Multiple sequence alignment - TraesCS6A01G283800

Loading Multiple Alignment...

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 TraesCS6A01G283800 chr6A 100.000 5087 0 0 1 5087 515027038 515032124 0.000000e+00 9395
1 TraesCS6A01G283800 chr6A 96.006 651 26 0 1 651 514961664 514962314 0.000000e+00 1059
2 TraesCS6A01G283800 chr6A 95.545 651 28 1 1 651 340384450 340385099 0.000000e+00 1040
3 TraesCS6A01G283800 chr6D 93.720 4124 167 34 649 4736 372944631 372948698 0.000000e+00 6096
4 TraesCS6A01G283800 chr6D 91.500 200 9 4 4891 5086 372949187 372949382 8.400000e-68 268
5 TraesCS6A01G283800 chr6B 92.968 1806 86 15 799 2589 558930105 558928326 0.000000e+00 2593
6 TraesCS6A01G283800 chr6B 93.906 1362 71 9 3055 4414 558927801 558926450 0.000000e+00 2045
7 TraesCS6A01G283800 chr6B 95.215 418 16 3 2588 3005 558928202 558927789 0.000000e+00 658
8 TraesCS6A01G283800 chr6B 84.138 145 14 7 4935 5077 558926437 558926300 1.150000e-26 132
9 TraesCS6A01G283800 chr5D 87.203 1219 111 20 1793 2985 174307385 174308584 0.000000e+00 1345
10 TraesCS6A01G283800 chr5D 86.381 1028 98 20 3210 4216 174312370 174313376 0.000000e+00 1085
11 TraesCS6A01G283800 chr5D 77.143 315 36 17 4363 4671 174316134 174316418 3.170000e-32 150
12 TraesCS6A01G283800 chr1A 96.006 651 26 0 1 651 252317516 252316866 0.000000e+00 1059
13 TraesCS6A01G283800 chr1A 95.238 651 31 0 1 651 136887549 136888199 0.000000e+00 1031
14 TraesCS6A01G283800 chr4A 95.699 651 28 0 1 651 640392892 640393542 0.000000e+00 1048
15 TraesCS6A01G283800 chr7A 95.238 651 31 0 1 651 553302518 553301868 0.000000e+00 1031
16 TraesCS6A01G283800 chr2A 95.238 651 31 0 1 651 360655235 360654585 0.000000e+00 1031
17 TraesCS6A01G283800 chr2A 95.238 651 31 0 1 651 517191098 517191748 0.000000e+00 1031
18 TraesCS6A01G283800 chr5A 95.084 651 32 0 1 651 643965114 643965764 0.000000e+00 1026
19 TraesCS6A01G283800 chr5A 87.300 874 83 17 1469 2317 198142555 198143425 0.000000e+00 974
20 TraesCS6A01G283800 chr5A 92.225 373 25 1 929 1297 198141615 198141987 4.510000e-145 525
21 TraesCS6A01G283800 chr5A 89.744 273 25 2 2315 2585 198143768 198144039 3.770000e-91 346
22 TraesCS6A01G283800 chr2B 77.461 843 110 34 1945 2734 625008107 625007292 1.010000e-116 431
23 TraesCS6A01G283800 chr2B 83.333 192 23 7 1938 2123 535563454 535563266 8.760000e-38 169


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 TraesCS6A01G283800 chr6A 515027038 515032124 5086 False 9395 9395 100.000000 1 5087 1 chr6A.!!$F3 5086
1 TraesCS6A01G283800 chr6A 514961664 514962314 650 False 1059 1059 96.006000 1 651 1 chr6A.!!$F2 650
2 TraesCS6A01G283800 chr6A 340384450 340385099 649 False 1040 1040 95.545000 1 651 1 chr6A.!!$F1 650
3 TraesCS6A01G283800 chr6D 372944631 372949382 4751 False 3182 6096 92.610000 649 5086 2 chr6D.!!$F1 4437
4 TraesCS6A01G283800 chr6B 558926300 558930105 3805 True 1357 2593 91.556750 799 5077 4 chr6B.!!$R1 4278
5 TraesCS6A01G283800 chr5D 174307385 174316418 9033 False 860 1345 83.575667 1793 4671 3 chr5D.!!$F1 2878
6 TraesCS6A01G283800 chr1A 252316866 252317516 650 True 1059 1059 96.006000 1 651 1 chr1A.!!$R1 650
7 TraesCS6A01G283800 chr1A 136887549 136888199 650 False 1031 1031 95.238000 1 651 1 chr1A.!!$F1 650
8 TraesCS6A01G283800 chr4A 640392892 640393542 650 False 1048 1048 95.699000 1 651 1 chr4A.!!$F1 650
9 TraesCS6A01G283800 chr7A 553301868 553302518 650 True 1031 1031 95.238000 1 651 1 chr7A.!!$R1 650
10 TraesCS6A01G283800 chr2A 360654585 360655235 650 True 1031 1031 95.238000 1 651 1 chr2A.!!$R1 650
11 TraesCS6A01G283800 chr2A 517191098 517191748 650 False 1031 1031 95.238000 1 651 1 chr2A.!!$F1 650
12 TraesCS6A01G283800 chr5A 643965114 643965764 650 False 1026 1026 95.084000 1 651 1 chr5A.!!$F1 650
13 TraesCS6A01G283800 chr5A 198141615 198144039 2424 False 615 974 89.756333 929 2585 3 chr5A.!!$F2 1656
14 TraesCS6A01G283800 chr2B 625007292 625008107 815 True 431 431 77.461000 1945 2734 1 chr2B.!!$R2 789

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
643 644 0.245539 CCACCAAGAGGCTTTGCATG 59.754 55.0 0.00 0.0 39.06 4.06 F
660 661 0.392461 ATGTGGCGCTATGAACCGTT 60.392 50.0 7.64 0.0 0.00 4.44 F
1722 2181 0.701147 AGGGAAAGCAAGAAGAGGGG 59.299 55.0 0.00 0.0 0.00 4.79 F
3163 7634 0.767375 TTTGCCTGCTCTGTCTCCTT 59.233 50.0 0.00 0.0 0.00 3.36 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1686 2145 0.904649 CCTGCCTATCTCCACACACA 59.095 55.000 0.0 0.0 0.00 3.72 R
1997 2461 1.405526 GGTCATCGCACTAGCCTTTCA 60.406 52.381 0.0 0.0 37.52 2.69 R
3187 7658 0.106419 ACCCGAACACACCACCAAAT 60.106 50.000 0.0 0.0 0.00 2.32 R
4756 12005 0.101219 GGAATTGATTGCACGGAGCC 59.899 55.000 0.0 0.0 44.83 4.70 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
