Multiple sequence alignment - TraesCS4D01G361300

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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 TraesCS4D01G361300 chr4D 100.000 4087 0 0 1 4087 507964585 507968671 0.000000e+00 7548.0
1 TraesCS4D01G361300 chr4B 91.955 3269 200 37 855 4087 659667035 659663794 0.000000e+00 4521.0
2 TraesCS4D01G361300 chr4B 89.771 3226 240 40 916 4087 656814995 656818184 0.000000e+00 4047.0
3 TraesCS4D01G361300 chr4B 91.883 961 57 8 855 1809 656811915 656812860 0.000000e+00 1323.0
4 TraesCS4D01G361300 chr4B 86.833 600 67 8 3 591 656810677 656811275 0.000000e+00 660.0
5 TraesCS4D01G361300 chr4B 86.444 568 69 5 18 578 659668563 659667997 2.090000e-172 616.0
6 TraesCS4D01G361300 chr4B 92.121 165 13 0 3923 4087 656804798 656804962 2.460000e-57 233.0
7 TraesCS4D01G361300 chr4B 97.674 43 1 0 606 648 656811264 656811306 1.580000e-09 75.0
8 TraesCS4D01G361300 chr4B 87.931 58 7 0 759 816 656811569 656811626 7.330000e-08 69.4
9 TraesCS4D01G361300 chr4B 100.000 36 0 0 613 648 659667996 659667961 2.640000e-07 67.6
10 TraesCS4D01G361300 chr2D 78.058 278 47 10 2126 2402 79687755 79688019 3.270000e-36 163.0
11 TraesCS4D01G361300 chr3D 80.184 217 37 5 2127 2341 481916206 481916418 1.520000e-34 158.0
12 TraesCS4D01G361300 chr3D 79.452 219 35 9 2126 2341 4579351 4579140 3.290000e-31 147.0
13 TraesCS4D01G361300 chr7A 79.909 219 36 6 2126 2341 540005785 540005998 1.970000e-33 154.0
14 TraesCS4D01G361300 chr1A 77.863 262 44 12 2138 2397 91044851 91044602 2.540000e-32 150.0
15 TraesCS4D01G361300 chr1A 79.358 218 39 5 2126 2341 217992074 217992287 9.150000e-32 148.0
16 TraesCS4D01G361300 chr4A 79.358 218 39 5 2126 2341 396575172 396575385 9.150000e-32 148.0
17 TraesCS4D01G361300 chr4A 80.645 124 24 0 19 142 121488327 121488204 3.360000e-16 97.1
18 TraesCS4D01G361300 chr5D 84.211 133 21 0 23 155 483707965 483707833 3.320000e-26 130.0
19 TraesCS4D01G361300 chr3A 84.874 119 18 0 18 136 567569132 567569250 2.000000e-23 121.0
20 TraesCS4D01G361300 chr1D 86.813 91 12 0 18 108 339366036 339365946 7.230000e-18 102.0
21 TraesCS4D01G361300 chrUn 85.556 90 11 2 23 111 9977871 9977783 4.350000e-15 93.5
22 TraesCS4D01G361300 chr6A 84.615 91 13 1 18 107 219634105 219634015 5.630000e-14 89.8
23 TraesCS4D01G361300 chr6D 83.871 93 14 1 18 110 290322777 290322686 2.020000e-13 87.9


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 TraesCS4D01G361300 chr4D 507964585 507968671 4086 False 7548.000000 7548 100.000000 1 4087 1 chr4D.!!$F1 4086
1 TraesCS4D01G361300 chr4B 659663794 659668563 4769 True 1734.866667 4521 92.799667 18 4087 3 chr4B.!!$R1 4069
2 TraesCS4D01G361300 chr4B 656810677 656818184 7507 False 1234.880000 4047 90.818400 3 4087 5 chr4B.!!$F2 4084

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
912 1694 0.031994 AGCATTTTTGCGTCACACCC 59.968 50.0 0.0 0.0 40.27 4.61 F
1723 2510 0.036765 CCCGAACAACGAAGGGATGA 60.037 55.0 0.0 0.0 46.64 2.92 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1788 5607 0.114560 TGAGGAAGACGGGGAAGAGT 59.885 55.0 0.0 0.0 0.0 3.24 R
3258 7117 0.320697 AGGGTTTCTGGTACTGCGAC 59.679 55.0 0.0 0.0 0.0 5.19 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
21 22 1.168407 GCATGCACACACACACTCCT 61.168 55.000 14.21 0.00 0.00 3.69
39 45 1.526887 CCTACTAAATGCACATCGCCG 59.473 52.381 0.00 0.00 41.33 6.46
40 46 2.469826 CTACTAAATGCACATCGCCGA 58.530 47.619 0.00 0.00 41.33 5.54
68 74 5.672819 GCCTGAAATGAATGCAAGAAAATGC 60.673 40.000 0.00 0.00 46.58 3.56
77 83 1.666888 GCAAGAAAATGCGACCACCAG 60.667 52.381 0.00 0.00 36.45 4.00
78 84 1.608590 CAAGAAAATGCGACCACCAGT 59.391 47.619 0.00 0.00 0.00 4.00
83 89 0.179032 AATGCGACCACCAGTGTCAA 60.179 50.000 0.00 0.00 0.00 3.18
131 137 6.071616 GGTTATTTCCATCACAAGCAACCTAA 60.072 38.462 0.00 0.00 32.13 2.69
136 142 3.511146 CCATCACAAGCAACCTAACCATT 59.489 43.478 0.00 0.00 0.00 3.16
137 143 4.021192 CCATCACAAGCAACCTAACCATTT 60.021 41.667 0.00 0.00 0.00 2.32
141 147 4.037923 CACAAGCAACCTAACCATTTGAGT 59.962 41.667 0.00 0.00 0.00 3.41
159 165 1.683917 AGTTACCCTCAGCTCGCTATG 59.316 52.381 0.00 0.00 0.00 2.23
165 171 0.460811 CTCAGCTCGCTATGCCAACA 60.461 55.000 0.00 0.00 0.00 3.33
179 185 9.117145 CGCTATGCCAACATTAATTAACAATAG 57.883 33.333 0.00 2.76 37.74 1.73
