCS7B01G003000 chr5D 83.055 419 43 11 8892 9285 551390935 551390520 1.160000e-93 355.0
51 TraesCS7B01G003000 chr5D 82.857 420 43 11 8892 9285 551354591 551354175 5.400000e-92 350.0
52 TraesCS7B01G003000 chr5D 94.393 214 12 0 3486 3699 561795691 561795904 7.040000e-86 329.0
53 TraesCS7B01G003000 chr5D 88.333 240 24 3 1281 1516 561793865 561794104 1.550000e-72 285.0
54 TraesCS7B01G003000 chr5D 94.915 118 6 0 3697 3814 561795845 561795962 1.610000e-42 185.0
55 TraesCS7B01G003000 chr5D 86.842 152 20 0 1606 1757 561794091 561794242 4.510000e-38 171.0
56 TraesCS7B01G003000 chr5D 93.000 100 4 3 9211 9308 558690302 558690204 9.840000e-30 143.0
57 TraesCS7B01G003000 chr5D 80.000 215 25 12 853 1064 561792794 561792993 9.840000e-30 143.0
58 TraesCS7B01G003000 chr5D 93.548 93 4 2 6556 6647 561633121 561633030 4.580000e-28 137.0
59 TraesCS7B01G003000 chr5D 96.429 56 2 0 5695 5750 561705520 561705575 1.010000e-14 93.5
60 TraesCS7B01G003000 chr2B 91.381 1427 86 25 1407 2819 237060124 237058721 0.000000e+00 1919.0
61 TraesCS7B01G003000 chr2B 87.800 541 37 14 1759 2283 318609254 318609781 2.900000e-169 606.0
62 TraesCS7B01G003000 chr1B 95.202 667 32 0 4714 5380 115774353 115773687 0.000000e+00 1055.0
63 TraesCS7B01G003000 chr1B 95.238 546 20 6 3697 4238 115827198 115826655 0.000000e+00 859.0
64 TraesCS7B01G003000 chr1B 92.628 529 28 5 2249 2777 115828585 115828068 0.000000e+00 750.0
65 TraesCS7B01G003000 chr1B 94.318 440 23 2 8851 9288 115752417 115751978 0.000000e+00 673.0
66 TraesCS7B01G003000 chr1B 97.215 395 11 0 4273 4667 115826656 115826262 0.000000e+00 669.0
67 TraesCS7B01G003000 chr1B 87.085 542 35 14 2758 3289 115828009 115827493 1.760000e-161 580.0
68 TraesCS7B01G003000 chr1B 95.543 359 10 3 3345 3699 115827495 115827139 3.810000e-158 569.0
69 TraesCS7B01G003000 chr1B 94.428 341 9 1 5376 5706 115755813 115755473 5.030000e-142 516.0
70 TraesCS7B01G003000 chr1B 91.011 356 20 6 8501 8855 115752840 115752496 3.970000e-128 470.0
71 TraesCS7B01G003000 chr1B 89.716 282 25 3 6076 6356 115755244 115754966 3.230000e-94 357.0
72 TraesCS7B01G003000 chr1B 94.444 72 4 0 4659 4730 115774439 115774368 2.780000e-20 111.0
73 TraesCS7B01G003000 chr1B 92.857 56 3 1 5695 5750 115755449 115755395 7.830000e-11 80.5
74 TraesCS7B01G003000 chr3D 90.940 585 41 3 1 573 427229666 427230250 0.000000e+00 776.0
75 TraesCS7B01G003000 chr3D 88.889 585 49 11 2 574 140787535 140788115 0.000000e+00 706.0
76 TraesCS7B01G003000 chr3D 89.890 544 41 4 1 532 48815944 48816485 0.000000e+00 688.0
77 TraesCS7B01G003000 chr3D 85.980 592 48 10 1 577 47339441 47338870 1.350000e-167 601.0
78 TraesCS7B01G003000 chr3D 92.000 100 5 3 9211 9308 403540055 403539957 4.580000e-28 137.0
79 TraesCS7B01G003000 chr1D 89.779 587 46 4 1 573 231456828 231457414 0.000000e+00 739.0
80 TraesCS7B01G003000 chrUn 89.402 585 48 5 1 573 21561746 21562328 0.000000e+00 725.0
81 TraesCS7B01G003000 chrUn 83.618 586 49 15 3 573 96337049 96337602 3.030000e-139 507.0
82 TraesCS7B01G003000 chrUn 82.625 259 38 4 8895 9146 301306656 301306398 1.230000e-53 222.0
83 TraesCS7B01G003000 chr3A 88.908 586 50 6 1 573 692984527 692983944 0.000000e+00 708.0
84 TraesCS7B01G003000 chr3A 87.170 569 61 2 1 557 23397257 23396689 3.700000e-178 636.0
85 TraesCS7B01G003000 chr3A 93.304 224 15 0 2952 3175 499505250 499505027 1.960000e-86 331.0
86 TraesCS7B01G003000 chr3A 97.222 180 4 1 6352 6530 66171211 66171032 4.270000e-78 303.0
87 TraesCS7B01G003000 chr3A 86.316 95 10 2 2051 2143 499505549 499505456 6.010000e-17 100.0
88 TraesCS7B01G003000 chr5A 87.479 583 62 5 1 573 592059177 592059758 0.000000e+00 662.0
89 TraesCS7B01G003000 chr5A 97.238 181 2 3 6355 6535 566272983 566272806 4.270000e-78 303.0
90 TraesCS7B01G003000 chr5A 97.207 179 4 1 6354 6532 693314784 693314961 1.530000e-77 302.0
91 TraesCS7B01G003000 chr5A 84.211 95 12 2 2051 2143 516395024 516394931 1.300000e-13 89.8
92 TraesCS7B01G003000 chr4D 86.031 587 49 6 1 574 446118082 446118648 4.860000e-167 599.0
93 TraesCS7B01G003000 chr4D 83.260 227 28 6 354 574 52767192 52767414 5.760000e-47 200.0
94 TraesCS7B01G003000 chr7A 85.690 587 50 8 1 573 720350300 720350866 1.050000e-163 588.0
95 TraesCS7B01G003000 chr7A 85.299 585 52 10 1 573 89628093 89628655 2.940000e-159 573.0
96 TraesCS7B01G003000 chr7A 93.750 224 14 0 2952 3175 469605442 469605219 4.210000e-88 337.0
97 TraesCS7B01G003000 chr7A 86.192 239 27 4 2187 2424 667013024 667012791 4.360000e-63 254.0
98 TraesCS7B01G003000 chr7A 89.000 100 8 3 9211 9308 583460572 583460474 4.610000e-23 121.0
99 TraesCS7B01G003000 chr7A 85.263 95 11 2 2051 2143 469605741 469605648 2.790000e-15 95.3
100 TraesCS7B01G003000 chr2D 85.179 587 42 13 1 574 595276546 595277100 2.290000e-155 560.0
101 TraesCS7B01G003000 chr2D 88.710 62 7 0 1324 1385 642817667 642817606 1.010000e-09 76.8
102 TraesCS7B01G003000 chr4A 83.066 437 46 12 8874 9285 616722506 616722939 1.150000e-98 372.0
103 TraesCS7B01G003000 chr4A 90.141 71 7 0 9331 9401 616752635 616752705 1.010000e-14 93.5
104 TraesCS7B01G003000 chr6A 93.750 224 14 0 2952 3175 558138930 558139153 4.210000e-88 337.0
105 TraesCS7B01G003000 chr6A 86.316 95 10 2 2051 2143 558138631 558138724 6.010000e-17 100.0
106 TraesCS7B01G003000 chr6B 100.000 169 0 0 6355 6523 464866221 464866053 7.090000e-81 313.0
107 TraesCS7B01G003000 chr6B 97.765 179 3 1 6352 6529 689928071 689927893 3.300000e-79 307.0
108 TraesCS7B01G003000 chr6B 96.450 169 6 0 6626 6794 653303822 653303654 7.190000e-71 279.0
109 TraesCS7B01G003000 chr6B 85.833 240 26 6 2187 2424 478658702 478658469 2.030000e-61 248.0
110 TraesCS7B01G003000 chr6B 83.537 164 24 2 8975 9138 720455406 720455246 5.880000e-32 150.0
111 TraesCS7B01G003000 chr6B 84.211 95 12 2 2051 2143 6058297 6058390 1.300000e-13 89.8
112 TraesCS7B01G003000 chr2A 97.753 178 4 0 6341 6518 735537996 735538173 3.300000e-79 307.0
113 TraesCS7B01G003000 chr2A 98.286 175 3 0 6355 6529 762259788 762259962 3.300000e-79 307.0
114 TraesCS7B01G003000 chr4B 75.073 686 117 34 1290 1960 327193294 327192648 4.330000e-68 270.0
115 TraesCS7B01G003000 chr4B 77.471 435 61 20 1290 1715 464131325 464131731 9.500000e-55 226.0
116 TraesCS7B01G003000 chr3B 79.087 416 50 17 1307 1716 771761590 771761974 1.570000e-62 252.0
117 TraesCS7B01G003000 chr3B 86.344 227 25 4 2187 2412 677387968 677388189 9.430000e-60 243.0
118 TraesCS7B01G003000 chr1A 84.756 164 22 2 8975 9138 568017115 568016955 2.720000e-35 161.0
119 TraesCS7B01G003000 chr7D 93.000 100 4 3 9211 9308 474910552 474910650 9.840000e-30 143.0


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 TraesCS7B01G003000 chr7B 1253814 1263214 9400 True 4246.250000 10619 100.000000 1 9401 4 chr7B.!!$R3 9400
1 TraesCS7B01G003000 chr7B 1026421 1027835 1414 True 1908.000000 1908 91.237000 4277 5672 1 chr7B.!!$R1 1395
2 TraesCS7B01G003000 chr7B 1203953 1208461 4508 True 671.166667 2159 86.495833 853 5672 6 chr7B.!!$R2 4819
3 TraesCS7B01G003000 chr5B 711625093 711633759 8666 False 1203.720000 3890 94.923900 618 9401 10 chr5B.!!$F4 8783
4 TraesCS7B01G003000 chr5B 711697504 711701905 4401 False 579.000000 2348 87.454571 854 5672 7 chr5B.!!$F5 4818
5 TraesCS7B01G003000 chr5B 711883672 711884856 1184 False 385.333333 726 84.994000 3040 4479 3 chr5B.!!$F6 1439
6 TraesCS7B01G003000 chr5B 703718217 703720459 2242 True 227.000000 355 87.186500 8885 9401 2 chr5B.!!$R3 516
7 TraesCS7B01G003000 chr5B 699599081 699600398 1317 True 216.950000 346 85.737000 8885 9401 2 chr5B.!!$R2 516
8 TraesCS7B01G003000 chr5D 561700427 561707992 7565 False 1678.750000 3363 91.249000 642 8696 6 chr5D.!!$F3 8054
9 TraesCS7B01G003000 chr5D 396426740 396427326 586 False 745.000000 745 89.966000 1 573 1 chr5D.!!$F2 572
