Multiple sequence alignment - TraesCS4D01G015900

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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 TraesCS4D01G015900 chr4D 100.000 5041 0 0 1 5041 7107573 7112613 0.000000e+00 9310.0
1 TraesCS4D01G015900 chr4A 92.121 3173 150 52 342 3464 596504328 596507450 0.000000e+00 4383.0
2 TraesCS4D01G015900 chr4A 90.374 883 44 20 3462 4324 596507477 596508338 0.000000e+00 1122.0
3 TraesCS4D01G015900 chr4A 90.938 320 11 6 29 336 596503937 596504250 1.010000e-111 414.0
4 TraesCS4D01G015900 chr4A 76.023 513 52 34 4353 4827 596508410 596508889 3.080000e-47 200.0
5 TraesCS4D01G015900 chr4A 98.039 51 1 0 4991 5041 596509117 596509167 6.950000e-14 89.8
6 TraesCS4D01G015900 chr4A 95.349 43 2 0 4904 4946 596509038 596509080 9.060000e-08 69.4
7 TraesCS4D01G015900 chr4B 92.963 2288 92 27 356 2619 12526416 12528658 0.000000e+00 3269.0
8 TraesCS4D01G015900 chr4B 87.807 1345 84 38 3483 4766 12529559 12530884 0.000000e+00 1502.0
9 TraesCS4D01G015900 chr4B 93.885 834 31 11 2673 3489 12528657 12529487 0.000000e+00 1240.0
10 TraesCS4D01G015900 chr4B 83.621 348 12 23 29 336 12525964 12526306 8.260000e-73 285.0
11 TraesCS4D01G015900 chr4B 93.000 100 1 3 4897 4995 12531042 12531136 1.890000e-29 141.0
12 TraesCS4D01G015900 chr4B 95.918 49 2 0 4991 5039 12531148 12531196 4.180000e-11 80.5
13 TraesCS4D01G015900 chr4B 81.111 90 2 6 4797 4872 12530892 12530980 1.960000e-04 58.4
14 TraesCS4D01G015900 chr7D 93.333 285 15 4 2396 2679 138085016 138085297 7.810000e-113 418.0
15 TraesCS4D01G015900 chr7D 100.000 29 0 0 14 42 136860949 136860921 3.000000e-03 54.7
16 TraesCS4D01G015900 chr2B 80.311 193 29 5 1293 1482 202916110 202916296 2.450000e-28 137.0


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 TraesCS4D01G015900 chr4D 7107573 7112613 5040 False 9310.000000 9310 100.000000 1 5041 1 chr4D.!!$F1 5040
1 TraesCS4D01G015900 chr4A 596503937 596509167 5230 False 1046.366667 4383 90.474000 29 5041 6 chr4A.!!$F1 5012
2 TraesCS4D01G015900 chr4B 12525964 12531196 5232 False 939.414286 3269 89.757857 29 5039 7 chr4B.!!$F1 5010

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
654 811 0.324614 TGCTTCCTGAATCTTGCGGA 59.675 50.0 0.0 0.0 0.00 5.54 F
1686 1873 0.104934 ACTCCACCTGTCCTCCTTGT 60.105 55.0 0.0 0.0 0.00 3.16 F
1712 1899 0.609406 GGTTGCCCAGGAAGAACTCC 60.609 60.0 0.0 0.0 45.81 3.85 F
3652 3980 0.885879 ACAACTCCGACAGATACGCA 59.114 50.0 0.0 0.0 0.00 5.24 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1718 1905 0.039074 CGTTTCCTGCTCGACAGTCT 60.039 55.0 12.1 0.0 45.68 3.24 R
2834 3034 0.107214 CACTCCGCACCCATACCATT 60.107 55.0 0.0 0.0 0.00 3.16 R
3667 3995 0.253044 TCCTCCGCTTCTCATTTGGG 59.747 55.0 0.0 0.0 0.00 4.12 R
4601 5010 0.179161 TTTGGTTGCGTTTGTGTCCG 60.179 50.0 0.0 0.0 0.00 4.79 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
25 26 8.438676 CAGTAATAAACACCATTAGCTTAGCT 57.561 34.615 12.67 12.67 43.41 3.32
26 27 8.893727 CAGTAATAAACACCATTAGCTTAGCTT 58.106 33.333 13.44 0.00 40.44 3.74
170 186 2.146724 GCCCCCAAACCCAAAGCTT 61.147 57.895 0.00 0.00 0.00 3.74
263 320 4.742649 TCCCTCGCCTCGCTCAGT 62.743 66.667 0.00 0.00 0.00 3.41
264 321 4.200283 CCCTCGCCTCGCTCAGTC 62.200 72.222 0.00 0.00 0.00 3.51
416 562 1.065410 TTCCTTTCTCCCAGGTGCCA 61.065 55.000 0.00 0.00 32.59 4.92
421 567 3.736224 CTCCCAGGTGCCAGCCAT 61.736 66.667 0.00 0.00 0.00 4.40
451 597 1.338020 CATTTATTTCCGCTGCCCCTC 59.662 52.381 0.00 0.00 0.00 4.30
575 732 1.446907 CGTGATTGCAGGAGCTTTCT 58.553 50.000 0.00 0.00 42.74 2.52
576 733 1.396301 CGTGATTGCAGGAGCTTTCTC 59.604 52.381 0.00 0.00 42.74 2.87
593 750 1.202582 TCTCTCTTTACAGGCTCGTGC 59.797 52.381 0.00 0.00 38.76 5.34
631 788 2.479275 GGCCGTCTTTAATAATCCTCGC 59.521 50.000 0.00 0.00 0.00 5.03
635 792 4.262079 CCGTCTTTAATAATCCTCGCCTCT 60.262 45.833 0.00 0.00 0.00 3.69
637 794 4.449405 GTCTTTAATAATCCTCGCCTCTGC 59.551 45.833 0.00 0.00 0.00 4.26
652 809 1.664659 CTCTGCTTCCTGAATCTTGCG 59.335 52.381 0.00 0.00 0.00 4.85