214 215 8.260114 TGAAGACTATCAAACTCATATGCTTCA 58.740 33.333 0.00 0.00 35.78 3.02
493 494 4.580580 GGAGGTGTTGAGTCAAACTTGAAT 59.419 41.667 7.25 0.00 39.21 2.57
622 623 4.558697 GCAAGGTTGTGAATCCTGTTTACC 60.559 45.833 0.00 0.00 33.97 2.85
643 644 0.245539 CCACCAAGAGGCTTTGCATG 59.754 55.000 0.00 0.00 39.06 4.06
660 661 0.392461 ATGTGGCGCTATGAACCGTT 60.392 50.000 7.64 0.00 0.00 4.44
715 716 8.902540 AATTTGTCCCACTTTTCCTTAATTTC 57.097 30.769 0.00 0.00 0.00 2.17
717 718 7.669089 TTGTCCCACTTTTCCTTAATTTCTT 57.331 32.000 0.00 0.00 0.00 2.52
745 746 6.825721 TCATTTGCCCTAATTTGTGTTTTTGT 59.174 30.769 0.00 0.00 0.00 2.83
758 759 9.965748 ATTTGTGTTTTTGTTGATTTCTTAACG 57.034 25.926 0.00 0.00 0.00 3.18
771 772 8.631676 TGATTTCTTAACGTTTTAACCCAAAC 57.368 30.769 5.91 0.00 33.90 2.93
772 773 7.705752 TGATTTCTTAACGTTTTAACCCAAACC 59.294 33.333 5.91 0.00 33.71 3.27
773 774 6.521151 TTCTTAACGTTTTAACCCAAACCA 57.479 33.333 5.91 0.00 33.71 3.67
774 775 6.712179 TCTTAACGTTTTAACCCAAACCAT 57.288 33.333 5.91 0.00 33.71 3.55
775 776 6.737118 TCTTAACGTTTTAACCCAAACCATC 58.263 36.000 5.91 0.00 33.71 3.51
776 777 3.629438 ACGTTTTAACCCAAACCATCG 57.371 42.857 0.00 0.00 33.71 3.84
777 778 2.293955 ACGTTTTAACCCAAACCATCGG 59.706 45.455 0.00 0.00 33.71 4.18
778 779 2.293955 CGTTTTAACCCAAACCATCGGT 59.706 45.455 0.00 0.00 37.65 4.69
779 780 3.501445 CGTTTTAACCCAAACCATCGGTA 59.499 43.478 0.00 0.00 33.12 4.02
780 781 4.613394 CGTTTTAACCCAAACCATCGGTAC 60.613 45.833 0.00 0.00 33.12 3.34
781 782 4.613394 GTTTTAACCCAAACCATCGGTACG 60.613 45.833 0.00 0.00 41.10 3.67
828 829 0.834687 GGCCCATATACCCTCGTGGA 60.835 60.000 4.76 0.00 38.00 4.02
843 844 5.120053 CCCTCGTGGAAATTTTGCAATTTAC 59.880 40.000 4.76 0.00 41.79 2.01
845 846 5.601662 TCGTGGAAATTTTGCAATTTACCA 58.398 33.333 4.81 6.33 41.14 3.25
980 988 2.076207 AAAAACCCCACCACCACTAC 57.924 50.000 0.00 0.00 0.00 2.73
984 992 2.602676 CCCCACCACCACTACCCTG 61.603 68.421 0.00 0.00 0.00 4.45
1014 1022 4.301027 GCTATGCGGCGGCTACCT 62.301 66.667 17.76 2.56 40.82 3.08
1020 1028 4.514577 CGGCGGCTACCTCTGTGG 62.515 72.222 7.61 0.00 42.93 4.17
1021 1029 3.075005 GGCGGCTACCTCTGTGGA 61.075 66.667 0.00 0.00 39.71 4.02
1345 1377 3.449018 ACTAGCGTTGAGGAGATCACATT 59.551 43.478 0.00 0.00 37.77 2.71
1360 1392 2.034879 CATTCGTTGGCTGCCGTCT 61.035 57.895 14.98 0.00 0.00 4.18
1411 1450 9.154847 GTACTGGTATAGATAACAAACGGTTTT 57.845 33.333 2.79 0.00 40.96 2.43
1426 1465 4.081406 ACGGTTTTAAGGTATTTGTCCCC 58.919 43.478 0.00 0.00 0.00 4.81
1517 1975 7.395190 TTTGTAAATCTGGAACCATGAGATG 57.605 36.000 0.00 0.00 0.00 2.90
1597 2055 3.861846 ACAGACTAGCCCATATCATCCA 58.138 45.455 0.00 0.00 0.00 3.41
1686 2145 3.117131 GGGTTGGATGGGTAAGATGGATT 60.117 47.826 0.00 0.00 0.00 3.01
1722 2181 0.701147 AGGGAAAGCAAGAAGAGGGG 59.299 55.000 0.00 0.00 0.00 4.79
1870 2332 1.253100 TTGGGCAAAGAATCGAACCC 58.747 50.000 0.00 0.00 37.88 4.11
1980 2444 3.211232 TGGGGAGGAACCTATATCTTCCA 59.789 47.826 6.96 0.00 43.03 3.53
1983 2447 6.213525 GGGGAGGAACCTATATCTTCCATAT 58.786 44.000 6.96 0.00 43.03 1.78
2329 3162 5.861787 GGCTACATGGTATTTGTTTGTTGAC 59.138 40.000 0.00 0.00 0.00 3.18
2480 3315 4.120589 CAAGGTTATTTCTCGGCTCTACC 58.879 47.826 0.00 0.00 0.00 3.18
2523 3358 2.287849 GCCTTGTTGACTGCTTTCCTTC 60.288 50.000 0.00 0.00 0.00 3.46
2530 3365 3.884895 TGACTGCTTTCCTTCTCACAAA 58.115 40.909 0.00 0.00 0.00 2.83
2622 3594 4.209538 TCATATCAATGGGCTTTGGTCAG 58.790 43.478 1.86 0.00 33.61 3.51
2768 3740 4.141482 GGGGCTGTTTGAACCTGATATCTA 60.141 45.833 3.98 0.00 0.00 1.98
2950 3924 6.250089 GTGAAAAGTCTGTTTTGCCATTTTG 58.750 36.000 0.00 0.00 0.00 2.44
3005 7476 5.626543 CACAAAGTAGACATGCACAACAATC 59.373 40.000 0.00 0.00 0.00 2.67
3006 7477 5.532406 ACAAAGTAGACATGCACAACAATCT 59.468 36.000 0.00 0.00 33.56 2.40
3068 7539 8.984764 CCAAATAGATGGCATCACAAATAATTG 58.015 33.333 27.93 18.33 36.77 2.32
3120 7591 5.458779 GTGTGTTTACAAGTTCAAAGATGCC 59.541 40.000 0.00 0.00 38.82 4.40
3163 7634 0.767375 TTTGCCTGCTCTGTCTCCTT 59.233 50.000 0.00 0.00 0.00 3.36
3206 7787 0.106419 ATTTGGTGGTGTGTTCGGGT 60.106 50.000 0.00 0.00 0.00 5.28
3348 7942 5.937540 ACTCATACCAAATGAACATCGACAA 59.062 36.000 0.00 0.00 0.00 3.18
3395 7989 7.475771 TTTGAACATAACAAATGAACCAAGC 57.524 32.000 0.00 0.00 33.25 4.01
3403 7997 3.055675 ACAAATGAACCAAGCATCCATGG 60.056 43.478 4.97 4.97 42.60 3.66
3431 8025 1.021390 CACGCTAACTTCAGGCCCTG 61.021 60.000 3.69 3.69 0.00 4.45
3662 8257 4.817318 TTGGTGAAATTTATGAAGGGGC 57.183 40.909 0.00 0.00 0.00 5.80
3697 8310 2.094286 CCGTTTTCTGCATGGCCATTTA 60.094 45.455 17.92 7.03 0.00 1.40
3715 8330 5.700373 CCATTTATTTGTTCAAACCCACCTG 59.300 40.000 0.00 0.00 0.00 4.00
