Multiple sequence alignment - TraesCS1B01G261200

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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 TraesCS1B01G261200 chr1B 100.000 3410 0 0 1 3410 458730227 458726818 0.000000e+00 6298.0
1 TraesCS1B01G261200 chr1D 92.667 1691 91 20 793 2464 342492468 342490792 0.000000e+00 2405.0
2 TraesCS1B01G261200 chr1D 90.074 947 64 14 2473 3410 342490724 342489799 0.000000e+00 1201.0
3 TraesCS1B01G261200 chr1D 93.519 108 7 0 28 135 342495437 342495330 9.790000e-36 161.0
4 TraesCS1B01G261200 chr1D 100.000 30 0 0 1 30 342495475 342495446 4.750000e-04 56.5
5 TraesCS1B01G261200 chr1A 92.809 1627 96 11 853 2464 442157829 442156209 0.000000e+00 2337.0
6 TraesCS1B01G261200 chr1A 91.020 902 51 11 2518 3410 442156096 442155216 0.000000e+00 1190.0
7 TraesCS1B01G261200 chr6D 84.155 284 41 1 316 595 18495299 18495582 4.340000e-69 272.0
8 TraesCS1B01G261200 chr4A 82.562 281 43 3 316 590 110641490 110641210 3.400000e-60 243.0
9 TraesCS1B01G261200 chr5A 82.963 270 40 3 316 579 643553591 643553322 4.400000e-59 239.0
10 TraesCS1B01G261200 chr5A 81.469 286 47 4 316 595 697599078 697598793 2.650000e-56 230.0
11 TraesCS1B01G261200 chr7B 82.657 271 42 3 316 581 740073810 740074080 5.690000e-58 235.0
12 TraesCS1B01G261200 chr2D 81.818 286 46 4 316 595 344349535 344349820 5.690000e-58 235.0
13 TraesCS1B01G261200 chr2A 81.597 288 46 5 316 596 738969503 738969216 7.360000e-57 231.0
14 TraesCS1B01G261200 chr2A 81.985 272 43 3 316 581 42796603 42796874 3.420000e-55 226.0
15 TraesCS1B01G261200 chr5D 80.986 284 50 3 316 595 351801537 351801820 4.430000e-54 222.0
16 TraesCS1B01G261200 chr7A 71.812 447 91 29 1875 2308 622372569 622372145 1.010000e-15 95.3
17 TraesCS1B01G261200 chr2B 100.000 29 0 0 195 223 782438044 782438016 2.000000e-03 54.7


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 TraesCS1B01G261200 chr1B 458726818 458730227 3409 True 6298.000 6298 100.0000 1 3410 1 chr1B.!!$R1 3409
1 TraesCS1B01G261200 chr1D 342489799 342495475 5676 True 955.875 2405 94.0650 1 3410 4 chr1D.!!$R1 3409
2 TraesCS1B01G261200 chr1A 442155216 442157829 2613 True 1763.500 2337 91.9145 853 3410 2 chr1A.!!$R1 2557

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
842 3180 0.370273 GGTGTGAGCGACTTATTGCG 59.63 55.0 0.0 0.0 40.58 4.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2456 4819 0.64382 GCTCGTACGTACAATGTGGC 59.356 55.0 24.5 14.03 0.0 5.01 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
73 85 8.462589 TGTCCAATACGTAGGTACATATTACA 57.537 34.615 0.08 0.00 0.00 2.41
97 109 6.548441 TGCTAACATGCTAACGTAAAAACT 57.452 33.333 0.00 0.00 0.00 2.66
135 147 8.415553 CCTTTATTATTCTGATCAAATGGTGCA 58.584 33.333 0.00 0.00 0.00 4.57
157 823 9.265938 GTGCAAATAATATAGCATATGTGAACG 57.734 33.333 4.29 0.00 39.43 3.95
171 837 1.578023 GTGAACGAACGTGATAGCTCG 59.422 52.381 0.24 0.24 36.01 5.03
191 857 6.418226 AGCTCGTTTATCGCTTGTCTTATAAG 59.582 38.462 6.11 6.11 39.67 1.73
307 974 9.187455 TGAGTTGTTTGACTGTTTTACTTTTTC 57.813 29.630 0.00 0.00 0.00 2.29
308 975 9.406828 GAGTTGTTTGACTGTTTTACTTTTTCT 57.593 29.630 0.00 0.00 0.00 2.52
346 1016 7.969536 ACATAATAAAGACATAAGCGCTCAT 57.030 32.000 12.06 0.00 0.00 2.90
349 1019 6.453643 AATAAAGACATAAGCGCTCATACG 57.546 37.500 12.06 0.00 0.00 3.06
354 1024 2.987149 ACATAAGCGCTCATACGTATGC 59.013 45.455 27.23 17.31 33.76 3.14
376 1046 3.393800 GCATACGCACACCTCTATGAAT 58.606 45.455 0.00 0.00 38.36 2.57
384 1054 3.943381 CACACCTCTATGAATGCACACAT 59.057 43.478 11.30 11.30 38.49 3.21
387 1057 5.104776 ACACCTCTATGAATGCACACATACT 60.105 40.000 9.63 0.00 34.62 2.12
389 1059 5.365025 ACCTCTATGAATGCACACATACTCT 59.635 40.000 9.63 0.00 34.62 3.24
390 1060 5.695363 CCTCTATGAATGCACACATACTCTG 59.305 44.000 9.63 3.04 34.62 3.35
391 1061 6.225981 TCTATGAATGCACACATACTCTGT 57.774 37.500 9.63 0.00 39.20 3.41
393 1063 3.599343 TGAATGCACACATACTCTGTCC 58.401 45.455 0.00 0.00 35.29 4.02
397 1071 4.882842 TGCACACATACTCTGTCCTTAA 57.117 40.909 0.00 0.00 35.29 1.85
412 1086 2.631062 TCCTTAAGAGCACCTTCGACAA 59.369 45.455 3.36 0.00 36.34 3.18