264 270 8.765488 TCAAATATTTATGAATGAAGGGAGCA 57.235 30.769 0.00 0.00 0.00 4.26
267 273 4.314522 TTTATGAATGAAGGGAGCACCA 57.685 40.909 1.58 0.00 43.89 4.17
335 341 9.595823 GTAGGTAGCTCTAAACATGTATTTTCA 57.404 33.333 0.00 0.00 0.00 2.69
357 363 9.995003 TTTCATAGTTTCTAATTTTTGGCATGT 57.005 25.926 0.00 0.00 0.00 3.21
397 409 7.786178 TGTGTATATCTTTTTCGGGATTCTG 57.214 36.000 0.00 0.00 0.00 3.02
402 414 9.490379 GTATATCTTTTTCGGGATTCTGTATGT 57.510 33.333 0.00 0.00 0.00 2.29
473 485 0.546267 TTGCCCTGAGCTCCTTCTCT 60.546 55.000 12.15 0.00 44.23 3.10
477 489 2.117865 CCCTGAGCTCCTTCTCTTCAT 58.882 52.381 12.15 0.00 34.29 2.57
495 507 3.127533 GATGCCACGCTCACACCC 61.128 66.667 0.00 0.00 0.00 4.61
502 514 0.736636 CACGCTCACACCCTACGATA 59.263 55.000 0.00 0.00 0.00 2.92
517 529 3.299340 ACGATACATATCCAACGGAGC 57.701 47.619 0.00 0.00 34.05 4.70
559 571 2.936498 CACCAACTGACTCTTGTTCGTT 59.064 45.455 0.00 0.00 0.00 3.85
560 572 4.116961 CACCAACTGACTCTTGTTCGTTA 58.883 43.478 0.00 0.00 0.00 3.18
561 573 4.025979 CACCAACTGACTCTTGTTCGTTAC 60.026 45.833 0.00 0.00 0.00 2.50
570 582 3.836949 TCTTGTTCGTTACCGGTGATAC 58.163 45.455 19.93 11.67 33.95 2.24
582 594 0.529378 GGTGATACGGACGTGGAACT 59.471 55.000 7.73 0.00 31.75 3.01
583 595 1.067354 GGTGATACGGACGTGGAACTT 60.067 52.381 7.73 0.00 31.75 2.66
584 596 2.164219 GGTGATACGGACGTGGAACTTA 59.836 50.000 7.73 0.00 31.75 2.24
585 597 3.181483 GGTGATACGGACGTGGAACTTAT 60.181 47.826 7.73 0.00 31.75 1.73
586 598 4.040376 GTGATACGGACGTGGAACTTATC 58.960 47.826 7.73 1.45 31.75 1.75
587 599 3.695556 TGATACGGACGTGGAACTTATCA 59.304 43.478 7.73 4.07 31.75 2.15
588 600 2.358939 ACGGACGTGGAACTTATCAC 57.641 50.000 0.00 0.00 31.75 3.06
589 601 1.891150 ACGGACGTGGAACTTATCACT 59.109 47.619 0.00 0.00 31.75 3.41
590 602 2.094854 ACGGACGTGGAACTTATCACTC 60.095 50.000 0.00 0.00 31.75 3.51
591 603 2.094906 CGGACGTGGAACTTATCACTCA 60.095 50.000 0.00 0.00 31.75 3.41
592 604 3.251571 GGACGTGGAACTTATCACTCAC 58.748 50.000 0.00 0.00 31.75 3.51
593 605 3.251571 GACGTGGAACTTATCACTCACC 58.748 50.000 0.00 0.00 31.75 4.02
594 606 2.028385 ACGTGGAACTTATCACTCACCC 60.028 50.000 0.00 0.00 31.75 4.61
595 607 2.618053 GTGGAACTTATCACTCACCCG 58.382 52.381 0.00 0.00 0.00 5.28
596 608 1.066430 TGGAACTTATCACTCACCCGC 60.066 52.381 0.00 0.00 0.00 6.13
597 609 1.066430 GGAACTTATCACTCACCCGCA 60.066 52.381 0.00 0.00 0.00 5.69
598 610 2.614481 GGAACTTATCACTCACCCGCAA 60.614 50.000 0.00 0.00 0.00 4.85
599 611 2.851263 ACTTATCACTCACCCGCAAA 57.149 45.000 0.00 0.00 0.00 3.68
600 612 3.134574 ACTTATCACTCACCCGCAAAA 57.865 42.857 0.00 0.00 0.00 2.44
601 613 3.482436 ACTTATCACTCACCCGCAAAAA 58.518 40.909 0.00 0.00 0.00 1.94
648 660 3.393089 TTCTTCCACAAGTCTGCTCTC 57.607 47.619 0.00 0.00 0.00 3.20
649 661 2.603021 TCTTCCACAAGTCTGCTCTCT 58.397 47.619 0.00 0.00 0.00 3.10
651 663 2.827800 TCCACAAGTCTGCTCTCTTG 57.172 50.000 11.55 11.55 44.29 3.02
657 669 4.108699 CAAGTCTGCTCTCTTGTAGGAG 57.891 50.000 0.00 0.00 37.04 3.69
658 670 3.449746 AGTCTGCTCTCTTGTAGGAGT 57.550 47.619 0.00 0.00 34.35 3.85
659 671 4.577988 AGTCTGCTCTCTTGTAGGAGTA 57.422 45.455 0.00 0.00 34.35 2.59
660 672 4.266714 AGTCTGCTCTCTTGTAGGAGTAC 58.733 47.826 0.00 0.00 34.35 2.73
661 673 3.379057 GTCTGCTCTCTTGTAGGAGTACC 59.621 52.174 0.00 0.00 34.35 3.34
663 675 4.473922 TCTGCTCTCTTGTAGGAGTACCTA 59.526 45.833 0.00 0.00 45.83 3.08
687 699 6.653273 ATTTTCGTCATATGATATGCCTCG 57.347 37.500 9.02 11.35 0.00 4.63
690 702 3.056891 TCGTCATATGATATGCCTCGCAA 60.057 43.478 9.02 0.00 43.62 4.85
691 703 3.679502 CGTCATATGATATGCCTCGCAAA 59.320 43.478 9.02 0.00 43.62 3.68
693 705 5.334028 CGTCATATGATATGCCTCGCAAAAA 60.334 40.000 9.02 0.00 43.62 1.94
710 722 3.644966 AAAAAGATATGCCTCCCACGA 57.355 42.857 0.00 0.00 0.00 4.35
711 723 2.918712 AAAGATATGCCTCCCACGAG 57.081 50.000 0.00 0.00 35.72 4.18
712 724 0.394565 AAGATATGCCTCCCACGAGC 59.605 55.000 0.00 0.00 34.49 5.03
713 725 0.470833 AGATATGCCTCCCACGAGCT 60.471 55.000 0.00 0.00 34.49 4.09
754 766 9.716507 GCTTTTGCGATTAGATTCAGTAATTAA 57.283 29.630 0.00 0.00 34.86 1.40
760 1290 9.250624 GCGATTAGATTCAGTAATTAAGACACT 57.749 33.333 0.00 0.00 0.00 3.55
776 1306 4.778842 GACACTATAATGTCGTTGCAGG 57.221 45.455 0.00 0.00 39.69 4.85