653 810 0.731417 CTGCTTCCTGAATCTTGCGG 59.269 55.000 0.00 0.00 0.00 5.69
654 811 0.324614 TGCTTCCTGAATCTTGCGGA 59.675 50.000 0.00 0.00 0.00 5.54
655 812 0.729690 GCTTCCTGAATCTTGCGGAC 59.270 55.000 0.00 0.00 0.00 4.79
656 813 1.002366 CTTCCTGAATCTTGCGGACG 58.998 55.000 0.00 0.00 0.00 4.79
683 840 2.288825 TGCTTCCGTTCTTGATCTCGTT 60.289 45.455 0.00 0.00 0.00 3.85
709 866 1.358759 CCCCAAATACGCCATTCGC 59.641 57.895 0.00 0.00 43.23 4.70
727 884 0.960861 GCTGGTCCTTCTTTTCCCCG 60.961 60.000 0.00 0.00 0.00 5.73
812 971 0.689623 CTGCTTCTCCTTCCCAGTGT 59.310 55.000 0.00 0.00 0.00 3.55
833 992 1.550524 GGAATCTTCCAAACAAGGGGC 59.449 52.381 4.05 0.00 46.76 5.80
919 1080 2.904434 ACTGTTCTTAGTGGGGGTACTG 59.096 50.000 0.00 0.00 32.19 2.74
922 1083 2.908351 GTTCTTAGTGGGGGTACTGGAA 59.092 50.000 0.00 0.00 32.19 3.53
925 1086 3.585732 TCTTAGTGGGGGTACTGGAAAAG 59.414 47.826 0.00 0.00 32.19 2.27
980 1154 0.990282 CATCCCATCCCTGGACCTGT 60.990 60.000 0.00 0.00 46.37 4.00
1095 1277 5.168526 TCTTCACAATTTTTCTGTGTCCG 57.831 39.130 3.14 0.00 43.79 4.79
1114 1296 2.613977 CCGGTCTCTGATCTTGCTTTGT 60.614 50.000 0.00 0.00 0.00 2.83
1188 1370 6.035975 GGAAGTGGTTCAACATCAAAACAAAG 59.964 38.462 0.00 0.00 33.93 2.77
1248 1430 5.013183 AGGTACTTCCATTCAGCTGTTAACT 59.987 40.000 14.67 0.00 39.02 2.24
1253 1435 5.227569 TCCATTCAGCTGTTAACTTCAGA 57.772 39.130 14.67 0.00 35.20 3.27
1276 1458 3.859411 TTTTTCTTGCTCGGTGTTGTT 57.141 38.095 0.00 0.00 0.00 2.83
1292 1474 1.896220 TGTTCTGGCTGTTGGATCAC 58.104 50.000 0.00 0.00 0.00 3.06
1335 1517 0.538287 AGCAAGTTTGACCTCCTGCC 60.538 55.000 0.00 0.00 0.00 4.85
1344 1526 2.686470 CCTCCTGCCTCCTGCTCA 60.686 66.667 0.00 0.00 42.00 4.26
1345 1527 2.583520 CTCCTGCCTCCTGCTCAC 59.416 66.667 0.00 0.00 42.00 3.51
1346 1528 3.368190 CTCCTGCCTCCTGCTCACG 62.368 68.421 0.00 0.00 42.00 4.35
1409 1593 3.554934 TCAAACACATGCTTGAGACCTT 58.445 40.909 6.60 0.00 0.00 3.50
1457 1641 5.669477 TGTCCTTGTGCTAAAATTTTGCTT 58.331 33.333 13.76 0.00 0.00 3.91
1510 1694 3.295093 CAGCTTCTCAGAGAGGGATGTA 58.705 50.000 11.37 0.00 0.00 2.29
1578 1762 5.419471 GTCCTCAGTCCTCACAGTAACTATT 59.581 44.000 0.00 0.00 0.00 1.73
1579 1763 6.602406 GTCCTCAGTCCTCACAGTAACTATTA 59.398 42.308 0.00 0.00 0.00 0.98
1580 1764 6.602406 TCCTCAGTCCTCACAGTAACTATTAC 59.398 42.308 0.00 0.00 36.38 1.89
1581 1765 6.603997 CCTCAGTCCTCACAGTAACTATTACT 59.396 42.308 0.00 0.00 46.96 2.24
1606 1790 4.305769 TGCATTTTCAGATTTTTCACCCG 58.694 39.130 0.00 0.00 0.00 5.28
1612 1796 2.550606 TCAGATTTTTCACCCGTTTCCG 59.449 45.455 0.00 0.00 0.00 4.30
1627 1811 0.390860 TTCCGTGGGTGCAAAATTGG 59.609 50.000 0.00 0.00 0.00 3.16
1636 1820 0.465705 TGCAAAATTGGCCGGTCAAA 59.534 45.000 27.72 9.64 0.00 2.69
1646 1830 1.175983 GCCGGTCAAAATGGTGTCCA 61.176 55.000 1.90 0.00 38.19 4.02
1671 1855 3.440522 GCCCAACTGACTGAATTAACTCC 59.559 47.826 0.00 0.00 0.00 3.85
1685 1872 1.059913 AACTCCACCTGTCCTCCTTG 58.940 55.000 0.00 0.00 0.00 3.61
1686 1873 0.104934 ACTCCACCTGTCCTCCTTGT 60.105 55.000 0.00 0.00 0.00 3.16
1687 1874 1.059913 CTCCACCTGTCCTCCTTGTT 58.940 55.000 0.00 0.00 0.00 2.83
1712 1899 0.609406 GGTTGCCCAGGAAGAACTCC 60.609 60.000 0.00 0.00 45.81 3.85
1789 1976 5.420409 GCAGGACTACAGGTATATAATGCC 58.580 45.833 0.00 0.00 34.96 4.40
1982 2169 9.245962 GCTGATATATACGTCATTGGGTATAAC 57.754 37.037 0.00 0.00 35.78 1.89
2152 2342 2.027625 CGAAGACAACGGTCCAGCC 61.028 63.158 0.00 0.00 45.48 4.85
2227 2417 2.501723 CTCTGCTGGGTACAACTACCAT 59.498 50.000 0.00 0.00 44.18 3.55
2293 2483 2.177394 TCGAGAGATCATCGAGGAGG 57.823 55.000 16.35 0.00 43.79 4.30
2743 2943 6.660521 ACAAGCTTCATTCATCACTTGGAATA 59.339 34.615 0.00 0.00 38.99 1.75
2744 2944 7.341256 ACAAGCTTCATTCATCACTTGGAATAT 59.659 33.333 0.00 0.00 38.99 1.28
2745 2945 7.273320 AGCTTCATTCATCACTTGGAATATG 57.727 36.000 0.00 0.00 32.71 1.78
2746 2946 7.058525 AGCTTCATTCATCACTTGGAATATGA 58.941 34.615 0.00 0.00 32.71 2.15
2834 3034 2.635427 GCAAATGGTTGGGGTTTTCCTA 59.365 45.455 0.00 0.00 36.31 2.94
2897 3097 3.213506 CTTGAAGGTGTCATGTGTTGGA 58.786 45.455 0.00 0.00 35.70 3.53
