Multiple sequence alignment - TraesCS7B01G006400

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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 TraesCS7B01G006400 chr7B 100.000 6685 0 0 1 6685 3683377 3690061 0.000000e+00 12345.0
1 TraesCS7B01G006400 chr7B 88.475 564 30 16 3075 3634 3686308 3686840 0.000000e+00 649.0
2 TraesCS7B01G006400 chr7B 88.475 564 30 16 2932 3464 3686451 3687010 0.000000e+00 649.0
3 TraesCS7B01G006400 chr7B 84.389 679 71 13 2274 2941 3684641 3685295 9.460000e-178 634.0
4 TraesCS7B01G006400 chr7B 84.389 679 71 13 1265 1919 3685650 3686317 9.460000e-178 634.0
5 TraesCS7B01G006400 chr7B 83.956 642 77 14 20 653 518004984 518004361 5.770000e-165 592.0
6 TraesCS7B01G006400 chr7B 86.214 457 28 10 3181 3634 3686250 3686674 4.720000e-126 462.0
7 TraesCS7B01G006400 chr7B 86.214 457 28 10 2874 3298 3686557 3687010 4.720000e-126 462.0
8 TraesCS7B01G006400 chr7B 90.860 186 15 2 3346 3530 3686250 3686434 1.440000e-61 248.0
9 TraesCS7B01G006400 chr7B 90.860 186 15 2 2874 3058 3686722 3686906 1.440000e-61 248.0
10 TraesCS7B01G006400 chr7B 97.674 129 2 1 6194 6321 3694902 3695030 3.140000e-53 220.0
11 TraesCS7B01G006400 chr7B 84.884 86 11 2 1043 1127 521578136 521578220 1.190000e-12 86.1
12 TraesCS7B01G006400 chr7D 94.591 3568 134 25 1266 4806 63326597 63330132 0.000000e+00 5465.0
13 TraesCS7B01G006400 chr7D 95.318 1367 51 6 4776 6139 63330135 63331491 0.000000e+00 2158.0
14 TraesCS7B01G006400 chr7D 86.705 1038 96 17 1916 2941 63326241 63327248 0.000000e+00 1114.0
15 TraesCS7B01G006400 chr7D 92.389 565 26 11 3075 3634 63328238 63328790 0.000000e+00 789.0
16 TraesCS7B01G006400 chr7D 88.746 622 36 16 2874 3464 63328343 63328961 0.000000e+00 730.0
17 TraesCS7B01G006400 chr7D 86.115 677 61 13 1265 1919 63327582 63328247 0.000000e+00 699.0
18 TraesCS7B01G006400 chr7D 91.247 457 25 8 3181 3634 63328180 63328624 5.730000e-170 608.0
19 TraesCS7B01G006400 chr7D 86.221 479 52 9 4523 4999 63336731 63337197 2.150000e-139 507.0
20 TraesCS7B01G006400 chr7D 91.831 355 19 5 6319 6672 63338679 63339024 2.800000e-133 486.0
21 TraesCS7B01G006400 chr7D 86.214 457 30 13 2874 3298 63328506 63328961 1.310000e-126 464.0
22 TraesCS7B01G006400 chr7D 81.546 634 20 35 676 1241 63325411 63326015 3.700000e-117 433.0
23 TraesCS7B01G006400 chr7D 90.034 291 18 7 3346 3634 63328180 63328461 3.810000e-97 366.0
24 TraesCS7B01G006400 chr7D 94.118 204 12 0 6459 6662 50815691 50815894 1.810000e-80 311.0
25 TraesCS7B01G006400 chr7D 90.749 227 21 0 6459 6685 50949861 50950087 3.030000e-78 303.0
26 TraesCS7B01G006400 chr7D 87.442 215 18 5 2874 3079 63328672 63328886 8.660000e-59 239.0
27 TraesCS7B01G006400 chr7D 93.333 75 4 1 6194 6267 63376909 63376983 7.090000e-20 110.0
28 TraesCS7B01G006400 chr7D 80.165 121 18 6 1010 1127 492148828 492148945 1.190000e-12 86.1
29 TraesCS7B01G006400 chr7A 95.911 1565 48 8 4580 6139 65974504 65976057 0.000000e+00 2521.0
30 TraesCS7B01G006400 chr7A 92.760 1685 85 9 1335 3015 65970934 65972585 0.000000e+00 2401.0
31 TraesCS7B01G006400 chr7A 96.815 942 24 4 3631 4568 65973431 65974370 0.000000e+00 1568.0
32 TraesCS7B01G006400 chr7A 82.212 1040 118 26 1916 2941 65970528 65971514 0.000000e+00 833.0
33 TraesCS7B01G006400 chr7A 82.405 682 65 19 1265 1919 65971858 65972511 1.640000e-150 544.0
34 TraesCS7B01G006400 chr7A 84.755 551 66 11 111 653 686337488 686336948 2.740000e-148 536.0
35 TraesCS7B01G006400 chr7A 85.685 482 55 9 4523 5002 65983066 65983535 4.660000e-136 496.0
36 TraesCS7B01G006400 chr7A 83.922 566 34 30 676 1201 65969731 65970279 7.790000e-134 488.0
37 TraesCS7B01G006400 chr7A 81.308 642 74 23 20 654 701168087 701168689 4.690000e-131 479.0
38 TraesCS7B01G006400 chr7A 88.556 367 42 0 6319 6685 65985079 65985445 4.760000e-121 446.0
39 TraesCS7B01G006400 chr7A 91.875 320 22 4 3316 3634 65972618 65972934 1.710000e-120 444.0
40 TraesCS7B01G006400 chr7A 89.415 359 25 8 3159 3508 65972624 65972978 2.210000e-119 440.0
41 TraesCS7B01G006400 chr7A 95.035 141 6 1 3181 3320 65972444 65972584 3.140000e-53 220.0
42 TraesCS7B01G006400 chr7A 94.366 142 8 0 3346 3487 65972444 65972585 1.130000e-52 219.0
43 TraesCS7B01G006400 chr7A 93.023 129 8 1 6194 6321 66165853 66165981 3.180000e-43 187.0
44 TraesCS7B01G006400 chr7A 95.062 81 4 0 3079 3159 65972505 65972585 1.960000e-25 128.0