786 1316 0.394938 TCGTTGCAGGGAGTAAAGCA 59.605 50.000 0.00 0.00 34.79 3.91
823 1381 3.328382 TTTTACAGACCTCACGGGATG 57.672 47.619 0.00 0.00 38.76 3.51
824 1382 1.191535 TTACAGACCTCACGGGATGG 58.808 55.000 0.00 0.00 38.76 3.51
829 1387 3.402681 CCTCACGGGATGGGCTGT 61.403 66.667 0.00 0.00 37.23 4.40
833 1391 2.363276 ACGGGATGGGCTGTCGTA 60.363 61.111 0.00 0.00 32.03 3.43
848 1406 4.322080 TGTCGTAGGCAGATCTATTTGG 57.678 45.455 0.00 0.00 36.97 3.28
849 1407 3.958147 TGTCGTAGGCAGATCTATTTGGA 59.042 43.478 0.00 0.00 36.97 3.53
850 1408 4.404394 TGTCGTAGGCAGATCTATTTGGAA 59.596 41.667 0.00 0.00 36.97 3.53
851 1409 5.105106 TGTCGTAGGCAGATCTATTTGGAAA 60.105 40.000 0.00 0.00 36.97 3.13
898 1680 1.274167 TCCGTCCGTTTGTCTAGCATT 59.726 47.619 0.00 0.00 0.00 3.56
901 1683 3.058501 CCGTCCGTTTGTCTAGCATTTTT 60.059 43.478 0.00 0.00 0.00 1.94
902 1684 3.906008 CGTCCGTTTGTCTAGCATTTTTG 59.094 43.478 0.00 0.00 0.00 2.44
903 1685 3.668656 GTCCGTTTGTCTAGCATTTTTGC 59.331 43.478 0.00 0.00 0.00 3.68
904 1686 2.656422 CCGTTTGTCTAGCATTTTTGCG 59.344 45.455 0.00 0.00 40.27 4.85
905 1687 3.296628 CGTTTGTCTAGCATTTTTGCGT 58.703 40.909 0.00 0.00 40.27 5.24
906 1688 3.357823 CGTTTGTCTAGCATTTTTGCGTC 59.642 43.478 0.00 0.00 40.27 5.19
912 1694 0.031994 AGCATTTTTGCGTCACACCC 59.968 50.000 0.00 0.00 40.27 4.61
955 1739 5.643421 AATCCATTAGTCTCTGATTGCCT 57.357 39.130 0.00 0.00 0.00 4.75
962 1746 2.373169 AGTCTCTGATTGCCTCCAACAA 59.627 45.455 0.00 0.00 32.95 2.83
967 1751 3.318839 TCTGATTGCCTCCAACAAAACAG 59.681 43.478 0.00 0.00 37.11 3.16
985 1769 2.300437 ACAGGCCAAGAAGTCTCTACAC 59.700 50.000 5.01 0.00 0.00 2.90
986 1770 2.300152 CAGGCCAAGAAGTCTCTACACA 59.700 50.000 5.01 0.00 0.00 3.72
991 1775 5.510861 GGCCAAGAAGTCTCTACACAACTTA 60.511 44.000 0.00 0.00 33.54 2.24
1005 1789 5.937111 ACACAACTTACAGTAGAAATGGGT 58.063 37.500 0.00 0.00 0.00 4.51
1048 1835 2.415090 GCCACTCAACATAGCAAGCTTG 60.415 50.000 22.44 22.44 0.00 4.01
1050 1837 3.126514 CCACTCAACATAGCAAGCTTGAG 59.873 47.826 30.39 17.40 41.02 3.02
1051 1838 3.999001 CACTCAACATAGCAAGCTTGAGA 59.001 43.478 30.39 16.36 39.19 3.27
1134 1921 3.334583 TCCATCTCCTTCTTCGGTTTG 57.665 47.619 0.00 0.00 0.00 2.93
1152 1939 0.620556 TGGTGATCCTCAAAGCCCTC 59.379 55.000 0.00 0.00 34.23 4.30
1165 1952 2.308722 GCCCTCCCCATGAAGACCA 61.309 63.158 0.00 0.00 0.00 4.02
1169 1956 0.393537 CTCCCCATGAAGACCAGCAC 60.394 60.000 0.00 0.00 0.00 4.40
1170 1957 1.746615 CCCCATGAAGACCAGCACG 60.747 63.158 0.00 0.00 0.00 5.34
1171 1958 1.746615 CCCATGAAGACCAGCACGG 60.747 63.158 0.00 0.00 42.50 4.94
1188 1975 3.171388 GTCCCGAGGCCCATGGAT 61.171 66.667 15.22 0.00 0.00 3.41
1189 1976 2.368192 TCCCGAGGCCCATGGATT 60.368 61.111 15.22 0.00 0.00 3.01
1212 1999 0.526662 ACCTGATCTTCACGTCGGTC 59.473 55.000 0.00 0.00 0.00 4.79
1242 2029 3.127533 GTGTCGAGCATGGTGGCC 61.128 66.667 0.00 0.00 0.00 5.36
1348 2135 1.741770 GGCCTGCACTTCACCTACG 60.742 63.158 0.00 0.00 0.00 3.51
1377 2164 3.067180 CCAAGAAGAAAGAAGCACAAGCA 59.933 43.478 0.00 0.00 45.49 3.91
1386 2173 3.660111 GCACAAGCACCCCACGAC 61.660 66.667 0.00 0.00 41.58 4.34
1432 2219 2.028294 CCAGCACCATCATCTAGCCTAG 60.028 54.545 0.00 0.00 0.00 3.02
1450 2237 1.805945 GAGCTCGCTGTTACCACCG 60.806 63.158 0.00 0.00 0.00 4.94
1509 2296 2.960129 CAGCCCCGTTACGATCGC 60.960 66.667 16.60 4.41 0.00 4.58
1530 2317 0.111253 CCTTCCTCACCAGGTTGCTT 59.889 55.000 0.00 0.00 41.28 3.91
1531 2318 1.528129 CTTCCTCACCAGGTTGCTTC 58.472 55.000 0.00 0.00 41.28 3.86
1605 2392 1.153745 GCTGGTCTACCTGAGCGTG 60.154 63.158 9.96 0.00 45.46 5.34
1693 2480 1.371389 GTCTCGACGTTCGCCAACT 60.371 57.895 0.00 0.00 40.21 3.16
1695 2482 3.000080 CTCGACGTTCGCCAACTGC 62.000 63.158 0.00 0.00 40.21 4.40
1723 2510 0.036765 CCCGAACAACGAAGGGATGA 60.037 55.000 0.00 0.00 46.64 2.92
1758 2545 4.860881 CCGGGCCTCCTGCTCCTA 62.861 72.222 0.84 0.00 37.02 2.94
1788 5607 2.741092 GTCCTCCTCGGCAACACA 59.259 61.111 0.00 0.00 0.00 3.72
1797 5616 1.966451 CGGCAACACACTCTTCCCC 60.966 63.158 0.00 0.00 0.00 4.81
1929 5748 3.254014 CTTGGCTTTCACCGTGGCG 62.254 63.158 0.00 0.00 0.00 5.69
2058 5877 3.168528 AACTCCAGGCACACCGGT 61.169 61.111 0.00 0.00 42.76 5.28
2091 5910 2.019951 CCTTTCCACCGTGTCGTCG 61.020 63.158 0.00 0.00 0.00 5.12