3990 8605 1.207329 GCCCACTCGTTCTACCTGAAT 59.793 52.381 0.00 0.00 36.99 2.57
4106 8721 1.558294 AGCAGAGATGTGAAGCCATCA 59.442 47.619 4.20 0.00 43.00 3.07
4156 8771 2.180276 ACCTGAAACTACTGCCGAGAT 58.820 47.619 0.00 0.00 0.00 2.75
4182 8797 3.236896 ACTACGAGTTCTTTCTTCCCCA 58.763 45.455 0.00 0.00 0.00 4.96
4184 8799 1.766496 ACGAGTTCTTTCTTCCCCACA 59.234 47.619 0.00 0.00 0.00 4.17
4185 8800 2.372172 ACGAGTTCTTTCTTCCCCACAT 59.628 45.455 0.00 0.00 0.00 3.21
4226 8841 3.031013 CCTGGAAAAACAACCCTGAGTT 58.969 45.455 0.00 0.00 40.16 3.01
4275 8890 6.153680 TGGTTGTTCATCCTACTTGTTTTGTT 59.846 34.615 2.30 0.00 0.00 2.83
4294 8909 3.243941 TGTTGTAGCCGTAGCAAAGAAGA 60.244 43.478 0.00 0.00 43.56 2.87
4347 8971 2.952310 AGATCCGGGCAAAGCTTTAATC 59.048 45.455 12.25 8.21 0.00 1.75
4460 11687 5.139727 ACTTGTTTTGGATCCTGATGACAA 58.860 37.500 14.23 14.37 0.00 3.18
4461 11688 5.776716 ACTTGTTTTGGATCCTGATGACAAT 59.223 36.000 14.23 5.22 0.00 2.71
4462 11689 6.268387 ACTTGTTTTGGATCCTGATGACAATT 59.732 34.615 14.23 8.29 0.00 2.32
4463 11690 6.028146 TGTTTTGGATCCTGATGACAATTG 57.972 37.500 14.23 3.24 0.00 2.32
4464 11691 5.774184 TGTTTTGGATCCTGATGACAATTGA 59.226 36.000 13.59 0.00 0.00 2.57
4465 11692 5.902613 TTTGGATCCTGATGACAATTGAC 57.097 39.130 13.59 6.72 0.00 3.18
4523 11756 2.263945 GTGGTGTTTTGGTGTTTTCCG 58.736 47.619 0.00 0.00 0.00 4.30
4554 11787 4.097741 TGATGGCTGTAAATCGGAAAATGG 59.902 41.667 0.00 0.00 0.00 3.16
4555 11788 3.426615 TGGCTGTAAATCGGAAAATGGT 58.573 40.909 0.00 0.00 0.00 3.55
4556 11789 4.590918 TGGCTGTAAATCGGAAAATGGTA 58.409 39.130 0.00 0.00 0.00 3.25
4565 11798 6.749036 AATCGGAAAATGGTAGTATCTCCT 57.251 37.500 0.00 0.00 0.00 3.69
4579 11812 8.356657 GGTAGTATCTCCTTGCATATATAGCTG 58.643 40.741 0.00 0.00 0.00 4.24
4581 11814 8.601047 AGTATCTCCTTGCATATATAGCTGAA 57.399 34.615 0.00 0.00 0.00 3.02
4582 11815 9.040259 AGTATCTCCTTGCATATATAGCTGAAA 57.960 33.333 0.00 0.00 0.00 2.69
4583 11816 9.658799 GTATCTCCTTGCATATATAGCTGAAAA 57.341 33.333 0.00 0.00 0.00 2.29
4585 11818 9.750783 ATCTCCTTGCATATATAGCTGAAAATT 57.249 29.630 0.00 0.00 0.00 1.82
4586 11819 9.006839 TCTCCTTGCATATATAGCTGAAAATTG 57.993 33.333 0.00 0.00 0.00 2.32
4587 11820 8.114331 TCCTTGCATATATAGCTGAAAATTGG 57.886 34.615 0.00 0.00 0.00 3.16
4590 11837 6.680810 TGCATATATAGCTGAAAATTGGCAC 58.319 36.000 0.00 0.00 0.00 5.01
4628 11875 1.337167 GCTGAAAATTGGCTCCCACAC 60.337 52.381 0.00 0.00 30.78 3.82
4630 11877 2.229784 CTGAAAATTGGCTCCCACACTC 59.770 50.000 0.00 0.00 30.78 3.51
4631 11878 2.158475 TGAAAATTGGCTCCCACACTCT 60.158 45.455 0.00 0.00 30.78 3.24
4633 11880 2.789409 AATTGGCTCCCACACTCTAC 57.211 50.000 0.00 0.00 30.78 2.59
4634 11881 1.958288 ATTGGCTCCCACACTCTACT 58.042 50.000 0.00 0.00 30.78 2.57
4635 11882 1.267121 TTGGCTCCCACACTCTACTC 58.733 55.000 0.00 0.00 30.78 2.59
4657 11906 1.112113 AGATGATACCTTGACGCGGT 58.888 50.000 12.47 0.00 38.55 5.68
4744 11993 9.543018 GAACTAAAACTGAAAATAGATGAACGG 57.457 33.333 0.00 0.00 0.00 4.44
4745 11994 8.040716 ACTAAAACTGAAAATAGATGAACGGG 57.959 34.615 0.00 0.00 0.00 5.28
4746 11995 6.894339 AAAACTGAAAATAGATGAACGGGT 57.106 33.333 0.00 0.00 0.00 5.28
4747 11996 5.880054 AACTGAAAATAGATGAACGGGTG 57.120 39.130 0.00 0.00 0.00 4.61
4748 11997 4.261801 ACTGAAAATAGATGAACGGGTGG 58.738 43.478 0.00 0.00 0.00 4.61
4749 11998 3.013921 TGAAAATAGATGAACGGGTGGC 58.986 45.455 0.00 0.00 0.00 5.01
4750 11999 3.279434 GAAAATAGATGAACGGGTGGCT 58.721 45.455 0.00 0.00 0.00 4.75
4751 12000 2.332063 AATAGATGAACGGGTGGCTG 57.668 50.000 0.00 0.00 0.00 4.85
4752 12001 1.496060 ATAGATGAACGGGTGGCTGA 58.504 50.000 0.00 0.00 0.00 4.26
4755 12004 1.017387 GATGAACGGGTGGCTGAATC 58.983 55.000 0.00 0.00 0.00 2.52
4756 12005 0.744414 ATGAACGGGTGGCTGAATCG 60.744 55.000 0.00 0.00 0.00 3.34
4757 12006 2.046314 AACGGGTGGCTGAATCGG 60.046 61.111 0.00 0.00 0.00 4.18
4758 12007 4.778143 ACGGGTGGCTGAATCGGC 62.778 66.667 5.30 5.30 34.56 5.54
4759 12008 4.473520 CGGGTGGCTGAATCGGCT 62.474 66.667 14.30 0.00 35.82 5.52
4760 12009 2.514824 GGGTGGCTGAATCGGCTC 60.515 66.667 14.30 7.52 35.82 4.70
4761 12010 2.514824 GGTGGCTGAATCGGCTCC 60.515 66.667 14.30 12.58 35.82 4.70
4762 12011 2.892425 GTGGCTGAATCGGCTCCG 60.892 66.667 14.30 1.14 35.82 4.63
4763 12012 3.390521 TGGCTGAATCGGCTCCGT 61.391 61.111 14.30 0.00 40.74 4.69
4764 12013 2.892425 GGCTGAATCGGCTCCGTG 60.892 66.667 14.30 0.00 40.74 4.94
4765 12014 3.567797 GCTGAATCGGCTCCGTGC 61.568 66.667 6.84 3.38 40.74 5.34
4767 12016 1.741401 CTGAATCGGCTCCGTGCAA 60.741 57.895 8.28 0.00 45.15 4.08
4769 12018 1.089481 TGAATCGGCTCCGTGCAATC 61.089 55.000 8.28 2.32 45.15 2.67
4770 12019 1.078497 AATCGGCTCCGTGCAATCA 60.078 52.632 8.28 0.00 45.15 2.57