45 TraesCS7B01G006400 chr7A 80.165 121 18 6 1010 1127 558402781 558402898 1.190000e-12 86.1
46 TraesCS7B01G006400 chr5A 96.218 661 17 3 1 653 451210418 451209758 0.000000e+00 1075.0
47 TraesCS7B01G006400 chr1B 95.166 662 25 1 1 655 670717850 670717189 0.000000e+00 1038.0
48 TraesCS7B01G006400 chr1B 98.361 61 1 0 6138 6198 558972324 558972384 2.550000e-19 108.0
49 TraesCS7B01G006400 chr1B 98.361 61 0 1 6138 6198 445884819 445884760 9.170000e-19 106.0
50 TraesCS7B01G006400 chr6B 92.320 625 20 4 1 616 717705264 717704659 0.000000e+00 863.0
51 TraesCS7B01G006400 chr6B 92.105 114 9 0 6319 6432 489674743 489674856 1.930000e-35 161.0
52 TraesCS7B01G006400 chr6B 78.313 166 31 4 1001 1162 514119179 514119015 1.190000e-17 102.0
53 TraesCS7B01G006400 chr1A 88.956 661 56 12 1 654 172353127 172352477 0.000000e+00 800.0
54 TraesCS7B01G006400 chr3B 85.202 642 72 12 20 654 597499082 597499707 7.310000e-179 638.0
55 TraesCS7B01G006400 chr3B 83.453 139 22 1 6319 6457 221093023 221092886 1.960000e-25 128.0
56 TraesCS7B01G006400 chr5B 85.429 652 49 14 1 644 205673567 205674180 2.630000e-178 636.0
57 TraesCS7B01G006400 chr5B 83.026 542 64 14 111 645 500501818 500502338 3.650000e-127 466.0
58 TraesCS7B01G006400 chr5D 83.174 523 55 11 20 539 494780612 494781104 1.320000e-121 448.0
59 TraesCS7B01G006400 chr5D 96.875 64 1 1 6135 6198 458264139 458264201 9.170000e-19 106.0
60 TraesCS7B01G006400 chr4A 87.179 351 29 6 20 367 545125347 545125010 1.050000e-102 385.0
61 TraesCS7B01G006400 chr4A 95.522 67 3 0 6132 6198 7149037 7149103 2.550000e-19 108.0
62 TraesCS7B01G006400 chr4D 91.630 227 19 0 6459 6685 128537867 128537641 1.400000e-81 315.0
63 TraesCS7B01G006400 chr6D 92.558 215 14 2 6459 6672 154352767 154352554 2.340000e-79 307.0
64 TraesCS7B01G006400 chr6D 86.331 139 18 1 6319 6457 126496773 126496910 4.180000e-32 150.0
65 TraesCS7B01G006400 chr6D 78.344 157 30 3 1001 1154 312763272 312763427 1.530000e-16 99.0
66 TraesCS7B01G006400 chr4B 90.749 227 20 1 6460 6685 142066726 142066952 1.090000e-77 302.0
67 TraesCS7B01G006400 chr2A 90.043 231 22 1 6454 6684 618437696 618437925 1.410000e-76 298.0
68 TraesCS7B01G006400 chr2A 88.793 116 9 4 6319 6431 276327463 276327349 9.040000e-29 139.0
69 TraesCS7B01G006400 chr2D 90.308 227 21 1 6459 6684 561897734 561897508 5.070000e-76 296.0
70 TraesCS7B01G006400 chr2D 85.612 139 19 1 6319 6457 114234997 114234860 1.940000e-30 145.0
71 TraesCS7B01G006400 chr2D 90.196 102 7 2 6319 6418 161401408 161401308 5.440000e-26 130.0
72 TraesCS7B01G006400 chr2D 98.333 60 1 0 6139 6198 587277275 587277216 9.170000e-19 106.0
73 TraesCS7B01G006400 chrUn 92.453 106 7 1 6319 6424 93323439 93323335 4.180000e-32 150.0
74 TraesCS7B01G006400 chr3A 85.088 114 17 0 6319 6432 664135045 664135158 4.240000e-22 117.0
75 TraesCS7B01G006400 chr3A 98.333 60 1 0 6139 6198 749613367 749613426 9.170000e-19 106.0
76 TraesCS7B01G006400 chr6A 98.387 62 1 0 6140 6201 86405585 86405524 7.090000e-20 110.0
77 TraesCS7B01G006400 chr6A 96.774 62 2 0 6140 6201 87499494 87499433 3.300000e-18 104.0
78 TraesCS7B01G006400 chr6A 79.114 158 27 5 1001 1154 449584443 449584598 3.300000e-18 104.0
79 TraesCS7B01G006400 chr3D 95.455 66 3 0 6133 6198 282472966 282472901 9.170000e-19 106.0


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 TraesCS7B01G006400 chr7B 3683377 3690061 6684 False 12345.000000 12345 100.000000 1 6685 1 chr7B.!!$F1 6684
1 TraesCS7B01G006400 chr7B 518004361 518004984 623 True 592.000000 592 83.956000 20 653 1 chr7B.!!$R1 633
2 TraesCS7B01G006400 chr7B 3684641 3687010 2369 False 498.250000 649 87.484500 1265 3634 8 chr7B.!!$F4 2369
3 TraesCS7B01G006400 chr7D 63325411 63331491 6080 False 1187.727273 5465 89.122455 676 6139 11 chr7D.!!$F5 5463
4 TraesCS7B01G006400 chr7D 63336731 63339024 2293 False 496.500000 507 89.026000 4523 6672 2 chr7D.!!$F6 2149
5 TraesCS7B01G006400 chr7A 65969731 65976057 6326 False 891.454545 2521 90.888909 676 6139 11 chr7A.!!$F4 5463
6 TraesCS7B01G006400 chr7A 686336948 686337488 540 True 536.000000 536 84.755000 111 653 1 chr7A.!!$R1 542
7 TraesCS7B01G006400 chr7A 701168087 701168689 602 False 479.000000 479 81.308000 20 654 1 chr7A.!!$F3 634
8 TraesCS7B01G006400 chr7A 65983066 65985445 2379 False 471.000000 496 87.120500 4523 6685 2 chr7A.!!$F5 2162
9 TraesCS7B01G006400 chr5A 451209758 451210418 660 True 1075.000000 1075 96.218000 1 653 1 chr5A.!!$R1 652