2109 5928 2.435693 GGCCCTCGTGGTGCTCTAT 61.436 63.158 14.01 0.00 36.04 1.98
2123 5942 3.558829 GTGCTCTATGTGGTCATGATGTG 59.441 47.826 0.00 0.00 35.70 3.21
2128 5947 6.149129 TCTATGTGGTCATGATGTGAGTAC 57.851 41.667 0.00 0.00 37.56 2.73
2130 5949 4.890158 TGTGGTCATGATGTGAGTACTT 57.110 40.909 0.00 0.00 37.56 2.24
2134 5953 4.160439 TGGTCATGATGTGAGTACTTCCTC 59.840 45.833 0.00 0.00 37.56 3.71
2135 5954 4.160439 GGTCATGATGTGAGTACTTCCTCA 59.840 45.833 0.00 3.43 37.56 3.86
2137 5956 5.809562 GTCATGATGTGAGTACTTCCTCAAG 59.190 44.000 0.00 0.86 42.81 3.02
2138 5957 5.481824 TCATGATGTGAGTACTTCCTCAAGT 59.518 40.000 0.00 0.00 42.81 3.16
2141 5960 3.572642 TGTGAGTACTTCCTCAAGTCCA 58.427 45.455 0.00 0.00 42.27 4.02
2159 5979 7.771361 TCAAGTCCATTTTACTCCGCATATAAA 59.229 33.333 0.00 0.00 0.00 1.40
2160 5980 7.730364 AGTCCATTTTACTCCGCATATAAAG 57.270 36.000 0.00 0.00 0.00 1.85
2251 6072 5.297547 ACGAAATCATACCATTAGATGCGT 58.702 37.500 0.00 0.00 32.50 5.24
2253 6074 5.405269 CGAAATCATACCATTAGATGCGTCA 59.595 40.000 8.99 0.00 0.00 4.35
2409 6237 3.567585 GGAGGGAGTACGTTACATACCTC 59.432 52.174 10.32 10.32 40.87 3.85
2415 6243 3.624861 AGTACGTTACATACCTCCACTCG 59.375 47.826 0.00 0.00 0.00 4.18
2419 6247 3.606384 CGTTACATACCTCCACTCGATCG 60.606 52.174 9.36 9.36 0.00 3.69
2468 6297 3.766051 TCTCATATCATGCTCGTGCCTAT 59.234 43.478 7.05 0.71 38.71 2.57
2553 6382 1.088340 CAAGTGGGAGCAGATCAGCG 61.088 60.000 4.27 0.00 40.15 5.18
2555 6384 4.519437 TGGGAGCAGATCAGCGCG 62.519 66.667 0.00 0.00 40.15 6.86
2567 6396 1.667830 CAGCGCGACCAGAAAAGGA 60.668 57.895 12.10 0.00 0.00 3.36
2578 6407 5.644644 GACCAGAAAAGGATAACAAGCATG 58.355 41.667 0.00 0.00 0.00 4.06
2632 6461 2.537560 GGCCATCTTCATCGCCGTG 61.538 63.158 0.00 0.00 0.00 4.94
2720 6549 3.317149 CGTCGAGGTTATCAGGTAATCCA 59.683 47.826 0.00 0.00 35.89 3.41
2771 6601 9.923143 ATGATCAATTGCAATATTCTTACCATG 57.077 29.630 13.39 3.22 0.00 3.66
2793 6623 7.254556 CCATGCATGATCGATACCATTATACAC 60.255 40.741 28.31 0.00 0.00 2.90
2794 6624 6.696411 TGCATGATCGATACCATTATACACA 58.304 36.000 0.00 0.00 0.00 3.72
2798 6628 9.811655 CATGATCGATACCATTATACACAAAAC 57.188 33.333 0.00 0.00 0.00 2.43
2800 6630 8.208224 TGATCGATACCATTATACACAAAACCT 58.792 33.333 0.00 0.00 0.00 3.50
2801 6631 8.974060 ATCGATACCATTATACACAAAACCTT 57.026 30.769 0.00 0.00 0.00 3.50
2824 6656 7.659390 CCTTACTTACCCAAATTGCAAATTCAA 59.341 33.333 1.71 0.00 0.00 2.69
2828 6660 7.388500 ACTTACCCAAATTGCAAATTCAATCAG 59.612 33.333 1.71 0.00 35.77 2.90
2830 6662 4.456222 CCCAAATTGCAAATTCAATCAGCA 59.544 37.500 1.71 0.00 35.77 4.41
2847 6679 7.223387 TCAATCAGCATACATATAGCTATTGCG 59.777 37.037 12.39 11.06 45.42 4.85
3010 6842 2.601367 TTGGCAAGGGAAGCTGGC 60.601 61.111 0.00 0.00 38.54 4.85
3155 6987 3.071479 ACTAGCTACATCTCGCTCTAGC 58.929 50.000 0.00 0.00 37.68 3.42
3178 7010 8.000780 AGCCTAAAACCATCTGAACATATTTC 57.999 34.615 0.00 0.00 0.00 2.17
3187 7019 7.039504 ACCATCTGAACATATTTCCATTATGCC 60.040 37.037 0.00 0.00 31.54 4.40
3188 7020 6.558771 TCTGAACATATTTCCATTATGCCG 57.441 37.500 0.00 0.00 31.54 5.69
3215 7047 3.818773 CCTCAATCACTGCATGCATATCA 59.181 43.478 22.97 6.02 0.00 2.15
3218 7050 6.150474 CCTCAATCACTGCATGCATATCAATA 59.850 38.462 22.97 4.56 0.00 1.90
3219 7051 7.148069 CCTCAATCACTGCATGCATATCAATAT 60.148 37.037 22.97 5.49 0.00 1.28
3245 7104 8.961294 AATGAAACAAAAGTCATCCAAATTGA 57.039 26.923 0.00 0.00 33.31 2.57
3255 7114 5.716228 AGTCATCCAAATTGAATGTGCCTTA 59.284 36.000 0.00 0.00 0.00 2.69
3256 7115 5.807011 GTCATCCAAATTGAATGTGCCTTAC 59.193 40.000 0.00 0.00 0.00 2.34
3258 7117 5.389859 TCCAAATTGAATGTGCCTTACAG 57.610 39.130 0.00 0.00 43.80 2.74
3322 7181 3.120338 CGGTCGATGCTACATTTTGTGTT 60.120 43.478 0.00 0.00 42.29 3.32
3325 7184 6.375377 GGTCGATGCTACATTTTGTGTTAAA 58.625 36.000 0.00 0.00 42.29 1.52
3412 7271 4.457834 ACTCCAAGAATAAGTCTGTCCG 57.542 45.455 0.00 0.00 36.40 4.79
3450 7309 8.360390 ACAGAGGAATTAATTTGGTTTCTCAAC 58.640 33.333 1.43 0.00 0.00 3.18
3505 7364 3.777106 ACATCACTCCTTGCTTTCTCA 57.223 42.857 0.00 0.00 0.00 3.27
3509 7368 4.356405 TCACTCCTTGCTTTCTCAATCA 57.644 40.909 0.00 0.00 0.00 2.57
3543 7402 1.574428 CGGAACAAGGCTTGGAACG 59.426 57.895 29.26 23.82 34.12 3.95
3567 7426 2.165437 GGGAATTGCGTCAAAGCCAATA 59.835 45.455 12.45 0.00 36.02 1.90