3117 3334 2.335752 TGCTTTGTTTGCACACACTTG 58.664 42.857 4.89 0.26 35.31 3.16
3180 3397 2.943033 GGACGTGGTGGAAATATTGAGG 59.057 50.000 0.00 0.00 0.00 3.86
3277 3494 2.865343 ACTTCCAGCTCGGTTATACG 57.135 50.000 2.68 0.00 35.57 3.06
3489 3739 6.711277 TCATATACCTCTTGAAGCAACTTGT 58.289 36.000 0.00 0.00 0.00 3.16
3510 3838 4.037803 TGTGCTACTGTTGCAATCACATTT 59.962 37.500 17.92 0.00 42.41 2.32
3533 3861 3.219281 TGGCCTTGTTTCTTACCTGAAC 58.781 45.455 3.32 0.00 0.00 3.18
3568 3896 4.268884 CAGCTTCGTATAGAGCAAAGGTTC 59.731 45.833 5.72 0.00 0.00 3.62
3598 3926 2.351276 GCGGGCTGGAAAGAAGGA 59.649 61.111 0.00 0.00 0.00 3.36
3607 3935 4.399618 GGCTGGAAAGAAGGAAGGATTTAC 59.600 45.833 0.00 0.00 0.00 2.01
3652 3980 0.885879 ACAACTCCGACAGATACGCA 59.114 50.000 0.00 0.00 0.00 5.24
3661 3989 1.939785 CAGATACGCAGGCGACGAC 60.940 63.158 21.62 0.00 42.83 4.34
3667 3995 4.152625 GCAGGCGACGACATGCAC 62.153 66.667 18.92 0.00 38.54 4.57
3748 4076 6.659745 ATGCATTATTACATCCAAGCATGT 57.340 33.333 0.00 0.00 39.69 3.21
3788 4119 6.001460 CACCCTTATTACTTTCACCTCAACA 58.999 40.000 0.00 0.00 0.00 3.33
3791 4122 7.230712 ACCCTTATTACTTTCACCTCAACAAAG 59.769 37.037 0.00 0.00 33.98 2.77
3792 4123 7.084486 CCTTATTACTTTCACCTCAACAAAGC 58.916 38.462 0.00 0.00 31.40 3.51
3794 4125 6.655078 ATTACTTTCACCTCAACAAAGCAT 57.345 33.333 0.00 0.00 31.40 3.79
3998 4329 1.145738 GGGGTGGATGAACTGCCATAT 59.854 52.381 0.00 0.00 36.41 1.78
4054 4385 2.418368 TACTGATTGTGCATCCCCAC 57.582 50.000 0.00 0.00 36.28 4.61
4067 4398 2.359975 CCCACGGAGCCAAGGTTC 60.360 66.667 0.00 0.00 0.00 3.62
4068 4399 2.429930 CCACGGAGCCAAGGTTCA 59.570 61.111 5.32 0.00 0.00 3.18
4079 4410 6.349445 CGGAGCCAAGGTTCATATACTACTAG 60.349 46.154 5.32 0.00 0.00 2.57
4145 4492 3.698040 ACTGAATTCCATGTGAAGGCATC 59.302 43.478 2.27 0.00 36.14 3.91
4208 4558 1.404843 GGTGCCAGAGTAGGAGTAGG 58.595 60.000 0.00 0.00 0.00 3.18
4217 4567 2.888414 GAGTAGGAGTAGGCCTGATGTC 59.112 54.545 17.99 6.22 39.08 3.06
4219 4569 1.786937 AGGAGTAGGCCTGATGTCTG 58.213 55.000 17.99 0.00 36.76 3.51
4220 4570 1.289231 AGGAGTAGGCCTGATGTCTGA 59.711 52.381 17.99 0.00 36.76 3.27
4221 4571 2.090831 AGGAGTAGGCCTGATGTCTGAT 60.091 50.000 17.99 0.00 36.76 2.90
4222 4572 2.036992 GGAGTAGGCCTGATGTCTGATG 59.963 54.545 17.99 0.00 0.00 3.07
4285 4638 2.082231 CAGGCAACAGGTGATTCTGAG 58.918 52.381 0.00 0.00 38.11 3.35
4302 4655 3.130160 GCTGCTCTGCCCTTTCCG 61.130 66.667 0.00 0.00 0.00 4.30
4307 4660 1.302832 CTCTGCCCTTTCCGCACTT 60.303 57.895 0.00 0.00 31.61 3.16
4319 4672 1.134521 TCCGCACTTCAGTTCTTGTGT 60.135 47.619 0.00 0.00 33.44 3.72
4365 4762 9.487790 CTATTTTTAATGGAAAGTTTGCTTGGA 57.512 29.630 8.67 0.00 34.71 3.53
4371 4768 4.274147 TGGAAAGTTTGCTTGGACTAACA 58.726 39.130 8.67 0.00 34.71 2.41
4372 4769 4.338118 TGGAAAGTTTGCTTGGACTAACAG 59.662 41.667 8.67 0.00 34.71 3.16
4373 4770 4.261614 GGAAAGTTTGCTTGGACTAACAGG 60.262 45.833 0.00 0.00 34.71 4.00
4374 4771 3.577805 AGTTTGCTTGGACTAACAGGT 57.422 42.857 0.00 0.00 0.00 4.00
4381 4778 3.616802 GCTTGGACTAACAGGTACCTCAC 60.617 52.174 12.84 0.00 0.00 3.51
4426 4823 5.782047 CAGATACTCTAGCCAAGAAGATGG 58.218 45.833 0.00 0.00 43.70 3.51
4452 4849 8.208903 GCTTGTAATTCCAGATTTAGGTAGGTA 58.791 37.037 0.00 0.00 0.00 3.08
4467 4864 6.591750 AGGTAGGTATGATGCATACACTAC 57.408 41.667 21.89 21.89 45.86 2.73
4487 4888 7.275779 ACACTACTAGCACTTGATATCGTTTTG 59.724 37.037 0.00 0.00 0.00 2.44
4497 4899 6.591834 ACTTGATATCGTTTTGGAGAGAAGTG 59.408 38.462 0.00 0.00 0.00 3.16
4508 4910 5.623956 TGGAGAGAAGTGTAAAACTGGAA 57.376 39.130 0.00 0.00 39.81 3.53
4509 4911 5.611374 TGGAGAGAAGTGTAAAACTGGAAG 58.389 41.667 0.00 0.00 39.81 3.46
4513 4915 6.284459 AGAGAAGTGTAAAACTGGAAGACTG 58.716 40.000 0.00 0.00 39.81 3.51
4515 4917 6.049790 AGAAGTGTAAAACTGGAAGACTGAC 58.950 40.000 0.00 0.00 39.81 3.51
4528 4933 0.250338 GACTGACACCTTCCCACACC 60.250 60.000 0.00 0.00 0.00 4.16
4530 4935 1.348064 CTGACACCTTCCCACACCTA 58.652 55.000 0.00 0.00 0.00 3.08
4531 4936 1.909302 CTGACACCTTCCCACACCTAT 59.091 52.381 0.00 0.00 0.00 2.57