4772 12021 0.464373 ATCGGCTCCGTGCAATCAAT 60.464 50.000 8.28 0.00 45.15 2.57
4773 12022 0.676466 TCGGCTCCGTGCAATCAATT 60.676 50.000 8.28 0.00 45.15 2.32
4774 12023 0.248215 CGGCTCCGTGCAATCAATTC 60.248 55.000 0.00 0.00 45.15 2.17
4775 12024 0.101219 GGCTCCGTGCAATCAATTCC 59.899 55.000 0.00 0.00 45.15 3.01
4776 12025 1.098050 GCTCCGTGCAATCAATTCCT 58.902 50.000 0.00 0.00 42.31 3.36
4777 12026 1.202222 GCTCCGTGCAATCAATTCCTG 60.202 52.381 0.00 0.00 42.31 3.86
4778 12027 0.810648 TCCGTGCAATCAATTCCTGC 59.189 50.000 0.00 0.00 36.60 4.85
4779 12028 0.527113 CCGTGCAATCAATTCCTGCA 59.473 50.000 0.00 2.29 43.54 4.41
4785 12034 4.081406 TGCAATCAATTCCTGCACTTAGT 58.919 39.130 2.29 0.00 41.01 2.24
4786 12035 4.156556 TGCAATCAATTCCTGCACTTAGTC 59.843 41.667 2.29 0.00 41.01 2.59
4787 12036 4.728882 GCAATCAATTCCTGCACTTAGTCG 60.729 45.833 0.00 0.00 36.09 4.18
4788 12037 3.678056 TCAATTCCTGCACTTAGTCGT 57.322 42.857 0.00 0.00 0.00 4.34
4789 12038 4.794278 TCAATTCCTGCACTTAGTCGTA 57.206 40.909 0.00 0.00 0.00 3.43
4790 12039 4.744570 TCAATTCCTGCACTTAGTCGTAG 58.255 43.478 0.00 0.00 0.00 3.51
4791 12040 4.461431 TCAATTCCTGCACTTAGTCGTAGA 59.539 41.667 0.00 0.00 0.00 2.59
4793 12042 4.634184 TTCCTGCACTTAGTCGTAGATC 57.366 45.455 0.00 0.00 40.67 2.75
4794 12043 2.612672 TCCTGCACTTAGTCGTAGATCG 59.387 50.000 0.00 0.00 40.67 3.69
4795 12044 2.355132 CCTGCACTTAGTCGTAGATCGT 59.645 50.000 0.00 0.00 40.67 3.73
4796 12045 3.546417 CCTGCACTTAGTCGTAGATCGTC 60.546 52.174 0.00 0.00 40.67 4.20
4797 12046 2.353889 TGCACTTAGTCGTAGATCGTCC 59.646 50.000 0.00 0.00 40.67 4.79
4798 12047 2.353889 GCACTTAGTCGTAGATCGTCCA 59.646 50.000 0.00 0.00 40.67 4.02
4799 12048 3.546417 GCACTTAGTCGTAGATCGTCCAG 60.546 52.174 0.00 0.00 40.67 3.86
4800 12049 3.002451 CACTTAGTCGTAGATCGTCCAGG 59.998 52.174 0.00 0.00 40.67 4.45
4803 12052 1.065636 AGTCGTAGATCGTCCAGGTGA 60.066 52.381 0.00 0.00 40.67 4.02
4804 12053 1.741706 GTCGTAGATCGTCCAGGTGAA 59.258 52.381 0.00 0.00 40.67 3.18
4806 12055 3.021695 TCGTAGATCGTCCAGGTGAATT 58.978 45.455 0.00 0.00 40.80 2.17
4807 12056 3.116300 CGTAGATCGTCCAGGTGAATTG 58.884 50.000 0.00 0.00 34.52 2.32
4810 12059 4.494091 AGATCGTCCAGGTGAATTGATT 57.506 40.909 0.00 0.00 0.00 2.57
4811 12060 4.194640 AGATCGTCCAGGTGAATTGATTG 58.805 43.478 0.00 0.00 0.00 2.67
4813 12062 4.545208 TCGTCCAGGTGAATTGATTGTA 57.455 40.909 0.00 0.00 0.00 2.41
4814 12063 4.503910 TCGTCCAGGTGAATTGATTGTAG 58.496 43.478 0.00 0.00 0.00 2.74
4815 12064 4.221924 TCGTCCAGGTGAATTGATTGTAGA 59.778 41.667 0.00 0.00 0.00 2.59
4816 12065 5.104941 TCGTCCAGGTGAATTGATTGTAGAT 60.105 40.000 0.00 0.00 0.00 1.98
4817 12066 5.235186 CGTCCAGGTGAATTGATTGTAGATC 59.765 44.000 0.00 0.00 0.00 2.75
4818 12067 5.235186 GTCCAGGTGAATTGATTGTAGATCG 59.765 44.000 0.00 0.00 0.00 3.69
4819 12068 5.104941 TCCAGGTGAATTGATTGTAGATCGT 60.105 40.000 0.00 0.00 0.00 3.73
4820 12069 5.235186 CCAGGTGAATTGATTGTAGATCGTC 59.765 44.000 0.00 0.00 0.00 4.20
4823 12072 6.878923 AGGTGAATTGATTGTAGATCGTCAAA 59.121 34.615 9.02 0.00 34.62 2.69
4824 12073 6.961554 GGTGAATTGATTGTAGATCGTCAAAC 59.038 38.462 9.02 7.60 34.62 2.93
4826 12075 8.869897 GTGAATTGATTGTAGATCGTCAAACTA 58.130 33.333 9.02 5.27 34.62 2.24
4831 12080 8.025243 TGATTGTAGATCGTCAAACTAAAACC 57.975 34.615 9.02 0.00 0.00 3.27
4832 12081 6.456447 TTGTAGATCGTCAAACTAAAACCG 57.544 37.500 3.76 0.00 0.00 4.44
4833 12082 5.531634 TGTAGATCGTCAAACTAAAACCGT 58.468 37.500 0.00 0.00 0.00 4.83
4834 12083 5.984926 TGTAGATCGTCAAACTAAAACCGTT 59.015 36.000 0.00 0.00 0.00 4.44
4835 12084 5.587033 AGATCGTCAAACTAAAACCGTTC 57.413 39.130 0.00 0.00 0.00 3.95
4836 12085 5.295152 AGATCGTCAAACTAAAACCGTTCT 58.705 37.500 0.00 0.00 0.00 3.01
4837 12086 5.756833 AGATCGTCAAACTAAAACCGTTCTT 59.243 36.000 0.00 0.00 0.00 2.52
4838 12087 5.799681 TCGTCAAACTAAAACCGTTCTTT 57.200 34.783 0.00 0.00 0.00 2.52
4839 12088 5.561993 TCGTCAAACTAAAACCGTTCTTTG 58.438 37.500 0.00 0.00 0.00 2.77
4840 12089 4.731480 CGTCAAACTAAAACCGTTCTTTGG 59.269 41.667 0.00 0.00 0.00 3.28
4850 12099 3.617284 ACCGTTCTTTGGTTTGAGAACT 58.383 40.909 12.65 0.00 45.96 3.01
4852 12101 5.187687 ACCGTTCTTTGGTTTGAGAACTAA 58.812 37.500 12.65 0.00 45.96 2.24
4853 12102 5.648960 ACCGTTCTTTGGTTTGAGAACTAAA 59.351 36.000 12.65 1.82 45.96 1.85
4857 12106 7.218204 CGTTCTTTGGTTTGAGAACTAAAACTG 59.782 37.037 12.67 4.22 45.96 3.16
4859 12108 8.343168 TCTTTGGTTTGAGAACTAAAACTGAA 57.657 30.769 12.67 8.16 42.97 3.02
4860 12109 8.458843 TCTTTGGTTTGAGAACTAAAACTGAAG 58.541 33.333 12.67 14.50 42.97 3.02
4861 12110 7.931578 TTGGTTTGAGAACTAAAACTGAAGA 57.068 32.000 12.67 0.00 33.91 2.87
4862 12111 8.519799 TTGGTTTGAGAACTAAAACTGAAGAT 57.480 30.769 12.67 0.00 33.91 2.40
