Multiple sequence alignment - TraesCS2D01G336600

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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 TraesCS2D01G336600 chr2D 100.000 5569 0 0 1 5569 430008533 430002965 0.000000e+00 10285.0
1 TraesCS2D01G336600 chr2D 90.476 84 5 3 5312 5394 473093770 473093689 2.120000e-19 108.0
2 TraesCS2D01G336600 chr2B 96.527 2361 46 13 2910 5236 507829639 507827281 0.000000e+00 3873.0
3 TraesCS2D01G336600 chr2B 89.450 1962 121 40 913 2840 507831541 507829632 0.000000e+00 2398.0
4 TraesCS2D01G336600 chr2B 84.625 800 82 22 4 793 507832579 507831811 0.000000e+00 758.0
5 TraesCS2D01G336600 chr2B 87.216 352 15 14 5232 5569 507827243 507826908 1.890000e-99 374.0
6 TraesCS2D01G336600 chr2B 85.185 351 44 8 1333 1678 795711560 795711907 2.470000e-93 353.0
7 TraesCS2D01G336600 chr2B 85.294 204 17 7 2712 2902 736407835 736408038 1.220000e-46 198.0
8 TraesCS2D01G336600 chr2B 87.500 104 9 2 2935 3034 736408033 736408136 3.520000e-22 117.0
9 TraesCS2D01G336600 chr2B 90.000 70 4 2 841 910 507831630 507831564 2.760000e-13 87.9
10 TraesCS2D01G336600 chr2A 95.144 1915 71 9 2838 4745 557048002 557049901 0.000000e+00 3001.0
11 TraesCS2D01G336600 chr2A 90.156 2113 120 42 841 2907 557045937 557048007 0.000000e+00 2669.0
12 TraesCS2D01G336600 chr2A 92.264 349 26 1 4888 5236 557050119 557050466 1.390000e-135 494.0
13 TraesCS2D01G336600 chr2A 77.685 838 82 51 1 797 557005378 557006151 1.120000e-111 414.0
14 TraesCS2D01G336600 chr2A 94.271 192 5 3 4635 4826 557049935 557050120 7.060000e-74 289.0
15 TraesCS2D01G336600 chr6B 92.916 367 19 4 4613 4977 720707938 720707577 1.370000e-145 527.0
16 TraesCS2D01G336600 chr1A 85.075 536 40 17 2534 3034 542172012 542172542 1.380000e-140 510.0
17 TraesCS2D01G336600 chr1A 83.420 193 19 7 1288 1480 212155202 212155023 3.450000e-37 167.0
18 TraesCS2D01G336600 chr1B 84.345 313 25 14 2613 2902 610974929 610975240 9.130000e-73 285.0
19 TraesCS2D01G336600 chr1B 89.873 79 4 4 5306 5383 19220845 19220920 1.280000e-16 99.0
20 TraesCS2D01G336600 chr1D 86.076 158 10 6 2534 2684 445385391 445385239 5.770000e-35 159.0
21 TraesCS2D01G336600 chr4B 85.811 148 20 1 1333 1480 144286487 144286633 7.470000e-34 156.0
22 TraesCS2D01G336600 chr4B 87.013 77 6 3 5310 5384 416642541 416642615 3.580000e-12 84.2
23 TraesCS2D01G336600 chr5D 84.564 149 18 5 1333 1480 25522318 25522462 5.820000e-30 143.0
24 TraesCS2D01G336600 chr3A 79.897 194 35 4 1335 1527 354899011 354899201 7.520000e-29 139.0
25 TraesCS2D01G336600 chr5B 91.860 86 2 5 5308 5390 478675865 478675948 1.270000e-21 115.0
26 TraesCS2D01G336600 chr7D 90.541 74 5 2 5309 5381 549516512 549516440 4.590000e-16 97.1
27 TraesCS2D01G336600 chr7B 87.952 83 3 4 5313 5390 697229056 697228976 2.140000e-14 91.6