10 TraesCS7B01G003000 chr5D 256270451 256271019 568 False 647.000000 647 87.436000 1 576 1 chr5D.!!$F1 575
11 TraesCS7B01G003000 chr5D 561792794 561797785 4991 False 520.250000 2167 88.673125 853 5672 8 chr5D.!!$F4 4819
12 TraesCS7B01G003000 chr2B 237058721 237060124 1403 True 1919.000000 1919 91.381000 1407 2819 1 chr2B.!!$R1 1412
13 TraesCS7B01G003000 chr2B 318609254 318609781 527 False 606.000000 606 87.800000 1759 2283 1 chr2B.!!$F1 524
14 TraesCS7B01G003000 chr1B 115826262 115828585 2323 True 685.400000 859 93.541800 2249 4667 5 chr1B.!!$R3 2418
15 TraesCS7B01G003000 chr1B 115773687 115774439 752 True 583.000000 1055 94.823000 4659 5380 2 chr1B.!!$R2 721
16 TraesCS7B01G003000 chr1B 115751978 115755813 3835 True 419.300000 673 92.466000 5376 9288 5 chr1B.!!$R1 3912
17 TraesCS7B01G003000 chr3D 427229666 427230250 584 False 776.000000 776 90.940000 1 573 1 chr3D.!!$F3 572
18 TraesCS7B01G003000 chr3D 140787535 140788115 580 False 706.000000 706 88.889000 2 574 1 chr3D.!!$F2 572
19 TraesCS7B01G003000 chr3D 48815944 48816485 541 False 688.000000 688 89.890000 1 532 1 chr3D.!!$F1 531
20 TraesCS7B01G003000 chr3D 47338870 47339441 571 True 601.000000 601 85.980000 1 577 1 chr3D.!!$R1 576
21 TraesCS7B01G003000 chr1D 231456828 231457414 586 False 739.000000 739 89.779000 1 573 1 chr1D.!!$F1 572
22 TraesCS7B01G003000 chrUn 21561746 21562328 582 False 725.000000 725 89.402000 1 573 1 chrUn.!!$F1 572
23 TraesCS7B01G003000 chrUn 96337049 96337602 553 False 507.000000 507 83.618000 3 573 1 chrUn.!!$F2 570
24 TraesCS7B01G003000 chr3A 692983944 692984527 583 True 708.000000 708 88.908000 1 573 1 chr3A.!!$R3 572
25 TraesCS7B01G003000 chr3A 23396689 23397257 568 True 636.000000 636 87.170000 1 557 1 chr3A.!!$R1 556
26 TraesCS7B01G003000 chr3A 499505027 499505549 522 True 215.500000 331 89.810000 2051 3175 2 chr3A.!!$R4 1124
27 TraesCS7B01G003000 chr5A 592059177 592059758 581 False 662.000000 662 87.479000 1 573 1 chr5A.!!$F1 572
28 TraesCS7B01G003000 chr4D 446118082 446118648 566 False 599.000000 599 86.031000 1 574 1 chr4D.!!$F2 573
29 TraesCS7B01G003000 chr7A 720350300 720350866 566 False 588.000000 588 85.690000 1 573 1 chr7A.!!$F2 572
30 TraesCS7B01G003000 chr7A 89628093 89628655 562 False 573.000000 573 85.299000 1 573 1 chr7A.!!$F1 572
31 TraesCS7B01G003000 chr7A 469605219 469605741 522 True 216.150000 337 89.506500 2051 3175 2 chr7A.!!$R3 1124
32 TraesCS7B01G003000 chr2D 595276546 595277100 554 False 560.000000 560 85.179000 1 574 1 chr2D.!!$F1 573
33 TraesCS7B01G003000 chr6A 558138631 558139153 522 False 218.500000 337 90.033000 2051 3175 2 chr6A.!!$F1 1124
34 TraesCS7B01G003000 chr4B 327192648 327193294 646 True 270.000000 270 75.073000 1290 1960 1 chr4B.!!$R1 670

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
21 22 0.032952 ACGAGCGCCAGTTCTACAAA 59.967 50.000 2.29 0.0 0.00 2.83 F
1227 1442 0.034089 AATCTTCAGCCCCCTTTCCG 60.034 55.000 0.00 0.0 0.00 4.30 F
1599 2485 0.380378 TGCGTGGTTGCTTCTTGTTC 59.620 50.000 0.00 0.0 35.36 3.18 F
2119 3164 1.139853 AGCTAGCCAGTTAGGTGCATC 59.860 52.381 12.13 0.0 40.61 3.91 F
2697 3765 1.216427 AGCCCCCTTTTCTCCATGATC 59.784 52.381 0.00 0.0 0.00 2.92 F
4319 5625 1.159664 CCTCCTCCCTATCCCCCAG 59.840 68.421 0.00 0.0 0.00 4.45 F
4400 5706 1.540363 GCAAGGACTTCGACAACTCCA 60.540 52.381 0.00 0.0 0.00 3.86 F
6117 7543 1.562475 TCCTGCCCCTGTTATTGGTAC 59.438 52.381 0.00 0.0 0.00 3.34 F
6649 8078 1.668419 AGTGGCGCATCTAATCCAAC 58.332 50.000 10.83 0.0 0.00 3.77 F
8245 9816 0.897863 ACGACTCTGCAGGCTCTTCT 60.898 55.000 15.13 0.0 0.00 2.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1599 2485 1.082117 AAGCGGACGAACCTAATGCG 61.082 55.000 0.00 0.00 36.31 4.73 R
2119 3164 2.699954 ACTTTTGAGGCGTCCACTATG 58.300 47.619 3.56 0.00 0.00 2.23 R
3476 4669 2.348666 CGAAGTTAGCGCTTATGCACTT 59.651 45.455 18.68 15.95 39.64 3.16 R
4022 5285 4.708909 TCAATATGGCTGCACAATTACCAA 59.291 37.500 0.50 0.00 33.30 3.67 R
4417 5723 0.321671 CCCTCTCTGAACCGCTTTGA 59.678 55.000 0.00 0.00 0.00 2.69 R
6092 7518 2.493278 CAATAACAGGGGCAGGAAACAG 59.507 50.000 0.00 0.00 0.00 3.16 R
6396 7825 2.823747 TGCTCCGTATGTAGTCACTTGT 59.176 45.455 0.00 0.00 0.00 3.16 R
7945 9374 0.179026 CATATGCAGCAGGCTCAGGT 60.179 55.000 0.00 0.00 45.15 4.00 R
8334 10958 0.877071 ACCGAGAAGCTGCATTTGTG 59.123 50.000 1.02 0.00 0.00 3.33 R
9296 12384 1.755200 TTCCACCCCTTTAGAAGCCT 58.245 50.000 0.00 0.00 0.00 4.58 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
21 22 0.032952 ACGAGCGCCAGTTCTACAAA 59.967 50.000 2.29 0.00 0.00 2.83
26 27 2.685897 AGCGCCAGTTCTACAAACAAAA 59.314 40.909 2.29 0.00 0.00 2.44
34 35 6.094881 CCAGTTCTACAAACAAAAGAGGTTGA 59.905 38.462 0.00 0.00 32.59 3.18
118 119 2.226437 GCCGCTCAATTGAAACTGAAGA 59.774 45.455 9.88 0.00 0.00 2.87
151 152 1.476110 CGGGTTGGGACTTTGAAGACA 60.476 52.381 0.00 0.00 0.00 3.41
192 193 3.200825 ACATTCAAACATCGGAGGAGGAT 59.799 43.478 0.00 0.00 0.00 3.24
235 237 1.719780 GCGACGAGTAGTGGTCTTTTG 59.280 52.381 10.52 0.00 29.49 2.44
252 254 5.849604 GTCTTTTGTTTTATCTGTGTACGCC 59.150 40.000 3.51 0.00 0.00 5.68
263 265 3.377485 TCTGTGTACGCCAGAACTATCTC 59.623 47.826 11.45 0.00 36.07 2.75
359 362 0.396139 TGGAGAGGCCAATCCAATGC 60.396 55.000 22.90 0.91 45.87 3.56
368 371 1.453745 AATCCAATGCGCCACCGAT 60.454 52.632 4.18 0.00 36.29 4.18
577 596 2.242043 CCATTGAAGTTGCTCTTGGGT 58.758 47.619 0.00 0.00 36.40 4.51
578 597 2.629617 CCATTGAAGTTGCTCTTGGGTT 59.370 45.455 0.00 0.00 36.40 4.11
579 598 3.826157 CCATTGAAGTTGCTCTTGGGTTA 59.174 43.478 0.00 0.00 36.40 2.85
580 599 4.280677 CCATTGAAGTTGCTCTTGGGTTAA 59.719 41.667 0.00 0.00 36.40 2.01
581 600 4.911514 TTGAAGTTGCTCTTGGGTTAAC 57.088 40.909 0.00 0.00 36.40 2.01
582 601 3.892284 TGAAGTTGCTCTTGGGTTAACA 58.108 40.909 8.10 0.00 36.40 2.41
583 602 4.469657 TGAAGTTGCTCTTGGGTTAACAT 58.530 39.130 8.10 0.00 36.40 2.71
584 603 4.518970 TGAAGTTGCTCTTGGGTTAACATC 59.481 41.667 8.10 0.00 36.40 3.06
585 604 3.421844 AGTTGCTCTTGGGTTAACATCC 58.578 45.455 8.10 0.73 0.00 3.51
586 605 3.153919 GTTGCTCTTGGGTTAACATCCA 58.846 45.455 8.10 3.64 0.00 3.41
587 606 3.071874 TGCTCTTGGGTTAACATCCAG 57.928 47.619 8.10 0.96 34.17 3.86
588 607 2.375174 TGCTCTTGGGTTAACATCCAGT 59.625 45.455 8.10 0.00 34.17 4.00
589 608 3.010420 GCTCTTGGGTTAACATCCAGTC 58.990 50.000 8.10 0.00 34.17 3.51
590 609 3.610911 CTCTTGGGTTAACATCCAGTCC 58.389 50.000 8.10 0.00 34.17 3.85
591 610 2.983192 TCTTGGGTTAACATCCAGTCCA 59.017 45.455 8.10 0.58 34.17 4.02
592 611 3.009033 TCTTGGGTTAACATCCAGTCCAG 59.991 47.826 8.10 1.61 34.17 3.86
593 612 2.344592 TGGGTTAACATCCAGTCCAGT 58.655 47.619 8.10 0.00 0.00 4.00
594 613 2.714250 TGGGTTAACATCCAGTCCAGTT 59.286 45.455 8.10 0.00 0.00 3.16
595 614 3.081804 GGGTTAACATCCAGTCCAGTTG 58.918 50.000 8.10 0.00 0.00 3.16
596 615 3.081804 GGTTAACATCCAGTCCAGTTGG 58.918 50.000 8.10 0.00 37.04 3.77
597 616 3.497942 GGTTAACATCCAGTCCAGTTGGT 60.498 47.826 8.10 0.00 37.02 3.67
598 617 4.263156 GGTTAACATCCAGTCCAGTTGGTA 60.263 45.833 8.10 0.00 37.02 3.25
599 618 3.703001 AACATCCAGTCCAGTTGGTAG 57.297 47.619 0.00 0.00 37.02 3.18
600 619 2.902608 ACATCCAGTCCAGTTGGTAGA 58.097 47.619 0.00 0.00 37.02 2.59
601 620 3.454858 ACATCCAGTCCAGTTGGTAGAT 58.545 45.455 0.00 0.00 37.02 1.98
602 621 3.198635 ACATCCAGTCCAGTTGGTAGATG 59.801 47.826 14.73 14.73 37.02 2.90
603 622 3.184382 TCCAGTCCAGTTGGTAGATGA 57.816 47.619 0.00 0.00 37.02 2.92
604 623 3.099905 TCCAGTCCAGTTGGTAGATGAG 58.900 50.000 0.00 0.00 37.02 2.90
605 624 3.099905 CCAGTCCAGTTGGTAGATGAGA 58.900 50.000 0.00 0.00 36.34 3.27
606 625 3.708631 CCAGTCCAGTTGGTAGATGAGAT 59.291 47.826 0.00 0.00 36.34 2.75
607 626 4.442612 CCAGTCCAGTTGGTAGATGAGATG 60.443 50.000 0.00 0.00 36.34 2.90
608 627 4.403752 CAGTCCAGTTGGTAGATGAGATGA 59.596 45.833 0.00 0.00 36.34 2.92
609 628 4.648762 AGTCCAGTTGGTAGATGAGATGAG 59.351 45.833 0.00 0.00 36.34 2.90