4863 12112 8.519799 TGGTTTGAGAACTAAAACTGAAGATT 57.480 30.769 12.67 0.00 36.68 2.40
4865 12114 8.621286 GGTTTGAGAACTAAAACTGAAGATTGA 58.379 33.333 12.67 0.00 36.68 2.57
4869 12118 9.212641 TGAGAACTAAAACTGAAGATTGATCTG 57.787 33.333 0.00 0.00 37.19 2.90
4870 12119 8.038492 AGAACTAAAACTGAAGATTGATCTGC 57.962 34.615 0.00 0.00 37.19 4.26
4872 12121 7.608308 ACTAAAACTGAAGATTGATCTGCTC 57.392 36.000 0.90 0.00 37.19 4.26
4873 12122 5.893897 AAAACTGAAGATTGATCTGCTCC 57.106 39.130 0.90 0.00 37.19 4.70
4876 12125 2.864946 CTGAAGATTGATCTGCTCCGTG 59.135 50.000 0.90 0.00 37.19 4.94
4877 12126 2.497273 TGAAGATTGATCTGCTCCGTGA 59.503 45.455 0.90 0.00 37.19 4.35
4878 12127 3.133542 TGAAGATTGATCTGCTCCGTGAT 59.866 43.478 0.90 0.00 37.19 3.06
4879 12128 3.109044 AGATTGATCTGCTCCGTGATG 57.891 47.619 0.00 0.00 35.42 3.07
4881 12130 0.462581 TTGATCTGCTCCGTGATGGC 60.463 55.000 0.00 0.00 37.80 4.40
4883 12132 3.112205 ATCTGCTCCGTGATGGCCC 62.112 63.158 0.00 0.00 37.80 5.80
4884 12133 3.790437 CTGCTCCGTGATGGCCCT 61.790 66.667 0.00 0.00 37.80 5.19
4885 12134 3.329889 TGCTCCGTGATGGCCCTT 61.330 61.111 0.00 0.00 37.80 3.95
4886 12135 1.971505 CTGCTCCGTGATGGCCCTTA 61.972 60.000 0.00 0.00 37.80 2.69
4887 12136 1.227674 GCTCCGTGATGGCCCTTAG 60.228 63.158 0.00 0.00 37.80 2.18
4889 12138 0.105039 CTCCGTGATGGCCCTTAGTC 59.895 60.000 0.00 0.00 37.80 2.59
4910 12493 2.094906 CGTAGATCGTCAAGGTGAACCA 60.095 50.000 1.62 0.00 34.91 3.67
4911 12494 3.613193 CGTAGATCGTCAAGGTGAACCAA 60.613 47.826 1.62 0.00 34.91 3.67
4915 12498 1.202604 TCGTCAAGGTGAACCAAGGAC 60.203 52.381 1.62 5.38 38.89 3.85
4925 12508 1.315257 AACCAAGGACGCATGATGGC 61.315 55.000 0.00 0.00 34.45 4.40
4930 12513 2.484062 GGACGCATGATGGCCCTTG 61.484 63.158 0.00 0.00 0.00 3.61
4931 12514 1.750399 GACGCATGATGGCCCTTGT 60.750 57.895 0.00 0.00 0.00 3.16
4945 12528 2.684881 GCCCTTGTGGTATCTTGTCATG 59.315 50.000 0.00 0.00 36.04 3.07
4951 12534 6.094048 CCTTGTGGTATCTTGTCATGTTTAGG 59.906 42.308 0.00 0.00 0.00 2.69
5012 12596 2.007608 CTCCTGATGCACACATGACTG 58.992 52.381 0.00 0.00 36.35 3.51
5031 12615 6.195700 TGACTGTTTAGCTCTATTAGGGAGT 58.804 40.000 0.00 0.00 33.73 3.85
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
214 215 2.107726 GTCCTTACTGACAAAAGGGGGT 59.892 50.000 13.66 0.00 42.20 4.95
271 272 3.173151 TGCTTCACCTACTTCTCATGGA 58.827 45.455 0.00 0.00 0.00 3.41
410 411 2.378547 ACTCTGAGTTCTCCTCCTCTGT 59.621 50.000 4.06 0.00 39.65 3.41
493 494 3.636679 AGAGGATGGATTCTCTGAACGA 58.363 45.455 0.00 0.00 38.75 3.85
548 549 2.333926 CTGTCGGCGTACATGAAAAGA 58.666 47.619 6.85 0.00 0.00 2.52
553 554 0.319083 AAACCTGTCGGCGTACATGA 59.681 50.000 6.85 0.00 0.00 3.07
622 623 0.538057 TGCAAAGCCTCTTGGTGGAG 60.538 55.000 0.00 0.00 35.27 3.86
687 688 9.942850 AATTAAGGAAAAGTGGGACAAATTATG 57.057 29.630 0.00 0.00 44.16 1.90
689 690 9.990360 GAAATTAAGGAAAAGTGGGACAAATTA 57.010 29.630 0.00 0.00 44.16 1.40
690 691 8.713971 AGAAATTAAGGAAAAGTGGGACAAATT 58.286 29.630 0.00 0.00 44.16 1.82
691 692 8.262601 AGAAATTAAGGAAAAGTGGGACAAAT 57.737 30.769 0.00 0.00 44.16 2.32
692 693 7.669089 AGAAATTAAGGAAAAGTGGGACAAA 57.331 32.000 0.00 0.00 44.16 2.83
695 696 7.284919 TCAAGAAATTAAGGAAAAGTGGGAC 57.715 36.000 0.00 0.00 0.00 4.46
705 706 6.669154 AGGGCAAATGATCAAGAAATTAAGGA 59.331 34.615 0.00 0.00 0.00 3.36
706 707 6.881570 AGGGCAAATGATCAAGAAATTAAGG 58.118 36.000 0.00 0.00 0.00 2.69
710 711 9.169592 CAAATTAGGGCAAATGATCAAGAAATT 57.830 29.630 0.00 0.00 0.00 1.82
715 716 6.400568 ACACAAATTAGGGCAAATGATCAAG 58.599 36.000 0.00 0.00 0.00 3.02
717 718 5.999205 ACACAAATTAGGGCAAATGATCA 57.001 34.783 0.00 0.00 0.00 2.92
733 734 8.979574 ACGTTAAGAAATCAACAAAAACACAAA 58.020 25.926 0.00 0.00 0.00 2.83
745 746 9.085250 GTTTGGGTTAAAACGTTAAGAAATCAA 57.915 29.630 0.00 0.00 30.90 2.57
758 759 4.613394 CGTACCGATGGTTTGGGTTAAAAC 60.613 45.833 0.00 0.00 37.09 2.43
785 786 7.572353 GCCATCTCACGTACTGATGTTTAAAAA 60.572 37.037 17.42 0.00 36.72 1.94
786 787 6.128391 GCCATCTCACGTACTGATGTTTAAAA 60.128 38.462 17.42 0.00 36.72 1.52
787 788 5.350365 GCCATCTCACGTACTGATGTTTAAA 59.650 40.000 17.42 0.00 36.72 1.52
788 789 4.868171 GCCATCTCACGTACTGATGTTTAA 59.132 41.667 17.42 0.00 36.72 1.52
789 790 4.430007 GCCATCTCACGTACTGATGTTTA 58.570 43.478 17.42 0.00 36.72 2.01
790 791 3.262420 GCCATCTCACGTACTGATGTTT 58.738 45.455 17.42 0.00 36.72 2.83
791 792 2.418746 GGCCATCTCACGTACTGATGTT 60.419 50.000 17.42 0.00 36.72 2.71
792 793 1.137086 GGCCATCTCACGTACTGATGT 59.863 52.381 17.42 0.00 36.72 3.06
793 794 1.539065 GGGCCATCTCACGTACTGATG 60.539 57.143 4.39 14.03 37.79 3.07
828 829 9.949174 GAAGATTTGTGGTAAATTGCAAAATTT 57.051 25.926 1.71 2.94 34.99 1.82
843 844 1.603802 ACGTGCACAGAAGATTTGTGG 59.396 47.619 18.64 0.00 44.66 4.17