28 TraesCS2D01G336600 chr7B 87.952 83 3 4 5313 5390 697260775 697260695 2.140000e-14 91.6
29 TraesCS2D01G336600 chr6D 87.342 79 6 3 5309 5384 87467532 87467609 2.760000e-13 87.9
30 TraesCS2D01G336600 chr4D 88.889 72 6 2 5310 5380 337520682 337520752 2.760000e-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 TraesCS2D01G336600 chr2D 430002965 430008533 5568 True 10285.00 10285 100.00000 1 5569 1 chr2D.!!$R1 5568
1 TraesCS2D01G336600 chr2B 507826908 507832579 5671 True 1498.18 3873 89.56360 4 5569 5 chr2B.!!$R1 5565
2 TraesCS2D01G336600 chr2A 557045937 557050466 4529 False 1613.25 3001 92.95875 841 5236 4 chr2A.!!$F2 4395
3 TraesCS2D01G336600 chr2A 557005378 557006151 773 False 414.00 414 77.68500 1 797 1 chr2A.!!$F1 796
4 TraesCS2D01G336600 chr1A 542172012 542172542 530 False 510.00 510 85.07500 2534 3034 1 chr1A.!!$F1 500

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
729 787 0.179084 CGGCTCGCTTTTATGGAGGA 60.179 55.000 0.00 0.00 0.00 3.71 F
1051 1269 0.107831 TCCTGCCTGCACGTTTAACT 59.892 50.000 0.00 0.00 0.00 2.24 F
1707 1975 1.068333 TCTTCGCAAGCTCCAAATTGC 60.068 47.619 0.00 0.00 46.53 3.56 F
1913 2183 0.466963 CTATCCCCAACCGTGGTACC 59.533 60.000 4.43 4.43 44.30 3.34 F
2583 2861 0.523072 CGGTGGAAATGCTCTGGTTG 59.477 55.000 0.00 0.00 0.00 3.77 F
2862 3169 0.906282 TGCATCTGAGCCTGTCCTCA 60.906 55.000 0.00 0.00 39.42 3.86 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1545 1813 0.106894 CTCGGGGCTAGGGAATCAAC 59.893 60.000 0.00 0.00 0.00 3.18 R
1852 2122 0.635731 GACACGTCGCGAGATTCTTG 59.364 55.000 10.24 3.98 45.19 3.02 R
2706 2995 1.101635 CGAGGACAGGCGTATGAGGA 61.102 60.000 0.00 0.00 0.00 3.71 R
2791 3090 1.204704 TCGATGCACGGAACAGAAGAT 59.795 47.619 8.46 0.00 42.82 2.40 R
4105 4585 0.810648 TGCCCAACTTCGCAATGATC 59.189 50.000 0.00 0.00 30.46 2.92 R
4771 5394 0.590195 CAAGTCTGTTCACAGCTGCC 59.410 55.000 15.27 0.00 43.46 4.85 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
22 23 2.210013 TGGAACACTGAGCCGCTCT 61.210 57.895 20.87 0.03 0.00 4.09
23 24 1.004440 GGAACACTGAGCCGCTCTT 60.004 57.895 20.87 7.10 0.00 2.85
44 45 2.607892 GCAACAGAGCCGCTCGTTT 61.608 57.895 20.63 13.33 35.36 3.60
68 69 1.153168 CCGGAGCGGGTGAATCAAT 60.153 57.895 0.00 0.00 44.15 2.57
72 73 1.303309 GAGCGGGTGAATCAATCCAG 58.697 55.000 5.07 0.00 0.00 3.86
75 76 1.729881 GGGTGAATCAATCCAGCGC 59.270 57.895 0.00 0.00 0.00 5.92
96 98 2.415512 CGAAAAATCCCGAGAGTTCCAC 59.584 50.000 0.00 0.00 28.12 4.02
100 102 0.905357 ATCCCGAGAGTTCCACTTGG 59.095 55.000 0.00 0.00 38.33 3.61
233 242 3.386726 TCTCGACGTATTGATGGGGAAAT 59.613 43.478 0.00 0.00 0.00 2.17
255 264 4.755656 GGCTTCCCGGGAAATGAA 57.244 55.556 34.78 14.67 33.34 2.57
260 269 2.024414 CTTCCCGGGAAATGAATCCAC 58.976 52.381 34.78 0.00 41.55 4.02
375 389 2.809601 GAAGACGATGCGGTGCGT 60.810 61.111 0.00 0.00 44.33 5.24