416 1090 1.871080 AGAGCACCTTCGACAAACTG 58.129 50.000 0.00 0.00 0.00 3.16
419 1093 1.139058 AGCACCTTCGACAAACTGAGT 59.861 47.619 0.00 0.00 0.00 3.41
437 1111 3.006217 TGAGTCGGCATATCATCTTGAGG 59.994 47.826 0.00 0.00 0.00 3.86
443 1117 5.056480 CGGCATATCATCTTGAGGTTTACA 58.944 41.667 0.00 0.00 0.00 2.41
450 1124 9.911788 ATATCATCTTGAGGTTTACAAAGTCAT 57.088 29.630 0.00 0.00 0.00 3.06
452 1126 7.223584 TCATCTTGAGGTTTACAAAGTCATCA 58.776 34.615 0.00 0.00 0.00 3.07
456 1130 7.824289 TCTTGAGGTTTACAAAGTCATCATAGG 59.176 37.037 0.00 0.00 0.00 2.57
463 1137 1.123077 AAGTCATCATAGGCGCCTCA 58.877 50.000 36.73 19.27 0.00 3.86
472 1146 0.464916 TAGGCGCCTCATAGTCGACA 60.465 55.000 36.73 8.49 32.86 4.35
473 1147 1.299468 GGCGCCTCATAGTCGACAG 60.299 63.158 22.15 5.96 0.00 3.51
514 1188 2.600388 CGCATCGCCGGAAATTCTA 58.400 52.632 5.05 0.00 0.00 2.10
527 1201 7.468084 CGCCGGAAATTCTAAAATAAATCCAGA 60.468 37.037 5.05 0.00 0.00 3.86
541 1215 5.581126 AAATCCAGAAATAATGCGAGCAA 57.419 34.783 0.57 0.00 0.00 3.91
591 1265 2.030027 TCACTGTCCCTCTCACCATT 57.970 50.000 0.00 0.00 0.00 3.16
606 1280 2.480224 CCATTCAATGCATGGTCGTC 57.520 50.000 0.00 0.00 37.07 4.20
612 1286 4.406648 TCAATGCATGGTCGTCTATTCT 57.593 40.909 0.00 0.00 0.00 2.40
626 1300 5.921976 TCGTCTATTCTTTAAAACTGCGTGA 59.078 36.000 0.00 0.00 0.00 4.35
629 1303 4.806342 ATTCTTTAAAACTGCGTGACGT 57.194 36.364 6.91 0.00 0.00 4.34
642 1316 5.800941 ACTGCGTGACGTAAAAATTCAAAAA 59.199 32.000 6.91 0.00 0.00 1.94
651 1325 9.697250 GACGTAAAAATTCAAAAAGAAAAAGGG 57.303 29.630 0.00 0.00 40.22 3.95
652 1326 9.221933 ACGTAAAAATTCAAAAAGAAAAAGGGT 57.778 25.926 0.00 0.00 40.22 4.34
653 1327 9.697250 CGTAAAAATTCAAAAAGAAAAAGGGTC 57.303 29.630 0.00 0.00 40.22 4.46
656 1330 8.862325 AAAATTCAAAAAGAAAAAGGGTCTGT 57.138 26.923 0.00 0.00 40.22 3.41
657 1331 8.492673 AAATTCAAAAAGAAAAAGGGTCTGTC 57.507 30.769 0.00 0.00 40.22 3.51
658 1332 5.592104 TCAAAAAGAAAAAGGGTCTGTCC 57.408 39.130 0.00 0.00 0.00 4.02
659 1333 5.020132 TCAAAAAGAAAAAGGGTCTGTCCA 58.980 37.500 0.00 0.00 38.11 4.02
660 1334 5.105513 TCAAAAAGAAAAAGGGTCTGTCCAC 60.106 40.000 0.00 0.00 38.11 4.02
661 1335 3.953542 AAGAAAAAGGGTCTGTCCACT 57.046 42.857 0.00 0.00 38.11 4.00
662 1336 3.214696 AGAAAAAGGGTCTGTCCACTG 57.785 47.619 0.00 0.00 38.11 3.66
663 1337 2.509964 AGAAAAAGGGTCTGTCCACTGT 59.490 45.455 0.00 0.00 38.11 3.55
664 1338 2.348411 AAAAGGGTCTGTCCACTGTG 57.652 50.000 0.00 0.00 38.11 3.66
665 1339 1.213296 AAAGGGTCTGTCCACTGTGT 58.787 50.000 7.08 0.00 38.11 3.72
666 1340 1.213296 AAGGGTCTGTCCACTGTGTT 58.787 50.000 7.08 0.00 38.11 3.32
667 1341 1.213296 AGGGTCTGTCCACTGTGTTT 58.787 50.000 7.08 0.00 38.11 2.83
668 1342 1.134098 AGGGTCTGTCCACTGTGTTTG 60.134 52.381 7.08 0.00 38.11 2.93
669 1343 1.408266 GGGTCTGTCCACTGTGTTTGT 60.408 52.381 7.08 0.00 38.11 2.83
670 1344 1.670811 GGTCTGTCCACTGTGTTTGTG 59.329 52.381 7.08 0.00 35.97 3.33
714 1388 3.305398 TTTTGTTCCTTGTTGTTGCGT 57.695 38.095 0.00 0.00 0.00 5.24
715 1389 2.270275 TTGTTCCTTGTTGTTGCGTG 57.730 45.000 0.00 0.00 0.00 5.34
716 1390 1.454201 TGTTCCTTGTTGTTGCGTGA 58.546 45.000 0.00 0.00 0.00 4.35
717 1391 2.020720 TGTTCCTTGTTGTTGCGTGAT 58.979 42.857 0.00 0.00 0.00 3.06
718 1392 2.223456 TGTTCCTTGTTGTTGCGTGATG 60.223 45.455 0.00 0.00 0.00 3.07
719 1393 1.674359 TCCTTGTTGTTGCGTGATGT 58.326 45.000 0.00 0.00 0.00 3.06
720 1394 1.333308 TCCTTGTTGTTGCGTGATGTG 59.667 47.619 0.00 0.00 0.00 3.21
721 1395 1.333308 CCTTGTTGTTGCGTGATGTGA 59.667 47.619 0.00 0.00 0.00 3.58
722 1396 2.375110 CTTGTTGTTGCGTGATGTGAC 58.625 47.619 0.00 0.00 0.00 3.67
723 1397 1.373570 TGTTGTTGCGTGATGTGACA 58.626 45.000 0.00 0.00 0.00 3.58
724 1398 1.946081 TGTTGTTGCGTGATGTGACAT 59.054 42.857 0.00 0.00 0.00 3.06
725 1399 2.032117 TGTTGTTGCGTGATGTGACATC 60.032 45.455 18.25 18.25 0.00 3.06
726 1400 2.168326 TGTTGCGTGATGTGACATCT 57.832 45.000 24.31 0.00 0.00 2.90
727 1401 2.493035 TGTTGCGTGATGTGACATCTT 58.507 42.857 24.31 0.00 0.00 2.40
728 1402 2.877786 TGTTGCGTGATGTGACATCTTT 59.122 40.909 24.31 0.00 0.00 2.52
729 1403 4.061596 TGTTGCGTGATGTGACATCTTTA 58.938 39.130 24.31 3.63 0.00 1.85
