Multiple sequence alignment - TraesCS6B01G099000

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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 TraesCS6B01G099000 chr6B 100.000 2323 0 0 980 3302 76474050 76476372 0.000000e+00 4290.0
1 TraesCS6B01G099000 chr6B 100.000 674 0 0 1 674 76473071 76473744 0.000000e+00 1245.0
2 TraesCS6B01G099000 chr6B 73.446 1126 244 43 987 2085 75671137 75670040 4.020000e-99 372.0
3 TraesCS6B01G099000 chr6B 72.623 1220 242 69 980 2153 62125614 62126787 5.320000e-83 318.0
4 TraesCS6B01G099000 chr6B 80.612 392 54 14 980 1369 63214005 63214376 1.940000e-72 283.0
5 TraesCS6B01G099000 chr6B 80.612 392 54 14 980 1369 63245027 63245398 1.940000e-72 283.0
6 TraesCS6B01G099000 chrUn 94.000 850 47 4 1338 2187 105322256 105321411 0.000000e+00 1284.0
7 TraesCS6B01G099000 chrUn 90.744 659 39 7 2647 3302 105317899 105317260 0.000000e+00 859.0
8 TraesCS6B01G099000 chrUn 89.706 680 58 6 980 1659 77077339 77078006 0.000000e+00 857.0
9 TraesCS6B01G099000 chrUn 90.282 638 40 7 2668 3302 105320490 105319872 0.000000e+00 815.0
10 TraesCS6B01G099000 chrUn 92.736 413 24 1 2229 2641 105318342 105317936 2.840000e-165 592.0
11 TraesCS6B01G099000 chrUn 93.168 322 22 0 1044 1365 105323828 105323507 1.070000e-129 473.0
12 TraesCS6B01G099000 chrUn 72.448 1205 244 65 983 2153 112648913 112650063 4.140000e-79 305.0
13 TraesCS6B01G099000 chrUn 75.723 622 119 18 980 1588 102522664 102522062 1.940000e-72 283.0
14 TraesCS6B01G099000 chrUn 77.931 145 28 4 2009 2151 76832445 76832587 1.630000e-13 87.9
15 TraesCS6B01G099000 chrUn 77.931 145 28 4 2009 2151 241636522 241636664 1.630000e-13 87.9
16 TraesCS6B01G099000 chrUn 100.000 29 0 0 617 645 105335993 105335965 2.000000e-03 54.7
17 TraesCS6B01G099000 chr6A 93.494 415 25 1 1019 1431 42128868 42129282 1.680000e-172 616.0
18 TraesCS6B01G099000 chr6A 92.145 331 20 1 1506 1830 42129284 42129614 2.320000e-126 462.0
19 TraesCS6B01G099000 chr6A 73.093 1219 254 56 985 2166 33255143 33256324 1.870000e-97 366.0
20 TraesCS6B01G099000 chr6A 73.074 1207 243 62 985 2156 46716815 46715656 1.460000e-93 353.0
21 TraesCS6B01G099000 chr6A 72.847 1219 239 68 981 2153 34029166 34030338 1.900000e-87 333.0
22 TraesCS6B01G099000 chr6A 71.800 500 108 25 1667 2151 31108207 31108688 9.690000e-21 111.0
23 TraesCS6B01G099000 chr6A 80.208 96 18 1 2000 2094 30652738 30652833 1.640000e-08 71.3
24 TraesCS6B01G099000 chr5B 96.131 336 12 1 198 532 601409252 601409587 6.230000e-152 547.0
25 TraesCS6B01G099000 chr5B 96.970 198 6 0 4 201 601408303 601408500 1.900000e-87 333.0
26 TraesCS6B01G099000 chr6D 72.060 1131 219 63 1044 2151 27313780 27312724 7.080000e-62 248.0
27 TraesCS6B01G099000 chr6D 76.311 515 91 20 1035 1535 26589957 26589460 2.540000e-61 246.0
28 TraesCS6B01G099000 chr6D 72.905 358 82 12 1817 2171 27328317 27327972 3.480000e-20 110.0
29 TraesCS6B01G099000 chr6D 82.653 98 16 1 1998 2094 27544040 27543943 5.870000e-13 86.1
30 TraesCS6B01G099000 chr6D 76.510 149 33 2 2009 2156 27125972 27125825 2.730000e-11 80.5
31 TraesCS6B01G099000 chr2B 94.231 156 8 1 329 483 6539925 6539770 1.530000e-58 237.0
32 TraesCS6B01G099000 chr2B 95.699 93 4 0 481 573 6539359 6539267 2.050000e-32 150.0


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 TraesCS6B01G099000 chr6B 76473071 76476372 3301 False 2767.5 4290 100.0000 1 3302 2 chr6B.!!$F4 3301
1 TraesCS6B01G099000 chr6B 75670040 75671137 1097 True 372.0 372 73.4460 987 2085 1 chr6B.!!$R1 1098
2 TraesCS6B01G099000 chr6B 62125614 62126787 1173 False 318.0 318 72.6230 980 2153 1 chr6B.!!$F1 1173
3 TraesCS6B01G099000 chrUn 77077339 77078006 667 False 857.0 857 89.7060 980 1659 1 chrUn.!!$F2 679
4 TraesCS6B01G099000 chrUn 105317260 105323828 6568 True 804.6 1284 92.1860 1044 3302 5 chrUn.!!$R3 2258
5 TraesCS6B01G099000 chrUn 112648913 112650063 1150 False 305.0 305 72.4480 983 2153 1 chrUn.!!$F3 1170
6 TraesCS6B01G099000 chrUn 102522062 102522664 602 True 283.0 283 75.7230 980 1588 1 chrUn.!!$R1 608
7 TraesCS6B01G099000 chr6A 42128868 42129614 746 False 539.0 616 92.8195 1019 1830 2 chr6A.!!$F5 811
8 TraesCS6B01G099000 chr6A 33255143 33256324 1181 False 366.0 366 73.0930 985 2166 1 chr6A.!!$F3 1181