845 846 1.002468 GCACGTGCACAGAAGATTTGT 60.002 47.619 34.52 0.00 41.59 2.83
870 871 1.543941 CGATCGATCTGCTCCGTTGC 61.544 60.000 22.43 0.00 0.00 4.17
936 940 0.321653 AGATGGTGGTGGAGCGTTTC 60.322 55.000 0.00 0.00 0.00 2.78
1014 1022 2.895680 GAGCGCAGGATCCACAGA 59.104 61.111 15.82 0.00 0.00 3.41
1192 1203 1.449246 CCAGCTTCTTCGGCTCCAG 60.449 63.158 0.00 0.00 38.03 3.86
1345 1377 0.818938 TTATAGACGGCAGCCAACGA 59.181 50.000 13.30 0.92 0.00 3.85
1360 1392 6.686679 CAGAAAATGAAATTCGTGCGCTTATA 59.313 34.615 9.73 0.00 33.67 0.98
1426 1465 7.930217 TCATTCAGACACCTTAACTTTTCTTG 58.070 34.615 0.00 0.00 0.00 3.02
1517 1975 2.675056 CGCAAGGCACTGAGAGCAC 61.675 63.158 3.95 0.00 40.86 4.40
1686 2145 0.904649 CCTGCCTATCTCCACACACA 59.095 55.000 0.00 0.00 0.00 3.72
1722 2181 3.152341 CCCACAAATATCCATCTGCCTC 58.848 50.000 0.00 0.00 0.00 4.70
1775 2237 6.827641 TGTCAGATGCAAAACGTTCTATAAC 58.172 36.000 0.00 0.00 0.00 1.89
1870 2332 2.083774 TCTGCTATTTTCCAACCTGCG 58.916 47.619 0.00 0.00 0.00 5.18
1980 2444 8.814038 AGCCTTTCAAATACAGAAGTTCATAT 57.186 30.769 5.50 0.00 0.00 1.78
1983 2447 7.173218 CACTAGCCTTTCAAATACAGAAGTTCA 59.827 37.037 5.50 0.00 0.00 3.18
1997 2461 1.405526 GGTCATCGCACTAGCCTTTCA 60.406 52.381 0.00 0.00 37.52 2.69
2403 3238 8.657387 TCCACAAAGGAATAACAAAATATGGA 57.343 30.769 0.00 0.00 45.65 3.41
2480 3315 5.967674 GGCTTGTGAAAATCGAATATCTGTG 59.032 40.000 0.00 0.00 0.00 3.66
2622 3594 6.763135 TGCACAGGATATTAAGAATGTCAGAC 59.237 38.462 0.00 0.00 31.37 3.51
3068 7539 6.266323 TGCGTGTTTAGTGATCTAGAGATTC 58.734 40.000 0.00 0.00 34.37 2.52
3120 7591 6.269315 AGTCTGCTTTATTCTCATGAGTACG 58.731 40.000 21.92 7.52 0.00 3.67
3184 7655 1.407258 CCGAACACACCACCAAATTGT 59.593 47.619 0.00 0.00 0.00 2.71
3187 7658 0.106419 ACCCGAACACACCACCAAAT 60.106 50.000 0.00 0.00 0.00 2.32
3188 7659 1.032657 CACCCGAACACACCACCAAA 61.033 55.000 0.00 0.00 0.00 3.28
3206 7787 6.611381 GCTAAAGCATTCTAACATTGTGTCA 58.389 36.000 0.00 0.00 41.59 3.58
3372 7966 6.577103 TGCTTGGTTCATTTGTTATGTTCAA 58.423 32.000 0.00 0.00 0.00 2.69
3395 7989 2.481568 GCGTGATGATACACCATGGATG 59.518 50.000 21.47 15.31 37.48 3.51
3403 7997 4.504461 CCTGAAGTTAGCGTGATGATACAC 59.496 45.833 0.00 0.00 37.42 2.90
3555 8150 8.890472 AGGCATAAATATTAAGGGTATCAGACA 58.110 33.333 0.00 0.00 0.00 3.41
3697 8310 2.433970 CCACAGGTGGGTTTGAACAAAT 59.566 45.455 10.67 0.00 46.81 2.32
3715 8330 4.385358 AACAAACACTGTCAATTCCCAC 57.615 40.909 0.00 0.00 37.23 4.61
3792 8407 0.737219 GCCCTGTGAAGATCATGTGC 59.263 55.000 0.00 0.00 0.00 4.57
3819 8434 4.275936 GCTTGAGTTCCTCTTGCTTTGTAA 59.724 41.667 0.00 0.00 31.20 2.41
3990 8605 0.735978 CGAGCTTGTACCGCACATCA 60.736 55.000 6.96 0.00 36.90 3.07
4106 8721 1.298859 GGGAAGCTTTGTCGTCGCAT 61.299 55.000 0.00 0.00 0.00 4.73
4199 8814 2.100749 GGGTTGTTTTTCCAGGACACAG 59.899 50.000 0.00 0.00 0.00 3.66
4203 8818 2.623416 CTCAGGGTTGTTTTTCCAGGAC 59.377 50.000 0.00 0.00 0.00 3.85
4226 8841 3.519107 TCAGCAAAGTCAGGGTGATATCA 59.481 43.478 0.00 0.00 36.68 2.15
4275 8890 2.823747 TCTCTTCTTTGCTACGGCTACA 59.176 45.455 0.00 0.00 39.59 2.74
4294 8909 1.821088 AGTCCTGGGAACTTGGTTCT 58.179 50.000 9.74 0.00 41.70 3.01
4445 11672 4.573021 TGTCAATTGTCATCAGGATCCA 57.427 40.909 15.82 0.00 0.00 3.41
4446 11673 5.902613 TTTGTCAATTGTCATCAGGATCC 57.097 39.130 2.48 2.48 0.00 3.36
4523 11756 5.504665 CCGATTTACAGCCATCAGATCAAAC 60.505 44.000 0.00 0.00 0.00 2.93
4554 11787 9.126151 TCAGCTATATATGCAAGGAGATACTAC 57.874 37.037 0.00 0.00 0.00 2.73
4555 11788 9.700831 TTCAGCTATATATGCAAGGAGATACTA 57.299 33.333 0.00 0.00 0.00 1.82
4556 11789 8.601047 TTCAGCTATATATGCAAGGAGATACT 57.399 34.615 0.00 0.00 0.00 2.12
4565 11798 7.147312 GTGCCAATTTTCAGCTATATATGCAA 58.853 34.615 0.00 0.00 0.00 4.08
4575 11808 1.032014 ACACGTGCCAATTTTCAGCT 58.968 45.000 17.22 0.00 0.00 4.24
4576 11809 2.697431 TACACGTGCCAATTTTCAGC 57.303 45.000 17.22 0.00 0.00 4.26
4579 11812 3.959943 ACAGTTACACGTGCCAATTTTC 58.040 40.909 17.22 0.00 0.00 2.29
4581 11814 5.502153 TTAACAGTTACACGTGCCAATTT 57.498 34.783 17.22 4.85 0.00 1.82
4582 11815 5.699097 ATTAACAGTTACACGTGCCAATT 57.301 34.783 17.22 3.99 0.00 2.32
4583 11816 6.995511 ATATTAACAGTTACACGTGCCAAT 57.004 33.333 17.22 0.00 0.00 3.16
4585 11818 5.521010 GCTATATTAACAGTTACACGTGCCA 59.479 40.000 17.22 0.00 0.00 4.92
4586 11819 5.751990 AGCTATATTAACAGTTACACGTGCC 59.248 40.000 17.22 3.70 0.00 5.01
4587 11820 6.474427 TCAGCTATATTAACAGTTACACGTGC 59.526 38.462 17.22 0.00 0.00 5.34
4628 11875 6.370442 CGTCAAGGTATCATCTAGGAGTAGAG 59.630 46.154 0.00 0.00 38.73 2.43
4630 11877 5.106475 GCGTCAAGGTATCATCTAGGAGTAG 60.106 48.000 0.00 0.00 0.00 2.57
4631 11878 4.760715 GCGTCAAGGTATCATCTAGGAGTA 59.239 45.833 0.00 0.00 0.00 2.59