730 1404 4.152223 TGTTGCGTGATGTGACATCTTTAG 59.848 41.667 24.31 14.16 0.00 1.85
731 1405 4.186856 TGCGTGATGTGACATCTTTAGA 57.813 40.909 24.31 2.89 0.00 2.10
732 1406 4.565022 TGCGTGATGTGACATCTTTAGAA 58.435 39.130 24.31 6.88 0.00 2.10
733 1407 4.994217 TGCGTGATGTGACATCTTTAGAAA 59.006 37.500 24.31 1.44 0.00 2.52
734 1408 5.468409 TGCGTGATGTGACATCTTTAGAAAA 59.532 36.000 24.31 0.71 0.00 2.29
735 1409 5.790495 GCGTGATGTGACATCTTTAGAAAAC 59.210 40.000 24.31 11.66 0.00 2.43
736 1410 6.565811 GCGTGATGTGACATCTTTAGAAAACA 60.566 38.462 24.31 0.00 0.00 2.83
737 1411 7.521529 CGTGATGTGACATCTTTAGAAAACAT 58.478 34.615 24.31 0.00 0.00 2.71
738 1412 7.689812 CGTGATGTGACATCTTTAGAAAACATC 59.310 37.037 24.31 14.24 41.79 3.06
739 1413 8.725148 GTGATGTGACATCTTTAGAAAACATCT 58.275 33.333 24.31 0.00 41.90 2.90
740 1414 9.942850 TGATGTGACATCTTTAGAAAACATCTA 57.057 29.630 24.31 0.00 41.90 1.98
742 1416 9.725019 ATGTGACATCTTTAGAAAACATCTACA 57.275 29.630 0.00 0.00 40.38 2.74
743 1417 8.988934 TGTGACATCTTTAGAAAACATCTACAC 58.011 33.333 0.00 0.00 40.38 2.90
744 1418 8.162880 GTGACATCTTTAGAAAACATCTACACG 58.837 37.037 0.00 0.00 40.38 4.49
745 1419 7.870954 TGACATCTTTAGAAAACATCTACACGT 59.129 33.333 0.00 0.00 40.38 4.49
746 1420 8.018677 ACATCTTTAGAAAACATCTACACGTG 57.981 34.615 15.48 15.48 40.38 4.49
747 1421 7.870954 ACATCTTTAGAAAACATCTACACGTGA 59.129 33.333 25.01 4.97 40.38 4.35
748 1422 8.708742 CATCTTTAGAAAACATCTACACGTGAA 58.291 33.333 25.01 7.56 40.38 3.18
749 1423 8.827177 TCTTTAGAAAACATCTACACGTGAAT 57.173 30.769 25.01 9.72 40.38 2.57
750 1424 9.268268 TCTTTAGAAAACATCTACACGTGAATT 57.732 29.630 25.01 1.74 40.38 2.17
753 1427 9.917129 TTAGAAAACATCTACACGTGAATTAGA 57.083 29.630 25.01 18.75 40.38 2.10
754 1428 8.240883 AGAAAACATCTACACGTGAATTAGAC 57.759 34.615 25.01 6.15 36.32 2.59
755 1429 7.870954 AGAAAACATCTACACGTGAATTAGACA 59.129 33.333 25.01 0.00 36.32 3.41
756 1430 7.956420 AAACATCTACACGTGAATTAGACAA 57.044 32.000 25.01 0.00 0.00 3.18
757 1431 7.956420 AACATCTACACGTGAATTAGACAAA 57.044 32.000 25.01 0.00 0.00 2.83
758 1432 7.347508 ACATCTACACGTGAATTAGACAAAC 57.652 36.000 25.01 0.00 0.00 2.93
759 1433 6.367969 ACATCTACACGTGAATTAGACAAACC 59.632 38.462 25.01 0.00 0.00 3.27
760 1434 4.919168 TCTACACGTGAATTAGACAAACCG 59.081 41.667 25.01 0.00 0.00 4.44
761 1435 3.719924 ACACGTGAATTAGACAAACCGA 58.280 40.909 25.01 0.00 0.00 4.69
766 1440 4.148891 GTGAATTAGACAAACCGAAAGCG 58.851 43.478 0.00 0.00 37.24 4.68
770 1444 1.721133 GACAAACCGAAAGCGTGCG 60.721 57.895 0.00 0.00 35.23 5.34
808 3146 7.329226 CGCCAGAAATAACAAAAATTCATCAGT 59.671 33.333 0.00 0.00 0.00 3.41
809 3147 9.638239 GCCAGAAATAACAAAAATTCATCAGTA 57.362 29.630 0.00 0.00 0.00 2.74
842 3180 0.370273 GGTGTGAGCGACTTATTGCG 59.630 55.000 0.00 0.00 40.58 4.85
958 3298 5.892160 ACCGCACTCGTGTATATATGTAT 57.108 39.130 0.00 0.00 0.00 2.29
964 3307 6.633234 GCACTCGTGTATATATGTATGGATCG 59.367 42.308 0.00 0.00 0.00 3.69
992 3335 1.895966 GGGGGTACGAAGAGGACAC 59.104 63.158 0.00 0.00 0.00 3.67
1097 3443 4.436368 GGTCTCACCTTCGGAGGA 57.564 61.111 19.39 0.00 46.74 3.71
1197 3543 1.547372 ACCGGAATACTGCGTTACACT 59.453 47.619 9.46 0.00 34.01 3.55
1295 3647 0.738389 GGTACATGTCCATTTGCCGG 59.262 55.000 0.00 0.00 0.00 6.13
1302 3657 1.279558 TGTCCATTTGCCGGCTAGTAA 59.720 47.619 29.70 16.35 0.00 2.24
1315 3671 3.187227 CGGCTAGTAAAATGCATGCTAGG 59.813 47.826 20.33 0.36 34.74 3.02
1316 3672 3.057946 GGCTAGTAAAATGCATGCTAGGC 60.058 47.826 24.30 24.30 45.88 3.93
1317 3673 3.817647 GCTAGTAAAATGCATGCTAGGCT 59.182 43.478 20.33 11.48 34.74 4.58
1318 3674 4.320057 GCTAGTAAAATGCATGCTAGGCTG 60.320 45.833 20.33 2.37 34.74 4.85
1362 3718 0.311790 AGCGAGCATTTGTGGTTGTG 59.688 50.000 0.00 0.00 0.00 3.33
1363 3719 1.277495 GCGAGCATTTGTGGTTGTGC 61.277 55.000 0.00 0.00 37.84 4.57
1405 3761 1.091771 CGCTGCTCAACCCATACCTG 61.092 60.000 0.00 0.00 0.00 4.00
1447 3803 4.659480 GGTGTCAACTTCGCCGTA 57.341 55.556 0.00 0.00 0.00 4.02
1591 3953 1.379977 CCCTCGAGGTCTACTGCCA 60.380 63.158 29.25 0.00 0.00 4.92
1615 3977 4.759782 TCACCTTCTCATTAAGCTACTGC 58.240 43.478 0.00 0.00 40.05 4.40