9 TraesCS6B01G099000 chr6A 46715656 46716815 1159 True 353.0 353 73.0740 985 2156 1 chr6A.!!$R1 1171
10 TraesCS6B01G099000 chr6A 34029166 34030338 1172 False 333.0 333 72.8470 981 2153 1 chr6A.!!$F4 1172
11 TraesCS6B01G099000 chr5B 601408303 601409587 1284 False 440.0 547 96.5505 4 532 2 chr5B.!!$F1 528
12 TraesCS6B01G099000 chr6D 27312724 27313780 1056 True 248.0 248 72.0600 1044 2151 1 chr6D.!!$R3 1107

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
671 1428 0.106708 GCACTCACCACACTCCAGAA 59.893 55.0 0.0 0.0 0.0 3.02 F
673 1430 0.394565 ACTCACCACACTCCAGAAGC 59.605 55.0 0.0 0.0 0.0 3.86 F
1518 3576 0.036388 GAGACATCCGCCACTTCCAA 60.036 55.0 0.0 0.0 0.0 3.53 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1518 3576 0.179134 GCGTGCCTATCAAGACGACT 60.179 55.000 0.0 0.0 33.64 4.18 R
2097 4218 1.202510 AGATGACGCCAGAAGCTGATC 60.203 52.381 0.0 0.0 40.39 2.92 R
3227 8422 0.964700 TCACAGAGTCAGAGGTGCAG 59.035 55.000 0.0 0.0 0.00 4.41 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
55 56 4.373116 CACGGCCCGCACTACACT 62.373 66.667 1.23 0.00 0.00 3.55
106 107 1.708993 TTGCAGCTCCCACTTGAGGT 61.709 55.000 0.00 0.00 43.54 3.85
169 170 3.274586 CATGCCATCTCGCCACCG 61.275 66.667 0.00 0.00 0.00 4.94
186 187 0.319813 CCGTCGCTGCATCATCCATA 60.320 55.000 0.00 0.00 0.00 2.74
205 961 2.347490 CCGGTGGTTGTAGCAGCT 59.653 61.111 0.00 0.00 41.44 4.24
319 1075 2.027625 AGCTAGAAACACGCGCCAC 61.028 57.895 5.73 0.00 0.00 5.01
353 1109 1.941975 CATGGCGTAATGATGTGCAGA 59.058 47.619 0.00 0.00 0.00 4.26
407 1163 4.080863 AGTGTGTGGCTAAGAAGATAAGGG 60.081 45.833 0.00 0.00 0.00 3.95
439 1195 0.320073 TAAGGCTTGGGAACGTGTCG 60.320 55.000 10.69 0.00 0.00 4.35
440 1196 3.047877 GGCTTGGGAACGTGTCGG 61.048 66.667 0.00 0.00 0.00 4.79
441 1197 3.723348 GCTTGGGAACGTGTCGGC 61.723 66.667 0.00 0.00 0.00 5.54
442 1198 3.411351 CTTGGGAACGTGTCGGCG 61.411 66.667 0.00 0.00 37.94 6.46
468 1225 3.205733 AGGTTAGGTGGACCCAAGAAAAA 59.794 43.478 0.00 0.00 37.93 1.94
470 1227 2.838637 AGGTGGACCCAAGAAAAACA 57.161 45.000 0.00 0.00 36.42 2.83
511 1268 1.697284 CCTCTGATCTCCACCGATCA 58.303 55.000 3.76 3.76 45.46 2.92
521 1278 2.433664 ACCGATCAAACGTCCCGC 60.434 61.111 0.00 0.00 0.00 6.13
563 1320 2.743538 GGTCCGCCGGGTACAAAC 60.744 66.667 1.90 0.00 33.83 2.93
564 1321 2.030862 GTCCGCCGGGTACAAACA 59.969 61.111 1.90 0.00 33.83 2.83
565 1322 1.376295 GTCCGCCGGGTACAAACAT 60.376 57.895 1.90 0.00 33.83 2.71
566 1323 0.956902 GTCCGCCGGGTACAAACATT 60.957 55.000 1.90 0.00 33.83 2.71
567 1324 0.250814 TCCGCCGGGTACAAACATTT 60.251 50.000 1.90 0.00 33.83 2.32
568 1325 0.169451 CCGCCGGGTACAAACATTTC 59.831 55.000 2.18 0.00 0.00 2.17
569 1326 0.169451 CGCCGGGTACAAACATTTCC 59.831 55.000 2.18 0.00 0.00 3.13
570 1327 0.528924 GCCGGGTACAAACATTTCCC 59.471 55.000 2.18 0.00 35.22 3.97
571 1328 1.889262 GCCGGGTACAAACATTTCCCT 60.889 52.381 2.18 0.00 36.30 4.20
572 1329 2.521126 CCGGGTACAAACATTTCCCTT 58.479 47.619 0.00 0.00 36.30 3.95
573 1330 2.894765 CCGGGTACAAACATTTCCCTTT 59.105 45.455 0.00 0.00 36.30 3.11
574 1331 3.057104 CCGGGTACAAACATTTCCCTTTC 60.057 47.826 0.00 0.00 36.30 2.62
575 1332 3.570550 CGGGTACAAACATTTCCCTTTCA 59.429 43.478 0.00 0.00 36.30 2.69
576 1333 4.038162 CGGGTACAAACATTTCCCTTTCAA 59.962 41.667 0.00 0.00 36.30 2.69
577 1334 5.452077 CGGGTACAAACATTTCCCTTTCAAA 60.452 40.000 0.00 0.00 36.30 2.69
578 1335 6.530120 GGGTACAAACATTTCCCTTTCAAAT 58.470 36.000 0.00 0.00 35.63 2.32
579 1336 6.995686 GGGTACAAACATTTCCCTTTCAAATT 59.004 34.615 0.00 0.00 35.63 1.82
580 1337 7.500892 GGGTACAAACATTTCCCTTTCAAATTT 59.499 33.333 0.00 0.00 35.63 1.82
581 1338 8.556194 GGTACAAACATTTCCCTTTCAAATTTC 58.444 33.333 0.00 0.00 0.00 2.17
582 1339 9.325198 GTACAAACATTTCCCTTTCAAATTTCT 57.675 29.630 0.00 0.00 0.00 2.52
583 1340 8.806429 ACAAACATTTCCCTTTCAAATTTCTT 57.194 26.923 0.00 0.00 0.00 2.52
584 1341 9.898152 ACAAACATTTCCCTTTCAAATTTCTTA 57.102 25.926 0.00 0.00 0.00 2.10
586 1343 8.607441 AACATTTCCCTTTCAAATTTCTTAGC 57.393 30.769 0.00 0.00 0.00 3.09
587 1344 7.734942 ACATTTCCCTTTCAAATTTCTTAGCA 58.265 30.769 0.00 0.00 0.00 3.49
588 1345 7.657354 ACATTTCCCTTTCAAATTTCTTAGCAC 59.343 33.333 0.00 0.00 0.00 4.40