610 629 4.646945 GTCCAGTTGGTAGATGAGATGAGA 59.353 45.833 0.00 0.00 36.34 3.27
611 630 5.304101 GTCCAGTTGGTAGATGAGATGAGAT 59.696 44.000 0.00 0.00 36.34 2.75
612 631 5.303845 TCCAGTTGGTAGATGAGATGAGATG 59.696 44.000 0.00 0.00 36.34 2.90
613 632 5.303845 CCAGTTGGTAGATGAGATGAGATGA 59.696 44.000 0.00 0.00 0.00 2.92
614 633 6.448852 CAGTTGGTAGATGAGATGAGATGAG 58.551 44.000 0.00 0.00 0.00 2.90
615 634 6.264970 CAGTTGGTAGATGAGATGAGATGAGA 59.735 42.308 0.00 0.00 0.00 3.27
616 635 6.265196 AGTTGGTAGATGAGATGAGATGAGAC 59.735 42.308 0.00 0.00 0.00 3.36
677 696 9.727627 CCTCTAAATAAATAAAAAGCAGAGCAG 57.272 33.333 0.00 0.00 0.00 4.24
682 701 4.698583 AATAAAAAGCAGAGCAGAGCAG 57.301 40.909 0.00 0.00 0.00 4.24
698 717 1.382692 GCAGAGCAGCCTCATTTCCC 61.383 60.000 0.00 0.00 40.68 3.97
700 719 1.454663 GAGCAGCCTCATTTCCCCC 60.455 63.158 0.00 0.00 38.03 5.40
717 736 1.410083 CCCCCTCTCTCTCTCTCACTG 60.410 61.905 0.00 0.00 0.00 3.66
735 761 3.608993 GAGCAGCAGCAGGAGCAGT 62.609 63.158 3.17 0.00 45.49 4.40
737 763 3.432588 CAGCAGCAGGAGCAGTGC 61.433 66.667 7.13 7.13 45.49 4.40
817 863 7.343316 CCATATTTATCCTACCCTACCTCTCTG 59.657 44.444 0.00 0.00 0.00 3.35
847 910 6.567050 CATCTCTTCTTCTTCTTCCTCTGAG 58.433 44.000 0.00 0.00 0.00 3.35
850 913 5.640147 TCTTCTTCTTCTTCCTCTGAGTCT 58.360 41.667 3.66 0.00 0.00 3.24
872 935 2.117156 CATTTGCTCCTGCTCCCGG 61.117 63.158 0.00 0.00 40.48 5.73
894 959 1.064824 GGATTCCAGCTCCCCCATCT 61.065 60.000 0.00 0.00 0.00 2.90
919 990 3.573967 GGAGATTGCCACTTTTTCTTGGA 59.426 43.478 0.00 0.00 34.46 3.53
964 1037 1.023513 GCTGGCGCAAGATCTGAACT 61.024 55.000 18.24 0.00 43.02 3.01
965 1038 0.725686 CTGGCGCAAGATCTGAACTG 59.274 55.000 5.65 0.00 43.02 3.16
966 1039 0.321346 TGGCGCAAGATCTGAACTGA 59.679 50.000 10.83 0.00 43.02 3.41
967 1040 1.270785 TGGCGCAAGATCTGAACTGAA 60.271 47.619 10.83 0.00 43.02 3.02
972 1045 2.693069 CAAGATCTGAACTGAAGCCGT 58.307 47.619 0.00 0.00 0.00 5.68
973 1046 2.663826 AGATCTGAACTGAAGCCGTC 57.336 50.000 0.00 0.00 0.00 4.79
974 1047 1.895798 AGATCTGAACTGAAGCCGTCA 59.104 47.619 0.00 0.00 34.17 4.35
975 1048 2.300152 AGATCTGAACTGAAGCCGTCAA 59.700 45.455 0.00 0.00 35.22 3.18
976 1049 2.154854 TCTGAACTGAAGCCGTCAAG 57.845 50.000 0.00 0.00 35.22 3.02
977 1050 1.686587 TCTGAACTGAAGCCGTCAAGA 59.313 47.619 0.00 0.00 35.22 3.02
978 1051 2.102420 TCTGAACTGAAGCCGTCAAGAA 59.898 45.455 0.00 0.00 35.22 2.52
979 1052 3.070018 CTGAACTGAAGCCGTCAAGAAT 58.930 45.455 0.00 0.00 35.22 2.40
980 1053 3.067106 TGAACTGAAGCCGTCAAGAATC 58.933 45.455 0.00 0.00 35.22 2.52
981 1054 2.839486 ACTGAAGCCGTCAAGAATCA 57.161 45.000 0.00 0.00 35.22 2.57
988 1067 1.019278 CCGTCAAGAATCACCACCGG 61.019 60.000 0.00 0.00 0.00 5.28
1153 1346 9.694137 GTTATACTTGTACTAGATCCAATCCAC 57.306 37.037 11.43 0.00 0.00 4.02
1154 1347 5.615925 ACTTGTACTAGATCCAATCCACC 57.384 43.478 11.43 0.00 0.00 4.61
1155 1348 5.281314 ACTTGTACTAGATCCAATCCACCT 58.719 41.667 11.43 0.00 0.00 4.00
1156 1349 5.726793 ACTTGTACTAGATCCAATCCACCTT 59.273 40.000 11.43 0.00 0.00 3.50
1158 1351 6.726490 TGTACTAGATCCAATCCACCTTAC 57.274 41.667 0.00 0.00 0.00 2.34
1159 1352 6.441222 TGTACTAGATCCAATCCACCTTACT 58.559 40.000 0.00 0.00 0.00 2.24
1191 1405 4.201891 GGATTTGTGCTCTCATTACTGCTG 60.202 45.833 0.00 0.00 0.00 4.41
1194 1408 4.006780 TGTGCTCTCATTACTGCTGAAA 57.993 40.909 0.00 0.00 0.00 2.69
1227 1442 0.034089 AATCTTCAGCCCCCTTTCCG 60.034 55.000 0.00 0.00 0.00 4.30
1244 1473 0.911184 CCGTTTTTGTGTGTTCGTGC 59.089 50.000 0.00 0.00 0.00 5.34
1247 1476 1.980156 GTTTTTGTGTGTTCGTGCGTT 59.020 42.857 0.00 0.00 0.00 4.84
1248 1477 1.884756 TTTTGTGTGTTCGTGCGTTC 58.115 45.000 0.00 0.00 0.00 3.95
1251 1480 1.084478 GTGTGTTCGTGCGTTCGTC 60.084 57.895 1.99 0.00 0.00 4.20
1255 1484 1.204228 TGTTCGTGCGTTCGTCTGTC 61.204 55.000 1.99 0.00 0.00 3.51
1256 1485 2.007114 TTCGTGCGTTCGTCTGTCG 61.007 57.895 1.99 0.00 41.41 4.35
1451 2319 0.543749 GAGGCTACACCATCCTGCTT 59.456 55.000 0.00 0.00 43.14 3.91
1533 2408 3.427243 CTTTATCTGTCGGTGTCTCGTC 58.573 50.000 0.00 0.00 0.00 4.20
1552 2433 1.447317 CTTTGTCTGCCGGTTGCTGT 61.447 55.000 1.90 0.00 42.00 4.40
1553 2434 1.444119 TTTGTCTGCCGGTTGCTGTC 61.444 55.000 1.90 0.00 42.00 3.51
1554 2435 3.414700 GTCTGCCGGTTGCTGTCG 61.415 66.667 1.90 0.00 42.00 4.35
1599 2485 0.380378 TGCGTGGTTGCTTCTTGTTC 59.620 50.000 0.00 0.00 35.36 3.18
1750 2738 6.816640 TCTGTAAGTACACAATGGTAATCTGC 59.183 38.462 0.00 0.00 33.76 4.26
1752 2740 6.593770 TGTAAGTACACAATGGTAATCTGCAG 59.406 38.462 7.63 7.63 0.00 4.41
1805 2823 5.702670 AGTGAGTGATGACTTGTTTGTATGG 59.297 40.000 0.00 0.00 30.16 2.74
1818 2836 4.041075 TGTTTGTATGGCTCTGTGTTAGGA 59.959 41.667 0.00 0.00 0.00 2.94
1895 2926 6.338937 ACTACTACCGATTTCATTCCTGAAC 58.661 40.000 0.00 0.00 41.05 3.18
1896 2927 5.160607 ACTACCGATTTCATTCCTGAACA 57.839 39.130 0.00 0.00 41.05 3.18
1944 2975 3.432782 GAAGAAATCTTCGGCAATGCTG 58.567 45.455 7.93 7.93 42.33 4.41
1957 2988 3.066621 GGCAATGCTGATCCGTAATTGAA 59.933 43.478 4.82 0.00 31.34 2.69
2119 3164 1.139853 AGCTAGCCAGTTAGGTGCATC 59.860 52.381 12.13 0.00 40.61 3.91
2228 3281 7.504922 TCTTTTATTCGTGTTTATGCATTGC 57.495 32.000 3.54 0.46 0.00 3.56
2405 3464 4.081531 TGGAACATGATTTTGCATCCCTTC 60.082 41.667 0.00 0.00 0.00 3.46
2408 3467 5.750352 ACATGATTTTGCATCCCTTCTTT 57.250 34.783 0.00 0.00 0.00 2.52
2449 3508 1.302832 GTCCCTTCACAGGTGGCAG 60.303 63.158 0.00 0.00 38.79 4.85
2562 3629 4.447138 AAGTGTGTCATGGTAAAAGGGA 57.553 40.909 0.00 0.00 0.00 4.20
2697 3765 1.216427 AGCCCCCTTTTCTCCATGATC 59.784 52.381 0.00 0.00 0.00 2.92
2758 3830 8.464770 TTGTTTATATGAAAAATCTGCACTGC 57.535 30.769 0.00 0.00 0.00 4.40
2870 4030 8.528044 TGTTTACTTTATCTCCACTTTTTGGT 57.472 30.769 0.00 0.00 46.97 3.67
2874 4034 9.802039 TTACTTTATCTCCACTTTTTGGTATGT 57.198 29.630 0.00 0.00 46.97 2.29
2932 4092 6.893583 AGTATTTATCTGCATCTTGGTGAGT 58.106 36.000 0.00 0.00 0.00 3.41
3150 4310 5.758784 AGTACGGCCTTCTAATGAATAAAGC 59.241 40.000 0.00 0.00 0.00 3.51
3193 4380 7.239763 TCGGATAATTGATAATGTGAGCCTA 57.760 36.000 0.00 0.00 0.00 3.93
3387 4580 5.811100 GGTCCATGTCTTACTTTACTACTGC 59.189 44.000 0.00 0.00 0.00 4.40
3651 4862 6.455360 TTCAATGCTTCTGGGATTATGTTC 57.545 37.500 0.00 0.00 34.21 3.18
3665 4876 6.012508 GGGATTATGTTCATGGGAGATAAGGA 60.013 42.308 0.00 0.00 0.00 3.36
3666 4877 7.461749 GGATTATGTTCATGGGAGATAAGGAA 58.538 38.462 0.00 0.00 0.00 3.36
3667 4878 7.944554 GGATTATGTTCATGGGAGATAAGGAAA 59.055 37.037 0.00 0.00 0.00 3.13
3668 4879 8.697507 ATTATGTTCATGGGAGATAAGGAAAC 57.302 34.615 0.00 0.00 0.00 2.78
3669 4880 5.512942 TGTTCATGGGAGATAAGGAAACA 57.487 39.130 0.00 0.00 0.00 2.83
3670 4881 5.886609 TGTTCATGGGAGATAAGGAAACAA 58.113 37.500 0.00 0.00 0.00 2.83
3671 4882 6.493166 TGTTCATGGGAGATAAGGAAACAAT 58.507 36.000 0.00 0.00 0.00 2.71
3672 4883 6.377996 TGTTCATGGGAGATAAGGAAACAATG 59.622 38.462 0.00 0.00 0.00 2.82
3673 4884 6.078456 TCATGGGAGATAAGGAAACAATGT 57.922 37.500 0.00 0.00 0.00 2.71
3674 4885 6.122277 TCATGGGAGATAAGGAAACAATGTC 58.878 40.000 0.00 0.00 0.00 3.06
3675 4886 5.779241 TGGGAGATAAGGAAACAATGTCT 57.221 39.130 0.00 0.00 0.00 3.41
3676 4887 5.500234 TGGGAGATAAGGAAACAATGTCTG 58.500 41.667 0.00 0.00 0.00 3.51
3677 4888 5.014123 TGGGAGATAAGGAAACAATGTCTGT 59.986 40.000 0.00 0.00 41.27 3.41
3678 4889 5.586643 GGGAGATAAGGAAACAATGTCTGTC 59.413 44.000 0.00 0.00 37.23 3.51
3679 4890 6.410540 GGAGATAAGGAAACAATGTCTGTCT 58.589 40.000 0.00 0.00 37.23 3.41
3680 4891 6.536941 GGAGATAAGGAAACAATGTCTGTCTC 59.463 42.308 0.00 0.00 37.23 3.36
3681 4892 7.251321 AGATAAGGAAACAATGTCTGTCTCT 57.749 36.000 0.00 0.00 37.23 3.10
3682 4893 8.367660 AGATAAGGAAACAATGTCTGTCTCTA 57.632 34.615 0.00 0.00 37.23 2.43
3683 4894 8.816894 AGATAAGGAAACAATGTCTGTCTCTAA 58.183 33.333 0.00 0.00 37.23 2.10
3684 4895 9.606631 GATAAGGAAACAATGTCTGTCTCTAAT 57.393 33.333 0.00 0.00 37.23 1.73