1670 4033 7.435192 AGCTGATGCAAAAAGTTAACTTTGTAC 59.565 33.333 29.33 20.87 42.45 2.90
1671 4034 7.435192 GCTGATGCAAAAAGTTAACTTTGTACT 59.565 33.333 29.33 14.34 41.31 2.73
1757 4120 2.095364 ACAACTACGTCTTCCTACAGCG 60.095 50.000 0.00 0.00 0.00 5.18
1761 4124 2.882876 GTCTTCCTACAGCGCCGA 59.117 61.111 2.29 0.00 0.00 5.54
1762 4125 1.226717 GTCTTCCTACAGCGCCGAG 60.227 63.158 2.29 0.00 0.00 4.63
1770 4133 4.514577 CAGCGCCGAGGGACGAAT 62.515 66.667 2.29 0.00 45.77 3.34
1779 4142 3.090037 CCGAGGGACGAATGGTAGATAT 58.910 50.000 0.00 0.00 45.77 1.63
1953 4316 2.193532 CTTGCCGAGCTACCTGAGA 58.806 57.895 0.00 0.00 0.00 3.27
2133 4496 0.824182 CCGCCTACCTCGAGATCCTT 60.824 60.000 15.71 0.00 0.00 3.36
2222 4585 3.120649 GGCGGCGCTTATAACTTTGATAG 60.121 47.826 32.30 0.00 0.00 2.08
2223 4586 3.493503 GCGGCGCTTATAACTTTGATAGT 59.506 43.478 26.86 0.00 39.32 2.12
2226 4589 6.128634 GCGGCGCTTATAACTTTGATAGTAAT 60.129 38.462 26.86 0.00 35.54 1.89
2434 4797 2.052590 CGTCACGTTTGTTGGCGG 60.053 61.111 0.00 0.00 0.00 6.13
2456 4819 2.722201 GGGCCTCCGACTGGTGTAG 61.722 68.421 0.84 0.00 36.30 2.74
2464 4827 1.078709 CGACTGGTGTAGCCACATTG 58.921 55.000 0.00 0.00 43.61 2.82
2465 4828 1.608025 CGACTGGTGTAGCCACATTGT 60.608 52.381 0.00 0.00 43.61 2.71
2466 4829 2.353307 CGACTGGTGTAGCCACATTGTA 60.353 50.000 0.00 0.00 43.61 2.41
2467 4830 3.000727 GACTGGTGTAGCCACATTGTAC 58.999 50.000 0.00 0.00 43.61 2.90
2469 4832 1.345089 TGGTGTAGCCACATTGTACGT 59.655 47.619 0.00 0.00 43.61 3.57
2471 4834 2.925563 GGTGTAGCCACATTGTACGTAC 59.074 50.000 18.90 18.90 43.71 3.67
2481 4903 1.973138 TTGTACGTACGAGCTGCTTC 58.027 50.000 24.41 0.00 0.00 3.86
2483 4905 1.538512 TGTACGTACGAGCTGCTTCTT 59.461 47.619 24.41 0.00 0.00 2.52
2485 4907 1.419374 ACGTACGAGCTGCTTCTTTG 58.581 50.000 24.41 0.00 0.00 2.77
2545 5011 1.672441 GCTCTGCTTCACCTGTCTCTG 60.672 57.143 0.00 0.00 0.00 3.35
2552 5018 3.742640 GCTTCACCTGTCTCTGTTCAGTT 60.743 47.826 0.00 0.00 0.00 3.16
2563 5029 0.531753 TGTTCAGTTACGCAGCTGCA 60.532 50.000 36.03 17.26 42.21 4.41
2577 5043 0.655733 GCTGCATGCGTACCGTTTAT 59.344 50.000 14.09 0.00 0.00 1.40
2642 5108 6.913873 AATATTTGCCAGATTTTGCATGAC 57.086 33.333 0.00 0.00 37.33 3.06
2733 5203 5.642686 TCGACATGTTATGTAATCGTCACA 58.357 37.500 0.00 0.00 45.03 3.58
2734 5204 6.094061 TCGACATGTTATGTAATCGTCACAA 58.906 36.000 0.00 0.00 45.03 3.33
2772 5243 4.249020 CACCGCAAGCGCACACAA 62.249 61.111 11.47 0.00 38.40 3.33
2780 5251 1.724582 AAGCGCACACAAACCCTGAC 61.725 55.000 11.47 0.00 0.00 3.51
2790 5261 2.669777 AAACCCTGACAACCCCGACG 62.670 60.000 0.00 0.00 0.00 5.12
2792 5263 4.308458 CCTGACAACCCCGACGCA 62.308 66.667 0.00 0.00 0.00 5.24
2815 5286 6.923508 GCAGTAGCACATATAATCCGCATATA 59.076 38.462 0.00 0.00 41.58 0.86
2816 5287 7.600375 GCAGTAGCACATATAATCCGCATATAT 59.400 37.037 0.00 0.00 41.58 0.86
2817 5288 9.481340 CAGTAGCACATATAATCCGCATATATT 57.519 33.333 0.00 0.00 0.00 1.28
2820 5291 8.370493 AGCACATATAATCCGCATATATTCAC 57.630 34.615 0.00 0.00 0.00 3.18
2821 5292 7.986889 AGCACATATAATCCGCATATATTCACA 59.013 33.333 0.00 0.00 0.00 3.58
2822 5293 8.777413 GCACATATAATCCGCATATATTCACAT 58.223 33.333 0.00 0.00 0.00 3.21
2827 5298 6.486253 AATCCGCATATATTCACATCACAC 57.514 37.500 0.00 0.00 0.00 3.82
2828 5299 3.987220 TCCGCATATATTCACATCACACG 59.013 43.478 0.00 0.00 0.00 4.49
2829 5300 3.423515 CCGCATATATTCACATCACACGC 60.424 47.826 0.00 0.00 0.00 5.34
2830 5301 3.184178 CGCATATATTCACATCACACGCA 59.816 43.478 0.00 0.00 0.00 5.24
2831 5302 4.457810 GCATATATTCACATCACACGCAC 58.542 43.478 0.00 0.00 0.00 5.34
2832 5303 4.024977 GCATATATTCACATCACACGCACA 60.025 41.667 0.00 0.00 0.00 4.57
2833 5304 5.434706 CATATATTCACATCACACGCACAC 58.565 41.667 0.00 0.00 0.00 3.82
2834 5305 1.592064 ATTCACATCACACGCACACA 58.408 45.000 0.00 0.00 0.00 3.72
2835 5306 0.655208 TTCACATCACACGCACACAC 59.345 50.000 0.00 0.00 0.00 3.82
2836 5307 1.083465 CACATCACACGCACACACG 60.083 57.895 0.00 0.00 39.50 4.49
2837 5308 2.127646 CATCACACGCACACACGC 60.128 61.111 0.00 0.00 36.19 5.34
2838 5309 2.587473 ATCACACGCACACACGCA 60.587 55.556 0.00 0.00 36.19 5.24