589 1346 6.723298 TTCCCTTTCAAATTTCTTAGCACA 57.277 33.333 0.00 0.00 0.00 4.57
590 1347 6.723298 TCCCTTTCAAATTTCTTAGCACAA 57.277 33.333 0.00 0.00 0.00 3.33
591 1348 7.118496 TCCCTTTCAAATTTCTTAGCACAAA 57.882 32.000 0.00 0.00 0.00 2.83
592 1349 7.734942 TCCCTTTCAAATTTCTTAGCACAAAT 58.265 30.769 0.00 0.00 0.00 2.32
593 1350 7.872483 TCCCTTTCAAATTTCTTAGCACAAATC 59.128 33.333 0.00 0.00 0.00 2.17
594 1351 7.148755 CCCTTTCAAATTTCTTAGCACAAATCG 60.149 37.037 0.00 0.00 0.00 3.34
595 1352 7.382218 CCTTTCAAATTTCTTAGCACAAATCGT 59.618 33.333 0.00 0.00 0.00 3.73
597 1354 6.148948 TCAAATTTCTTAGCACAAATCGTGG 58.851 36.000 0.00 0.00 46.45 4.94
598 1355 4.701956 ATTTCTTAGCACAAATCGTGGG 57.298 40.909 0.00 0.00 46.45 4.61
606 1363 2.580589 CACAAATCGTGGGCTTTAACG 58.419 47.619 0.00 0.00 42.34 3.18
607 1364 1.068816 ACAAATCGTGGGCTTTAACGC 60.069 47.619 0.00 0.00 39.61 4.84
614 1371 4.716003 GGCTTTAACGCCCAGTCT 57.284 55.556 11.87 0.00 44.41 3.24
615 1372 2.942641 GGCTTTAACGCCCAGTCTT 58.057 52.632 11.87 0.00 44.41 3.01
616 1373 2.103537 GGCTTTAACGCCCAGTCTTA 57.896 50.000 11.87 0.00 44.41 2.10
617 1374 2.640184 GGCTTTAACGCCCAGTCTTAT 58.360 47.619 11.87 0.00 44.41 1.73
618 1375 2.612672 GGCTTTAACGCCCAGTCTTATC 59.387 50.000 11.87 0.00 44.41 1.75
619 1376 2.284417 GCTTTAACGCCCAGTCTTATCG 59.716 50.000 0.00 0.00 0.00 2.92
620 1377 3.518590 CTTTAACGCCCAGTCTTATCGT 58.481 45.455 0.00 0.00 34.63 3.73
621 1378 3.598019 TTAACGCCCAGTCTTATCGTT 57.402 42.857 0.00 0.00 44.18 3.85
622 1379 2.467566 AACGCCCAGTCTTATCGTTT 57.532 45.000 0.00 0.00 39.91 3.60
623 1380 1.722011 ACGCCCAGTCTTATCGTTTG 58.278 50.000 0.00 0.00 0.00 2.93
624 1381 1.006832 CGCCCAGTCTTATCGTTTGG 58.993 55.000 0.00 0.00 0.00 3.28
626 1383 1.379527 CCCAGTCTTATCGTTTGGGC 58.620 55.000 0.00 0.00 41.79 5.36
627 1384 1.065418 CCCAGTCTTATCGTTTGGGCT 60.065 52.381 0.00 0.00 41.79 5.19
628 1385 2.280628 CCAGTCTTATCGTTTGGGCTC 58.719 52.381 0.00 0.00 0.00 4.70
629 1386 2.280628 CAGTCTTATCGTTTGGGCTCC 58.719 52.381 0.00 0.00 0.00 4.70
630 1387 1.209747 AGTCTTATCGTTTGGGCTCCC 59.790 52.381 0.00 0.00 0.00 4.30
631 1388 0.177141 TCTTATCGTTTGGGCTCCCG 59.823 55.000 0.00 0.00 39.42 5.14
632 1389 0.177141 CTTATCGTTTGGGCTCCCGA 59.823 55.000 0.00 0.00 39.42 5.14
633 1390 0.108041 TTATCGTTTGGGCTCCCGAC 60.108 55.000 0.00 1.23 39.42 4.79
634 1391 1.963464 TATCGTTTGGGCTCCCGACC 61.963 60.000 0.00 0.00 39.55 4.79
635 1392 4.016706 CGTTTGGGCTCCCGACCT 62.017 66.667 0.00 0.00 39.94 3.85
636 1393 2.046217 GTTTGGGCTCCCGACCTC 60.046 66.667 0.00 0.00 39.94 3.85
637 1394 2.203938 TTTGGGCTCCCGACCTCT 60.204 61.111 0.00 0.00 39.94 3.69
638 1395 1.846124 TTTGGGCTCCCGACCTCTT 60.846 57.895 0.00 0.00 39.94 2.85
639 1396 1.838073 TTTGGGCTCCCGACCTCTTC 61.838 60.000 0.00 0.00 39.94 2.87
640 1397 2.683933 GGGCTCCCGACCTCTTCA 60.684 66.667 0.00 0.00 34.48 3.02
641 1398 2.579738 GGCTCCCGACCTCTTCAC 59.420 66.667 0.00 0.00 0.00 3.18
642 1399 1.985116 GGCTCCCGACCTCTTCACT 60.985 63.158 0.00 0.00 0.00 3.41
643 1400 1.545706 GGCTCCCGACCTCTTCACTT 61.546 60.000 0.00 0.00 0.00 3.16
644 1401 0.321996 GCTCCCGACCTCTTCACTTT 59.678 55.000 0.00 0.00 0.00 2.66
645 1402 1.549170 GCTCCCGACCTCTTCACTTTA 59.451 52.381 0.00 0.00 0.00 1.85
646 1403 2.674462 GCTCCCGACCTCTTCACTTTAC 60.674 54.545 0.00 0.00 0.00 2.01
647 1404 1.897802 TCCCGACCTCTTCACTTTACC 59.102 52.381 0.00 0.00 0.00 2.85
648 1405 1.403780 CCCGACCTCTTCACTTTACCG 60.404 57.143 0.00 0.00 0.00 4.02
649 1406 1.347320 CGACCTCTTCACTTTACCGC 58.653 55.000 0.00 0.00 0.00 5.68
650 1407 1.723220 GACCTCTTCACTTTACCGCC 58.277 55.000 0.00 0.00 0.00 6.13
651 1408 1.275573 GACCTCTTCACTTTACCGCCT 59.724 52.381 0.00 0.00 0.00 5.52
652 1409 1.002087 ACCTCTTCACTTTACCGCCTG 59.998 52.381 0.00 0.00 0.00 4.85
653 1410 1.079503 CTCTTCACTTTACCGCCTGC 58.920 55.000 0.00 0.00 0.00 4.85
654 1411 0.394938 TCTTCACTTTACCGCCTGCA 59.605 50.000 0.00 0.00 0.00 4.41
655 1412 0.517316 CTTCACTTTACCGCCTGCAC 59.483 55.000 0.00 0.00 0.00 4.57
656 1413 0.107831 TTCACTTTACCGCCTGCACT 59.892 50.000 0.00 0.00 0.00 4.40
657 1414 0.320421 TCACTTTACCGCCTGCACTC 60.320 55.000 0.00 0.00 0.00 3.51
658 1415 0.602638 CACTTTACCGCCTGCACTCA 60.603 55.000 0.00 0.00 0.00 3.41
659 1416 0.602905 ACTTTACCGCCTGCACTCAC 60.603 55.000 0.00 0.00 0.00 3.51