10 TraesCS7B01G006400 chr1B 670717189 670717850 661 True 1038.000000 1038 95.166000 1 655 1 chr1B.!!$R2 654
11 TraesCS7B01G006400 chr6B 717704659 717705264 605 True 863.000000 863 92.320000 1 616 1 chr6B.!!$R2 615
12 TraesCS7B01G006400 chr1A 172352477 172353127 650 True 800.000000 800 88.956000 1 654 1 chr1A.!!$R1 653
13 TraesCS7B01G006400 chr3B 597499082 597499707 625 False 638.000000 638 85.202000 20 654 1 chr3B.!!$F1 634
14 TraesCS7B01G006400 chr5B 205673567 205674180 613 False 636.000000 636 85.429000 1 644 1 chr5B.!!$F1 643
15 TraesCS7B01G006400 chr5B 500501818 500502338 520 False 466.000000 466 83.026000 111 645 1 chr5B.!!$F2 534

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
841 913 0.107165 GACCCACCAGCTAATCACCC 60.107 60.000 0.0 0.0 0.00 4.61 F
921 1022 0.267960 GTATCCTCCTCCCTTCCCCA 59.732 60.000 0.0 0.0 0.00 4.96 F
1189 1329 0.817654 CGACATCTGCCAGGTCTGTA 59.182 55.000 0.0 0.0 0.00 2.74 F
1247 1388 1.115467 CTGTCCCGATTGGAGCTAGT 58.885 55.000 0.0 0.0 46.38 2.57 F
1250 1391 1.207329 GTCCCGATTGGAGCTAGTTGT 59.793 52.381 0.0 0.0 46.38 3.32 F
1257 1398 1.342074 TGGAGCTAGTTGTCTGCACT 58.658 50.000 0.0 0.0 0.00 4.40 F
1262 1403 1.462670 GCTAGTTGTCTGCACTTCTGC 59.537 52.381 0.0 0.0 44.52 4.26 F
3848 5087 2.412870 TGTACTGTGATTCCTGTTGCG 58.587 47.619 0.0 0.0 0.00 4.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
3690 4928 1.464376 ATCGACATCCAGGCTACCCG 61.464 60.000 0.00 0.0 35.76 5.28 R
3848 5087 9.364989 GCTAAGGATACATATCAGAAATGACTC 57.635 37.037 1.49 0.0 41.41 3.36 R
4113 5353 0.383949 TCTTTGGCAAGTGTTTCGGC 59.616 50.000 0.00 0.0 0.00 5.54 R
4223 5463 5.710099 GTCATTCCTGTCTTGGTATTTGGAA 59.290 40.000 0.00 0.0 36.68 3.53 R
4410 5650 1.978455 AACTGTCTGACCCGTTGCCA 61.978 55.000 5.17 0.0 0.00 4.92 R
4416 5656 2.080286 CAGGTAAACTGTCTGACCCG 57.920 55.000 5.17 0.0 42.42 5.28 R
4437 5677 2.134789 AGAATTCATCCACAGGCCAC 57.865 50.000 5.01 0.0 0.00 5.01 R
6299 8445 0.035881 TTGCAGGCTCAGGAAGTCAG 59.964 55.000 0.00 0.0 29.30 3.51 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
169 181 1.331756 GAGCAAATGGTGACGCTATGG 59.668 52.381 0.00 0.00 34.12 2.74
176 188 1.682451 GGTGACGCTATGGTGGCCTA 61.682 60.000 3.32 0.00 0.00 3.93
381 401 7.210174 TGGTGATAGATTGGAAGAAGATAACG 58.790 38.462 0.00 0.00 0.00 3.18
400 420 2.159114 ACGCATTGCACTTTTCAAACCT 60.159 40.909 9.69 0.00 0.00 3.50
459 479 7.693952 TCCAAATTCAACTTGCTAATCGTATC 58.306 34.615 0.00 0.00 0.00 2.24
565 590 6.413818 GCTTGTGCCATTACAAAATATACGAC 59.586 38.462 0.00 0.00 39.81 4.34
655 698 4.785453 CTGGCTCCGTCCTTGCCC 62.785 72.222 0.00 0.00 45.56 5.36
657 700 4.785453 GGCTCCGTCCTTGCCCAG 62.785 72.222 0.00 0.00 40.71 4.45
663 706 4.373116 GTCCTTGCCCAGCGACGA 62.373 66.667 0.00 0.00 0.00 4.20
664 707 4.373116 TCCTTGCCCAGCGACGAC 62.373 66.667 0.00 0.00 0.00 4.34
665 708 4.379243 CCTTGCCCAGCGACGACT 62.379 66.667 0.00 0.00 0.00 4.18
666 709 2.571757 CTTGCCCAGCGACGACTA 59.428 61.111 0.00 0.00 0.00 2.59
667 710 1.805945 CTTGCCCAGCGACGACTAC 60.806 63.158 0.00 0.00 0.00 2.73
668 711 2.486636 CTTGCCCAGCGACGACTACA 62.487 60.000 0.00 0.00 0.00 2.74
669 712 2.089887 TTGCCCAGCGACGACTACAA 62.090 55.000 0.00 0.00 0.00 2.41
670 713 1.373748 GCCCAGCGACGACTACAAA 60.374 57.895 0.00 0.00 0.00 2.83
671 714 0.739813 GCCCAGCGACGACTACAAAT 60.740 55.000 0.00 0.00 0.00 2.32
672 715 0.999406 CCCAGCGACGACTACAAATG 59.001 55.000 0.00 0.00 0.00 2.32
673 716 1.403647 CCCAGCGACGACTACAAATGA 60.404 52.381 0.00 0.00 0.00 2.57
674 717 1.654105 CCAGCGACGACTACAAATGAC 59.346 52.381 0.00 0.00 0.00 3.06
699 742 2.732619 GCCTCCCCCTACTTGACCG 61.733 68.421 0.00 0.00 0.00 4.79
747 790 1.774254 TCCTCTTCCCACTCAAGCAAA 59.226 47.619 0.00 0.00 0.00 3.68
748 791 2.376518 TCCTCTTCCCACTCAAGCAAAT 59.623 45.455 0.00 0.00 0.00 2.32
749 792 2.751806 CCTCTTCCCACTCAAGCAAATC 59.248 50.000 0.00 0.00 0.00 2.17
774 833 1.867166 GGCTCACTAACTAATCCGCC 58.133 55.000 0.00 0.00 0.00 6.13
775 834 1.138266 GGCTCACTAACTAATCCGCCA 59.862 52.381 0.00 0.00 36.37 5.69
776 835 2.419574 GGCTCACTAACTAATCCGCCAA 60.420 50.000 0.00 0.00 36.37 4.52
777 836 3.267483 GCTCACTAACTAATCCGCCAAA 58.733 45.455 0.00 0.00 0.00 3.28
778 837 3.687698 GCTCACTAACTAATCCGCCAAAA 59.312 43.478 0.00 0.00 0.00 2.44
781 840 3.754323 CACTAACTAATCCGCCAAAACCA 59.246 43.478 0.00 0.00 0.00 3.67
812 884 1.511887 CGACAAATTTCCGCGGCTG 60.512 57.895 23.51 14.28 0.00 4.85