2839 5310 2.881266 ATCACACGCACACACGCAC 61.881 57.895 0.00 0.00 36.19 5.34
2840 5311 3.563088 CACACGCACACACGCACT 61.563 61.111 0.00 0.00 36.19 4.40
2919 5399 2.680352 ACACTCCATCGACGGCCT 60.680 61.111 0.00 0.00 0.00 5.19
2959 5442 2.439507 GACCCTTGCTCTGATTCCCATA 59.560 50.000 0.00 0.00 0.00 2.74
2968 5451 1.688735 CTGATTCCCATAGGCGTCTGA 59.311 52.381 0.00 0.00 0.00 3.27
3071 5556 4.360027 CGCGCTGCACACACAGAC 62.360 66.667 5.56 0.00 40.25 3.51
3096 5581 2.480759 CCGCGTTAGCTAGGTTACACAT 60.481 50.000 4.92 0.00 42.32 3.21
3110 5595 4.323485 GGTTACACATGGACAAGAGATGGA 60.323 45.833 0.00 0.00 0.00 3.41
3111 5596 3.340814 ACACATGGACAAGAGATGGAC 57.659 47.619 0.00 0.00 0.00 4.02
3137 5622 6.758886 ACGACAGATTCTCCATTGATTTACTC 59.241 38.462 0.00 0.00 0.00 2.59
3190 5675 1.307097 GATGCTGATCTCCTTGCACC 58.693 55.000 0.00 0.00 38.29 5.01
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
73 85 7.141100 AGTTTTTACGTTAGCATGTTAGCAT 57.859 32.000 0.00 0.00 36.85 3.79
120 132 9.350357 GCTATATTATTTGCACCATTTGATCAG 57.650 33.333 0.00 0.00 0.00 2.90
128 140 9.465199 TCACATATGCTATATTATTTGCACCAT 57.535 29.630 1.58 0.00 38.29 3.55
151 817 1.578023 CGAGCTATCACGTTCGTTCAC 59.422 52.381 0.00 0.00 33.73 3.18
266 933 7.717436 TCAAACAACTCATAAACATGTACCTGA 59.283 33.333 0.00 1.36 0.00 3.86
267 934 7.803189 GTCAAACAACTCATAAACATGTACCTG 59.197 37.037 0.00 0.00 0.00 4.00
268 935 7.719633 AGTCAAACAACTCATAAACATGTACCT 59.280 33.333 0.00 0.00 0.00 3.08
269 936 7.803189 CAGTCAAACAACTCATAAACATGTACC 59.197 37.037 0.00 0.00 0.00 3.34
270 937 8.342634 ACAGTCAAACAACTCATAAACATGTAC 58.657 33.333 0.00 0.00 0.00 2.90
271 938 8.445275 ACAGTCAAACAACTCATAAACATGTA 57.555 30.769 0.00 0.00 0.00 2.29
272 939 7.333528 ACAGTCAAACAACTCATAAACATGT 57.666 32.000 0.00 0.00 0.00 3.21
273 940 8.633075 AAACAGTCAAACAACTCATAAACATG 57.367 30.769 0.00 0.00 0.00 3.21
281 948 9.187455 GAAAAAGTAAAACAGTCAAACAACTCA 57.813 29.630 0.00 0.00 0.00 3.41
327 997 5.529791 ACGTATGAGCGCTTATGTCTTTAT 58.470 37.500 23.64 0.00 34.88 1.40
330 1000 3.438297 ACGTATGAGCGCTTATGTCTT 57.562 42.857 23.64 8.33 34.88 3.01
335 1005 2.251040 CGCATACGTATGAGCGCTTAT 58.749 47.619 34.11 19.33 43.80 1.73
336 1006 1.681825 CGCATACGTATGAGCGCTTA 58.318 50.000 34.11 8.30 43.80 3.09
337 1007 2.506544 CGCATACGTATGAGCGCTT 58.493 52.632 34.11 0.00 43.80 4.68
361 1031 2.096496 GTGTGCATTCATAGAGGTGTGC 59.904 50.000 0.00 0.00 0.00 4.57
362 1032 3.337358 TGTGTGCATTCATAGAGGTGTG 58.663 45.455 0.00 0.00 0.00 3.82
363 1033 3.701205 TGTGTGCATTCATAGAGGTGT 57.299 42.857 0.00 0.00 0.00 4.16
364 1034 5.363101 AGTATGTGTGCATTCATAGAGGTG 58.637 41.667 12.05 0.00 36.58 4.00
384 1054 4.048970 AGGTGCTCTTAAGGACAGAGTA 57.951 45.455 1.85 0.00 45.06 2.59
387 1057 2.231478 CGAAGGTGCTCTTAAGGACAGA 59.769 50.000 1.85 0.00 45.06 3.41
389 1059 2.029290 GTCGAAGGTGCTCTTAAGGACA 60.029 50.000 1.85 0.00 45.06 4.02
390 1060 2.029290 TGTCGAAGGTGCTCTTAAGGAC 60.029 50.000 1.85 0.00 42.72 3.85
391 1061 2.244695 TGTCGAAGGTGCTCTTAAGGA 58.755 47.619 1.85 0.00 35.50 3.36
393 1063 4.058817 AGTTTGTCGAAGGTGCTCTTAAG 58.941 43.478 0.00 0.00 35.50 1.85
397 1071 1.412710 TCAGTTTGTCGAAGGTGCTCT 59.587 47.619 0.00 0.00 0.00 4.09
412 1086 4.100035 TCAAGATGATATGCCGACTCAGTT 59.900 41.667 0.00 0.00 0.00 3.16
416 1090 3.006323 ACCTCAAGATGATATGCCGACTC 59.994 47.826 0.00 0.00 0.00 3.36
419 1093 4.422073 AAACCTCAAGATGATATGCCGA 57.578 40.909 0.00 0.00 0.00 5.54
437 1111 4.495844 GGCGCCTATGATGACTTTGTAAAC 60.496 45.833 22.15 0.00 0.00 2.01
443 1117 1.486310 TGAGGCGCCTATGATGACTTT 59.514 47.619 32.97 1.35 0.00 2.66
450 1124 0.881796 CGACTATGAGGCGCCTATGA 59.118 55.000 32.97 17.37 41.27 2.15
463 1137 2.015587 GGAGACGTTCCTGTCGACTAT 58.984 52.381 17.92 0.00 43.70 2.12
473 1147 5.616204 CGGTTTTAATGAAAGGAGACGTTCC 60.616 44.000 8.26 8.26 46.58 3.62
485 1159 1.202087 CGGCGATGCGGTTTTAATGAA 60.202 47.619 0.00 0.00 0.00 2.57
486 1160 0.375454 CGGCGATGCGGTTTTAATGA 59.625 50.000 0.00 0.00 0.00 2.57
489 1163 0.954449 TTCCGGCGATGCGGTTTTAA 60.954 50.000 9.30 0.00 0.00 1.52
495 1169 0.878523 TAGAATTTCCGGCGATGCGG 60.879 55.000 9.30 0.00 0.00 5.69