660 1417 1.298859 CTTTACCGCCTGCACTCACC 61.299 60.000 0.00 0.00 0.00 4.02
661 1418 2.046009 TTTACCGCCTGCACTCACCA 62.046 55.000 0.00 0.00 0.00 4.17
662 1419 2.725203 TTACCGCCTGCACTCACCAC 62.725 60.000 0.00 0.00 0.00 4.16
663 1420 4.624364 CCGCCTGCACTCACCACA 62.624 66.667 0.00 0.00 0.00 4.17
664 1421 3.349006 CGCCTGCACTCACCACAC 61.349 66.667 0.00 0.00 0.00 3.82
665 1422 2.111878 GCCTGCACTCACCACACT 59.888 61.111 0.00 0.00 0.00 3.55
666 1423 1.963338 GCCTGCACTCACCACACTC 60.963 63.158 0.00 0.00 0.00 3.51
667 1424 1.302033 CCTGCACTCACCACACTCC 60.302 63.158 0.00 0.00 0.00 3.85
668 1425 1.447217 CTGCACTCACCACACTCCA 59.553 57.895 0.00 0.00 0.00 3.86
669 1426 0.602106 CTGCACTCACCACACTCCAG 60.602 60.000 0.00 0.00 0.00 3.86
670 1427 1.048160 TGCACTCACCACACTCCAGA 61.048 55.000 0.00 0.00 0.00 3.86
671 1428 0.106708 GCACTCACCACACTCCAGAA 59.893 55.000 0.00 0.00 0.00 3.02
672 1429 1.875576 GCACTCACCACACTCCAGAAG 60.876 57.143 0.00 0.00 0.00 2.85
673 1430 0.394565 ACTCACCACACTCCAGAAGC 59.605 55.000 0.00 0.00 0.00 3.86
1143 1909 2.974698 GTCTGCAAGCGCTGGTGT 60.975 61.111 12.58 0.00 39.64 4.16
1235 2001 4.331108 GGCTTCTTCTTTGAGGAAGTGAT 58.669 43.478 16.79 0.00 44.21 3.06
1236 2002 4.764308 GGCTTCTTCTTTGAGGAAGTGATT 59.236 41.667 16.79 0.00 44.21 2.57
1372 3418 1.078848 GGCCTCGTGCTCATCTTGT 60.079 57.895 0.00 0.00 40.92 3.16
1518 3576 0.036388 GAGACATCCGCCACTTCCAA 60.036 55.000 0.00 0.00 0.00 3.53
1694 3782 0.893270 TGCGTCCTGGTTGGGAATTG 60.893 55.000 0.00 0.00 37.10 2.32
1751 3842 6.914665 TCATCCTGGAGTTTGATTTGGATAT 58.085 36.000 1.52 0.00 32.33 1.63
1775 3866 2.036992 AGAGGCTAGCTGTGATACATGC 59.963 50.000 15.72 0.00 0.00 4.06
1863 3972 4.982241 TGGTTTCCTCTTTCTGTCAGAT 57.018 40.909 2.68 0.00 0.00 2.90
1933 4051 2.082231 CATGGGTGCTCAGAAGAACTG 58.918 52.381 0.00 0.00 46.97 3.16
1993 4114 1.000496 GCGTAGTGCCCCTGATACTAC 60.000 57.143 0.00 0.00 41.94 2.73
2087 4208 4.613167 GCTTGAGTCATTGCAGTTCAAGAG 60.613 45.833 20.25 2.73 44.58 2.85
2097 4218 3.879295 TGCAGTTCAAGAGACTTTCCAAG 59.121 43.478 0.00 0.00 0.00 3.61
2160 4282 1.628340 ACTGCAGGTAATAGCACACCA 59.372 47.619 19.93 0.00 37.28 4.17
2178 4300 1.206132 CCATTACACTCTGCCCGTACA 59.794 52.381 0.00 0.00 0.00 2.90
2179 4301 2.354303 CCATTACACTCTGCCCGTACAA 60.354 50.000 0.00 0.00 0.00 2.41
2180 4302 3.331150 CATTACACTCTGCCCGTACAAA 58.669 45.455 0.00 0.00 0.00 2.83
2181 4303 3.472283 TTACACTCTGCCCGTACAAAA 57.528 42.857 0.00 0.00 0.00 2.44
2182 4304 2.335316 ACACTCTGCCCGTACAAAAA 57.665 45.000 0.00 0.00 0.00 1.94
2216 4338 1.244019 AAACCCGGAATGCTGCTCAC 61.244 55.000 0.73 0.00 0.00 3.51
2217 4339 2.129555 AACCCGGAATGCTGCTCACT 62.130 55.000 0.73 0.00 0.00 3.41
2219 4341 1.372087 CCCGGAATGCTGCTCACTTC 61.372 60.000 0.73 0.00 0.00 3.01
2260 7421 5.221048 ACAATTTCTTGTAGTGTCTTGCACC 60.221 40.000 0.00 0.00 43.77 5.01
2287 7448 8.092687 AGTTATTTCTTTTGCTGCTTGATGATT 58.907 29.630 0.00 0.00 0.00 2.57
2334 7495 8.358895 TGTTCTGTATCATTTTCTTTCATTGCA 58.641 29.630 0.00 0.00 0.00 4.08
2335 7496 9.362539 GTTCTGTATCATTTTCTTTCATTGCAT 57.637 29.630 0.00 0.00 0.00 3.96
2340 7501 9.017669 GTATCATTTTCTTTCATTGCATCTGTC 57.982 33.333 0.00 0.00 0.00 3.51
2356 7517 6.035975 TGCATCTGTCGTGATGTTTTATGTAG 59.964 38.462 13.81 0.00 44.02 2.74
2365 7526 7.015289 CGTGATGTTTTATGTAGTTGTTCTGG 58.985 38.462 0.00 0.00 0.00 3.86
2388 7549 6.033966 GGGTTGGAAAAATATTCGTTAGCAG 58.966 40.000 0.00 0.00 0.00 4.24
2389 7550 6.349860 GGGTTGGAAAAATATTCGTTAGCAGT 60.350 38.462 0.00 0.00 0.00 4.40
2390 7551 6.526674 GGTTGGAAAAATATTCGTTAGCAGTG 59.473 38.462 0.00 0.00 0.00 3.66
2391 7552 5.636837 TGGAAAAATATTCGTTAGCAGTGC 58.363 37.500 7.13 7.13 0.00 4.40
2392 7553 5.034797 GGAAAAATATTCGTTAGCAGTGCC 58.965 41.667 12.58 0.00 0.00 5.01
2393 7554 3.944422 AAATATTCGTTAGCAGTGCCG 57.056 42.857 12.58 8.81 0.00 5.69
2402 7563 0.959553 TAGCAGTGCCGGTATCTAGC 59.040 55.000 12.58 1.60 0.00 3.42
2448 7609 0.902984 TCTGTACCCAGGCGATGTGT 60.903 55.000 0.00 0.00 39.31 3.72
2509 7670 5.657745 TCATTGCCATTGGACTATGTGATTT 59.342 36.000 6.95 0.00 0.00 2.17
2588 7749 6.831868 ACAATTAACACCAAGAACCAAGTACT 59.168 34.615 0.00 0.00 0.00 2.73
2626 7787 2.554370 AAATGCCATTGTTGCTTGCT 57.446 40.000 0.00 0.00 0.00 3.91