841 913 0.107165 GACCCACCAGCTAATCACCC 60.107 60.000 0.00 0.00 0.00 4.61
846 931 2.203209 CAGCTAATCACCCGGCCC 60.203 66.667 0.00 0.00 0.00 5.80
911 996 1.041447 CCACCGAACCGTATCCTCCT 61.041 60.000 0.00 0.00 0.00 3.69
915 1016 0.467659 CGAACCGTATCCTCCTCCCT 60.468 60.000 0.00 0.00 0.00 4.20
916 1017 1.790818 GAACCGTATCCTCCTCCCTT 58.209 55.000 0.00 0.00 0.00 3.95
921 1022 0.267960 GTATCCTCCTCCCTTCCCCA 59.732 60.000 0.00 0.00 0.00 4.96
922 1023 1.132365 GTATCCTCCTCCCTTCCCCAT 60.132 57.143 0.00 0.00 0.00 4.00
926 1027 2.778717 CCTCCCTTCCCCATCCCC 60.779 72.222 0.00 0.00 0.00 4.81
1186 1326 2.285773 TGCGACATCTGCCAGGTCT 61.286 57.895 0.00 0.00 0.00 3.85
1188 1328 1.593787 CGACATCTGCCAGGTCTGT 59.406 57.895 0.00 0.00 0.00 3.41
1189 1329 0.817654 CGACATCTGCCAGGTCTGTA 59.182 55.000 0.00 0.00 0.00 2.74
1233 1373 4.767255 CTGCGACCCTGCCTGTCC 62.767 72.222 0.00 0.00 0.00 4.02
1241 1382 2.669133 CCTGCCTGTCCCGATTGGA 61.669 63.158 0.00 0.00 42.41 3.53
1244 1385 3.036429 GCCTGTCCCGATTGGAGCT 62.036 63.158 0.00 0.00 46.38 4.09
1245 1386 1.686325 GCCTGTCCCGATTGGAGCTA 61.686 60.000 0.00 0.00 46.38 3.32
1247 1388 1.115467 CTGTCCCGATTGGAGCTAGT 58.885 55.000 0.00 0.00 46.38 2.57
1248 1389 1.482593 CTGTCCCGATTGGAGCTAGTT 59.517 52.381 0.00 0.00 46.38 2.24
1250 1391 1.207329 GTCCCGATTGGAGCTAGTTGT 59.793 52.381 0.00 0.00 46.38 3.32
1251 1392 1.480954 TCCCGATTGGAGCTAGTTGTC 59.519 52.381 0.00 0.00 38.61 3.18
1252 1393 1.482593 CCCGATTGGAGCTAGTTGTCT 59.517 52.381 0.00 0.00 37.49 3.41
1253 1394 2.544685 CCGATTGGAGCTAGTTGTCTG 58.455 52.381 0.00 0.00 37.49 3.51
1254 1395 1.929836 CGATTGGAGCTAGTTGTCTGC 59.070 52.381 0.00 0.00 0.00 4.26
1255 1396 2.675032 CGATTGGAGCTAGTTGTCTGCA 60.675 50.000 0.00 0.00 0.00 4.41
1257 1398 1.342074 TGGAGCTAGTTGTCTGCACT 58.658 50.000 0.00 0.00 0.00 4.40
1258 1399 1.694150 TGGAGCTAGTTGTCTGCACTT 59.306 47.619 0.00 0.00 0.00 3.16
1259 1400 2.289072 TGGAGCTAGTTGTCTGCACTTC 60.289 50.000 0.00 0.00 0.00 3.01
1260 1401 2.028567 GGAGCTAGTTGTCTGCACTTCT 60.029 50.000 0.00 0.00 0.00 2.85
1262 1403 1.462670 GCTAGTTGTCTGCACTTCTGC 59.537 52.381 0.00 0.00 44.52 4.26
3848 5087 2.412870 TGTACTGTGATTCCTGTTGCG 58.587 47.619 0.00 0.00 0.00 4.85
4223 5463 6.545298 GGAGATTATTCAAGGCAGATTTCTGT 59.455 38.462 9.21 0.00 45.45 3.41
4275 5515 2.996621 GACTATGGACAACAGTGCACTC 59.003 50.000 18.64 5.32 36.40 3.51
4410 5650 5.246307 GCTTACAACTTACCATTCTCAGGT 58.754 41.667 0.00 0.00 43.14 4.00
4416 5656 2.489938 TACCATTCTCAGGTGGCAAC 57.510 50.000 0.00 0.00 40.26 4.17
4437 5677 2.352814 CGGGTCAGACAGTTTACCTGAG 60.353 54.545 2.17 0.00 44.49 3.35
4663 6029 2.999355 GCAGAAGAGTTGTGCTTCCTAG 59.001 50.000 1.75 0.00 45.53 3.02
4938 6344 6.917533 ACTGCTGATTGATTTAGTTTTCAGG 58.082 36.000 0.00 0.00 33.02 3.86
4952 6358 5.170748 AGTTTTCAGGCTTTTCAACTGTTG 58.829 37.500 14.24 14.24 34.02 3.33
5119 6724 8.491134 AGTTGTTACTGGCCATCATAATTACTA 58.509 33.333 5.51 0.00 31.99 1.82
5120 6725 8.774586 GTTGTTACTGGCCATCATAATTACTAG 58.225 37.037 5.51 0.00 0.00 2.57
5637 7245 2.203832 TGCAGAGCTCCCAGGACA 60.204 61.111 10.93 0.00 0.00 4.02
5643 7251 0.390472 GAGCTCCCAGGACAACTTCG 60.390 60.000 0.87 0.00 0.00 3.79
5739 7347 1.542915 CAAACAGGGGATCTTGCTGTG 59.457 52.381 0.00 0.00 0.00 3.66
5865 7474 5.716228 TCTTGTTGCCAAAGATCATGGTTAT 59.284 36.000 16.32 0.00 40.23 1.89
5941 7550 5.516996 CGTCGTCAACACCATGTACTATAT 58.483 41.667 0.00 0.00 0.00 0.86
5945 7554 5.862323 CGTCAACACCATGTACTATATAGGC 59.138 44.000 14.25 7.09 0.00 3.93
5948 7557 7.931948 GTCAACACCATGTACTATATAGGCTTT 59.068 37.037 14.25 0.00 0.00 3.51
5984 7593 5.902681 AGATGCATCAGAAATCAATGTTGG 58.097 37.500 27.81 0.00 0.00 3.77
5994 7603 6.924612 CAGAAATCAATGTTGGATTTGTGTGA 59.075 34.615 13.62 0.00 44.50 3.58
6004 7613 3.181511 TGGATTTGTGTGATTCGATTCGC 60.182 43.478 12.71 12.71 0.00 4.70
6073 7914 3.153369 TGTTTTGCTAGCCCAATCTGA 57.847 42.857 13.29 0.00 0.00 3.27
6110 8256 6.530534 CGTTACAGGTTGACAGGAGTATTTAG 59.469 42.308 0.00 0.00 0.00 1.85
6143 8289 6.265196 TGTGCAAATGGTAAGTGAAGAGATTT 59.735 34.615 0.00 0.00 0.00 2.17
6193 8339 6.280855 AGCAAATTTGGAAACTATACACCC 57.719 37.500 19.47 0.00 0.00 4.61
6194 8340 6.016555 AGCAAATTTGGAAACTATACACCCT 58.983 36.000 19.47 0.38 0.00 4.34
6195 8341 7.179269 AGCAAATTTGGAAACTATACACCCTA 58.821 34.615 19.47 0.00 0.00 3.53
6196 8342 7.672239 AGCAAATTTGGAAACTATACACCCTAA 59.328 33.333 19.47 0.00 0.00 2.69