514 1188 8.196771 TGCTCGCATTATTTCTGGATTTATTTT 58.803 29.630 0.00 0.00 0.00 1.82
527 1201 3.347216 AGTCCTGTTGCTCGCATTATTT 58.653 40.909 0.00 0.00 0.00 1.40
537 1211 0.846693 AGGGTTCAAGTCCTGTTGCT 59.153 50.000 0.00 0.00 31.11 3.91
558 1232 2.107204 GACAGTGATATTCCCAGCCCAT 59.893 50.000 0.00 0.00 0.00 4.00
566 1240 3.070302 GGTGAGAGGGACAGTGATATTCC 59.930 52.174 0.00 0.00 0.00 3.01
568 1242 3.724478 TGGTGAGAGGGACAGTGATATT 58.276 45.455 0.00 0.00 0.00 1.28
572 1246 1.902508 GAATGGTGAGAGGGACAGTGA 59.097 52.381 0.00 0.00 0.00 3.41
591 1265 4.406648 AGAATAGACGACCATGCATTGA 57.593 40.909 4.52 0.00 0.00 2.57
604 1278 6.007677 CGTCACGCAGTTTTAAAGAATAGAC 58.992 40.000 0.00 0.00 41.61 2.59
606 1280 5.912528 ACGTCACGCAGTTTTAAAGAATAG 58.087 37.500 0.00 0.00 41.61 1.73
612 1286 7.484007 TGAATTTTTACGTCACGCAGTTTTAAA 59.516 29.630 0.00 0.00 41.61 1.52
626 1300 9.221933 ACCCTTTTTCTTTTTGAATTTTTACGT 57.778 25.926 0.00 0.00 34.24 3.57
642 1316 2.509964 ACAGTGGACAGACCCTTTTTCT 59.490 45.455 0.00 0.00 38.00 2.52
649 1323 1.308998 CAAACACAGTGGACAGACCC 58.691 55.000 5.31 0.00 38.00 4.46
650 1324 1.670811 CACAAACACAGTGGACAGACC 59.329 52.381 5.31 0.00 39.54 3.85
693 1367 3.430218 CACGCAACAACAAGGAACAAAAA 59.570 39.130 0.00 0.00 0.00 1.94
694 1368 2.989840 CACGCAACAACAAGGAACAAAA 59.010 40.909 0.00 0.00 0.00 2.44
695 1369 2.229062 TCACGCAACAACAAGGAACAAA 59.771 40.909 0.00 0.00 0.00 2.83
696 1370 1.813178 TCACGCAACAACAAGGAACAA 59.187 42.857 0.00 0.00 0.00 2.83
697 1371 1.454201 TCACGCAACAACAAGGAACA 58.546 45.000 0.00 0.00 0.00 3.18
698 1372 2.223479 ACATCACGCAACAACAAGGAAC 60.223 45.455 0.00 0.00 0.00 3.62
699 1373 2.020720 ACATCACGCAACAACAAGGAA 58.979 42.857 0.00 0.00 0.00 3.36
700 1374 1.333308 CACATCACGCAACAACAAGGA 59.667 47.619 0.00 0.00 0.00 3.36
701 1375 1.333308 TCACATCACGCAACAACAAGG 59.667 47.619 0.00 0.00 0.00 3.61
702 1376 2.223226 TGTCACATCACGCAACAACAAG 60.223 45.455 0.00 0.00 0.00 3.16
703 1377 1.740025 TGTCACATCACGCAACAACAA 59.260 42.857 0.00 0.00 0.00 2.83
704 1378 1.373570 TGTCACATCACGCAACAACA 58.626 45.000 0.00 0.00 0.00 3.33
705 1379 2.224079 AGATGTCACATCACGCAACAAC 59.776 45.455 20.13 0.00 0.00 3.32
706 1380 2.493035 AGATGTCACATCACGCAACAA 58.507 42.857 20.13 0.00 0.00 2.83
707 1381 2.168326 AGATGTCACATCACGCAACA 57.832 45.000 20.13 0.00 0.00 3.33
708 1382 3.542712 AAAGATGTCACATCACGCAAC 57.457 42.857 20.13 0.00 0.00 4.17
709 1383 4.565022 TCTAAAGATGTCACATCACGCAA 58.435 39.130 20.13 0.00 0.00 4.85
710 1384 4.186856 TCTAAAGATGTCACATCACGCA 57.813 40.909 20.13 1.34 0.00 5.24
711 1385 5.530519 TTTCTAAAGATGTCACATCACGC 57.469 39.130 20.13 0.00 0.00 5.34
712 1386 6.887368 TGTTTTCTAAAGATGTCACATCACG 58.113 36.000 20.13 5.12 0.00 4.35
713 1387 8.725148 AGATGTTTTCTAAAGATGTCACATCAC 58.275 33.333 20.13 7.07 41.08 3.06
714 1388 8.853077 AGATGTTTTCTAAAGATGTCACATCA 57.147 30.769 20.13 0.00 41.08 3.07
716 1390 9.725019 TGTAGATGTTTTCTAAAGATGTCACAT 57.275 29.630 0.00 0.00 38.67 3.21
717 1391 8.988934 GTGTAGATGTTTTCTAAAGATGTCACA 58.011 33.333 0.00 0.00 38.67 3.58
718 1392 8.162880 CGTGTAGATGTTTTCTAAAGATGTCAC 58.837 37.037 0.00 0.00 38.67 3.67
719 1393 7.870954 ACGTGTAGATGTTTTCTAAAGATGTCA 59.129 33.333 0.00 0.00 38.67 3.58
720 1394 8.162880 CACGTGTAGATGTTTTCTAAAGATGTC 58.837 37.037 7.58 0.00 38.67 3.06
721 1395 7.870954 TCACGTGTAGATGTTTTCTAAAGATGT 59.129 33.333 16.51 0.00 38.67 3.06
722 1396 8.239681 TCACGTGTAGATGTTTTCTAAAGATG 57.760 34.615 16.51 0.00 38.67 2.90
723 1397 8.827177 TTCACGTGTAGATGTTTTCTAAAGAT 57.173 30.769 16.51 0.00 38.67 2.40
724 1398 8.827177 ATTCACGTGTAGATGTTTTCTAAAGA 57.173 30.769 16.51 0.00 38.67 2.52
727 1401 9.917129 TCTAATTCACGTGTAGATGTTTTCTAA 57.083 29.630 16.51 0.00 38.67 2.10
728 1402 9.350357 GTCTAATTCACGTGTAGATGTTTTCTA 57.650 33.333 16.51 0.00 35.79 2.10
729 1403 7.870954 TGTCTAATTCACGTGTAGATGTTTTCT 59.129 33.333 16.51 0.00 38.57 2.52
730 1404 8.014322 TGTCTAATTCACGTGTAGATGTTTTC 57.986 34.615 16.51 3.61 0.00 2.29
731 1405 7.956420 TGTCTAATTCACGTGTAGATGTTTT 57.044 32.000 16.51 0.00 0.00 2.43