3583 7442 0.577269 AATAAGATTCTCGCGCGTGC 59.423 50.000 30.98 11.84 37.91 5.34
3597 7456 2.850321 CGCGTGCATTCAACAAGTATT 58.150 42.857 0.00 0.00 0.00 1.89
3601 7460 4.917415 GCGTGCATTCAACAAGTATTTCTT 59.083 37.500 0.00 0.00 36.75 2.52
3644 7503 2.171448 AGTCCATGATAGACTTGGCACC 59.829 50.000 0.00 0.00 41.87 5.01
3651 7510 2.024176 TAGACTTGGCACCCTTGAGA 57.976 50.000 0.00 0.00 0.00 3.27
3656 7515 0.257328 TTGGCACCCTTGAGAACACA 59.743 50.000 0.00 0.00 0.00 3.72
3684 7543 1.732809 CTGCTGTAGAACGAGAGACGA 59.267 52.381 0.00 0.00 45.77 4.20
3689 7548 2.862536 TGTAGAACGAGAGACGATACGG 59.137 50.000 0.00 0.00 45.77 4.02
3702 7561 2.030007 ACGATACGGTTTGACTCGGAAA 60.030 45.455 0.00 0.00 33.82 3.13
3733 7592 4.240888 CTCATCAAATATGCCGACGAGAT 58.759 43.478 0.00 0.00 0.00 2.75
3770 7629 1.804748 GCGAAAGAAAGGAACATCGGT 59.195 47.619 0.00 0.00 0.00 4.69
3794 7653 0.034863 ATGTAACGCCGGTCCCATTT 60.035 50.000 1.90 0.00 0.00 2.32
3902 7763 2.995574 CTCCCCGTGAACCTCGGT 60.996 66.667 6.69 0.00 45.63 4.69
3991 7852 0.448197 GTCCTCTAAGCAAAAGCGGC 59.552 55.000 0.00 0.00 0.00 6.53
4020 7881 2.722201 GGCGTCCCGGTGAATCTCT 61.722 63.158 0.00 0.00 0.00 3.10
4038 7899 0.743345 CTTCCCCGACGGTCCAAATC 60.743 60.000 13.94 0.00 0.00 2.17
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 0.594602 GAGTGTGTGTGTGCATGCAT 59.405 50.000 25.64 3.60 0.00 3.96
1 2 1.446516 GGAGTGTGTGTGTGCATGCA 61.447 55.000 18.46 18.46 0.00 3.96
5 6 1.119684 AGTAGGAGTGTGTGTGTGCA 58.880 50.000 0.00 0.00 0.00 4.57
10 11 4.202315 TGTGCATTTAGTAGGAGTGTGTGT 60.202 41.667 0.00 0.00 0.00 3.72
39 45 3.598019 TGCATTCATTTCAGGCCTTTC 57.402 42.857 0.00 0.00 0.00 2.62
40 46 3.579586 TCTTGCATTCATTTCAGGCCTTT 59.420 39.130 0.00 0.00 0.00 3.11
47 53 5.118971 GTCGCATTTTCTTGCATTCATTTCA 59.881 36.000 0.00 0.00 42.91 2.69
48 54 5.445010 GGTCGCATTTTCTTGCATTCATTTC 60.445 40.000 0.00 0.00 42.91 2.17
53 59 2.663119 GTGGTCGCATTTTCTTGCATTC 59.337 45.455 0.00 0.00 42.91 2.67
68 74 0.389391 AGACTTGACACTGGTGGTCG 59.611 55.000 5.70 0.00 38.10 4.79
83 89 3.325135 CACCAGGGTTCAAGTTCTAGACT 59.675 47.826 0.00 0.00 41.47 3.24
110 116 4.220602 GGTTAGGTTGCTTGTGATGGAAAT 59.779 41.667 0.00 0.00 0.00 2.17
114 120 2.513753 TGGTTAGGTTGCTTGTGATGG 58.486 47.619 0.00 0.00 0.00 3.51
117 123 4.211125 TCAAATGGTTAGGTTGCTTGTGA 58.789 39.130 0.00 0.00 0.00 3.58
141 147 0.389391 GCATAGCGAGCTGAGGGTAA 59.611 55.000 7.99 0.00 0.00 2.85
151 157 6.724263 TGTTAATTAATGTTGGCATAGCGAG 58.276 36.000 0.31 0.00 34.39 5.03
159 165 9.150348 AGTTTGCTATTGTTAATTAATGTTGGC 57.850 29.630 0.31 5.13 0.00 4.52
253 259 4.672251 GCATGGTGCTCCCTTCAT 57.328 55.556 1.59 0.00 40.96 2.57
273 279 9.725019 CTCCAAAGTAATGCATCTATATTACCA 57.275 33.333 0.00 0.00 39.45 3.25
279 285 6.270927 AGCTCCTCCAAAGTAATGCATCTATA 59.729 38.462 0.00 0.00 0.00 1.31
283 289 3.549794 AGCTCCTCCAAAGTAATGCATC 58.450 45.455 0.00 0.00 0.00 3.91
284 290 3.659183 AGCTCCTCCAAAGTAATGCAT 57.341 42.857 0.00 0.00 0.00 3.96
351 357 9.277783 ACACATAGAAGATAGAAAATACATGCC 57.722 33.333 0.00 0.00 0.00 4.40
381 387 9.489084 CATATACATACAGAATCCCGAAAAAGA 57.511 33.333 0.00 0.00 0.00 2.52
382 388 9.273016 ACATATACATACAGAATCCCGAAAAAG 57.727 33.333 0.00 0.00 0.00 2.27
387 399 6.911250 ACACATATACATACAGAATCCCGA 57.089 37.500 0.00 0.00 0.00 5.14
473 485 0.321475 TGTGAGCGTGGCATCATGAA 60.321 50.000 0.00 0.00 31.73 2.57
477 489 2.358615 GGTGTGAGCGTGGCATCA 60.359 61.111 0.00 0.00 0.00 3.07
495 507 4.413087 GCTCCGTTGGATATGTATCGTAG 58.587 47.826 0.00 0.00 33.52 3.51
502 514 1.445942 CCCGCTCCGTTGGATATGT 59.554 57.895 0.00 0.00 0.00 2.29
534 546 0.179020 CAAGAGTCAGTTGGTGCCCA 60.179 55.000 0.00 0.00 0.00 5.36
570 582 2.094906 TGAGTGATAAGTTCCACGTCCG 60.095 50.000 0.00 0.00 38.26 4.79
602 614 8.110860 ACAATGGAATCGAGTGATAACTTTTT 57.889 30.769 0.00 0.00 33.40 1.94
603 615 7.687941 ACAATGGAATCGAGTGATAACTTTT 57.312 32.000 0.00 0.00 33.40 2.27
604 616 7.687941 AACAATGGAATCGAGTGATAACTTT 57.312 32.000 0.00 0.00 33.40 2.66
605 617 7.607991 AGAAACAATGGAATCGAGTGATAACTT 59.392 33.333 0.00 0.00 33.40 2.66
606 618 7.106239 AGAAACAATGGAATCGAGTGATAACT 58.894 34.615 0.00 0.00 33.40 2.24
607 619 7.308782 AGAAACAATGGAATCGAGTGATAAC 57.691 36.000 0.00 0.00 33.40 1.89
648 660 7.318141 TGACGAAAATTAGGTACTCCTACAAG 58.682 38.462 0.00 0.00 44.96 3.16