4633 11880 3.365465 CGCGTCAAGGTATCATCTAGGAG 60.365 52.174 0.00 0.00 0.00 3.69
4634 11881 2.552743 CGCGTCAAGGTATCATCTAGGA 59.447 50.000 0.00 0.00 0.00 2.94
4635 11882 2.351835 CCGCGTCAAGGTATCATCTAGG 60.352 54.545 4.92 0.00 0.00 3.02
4695 11944 9.750125 GTTCTCAAACCAAAGATTTATGTTTCT 57.250 29.630 0.00 0.00 0.00 2.52
4707 11956 8.980143 TTTCAGTTTTAGTTCTCAAACCAAAG 57.020 30.769 6.14 0.00 35.92 2.77
4708 11957 9.936759 ATTTTCAGTTTTAGTTCTCAAACCAAA 57.063 25.926 6.14 4.27 35.92 3.28
4736 11985 1.017387 GATTCAGCCACCCGTTCATC 58.983 55.000 0.00 0.00 0.00 2.92
4739 11988 2.106683 CCGATTCAGCCACCCGTTC 61.107 63.158 0.00 0.00 0.00 3.95
4740 11989 2.046314 CCGATTCAGCCACCCGTT 60.046 61.111 0.00 0.00 0.00 4.44
4741 11990 4.778143 GCCGATTCAGCCACCCGT 62.778 66.667 0.00 0.00 0.00 5.28
4742 11991 4.473520 AGCCGATTCAGCCACCCG 62.474 66.667 0.00 0.00 0.00 5.28
4743 11992 2.514824 GAGCCGATTCAGCCACCC 60.515 66.667 0.00 0.00 0.00 4.61
4744 11993 2.514824 GGAGCCGATTCAGCCACC 60.515 66.667 0.00 0.00 0.00 4.61
4745 11994 2.892425 CGGAGCCGATTCAGCCAC 60.892 66.667 2.00 0.00 42.83 5.01
4746 11995 3.390521 ACGGAGCCGATTCAGCCA 61.391 61.111 16.83 0.00 42.83 4.75
4747 11996 2.892425 CACGGAGCCGATTCAGCC 60.892 66.667 16.83 0.00 42.83 4.85
4748 11997 3.567797 GCACGGAGCCGATTCAGC 61.568 66.667 16.83 7.48 42.83 4.26
4749 11998 1.091771 ATTGCACGGAGCCGATTCAG 61.092 55.000 16.83 1.35 44.83 3.02
4750 11999 1.078497 ATTGCACGGAGCCGATTCA 60.078 52.632 16.83 7.12 44.83 2.57
4751 12000 1.089481 TGATTGCACGGAGCCGATTC 61.089 55.000 16.83 4.59 44.83 2.52
4752 12001 0.676466 TTGATTGCACGGAGCCGATT 60.676 50.000 16.83 0.00 44.83 3.34
4755 12004 0.248215 GAATTGATTGCACGGAGCCG 60.248 55.000 7.48 7.48 44.83 5.52
4756 12005 0.101219 GGAATTGATTGCACGGAGCC 59.899 55.000 0.00 0.00 44.83 4.70
4757 12006 1.098050 AGGAATTGATTGCACGGAGC 58.902 50.000 0.00 0.00 45.96 4.70
4758 12007 1.202222 GCAGGAATTGATTGCACGGAG 60.202 52.381 0.00 0.00 37.75 4.63
4759 12008 0.810648 GCAGGAATTGATTGCACGGA 59.189 50.000 0.00 0.00 37.75 4.69
4760 12009 0.527113 TGCAGGAATTGATTGCACGG 59.473 50.000 4.49 0.00 42.41 4.94
4763 12012 4.081406 ACTAAGTGCAGGAATTGATTGCA 58.919 39.130 4.49 4.49 44.81 4.08
4764 12013 4.666237 GACTAAGTGCAGGAATTGATTGC 58.334 43.478 0.00 0.00 38.30 3.56
4765 12014 4.393062 ACGACTAAGTGCAGGAATTGATTG 59.607 41.667 0.00 0.00 0.00 2.67
4767 12016 4.207891 ACGACTAAGTGCAGGAATTGAT 57.792 40.909 0.00 0.00 0.00 2.57
4769 12018 4.744570 TCTACGACTAAGTGCAGGAATTG 58.255 43.478 0.00 0.00 0.00 2.32
4770 12019 5.593010 GATCTACGACTAAGTGCAGGAATT 58.407 41.667 0.00 0.00 0.00 2.17
4772 12021 3.064958 CGATCTACGACTAAGTGCAGGAA 59.935 47.826 0.00 0.00 45.77 3.36
4773 12022 2.612672 CGATCTACGACTAAGTGCAGGA 59.387 50.000 0.00 0.00 45.77 3.86
4774 12023 2.355132 ACGATCTACGACTAAGTGCAGG 59.645 50.000 0.00 0.00 45.77 4.85
4775 12024 3.546417 GGACGATCTACGACTAAGTGCAG 60.546 52.174 0.00 0.00 45.77 4.41
4776 12025 2.353889 GGACGATCTACGACTAAGTGCA 59.646 50.000 0.00 0.00 45.77 4.57
4777 12026 2.353889 TGGACGATCTACGACTAAGTGC 59.646 50.000 0.00 0.00 45.77 4.40
4778 12027 3.002451 CCTGGACGATCTACGACTAAGTG 59.998 52.174 0.00 0.00 45.77 3.16
4779 12028 3.204526 CCTGGACGATCTACGACTAAGT 58.795 50.000 0.00 0.00 45.77 2.24
4780 12029 3.002451 CACCTGGACGATCTACGACTAAG 59.998 52.174 0.00 0.00 45.77 2.18
4781 12030 2.941064 CACCTGGACGATCTACGACTAA 59.059 50.000 0.00 0.00 45.77 2.24
4783 12032 1.065636 TCACCTGGACGATCTACGACT 60.066 52.381 0.00 0.00 45.77 4.18
4785 12034 2.118313 TTCACCTGGACGATCTACGA 57.882 50.000 0.00 0.00 45.77 3.43
4787 12036 4.386867 TCAATTCACCTGGACGATCTAC 57.613 45.455 0.00 0.00 0.00 2.59
4788 12037 5.104941 ACAATCAATTCACCTGGACGATCTA 60.105 40.000 0.00 0.00 0.00 1.98
4789 12038 4.194640 CAATCAATTCACCTGGACGATCT 58.805 43.478 0.00 0.00 0.00 2.75
4790 12039 3.941483 ACAATCAATTCACCTGGACGATC 59.059 43.478 0.00 0.00 0.00 3.69
4791 12040 3.955471 ACAATCAATTCACCTGGACGAT 58.045 40.909 0.00 0.00 0.00 3.73
4793 12042 4.503910 TCTACAATCAATTCACCTGGACG 58.496 43.478 0.00 0.00 0.00 4.79
4794 12043 5.235186 CGATCTACAATCAATTCACCTGGAC 59.765 44.000 0.00 0.00 0.00 4.02
4795 12044 5.104941 ACGATCTACAATCAATTCACCTGGA 60.105 40.000 0.00 0.00 0.00 3.86
4796 12045 5.118990 ACGATCTACAATCAATTCACCTGG 58.881 41.667 0.00 0.00 0.00 4.45
4797 12046 5.812127 TGACGATCTACAATCAATTCACCTG 59.188 40.000 0.00 0.00 0.00 4.00
4798 12047 5.977635 TGACGATCTACAATCAATTCACCT 58.022 37.500 0.00 0.00 0.00 4.00
4799 12048 6.662414 TTGACGATCTACAATCAATTCACC 57.338 37.500 0.00 0.00 0.00 4.02
4800 12049 7.743104 AGTTTGACGATCTACAATCAATTCAC 58.257 34.615 0.00 0.00 31.45 3.18
4806 12055 7.148705 CGGTTTTAGTTTGACGATCTACAATCA 60.149 37.037 0.00 0.00 0.00 2.57