4532 4937 2.305927 CTGACACCTTCCCACACCTATT 59.694 50.000 0.00 0.00 0.00 1.73
4533 4938 2.304761 TGACACCTTCCCACACCTATTC 59.695 50.000 0.00 0.00 0.00 1.75
4534 4939 2.572104 GACACCTTCCCACACCTATTCT 59.428 50.000 0.00 0.00 0.00 2.40
4535 4940 2.572104 ACACCTTCCCACACCTATTCTC 59.428 50.000 0.00 0.00 0.00 2.87
4536 4941 2.840651 CACCTTCCCACACCTATTCTCT 59.159 50.000 0.00 0.00 0.00 3.10
4537 4942 4.030913 CACCTTCCCACACCTATTCTCTA 58.969 47.826 0.00 0.00 0.00 2.43
4538 4943 4.656112 CACCTTCCCACACCTATTCTCTAT 59.344 45.833 0.00 0.00 0.00 1.98
4550 4955 7.507616 ACACCTATTCTCTATTCTACAGGAAGG 59.492 40.741 0.00 0.00 37.36 3.46
4595 5004 8.517878 CACAGTTTTGATTGATTCTAACCATCT 58.482 33.333 0.00 0.00 0.00 2.90
4596 5005 9.739276 ACAGTTTTGATTGATTCTAACCATCTA 57.261 29.630 0.00 0.00 0.00 1.98
4598 5007 8.883731 AGTTTTGATTGATTCTAACCATCTACG 58.116 33.333 0.00 0.00 0.00 3.51
4599 5008 7.786178 TTTGATTGATTCTAACCATCTACGG 57.214 36.000 0.00 0.00 0.00 4.02
4600 5009 5.853936 TGATTGATTCTAACCATCTACGGG 58.146 41.667 0.00 0.00 0.00 5.28
4601 5010 3.746045 TGATTCTAACCATCTACGGGC 57.254 47.619 0.00 0.00 0.00 6.13
4605 5014 0.031721 CTAACCATCTACGGGCGGAC 59.968 60.000 0.00 0.00 0.00 4.79
4606 5015 0.683828 TAACCATCTACGGGCGGACA 60.684 55.000 0.00 0.00 0.00 4.02
4607 5016 2.106332 CCATCTACGGGCGGACAC 59.894 66.667 0.00 0.00 0.00 3.67
4608 5017 2.717044 CCATCTACGGGCGGACACA 61.717 63.158 0.00 0.00 0.00 3.72
4609 5018 1.216977 CATCTACGGGCGGACACAA 59.783 57.895 0.00 0.00 0.00 3.33
4610 5019 0.390603 CATCTACGGGCGGACACAAA 60.391 55.000 0.00 0.00 0.00 2.83
4611 5020 0.390735 ATCTACGGGCGGACACAAAC 60.391 55.000 0.00 0.00 0.00 2.93
4619 5051 1.429825 CGGACACAAACGCAACCAA 59.570 52.632 0.00 0.00 0.00 3.67
4626 5058 2.094894 CACAAACGCAACCAAAATGCAA 59.905 40.909 0.00 0.00 44.01 4.08
4629 5061 2.818130 ACGCAACCAAAATGCAAGAT 57.182 40.000 0.00 0.00 44.01 2.40
4630 5062 3.932545 ACGCAACCAAAATGCAAGATA 57.067 38.095 0.00 0.00 44.01 1.98
4632 5064 3.255642 ACGCAACCAAAATGCAAGATAGT 59.744 39.130 0.00 0.00 44.01 2.12
4634 5066 4.090354 CGCAACCAAAATGCAAGATAGTTG 59.910 41.667 14.44 14.44 44.01 3.16
4647 5079 5.392380 GCAAGATAGTTGTGGTCCTGATTTG 60.392 44.000 0.00 0.00 0.00 2.32
4654 5086 2.284190 GTGGTCCTGATTTGAGCTAGC 58.716 52.381 6.62 6.62 0.00 3.42
4657 5089 2.093235 GGTCCTGATTTGAGCTAGCAGT 60.093 50.000 18.83 0.00 0.00 4.40
4658 5090 3.133003 GGTCCTGATTTGAGCTAGCAGTA 59.867 47.826 18.83 0.00 0.00 2.74
4659 5091 4.116238 GTCCTGATTTGAGCTAGCAGTAC 58.884 47.826 18.83 5.92 0.00 2.73
4666 5101 1.941294 TGAGCTAGCAGTACGAGTAGC 59.059 52.381 18.83 12.78 38.56 3.58
4700 5135 0.243636 GCTAATTTTGTGGCGTGCCT 59.756 50.000 12.84 0.00 36.94 4.75
4709 5144 0.885196 GTGGCGTGCCTTTTGGATTA 59.115 50.000 12.84 0.00 44.07 1.75
4710 5145 1.476488 GTGGCGTGCCTTTTGGATTAT 59.524 47.619 12.84 0.00 44.07 1.28
4711 5146 2.094234 GTGGCGTGCCTTTTGGATTATT 60.094 45.455 12.84 0.00 44.07 1.40
4712 5147 2.564947 TGGCGTGCCTTTTGGATTATTT 59.435 40.909 12.84 0.00 44.07 1.40
4770 5205 4.574828 GGGAAGGCTTGTTTTTCTTTTTCC 59.425 41.667 3.46 0.00 0.00 3.13
4775 5210 5.050490 GGCTTGTTTTTCTTTTTCCTCTCC 58.950 41.667 0.00 0.00 0.00 3.71
4776 5211 4.740205 GCTTGTTTTTCTTTTTCCTCTCCG 59.260 41.667 0.00 0.00 0.00 4.63
4827 5269 4.749310 CGCTTGGCTCAGCTCGGT 62.749 66.667 0.00 0.00 37.68 4.69
4828 5270 2.817396 GCTTGGCTCAGCTCGGTC 60.817 66.667 0.00 0.00 36.79 4.79
4829 5271 2.659016 CTTGGCTCAGCTCGGTCA 59.341 61.111 0.00 0.00 0.00 4.02
4830 5272 1.220206 CTTGGCTCAGCTCGGTCAT 59.780 57.895 0.00 0.00 0.00 3.06
4831 5273 0.392193 CTTGGCTCAGCTCGGTCATT 60.392 55.000 0.00 0.00 0.00 2.57
4832 5274 0.036732 TTGGCTCAGCTCGGTCATTT 59.963 50.000 0.00 0.00 0.00 2.32
4833 5275 0.036732 TGGCTCAGCTCGGTCATTTT 59.963 50.000 0.00 0.00 0.00 1.82
4834 5276 1.168714 GGCTCAGCTCGGTCATTTTT 58.831 50.000 0.00 0.00 0.00 1.94
4837 5279 3.003480 GCTCAGCTCGGTCATTTTTAGT 58.997 45.455 0.00 0.00 0.00 2.24
4839 5281 4.245660 CTCAGCTCGGTCATTTTTAGTCA 58.754 43.478 0.00 0.00 0.00 3.41