649 661 7.230849 TGACGAAAATTAGGTACTCCTACAA 57.769 36.000 0.00 0.00 44.96 2.41
651 663 9.408069 CATATGACGAAAATTAGGTACTCCTAC 57.592 37.037 0.00 0.00 44.96 3.18
652 664 9.358406 TCATATGACGAAAATTAGGTACTCCTA 57.642 33.333 0.00 0.00 44.58 2.94
658 670 9.378551 GGCATATCATATGACGAAAATTAGGTA 57.621 33.333 7.78 0.00 0.00 3.08
659 671 8.103305 AGGCATATCATATGACGAAAATTAGGT 58.897 33.333 7.78 0.00 30.86 3.08
660 672 8.498054 AGGCATATCATATGACGAAAATTAGG 57.502 34.615 7.78 0.00 30.86 2.69
661 673 8.323854 CGAGGCATATCATATGACGAAAATTAG 58.676 37.037 7.78 0.00 30.86 1.73
662 674 7.201522 GCGAGGCATATCATATGACGAAAATTA 60.202 37.037 7.78 0.00 30.86 1.40
663 675 6.402550 GCGAGGCATATCATATGACGAAAATT 60.403 38.462 7.78 0.00 30.86 1.82
664 676 5.063944 GCGAGGCATATCATATGACGAAAAT 59.936 40.000 7.78 0.00 30.86 1.82
665 677 4.388773 GCGAGGCATATCATATGACGAAAA 59.611 41.667 7.78 0.00 30.86 2.29
666 678 3.926527 GCGAGGCATATCATATGACGAAA 59.073 43.478 7.78 0.00 30.86 3.46
667 679 3.056891 TGCGAGGCATATCATATGACGAA 60.057 43.478 7.78 2.84 31.71 3.85
668 680 2.491693 TGCGAGGCATATCATATGACGA 59.508 45.455 7.78 0.00 31.71 4.20
669 681 2.879826 TGCGAGGCATATCATATGACG 58.120 47.619 7.78 10.88 31.71 4.35
690 702 3.545703 CTCGTGGGAGGCATATCTTTTT 58.454 45.455 0.00 0.00 36.61 1.94
691 703 2.746472 GCTCGTGGGAGGCATATCTTTT 60.746 50.000 0.00 0.00 40.80 2.27
693 705 0.394565 GCTCGTGGGAGGCATATCTT 59.605 55.000 0.00 0.00 40.80 2.40
694 706 0.470833 AGCTCGTGGGAGGCATATCT 60.471 55.000 0.00 0.00 40.80 1.98
696 708 1.476007 GGAGCTCGTGGGAGGCATAT 61.476 60.000 7.83 0.00 40.80 1.78
697 709 2.134287 GGAGCTCGTGGGAGGCATA 61.134 63.158 7.83 0.00 40.80 3.14
698 710 3.474570 GGAGCTCGTGGGAGGCAT 61.475 66.667 7.83 0.00 40.80 4.40
701 713 2.370445 AATGGGAGCTCGTGGGAGG 61.370 63.158 7.83 0.00 40.80 4.30
702 714 1.153289 CAATGGGAGCTCGTGGGAG 60.153 63.158 7.83 0.00 43.46 4.30
703 715 1.918293 ACAATGGGAGCTCGTGGGA 60.918 57.895 7.83 0.00 0.00 4.37
704 716 1.746615 CACAATGGGAGCTCGTGGG 60.747 63.158 7.83 0.27 0.00 4.61
705 717 2.401766 GCACAATGGGAGCTCGTGG 61.402 63.158 17.03 3.64 0.00 4.94
706 718 2.743752 CGCACAATGGGAGCTCGTG 61.744 63.158 7.83 10.75 31.21 4.35
707 719 2.434884 CGCACAATGGGAGCTCGT 60.435 61.111 7.83 0.00 31.21 4.18
708 720 2.906182 TAGCGCACAATGGGAGCTCG 62.906 60.000 18.58 0.00 39.14 5.03
709 721 1.153369 TAGCGCACAATGGGAGCTC 60.153 57.895 18.58 4.71 39.14 4.09
710 722 1.153289 CTAGCGCACAATGGGAGCT 60.153 57.895 19.03 19.03 41.45 4.09
711 723 2.828128 GCTAGCGCACAATGGGAGC 61.828 63.158 11.47 2.15 35.78 4.70
712 724 0.745845 AAGCTAGCGCACAATGGGAG 60.746 55.000 11.47 0.00 39.10 4.30
713 725 0.322456 AAAGCTAGCGCACAATGGGA 60.322 50.000 11.47 0.00 39.10 4.37
754 766 4.433615 CCTGCAACGACATTATAGTGTCT 58.566 43.478 21.73 9.64 44.89 3.41
757 769 3.792401 TCCCTGCAACGACATTATAGTG 58.208 45.455 0.00 0.00 0.00 2.74
760 1290 5.601583 TTACTCCCTGCAACGACATTATA 57.398 39.130 0.00 0.00 0.00 0.98
772 1302 2.436417 TGATGTTGCTTTACTCCCTGC 58.564 47.619 0.00 0.00 0.00 4.85
775 1305 2.161609 CCGTTGATGTTGCTTTACTCCC 59.838 50.000 0.00 0.00 0.00 4.30
776 1306 3.071479 TCCGTTGATGTTGCTTTACTCC 58.929 45.455 0.00 0.00 0.00 3.85
786 1316 7.434013 GTCTGTAAAAATTTGTCCGTTGATGTT 59.566 33.333 0.00 0.00 0.00 2.71
823 1381 1.068250 GATCTGCCTACGACAGCCC 59.932 63.158 0.00 0.00 35.04 5.19
824 1382 1.319541 TAGATCTGCCTACGACAGCC 58.680 55.000 5.18 0.00 35.04 4.85
829 1387 5.607939 TTTCCAAATAGATCTGCCTACGA 57.392 39.130 5.18 0.00 0.00 3.43
833 1391 7.781324 TTTCTTTTTCCAAATAGATCTGCCT 57.219 32.000 5.18 0.00 0.00 4.75
870 1652 2.473984 GACAAACGGACGGACTACAAAG 59.526 50.000 0.00 0.00 0.00 2.77
898 1680 0.684805 AAAGGGGGTGTGACGCAAAA 60.685 50.000 0.00 0.00 32.03 2.44
901 1683 1.076632 AAAAAGGGGGTGTGACGCA 60.077 52.632 0.00 0.00 32.03 5.24
902 1684 3.850508 AAAAAGGGGGTGTGACGC 58.149 55.556 0.00 0.00 0.00 5.19
939 1723 3.582647 TGTTGGAGGCAATCAGAGACTAA 59.417 43.478 0.00 0.00 0.00 2.24
944 1728 3.318839 TGTTTTGTTGGAGGCAATCAGAG 59.681 43.478 0.00 0.00 0.00 3.35
955 1739 2.151502 TCTTGGCCTGTTTTGTTGGA 57.848 45.000 3.32 0.00 0.00 3.53
962 1746 3.391296 TGTAGAGACTTCTTGGCCTGTTT 59.609 43.478 3.32 0.00 34.79 2.83
967 1751 3.067833 GTTGTGTAGAGACTTCTTGGCC 58.932 50.000 0.00 0.00 34.79 5.36