4807 12056 7.148689 ACGGTTTTAGTTTGACGATCTACAATC 60.149 37.037 0.00 0.00 0.00 2.67
4810 12059 5.531634 ACGGTTTTAGTTTGACGATCTACA 58.468 37.500 0.00 0.00 0.00 2.74
4811 12060 6.364435 AGAACGGTTTTAGTTTGACGATCTAC 59.636 38.462 0.00 0.00 32.94 2.59
4813 12062 5.295152 AGAACGGTTTTAGTTTGACGATCT 58.705 37.500 0.00 0.00 31.14 2.75
4814 12063 5.587033 AGAACGGTTTTAGTTTGACGATC 57.413 39.130 0.00 0.00 31.14 3.69
4815 12064 5.996669 AAGAACGGTTTTAGTTTGACGAT 57.003 34.783 0.00 0.00 31.14 3.73
4816 12065 5.447548 CCAAAGAACGGTTTTAGTTTGACGA 60.448 40.000 14.96 0.00 31.14 4.20
4817 12066 4.731480 CCAAAGAACGGTTTTAGTTTGACG 59.269 41.667 14.96 0.00 31.14 4.35
4818 12067 5.643664 ACCAAAGAACGGTTTTAGTTTGAC 58.356 37.500 14.96 0.00 30.53 3.18
4819 12068 5.900865 ACCAAAGAACGGTTTTAGTTTGA 57.099 34.783 14.96 0.00 30.53 2.69
4833 12082 8.343168 TCAGTTTTAGTTCTCAAACCAAAGAA 57.657 30.769 6.14 0.00 35.92 2.52
4834 12083 7.931578 TCAGTTTTAGTTCTCAAACCAAAGA 57.068 32.000 6.14 0.00 35.92 2.52
4835 12084 8.458843 TCTTCAGTTTTAGTTCTCAAACCAAAG 58.541 33.333 6.14 9.14 35.92 2.77
4836 12085 8.343168 TCTTCAGTTTTAGTTCTCAAACCAAA 57.657 30.769 6.14 2.15 35.92 3.28
4837 12086 7.931578 TCTTCAGTTTTAGTTCTCAAACCAA 57.068 32.000 6.14 1.15 35.92 3.67
4838 12087 8.405531 CAATCTTCAGTTTTAGTTCTCAAACCA 58.594 33.333 6.14 0.00 35.92 3.67
4839 12088 8.621286 TCAATCTTCAGTTTTAGTTCTCAAACC 58.379 33.333 6.14 0.00 35.92 3.27
4842 12091 9.784531 AGATCAATCTTCAGTTTTAGTTCTCAA 57.215 29.630 0.00 0.00 31.97 3.02
4844 12093 8.174422 GCAGATCAATCTTCAGTTTTAGTTCTC 58.826 37.037 0.00 0.00 34.22 2.87
4847 12096 7.120432 GGAGCAGATCAATCTTCAGTTTTAGTT 59.880 37.037 0.00 0.00 34.22 2.24
4848 12097 6.597280 GGAGCAGATCAATCTTCAGTTTTAGT 59.403 38.462 0.00 0.00 34.22 2.24
4849 12098 6.238049 CGGAGCAGATCAATCTTCAGTTTTAG 60.238 42.308 0.00 0.00 34.22 1.85
4850 12099 5.582269 CGGAGCAGATCAATCTTCAGTTTTA 59.418 40.000 0.00 0.00 34.22 1.52
4852 12101 3.937706 CGGAGCAGATCAATCTTCAGTTT 59.062 43.478 0.00 0.00 34.22 2.66
4853 12102 3.055530 ACGGAGCAGATCAATCTTCAGTT 60.056 43.478 0.00 0.00 34.22 3.16
4857 12106 3.170791 TCACGGAGCAGATCAATCTTC 57.829 47.619 0.00 0.00 34.22 2.87
4859 12108 2.224233 CCATCACGGAGCAGATCAATCT 60.224 50.000 0.00 0.00 36.56 2.40
4860 12109 2.141517 CCATCACGGAGCAGATCAATC 58.858 52.381 0.00 0.00 36.56 2.67
4861 12110 1.813092 GCCATCACGGAGCAGATCAAT 60.813 52.381 0.00 0.00 36.56 2.57
4862 12111 0.462581 GCCATCACGGAGCAGATCAA 60.463 55.000 0.00 0.00 36.56 2.57
4863 12112 1.144716 GCCATCACGGAGCAGATCA 59.855 57.895 0.00 0.00 36.56 2.92
4865 12114 2.507944 GGCCATCACGGAGCAGAT 59.492 61.111 0.00 0.00 36.56 2.90
4866 12115 3.785859 GGGCCATCACGGAGCAGA 61.786 66.667 4.39 0.00 36.56 4.26
4869 12118 1.227674 CTAAGGGCCATCACGGAGC 60.228 63.158 6.18 0.00 36.56 4.70
4870 12119 0.105039 GACTAAGGGCCATCACGGAG 59.895 60.000 6.18 0.00 36.56 4.63
4872 12121 1.227263 CGACTAAGGGCCATCACGG 60.227 63.158 6.18 0.00 38.11 4.94
4873 12122 0.742505 TACGACTAAGGGCCATCACG 59.257 55.000 6.18 7.45 0.00 4.35
4876 12125 2.095161 CGATCTACGACTAAGGGCCATC 60.095 54.545 6.18 0.00 45.77 3.51
4877 12126 1.887198 CGATCTACGACTAAGGGCCAT 59.113 52.381 6.18 0.00 45.77 4.40
4878 12127 1.315690 CGATCTACGACTAAGGGCCA 58.684 55.000 6.18 0.00 45.77 5.36
4879 12128 1.266446 GACGATCTACGACTAAGGGCC 59.734 57.143 0.00 0.00 45.77 5.80
4881 12130 3.003482 CCTTGACGATCTACGACTAAGGG 59.997 52.174 0.00 0.00 45.77 3.95
4883 12132 4.331992 TCACCTTGACGATCTACGACTAAG 59.668 45.833 0.00 0.00 45.77 2.18
4884 12133 4.256110 TCACCTTGACGATCTACGACTAA 58.744 43.478 0.00 0.00 45.77 2.24
4885 12134 3.865446 TCACCTTGACGATCTACGACTA 58.135 45.455 0.00 0.00 45.77 2.59
4886 12135 2.708051 TCACCTTGACGATCTACGACT 58.292 47.619 0.00 0.00 45.77 4.18
4887 12136 3.169733 GTTCACCTTGACGATCTACGAC 58.830 50.000 0.00 0.00 45.77 4.34
4889 12138 2.094906 TGGTTCACCTTGACGATCTACG 60.095 50.000 0.00 0.00 41.64 3.51
4910 12493 2.124151 GGGCCATCATGCGTCCTT 60.124 61.111 4.39 0.00 0.00 3.36
4911 12494 2.683465 AAGGGCCATCATGCGTCCT 61.683 57.895 6.18 0.00 0.00 3.85
4915 12498 2.777972 CCACAAGGGCCATCATGCG 61.778 63.158 6.18 0.00 0.00 4.73
4925 12508 3.955471 ACATGACAAGATACCACAAGGG 58.045 45.455 0.00 0.00 44.81 3.95
4930 12513 4.941263 TGCCTAAACATGACAAGATACCAC 59.059 41.667 0.00 0.00 0.00 4.16
4931 12514 5.172687 TGCCTAAACATGACAAGATACCA 57.827 39.130 0.00 0.00 0.00 3.25
4945 12528 4.403453 CTCTAACACGCAAATGCCTAAAC 58.597 43.478 0.00 0.00 37.91 2.01
4951 12534 1.466360 CCAGCTCTAACACGCAAATGC 60.466 52.381 0.00 0.00 37.78 3.56
5031 12615 5.118990 GCAGCAAGTTCCAACTCATCTATA 58.881 41.667 0.00 0.00 38.57 1.31


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

AutoCloner maintained by Alex Coulton.