4841 5283 5.245531 TCAGCTCGGTCATTTTTAGTCAAT 58.754 37.500 0.00 0.00 0.00 2.57
4872 5335 1.820519 AGCCACCATTTGTACAGCATG 59.179 47.619 9.26 9.26 46.00 4.06
4874 5337 2.415893 GCCACCATTTGTACAGCATGAC 60.416 50.000 15.46 0.00 39.69 3.06
4875 5338 2.159531 CCACCATTTGTACAGCATGACG 60.160 50.000 15.46 8.03 39.69 4.35
4876 5339 2.483877 CACCATTTGTACAGCATGACGT 59.516 45.455 15.46 0.00 39.69 4.34
4878 5341 3.568007 ACCATTTGTACAGCATGACGTTT 59.432 39.130 15.46 0.00 39.69 3.60
4879 5342 3.913763 CCATTTGTACAGCATGACGTTTG 59.086 43.478 15.46 0.00 39.69 2.93
4881 5344 3.600717 TTGTACAGCATGACGTTTGTG 57.399 42.857 0.00 0.00 39.69 3.33
4882 5345 1.262950 TGTACAGCATGACGTTTGTGC 59.737 47.619 11.36 11.36 39.69 4.57
4883 5346 0.871722 TACAGCATGACGTTTGTGCC 59.128 50.000 14.50 1.46 39.69 5.01
4884 5347 1.440850 CAGCATGACGTTTGTGCCG 60.441 57.895 14.50 4.01 39.69 5.69
4885 5348 1.596752 AGCATGACGTTTGTGCCGA 60.597 52.632 14.50 0.00 39.62 5.54
4888 5351 0.110688 CATGACGTTTGTGCCGACAG 60.111 55.000 0.00 0.00 33.92 3.51
4889 5352 0.249699 ATGACGTTTGTGCCGACAGA 60.250 50.000 0.00 0.00 33.92 3.41
4890 5353 0.460459 TGACGTTTGTGCCGACAGAA 60.460 50.000 0.00 0.00 32.26 3.02
4891 5354 0.865769 GACGTTTGTGCCGACAGAAT 59.134 50.000 0.00 0.00 32.26 2.40
4893 5356 2.066262 ACGTTTGTGCCGACAGAATAG 58.934 47.619 0.00 0.00 32.26 1.73
4894 5357 2.288579 ACGTTTGTGCCGACAGAATAGA 60.289 45.455 0.00 0.00 32.26 1.98
4895 5358 2.345641 CGTTTGTGCCGACAGAATAGAG 59.654 50.000 0.00 0.00 32.26 2.43
4897 5360 4.491676 GTTTGTGCCGACAGAATAGAGTA 58.508 43.478 0.00 0.00 32.26 2.59
4899 5362 3.353557 TGTGCCGACAGAATAGAGTAGT 58.646 45.455 0.00 0.00 0.00 2.73
4900 5363 4.520179 TGTGCCGACAGAATAGAGTAGTA 58.480 43.478 0.00 0.00 0.00 1.82
4901 5364 4.575236 TGTGCCGACAGAATAGAGTAGTAG 59.425 45.833 0.00 0.00 0.00 2.57
4902 5365 3.564644 TGCCGACAGAATAGAGTAGTAGC 59.435 47.826 0.00 0.00 0.00 3.58
4966 5483 4.722700 GGGCGCACACCTGTCCAT 62.723 66.667 10.83 0.00 0.00 3.41
4967 5484 3.434319 GGCGCACACCTGTCCATG 61.434 66.667 10.83 0.00 0.00 3.66
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 8.438676 AGCTAAGCTAATGGTGTTTATTACTG 57.561 34.615 0.00 0.00 36.99 2.74
3 4 9.052759 GCTAAGCTAAGCTAATGGTGTTTATTA 57.947 33.333 0.00 0.00 38.25 0.98
4 5 7.931275 GCTAAGCTAAGCTAATGGTGTTTATT 58.069 34.615 0.00 0.00 38.25 1.40
5 6 7.497925 GCTAAGCTAAGCTAATGGTGTTTAT 57.502 36.000 0.00 0.00 38.25 1.40
6 7 6.920569 GCTAAGCTAAGCTAATGGTGTTTA 57.079 37.500 0.00 0.00 38.25 2.01
7 8 5.819825 GCTAAGCTAAGCTAATGGTGTTT 57.180 39.130 0.00 0.00 38.25 2.83
18 19 2.919859 GCAAAGCAAAGCTAAGCTAAGC 59.080 45.455 12.62 14.52 40.90 3.09
19 20 4.431661 AGCAAAGCAAAGCTAAGCTAAG 57.568 40.909 12.62 9.55 43.48 2.18
20 21 4.520492 AGAAGCAAAGCAAAGCTAAGCTAA 59.480 37.500 12.62 0.00 44.14 3.09
21 22 4.074970 AGAAGCAAAGCAAAGCTAAGCTA 58.925 39.130 12.62 0.00 44.14 3.32
22 23 2.889678 AGAAGCAAAGCAAAGCTAAGCT 59.110 40.909 6.98 6.98 45.84 3.74
23 24 3.294816 AGAAGCAAAGCAAAGCTAAGC 57.705 42.857 2.25 2.25 40.90 3.09
24 25 4.446719 CCAAAGAAGCAAAGCAAAGCTAAG 59.553 41.667 0.00 0.00 40.90 2.18
25 26 4.370917 CCAAAGAAGCAAAGCAAAGCTAA 58.629 39.130 0.00 0.00 40.90 3.09
26 27 3.799917 GCCAAAGAAGCAAAGCAAAGCTA 60.800 43.478 0.00 0.00 40.90 3.32
27 28 2.830104 CCAAAGAAGCAAAGCAAAGCT 58.170 42.857 0.00 0.00 44.31 3.74
259 316 3.933048 GAGGGGACGGACGGACTGA 62.933 68.421 0.00 0.00 0.00 3.41
260 317 3.450115 GAGGGGACGGACGGACTG 61.450 72.222 0.00 0.00 0.00 3.51
261 318 4.755507 GGAGGGGACGGACGGACT 62.756 72.222 0.00 0.00 0.00 3.85
263 320 4.437587 GAGGAGGGGACGGACGGA 62.438 72.222 0.00 0.00 0.00 4.69
327 388 4.374702 GCAACACGGTGCTCTGCG 62.375 66.667 8.30 0.00 41.51 5.18
386 532 4.141041 TGGGAGAAAGGAAGTGAATCCAAA 60.141 41.667 0.00 0.00 42.27 3.28
416 562 3.700943 AATGGGGGAGGGGATGGCT 62.701 63.158 0.00 0.00 0.00 4.75
421 567 1.863581 GGAAATAAATGGGGGAGGGGA 59.136 52.381 0.00 0.00 0.00 4.81
575 732 3.814577 GCACGAGCCTGTAAAGAGA 57.185 52.632 0.00 0.00 33.58 3.10
593 750 3.747976 CCAAAAAGAGGCCGGCGG 61.748 66.667 24.35 24.35 0.00 6.13