6197 8343 8.474831 GCAAATTTGGAAACTATACACCCTAAT 58.525 33.333 19.47 0.00 0.00 1.73
6202 8348 7.607615 TGGAAACTATACACCCTAATAGACC 57.392 40.000 0.00 0.00 31.44 3.85
6203 8349 7.134162 TGGAAACTATACACCCTAATAGACCA 58.866 38.462 0.00 0.00 31.69 4.02
6204 8350 7.289317 TGGAAACTATACACCCTAATAGACCAG 59.711 40.741 0.00 0.00 31.19 4.00
6205 8351 7.256225 GGAAACTATACACCCTAATAGACCAGG 60.256 44.444 0.00 0.00 31.44 4.45
6218 8364 9.557061 CCTAATAGACCAGGGAATTAACTTAAC 57.443 37.037 0.00 0.00 0.00 2.01
6222 8368 7.761038 AGACCAGGGAATTAACTTAACTTTG 57.239 36.000 0.00 0.00 0.00 2.77
6223 8369 7.295340 AGACCAGGGAATTAACTTAACTTTGT 58.705 34.615 0.00 0.00 0.00 2.83
6224 8370 8.442374 AGACCAGGGAATTAACTTAACTTTGTA 58.558 33.333 0.00 0.00 0.00 2.41
6225 8371 9.239551 GACCAGGGAATTAACTTAACTTTGTAT 57.760 33.333 0.00 0.00 0.00 2.29
6241 8387 7.696992 ACTTTGTATATGGAAACGAAATGGT 57.303 32.000 0.00 0.00 0.00 3.55
6242 8388 8.795842 ACTTTGTATATGGAAACGAAATGGTA 57.204 30.769 0.00 0.00 0.00 3.25
6243 8389 9.233649 ACTTTGTATATGGAAACGAAATGGTAA 57.766 29.630 0.00 0.00 0.00 2.85
6247 8393 9.179909 TGTATATGGAAACGAAATGGTAATTGT 57.820 29.630 0.00 0.00 0.00 2.71
6250 8396 5.945155 TGGAAACGAAATGGTAATTGTAGC 58.055 37.500 0.00 0.00 0.00 3.58
6251 8397 5.025826 GGAAACGAAATGGTAATTGTAGCG 58.974 41.667 0.00 0.00 0.00 4.26
6252 8398 3.668596 ACGAAATGGTAATTGTAGCGC 57.331 42.857 0.00 0.00 0.00 5.92
6253 8399 3.004171 ACGAAATGGTAATTGTAGCGCA 58.996 40.909 11.47 0.00 0.00 6.09
6254 8400 3.181514 ACGAAATGGTAATTGTAGCGCAC 60.182 43.478 11.47 6.60 0.00 5.34
6255 8401 3.691498 GAAATGGTAATTGTAGCGCACC 58.309 45.455 11.47 7.07 0.00 5.01
6256 8402 2.710096 ATGGTAATTGTAGCGCACCT 57.290 45.000 11.47 0.00 0.00 4.00
6257 8403 3.830744 ATGGTAATTGTAGCGCACCTA 57.169 42.857 11.47 0.00 0.00 3.08
6258 8404 3.613494 TGGTAATTGTAGCGCACCTAA 57.387 42.857 11.47 0.00 0.00 2.69
6259 8405 4.145365 TGGTAATTGTAGCGCACCTAAT 57.855 40.909 11.47 1.44 0.00 1.73
6260 8406 4.519213 TGGTAATTGTAGCGCACCTAATT 58.481 39.130 11.47 12.92 0.00 1.40
6261 8407 5.672503 TGGTAATTGTAGCGCACCTAATTA 58.327 37.500 11.47 11.94 0.00 1.40
6262 8408 5.524646 TGGTAATTGTAGCGCACCTAATTAC 59.475 40.000 25.05 25.05 40.68 1.89
6263 8409 4.789095 AATTGTAGCGCACCTAATTACG 57.211 40.909 11.47 0.00 0.00 3.18
6264 8410 3.507103 TTGTAGCGCACCTAATTACGA 57.493 42.857 11.47 0.00 0.00 3.43
6265 8411 3.507103 TGTAGCGCACCTAATTACGAA 57.493 42.857 11.47 0.00 0.00 3.85
6266 8412 4.049546 TGTAGCGCACCTAATTACGAAT 57.950 40.909 11.47 0.00 0.00 3.34
6267 8413 4.435425 TGTAGCGCACCTAATTACGAATT 58.565 39.130 11.47 0.00 34.90 2.17
6268 8414 4.505191 TGTAGCGCACCTAATTACGAATTC 59.495 41.667 11.47 0.00 32.38 2.17
6269 8415 3.527533 AGCGCACCTAATTACGAATTCA 58.472 40.909 11.47 0.00 32.38 2.57
6270 8416 4.127171 AGCGCACCTAATTACGAATTCAT 58.873 39.130 11.47 0.00 32.38 2.57
6271 8417 5.294356 AGCGCACCTAATTACGAATTCATA 58.706 37.500 11.47 0.00 32.38 2.15
6272 8418 5.176958 AGCGCACCTAATTACGAATTCATAC 59.823 40.000 11.47 0.00 32.38 2.39
6273 8419 5.176958 GCGCACCTAATTACGAATTCATACT 59.823 40.000 0.30 0.00 32.38 2.12
6274 8420 6.364165 GCGCACCTAATTACGAATTCATACTA 59.636 38.462 0.30 0.00 32.38 1.82
6275 8421 7.618751 GCGCACCTAATTACGAATTCATACTAC 60.619 40.741 0.30 0.00 32.38 2.73
6276 8422 7.594015 CGCACCTAATTACGAATTCATACTACT 59.406 37.037 6.22 0.00 32.38 2.57
6277 8423 9.257651 GCACCTAATTACGAATTCATACTACTT 57.742 33.333 6.22 0.00 32.38 2.24
6279 8425 9.257651 ACCTAATTACGAATTCATACTACTTGC 57.742 33.333 6.22 0.00 32.38 4.01
6280 8426 9.477484 CCTAATTACGAATTCATACTACTTGCT 57.523 33.333 6.22 0.00 32.38 3.91
6312 8458 6.902771 TTACTATATCCTGACTTCCTGAGC 57.097 41.667 0.00 0.00 0.00 4.26
6313 8459 4.156477 ACTATATCCTGACTTCCTGAGCC 58.844 47.826 0.00 0.00 0.00 4.70
6314 8460 2.856760 TATCCTGACTTCCTGAGCCT 57.143 50.000 0.00 0.00 0.00 4.58
6315 8461 1.202330 ATCCTGACTTCCTGAGCCTG 58.798 55.000 0.00 0.00 0.00 4.85
6316 8462 1.078567 CCTGACTTCCTGAGCCTGC 60.079 63.158 0.00 0.00 0.00 4.85
6317 8463 1.675801 CTGACTTCCTGAGCCTGCA 59.324 57.895 0.00 0.00 0.00 4.41
6350 8497 4.346418 GGAGAGGATAAGGCTCATCTTGAA 59.654 45.833 0.00 0.00 36.49 2.69
6353 8500 3.782523 AGGATAAGGCTCATCTTGAACCA 59.217 43.478 0.00 0.00 35.13 3.67
6428 8575 2.759973 CCCTAGCTGTCGCCTCCA 60.760 66.667 0.00 0.00 36.60 3.86
6445 8592 4.943705 GCCTCCATCAACAAAGAACTCATA 59.056 41.667 0.00 0.00 0.00 2.15