732 1406 7.956420 TTGTCTAATTCACGTGTAGATGTTT 57.044 32.000 16.51 0.00 0.00 2.83
733 1407 7.095355 GGTTTGTCTAATTCACGTGTAGATGTT 60.095 37.037 16.51 0.00 0.00 2.71
734 1408 6.367969 GGTTTGTCTAATTCACGTGTAGATGT 59.632 38.462 16.51 0.00 0.00 3.06
735 1409 6.453791 CGGTTTGTCTAATTCACGTGTAGATG 60.454 42.308 16.51 4.97 0.00 2.90
736 1410 5.575606 CGGTTTGTCTAATTCACGTGTAGAT 59.424 40.000 16.51 5.76 0.00 1.98
737 1411 4.919168 CGGTTTGTCTAATTCACGTGTAGA 59.081 41.667 16.51 12.52 0.00 2.59
738 1412 4.919168 TCGGTTTGTCTAATTCACGTGTAG 59.081 41.667 16.51 10.26 0.00 2.74
739 1413 4.869215 TCGGTTTGTCTAATTCACGTGTA 58.131 39.130 16.51 6.35 0.00 2.90
740 1414 3.719924 TCGGTTTGTCTAATTCACGTGT 58.280 40.909 16.51 0.00 0.00 4.49
741 1415 4.718858 TTCGGTTTGTCTAATTCACGTG 57.281 40.909 9.94 9.94 0.00 4.49
742 1416 4.319261 GCTTTCGGTTTGTCTAATTCACGT 60.319 41.667 0.00 0.00 0.00 4.49
743 1417 4.148891 GCTTTCGGTTTGTCTAATTCACG 58.851 43.478 0.00 0.00 0.00 4.35
744 1418 4.148891 CGCTTTCGGTTTGTCTAATTCAC 58.851 43.478 0.00 0.00 0.00 3.18
745 1419 3.810941 ACGCTTTCGGTTTGTCTAATTCA 59.189 39.130 0.00 0.00 40.69 2.57
746 1420 4.148891 CACGCTTTCGGTTTGTCTAATTC 58.851 43.478 0.00 0.00 40.69 2.17
747 1421 3.608474 GCACGCTTTCGGTTTGTCTAATT 60.608 43.478 0.00 0.00 40.69 1.40
748 1422 2.095919 GCACGCTTTCGGTTTGTCTAAT 60.096 45.455 0.00 0.00 40.69 1.73
749 1423 1.262151 GCACGCTTTCGGTTTGTCTAA 59.738 47.619 0.00 0.00 40.69 2.10
750 1424 0.863144 GCACGCTTTCGGTTTGTCTA 59.137 50.000 0.00 0.00 40.69 2.59
751 1425 1.647084 GCACGCTTTCGGTTTGTCT 59.353 52.632 0.00 0.00 40.69 3.41
752 1426 1.721133 CGCACGCTTTCGGTTTGTC 60.721 57.895 0.00 0.00 40.69 3.18
753 1427 1.152989 TACGCACGCTTTCGGTTTGT 61.153 50.000 0.00 0.00 40.69 2.83
754 1428 0.165079 ATACGCACGCTTTCGGTTTG 59.835 50.000 0.00 0.00 40.69 2.93
755 1429 0.165079 CATACGCACGCTTTCGGTTT 59.835 50.000 0.00 0.00 40.69 3.27
756 1430 1.785321 CATACGCACGCTTTCGGTT 59.215 52.632 0.00 0.00 40.69 4.44
757 1431 2.736682 GCATACGCACGCTTTCGGT 61.737 57.895 0.00 0.00 40.69 4.69
758 1432 2.021380 GCATACGCACGCTTTCGG 59.979 61.111 0.00 0.00 40.69 4.30
759 1433 2.348551 CGCATACGCACGCTTTCG 60.349 61.111 0.00 0.00 38.40 3.46
781 1455 6.589523 TGATGAATTTTTGTTATTTCTGGCGG 59.410 34.615 0.00 0.00 0.00 6.13
808 3146 0.770557 ACACCAAGCCCCTTGACCTA 60.771 55.000 6.54 0.00 43.42 3.08
809 3147 2.084930 ACACCAAGCCCCTTGACCT 61.085 57.895 6.54 0.00 43.42 3.85
992 3335 3.752665 AGAGCAAGAGCCATGGATAATG 58.247 45.455 18.40 13.07 43.56 1.90
1097 3443 4.652131 TGATGCCGCCCACCGTTT 62.652 61.111 0.00 0.00 34.38 3.60
1122 3468 0.971386 TGGAGTCCCCGAAGTTGTAC 59.029 55.000 6.74 0.00 37.93 2.90
1168 3514 0.108329 AGTATTCCGGTGTCGCCTTG 60.108 55.000 0.00 0.00 34.25 3.61
1295 3647 3.817647 AGCCTAGCATGCATTTTACTAGC 59.182 43.478 21.98 8.92 31.06 3.42
1302 3657 2.228059 CTAGCAGCCTAGCATGCATTT 58.772 47.619 21.98 1.04 45.01 2.32
1315 3671 2.297701 AGACAGTAGAGAGCTAGCAGC 58.702 52.381 18.83 8.57 42.84 5.25
1316 3672 4.981806 AAAGACAGTAGAGAGCTAGCAG 57.018 45.455 18.83 0.00 0.00 4.24
1317 3673 6.622549 GTTTAAAGACAGTAGAGAGCTAGCA 58.377 40.000 18.83 0.00 0.00 3.49
1318 3674 5.740099 CGTTTAAAGACAGTAGAGAGCTAGC 59.260 44.000 6.62 6.62 0.00 3.42
1362 3718 3.184683 CGAGACCTTCAGCTGCGC 61.185 66.667 9.47 0.00 0.00 6.09
1363 3719 2.507992 CCGAGACCTTCAGCTGCG 60.508 66.667 9.47 4.65 0.00 5.18
1432 3788 1.373748 GGCTACGGCGAAGTTGACA 60.374 57.895 16.62 0.00 39.81 3.58
1493 3849 4.324991 GGTGTGGGGGACGGTGAC 62.325 72.222 0.00 0.00 0.00 3.67
1528 3884 2.235650 CTCCTTGAACCATCTGAGCTGA 59.764 50.000 0.00 0.00 0.00 4.26
1591 3953 5.819901 GCAGTAGCTTAATGAGAAGGTGAAT 59.180 40.000 0.00 0.00 37.69 2.57
1615 3977 5.295950 TGTGATTTGGTGGCAAGTTAATTG 58.704 37.500 0.00 0.00 42.20 2.32
1634 3996 6.985645 ACTTTTTGCATCAGCTTAATTTGTGA 59.014 30.769 0.00 0.00 42.74 3.58
1692 4055 1.639298 GCATCACCAGTGAACTCGCC 61.639 60.000 4.31 0.00 43.58 5.54
1757 4120 1.067582 CTACCATTCGTCCCTCGGC 59.932 63.158 0.00 0.00 40.32 5.54
1761 4124 3.833070 GGTCATATCTACCATTCGTCCCT 59.167 47.826 0.00 0.00 36.96 4.20
1762 4125 3.056035 GGGTCATATCTACCATTCGTCCC 60.056 52.174 6.19 0.00 38.87 4.46