631 788 2.015587 GCAAGATTCAGGAAGCAGAGG 58.984 52.381 0.00 0.00 0.00 3.69
635 792 0.324614 TCCGCAAGATTCAGGAAGCA 59.675 50.000 0.00 0.00 43.02 3.91
637 794 1.002366 CGTCCGCAAGATTCAGGAAG 58.998 55.000 0.00 0.00 43.02 3.46
652 809 2.182030 CGGAAGCAGAGACCGTCC 59.818 66.667 0.00 0.00 41.47 4.79
656 813 1.000955 TCAAGAACGGAAGCAGAGACC 59.999 52.381 0.00 0.00 0.00 3.85
683 840 2.310286 CGTATTTGGGGGTGGGGGA 61.310 63.158 0.00 0.00 0.00 4.81
709 866 0.400594 ACGGGGAAAAGAAGGACCAG 59.599 55.000 0.00 0.00 0.00 4.00
845 1004 0.391228 GCGGATTCTTCCTCTCCCTC 59.609 60.000 0.00 0.00 40.17 4.30
980 1154 5.993055 TCATTGTCTCAATGCTTCCTCATA 58.007 37.500 15.04 0.00 0.00 2.15
1095 1277 4.759183 AGAAACAAAGCAAGATCAGAGACC 59.241 41.667 0.00 0.00 0.00 3.85
1114 1296 1.153539 TCCCCCACACCAATCAGAAA 58.846 50.000 0.00 0.00 0.00 2.52
1188 1370 1.032114 CCGAATGGAAGTCCTTGGCC 61.032 60.000 0.00 0.00 37.49 5.36
1231 1413 4.997395 GTCTGAAGTTAACAGCTGAATGGA 59.003 41.667 23.35 3.02 35.61 3.41
1234 1416 7.573968 AAAAGTCTGAAGTTAACAGCTGAAT 57.426 32.000 23.35 11.42 35.61 2.57
1235 1417 7.391148 AAAAAGTCTGAAGTTAACAGCTGAA 57.609 32.000 23.35 4.90 35.61 3.02
1274 1456 1.896220 TGTGATCCAACAGCCAGAAC 58.104 50.000 0.00 0.00 0.00 3.01
1275 1457 2.885135 ATGTGATCCAACAGCCAGAA 57.115 45.000 0.00 0.00 32.52 3.02
1276 1458 3.998913 TTATGTGATCCAACAGCCAGA 57.001 42.857 0.00 0.00 32.52 3.86
1292 1474 7.116805 GCTTCTGGAAACAACAGGAAATTTATG 59.883 37.037 0.00 0.00 42.06 1.90
1335 1517 0.598562 ACACTACACGTGAGCAGGAG 59.401 55.000 25.01 14.14 46.81 3.69
1388 1572 3.213206 AGGTCTCAAGCATGTGTTTGA 57.787 42.857 11.03 11.03 41.77 2.69
1457 1641 3.010027 TGCATCCCCACTGAAATAGTCAA 59.990 43.478 0.00 0.00 37.60 3.18
1510 1694 2.039480 TCTGCTCTTCTTGGTCTTGCAT 59.961 45.455 0.00 0.00 0.00 3.96
1578 1762 8.296713 GGTGAAAAATCTGAAAATGCAGTAGTA 58.703 33.333 0.00 0.00 37.20 1.82
1579 1763 7.147976 GGTGAAAAATCTGAAAATGCAGTAGT 58.852 34.615 0.00 0.00 37.20 2.73
1580 1764 6.587608 GGGTGAAAAATCTGAAAATGCAGTAG 59.412 38.462 0.00 0.00 37.20 2.57
1581 1765 6.454795 GGGTGAAAAATCTGAAAATGCAGTA 58.545 36.000 0.00 0.00 37.20 2.74
1606 1790 1.864082 CAATTTTGCACCCACGGAAAC 59.136 47.619 0.00 0.00 0.00 2.78
1612 1796 1.667510 CGGCCAATTTTGCACCCAC 60.668 57.895 2.24 0.00 0.00 4.61
1627 1811 1.175983 TGGACACCATTTTGACCGGC 61.176 55.000 0.00 0.00 34.41 6.13
1636 1820 0.975887 GTTGGGCATTGGACACCATT 59.024 50.000 0.00 0.00 31.53 3.16
1646 1830 5.079643 AGTTAATTCAGTCAGTTGGGCATT 58.920 37.500 0.00 0.00 0.00 3.56
1671 1855 3.165875 TCTCTAACAAGGAGGACAGGTG 58.834 50.000 0.00 0.00 0.00 4.00
1718 1905 0.039074 CGTTTCCTGCTCGACAGTCT 60.039 55.000 12.10 0.00 45.68 3.24
1789 1976 2.631418 ATCGGTCGTGTTGTACAGAG 57.369 50.000 0.00 0.00 0.00 3.35
1833 2020 4.219070 ACATGGATTGTCACATCAAACTGG 59.781 41.667 0.00 0.00 30.89 4.00
1982 2169 7.615582 TCAAGTAAATGCATGAGTTTAGAGG 57.384 36.000 0.00 0.00 0.00 3.69
2152 2342 5.323371 TCACAAGAGAAACCCACTTTTTG 57.677 39.130 0.00 0.00 0.00 2.44
2458 2648 0.105593 CATCATCAGAGGACCCACCG 59.894 60.000 0.00 0.00 44.74 4.94
2743 2943 8.207545 AGTTTCAGTTCAGAGAACTTTAGTCAT 58.792 33.333 9.53 0.00 0.00 3.06
2744 2944 7.556844 AGTTTCAGTTCAGAGAACTTTAGTCA 58.443 34.615 9.53 0.00 0.00 3.41
2745 2945 7.707035 TGAGTTTCAGTTCAGAGAACTTTAGTC 59.293 37.037 9.53 10.14 0.00 2.59
2746 2946 7.556844 TGAGTTTCAGTTCAGAGAACTTTAGT 58.443 34.615 9.53 2.23 0.00 2.24
2834 3034 0.107214 CACTCCGCACCCATACCATT 60.107 55.000 0.00 0.00 0.00 3.16
2897 3097 4.202545 CCAAGATATCCCATCAAGCCTCTT 60.203 45.833 0.00 0.00 0.00 2.85
3069 3286 2.762327 TGTCTGATGCAGAGACATGCTA 59.238 45.455 21.71 4.89 43.89 3.49
3117 3334 3.426695 CGCCATCTTTTTGACCTGATGTC 60.427 47.826 0.00 0.00 44.72 3.06
3180 3397 2.827921 AGCATGTGGGAATCTGGTTTTC 59.172 45.455 0.00 0.00 0.00 2.29
3277 3494 7.201350 CCATTTTCGCAGTTTTATTCTACTTGC 60.201 37.037 0.00 0.00 0.00 4.01
3489 3739 4.852134 AAATGTGATTGCAACAGTAGCA 57.148 36.364 0.00 0.00 40.85 3.49
3492 3742 4.749099 GCCAAAAATGTGATTGCAACAGTA 59.251 37.500 0.00 0.00 0.00 2.74