2641 7802 4.923893 TGCTTGCTTATTCACATATGCAC 58.076 39.130 1.58 0.00 42.70 4.57
2642 7803 4.202040 TGCTTGCTTATTCACATATGCACC 60.202 41.667 1.58 0.21 42.70 5.01
2643 7804 4.530388 CTTGCTTATTCACATATGCACCG 58.470 43.478 1.58 0.00 42.70 4.94
2644 7805 2.290367 TGCTTATTCACATATGCACCGC 59.710 45.455 1.58 0.00 39.78 5.68
2645 7806 2.662791 GCTTATTCACATATGCACCGCG 60.663 50.000 1.58 0.00 36.48 6.46
2754 7948 9.842775 AATAGATAACTCAAGATGCTCATTTGA 57.157 29.630 0.00 7.03 0.00 2.69
2783 7977 8.886816 CAGAAAGCAAGTTATATTTCTGTCAC 57.113 34.615 19.09 0.00 46.94 3.67
2894 8088 1.629043 TGTAACTTGGAGGCGAGTCT 58.371 50.000 0.00 0.00 0.00 3.24
2904 8098 2.508887 GCGAGTCTCTGCTGCCAG 60.509 66.667 0.00 0.00 40.54 4.85
2922 8116 3.428045 GCCAGTATCAAGTCCATTTGCAC 60.428 47.826 0.00 0.00 0.00 4.57
2948 8142 7.010552 CCAGGACTTTATAATGAACTGACTTCG 59.989 40.741 18.91 6.97 0.00 3.79
2951 8145 9.362539 GGACTTTATAATGAACTGACTTCGTTA 57.637 33.333 5.43 0.00 42.20 3.18
3027 8222 8.757982 ATCACATCTGTTGCTAGGATTTATTT 57.242 30.769 0.00 0.00 0.00 1.40
3044 8239 8.362639 GGATTTATTTGTGTGAGCATATTCCAT 58.637 33.333 0.00 0.00 0.00 3.41
3059 8254 8.649591 AGCATATTCCATTATTTTTGTATGGCA 58.350 29.630 0.00 0.00 38.93 4.92
3064 8259 6.282167 TCCATTATTTTTGTATGGCATGCAG 58.718 36.000 21.36 4.53 38.93 4.41
3088 8283 6.926272 AGCGAGGTTAAGAATAATTCTAGCTG 59.074 38.462 0.00 0.00 39.61 4.24
3117 8312 8.668510 TCTTTCATCTGATTAGCCAATAGTTC 57.331 34.615 0.00 0.00 0.00 3.01
3118 8313 7.716998 TCTTTCATCTGATTAGCCAATAGTTCC 59.283 37.037 0.00 0.00 0.00 3.62
3124 8319 6.382859 TCTGATTAGCCAATAGTTCCAGTGTA 59.617 38.462 0.00 0.00 0.00 2.90
3187 8382 9.649167 CTCTTTTGAGGAATATGCTTTGAATTT 57.351 29.630 0.00 0.00 42.66 1.82
3200 8395 7.697352 TGCTTTGAATTTGACTAATGTTGTG 57.303 32.000 0.00 0.00 0.00 3.33
3203 8398 7.357532 GCTTTGAATTTGACTAATGTTGTGTCG 60.358 37.037 0.00 0.00 33.81 4.35
3209 8404 4.055360 TGACTAATGTTGTGTCGAACCTG 58.945 43.478 0.00 0.00 33.81 4.00
3223 8418 4.446051 GTCGAACCTGAGTTTTTCTCTCTG 59.554 45.833 0.00 0.00 43.13 3.35
3227 8422 6.510317 CGAACCTGAGTTTTTCTCTCTGAAAC 60.510 42.308 0.00 0.00 43.55 2.78
3232 8427 5.065218 TGAGTTTTTCTCTCTGAAACTGCAC 59.935 40.000 5.54 0.00 43.55 4.57
3233 8428 4.336713 AGTTTTTCTCTCTGAAACTGCACC 59.663 41.667 0.41 0.00 43.55 5.01
3234 8429 3.845781 TTTCTCTCTGAAACTGCACCT 57.154 42.857 0.00 0.00 39.50 4.00
3235 8430 3.393089 TTCTCTCTGAAACTGCACCTC 57.607 47.619 0.00 0.00 0.00 3.85
3236 8431 2.603021 TCTCTCTGAAACTGCACCTCT 58.397 47.619 0.00 0.00 0.00 3.69
3237 8432 2.298446 TCTCTCTGAAACTGCACCTCTG 59.702 50.000 0.00 0.00 0.00 3.35
3238 8433 2.298446 CTCTCTGAAACTGCACCTCTGA 59.702 50.000 0.00 0.00 0.00 3.27
3239 8434 2.036475 TCTCTGAAACTGCACCTCTGAC 59.964 50.000 0.00 0.00 0.00 3.51
3250 8445 2.609244 GCACCTCTGACTCTGTGAGTTC 60.609 54.545 1.58 0.00 43.53 3.01
3261 8456 7.487484 TGACTCTGTGAGTTCATCTGAATATC 58.513 38.462 1.58 0.00 43.53 1.63
3268 8463 7.093156 TGTGAGTTCATCTGAATATCTCCTTGT 60.093 37.037 0.00 0.00 36.33 3.16
3282 8477 5.091261 TCTCCTTGTTGCCTTCTCTTATC 57.909 43.478 0.00 0.00 0.00 1.75
3294 8489 7.913789 TGCCTTCTCTTATCTACTTGGTTTTA 58.086 34.615 0.00 0.00 0.00 1.52
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
169 170 0.795085 GCTATGGATGATGCAGCGAC 59.205 55.000 0.00 0.00 0.00 5.19
186 187 2.347490 CTGCTACAACCACCGGCT 59.653 61.111 0.00 0.00 0.00 5.52
205 961 2.031919 CTACAACCGCTGGCCACA 59.968 61.111 0.00 0.00 0.00 4.17
319 1075 1.174712 GCCATGGATTCATCACCCCG 61.175 60.000 18.40 0.00 0.00 5.73
328 1084 3.610114 GCACATCATTACGCCATGGATTC 60.610 47.826 18.40 0.00 0.00 2.52
353 1109 4.719026 TCTACCTCCGTACATCATACCT 57.281 45.455 0.00 0.00 0.00 3.08
407 1163 1.594564 GCCTTATCTTCCCGACCGC 60.595 63.158 0.00 0.00 0.00 5.68
439 1195 0.108472 GTCCACCTAACCTGTACGCC 60.108 60.000 0.00 0.00 0.00 5.68
440 1196 0.108472 GGTCCACCTAACCTGTACGC 60.108 60.000 0.00 0.00 33.78 4.42
441 1197 0.533951 GGGTCCACCTAACCTGTACG 59.466 60.000 0.00 0.00 36.97 3.67
442 1198 1.648116 TGGGTCCACCTAACCTGTAC 58.352 55.000 0.00 0.00 41.11 2.90
468 1225 2.367202 CCCTCAGCCCCACGTATGT 61.367 63.158 0.00 0.00 0.00 2.29
470 1227 2.064581 GTCCCTCAGCCCCACGTAT 61.065 63.158 0.00 0.00 0.00 3.06
546 1303 2.743538 GTTTGTACCCGGCGGACC 60.744 66.667 30.79 14.96 0.00 4.46