3685 4896 7.678947 AAGGAAACAATGTCTGTCTCTAATG 57.321 36.000 0.00 0.00 37.23 1.90
3686 4897 6.176183 AGGAAACAATGTCTGTCTCTAATGG 58.824 40.000 0.00 0.00 37.23 3.16
3687 4898 6.013379 AGGAAACAATGTCTGTCTCTAATGGA 60.013 38.462 0.00 0.00 37.23 3.41
3688 4899 6.314896 GGAAACAATGTCTGTCTCTAATGGAG 59.685 42.308 0.00 0.00 43.12 3.86
3701 4912 7.878621 TCTCTAATGGAGATACAAATGGGAT 57.121 36.000 0.00 0.00 45.20 3.85
3702 4913 8.280258 TCTCTAATGGAGATACAAATGGGATT 57.720 34.615 0.00 0.00 45.20 3.01
3703 4914 9.392506 TCTCTAATGGAGATACAAATGGGATTA 57.607 33.333 0.00 0.00 45.20 1.75
3705 4916 9.964354 TCTAATGGAGATACAAATGGGATTATG 57.036 33.333 0.00 0.00 0.00 1.90
3706 4917 9.745018 CTAATGGAGATACAAATGGGATTATGT 57.255 33.333 0.00 0.00 0.00 2.29
3708 4919 8.641498 ATGGAGATACAAATGGGATTATGTTC 57.359 34.615 0.00 0.00 0.00 3.18
3709 4920 7.581814 TGGAGATACAAATGGGATTATGTTCA 58.418 34.615 0.00 0.00 0.00 3.18
3710 4921 8.226810 TGGAGATACAAATGGGATTATGTTCAT 58.773 33.333 0.00 0.00 0.00 2.57
3711 4922 8.517878 GGAGATACAAATGGGATTATGTTCATG 58.482 37.037 0.00 0.00 0.00 3.07
3712 4923 8.413309 AGATACAAATGGGATTATGTTCATGG 57.587 34.615 0.00 0.00 0.00 3.66
3713 4924 5.874897 ACAAATGGGATTATGTTCATGGG 57.125 39.130 0.00 0.00 0.00 4.00
3714 4925 5.527385 ACAAATGGGATTATGTTCATGGGA 58.473 37.500 0.00 0.00 0.00 4.37
3715 4926 5.599656 ACAAATGGGATTATGTTCATGGGAG 59.400 40.000 0.00 0.00 0.00 4.30
3716 4927 5.668135 AATGGGATTATGTTCATGGGAGA 57.332 39.130 0.00 0.00 0.00 3.71
3717 4928 5.873111 ATGGGATTATGTTCATGGGAGAT 57.127 39.130 0.00 0.00 0.00 2.75
3718 4929 6.975471 ATGGGATTATGTTCATGGGAGATA 57.025 37.500 0.00 0.00 0.00 1.98
3719 4930 6.778542 TGGGATTATGTTCATGGGAGATAA 57.221 37.500 0.00 0.00 0.00 1.75
3720 4931 6.782986 TGGGATTATGTTCATGGGAGATAAG 58.217 40.000 0.00 0.00 0.00 1.73
3721 4932 6.183347 GGGATTATGTTCATGGGAGATAAGG 58.817 44.000 0.00 0.00 0.00 2.69
3805 5019 6.116711 TGGTGCCATGACTTAACTTACTTA 57.883 37.500 0.00 0.00 0.00 2.24
4022 5285 3.793819 ATTTGAAATGGCCCTTTTGCT 57.206 38.095 7.49 0.00 0.00 3.91
4319 5625 1.159664 CCTCCTCCCTATCCCCCAG 59.840 68.421 0.00 0.00 0.00 4.45
4340 5646 2.171448 GCAGATGATCCCAGGTACAACT 59.829 50.000 0.00 0.00 0.00 3.16
4400 5706 1.540363 GCAAGGACTTCGACAACTCCA 60.540 52.381 0.00 0.00 0.00 3.86
4417 5723 4.836825 ACTCCAATGATGAAAGTGACGAT 58.163 39.130 0.00 0.00 0.00 3.73
4819 6172 2.614057 GGATATGTTCGCCAGTGAAAGG 59.386 50.000 0.00 0.00 0.00 3.11
4905 6258 3.512516 GCGGGGTTCTGCTGATGC 61.513 66.667 0.00 0.00 41.88 3.91
5696 7065 7.552050 ACTTTCCATTTTACCCATTGAATGA 57.448 32.000 6.76 0.00 32.61 2.57
6117 7543 1.562475 TCCTGCCCCTGTTATTGGTAC 59.438 52.381 0.00 0.00 0.00 3.34
6143 7570 8.591312 CAACCAAAATGGCTATATTAACAAACG 58.409 33.333 0.00 0.00 42.67 3.60
6216 7643 7.174080 AGCTCTTAGTTTGAATTTTCTGGTCTC 59.826 37.037 0.00 0.00 0.00 3.36
6217 7644 7.174080 GCTCTTAGTTTGAATTTTCTGGTCTCT 59.826 37.037 0.00 0.00 0.00 3.10
6221 7648 7.032377 AGTTTGAATTTTCTGGTCTCTTGTC 57.968 36.000 0.00 0.00 0.00 3.18
6224 7651 6.433847 TGAATTTTCTGGTCTCTTGTCCTA 57.566 37.500 0.00 0.00 0.00 2.94
6225 7652 7.020827 TGAATTTTCTGGTCTCTTGTCCTAT 57.979 36.000 0.00 0.00 0.00 2.57
6228 7655 9.620259 GAATTTTCTGGTCTCTTGTCCTATTAT 57.380 33.333 0.00 0.00 0.00 1.28
6229 7656 9.981460 AATTTTCTGGTCTCTTGTCCTATTATT 57.019 29.630 0.00 0.00 0.00 1.40
6266 7693 8.349983 TCCAAGAATCTTTTAACTGTTTGCTAC 58.650 33.333 0.00 0.00 0.00 3.58
6308 7737 3.512516 GGCATGCCCTCGCTTGTC 61.513 66.667 27.24 0.00 41.15 3.18
6323 7752 4.215399 TCGCTTGTCCTTTTGATAGGTTTG 59.785 41.667 0.00 0.00 36.63 2.93
6345 7774 9.227777 GTTTGTTCTTAATATCAGTTACCACCT 57.772 33.333 0.00 0.00 0.00 4.00
6357 7786 7.549147 TCAGTTACCACCTAAGAATTGTACT 57.451 36.000 0.00 0.00 0.00 2.73
6358 7787 7.609056 TCAGTTACCACCTAAGAATTGTACTC 58.391 38.462 0.00 0.00 0.00 2.59
6359 7788 6.817140 CAGTTACCACCTAAGAATTGTACTCC 59.183 42.308 0.00 0.00 0.00 3.85
6360 7789 4.838904 ACCACCTAAGAATTGTACTCCC 57.161 45.455 0.00 0.00 0.00 4.30
6361 7790 4.436079 ACCACCTAAGAATTGTACTCCCT 58.564 43.478 0.00 0.00 0.00 4.20
6362 7791 4.470304 ACCACCTAAGAATTGTACTCCCTC 59.530 45.833 0.00 0.00 0.00 4.30
6363 7792 4.141688 CCACCTAAGAATTGTACTCCCTCC 60.142 50.000 0.00 0.00 0.00 4.30
6364 7793 3.705072 ACCTAAGAATTGTACTCCCTCCG 59.295 47.826 0.00 0.00 0.00 4.63
6365 7794 3.705072 CCTAAGAATTGTACTCCCTCCGT 59.295 47.826 0.00 0.00 0.00 4.69
6366 7795 4.161754 CCTAAGAATTGTACTCCCTCCGTT 59.838 45.833 0.00 0.00 0.00 4.44
6367 7796 3.889520 AGAATTGTACTCCCTCCGTTC 57.110 47.619 0.00 0.00 0.00 3.95
6368 7797 2.500504 AGAATTGTACTCCCTCCGTTCC 59.499 50.000 0.00 0.00 0.00 3.62
6369 7798 2.249309 ATTGTACTCCCTCCGTTCCT 57.751 50.000 0.00 0.00 0.00 3.36
6370 7799 2.905415 TTGTACTCCCTCCGTTCCTA 57.095 50.000 0.00 0.00 0.00 2.94
6371 7800 2.905415 TGTACTCCCTCCGTTCCTAA 57.095 50.000 0.00 0.00 0.00 2.69
6372 7801 3.173953 TGTACTCCCTCCGTTCCTAAA 57.826 47.619 0.00 0.00 0.00 1.85
6373 7802 3.716431 TGTACTCCCTCCGTTCCTAAAT 58.284 45.455 0.00 0.00 0.00 1.40
6374 7803 4.870636 TGTACTCCCTCCGTTCCTAAATA 58.129 43.478 0.00 0.00 0.00 1.40
6375 7804 4.646492 TGTACTCCCTCCGTTCCTAAATAC 59.354 45.833 0.00 0.00 0.00 1.89
6376 7805 3.991683 ACTCCCTCCGTTCCTAAATACT 58.008 45.455 0.00 0.00 0.00 2.12
6377 7806 4.359996 ACTCCCTCCGTTCCTAAATACTT 58.640 43.478 0.00 0.00 0.00 2.24
6378 7807 4.161754 ACTCCCTCCGTTCCTAAATACTTG 59.838 45.833 0.00 0.00 0.00 3.16
6379 7808 4.098894 TCCCTCCGTTCCTAAATACTTGT 58.901 43.478 0.00 0.00 0.00 3.16
6380 7809 4.161001 TCCCTCCGTTCCTAAATACTTGTC 59.839 45.833 0.00 0.00 0.00 3.18
6381 7810 4.161754 CCCTCCGTTCCTAAATACTTGTCT 59.838 45.833 0.00 0.00 0.00 3.41
6382 7811 5.338137 CCCTCCGTTCCTAAATACTTGTCTT 60.338 44.000 0.00 0.00 0.00 3.01
6383 7812 6.171213 CCTCCGTTCCTAAATACTTGTCTTT 58.829 40.000 0.00 0.00 0.00 2.52
6384 7813 6.313164 CCTCCGTTCCTAAATACTTGTCTTTC 59.687 42.308 0.00 0.00 0.00 2.62
6385 7814 7.001099 TCCGTTCCTAAATACTTGTCTTTCT 57.999 36.000 0.00 0.00 0.00 2.52
6386 7815 8.125978 TCCGTTCCTAAATACTTGTCTTTCTA 57.874 34.615 0.00 0.00 0.00 2.10
6387 7816 8.248945 TCCGTTCCTAAATACTTGTCTTTCTAG 58.751 37.037 0.00 0.00 0.00 2.43
6388 7817 7.491696 CCGTTCCTAAATACTTGTCTTTCTAGG 59.508 40.741 0.00 0.00 0.00 3.02
6389 7818 7.010275 CGTTCCTAAATACTTGTCTTTCTAGGC 59.990 40.741 0.00 0.00 0.00 3.93
6390 7819 7.490657 TCCTAAATACTTGTCTTTCTAGGCA 57.509 36.000 0.00 0.00 33.22 4.75
6391 7820 8.090788 TCCTAAATACTTGTCTTTCTAGGCAT 57.909 34.615 0.00 0.00 35.56 4.40
6392 7821 8.548877 TCCTAAATACTTGTCTTTCTAGGCATT 58.451 33.333 0.00 0.00 35.56 3.56
6393 7822 9.178758 CCTAAATACTTGTCTTTCTAGGCATTT 57.821 33.333 0.00 0.00 35.56 2.32
6395 7824 8.635765 AAATACTTGTCTTTCTAGGCATTTCA 57.364 30.769 0.00 0.00 35.56 2.69
6396 7825 8.635765 AATACTTGTCTTTCTAGGCATTTCAA 57.364 30.769 0.00 0.00 35.56 2.69
6397 7826 6.319141 ACTTGTCTTTCTAGGCATTTCAAC 57.681 37.500 0.00 0.00 35.56 3.18
6398 7827 5.827797 ACTTGTCTTTCTAGGCATTTCAACA 59.172 36.000 0.00 0.00 35.56 3.33
6399 7828 6.321181 ACTTGTCTTTCTAGGCATTTCAACAA 59.679 34.615 0.00 0.00 35.56 2.83
6400 7829 6.317789 TGTCTTTCTAGGCATTTCAACAAG 57.682 37.500 0.00 0.00 29.10 3.16
6401 7830 5.827797 TGTCTTTCTAGGCATTTCAACAAGT 59.172 36.000 0.00 0.00 29.10 3.16
6402 7831 6.145535 GTCTTTCTAGGCATTTCAACAAGTG 58.854 40.000 0.00 0.00 0.00 3.16
6403 7832 6.017109 GTCTTTCTAGGCATTTCAACAAGTGA 60.017 38.462 0.00 0.00 0.00 3.41
6404 7833 5.689383 TTCTAGGCATTTCAACAAGTGAC 57.311 39.130 0.00 0.00 35.39 3.67
6405 7834 4.973168 TCTAGGCATTTCAACAAGTGACT 58.027 39.130 0.00 0.00 40.60 3.41
6406 7835 6.109156 TCTAGGCATTTCAACAAGTGACTA 57.891 37.500 0.00 0.00 38.51 2.59
6407 7836 5.932303 TCTAGGCATTTCAACAAGTGACTAC 59.068 40.000 0.00 0.00 38.51 2.73
6408 7837 4.460263 AGGCATTTCAACAAGTGACTACA 58.540 39.130 0.00 0.00 35.84 2.74
6409 7838 5.072741 AGGCATTTCAACAAGTGACTACAT 58.927 37.500 0.00 0.00 35.84 2.29