1770 4133 2.826128 GCTGATCGGGTCATATCTACCA 59.174 50.000 3.14 0.00 38.87 3.25
1779 4142 0.829990 TAGCATTGCTGATCGGGTCA 59.170 50.000 21.31 0.00 40.10 4.02
2205 4568 9.640963 AGCCTATTACTATCAAAGTTATAAGCG 57.359 33.333 0.00 0.00 40.04 4.68
2222 4585 1.762222 CGCGCCACACAGCCTATTAC 61.762 60.000 0.00 0.00 0.00 1.89
2223 4586 1.520564 CGCGCCACACAGCCTATTA 60.521 57.895 0.00 0.00 0.00 0.98
2434 4797 2.359975 CCAGTCGGAGGCCCAAAC 60.360 66.667 0.00 0.00 0.00 2.93
2456 4819 0.643820 GCTCGTACGTACAATGTGGC 59.356 55.000 24.50 14.03 0.00 5.01
2464 4827 2.259505 AAGAAGCAGCTCGTACGTAC 57.740 50.000 15.90 15.90 0.00 3.67
2465 4828 2.030540 ACAAAGAAGCAGCTCGTACGTA 60.031 45.455 16.05 0.00 0.00 3.57
2466 4829 1.269621 ACAAAGAAGCAGCTCGTACGT 60.270 47.619 16.05 0.00 0.00 3.57
2467 4830 1.387084 GACAAAGAAGCAGCTCGTACG 59.613 52.381 9.53 9.53 0.00 3.67
2469 4832 2.296190 TGAGACAAAGAAGCAGCTCGTA 59.704 45.455 0.00 0.00 0.00 3.43
2471 4834 1.788258 TGAGACAAAGAAGCAGCTCG 58.212 50.000 0.00 0.00 0.00 5.03
2508 4930 6.108015 AGCAGAGCTTTCACAAATTCAAAAA 58.892 32.000 0.00 0.00 33.89 1.94
2536 5002 2.288213 TGCGTAACTGAACAGAGACAGG 60.288 50.000 8.87 0.00 38.30 4.00
2545 5011 0.798776 ATGCAGCTGCGTAACTGAAC 59.201 50.000 31.61 2.47 45.83 3.18
2642 5108 8.967218 CAAAATCTGGCAAATATATAACGTTGG 58.033 33.333 11.99 0.00 0.00 3.77
2670 5136 1.832608 TGGGACTGTCGCACTCTGT 60.833 57.895 21.76 0.00 34.23 3.41
2717 5187 4.201647 CGGTGGTTGTGACGATTACATAAC 60.202 45.833 0.00 0.00 38.17 1.89
2724 5194 1.964373 GCCGGTGGTTGTGACGATT 60.964 57.895 1.90 0.00 0.00 3.34
2752 5223 2.977456 TGTGCGCTTGCGGTGAAT 60.977 55.556 16.79 0.00 43.34 2.57
2772 5243 2.833957 GTCGGGGTTGTCAGGGTT 59.166 61.111 0.00 0.00 0.00 4.11
2780 5251 2.813908 GCTACTGCGTCGGGGTTG 60.814 66.667 0.00 0.00 0.00 3.77
2790 5261 3.325870 TGCGGATTATATGTGCTACTGC 58.674 45.455 0.00 0.00 40.20 4.40
2792 5263 9.698309 GAATATATGCGGATTATATGTGCTACT 57.302 33.333 0.00 0.00 0.00 2.57
2815 5286 1.264020 GTGTGTGCGTGTGATGTGAAT 59.736 47.619 0.00 0.00 0.00 2.57
2816 5287 0.655208 GTGTGTGCGTGTGATGTGAA 59.345 50.000 0.00 0.00 0.00 3.18
2817 5288 1.486644 CGTGTGTGCGTGTGATGTGA 61.487 55.000 0.00 0.00 0.00 3.58
2820 5291 2.127646 GCGTGTGTGCGTGTGATG 60.128 61.111 0.00 0.00 0.00 3.07
2821 5292 2.587473 TGCGTGTGTGCGTGTGAT 60.587 55.556 0.00 0.00 37.81 3.06
2822 5293 3.559344 GTGCGTGTGTGCGTGTGA 61.559 61.111 0.00 0.00 37.81 3.58
2823 5294 3.491508 GAGTGCGTGTGTGCGTGTG 62.492 63.158 0.00 0.00 37.81 3.82
2824 5295 3.261951 GAGTGCGTGTGTGCGTGT 61.262 61.111 0.00 0.00 37.81 4.49
2825 5296 3.261216 TGAGTGCGTGTGTGCGTG 61.261 61.111 0.00 0.00 37.81 5.34
2826 5297 3.261951 GTGAGTGCGTGTGTGCGT 61.262 61.111 0.00 0.00 37.81 5.24
2827 5298 4.339809 CGTGAGTGCGTGTGTGCG 62.340 66.667 0.00 0.00 37.81 5.34
2828 5299 4.649954 GCGTGAGTGCGTGTGTGC 62.650 66.667 0.00 0.00 0.00 4.57
2829 5300 3.261216 TGCGTGAGTGCGTGTGTG 61.261 61.111 0.00 0.00 37.81 3.82
2830 5301 3.261951 GTGCGTGAGTGCGTGTGT 61.262 61.111 0.00 0.00 37.81 3.72
2831 5302 4.339809 CGTGCGTGAGTGCGTGTG 62.340 66.667 0.00 0.00 37.81 3.82
2836 5307 4.064491 GAGTGCGTGCGTGAGTGC 62.064 66.667 0.00 0.00 0.00 4.40
2837 5308 3.756677 CGAGTGCGTGCGTGAGTG 61.757 66.667 0.00 0.00 0.00 3.51
2852 5323 4.075682 TGACAAGGATTATTGGTTTGCGA 58.924 39.130 0.00 0.00 34.36 5.10
2923 5403 2.648102 GTCTGATCGGTCGACGCG 60.648 66.667 17.01 17.01 43.86 6.01
2952 5435 0.174845 CGTTCAGACGCCTATGGGAA 59.825 55.000 0.00 0.00 43.03 3.97
3071 5556 2.353607 CCTAGCTAACGCGGCTCG 60.354 66.667 12.47 5.69 42.32 5.03
3096 5581 1.272490 GTCGTGTCCATCTCTTGTCCA 59.728 52.381 0.00 0.00 0.00 4.02
3110 5595 3.961480 TCAATGGAGAATCTGTCGTGT 57.039 42.857 0.00 0.00 33.73 4.49
3111 5596 5.808042 AAATCAATGGAGAATCTGTCGTG 57.192 39.130 0.00 0.00 33.73 4.35
3137 5622 1.593006 CGAGCCTGGTAATTAAGCACG 59.407 52.381 0.00 0.00 0.00 5.34
3190 5675 4.181010 CCTCGCCATGGGACTGGG 62.181 72.222 15.13 3.51 36.75 4.45
3291 5776 1.893062 CATCTCCACCTCGCTCACA 59.107 57.895 0.00 0.00 0.00 3.58


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

AutoCloner maintained by Alex Coulton.