547 1304 0.956902 AATGTTTGTACCCGGCGGAC 60.957 55.000 30.79 19.63 0.00 4.79
548 1305 0.250814 AAATGTTTGTACCCGGCGGA 60.251 50.000 30.79 5.01 0.00 5.54
549 1306 0.169451 GAAATGTTTGTACCCGGCGG 59.831 55.000 21.46 21.46 0.00 6.13
550 1307 0.169451 GGAAATGTTTGTACCCGGCG 59.831 55.000 0.00 0.00 0.00 6.46
551 1308 0.528924 GGGAAATGTTTGTACCCGGC 59.471 55.000 0.00 0.00 0.00 6.13
552 1309 2.209690 AGGGAAATGTTTGTACCCGG 57.790 50.000 0.00 0.00 44.57 5.73
553 1310 3.570550 TGAAAGGGAAATGTTTGTACCCG 59.429 43.478 0.00 0.00 44.57 5.28
554 1311 5.538849 TTGAAAGGGAAATGTTTGTACCC 57.461 39.130 0.00 0.00 40.71 3.69
555 1312 8.445275 AAATTTGAAAGGGAAATGTTTGTACC 57.555 30.769 0.00 0.00 0.00 3.34
556 1313 9.325198 AGAAATTTGAAAGGGAAATGTTTGTAC 57.675 29.630 0.00 0.00 0.00 2.90
557 1314 9.898152 AAGAAATTTGAAAGGGAAATGTTTGTA 57.102 25.926 0.00 0.00 0.00 2.41
558 1315 8.806429 AAGAAATTTGAAAGGGAAATGTTTGT 57.194 26.923 0.00 0.00 0.00 2.83
560 1317 9.056005 GCTAAGAAATTTGAAAGGGAAATGTTT 57.944 29.630 0.00 0.00 0.00 2.83
561 1318 8.210265 TGCTAAGAAATTTGAAAGGGAAATGTT 58.790 29.630 0.00 0.00 0.00 2.71
562 1319 7.657354 GTGCTAAGAAATTTGAAAGGGAAATGT 59.343 33.333 0.00 0.00 0.00 2.71
563 1320 7.656948 TGTGCTAAGAAATTTGAAAGGGAAATG 59.343 33.333 0.00 0.00 0.00 2.32
564 1321 7.734942 TGTGCTAAGAAATTTGAAAGGGAAAT 58.265 30.769 0.00 0.00 0.00 2.17
565 1322 7.118496 TGTGCTAAGAAATTTGAAAGGGAAA 57.882 32.000 0.00 0.00 0.00 3.13
566 1323 6.723298 TGTGCTAAGAAATTTGAAAGGGAA 57.277 33.333 0.00 0.00 0.00 3.97
567 1324 6.723298 TTGTGCTAAGAAATTTGAAAGGGA 57.277 33.333 0.00 0.00 0.00 4.20
568 1325 7.148755 CGATTTGTGCTAAGAAATTTGAAAGGG 60.149 37.037 0.00 0.00 29.87 3.95
569 1326 7.382218 ACGATTTGTGCTAAGAAATTTGAAAGG 59.618 33.333 0.00 0.00 29.87 3.11
570 1327 8.209869 CACGATTTGTGCTAAGAAATTTGAAAG 58.790 33.333 0.00 0.00 42.70 2.62
571 1328 8.060020 CACGATTTGTGCTAAGAAATTTGAAA 57.940 30.769 0.00 0.00 42.70 2.69
572 1329 7.621832 CACGATTTGTGCTAAGAAATTTGAA 57.378 32.000 0.00 0.00 42.70 2.69
587 1344 1.068816 GCGTTAAAGCCCACGATTTGT 60.069 47.619 1.48 0.00 38.76 2.83
588 1345 1.613270 GCGTTAAAGCCCACGATTTG 58.387 50.000 1.48 0.00 38.76 2.32
598 1355 2.284417 CGATAAGACTGGGCGTTAAAGC 59.716 50.000 4.65 4.65 0.00 3.51
599 1356 3.518590 ACGATAAGACTGGGCGTTAAAG 58.481 45.455 0.00 0.00 0.00 1.85
600 1357 3.598019 ACGATAAGACTGGGCGTTAAA 57.402 42.857 0.00 0.00 0.00 1.52
601 1358 3.598019 AACGATAAGACTGGGCGTTAA 57.402 42.857 0.00 0.00 42.52 2.01
602 1359 3.255725 CAAACGATAAGACTGGGCGTTA 58.744 45.455 0.00 0.00 43.38 3.18
603 1360 2.073816 CAAACGATAAGACTGGGCGTT 58.926 47.619 0.00 0.00 45.71 4.84
604 1361 1.674817 CCAAACGATAAGACTGGGCGT 60.675 52.381 0.00 0.00 36.68 5.68
605 1362 1.006832 CCAAACGATAAGACTGGGCG 58.993 55.000 0.00 0.00 0.00 6.13
606 1363 1.379527 CCCAAACGATAAGACTGGGC 58.620 55.000 0.00 0.00 38.04 5.36
607 1364 1.065418 AGCCCAAACGATAAGACTGGG 60.065 52.381 0.86 0.86 43.52 4.45
608 1365 2.280628 GAGCCCAAACGATAAGACTGG 58.719 52.381 0.00 0.00 0.00 4.00
609 1366 2.280628 GGAGCCCAAACGATAAGACTG 58.719 52.381 0.00 0.00 0.00 3.51
610 1367 1.209747 GGGAGCCCAAACGATAAGACT 59.790 52.381 0.00 0.00 35.81 3.24
611 1368 1.664873 GGGAGCCCAAACGATAAGAC 58.335 55.000 0.00 0.00 35.81 3.01
612 1369 0.177141 CGGGAGCCCAAACGATAAGA 59.823 55.000 6.34 0.00 35.37 2.10
613 1370 0.177141 TCGGGAGCCCAAACGATAAG 59.823 55.000 6.34 0.00 35.37 1.73
614 1371 0.108041 GTCGGGAGCCCAAACGATAA 60.108 55.000 6.34 0.00 37.69 1.75
615 1372 1.518774 GTCGGGAGCCCAAACGATA 59.481 57.895 6.34 0.00 37.69 2.92
616 1373 2.267961 GTCGGGAGCCCAAACGAT 59.732 61.111 6.34 0.00 37.69 3.73
617 1374 4.011517 GGTCGGGAGCCCAAACGA 62.012 66.667 6.34 0.00 35.37 3.85
618 1375 3.952628 GAGGTCGGGAGCCCAAACG 62.953 68.421 6.34 0.00 35.37 3.60
619 1376 2.046217 GAGGTCGGGAGCCCAAAC 60.046 66.667 6.34 3.09 35.37 2.93
620 1377 1.838073 GAAGAGGTCGGGAGCCCAAA 61.838 60.000 6.34 0.00 35.37 3.28
621 1378 2.203938 AAGAGGTCGGGAGCCCAA 60.204 61.111 6.34 0.00 35.37 4.12
622 1379 2.683933 GAAGAGGTCGGGAGCCCA 60.684 66.667 6.34 0.00 35.37 5.36
623 1380 2.683933 TGAAGAGGTCGGGAGCCC 60.684 66.667 0.00 0.00 0.00 5.19
624 1381 1.545706 AAGTGAAGAGGTCGGGAGCC 61.546 60.000 0.00 0.00 0.00 4.70