6410 7839 6.237901 AGGCATTTCAACAAGTGACTACATA 58.762 36.000 0.00 0.00 35.84 2.29
6411 7840 6.149474 AGGCATTTCAACAAGTGACTACATAC 59.851 38.462 0.00 0.00 35.84 2.39
6412 7841 6.015504 GCATTTCAACAAGTGACTACATACG 58.984 40.000 0.00 0.00 35.39 3.06
6413 7842 6.534059 CATTTCAACAAGTGACTACATACGG 58.466 40.000 0.00 0.00 35.39 4.02
6414 7843 5.456548 TTCAACAAGTGACTACATACGGA 57.543 39.130 0.00 0.00 35.39 4.69
6415 7844 5.055642 TCAACAAGTGACTACATACGGAG 57.944 43.478 0.00 0.00 0.00 4.63
6416 7845 3.505464 ACAAGTGACTACATACGGAGC 57.495 47.619 0.00 0.00 0.00 4.70
6417 7846 2.823747 ACAAGTGACTACATACGGAGCA 59.176 45.455 0.00 0.00 0.00 4.26
6418 7847 3.257375 ACAAGTGACTACATACGGAGCAA 59.743 43.478 0.00 0.00 0.00 3.91
6419 7848 4.242475 CAAGTGACTACATACGGAGCAAA 58.758 43.478 0.00 0.00 0.00 3.68
6420 7849 4.530710 AGTGACTACATACGGAGCAAAA 57.469 40.909 0.00 0.00 0.00 2.44
6421 7850 5.086104 AGTGACTACATACGGAGCAAAAT 57.914 39.130 0.00 0.00 0.00 1.82
6422 7851 4.870426 AGTGACTACATACGGAGCAAAATG 59.130 41.667 0.00 0.00 0.00 2.32
6423 7852 4.868171 GTGACTACATACGGAGCAAAATGA 59.132 41.667 0.00 0.00 0.00 2.57
6424 7853 5.005779 GTGACTACATACGGAGCAAAATGAG 59.994 44.000 0.00 0.00 0.00 2.90
6425 7854 5.086104 ACTACATACGGAGCAAAATGAGT 57.914 39.130 0.00 0.00 0.00 3.41
6426 7855 4.870426 ACTACATACGGAGCAAAATGAGTG 59.130 41.667 0.00 0.00 0.00 3.51
6427 7856 3.937814 ACATACGGAGCAAAATGAGTGA 58.062 40.909 0.00 0.00 0.00 3.41
6428 7857 4.323417 ACATACGGAGCAAAATGAGTGAA 58.677 39.130 0.00 0.00 0.00 3.18
6429 7858 4.943705 ACATACGGAGCAAAATGAGTGAAT 59.056 37.500 0.00 0.00 0.00 2.57
6430 7859 5.065218 ACATACGGAGCAAAATGAGTGAATC 59.935 40.000 0.00 0.00 0.00 2.52
6431 7860 3.679389 ACGGAGCAAAATGAGTGAATCT 58.321 40.909 0.00 0.00 0.00 2.40
6432 7861 4.832248 ACGGAGCAAAATGAGTGAATCTA 58.168 39.130 0.00 0.00 0.00 1.98
6433 7862 4.631813 ACGGAGCAAAATGAGTGAATCTAC 59.368 41.667 0.00 0.00 0.00 2.59
6434 7863 4.631377 CGGAGCAAAATGAGTGAATCTACA 59.369 41.667 0.00 0.00 0.00 2.74
6435 7864 5.446473 CGGAGCAAAATGAGTGAATCTACAC 60.446 44.000 0.00 0.00 40.60 2.90
6478 7907 7.342769 ACATCCGTATGTAGTAGTCATTTGA 57.657 36.000 0.00 0.00 44.66 2.69
6479 7908 7.778083 ACATCCGTATGTAGTAGTCATTTGAA 58.222 34.615 0.00 0.00 44.66 2.69
6480 7909 8.255206 ACATCCGTATGTAGTAGTCATTTGAAA 58.745 33.333 0.00 0.00 44.66 2.69
6481 7910 9.261180 CATCCGTATGTAGTAGTCATTTGAAAT 57.739 33.333 0.00 0.00 0.00 2.17
6482 7911 8.642908 TCCGTATGTAGTAGTCATTTGAAATG 57.357 34.615 11.54 11.54 0.00 2.32
6483 7912 8.255206 TCCGTATGTAGTAGTCATTTGAAATGT 58.745 33.333 16.62 2.38 0.00 2.71
6484 7913 8.540492 CCGTATGTAGTAGTCATTTGAAATGTC 58.460 37.037 16.62 11.74 0.00 3.06
6485 7914 9.302345 CGTATGTAGTAGTCATTTGAAATGTCT 57.698 33.333 18.62 18.62 0.00 3.41
6509 7938 9.595823 TCTAGAAAGACAAATATTTAGGAACGG 57.404 33.333 0.00 0.00 0.00 4.44
6510 7939 9.595823 CTAGAAAGACAAATATTTAGGAACGGA 57.404 33.333 0.00 0.00 0.00 4.69
6511 7940 8.494016 AGAAAGACAAATATTTAGGAACGGAG 57.506 34.615 0.00 0.00 0.00 4.63
6512 7941 7.553044 AGAAAGACAAATATTTAGGAACGGAGG 59.447 37.037 0.00 0.00 0.00 4.30
6513 7942 5.681639 AGACAAATATTTAGGAACGGAGGG 58.318 41.667 0.00 0.00 0.00 4.30
6514 7943 5.427481 AGACAAATATTTAGGAACGGAGGGA 59.573 40.000 0.00 0.00 0.00 4.20
6529 7958 2.351455 GAGGGAGTAGTTTTCTGCTGC 58.649 52.381 0.00 0.00 46.46 5.25
6569 7998 5.622770 TTTTCTCGTATTTTCAGGAAGCC 57.377 39.130 0.00 0.00 0.00 4.35
6620 8049 2.682352 GCAAGAGAGGCAAAAGAGGATC 59.318 50.000 0.00 0.00 0.00 3.36
6649 8078 1.668419 AGTGGCGCATCTAATCCAAC 58.332 50.000 10.83 0.00 0.00 3.77
6657 8086 4.261322 GCGCATCTAATCCAACATCAACAT 60.261 41.667 0.30 0.00 0.00 2.71
6994 8423 2.172483 AATCCCAAGTCAGCGAGCGT 62.172 55.000 0.00 0.00 0.00 5.07
7055 8484 4.090761 TGTGCAGACCAAGAAAATCTCT 57.909 40.909 0.00 0.00 35.13 3.10
7253 8682 6.544564 AGAAATCTTCCAACGGTAAAGTTTCA 59.455 34.615 16.14 0.00 30.79 2.69
7261 8690 5.242171 CCAACGGTAAAGTTTCAAGGGTAAT 59.758 40.000 0.00 0.00 30.96 1.89
7589 9018 2.513753 TGGGGTATCTGTTTTGCTGTG 58.486 47.619 0.00 0.00 0.00 3.66
7790 9219 2.282180 TTGAGAAACCAGCCCCGC 60.282 61.111 0.00 0.00 0.00 6.13
8080 9509 3.338249 CCACACTTCAACGATGGATTCT 58.662 45.455 0.00 0.00 31.69 2.40
8122 9551 1.143813 CCCCTGCAGGAGATGGTAAT 58.856 55.000 34.91 0.00 38.24 1.89
8123 9552 1.202855 CCCCTGCAGGAGATGGTAATG 60.203 57.143 34.91 12.69 38.24 1.90
8131 9560 6.131264 TGCAGGAGATGGTAATGAATCAATT 58.869 36.000 0.00 0.00 0.00 2.32
8132 9561 6.608405 TGCAGGAGATGGTAATGAATCAATTT 59.392 34.615 0.00 0.00 0.00 1.82
8133 9562 7.124599 TGCAGGAGATGGTAATGAATCAATTTT 59.875 33.333 0.00 0.00 0.00 1.82
8135 9564 8.689061 CAGGAGATGGTAATGAATCAATTTTGA 58.311 33.333 0.00 0.00 42.14 2.69
8177 9613 3.000727 GCTCATTGCTGTAACTAACCGT 58.999 45.455 0.00 0.00 38.95 4.83
8221 9792 4.518590 TCGATGCTGAAAAACCTCATTTCA 59.481 37.500 2.19 2.19 42.73 2.69
8233 9804 3.322254 ACCTCATTTCACAAGACGACTCT 59.678 43.478 0.00 0.00 0.00 3.24
8236 9807 2.595124 TTTCACAAGACGACTCTGCA 57.405 45.000 0.00 0.00 0.00 4.41
8245 9816 0.897863 ACGACTCTGCAGGCTCTTCT 60.898 55.000 15.13 0.00 0.00 2.85
8256 9827 4.019321 TGCAGGCTCTTCTTACAAAGGTAT 60.019 41.667 0.00 0.00 0.00 2.73
8258 9829 5.491982 CAGGCTCTTCTTACAAAGGTATGT 58.508 41.667 0.00 0.00 37.32 2.29
8261 9832 5.816258 GGCTCTTCTTACAAAGGTATGTACC 59.184 44.000 0.81 0.81 46.82 3.34
8299 10265 8.650143 AGCATAAGTTAATTTTCTCCCTGAAA 57.350 30.769 0.00 0.00 42.33 2.69
8300 10266 9.259832 AGCATAAGTTAATTTTCTCCCTGAAAT 57.740 29.630 0.00 0.00 43.34 2.17
8576 11520 5.510323 GTGTTGTGTTGTTTGTAAGCAGTAC 59.490 40.000 0.00 0.00 0.00 2.73
8577 11521 5.413213 TGTTGTGTTGTTTGTAAGCAGTACT 59.587 36.000 0.00 0.00 33.46 2.73
8633 11577 4.193826 TCTACACATCAACTCTTGCTCC 57.806 45.455 0.00 0.00 0.00 4.70
8651 11595 5.321927 TGCTCCTATATACTTGTGGATCGA 58.678 41.667 0.00 0.00 0.00 3.59
8654 11598 7.039011 TGCTCCTATATACTTGTGGATCGAATT 60.039 37.037 0.00 0.00 0.00 2.17
8697 11641 7.573656 CGGCGTATTAGTTCTGGTGTATATACA 60.574 40.741 11.62 11.62 0.00 2.29
8772 11731 6.238703 GGACGGATGGAGTAGTAGTTAAGAAG 60.239 46.154 0.00 0.00 0.00 2.85
8774 11733 6.318396 ACGGATGGAGTAGTAGTTAAGAAGAC 59.682 42.308 0.00 0.00 0.00 3.01
8808 11767 5.799827 ATTCCGGAGAAACCATTTTTCAA 57.200 34.783 3.34 0.00 38.90 2.69
9066 12136 4.763793 AGTGTGCTTGCTTGATCAAGTAAT 59.236 37.500 30.95 17.34 43.92 1.89
9094 12164 5.824904 AGAAGCATATGCAACAGTAAAGG 57.175 39.130 28.62 0.00 45.16 3.11
9115 12185 3.181483 GGAAAGAAGCTATTGCCCATGTG 60.181 47.826 0.00 0.00 40.80 3.21
9126 12196 3.998913 TGCCCATGTGAAGATCAAGTA 57.001 42.857 0.00 0.00 0.00 2.24
9172 12244 7.133891 AGTTTCAAGTTGTTTCATAGATCCG 57.866 36.000 2.11 0.00 0.00 4.18
9275 12362 3.188048 CACAAAGATGAGTGAGAAGTGGC 59.812 47.826 0.00 0.00 37.97 5.01
9288 12376 2.438021 AGAAGTGGCCAAGTTGTACTCA 59.562 45.455 7.24 0.00 0.00 3.41
9290 12378 4.286032 AGAAGTGGCCAAGTTGTACTCATA 59.714 41.667 7.24 0.00 0.00 2.15
9291 12379 4.634012 AGTGGCCAAGTTGTACTCATAA 57.366 40.909 7.24 0.00 0.00 1.90
9292 12380 5.179452 AGTGGCCAAGTTGTACTCATAAT 57.821 39.130 7.24 0.00 0.00 1.28
9293 12381 5.186198 AGTGGCCAAGTTGTACTCATAATC 58.814 41.667 7.24 0.00 0.00 1.75
9294 12382 5.045578 AGTGGCCAAGTTGTACTCATAATCT 60.046 40.000 7.24 0.00 0.00 2.40
9296 12384 6.821665 GTGGCCAAGTTGTACTCATAATCTTA 59.178 38.462 7.24 0.00 0.00 2.10
9387 14612 4.011966 ACTGAGCATTCATGACAGTTCA 57.988 40.909 9.48 10.35 40.85 3.18
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
21 22 3.744530 CGTCCCTCTTCAACCTCTTTTGT 60.745 47.826 0.00 0.00 0.00 2.83
26 27 1.878656 CGCGTCCCTCTTCAACCTCT 61.879 60.000 0.00 0.00 0.00 3.69
34 35 2.756283 CCTCCTCGCGTCCCTCTT 60.756 66.667 5.77 0.00 0.00 2.85
66 67 0.974010 AACGCTGGTCCTCCCGATAA 60.974 55.000 3.92 0.00 35.15 1.75
79 80 4.139420 CTGCTTCCGCGAACGCTG 62.139 66.667 8.23 10.65 39.65 5.18
235 237 4.689345 AGTTCTGGCGTACACAGATAAAAC 59.311 41.667 15.54 11.51 43.82 2.43