985 1769 7.745620 AAGAACCCATTTCTACTGTAAGTTG 57.254 36.000 0.00 0.00 45.25 3.16
986 1770 7.255486 GCAAAGAACCCATTTCTACTGTAAGTT 60.255 37.037 0.00 0.00 45.25 2.66
991 1775 4.469657 TGCAAAGAACCCATTTCTACTGT 58.530 39.130 0.00 0.00 44.41 3.55
1005 1789 2.300152 ACTCGAGGAGACATGCAAAGAA 59.700 45.455 18.41 0.00 33.32 2.52
1048 1835 1.208293 CAGGAGTTGGTAAGCCCTCTC 59.792 57.143 0.00 0.00 35.58 3.20
1050 1837 0.253327 CCAGGAGTTGGTAAGCCCTC 59.747 60.000 0.00 0.00 42.41 4.30
1051 1838 2.387952 CCAGGAGTTGGTAAGCCCT 58.612 57.895 0.00 0.00 42.41 5.19
1069 1856 0.387565 AACGGGTGCACATGGAAAAC 59.612 50.000 20.43 0.00 0.00 2.43
1152 1939 1.746615 CGTGCTGGTCTTCATGGGG 60.747 63.158 0.00 0.00 0.00 4.96
1171 1958 2.284515 AAATCCATGGGCCTCGGGAC 62.285 60.000 13.02 0.00 31.04 4.46
1172 1959 2.006415 AAATCCATGGGCCTCGGGA 61.006 57.895 13.02 9.56 0.00 5.14
1173 1960 1.829533 CAAATCCATGGGCCTCGGG 60.830 63.158 13.02 3.46 0.00 5.14
1174 1961 1.829533 CCAAATCCATGGGCCTCGG 60.830 63.158 13.02 5.12 36.79 4.63
1175 1962 1.103398 GTCCAAATCCATGGGCCTCG 61.103 60.000 13.02 0.00 39.24 4.63
1176 1963 2.812664 GTCCAAATCCATGGGCCTC 58.187 57.895 13.02 0.00 39.24 4.70
1221 2008 2.048222 ACCATGCTCGACACCGTG 60.048 61.111 0.00 0.00 37.05 4.94
1242 2029 1.407258 GAGAAGGACTCCATCTCCACG 59.593 57.143 16.60 0.00 41.03 4.94
1348 2135 4.576463 TGCTTCTTTCTTCTTGGACTTGAC 59.424 41.667 0.00 0.00 0.00 3.18
1377 2164 1.987855 ATCGTCATGGTCGTGGGGT 60.988 57.895 10.02 0.00 0.00 4.95
1397 2184 0.459489 TGCTGGTTTGCCTTTGTCAC 59.541 50.000 0.00 0.00 35.27 3.67
1442 2229 0.107410 GTCATCCATGCCGGTGGTAA 60.107 55.000 10.70 0.00 40.27 2.85
1450 2237 1.278172 CGATCGACGTCATCCATGCC 61.278 60.000 17.16 0.00 37.22 4.40
1509 2296 1.672356 CAACCTGGTGAGGAAGGCG 60.672 63.158 0.00 0.00 42.93 5.52
1530 2317 1.279496 AGCCCAGCACTATGAACAGA 58.721 50.000 0.00 0.00 0.00 3.41
1531 2318 2.988010 TAGCCCAGCACTATGAACAG 57.012 50.000 0.00 0.00 0.00 3.16
1630 2417 4.115199 GCTGATCCCCTTGCCGGT 62.115 66.667 1.90 0.00 0.00 5.28
1704 2491 0.036765 TCATCCCTTCGTTGTTCGGG 60.037 55.000 0.00 0.00 40.32 5.14
1758 2545 3.649277 GAGGACGTGCGGCATGACT 62.649 63.158 27.65 22.58 0.00 3.41
1788 5607 0.114560 TGAGGAAGACGGGGAAGAGT 59.885 55.000 0.00 0.00 0.00 3.24
1797 5616 2.125350 GCCAGCCTGAGGAAGACG 60.125 66.667 0.65 0.00 0.00 4.18
1833 5652 4.316823 TCGGGCCTCCTGGTGACT 62.317 66.667 0.84 0.00 35.27 3.41
1905 5724 0.310854 CGGTGAAAGCCAAGAACCAC 59.689 55.000 0.00 0.00 0.00 4.16
1908 5727 0.310854 CCACGGTGAAAGCCAAGAAC 59.689 55.000 10.28 0.00 0.00 3.01
2006 5825 3.043713 CCGCAACGAGCTTCTGCA 61.044 61.111 13.84 0.00 42.61 4.41
2024 5843 2.731976 GAGTTGACCGACATGAACAGTC 59.268 50.000 0.00 2.07 0.00 3.51
2091 5910 2.435693 ATAGAGCACCACGAGGGCC 61.436 63.158 3.29 0.00 42.05 5.80
2095 5914 0.532573 ACCACATAGAGCACCACGAG 59.467 55.000 0.00 0.00 0.00 4.18
2097 5916 0.246360 TGACCACATAGAGCACCACG 59.754 55.000 0.00 0.00 0.00 4.94
2109 5928 4.322725 GGAAGTACTCACATCATGACCACA 60.323 45.833 0.00 0.00 32.37 4.17
2123 5942 7.387643 AGTAAAATGGACTTGAGGAAGTACTC 58.612 38.462 0.00 0.00 42.88 2.59
2128 5947 4.631813 CGGAGTAAAATGGACTTGAGGAAG 59.368 45.833 0.00 0.00 35.07 3.46
2130 5949 3.618997 GCGGAGTAAAATGGACTTGAGGA 60.619 47.826 0.00 0.00 0.00 3.71
2134 5953 7.490962 TTATATGCGGAGTAAAATGGACTTG 57.509 36.000 0.00 0.00 0.00 3.16
2135 5954 7.773690 ACTTTATATGCGGAGTAAAATGGACTT 59.226 33.333 0.00 0.00 0.00 3.01
2137 5956 7.492352 ACTTTATATGCGGAGTAAAATGGAC 57.508 36.000 0.00 0.00 0.00 4.02
2138 5957 8.402472 CAAACTTTATATGCGGAGTAAAATGGA 58.598 33.333 0.00 0.00 0.00 3.41
2141 5960 9.174166 AGACAAACTTTATATGCGGAGTAAAAT 57.826 29.630 0.00 0.00 0.00 1.82
2159 5979 8.882415 TTATAAAGTTCGACTTCAGACAAACT 57.118 30.769 0.00 0.00 37.47 2.66
2160 5980 9.925268 TTTTATAAAGTTCGACTTCAGACAAAC 57.075 29.630 0.00 0.00 37.47 2.93
2197 6017 8.253810 TGTGAATGGTGATGTTTCTTTTACAAA 58.746 29.630 0.00 0.00 0.00 2.83
2205 6025 4.464008 ACTGTGTGAATGGTGATGTTTCT 58.536 39.130 0.00 0.00 0.00 2.52
2206 6026 4.836125 ACTGTGTGAATGGTGATGTTTC 57.164 40.909 0.00 0.00 0.00 2.78
2210 6030 3.584834 TCGTACTGTGTGAATGGTGATG 58.415 45.455 0.00 0.00 0.00 3.07
2343 6169 7.888514 ATAAAATGTATATGGAGTGGAGGGA 57.111 36.000 0.00 0.00 0.00 4.20