625 1382 0.321996 AAAGTGAAGAGGTCGGGAGC 59.678 55.000 0.00 0.00 0.00 4.70
626 1383 2.094130 GGTAAAGTGAAGAGGTCGGGAG 60.094 54.545 0.00 0.00 0.00 4.30
627 1384 1.897802 GGTAAAGTGAAGAGGTCGGGA 59.102 52.381 0.00 0.00 0.00 5.14
628 1385 1.403780 CGGTAAAGTGAAGAGGTCGGG 60.404 57.143 0.00 0.00 0.00 5.14
629 1386 1.992170 CGGTAAAGTGAAGAGGTCGG 58.008 55.000 0.00 0.00 0.00 4.79
630 1387 1.347320 GCGGTAAAGTGAAGAGGTCG 58.653 55.000 0.00 0.00 0.00 4.79
631 1388 1.275573 AGGCGGTAAAGTGAAGAGGTC 59.724 52.381 0.00 0.00 0.00 3.85
632 1389 1.002087 CAGGCGGTAAAGTGAAGAGGT 59.998 52.381 0.00 0.00 0.00 3.85
633 1390 1.726853 CAGGCGGTAAAGTGAAGAGG 58.273 55.000 0.00 0.00 0.00 3.69
634 1391 1.079503 GCAGGCGGTAAAGTGAAGAG 58.920 55.000 0.00 0.00 0.00 2.85
635 1392 0.394938 TGCAGGCGGTAAAGTGAAGA 59.605 50.000 0.00 0.00 0.00 2.87
636 1393 0.517316 GTGCAGGCGGTAAAGTGAAG 59.483 55.000 0.00 0.00 0.00 3.02
637 1394 0.107831 AGTGCAGGCGGTAAAGTGAA 59.892 50.000 0.00 0.00 0.00 3.18
638 1395 0.320421 GAGTGCAGGCGGTAAAGTGA 60.320 55.000 0.00 0.00 0.00 3.41
639 1396 0.602638 TGAGTGCAGGCGGTAAAGTG 60.603 55.000 0.00 0.00 0.00 3.16
640 1397 0.602905 GTGAGTGCAGGCGGTAAAGT 60.603 55.000 0.00 0.00 0.00 2.66
641 1398 1.298859 GGTGAGTGCAGGCGGTAAAG 61.299 60.000 0.00 0.00 0.00 1.85
642 1399 1.302192 GGTGAGTGCAGGCGGTAAA 60.302 57.895 0.00 0.00 0.00 2.01
643 1400 2.345991 GGTGAGTGCAGGCGGTAA 59.654 61.111 0.00 0.00 0.00 2.85
644 1401 2.920384 TGGTGAGTGCAGGCGGTA 60.920 61.111 0.00 0.00 0.00 4.02
645 1402 4.626081 GTGGTGAGTGCAGGCGGT 62.626 66.667 0.00 0.00 0.00 5.68
646 1403 4.624364 TGTGGTGAGTGCAGGCGG 62.624 66.667 0.00 0.00 0.00 6.13
647 1404 3.349006 GTGTGGTGAGTGCAGGCG 61.349 66.667 0.00 0.00 0.00 5.52
648 1405 1.963338 GAGTGTGGTGAGTGCAGGC 60.963 63.158 0.00 0.00 0.00 4.85
649 1406 1.302033 GGAGTGTGGTGAGTGCAGG 60.302 63.158 0.00 0.00 0.00 4.85
650 1407 0.602106 CTGGAGTGTGGTGAGTGCAG 60.602 60.000 0.00 0.00 0.00 4.41
651 1408 1.048160 TCTGGAGTGTGGTGAGTGCA 61.048 55.000 0.00 0.00 0.00 4.57
652 1409 0.106708 TTCTGGAGTGTGGTGAGTGC 59.893 55.000 0.00 0.00 0.00 4.40
653 1410 1.875576 GCTTCTGGAGTGTGGTGAGTG 60.876 57.143 0.00 0.00 0.00 3.51
654 1411 0.394565 GCTTCTGGAGTGTGGTGAGT 59.605 55.000 0.00 0.00 0.00 3.41
655 1412 3.223661 GCTTCTGGAGTGTGGTGAG 57.776 57.895 0.00 0.00 0.00 3.51
1143 1909 2.283529 GGGGTCAGAGACGAGGCAA 61.284 63.158 0.00 0.00 32.65 4.52
1372 3418 1.228124 CCTGGTTGTGCTTCCCGAA 60.228 57.895 0.00 0.00 0.00 4.30
1518 3576 0.179134 GCGTGCCTATCAAGACGACT 60.179 55.000 0.00 0.00 33.64 4.18
1751 3842 1.410517 GTATCACAGCTAGCCTCTGCA 59.589 52.381 12.13 0.00 41.13 4.41
1775 3866 2.815211 CACCGATGTCCACTGGCG 60.815 66.667 0.00 0.00 0.00 5.69
1863 3972 2.165437 GCTCCATATTTGGGCGTTGAAA 59.835 45.455 2.06 0.00 43.81 2.69
1989 4110 3.514309 CAGCCAACCCTAGTAACAGTAGT 59.486 47.826 0.00 0.00 0.00 2.73
1993 4114 2.093447 CCTCAGCCAACCCTAGTAACAG 60.093 54.545 0.00 0.00 0.00 3.16
2087 4208 3.688673 CCAGAAGCTGATCTTGGAAAGTC 59.311 47.826 0.00 0.00 38.33 3.01
2097 4218 1.202510 AGATGACGCCAGAAGCTGATC 60.203 52.381 0.00 0.00 40.39 2.92
2115 4237 5.152623 AGACAGTTTCGAATGGATGAAGA 57.847 39.130 0.00 0.00 0.00 2.87
2160 4282 3.688694 TTTGTACGGGCAGAGTGTAAT 57.311 42.857 0.00 0.00 0.00 1.89
2199 4321 2.045926 GTGAGCAGCATTCCGGGT 60.046 61.111 0.00 0.00 0.00 5.28
2211 4333 3.424962 GCTTAACACGGAATGAAGTGAGC 60.425 47.826 2.42 0.00 40.56 4.26
2216 4338 5.856126 TGTTAGCTTAACACGGAATGAAG 57.144 39.130 0.00 0.00 43.23 3.02
2260 7421 6.864685 TCATCAAGCAGCAAAAGAAATAACTG 59.135 34.615 0.00 0.00 0.00 3.16
2317 7478 6.088173 CGACAGATGCAATGAAAGAAAATGA 58.912 36.000 9.10 0.00 0.00 2.57
2324 7485 4.340263 CATCACGACAGATGCAATGAAAG 58.660 43.478 9.10 3.07 38.98 2.62
2334 7495 7.602644 ACAACTACATAAAACATCACGACAGAT 59.397 33.333 0.00 0.00 0.00 2.90
2335 7496 6.926826 ACAACTACATAAAACATCACGACAGA 59.073 34.615 0.00 0.00 0.00 3.41
2340 7501 7.015289 CCAGAACAACTACATAAAACATCACG 58.985 38.462 0.00 0.00 0.00 4.35
2356 7517 6.364976 CGAATATTTTTCCAACCCAGAACAAC 59.635 38.462 0.00 0.00 0.00 3.32
2365 7526 6.526674 CACTGCTAACGAATATTTTTCCAACC 59.473 38.462 0.00 0.00 0.00 3.77
2388 7549 3.729862 AACTAAGCTAGATACCGGCAC 57.270 47.619 0.00 0.00 0.00 5.01