426 432 0.665972 TTTTTGAGCCGGATTTGCGC 60.666 50.000 5.05 0.00 0.00 6.09
488 505 4.256090 GTCCGCCCAATGCATCGC 62.256 66.667 0.00 1.08 41.33 4.58
577 596 4.841813 TCTACCAACTGGACTGGATGTTAA 59.158 41.667 1.86 0.00 37.40 2.01
578 597 4.422057 TCTACCAACTGGACTGGATGTTA 58.578 43.478 1.86 0.00 37.40 2.41
579 598 3.248024 TCTACCAACTGGACTGGATGTT 58.752 45.455 1.86 0.00 37.40 2.71
580 599 2.902608 TCTACCAACTGGACTGGATGT 58.097 47.619 1.86 0.00 37.40 3.06
581 600 3.452264 TCATCTACCAACTGGACTGGATG 59.548 47.826 1.86 4.77 37.40 3.51
582 601 3.708631 CTCATCTACCAACTGGACTGGAT 59.291 47.826 1.86 0.00 37.40 3.41
583 602 3.099905 CTCATCTACCAACTGGACTGGA 58.900 50.000 1.86 0.00 37.40 3.86
584 603 3.099905 TCTCATCTACCAACTGGACTGG 58.900 50.000 1.86 0.00 40.05 4.00
585 604 4.403752 TCATCTCATCTACCAACTGGACTG 59.596 45.833 1.86 0.00 38.94 3.51
586 605 4.614475 TCATCTCATCTACCAACTGGACT 58.386 43.478 1.86 0.00 38.94 3.85
587 606 4.646945 TCTCATCTCATCTACCAACTGGAC 59.353 45.833 1.86 0.00 38.94 4.02
588 607 4.871822 TCTCATCTCATCTACCAACTGGA 58.128 43.478 1.86 0.00 38.94 3.86
589 608 5.303845 TCATCTCATCTCATCTACCAACTGG 59.696 44.000 0.00 0.00 42.17 4.00
590 609 6.264970 TCTCATCTCATCTCATCTACCAACTG 59.735 42.308 0.00 0.00 0.00 3.16
591 610 6.265196 GTCTCATCTCATCTCATCTACCAACT 59.735 42.308 0.00 0.00 0.00 3.16
592 611 6.446318 GTCTCATCTCATCTCATCTACCAAC 58.554 44.000 0.00 0.00 0.00 3.77
593 612 5.240403 CGTCTCATCTCATCTCATCTACCAA 59.760 44.000 0.00 0.00 0.00 3.67
594 613 4.759183 CGTCTCATCTCATCTCATCTACCA 59.241 45.833 0.00 0.00 0.00 3.25
595 614 5.000591 TCGTCTCATCTCATCTCATCTACC 58.999 45.833 0.00 0.00 0.00 3.18
596 615 5.931724 TCTCGTCTCATCTCATCTCATCTAC 59.068 44.000 0.00 0.00 0.00 2.59
597 616 6.107901 TCTCGTCTCATCTCATCTCATCTA 57.892 41.667 0.00 0.00 0.00 1.98
598 617 4.971939 TCTCGTCTCATCTCATCTCATCT 58.028 43.478 0.00 0.00 0.00 2.90
599 618 5.392272 CCATCTCGTCTCATCTCATCTCATC 60.392 48.000 0.00 0.00 0.00 2.92
600 619 4.460034 CCATCTCGTCTCATCTCATCTCAT 59.540 45.833 0.00 0.00 0.00 2.90
601 620 3.819902 CCATCTCGTCTCATCTCATCTCA 59.180 47.826 0.00 0.00 0.00 3.27
602 621 4.071423 TCCATCTCGTCTCATCTCATCTC 58.929 47.826 0.00 0.00 0.00 2.75
603 622 3.820467 GTCCATCTCGTCTCATCTCATCT 59.180 47.826 0.00 0.00 0.00 2.90
604 623 3.820467 AGTCCATCTCGTCTCATCTCATC 59.180 47.826 0.00 0.00 0.00 2.92
605 624 3.569277 CAGTCCATCTCGTCTCATCTCAT 59.431 47.826 0.00 0.00 0.00 2.90
606 625 2.948315 CAGTCCATCTCGTCTCATCTCA 59.052 50.000 0.00 0.00 0.00 3.27
607 626 2.287547 GCAGTCCATCTCGTCTCATCTC 60.288 54.545 0.00 0.00 0.00 2.75
608 627 1.680735 GCAGTCCATCTCGTCTCATCT 59.319 52.381 0.00 0.00 0.00 2.90
609 628 1.406898 TGCAGTCCATCTCGTCTCATC 59.593 52.381 0.00 0.00 0.00 2.92
610 629 1.135915 GTGCAGTCCATCTCGTCTCAT 59.864 52.381 0.00 0.00 0.00 2.90
611 630 0.528017 GTGCAGTCCATCTCGTCTCA 59.472 55.000 0.00 0.00 0.00 3.27
612 631 0.528017 TGTGCAGTCCATCTCGTCTC 59.472 55.000 0.00 0.00 0.00 3.36
613 632 1.135915 GATGTGCAGTCCATCTCGTCT 59.864 52.381 8.20 0.00 36.59 4.18
614 633 1.565305 GATGTGCAGTCCATCTCGTC 58.435 55.000 8.20 0.00 36.59 4.20
615 634 0.176680 GGATGTGCAGTCCATCTCGT 59.823 55.000 13.62 0.00 38.95 4.18
616 635 0.463204 AGGATGTGCAGTCCATCTCG 59.537 55.000 17.79 0.00 38.95 4.04
677 696 1.015868 GAAATGAGGCTGCTCTGCTC 58.984 55.000 0.00 0.00 0.00 4.26
682 701 1.454663 GGGGGAAATGAGGCTGCTC 60.455 63.158 0.00 0.00 0.00 4.26
698 717 1.563879 TCAGTGAGAGAGAGAGAGGGG 59.436 57.143 0.00 0.00 0.00 4.79
717 736 2.820479 CTGCTCCTGCTGCTGCTC 60.820 66.667 17.00 2.00 40.48 4.26
737 763 1.037030 AGGAGGAAGAGAGCGCAGAG 61.037 60.000 11.47 0.00 0.00 3.35
817 863 6.096846 AGGAAGAAGAAGAAGAGATGCTAGAC 59.903 42.308 0.00 0.00 0.00 2.59
847 910 1.271656 AGCAGGAGCAAATGCAAAGAC 59.728 47.619 8.28 0.00 45.01 3.01
850 913 0.604578 GGAGCAGGAGCAAATGCAAA 59.395 50.000 8.28 0.00 45.01 3.68
894 959 4.657814 AGAAAAAGTGGCAATCTCCCTA 57.342 40.909 0.00 0.00 0.00 3.53
904 975 2.863401 AACGTCCAAGAAAAAGTGGC 57.137 45.000 0.00 0.00 34.68 5.01
928 1001 2.271800 CAGCCGAATGTCTGGTAGAAC 58.728 52.381 0.00 0.00 0.00 3.01
940 1013 2.124570 ATCTTGCGCCAGCCGAAT 60.125 55.556 4.18 0.00 44.33 3.34
964 1037 1.071542 TGGTGATTCTTGACGGCTTCA 59.928 47.619 0.00 0.00 0.00 3.02
965 1038 1.464997 GTGGTGATTCTTGACGGCTTC 59.535 52.381 0.00 0.00 0.00 3.86
966 1039 1.523758 GTGGTGATTCTTGACGGCTT 58.476 50.000 0.00 0.00 0.00 4.35
967 1040 0.321653 GGTGGTGATTCTTGACGGCT 60.322 55.000 0.00 0.00 0.00 5.52
972 1045 1.375396 CGCCGGTGGTGATTCTTGA 60.375 57.895 7.26 0.00 34.74 3.02
973 1046 2.398554 CCGCCGGTGGTGATTCTTG 61.399 63.158 26.60 0.00 34.74 3.02
974 1047 2.046314 CCGCCGGTGGTGATTCTT 60.046 61.111 26.60 0.00 34.74 2.52
975 1048 4.778143 GCCGCCGGTGGTGATTCT 62.778 66.667 33.67 0.00 34.74 2.40
996 1075 3.532155 GTCTCCGGCCTCATCGCT 61.532 66.667 0.00 0.00 0.00 4.93
1153 1346 5.730568 GCACAAATCCAGCGATAAAGTAAGG 60.731 44.000 0.00 0.00 0.00 2.69
1154 1347 5.065218 AGCACAAATCCAGCGATAAAGTAAG 59.935 40.000 0.00 0.00 0.00 2.34
1155 1348 4.941263 AGCACAAATCCAGCGATAAAGTAA 59.059 37.500 0.00 0.00 0.00 2.24
1156 1349 4.513442 AGCACAAATCCAGCGATAAAGTA 58.487 39.130 0.00 0.00 0.00 2.24
1158 1351 3.624861 AGAGCACAAATCCAGCGATAAAG 59.375 43.478 0.00 0.00 0.00 1.85
1159 1352 3.609853 AGAGCACAAATCCAGCGATAAA 58.390 40.909 0.00 0.00 0.00 1.40
1191 1405 7.008086 GCTGAAGATTGCAATGCGATATATTTC 59.992 37.037 18.59 10.24 32.11 2.17
1194 1408 5.163683 GGCTGAAGATTGCAATGCGATATAT 60.164 40.000 18.59 0.00 32.11 0.86
1227 1442 1.608822 ACGCACGAACACACAAAAAC 58.391 45.000 0.00 0.00 0.00 2.43
1309 2177 9.770097 TCAAATCACACCTGCAATAAAATAAAA 57.230 25.926 0.00 0.00 0.00 1.52
1310 2178 9.941325 ATCAAATCACACCTGCAATAAAATAAA 57.059 25.926 0.00 0.00 0.00 1.40
1573 2454 1.266718 GAAGCAACCACGCAAATGAGA 59.733 47.619 0.00 0.00 0.00 3.27
1599 2485 1.082117 AAGCGGACGAACCTAATGCG 61.082 55.000 0.00 0.00 36.31 4.73
1752 2740 6.856938 CAGTCAGTGTCAAGTAAGTAGTACAC 59.143 42.308 2.52 0.00 37.96 2.90
1805 2823 2.351455 GCCTTCTTCCTAACACAGAGC 58.649 52.381 0.00 0.00 0.00 4.09
1818 2836 3.374764 GGTTTCCCATTATGGCCTTCTT 58.625 45.455 5.57 0.00 35.79 2.52
2119 3164 2.699954 ACTTTTGAGGCGTCCACTATG 58.300 47.619 3.56 0.00 0.00 2.23
2449 3508 4.876107 CACCATCAGTATTGTAACCTGTCC 59.124 45.833 0.00 0.00 0.00 4.02
2529 3589 8.635765 ACCATGACACACTTATTACAGAAAAT 57.364 30.769 0.00 0.00 0.00 1.82
2562 3629 9.436957 ACAAGAACGTCAGAGTTAATTATGATT 57.563 29.630 0.00 0.00 34.00 2.57
2697 3765 7.798982 GTGAGATAAAACGTCTTCAAGGAAAAG 59.201 37.037 0.00 0.00 0.00 2.27
3150 4310 5.473039 TCCGATACATCAAGCATGATACTG 58.527 41.667 3.75 0.00 44.53 2.74
3193 4380 4.620982 GGCGCAAATTAATTATCTGCCTT 58.379 39.130 10.83 0.00 37.03 4.35
3387 4580 6.694411 CAGTTGATCAAGAAAAGGTTCAAGTG 59.306 38.462 8.80 0.00 37.85 3.16
3476 4669 2.348666 CGAAGTTAGCGCTTATGCACTT 59.651 45.455 18.68 15.95 39.64 3.16
3651 4862 6.039047 CAGACATTGTTTCCTTATCTCCCATG 59.961 42.308 0.00 0.00 0.00 3.66
3679 4890 9.964354 CATAATCCCATTTGTATCTCCATTAGA 57.036 33.333 0.00 0.00 39.02 2.10
3680 4891 9.745018 ACATAATCCCATTTGTATCTCCATTAG 57.255 33.333 0.00 0.00 0.00 1.73
3682 4893 9.082313 GAACATAATCCCATTTGTATCTCCATT 57.918 33.333 0.00 0.00 0.00 3.16
3683 4894 8.226810 TGAACATAATCCCATTTGTATCTCCAT 58.773 33.333 0.00 0.00 0.00 3.41
3684 4895 7.581814 TGAACATAATCCCATTTGTATCTCCA 58.418 34.615 0.00 0.00 0.00 3.86
3685 4896 8.517878 CATGAACATAATCCCATTTGTATCTCC 58.482 37.037 0.00 0.00 0.00 3.71
3686 4897 8.517878 CCATGAACATAATCCCATTTGTATCTC 58.482 37.037 0.00 0.00 0.00 2.75
3687 4898 7.452501 CCCATGAACATAATCCCATTTGTATCT 59.547 37.037 0.00 0.00 0.00 1.98
3688 4899 7.451255 TCCCATGAACATAATCCCATTTGTATC 59.549 37.037 0.00 0.00 0.00 2.24
3689 4900 7.304479 TCCCATGAACATAATCCCATTTGTAT 58.696 34.615 0.00 0.00 0.00 2.29
3690 4901 6.677552 TCCCATGAACATAATCCCATTTGTA 58.322 36.000 0.00 0.00 0.00 2.41