6447 8594 6.096001 GCCTCCATCAACAAAGAACTCATATT 59.904 38.462 0.00 0.00 0.00 1.28
6592 8739 2.420022 AGTGGAAAACTCATATGCACGC 59.580 45.455 0.00 0.00 39.94 5.34
6662 8809 4.202377 TGGCTAGCTTAAGTGTTGTTGGTA 60.202 41.667 15.72 0.00 0.00 3.25
6672 8819 8.838452 TTAAGTGTTGTTGGTAATTACGTTTG 57.162 30.769 9.46 0.00 0.00 2.93
6673 8820 6.680874 AGTGTTGTTGGTAATTACGTTTGA 57.319 33.333 9.46 0.00 0.00 2.69
6675 8822 6.093771 AGTGTTGTTGGTAATTACGTTTGACA 59.906 34.615 9.46 8.59 0.00 3.58
6676 8823 6.746364 GTGTTGTTGGTAATTACGTTTGACAA 59.254 34.615 9.46 11.43 0.00 3.18
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
169 181 3.550437 ACAGAGATCAACATAGGCCAC 57.450 47.619 5.01 0.00 0.00 5.01
176 188 1.742761 CCGGCAACAGAGATCAACAT 58.257 50.000 0.00 0.00 0.00 2.71
336 356 7.672240 TCACCAAGTAATCACATGTAACTACA 58.328 34.615 0.00 0.00 40.98 2.74
381 401 4.880886 AAAGGTTTGAAAAGTGCAATGC 57.119 36.364 0.00 0.00 0.00 3.56
400 420 6.257630 GCAAAGTGTTCTAATTGCAAGGAAAA 59.742 34.615 4.94 2.03 45.61 2.29
459 479 9.244292 TGTAGCTCTAGGATTACCTACATAATG 57.756 37.037 0.00 0.00 45.83 1.90
655 698 2.594654 GAGTCATTTGTAGTCGTCGCTG 59.405 50.000 0.00 0.00 0.00 5.18
656 699 2.415625 GGAGTCATTTGTAGTCGTCGCT 60.416 50.000 0.00 0.00 0.00 4.93
657 700 1.918609 GGAGTCATTTGTAGTCGTCGC 59.081 52.381 0.00 0.00 0.00 5.19
658 701 2.174764 CGGAGTCATTTGTAGTCGTCG 58.825 52.381 0.00 0.00 0.00 5.12
659 702 1.918609 GCGGAGTCATTTGTAGTCGTC 59.081 52.381 0.00 0.00 0.00 4.20
660 703 1.544691 AGCGGAGTCATTTGTAGTCGT 59.455 47.619 0.00 0.00 0.00 4.34
661 704 1.920574 CAGCGGAGTCATTTGTAGTCG 59.079 52.381 0.00 0.00 0.00 4.18
662 705 1.661112 GCAGCGGAGTCATTTGTAGTC 59.339 52.381 0.00 0.00 0.00 2.59
663 706 1.676014 GGCAGCGGAGTCATTTGTAGT 60.676 52.381 0.00 0.00 0.00 2.73
664 707 1.009829 GGCAGCGGAGTCATTTGTAG 58.990 55.000 0.00 0.00 0.00 2.74
665 708 0.613260 AGGCAGCGGAGTCATTTGTA 59.387 50.000 0.00 0.00 0.00 2.41
666 709 0.674895 GAGGCAGCGGAGTCATTTGT 60.675 55.000 0.00 0.00 0.00 2.83
667 710 1.372087 GGAGGCAGCGGAGTCATTTG 61.372 60.000 0.00 0.00 0.00 2.32
668 711 1.078143 GGAGGCAGCGGAGTCATTT 60.078 57.895 0.00 0.00 0.00 2.32
669 712 2.586792 GGAGGCAGCGGAGTCATT 59.413 61.111 0.00 0.00 0.00 2.57
670 713 3.474570 GGGAGGCAGCGGAGTCAT 61.475 66.667 0.00 0.00 0.00 3.06
674 717 4.860881 TAGGGGGAGGCAGCGGAG 62.861 72.222 0.00 0.00 0.00 4.63
747 790 0.617820 AGTTAGTGAGCCGGGTGGAT 60.618 55.000 12.94 0.00 37.49 3.41
748 791 0.040058 TAGTTAGTGAGCCGGGTGGA 59.960 55.000 12.94 0.00 37.49 4.02
749 792 0.899720 TTAGTTAGTGAGCCGGGTGG 59.100 55.000 12.94 0.00 38.77 4.61
799 858 0.671251 TTTGTTCAGCCGCGGAAATT 59.329 45.000 33.48 7.83 0.00 1.82
800 859 0.039527 GTTTGTTCAGCCGCGGAAAT 60.040 50.000 33.48 11.33 0.00 2.17
801 860 1.357334 GTTTGTTCAGCCGCGGAAA 59.643 52.632 33.48 16.79 0.00 3.13
812 884 1.226746 CTGGTGGGTCTCGTTTGTTC 58.773 55.000 0.00 0.00 0.00 3.18
911 996 3.643081 TGGGGGATGGGGAAGGGA 61.643 66.667 0.00 0.00 0.00 4.20
1186 1326 1.316969 GGAGGGAGGGATGGGTACA 59.683 63.158 0.00 0.00 0.00 2.90
1188 1328 1.632269 AGGGAGGGAGGGATGGGTA 60.632 63.158 0.00 0.00 0.00 3.69
1189 1329 2.967014 AGGGAGGGAGGGATGGGT 60.967 66.667 0.00 0.00 0.00 4.51
1191 1331 2.122189 GGAGGGAGGGAGGGATGG 60.122 72.222 0.00 0.00 0.00 3.51
1193 1333 2.416923 GGAGGAGGGAGGGAGGGAT 61.417 68.421 0.00 0.00 0.00 3.85
1194 1334 3.036959 GGAGGAGGGAGGGAGGGA 61.037 72.222 0.00 0.00 0.00 4.20
1215 1355 4.767255 GACAGGCAGGGTCGCAGG 62.767 72.222 0.00 0.00 0.00 4.85
1233 1373 2.544685 CAGACAACTAGCTCCAATCGG 58.455 52.381 0.00 0.00 0.00 4.18
1241 1382 3.037431 CAGAAGTGCAGACAACTAGCT 57.963 47.619 0.00 0.00 0.00 3.32
1254 1395 8.746922 TTATAGCTTCAATTTTTGCAGAAGTG 57.253 30.769 11.43 8.84 39.62 3.16
3690 4928 1.464376 ATCGACATCCAGGCTACCCG 61.464 60.000 0.00 0.00 35.76 5.28
3848 5087 9.364989 GCTAAGGATACATATCAGAAATGACTC 57.635 37.037 1.49 0.00 41.41 3.36
4113 5353 0.383949 TCTTTGGCAAGTGTTTCGGC 59.616 50.000 0.00 0.00 0.00 5.54
4223 5463 5.710099 GTCATTCCTGTCTTGGTATTTGGAA 59.290 40.000 0.00 0.00 36.68 3.53
4410 5650 1.978455 AACTGTCTGACCCGTTGCCA 61.978 55.000 5.17 0.00 0.00 4.92
4416 5656 2.080286 CAGGTAAACTGTCTGACCCG 57.920 55.000 5.17 0.00 42.42 5.28
4437 5677 2.134789 AGAATTCATCCACAGGCCAC 57.865 50.000 5.01 0.00 0.00 5.01
4730 6098 3.057526 GGGGTGAACTCATTTACAGCAAC 60.058 47.826 0.00 0.00 33.31 4.17
4731 6099 3.153919 GGGGTGAACTCATTTACAGCAA 58.846 45.455 0.00 0.00 33.31 3.91