440 463 3.480470 ACGGCAGGAAATGGATAATCTG 58.520 45.455 0.00 0.00 0.00 2.90
444 467 3.887716 GCAGGAAATGGATAATCTGCACT 59.112 43.478 8.05 0.00 44.68 4.40
482 513 0.788391 GAGGTCGGTAGCAACAAACG 59.212 55.000 0.00 0.00 0.00 3.60
484 515 0.600782 GGTCGGTAGCAACAAACGGA 60.601 55.000 0.00 0.00 0.00 4.69
496 527 4.449068 GCAACAAACGGATAGATGATCGAT 59.551 41.667 0.00 0.00 35.12 3.59
504 535 5.183904 ACGGATAGATGATCGATCATGTGAA 59.816 40.000 38.50 23.82 46.84 3.18
514 545 8.947055 TGATCGATCATGTGAAGAAAGAAATA 57.053 30.769 23.99 0.00 0.00 1.40
517 548 9.994432 ATCGATCATGTGAAGAAAGAAATAAAC 57.006 29.630 0.00 0.00 0.00 2.01
518 549 8.450964 TCGATCATGTGAAGAAAGAAATAAACC 58.549 33.333 0.00 0.00 0.00 3.27
519 550 8.454106 CGATCATGTGAAGAAAGAAATAAACCT 58.546 33.333 0.00 0.00 0.00 3.50
520 551 9.565213 GATCATGTGAAGAAAGAAATAAACCTG 57.435 33.333 0.00 0.00 0.00 4.00
521 552 7.885297 TCATGTGAAGAAAGAAATAAACCTGG 58.115 34.615 0.00 0.00 0.00 4.45
522 553 7.723616 TCATGTGAAGAAAGAAATAAACCTGGA 59.276 33.333 0.00 0.00 0.00 3.86
525 556 7.094805 TGTGAAGAAAGAAATAAACCTGGATCG 60.095 37.037 0.00 0.00 0.00 3.69
528 559 5.946377 AGAAAGAAATAAACCTGGATCGCTT 59.054 36.000 0.00 0.00 0.00 4.68
531 562 3.366052 AATAAACCTGGATCGCTTGGT 57.634 42.857 0.00 0.00 0.00 3.67
534 565 1.779061 AACCTGGATCGCTTGGTGGT 61.779 55.000 0.00 0.00 32.53 4.16
535 566 1.746615 CCTGGATCGCTTGGTGGTG 60.747 63.158 0.00 0.00 0.00 4.17
536 567 1.746615 CTGGATCGCTTGGTGGTGG 60.747 63.158 0.00 0.00 0.00 4.61
537 568 2.184020 CTGGATCGCTTGGTGGTGGA 62.184 60.000 0.00 0.00 0.00 4.02
538 569 1.002624 GGATCGCTTGGTGGTGGAA 60.003 57.895 0.00 0.00 0.00 3.53
539 570 1.026718 GGATCGCTTGGTGGTGGAAG 61.027 60.000 0.00 0.00 0.00 3.46
540 571 1.648467 GATCGCTTGGTGGTGGAAGC 61.648 60.000 0.00 0.00 41.05 3.86
543 574 2.846532 CTTGGTGGTGGAAGCCCT 59.153 61.111 0.00 0.00 0.00 5.19
544 575 1.153756 CTTGGTGGTGGAAGCCCTT 59.846 57.895 0.00 0.00 0.00 3.95
545 576 1.152567 TTGGTGGTGGAAGCCCTTG 60.153 57.895 0.00 0.00 0.00 3.61
546 577 1.650242 TTGGTGGTGGAAGCCCTTGA 61.650 55.000 0.00 0.00 0.00 3.02
547 578 1.384191 GGTGGTGGAAGCCCTTGAT 59.616 57.895 0.00 0.00 0.00 2.57
548 579 0.967380 GGTGGTGGAAGCCCTTGATG 60.967 60.000 0.00 0.00 0.00 3.07
549 580 0.967380 GTGGTGGAAGCCCTTGATGG 60.967 60.000 0.00 0.00 0.00 3.51
602 649 5.118203 CGGCTTGTTATACGTTATCCTTAGC 59.882 44.000 0.00 0.00 0.00 3.09
603 650 5.407691 GGCTTGTTATACGTTATCCTTAGCC 59.592 44.000 0.00 1.08 36.82 3.93
604 651 5.987347 GCTTGTTATACGTTATCCTTAGCCA 59.013 40.000 0.00 0.00 0.00 4.75
624 675 1.751924 AGGAACTACGATGAGCTGGAC 59.248 52.381 0.00 0.00 36.02 4.02
639 690 2.146342 CTGGACGGATGCCAATCATAC 58.854 52.381 0.00 0.00 35.05 2.39
647 698 3.245016 GGATGCCAATCATACCCTGATGA 60.245 47.826 0.00 0.00 44.03 2.92
666 717 6.623486 TGATGAATCTTTTAGCAACCATGTG 58.377 36.000 0.00 0.00 0.00 3.21