2373 6201 1.278127 TCCCTCCGGTCATTTTCACTC 59.722 52.381 0.00 0.00 0.00 3.51
2402 6230 3.253432 TGAATCGATCGAGTGGAGGTATG 59.747 47.826 24.20 0.00 0.00 2.39
2409 6237 4.214332 TCACTATCTGAATCGATCGAGTGG 59.786 45.833 24.20 14.85 0.00 4.00
2468 6297 4.261801 GGTAGGTACCTGTTCGTAGTGTA 58.738 47.826 25.33 0.00 43.10 2.90
2553 6382 3.426292 GCTTGTTATCCTTTTCTGGTCGC 60.426 47.826 0.00 0.00 0.00 5.19
2555 6384 5.183904 ACATGCTTGTTATCCTTTTCTGGTC 59.816 40.000 0.00 0.00 29.55 4.02
2567 6396 1.745087 CTTCCGCCACATGCTTGTTAT 59.255 47.619 1.83 0.00 38.05 1.89
2578 6407 2.437359 ATGAGCAGCTTCCGCCAC 60.437 61.111 0.00 0.00 36.60 5.01
2632 6461 3.490759 CGCTCCGTGATGCACACC 61.491 66.667 11.99 0.00 45.73 4.16
2720 6549 8.592105 TGTGCTTATACGTTTTGTTAAGTAGT 57.408 30.769 0.00 0.00 0.00 2.73
2771 6601 7.595311 TTGTGTATAATGGTATCGATCATGC 57.405 36.000 0.00 0.00 0.00 4.06
2793 6623 6.284459 TGCAATTTGGGTAAGTAAGGTTTTG 58.716 36.000 0.00 0.00 0.00 2.44
2794 6624 6.487299 TGCAATTTGGGTAAGTAAGGTTTT 57.513 33.333 0.00 0.00 0.00 2.43
2798 6628 7.158021 TGAATTTGCAATTTGGGTAAGTAAGG 58.842 34.615 11.11 0.00 0.00 2.69
2800 6630 9.213799 GATTGAATTTGCAATTTGGGTAAGTAA 57.786 29.630 11.11 0.00 38.53 2.24
2801 6631 8.370940 TGATTGAATTTGCAATTTGGGTAAGTA 58.629 29.630 11.11 0.00 38.53 2.24
2824 6656 6.699204 GTCGCAATAGCTATATGTATGCTGAT 59.301 38.462 19.84 0.00 37.62 2.90
2828 6660 5.005779 GTGGTCGCAATAGCTATATGTATGC 59.994 44.000 14.67 14.67 39.10 3.14
2830 6662 6.531503 AGTGGTCGCAATAGCTATATGTAT 57.468 37.500 6.68 0.00 39.10 2.29
2844 6676 1.985334 CACACGTTATAGTGGTCGCA 58.015 50.000 2.14 0.00 45.80 5.10
2864 6696 2.121786 CAAGCACAGTTCACACAATGC 58.878 47.619 0.00 0.00 36.65 3.56
2909 6741 2.434884 CAGCTGTACCCGGTGCTG 60.435 66.667 12.57 12.57 45.15 4.41
2963 6795 1.071471 AGAGAAGCCAACCCACGTG 59.929 57.895 9.08 9.08 0.00 4.49
2993 6825 2.601367 GCCAGCTTCCCTTGCCAA 60.601 61.111 0.00 0.00 0.00 4.52
3010 6842 4.267214 CGTAGAACATGACAGCAATGAGAG 59.733 45.833 0.00 0.00 0.00 3.20
3155 6987 8.292444 TGGAAATATGTTCAGATGGTTTTAGG 57.708 34.615 0.00 0.00 0.00 2.69
3232 7091 4.460948 AGGCACATTCAATTTGGATGAC 57.539 40.909 21.91 13.60 0.00 3.06
3255 7114 1.270147 GGTTTCTGGTACTGCGACTGT 60.270 52.381 0.00 0.00 0.00 3.55
3256 7115 1.429463 GGTTTCTGGTACTGCGACTG 58.571 55.000 0.00 0.00 0.00 3.51
3258 7117 0.320697 AGGGTTTCTGGTACTGCGAC 59.679 55.000 0.00 0.00 0.00 5.19
3334 7193 7.871853 ACCGATGGATTATTTTTCGATAAAGG 58.128 34.615 7.13 2.52 31.74 3.11
3412 7271 7.615582 TTAATTCCTCTGTGTTGATGATGAC 57.384 36.000 0.00 0.00 0.00 3.06
3450 7309 0.940126 GCAAGATATGACAGGGCACG 59.060 55.000 0.00 0.00 0.00 5.34
3479 7338 6.006449 AGAAAGCAAGGAGTGATGTTGTATT 58.994 36.000 0.00 0.00 0.00 1.89
3509 7368 3.704566 TGTTCCGGTCTAGCAATCATACT 59.295 43.478 0.00 0.00 0.00 2.12
3525 7384 0.882927 TCGTTCCAAGCCTTGTTCCG 60.883 55.000 3.37 2.46 0.00 4.30
3543 7402 1.402852 GGCTTTGACGCAATTCCCTTC 60.403 52.381 0.00 0.00 0.00 3.46
3567 7426 1.361668 AATGCACGCGCGAGAATCTT 61.362 50.000 39.36 13.02 42.97 2.40
3583 7442 9.793252 CCCTATCAAAGAAATACTTGTTGAATG 57.207 33.333 0.00 0.00 38.98 2.67
3597 7456 5.223449 AGTTTCACGACCCTATCAAAGAA 57.777 39.130 0.00 0.00 0.00 2.52
3601 7460 4.610605 TGAAGTTTCACGACCCTATCAA 57.389 40.909 0.00 0.00 31.01 2.57
3644 7503 3.251729 CAGACCACAATGTGTTCTCAAGG 59.748 47.826 10.56 0.00 33.15 3.61
3651 7510 2.057137 ACAGCAGACCACAATGTGTT 57.943 45.000 12.79 0.00 0.00 3.32
3656 7515 2.299013 TCGTTCTACAGCAGACCACAAT 59.701 45.455 0.00 0.00 31.12 2.71
3684 7543 2.733026 CGTTTTCCGAGTCAAACCGTAT 59.267 45.455 0.00 0.00 39.56 3.06
3702 7561 4.999950 GGCATATTTGATGAGGAGATCGTT 59.000 41.667 0.00 0.00 0.00 3.85
3717 7576 4.038042 TCTCTTCATCTCGTCGGCATATTT 59.962 41.667 0.00 0.00 0.00 1.40
3733 7592 0.242825 CGCACTTACCGGTCTCTTCA 59.757 55.000 12.40 0.00 0.00 3.02
3770 7629 0.108520 GGACCGGCGTTACATTCTCA 60.109 55.000 6.01 0.00 0.00 3.27
3794 7653 0.592637 CAACAACAATCTGCCAGCGA 59.407 50.000 0.00 0.00 0.00 4.93
3902 7763 3.278574 GTGTATGCATCCACCAGCTTAA 58.721 45.455 11.13 0.00 0.00 1.85
4020 7881 1.297364 GATTTGGACCGTCGGGGAA 59.703 57.895 17.28 4.86 39.97 3.97
4038 7899 2.399916 CCTTCTTCAAGGGCTCTCTG 57.600 55.000 0.00 0.00 45.27 3.35


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

AutoCloner maintained by Alex Coulton.