3493 3743 3.560896 GCCAAAAATGTGATTGCAACAGT 59.439 39.130 0.00 0.00 0.00 3.55
3496 3824 3.140623 AGGCCAAAAATGTGATTGCAAC 58.859 40.909 5.01 0.00 0.00 4.17
3510 3838 3.904717 TCAGGTAAGAAACAAGGCCAAA 58.095 40.909 5.01 0.00 0.00 3.28
3533 3861 3.004024 ACGAAGCTGTTGCAGAAAATG 57.996 42.857 0.00 0.00 42.74 2.32
3568 3896 4.936823 CCCGCGAATACCCGACCG 62.937 72.222 8.23 0.00 0.00 4.79
3598 3926 3.181437 ACGTGGGTGGAAAGTAAATCCTT 60.181 43.478 0.00 0.00 37.85 3.36
3607 3935 2.249844 ACTTGTACGTGGGTGGAAAG 57.750 50.000 0.00 0.00 0.00 2.62
3652 3980 4.760047 GGGTGCATGTCGTCGCCT 62.760 66.667 0.00 0.00 33.56 5.52
3661 3989 1.468565 CGCTTCTCATTTGGGTGCATG 60.469 52.381 0.00 0.00 0.00 4.06
3667 3995 0.253044 TCCTCCGCTTCTCATTTGGG 59.747 55.000 0.00 0.00 0.00 4.12
3720 4048 7.149307 TGCTTGGATGTAATAATGCATTGATG 58.851 34.615 22.27 0.00 31.47 3.07
3724 4052 7.014905 AGACATGCTTGGATGTAATAATGCATT 59.985 33.333 17.56 17.56 36.67 3.56
3748 4076 3.332968 AGGGTGTAAAAGGGGAAGAAGA 58.667 45.455 0.00 0.00 0.00 2.87
3800 4131 1.656095 CGATCGCACCTTCAGAAAGAC 59.344 52.381 0.26 0.00 34.14 3.01
3998 4329 2.851263 AACTGCGTGGATAAGTTGGA 57.149 45.000 0.00 0.00 33.01 3.53
4054 4385 3.753294 AGTATATGAACCTTGGCTCCG 57.247 47.619 0.00 0.00 0.00 4.63
4079 4410 5.570589 GCTTAAACAATGAGACAATGCAGTC 59.429 40.000 0.00 0.00 38.81 3.51
4145 4492 5.804473 GGAAGCTATGATGATGATGAGTACG 59.196 44.000 0.00 0.00 0.00 3.67
4208 4558 4.005650 TGAAGTTTCATCAGACATCAGGC 58.994 43.478 0.00 0.00 31.01 4.85
4217 4567 4.592942 TGGGAGGAATGAAGTTTCATCAG 58.407 43.478 7.74 0.00 46.60 2.90
4219 4569 5.256474 TCTTGGGAGGAATGAAGTTTCATC 58.744 41.667 7.74 2.80 46.60 2.92
4221 4571 4.722526 TCTTGGGAGGAATGAAGTTTCA 57.277 40.909 0.00 0.00 42.14 2.69
4222 4572 5.126222 GGAATCTTGGGAGGAATGAAGTTTC 59.874 44.000 0.00 0.00 0.00 2.78
4285 4638 3.130160 CGGAAAGGGCAGAGCAGC 61.130 66.667 0.00 0.00 0.00 5.25
4302 4655 2.545946 GAGGACACAAGAACTGAAGTGC 59.454 50.000 0.00 0.00 35.47 4.40
4307 4660 1.068588 CACCGAGGACACAAGAACTGA 59.931 52.381 0.00 0.00 0.00 3.41
4319 4672 2.022195 GTACTATCACAGCACCGAGGA 58.978 52.381 0.00 0.00 0.00 3.71
4373 4770 1.067776 CAACGGTCAGAGGTGAGGTAC 60.068 57.143 0.00 0.00 31.53 3.34
4374 4771 1.254026 CAACGGTCAGAGGTGAGGTA 58.746 55.000 0.00 0.00 31.53 3.08
4381 4778 0.036952 ATCTGCACAACGGTCAGAGG 60.037 55.000 4.01 0.00 39.82 3.69
4415 4812 4.706476 TGGAATTACAAGCCATCTTCTTGG 59.294 41.667 7.52 0.00 43.77 3.61
4426 4823 7.054751 ACCTACCTAAATCTGGAATTACAAGC 58.945 38.462 0.00 0.00 0.00 4.01
4452 4849 5.798125 AGTGCTAGTAGTGTATGCATCAT 57.202 39.130 0.19 0.00 36.04 2.45
4457 4854 6.524933 CGATATCAAGTGCTAGTAGTGTATGC 59.475 42.308 3.12 0.00 0.00 3.14
4467 4864 6.042777 TCTCCAAAACGATATCAAGTGCTAG 58.957 40.000 3.12 0.00 0.00 3.42
4487 4888 5.697178 GTCTTCCAGTTTTACACTTCTCTCC 59.303 44.000 0.00 0.00 30.92 3.71
4497 4899 4.704965 AGGTGTCAGTCTTCCAGTTTTAC 58.295 43.478 0.00 0.00 0.00 2.01
4508 4910 0.759346 GTGTGGGAAGGTGTCAGTCT 59.241 55.000 0.00 0.00 0.00 3.24
4509 4911 0.250338 GGTGTGGGAAGGTGTCAGTC 60.250 60.000 0.00 0.00 0.00 3.51
4513 4915 2.572104 AGAATAGGTGTGGGAAGGTGTC 59.428 50.000 0.00 0.00 0.00 3.67
4515 4917 2.840651 AGAGAATAGGTGTGGGAAGGTG 59.159 50.000 0.00 0.00 0.00 4.00
4528 4933 9.757227 CAAACCTTCCTGTAGAATAGAGAATAG 57.243 37.037 0.00 0.00 32.95 1.73
4530 4935 7.051000 GCAAACCTTCCTGTAGAATAGAGAAT 58.949 38.462 0.00 0.00 32.95 2.40
4531 4936 6.407202 GCAAACCTTCCTGTAGAATAGAGAA 58.593 40.000 0.00 0.00 32.95 2.87
4532 4937 5.394224 CGCAAACCTTCCTGTAGAATAGAGA 60.394 44.000 0.00 0.00 32.95 3.10
4533 4938 4.806247 CGCAAACCTTCCTGTAGAATAGAG 59.194 45.833 0.00 0.00 32.82 2.43
4534 4939 4.755411 CGCAAACCTTCCTGTAGAATAGA 58.245 43.478 0.00 0.00 32.82 1.98
4535 4940 3.309954 GCGCAAACCTTCCTGTAGAATAG 59.690 47.826 0.30 0.00 32.82 1.73
4536 4941 3.267483 GCGCAAACCTTCCTGTAGAATA 58.733 45.455 0.30 0.00 32.82 1.75
4537 4942 2.084546 GCGCAAACCTTCCTGTAGAAT 58.915 47.619 0.30 0.00 32.82 2.40
4538 4943 1.519408 GCGCAAACCTTCCTGTAGAA 58.481 50.000 0.30 0.00 0.00 2.10