5119 6724 2.042464 ACTGTGTCATGACCACACTCT 58.958 47.619 22.85 7.68 43.93 3.24
5120 6725 2.533266 ACTGTGTCATGACCACACTC 57.467 50.000 22.85 7.22 43.93 3.51
5228 6833 5.278463 CCTGGAACCAGATTTTACAAGTGTG 60.278 44.000 20.79 0.00 46.30 3.82
5275 6882 9.912634 TTTCCTTGCAAGTGAATTAAGATTAAG 57.087 29.630 24.35 4.00 0.00 1.85
5276 6883 9.691362 GTTTCCTTGCAAGTGAATTAAGATTAA 57.309 29.630 24.35 7.12 0.00 1.40
5278 6885 7.955918 AGTTTCCTTGCAAGTGAATTAAGATT 58.044 30.769 24.35 6.99 0.00 2.40
5279 6886 7.530426 AGTTTCCTTGCAAGTGAATTAAGAT 57.470 32.000 24.35 7.84 0.00 2.40
5380 6987 1.488812 TGTCACCCTGTAGCACAAAGT 59.511 47.619 0.00 0.00 0.00 2.66
5492 7100 0.769247 CCCATGGATCCTCAGCATCA 59.231 55.000 15.22 0.00 0.00 3.07
5637 7245 1.303799 CCAGCAGATGCAGCGAAGTT 61.304 55.000 7.68 0.00 45.16 2.66
5643 7251 0.599558 TTGAAACCAGCAGATGCAGC 59.400 50.000 7.68 0.00 45.16 5.25
5739 7347 3.256960 TGGCCCACCAAGAGACCC 61.257 66.667 0.00 0.00 45.37 4.46
5850 7459 7.819644 TCACAACTCAATAACCATGATCTTTG 58.180 34.615 0.00 0.00 0.00 2.77
5865 7474 5.011023 TGTTATCTCAGAGCTCACAACTCAA 59.989 40.000 17.77 0.00 36.58 3.02
5941 7550 7.123997 TGCATCTTAATGGAATTTCAAAGCCTA 59.876 33.333 0.00 0.00 37.87 3.93
5945 7554 8.936070 TGATGCATCTTAATGGAATTTCAAAG 57.064 30.769 26.32 0.00 36.75 2.77
5948 7557 7.885009 TCTGATGCATCTTAATGGAATTTCA 57.115 32.000 26.32 2.55 36.75 2.69
5984 7593 4.002267 TGCGAATCGAATCACACAAATC 57.998 40.909 6.91 0.00 0.00 2.17
5994 7603 5.794687 TGTAAAGTTCATGCGAATCGAAT 57.205 34.783 6.91 0.00 32.61 3.34
6004 7613 9.681692 TTTGATTCAAGACATGTAAAGTTCATG 57.318 29.630 0.00 3.60 45.41 3.07
6073 7914 2.210116 CCTGTAACGCATATTCCGCTT 58.790 47.619 0.00 0.00 0.00 4.68
6110 8256 6.478344 TCACTTACCATTTGCACAAAAATCAC 59.522 34.615 0.00 0.00 33.56 3.06
6167 8313 9.127277 GGGTGTATAGTTTCCAAATTTGCTATA 57.873 33.333 12.92 13.82 0.00 1.31
6168 8314 7.839200 AGGGTGTATAGTTTCCAAATTTGCTAT 59.161 33.333 12.92 14.69 0.00 2.97
6169 8315 7.179269 AGGGTGTATAGTTTCCAAATTTGCTA 58.821 34.615 12.92 8.87 0.00 3.49
6170 8316 6.016555 AGGGTGTATAGTTTCCAAATTTGCT 58.983 36.000 12.92 6.94 0.00 3.91
6171 8317 6.280855 AGGGTGTATAGTTTCCAAATTTGC 57.719 37.500 12.92 0.00 0.00 3.68
6176 8322 8.488668 GGTCTATTAGGGTGTATAGTTTCCAAA 58.511 37.037 0.00 0.00 0.00 3.28
6177 8323 7.624478 TGGTCTATTAGGGTGTATAGTTTCCAA 59.376 37.037 0.00 0.00 0.00 3.53
6178 8324 7.134162 TGGTCTATTAGGGTGTATAGTTTCCA 58.866 38.462 0.00 0.00 0.00 3.53
6179 8325 7.256225 CCTGGTCTATTAGGGTGTATAGTTTCC 60.256 44.444 0.00 0.00 0.00 3.13
6180 8326 7.668492 CCTGGTCTATTAGGGTGTATAGTTTC 58.332 42.308 0.00 0.00 0.00 2.78
6181 8327 7.613551 CCTGGTCTATTAGGGTGTATAGTTT 57.386 40.000 0.00 0.00 0.00 2.66
6192 8338 9.557061 GTTAAGTTAATTCCCTGGTCTATTAGG 57.443 37.037 0.00 0.00 0.00 2.69
6196 8342 9.462606 CAAAGTTAAGTTAATTCCCTGGTCTAT 57.537 33.333 0.00 0.00 0.00 1.98
6197 8343 8.442374 ACAAAGTTAAGTTAATTCCCTGGTCTA 58.558 33.333 0.00 0.00 0.00 2.59
6198 8344 7.295340 ACAAAGTTAAGTTAATTCCCTGGTCT 58.705 34.615 0.00 0.00 0.00 3.85
6199 8345 7.520451 ACAAAGTTAAGTTAATTCCCTGGTC 57.480 36.000 0.00 0.00 0.00 4.02
6215 8361 9.233649 ACCATTTCGTTTCCATATACAAAGTTA 57.766 29.630 0.00 0.00 0.00 2.24
6216 8362 8.117813 ACCATTTCGTTTCCATATACAAAGTT 57.882 30.769 0.00 0.00 0.00 2.66
6217 8363 7.696992 ACCATTTCGTTTCCATATACAAAGT 57.303 32.000 0.00 0.00 0.00 2.66
6221 8367 9.179909 ACAATTACCATTTCGTTTCCATATACA 57.820 29.630 0.00 0.00 0.00 2.29
6224 8370 8.349983 GCTACAATTACCATTTCGTTTCCATAT 58.650 33.333 0.00 0.00 0.00 1.78
6225 8371 7.466185 CGCTACAATTACCATTTCGTTTCCATA 60.466 37.037 0.00 0.00 0.00 2.74
6226 8372 6.560711 GCTACAATTACCATTTCGTTTCCAT 58.439 36.000 0.00 0.00 0.00 3.41
6227 8373 5.391097 CGCTACAATTACCATTTCGTTTCCA 60.391 40.000 0.00 0.00 0.00 3.53
6228 8374 5.025826 CGCTACAATTACCATTTCGTTTCC 58.974 41.667 0.00 0.00 0.00 3.13
6229 8375 4.494410 GCGCTACAATTACCATTTCGTTTC 59.506 41.667 0.00 0.00 0.00 2.78
6230 8376 4.083217 TGCGCTACAATTACCATTTCGTTT 60.083 37.500 9.73 0.00 0.00 3.60
6231 8377 3.437395 TGCGCTACAATTACCATTTCGTT 59.563 39.130 9.73 0.00 0.00 3.85
6232 8378 3.004171 TGCGCTACAATTACCATTTCGT 58.996 40.909 9.73 0.00 0.00 3.85
6233 8379 3.350912 GTGCGCTACAATTACCATTTCG 58.649 45.455 9.73 0.00 0.00 3.46
6234 8380 3.377172 AGGTGCGCTACAATTACCATTTC 59.623 43.478 9.73 0.00 33.88 2.17
6235 8381 3.352648 AGGTGCGCTACAATTACCATTT 58.647 40.909 9.73 0.00 33.88 2.32