3691 4902 5.527385 TCCCATGAACATAATCCCATTTGT 58.473 37.500 0.00 0.00 0.00 2.83
3692 4903 5.834742 TCTCCCATGAACATAATCCCATTTG 59.165 40.000 0.00 0.00 0.00 2.32
3693 4904 6.029492 TCTCCCATGAACATAATCCCATTT 57.971 37.500 0.00 0.00 0.00 2.32
3694 4905 5.668135 TCTCCCATGAACATAATCCCATT 57.332 39.130 0.00 0.00 0.00 3.16
3695 4906 5.873111 ATCTCCCATGAACATAATCCCAT 57.127 39.130 0.00 0.00 0.00 4.00
3696 4907 6.240263 CCTTATCTCCCATGAACATAATCCCA 60.240 42.308 0.00 0.00 0.00 4.37
3697 4908 6.012508 TCCTTATCTCCCATGAACATAATCCC 60.013 42.308 0.00 0.00 0.00 3.85
3698 4909 7.020827 TCCTTATCTCCCATGAACATAATCC 57.979 40.000 0.00 0.00 0.00 3.01
3699 4910 8.787852 GTTTCCTTATCTCCCATGAACATAATC 58.212 37.037 0.00 0.00 0.00 1.75
3700 4911 8.281531 TGTTTCCTTATCTCCCATGAACATAAT 58.718 33.333 0.00 0.00 0.00 1.28
3701 4912 7.638444 TGTTTCCTTATCTCCCATGAACATAA 58.362 34.615 0.00 0.00 0.00 1.90
3702 4913 7.206789 TGTTTCCTTATCTCCCATGAACATA 57.793 36.000 0.00 0.00 0.00 2.29
3703 4914 6.078456 TGTTTCCTTATCTCCCATGAACAT 57.922 37.500 0.00 0.00 0.00 2.71
3704 4915 5.512942 TGTTTCCTTATCTCCCATGAACA 57.487 39.130 0.00 0.00 0.00 3.18
3705 4916 6.378280 ACATTGTTTCCTTATCTCCCATGAAC 59.622 38.462 0.00 0.00 0.00 3.18
3706 4917 6.493166 ACATTGTTTCCTTATCTCCCATGAA 58.507 36.000 0.00 0.00 0.00 2.57
3707 4918 6.069440 AGACATTGTTTCCTTATCTCCCATGA 60.069 38.462 0.00 0.00 0.00 3.07
3708 4919 6.039047 CAGACATTGTTTCCTTATCTCCCATG 59.961 42.308 0.00 0.00 0.00 3.66
3709 4920 6.125029 CAGACATTGTTTCCTTATCTCCCAT 58.875 40.000 0.00 0.00 0.00 4.00
3710 4921 5.014123 ACAGACATTGTTTCCTTATCTCCCA 59.986 40.000 0.00 0.00 36.31 4.37
3711 4922 5.501156 ACAGACATTGTTTCCTTATCTCCC 58.499 41.667 0.00 0.00 36.31 4.30
3712 4923 6.410540 AGACAGACATTGTTTCCTTATCTCC 58.589 40.000 0.00 0.00 41.05 3.71
3713 4924 7.327214 AGAGACAGACATTGTTTCCTTATCTC 58.673 38.462 0.00 0.05 40.78 2.75
3714 4925 7.251321 AGAGACAGACATTGTTTCCTTATCT 57.749 36.000 0.00 0.00 40.78 1.98
3715 4926 9.606631 ATTAGAGACAGACATTGTTTCCTTATC 57.393 33.333 0.00 0.00 40.78 1.75
3716 4927 9.388506 CATTAGAGACAGACATTGTTTCCTTAT 57.611 33.333 0.00 0.00 40.78 1.73
3717 4928 7.824289 CCATTAGAGACAGACATTGTTTCCTTA 59.176 37.037 0.00 0.00 40.78 2.69
3718 4929 6.656693 CCATTAGAGACAGACATTGTTTCCTT 59.343 38.462 0.00 0.00 40.78 3.36
3719 4930 6.013379 TCCATTAGAGACAGACATTGTTTCCT 60.013 38.462 0.00 0.00 40.78 3.36
3720 4931 6.173339 TCCATTAGAGACAGACATTGTTTCC 58.827 40.000 0.00 0.00 40.78 3.13
3721 4932 7.301068 CTCCATTAGAGACAGACATTGTTTC 57.699 40.000 0.00 0.00 46.50 2.78
3805 5019 5.852282 ACTAAACAAAGTGAGCATTTGGT 57.148 34.783 3.74 0.00 41.05 3.67
3926 5188 9.533253 GGAATAATTTGGATCACAATGTTTAGG 57.467 33.333 0.00 0.00 39.21 2.69
4022 5285 4.708909 TCAATATGGCTGCACAATTACCAA 59.291 37.500 0.50 0.00 33.30 3.67
4150 5420 1.142667 TGTGCCCTGTGATCTGTCAAA 59.857 47.619 0.00 0.00 35.80 2.69
4319 5625 2.171448 AGTTGTACCTGGGATCATCTGC 59.829 50.000 0.00 0.00 0.00 4.26
4340 5646 3.095912 TGATGGTCTCCTTTCCGAGTA 57.904 47.619 0.00 0.00 0.00 2.59
4400 5706 5.634896 GCTTTGATCGTCACTTTCATCATT 58.365 37.500 0.00 0.00 0.00 2.57
4417 5723 0.321671 CCCTCTCTGAACCGCTTTGA 59.678 55.000 0.00 0.00 0.00 2.69
4750 6103 5.862845 TCTTCATCTCTGAGCAAGAAGTTT 58.137 37.500 21.59 0.00 35.30 2.66
4819 6172 4.660938 GGTGGTGGTGGTGGCTCC 62.661 72.222 0.00 0.00 0.00 4.70
4905 6258 1.334419 GCATTCCATTTCGCTCATCGG 60.334 52.381 0.00 0.00 39.05 4.18
4976 6329 5.715439 TCCCCAGACATCATAAGTTCATT 57.285 39.130 0.00 0.00 0.00 2.57
5367 6726 9.894783 GATCATATCCAAATGAAACATCTTCAG 57.105 33.333 0.00 0.00 39.25 3.02
5702 7071 8.524487 AGATGAGTAAATTAAGTCTCGTGAAGT 58.476 33.333 0.00 0.00 0.00 3.01
6079 7505 4.574828 GCAGGAAACAGTGTGTCTAAAAGA 59.425 41.667 13.21 0.00 0.00 2.52
6092 7518 2.493278 CAATAACAGGGGCAGGAAACAG 59.507 50.000 0.00 0.00 0.00 3.16
6117 7543 8.591312 CGTTTGTTAATATAGCCATTTTGGTTG 58.409 33.333 0.00 0.00 40.46 3.77
6119 7545 8.057536 TCGTTTGTTAATATAGCCATTTTGGT 57.942 30.769 0.00 0.00 40.46 3.67
6128 7554 7.524065 AGTTGGTGTTCGTTTGTTAATATAGC 58.476 34.615 0.00 0.00 0.00 2.97
6143 7570 5.227908 TCTCGTCTTGATAAGTTGGTGTTC 58.772 41.667 0.00 0.00 0.00 3.18
6155 7582 5.289675 CGAGCAAAAAGTATCTCGTCTTGAT 59.710 40.000 0.00 0.00 42.24 2.57
6345 7774 4.161001 GGAACGGAGGGAGTACAATTCTTA 59.839 45.833 0.00 0.00 0.00 2.10
6356 7785 4.161754 ACAAGTATTTAGGAACGGAGGGAG 59.838 45.833 0.00 0.00 0.00 4.30
6357 7786 4.098894 ACAAGTATTTAGGAACGGAGGGA 58.901 43.478 0.00 0.00 0.00 4.20
6358 7787 4.161754 AGACAAGTATTTAGGAACGGAGGG 59.838 45.833 0.00 0.00 0.00 4.30
6359 7788 5.340439 AGACAAGTATTTAGGAACGGAGG 57.660 43.478 0.00 0.00 0.00 4.30
6360 7789 7.097834 AGAAAGACAAGTATTTAGGAACGGAG 58.902 38.462 0.00 0.00 0.00 4.63
6361 7790 7.001099 AGAAAGACAAGTATTTAGGAACGGA 57.999 36.000 0.00 0.00 0.00 4.69
6362 7791 7.491696 CCTAGAAAGACAAGTATTTAGGAACGG 59.508 40.741 4.01 0.00 26.70 4.44
6363 7792 7.010275 GCCTAGAAAGACAAGTATTTAGGAACG 59.990 40.741 11.40 0.00 26.70 3.95
6364 7793 7.822822 TGCCTAGAAAGACAAGTATTTAGGAAC 59.177 37.037 11.40 0.00 26.70 3.62
6365 7794 7.913789 TGCCTAGAAAGACAAGTATTTAGGAA 58.086 34.615 11.40 1.02 26.70 3.36
6366 7795 7.490657 TGCCTAGAAAGACAAGTATTTAGGA 57.509 36.000 11.40 0.00 26.70 2.94
6367 7796 8.738645 AATGCCTAGAAAGACAAGTATTTAGG 57.261 34.615 5.26 5.26 0.00 2.69
6369 7798 9.733556 TGAAATGCCTAGAAAGACAAGTATTTA 57.266 29.630 0.00 0.00 0.00 1.40
6370 7799 8.635765 TGAAATGCCTAGAAAGACAAGTATTT 57.364 30.769 0.00 0.00 0.00 1.40
6371 7800 8.515414 GTTGAAATGCCTAGAAAGACAAGTATT 58.485 33.333 0.00 0.00 0.00 1.89
6372 7801 7.665559 TGTTGAAATGCCTAGAAAGACAAGTAT 59.334 33.333 0.00 0.00 0.00 2.12
6373 7802 6.995686 TGTTGAAATGCCTAGAAAGACAAGTA 59.004 34.615 0.00 0.00 0.00 2.24
6374 7803 5.827797 TGTTGAAATGCCTAGAAAGACAAGT 59.172 36.000 0.00 0.00 0.00 3.16
6375 7804 6.317789 TGTTGAAATGCCTAGAAAGACAAG 57.682 37.500 0.00 0.00 0.00 3.16
6376 7805 6.321181 ACTTGTTGAAATGCCTAGAAAGACAA 59.679 34.615 0.00 0.00 0.00 3.18
6377 7806 5.827797 ACTTGTTGAAATGCCTAGAAAGACA 59.172 36.000 0.00 0.00 0.00 3.41
6378 7807 6.017109 TCACTTGTTGAAATGCCTAGAAAGAC 60.017 38.462 0.00 0.00 0.00 3.01
6379 7808 6.017109 GTCACTTGTTGAAATGCCTAGAAAGA 60.017 38.462 0.00 0.00 35.39 2.52
6380 7809 6.016777 AGTCACTTGTTGAAATGCCTAGAAAG 60.017 38.462 0.00 0.00 35.39 2.62
6381 7810 5.827797 AGTCACTTGTTGAAATGCCTAGAAA 59.172 36.000 0.00 0.00 35.39 2.52
6382 7811 5.376625 AGTCACTTGTTGAAATGCCTAGAA 58.623 37.500 0.00 0.00 35.39 2.10
6383 7812 4.973168 AGTCACTTGTTGAAATGCCTAGA 58.027 39.130 0.00 0.00 35.39 2.43
6384 7813 5.700832 TGTAGTCACTTGTTGAAATGCCTAG 59.299 40.000 0.00 0.00 35.39 3.02
6385 7814 5.616270 TGTAGTCACTTGTTGAAATGCCTA 58.384 37.500 0.00 0.00 35.39 3.93
6386 7815 4.460263 TGTAGTCACTTGTTGAAATGCCT 58.540 39.130 0.00 0.00 35.39 4.75
6387 7816 4.829064 TGTAGTCACTTGTTGAAATGCC 57.171 40.909 0.00 0.00 35.39 4.40
6388 7817 6.015504 CGTATGTAGTCACTTGTTGAAATGC 58.984 40.000 0.00 0.00 35.39 3.56
6389 7818 6.367695 TCCGTATGTAGTCACTTGTTGAAATG 59.632 38.462 0.00 0.00 35.39 2.32
6390 7819 6.460781 TCCGTATGTAGTCACTTGTTGAAAT 58.539 36.000 0.00 0.00 35.39 2.17
6391 7820 5.845103 TCCGTATGTAGTCACTTGTTGAAA 58.155 37.500 0.00 0.00 35.39 2.69
6392 7821 5.456548 TCCGTATGTAGTCACTTGTTGAA 57.543 39.130 0.00 0.00 35.39 2.69
6393 7822 4.617530 GCTCCGTATGTAGTCACTTGTTGA 60.618 45.833 0.00 0.00 0.00 3.18
6394 7823 3.612860 GCTCCGTATGTAGTCACTTGTTG 59.387 47.826 0.00 0.00 0.00 3.33
6395 7824 3.257375 TGCTCCGTATGTAGTCACTTGTT 59.743 43.478 0.00 0.00 0.00 2.83
6396 7825 2.823747 TGCTCCGTATGTAGTCACTTGT 59.176 45.455 0.00 0.00 0.00 3.16
6397 7826 3.503827 TGCTCCGTATGTAGTCACTTG 57.496 47.619 0.00 0.00 0.00 3.16
6398 7827 4.530710 TTTGCTCCGTATGTAGTCACTT 57.469 40.909 0.00 0.00 0.00 3.16
6399 7828 4.530710 TTTTGCTCCGTATGTAGTCACT 57.469 40.909 0.00 0.00 0.00 3.41
6400 7829 4.868171 TCATTTTGCTCCGTATGTAGTCAC 59.132 41.667 0.00 0.00 0.00 3.67