4550 4955 1.721133 CAGAACGAACGGCGCAAAC 60.721 57.895 10.83 0.00 46.04 2.93
4595 5004 2.356075 CGTTTGTGTCCGCCCGTA 60.356 61.111 0.00 0.00 0.00 4.02
4601 5010 0.179161 TTTGGTTGCGTTTGTGTCCG 60.179 50.000 0.00 0.00 0.00 4.79
4605 5014 1.662629 TGCATTTTGGTTGCGTTTGTG 59.337 42.857 0.00 0.00 43.10 3.33
4606 5015 2.015736 TGCATTTTGGTTGCGTTTGT 57.984 40.000 0.00 0.00 43.10 2.83
4607 5016 2.606725 TCTTGCATTTTGGTTGCGTTTG 59.393 40.909 0.00 0.00 43.10 2.93
4608 5017 2.898705 TCTTGCATTTTGGTTGCGTTT 58.101 38.095 0.00 0.00 43.10 3.60
4609 5018 2.593346 TCTTGCATTTTGGTTGCGTT 57.407 40.000 0.00 0.00 43.10 4.84
4610 5019 2.818130 ATCTTGCATTTTGGTTGCGT 57.182 40.000 0.00 0.00 43.10 5.24
4611 5020 3.836949 ACTATCTTGCATTTTGGTTGCG 58.163 40.909 0.00 0.00 43.10 4.85
4615 5024 4.588528 ACCACAACTATCTTGCATTTTGGT 59.411 37.500 1.35 1.35 0.00 3.67
4619 5051 4.460382 CAGGACCACAACTATCTTGCATTT 59.540 41.667 0.00 0.00 0.00 2.32
4626 5058 5.738909 CTCAAATCAGGACCACAACTATCT 58.261 41.667 0.00 0.00 0.00 1.98
4629 5061 3.327757 AGCTCAAATCAGGACCACAACTA 59.672 43.478 0.00 0.00 0.00 2.24
4630 5062 2.107204 AGCTCAAATCAGGACCACAACT 59.893 45.455 0.00 0.00 0.00 3.16
4632 5064 2.957402 AGCTCAAATCAGGACCACAA 57.043 45.000 0.00 0.00 0.00 3.33
4634 5066 2.284190 GCTAGCTCAAATCAGGACCAC 58.716 52.381 7.70 0.00 0.00 4.16
4647 5079 1.264826 GGCTACTCGTACTGCTAGCTC 59.735 57.143 17.23 3.23 33.49 4.09
4654 5086 1.810755 TGTCAGTGGCTACTCGTACTG 59.189 52.381 0.00 0.00 41.34 2.74
4657 5089 0.809385 GCTGTCAGTGGCTACTCGTA 59.191 55.000 0.00 0.00 34.07 3.43
4658 5090 1.587054 GCTGTCAGTGGCTACTCGT 59.413 57.895 0.00 0.00 34.07 4.18
4659 5091 1.153745 GGCTGTCAGTGGCTACTCG 60.154 63.158 0.00 0.00 34.07 4.18
4712 5147 0.955905 CCGCTCGGGAAAAGGAAAAA 59.044 50.000 0.00 0.00 38.47 1.94
4716 5151 0.887387 CAAACCGCTCGGGAAAAGGA 60.887 55.000 13.31 0.00 39.97 3.36
4725 5160 1.284982 CCAGAGTCACAAACCGCTCG 61.285 60.000 0.00 0.00 33.57 5.03
4794 5236 1.726853 AGCGGCTCTTGTTACATCAC 58.273 50.000 0.00 0.00 0.00 3.06
4820 5262 6.640518 TCTATTGACTAAAAATGACCGAGCT 58.359 36.000 0.00 0.00 0.00 4.09
4829 5271 9.914131 GGCTGTTTCTTTCTATTGACTAAAAAT 57.086 29.630 0.00 0.00 0.00 1.82
4830 5272 8.908903 TGGCTGTTTCTTTCTATTGACTAAAAA 58.091 29.630 0.00 0.00 0.00 1.94
4831 5273 8.349983 GTGGCTGTTTCTTTCTATTGACTAAAA 58.650 33.333 0.00 0.00 0.00 1.52
4832 5274 7.040686 GGTGGCTGTTTCTTTCTATTGACTAAA 60.041 37.037 0.00 0.00 0.00 1.85
4833 5275 6.430000 GGTGGCTGTTTCTTTCTATTGACTAA 59.570 38.462 0.00 0.00 0.00 2.24
4834 5276 5.938125 GGTGGCTGTTTCTTTCTATTGACTA 59.062 40.000 0.00 0.00 0.00 2.59
4837 5279 4.724399 TGGTGGCTGTTTCTTTCTATTGA 58.276 39.130 0.00 0.00 0.00 2.57
4839 5281 6.041979 ACAAATGGTGGCTGTTTCTTTCTATT 59.958 34.615 0.00 0.00 0.00 1.73
4841 5283 4.892934 ACAAATGGTGGCTGTTTCTTTCTA 59.107 37.500 0.00 0.00 0.00 2.10
4872 5335 0.865769 ATTCTGTCGGCACAAACGTC 59.134 50.000 0.00 0.00 29.82 4.34
4874 5337 2.333926 TCTATTCTGTCGGCACAAACG 58.666 47.619 0.00 0.00 29.82 3.60
4875 5338 3.326747 ACTCTATTCTGTCGGCACAAAC 58.673 45.455 0.00 0.00 29.82 2.93
4876 5339 3.678056 ACTCTATTCTGTCGGCACAAA 57.322 42.857 0.00 0.00 29.82 2.83
4878 5341 3.353557 ACTACTCTATTCTGTCGGCACA 58.646 45.455 0.00 0.00 0.00 4.57
4879 5342 4.555116 GCTACTACTCTATTCTGTCGGCAC 60.555 50.000 0.00 0.00 0.00 5.01
4881 5344 3.564644 TGCTACTACTCTATTCTGTCGGC 59.435 47.826 0.00 0.00 0.00 5.54
4882 5345 4.817464 AGTGCTACTACTCTATTCTGTCGG 59.183 45.833 0.00 0.00 0.00 4.79
4883 5346 5.277586 CCAGTGCTACTACTCTATTCTGTCG 60.278 48.000 0.00 0.00 0.00 4.35
4884 5347 5.823570 TCCAGTGCTACTACTCTATTCTGTC 59.176 44.000 0.00 0.00 0.00 3.51
4885 5348 5.756918 TCCAGTGCTACTACTCTATTCTGT 58.243 41.667 0.00 0.00 0.00 3.41
4888 5351 6.067263 CACTCCAGTGCTACTACTCTATTC 57.933 45.833 0.00 0.00 39.39 1.75
4959 5476 0.457853 GCACAAGCATGCATGGACAG 60.458 55.000 27.34 13.53 45.39 3.51
4964 5481 2.126267 TGCGCACAAGCATGCATG 60.126 55.556 22.70 22.70 46.47 4.06


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

AutoCloner maintained by Alex Coulton.