6236 8382 2.999331 AGGTGCGCTACAATTACCATT 58.001 42.857 9.73 0.00 33.88 3.16
6237 8383 2.710096 AGGTGCGCTACAATTACCAT 57.290 45.000 9.73 0.00 33.88 3.55
6238 8384 3.613494 TTAGGTGCGCTACAATTACCA 57.387 42.857 9.73 0.00 33.88 3.25
6239 8385 5.332808 CGTAATTAGGTGCGCTACAATTACC 60.333 44.000 24.70 17.21 38.18 2.85
6240 8386 5.459762 TCGTAATTAGGTGCGCTACAATTAC 59.540 40.000 22.92 22.92 38.11 1.89
6241 8387 5.590145 TCGTAATTAGGTGCGCTACAATTA 58.410 37.500 9.73 10.41 0.00 1.40
6242 8388 4.435425 TCGTAATTAGGTGCGCTACAATT 58.565 39.130 9.73 11.37 0.00 2.32
6243 8389 4.049546 TCGTAATTAGGTGCGCTACAAT 57.950 40.909 9.73 0.00 0.00 2.71
6244 8390 3.507103 TCGTAATTAGGTGCGCTACAA 57.493 42.857 9.73 0.00 0.00 2.41
6245 8391 3.507103 TTCGTAATTAGGTGCGCTACA 57.493 42.857 9.73 0.00 0.00 2.74
6246 8392 4.505191 TGAATTCGTAATTAGGTGCGCTAC 59.495 41.667 9.73 5.08 0.00 3.58
6247 8393 4.684877 TGAATTCGTAATTAGGTGCGCTA 58.315 39.130 9.73 0.00 0.00 4.26
6248 8394 3.527533 TGAATTCGTAATTAGGTGCGCT 58.472 40.909 9.73 0.00 0.00 5.92
6249 8395 3.936902 TGAATTCGTAATTAGGTGCGC 57.063 42.857 0.00 0.00 0.00 6.09
6250 8396 6.764877 AGTATGAATTCGTAATTAGGTGCG 57.235 37.500 8.97 0.00 0.00 5.34
6251 8397 8.813643 AGTAGTATGAATTCGTAATTAGGTGC 57.186 34.615 12.47 0.00 0.00 5.01
6253 8399 9.257651 GCAAGTAGTATGAATTCGTAATTAGGT 57.742 33.333 12.47 0.00 0.00 3.08
6254 8400 9.477484 AGCAAGTAGTATGAATTCGTAATTAGG 57.523 33.333 12.47 0.00 0.00 2.69
6286 8432 9.196139 GCTCAGGAAGTCAGGATATAGTAATAT 57.804 37.037 0.00 0.00 0.00 1.28
6287 8433 7.616150 GGCTCAGGAAGTCAGGATATAGTAATA 59.384 40.741 0.00 0.00 0.00 0.98
6288 8434 6.439058 GGCTCAGGAAGTCAGGATATAGTAAT 59.561 42.308 0.00 0.00 0.00 1.89
6289 8435 5.775701 GGCTCAGGAAGTCAGGATATAGTAA 59.224 44.000 0.00 0.00 0.00 2.24
6290 8436 5.075205 AGGCTCAGGAAGTCAGGATATAGTA 59.925 44.000 0.00 0.00 29.30 1.82
6291 8437 4.140805 AGGCTCAGGAAGTCAGGATATAGT 60.141 45.833 0.00 0.00 29.30 2.12
6292 8438 4.220382 CAGGCTCAGGAAGTCAGGATATAG 59.780 50.000 0.00 0.00 29.30 1.31
6293 8439 4.155709 CAGGCTCAGGAAGTCAGGATATA 58.844 47.826 0.00 0.00 29.30 0.86
6294 8440 2.971330 CAGGCTCAGGAAGTCAGGATAT 59.029 50.000 0.00 0.00 29.30 1.63
6295 8441 2.392662 CAGGCTCAGGAAGTCAGGATA 58.607 52.381 0.00 0.00 29.30 2.59
6296 8442 1.202330 CAGGCTCAGGAAGTCAGGAT 58.798 55.000 0.00 0.00 29.30 3.24
6297 8443 1.548357 GCAGGCTCAGGAAGTCAGGA 61.548 60.000 0.00 0.00 29.30 3.86
6298 8444 1.078567 GCAGGCTCAGGAAGTCAGG 60.079 63.158 0.00 0.00 29.30 3.86
6299 8445 0.035881 TTGCAGGCTCAGGAAGTCAG 59.964 55.000 0.00 0.00 29.30 3.51
6300 8446 0.473755 TTTGCAGGCTCAGGAAGTCA 59.526 50.000 0.00 0.00 29.30 3.41
6301 8447 1.163554 CTTTGCAGGCTCAGGAAGTC 58.836 55.000 0.00 0.00 0.00 3.01
6302 8448 0.767375 TCTTTGCAGGCTCAGGAAGT 59.233 50.000 0.00 0.00 0.00 3.01
6303 8449 1.002888 TCTCTTTGCAGGCTCAGGAAG 59.997 52.381 0.00 0.00 0.00 3.46
6304 8450 1.059098 TCTCTTTGCAGGCTCAGGAA 58.941 50.000 0.00 0.00 0.00 3.36
6305 8451 1.283347 ATCTCTTTGCAGGCTCAGGA 58.717 50.000 0.00 0.00 0.00 3.86
6306 8452 1.743958 CAATCTCTTTGCAGGCTCAGG 59.256 52.381 0.00 0.00 0.00 3.86
6307 8453 1.743958 CCAATCTCTTTGCAGGCTCAG 59.256 52.381 0.00 0.00 33.73 3.35
6308 8454 1.615116 CCCAATCTCTTTGCAGGCTCA 60.615 52.381 0.00 0.00 33.73 4.26
6309 8455 1.101331 CCCAATCTCTTTGCAGGCTC 58.899 55.000 0.00 0.00 33.73 4.70
6310 8456 0.700564 TCCCAATCTCTTTGCAGGCT 59.299 50.000 0.00 0.00 33.73 4.58
6311 8457 1.101331 CTCCCAATCTCTTTGCAGGC 58.899 55.000 0.00 0.00 33.73 4.85
6312 8458 2.641305 CTCTCCCAATCTCTTTGCAGG 58.359 52.381 0.00 0.00 33.73 4.85
6313 8459 2.238144 TCCTCTCCCAATCTCTTTGCAG 59.762 50.000 0.00 0.00 33.73 4.41
6314 8460 2.269023 TCCTCTCCCAATCTCTTTGCA 58.731 47.619 0.00 0.00 33.73 4.08
6315 8461 3.574354 ATCCTCTCCCAATCTCTTTGC 57.426 47.619 0.00 0.00 33.73 3.68
6316 8462 5.619220 CCTTATCCTCTCCCAATCTCTTTG 58.381 45.833 0.00 0.00 34.93 2.77
6317 8463 4.103943 GCCTTATCCTCTCCCAATCTCTTT 59.896 45.833 0.00 0.00 0.00 2.52
6350 8497 2.077687 GATGGGCTTCATCCAATGGT 57.922 50.000 0.00 0.00 44.92 3.55
6372 8519 0.703056 AGCCTCCCTAGCCTCCTCTA 60.703 60.000 0.00 0.00 0.00 2.43
6447 8594 9.970395 GAGCATATTTTCAACAATGGATGAATA 57.030 29.630 4.92 1.88 35.97 1.75
6648 8795 8.121708 GTCAAACGTAATTACCAACAACACTTA 58.878 33.333 10.01 0.00 0.00 2.24


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

AutoCloner maintained by Alex Coulton.