6401 7830 5.079689 TCATTTTGCTCCGTATGTAGTCA 57.920 39.130 0.00 0.00 0.00 3.41
6402 7831 5.005779 CACTCATTTTGCTCCGTATGTAGTC 59.994 44.000 0.00 0.00 0.00 2.59
6403 7832 4.870426 CACTCATTTTGCTCCGTATGTAGT 59.130 41.667 0.00 0.00 0.00 2.73
6404 7833 5.109210 TCACTCATTTTGCTCCGTATGTAG 58.891 41.667 0.00 0.00 0.00 2.74
6405 7834 5.079689 TCACTCATTTTGCTCCGTATGTA 57.920 39.130 0.00 0.00 0.00 2.29
6406 7835 3.937814 TCACTCATTTTGCTCCGTATGT 58.062 40.909 0.00 0.00 0.00 2.29
6407 7836 4.944962 TTCACTCATTTTGCTCCGTATG 57.055 40.909 0.00 0.00 0.00 2.39
6408 7837 5.431765 AGATTCACTCATTTTGCTCCGTAT 58.568 37.500 0.00 0.00 0.00 3.06
6409 7838 4.832248 AGATTCACTCATTTTGCTCCGTA 58.168 39.130 0.00 0.00 0.00 4.02
6410 7839 3.679389 AGATTCACTCATTTTGCTCCGT 58.321 40.909 0.00 0.00 0.00 4.69
6411 7840 4.631377 TGTAGATTCACTCATTTTGCTCCG 59.369 41.667 0.00 0.00 0.00 4.63
6412 7841 5.645497 AGTGTAGATTCACTCATTTTGCTCC 59.355 40.000 0.00 0.00 44.07 4.70
6413 7842 6.734104 AGTGTAGATTCACTCATTTTGCTC 57.266 37.500 0.00 0.00 44.07 4.26
6452 7881 9.074576 TCAAATGACTACTACATACGGATGTAT 57.925 33.333 20.64 13.02 45.42 2.29
6453 7882 8.454570 TCAAATGACTACTACATACGGATGTA 57.545 34.615 19.32 19.32 44.77 2.29
6455 7884 8.642908 TTTCAAATGACTACTACATACGGATG 57.357 34.615 5.94 5.94 39.16 3.51
6456 7885 9.261180 CATTTCAAATGACTACTACATACGGAT 57.739 33.333 3.82 0.00 0.00 4.18
6457 7886 8.255206 ACATTTCAAATGACTACTACATACGGA 58.745 33.333 17.30 0.00 0.00 4.69
6458 7887 8.420374 ACATTTCAAATGACTACTACATACGG 57.580 34.615 17.30 0.00 0.00 4.02
6459 7888 9.302345 AGACATTTCAAATGACTACTACATACG 57.698 33.333 17.30 0.00 0.00 3.06
6483 7912 9.595823 CCGTTCCTAAATATTTGTCTTTCTAGA 57.404 33.333 11.05 0.00 0.00 2.43
6484 7913 9.595823 TCCGTTCCTAAATATTTGTCTTTCTAG 57.404 33.333 11.05 0.00 0.00 2.43
6485 7914 9.595823 CTCCGTTCCTAAATATTTGTCTTTCTA 57.404 33.333 11.05 0.00 0.00 2.10
6486 7915 7.553044 CCTCCGTTCCTAAATATTTGTCTTTCT 59.447 37.037 11.05 0.00 0.00 2.52
6487 7916 7.201705 CCCTCCGTTCCTAAATATTTGTCTTTC 60.202 40.741 11.05 0.00 0.00 2.62
6488 7917 6.602009 CCCTCCGTTCCTAAATATTTGTCTTT 59.398 38.462 11.05 0.00 0.00 2.52
6489 7918 6.069847 TCCCTCCGTTCCTAAATATTTGTCTT 60.070 38.462 11.05 0.00 0.00 3.01
6490 7919 5.427481 TCCCTCCGTTCCTAAATATTTGTCT 59.573 40.000 11.05 0.00 0.00 3.41
6491 7920 5.677567 TCCCTCCGTTCCTAAATATTTGTC 58.322 41.667 11.05 0.00 0.00 3.18
6492 7921 5.191124 ACTCCCTCCGTTCCTAAATATTTGT 59.809 40.000 11.05 0.00 0.00 2.83
6493 7922 5.681639 ACTCCCTCCGTTCCTAAATATTTG 58.318 41.667 11.05 1.40 0.00 2.32
6494 7923 5.970501 ACTCCCTCCGTTCCTAAATATTT 57.029 39.130 5.89 5.89 0.00 1.40
6495 7924 6.141790 ACTACTCCCTCCGTTCCTAAATATT 58.858 40.000 0.00 0.00 0.00 1.28
6496 7925 5.713807 ACTACTCCCTCCGTTCCTAAATAT 58.286 41.667 0.00 0.00 0.00 1.28
6497 7926 5.134725 ACTACTCCCTCCGTTCCTAAATA 57.865 43.478 0.00 0.00 0.00 1.40
6498 7927 3.991683 ACTACTCCCTCCGTTCCTAAAT 58.008 45.455 0.00 0.00 0.00 1.40
6499 7928 3.463048 ACTACTCCCTCCGTTCCTAAA 57.537 47.619 0.00 0.00 0.00 1.85
6500 7929 3.463048 AACTACTCCCTCCGTTCCTAA 57.537 47.619 0.00 0.00 0.00 2.69
6501 7930 3.463048 AAACTACTCCCTCCGTTCCTA 57.537 47.619 0.00 0.00 0.00 2.94
6502 7931 2.322339 AAACTACTCCCTCCGTTCCT 57.678 50.000 0.00 0.00 0.00 3.36
6503 7932 2.566279 AGAAAACTACTCCCTCCGTTCC 59.434 50.000 0.00 0.00 0.00 3.62
6504 7933 3.586892 CAGAAAACTACTCCCTCCGTTC 58.413 50.000 0.00 0.00 0.00 3.95
6505 7934 2.289506 GCAGAAAACTACTCCCTCCGTT 60.290 50.000 0.00 0.00 0.00 4.44
6506 7935 1.275573 GCAGAAAACTACTCCCTCCGT 59.724 52.381 0.00 0.00 0.00 4.69
6507 7936 1.550976 AGCAGAAAACTACTCCCTCCG 59.449 52.381 0.00 0.00 0.00 4.63
6508 7937 2.937433 GCAGCAGAAAACTACTCCCTCC 60.937 54.545 0.00 0.00 0.00 4.30
6509 7938 2.289694 TGCAGCAGAAAACTACTCCCTC 60.290 50.000 0.00 0.00 0.00 4.30
6510 7939 1.699634 TGCAGCAGAAAACTACTCCCT 59.300 47.619 0.00 0.00 0.00 4.20
6511 7940 2.185004 TGCAGCAGAAAACTACTCCC 57.815 50.000 0.00 0.00 0.00 4.30
6512 7941 3.671702 GCAATGCAGCAGAAAACTACTCC 60.672 47.826 0.00 0.00 0.00 3.85
6513 7942 3.190118 AGCAATGCAGCAGAAAACTACTC 59.810 43.478 8.35 0.00 36.85 2.59
6514 7943 3.152341 AGCAATGCAGCAGAAAACTACT 58.848 40.909 8.35 0.00 36.85 2.57
6529 7958 5.111293 AGAAAAACACTGGTTTGAGCAATG 58.889 37.500 0.00 0.00 46.20 2.82
6569 7998 2.256174 TCGAGCCGTTTAATCTGTTCG 58.744 47.619 7.54 7.54 0.00 3.95
6649 8078 2.711311 CCTGCGGCGATGTTGATG 59.289 61.111 12.98 0.00 0.00 3.07
6994 8423 0.252057 TCTTCTCCGTGGGTGATCCA 60.252 55.000 0.00 0.00 44.79 3.41
7055 8484 1.336755 TCGTCGAGCTGCATTATAGCA 59.663 47.619 1.02 0.00 43.53 3.49
7253 8682 3.264193 TGTCATCACTGCTGATTACCCTT 59.736 43.478 0.00 0.00 34.65 3.95
7261 8690 2.224597 ACCACATTGTCATCACTGCTGA 60.225 45.455 0.00 0.00 0.00 4.26
7523 8952 4.569719 ACAGGGGAAGTATTAGTGTTGG 57.430 45.455 0.00 0.00 0.00 3.77
7589 9018 8.541133 AGCTCAAAAGTACTTAATGAAGAGAC 57.459 34.615 19.05 11.66 36.45 3.36
7687 9116 6.584185 ATGTCGGCTTAATTAACAAACCTT 57.416 33.333 0.00 0.00 0.00 3.50
7690 9119 9.562583 TTATCAATGTCGGCTTAATTAACAAAC 57.437 29.630 0.00 0.00 0.00 2.93
7798 9227 3.393941 CCTCATAAGGCTTCTCCTCCATT 59.606 47.826 1.30 0.00 46.94 3.16
7945 9374 0.179026 CATATGCAGCAGGCTCAGGT 60.179 55.000 0.00 0.00 45.15 4.00
8177 9613 4.320421 CGAACCTGAATGAAACATGAAGCA 60.320 41.667 0.00 0.00 0.00 3.91
8221 9792 1.005630 GCCTGCAGAGTCGTCTTGT 60.006 57.895 17.39 0.00 0.00 3.16
8233 9804 2.106511 ACCTTTGTAAGAAGAGCCTGCA 59.893 45.455 0.00 0.00 0.00 4.41
8236 9807 5.763876 ACATACCTTTGTAAGAAGAGCCT 57.236 39.130 0.00 0.00 0.00 4.58
8245 9816 9.499479 TTTCATTTACGGTACATACCTTTGTAA 57.501 29.630 6.52 5.09 44.25 2.41
8256 9827 8.036575 ACTTATGCTAGTTTCATTTACGGTACA 58.963 33.333 0.00 0.00 0.00 2.90
8290 10256 7.400599 TCTCATTTCATTTCATTTCAGGGAG 57.599 36.000 0.00 0.00 0.00 4.30
8328 10321 3.216800 AGAAGCTGCATTTGTGAAGTGA 58.783 40.909 1.02 0.00 0.00 3.41
8334 10958 0.877071 ACCGAGAAGCTGCATTTGTG 59.123 50.000 1.02 0.00 0.00 3.33
8373 10997 1.156736 CGACCTTGTTCTTGCGGAAT 58.843 50.000 0.00 0.00 36.24 3.01
8576 11520 8.948631 ATGTAAAGGACAGATTACACATACAG 57.051 34.615 0.91 0.00 42.81 2.74
8577 11521 9.161629 CAATGTAAAGGACAGATTACACATACA 57.838 33.333 0.91 0.00 42.81 2.29
8651 11595 5.343249 GCCGCTTTTCAGATCAATACAATT 58.657 37.500 0.00 0.00 0.00 2.32
8654 11598 2.351418 CGCCGCTTTTCAGATCAATACA 59.649 45.455 0.00 0.00 0.00 2.29
8754 11713 7.164122 TCTTCGTCTTCTTAACTACTACTCCA 58.836 38.462 0.00 0.00 0.00 3.86
8772 11731 3.454375 TCCGGAATATTTGCTCTTCGTC 58.546 45.455 0.00 0.00 0.00 4.20
8774 11733 3.717707 TCTCCGGAATATTTGCTCTTCG 58.282 45.455 5.23 0.00 0.00 3.79
8808 11767 9.764363 GGAGTTCAAAAATGATTTTTAAGACCT 57.236 29.630 14.79 7.77 40.65 3.85
8915 11978 8.800332 GGTTAATCATCCATAGCTTCAATCAAT 58.200 33.333 0.00 0.00 0.00 2.57
8959 12022 8.370940 TGAACATGTTTTATTATTTTGGCCTGA 58.629 29.630 13.36 0.00 0.00 3.86
9066 12136 9.973450 TTTACTGTTGCATATGCTTCTTTTTAA 57.027 25.926 27.13 8.83 42.66 1.52
9094 12164 3.696051 TCACATGGGCAATAGCTTCTTTC 59.304 43.478 0.00 0.00 41.70 2.62
9172 12244 7.367285 TGAGCATACCGCCAATAAATTTTATC 58.633 34.615 0.00 0.00 44.04 1.75
9275 12362 7.275920 AGCCTAAGATTATGAGTACAACTTGG 58.724 38.462 0.00 0.00 0.00 3.61
9288 12376 6.183361 CCACCCCTTTAGAAGCCTAAGATTAT 60.183 42.308 0.00 0.00 36.35 1.28
9290 12378 4.079730 CCACCCCTTTAGAAGCCTAAGATT 60.080 45.833 0.00 0.00 36.35 2.40
9291 12379 3.459969 CCACCCCTTTAGAAGCCTAAGAT 59.540 47.826 0.00 0.00 36.35 2.40
9292 12380 2.844348 CCACCCCTTTAGAAGCCTAAGA 59.156 50.000 0.00 0.00 36.35 2.10
9293 12381 2.844348 TCCACCCCTTTAGAAGCCTAAG 59.156 50.000 0.00 0.00 36.35 2.18
9294 12382 2.923908 TCCACCCCTTTAGAAGCCTAA 58.076 47.619 0.00 0.00 33.32 2.69
9296 12384 1.755200 TTCCACCCCTTTAGAAGCCT 58.245 50.000 0.00 0.00 0.00 4.58


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

AutoCloner maintained by Alex Coulton.