2389 7550 4.891756 ACTTAACTAAGCTAGATACCGGCA 59.108 41.667 0.00 0.00 36.79 5.69
2390 7551 5.221130 CACTTAACTAAGCTAGATACCGGC 58.779 45.833 0.00 0.00 36.79 6.13
2391 7552 6.039047 TGACACTTAACTAAGCTAGATACCGG 59.961 42.308 0.00 0.00 36.79 5.28
2392 7553 7.024340 TGACACTTAACTAAGCTAGATACCG 57.976 40.000 0.00 0.00 36.79 4.02
2393 7554 8.630917 TGATGACACTTAACTAAGCTAGATACC 58.369 37.037 0.00 0.00 36.79 2.73
2429 7590 2.953161 ATACACATCGCCTGGGTACAGA 60.953 50.000 2.54 0.00 46.35 3.41
2468 7629 8.481492 TGGCAATGATAATTATTCACAGGAAT 57.519 30.769 0.00 0.00 45.50 3.01
2469 7630 7.894753 TGGCAATGATAATTATTCACAGGAA 57.105 32.000 0.00 0.00 37.45 3.36
2471 7632 7.601130 CCAATGGCAATGATAATTATTCACAGG 59.399 37.037 3.60 0.00 0.00 4.00
2481 7642 7.005902 TCACATAGTCCAATGGCAATGATAAT 58.994 34.615 3.60 0.00 0.00 1.28
2509 7670 5.656859 TGATAGAGGCAGTTTGCTAGACTTA 59.343 40.000 0.00 0.00 44.28 2.24
2555 7716 8.519526 GGTTCTTGGTGTTAATTGTATCATTGA 58.480 33.333 0.00 0.00 0.00 2.57
2562 7723 7.994334 AGTACTTGGTTCTTGGTGTTAATTGTA 59.006 33.333 0.00 0.00 0.00 2.41
2588 7749 8.851145 TGGCATTTAGTTCAGTTATTACACAAA 58.149 29.630 0.00 0.00 0.00 2.83
2626 7787 1.870402 CCGCGGTGCATATGTGAATAA 59.130 47.619 19.50 0.00 0.00 1.40
2659 7851 9.599866 TTACAACTGTTATGTATCTCATCTTGG 57.400 33.333 0.00 0.00 37.91 3.61
2754 7948 8.976986 CAGAAATATAACTTGCTTTCTGCTTT 57.023 30.769 9.97 0.00 44.22 3.51
2819 8013 3.123959 GCAAGTCGCTGTTACGGATTTAA 59.876 43.478 0.00 0.00 37.77 1.52
2894 8088 1.208052 GGACTTGATACTGGCAGCAGA 59.792 52.381 15.89 0.00 0.00 4.26
2904 8098 3.129287 CCTGGTGCAAATGGACTTGATAC 59.871 47.826 5.04 0.00 36.56 2.24
2922 8116 7.010552 CGAAGTCAGTTCATTATAAAGTCCTGG 59.989 40.741 0.00 0.00 34.44 4.45
2948 8142 5.751243 ACATTCGGCCTGAATTATGTAAC 57.249 39.130 16.81 0.00 45.06 2.50
2951 8145 5.376625 ACATACATTCGGCCTGAATTATGT 58.623 37.500 25.88 25.88 45.06 2.29
2989 8184 7.009265 GCAACAGATGTGATCATGAAAATTCAG 59.991 37.037 0.00 0.00 41.08 3.02
2996 8191 5.104817 TCCTAGCAACAGATGTGATCATGAA 60.105 40.000 0.00 0.00 34.06 2.57
3027 8222 8.530311 ACAAAAATAATGGAATATGCTCACACA 58.470 29.630 0.00 0.00 0.00 3.72
3044 8239 4.111198 CGCTGCATGCCATACAAAAATAA 58.889 39.130 16.68 0.00 38.78 1.40
3059 8254 6.058183 AGAATTATTCTTAACCTCGCTGCAT 58.942 36.000 0.99 0.00 36.36 3.96
3064 8259 6.924060 TCAGCTAGAATTATTCTTAACCTCGC 59.076 38.462 13.00 5.31 41.14 5.03
3088 8283 6.992063 TTGGCTAATCAGATGAAAGAAGTC 57.008 37.500 0.00 0.00 0.00 3.01
3117 8312 7.955324 CGTAAAAATGTAGAACATGTACACTGG 59.045 37.037 0.00 0.00 37.97 4.00
3118 8313 8.705134 TCGTAAAAATGTAGAACATGTACACTG 58.295 33.333 0.00 0.52 37.97 3.66
3157 8352 9.466497 TCAAAGCATATTCCTCAAAAGAGTATT 57.534 29.630 0.00 0.00 0.00 1.89
3165 8360 8.587608 AGTCAAATTCAAAGCATATTCCTCAAA 58.412 29.630 0.00 0.00 0.00 2.69
3166 8361 8.125978 AGTCAAATTCAAAGCATATTCCTCAA 57.874 30.769 0.00 0.00 0.00 3.02
3167 8362 7.707624 AGTCAAATTCAAAGCATATTCCTCA 57.292 32.000 0.00 0.00 0.00 3.86
3170 8365 9.807649 ACATTAGTCAAATTCAAAGCATATTCC 57.192 29.630 0.00 0.00 0.00 3.01
3187 8382 4.055360 CAGGTTCGACACAACATTAGTCA 58.945 43.478 0.00 0.00 32.68 3.41
3223 8418 2.224161 ACAGAGTCAGAGGTGCAGTTTC 60.224 50.000 0.00 0.00 0.00 2.78
3227 8422 0.964700 TCACAGAGTCAGAGGTGCAG 59.035 55.000 0.00 0.00 0.00 4.41
3232 8427 3.763360 AGATGAACTCACAGAGTCAGAGG 59.237 47.826 0.00 0.00 42.59 3.69
3233 8428 4.458642 TCAGATGAACTCACAGAGTCAGAG 59.541 45.833 0.00 0.00 42.59 3.35
3234 8429 4.401925 TCAGATGAACTCACAGAGTCAGA 58.598 43.478 0.00 0.00 42.59 3.27
3235 8430 4.780275 TCAGATGAACTCACAGAGTCAG 57.220 45.455 0.00 0.00 42.59 3.51
3236 8431 5.735285 ATTCAGATGAACTCACAGAGTCA 57.265 39.130 0.00 1.72 42.59 3.41
3237 8432 7.715657 AGATATTCAGATGAACTCACAGAGTC 58.284 38.462 0.00 0.00 42.59 3.36
3238 8433 7.201902 GGAGATATTCAGATGAACTCACAGAGT 60.202 40.741 11.52 0.00 45.64 3.24
3239 8434 7.014518 AGGAGATATTCAGATGAACTCACAGAG 59.985 40.741 11.52 0.00 36.80 3.35
3250 8445 5.374921 AGGCAACAAGGAGATATTCAGATG 58.625 41.667 0.00 0.00 41.41 2.90
3261 8456 5.096443 AGATAAGAGAAGGCAACAAGGAG 57.904 43.478 0.00 0.00 41.41 3.69
3268 8463 6.374417 AACCAAGTAGATAAGAGAAGGCAA 57.626 37.500 0.00 0.00 0.00 4.52


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

AutoCloner maintained by Alex Coulton.