673 727 4.771684 GCAACCATGTGCATCGAC 57.228 55.556 3.55 0.00 44.29 4.20
704 762 1.047801 AATGGCTTTCCACCACCAAC 58.952 50.000 0.00 0.00 46.92 3.77
707 765 0.389025 GGCTTTCCACCACCAACAAG 59.611 55.000 0.00 0.00 0.00 3.16
715 773 3.365265 CACCAACAAGGCCGGCTC 61.365 66.667 28.56 16.85 43.14 4.70
721 779 3.365265 CAAGGCCGGCTCGCTTTT 61.365 61.111 28.56 8.59 0.00 2.27
722 780 2.038269 CAAGGCCGGCTCGCTTTTA 61.038 57.895 28.56 0.00 0.00 1.52
723 781 1.077716 AAGGCCGGCTCGCTTTTAT 60.078 52.632 28.56 0.00 0.00 1.40
724 782 1.376609 AAGGCCGGCTCGCTTTTATG 61.377 55.000 28.56 0.00 0.00 1.90
725 783 2.715624 GCCGGCTCGCTTTTATGG 59.284 61.111 22.15 0.00 0.00 2.74
726 784 1.817941 GCCGGCTCGCTTTTATGGA 60.818 57.895 22.15 0.00 0.00 3.41
727 785 1.776034 GCCGGCTCGCTTTTATGGAG 61.776 60.000 22.15 0.00 0.00 3.86
729 787 0.179084 CGGCTCGCTTTTATGGAGGA 60.179 55.000 0.00 0.00 0.00 3.71
730 788 1.300481 GGCTCGCTTTTATGGAGGAC 58.700 55.000 0.00 0.00 0.00 3.85
731 789 1.134371 GGCTCGCTTTTATGGAGGACT 60.134 52.381 0.00 0.00 0.00 3.85
732 790 2.102588 GGCTCGCTTTTATGGAGGACTA 59.897 50.000 0.00 0.00 0.00 2.59
733 791 3.124560 GCTCGCTTTTATGGAGGACTAC 58.875 50.000 0.00 0.00 0.00 2.73
734 792 3.181474 GCTCGCTTTTATGGAGGACTACT 60.181 47.826 0.00 0.00 0.00 2.57
735 793 4.363999 CTCGCTTTTATGGAGGACTACTG 58.636 47.826 0.00 0.00 0.00 2.74
736 794 2.866762 CGCTTTTATGGAGGACTACTGC 59.133 50.000 0.00 0.00 38.16 4.40
737 795 3.430929 CGCTTTTATGGAGGACTACTGCT 60.431 47.826 0.00 0.00 38.54 4.24
738 796 4.202121 CGCTTTTATGGAGGACTACTGCTA 60.202 45.833 0.00 0.00 38.54 3.49
747 805 3.995048 GAGGACTACTGCTACAACAAACC 59.005 47.826 0.00 0.00 0.00 3.27
760 818 2.287393 ACAAACCGCTTGACCAAAAC 57.713 45.000 2.82 0.00 38.50 2.43
765 823 1.760029 ACCGCTTGACCAAAACCAAAT 59.240 42.857 0.00 0.00 0.00 2.32
768 826 3.052036 CGCTTGACCAAAACCAAATCAG 58.948 45.455 0.00 0.00 0.00 2.90
793 851 3.347958 TGGAAACAACGAAACAGCATC 57.652 42.857 0.00 0.00 37.44 3.91
796 854 4.202101 TGGAAACAACGAAACAGCATCAAT 60.202 37.500 0.00 0.00 37.44 2.57
799 857 5.888412 AACAACGAAACAGCATCAATTTC 57.112 34.783 0.00 0.00 0.00 2.17
800 858 5.186996 ACAACGAAACAGCATCAATTTCT 57.813 34.783 0.00 0.00 31.47 2.52
801 859 6.312399 ACAACGAAACAGCATCAATTTCTA 57.688 33.333 0.00 0.00 31.47 2.10
802 860 6.142817 ACAACGAAACAGCATCAATTTCTAC 58.857 36.000 0.00 0.00 31.47 2.59
804 862 7.172532 ACAACGAAACAGCATCAATTTCTACTA 59.827 33.333 0.00 0.00 31.47 1.82
805 863 7.295952 ACGAAACAGCATCAATTTCTACTAG 57.704 36.000 0.00 0.00 31.47 2.57
807 865 8.033038 ACGAAACAGCATCAATTTCTACTAGTA 58.967 33.333 1.89 1.89 31.47 1.82
827 885 9.210228 ACTAGTATGTATAAAACCTAGGCAAGT 57.790 33.333 9.30 0.00 0.00 3.16
834 892 9.699410 TGTATAAAACCTAGGCAAGTAGTACTA 57.301 33.333 9.30 0.00 0.00 1.82
838 896 5.204131 ACCTAGGCAAGTAGTACTACCTT 57.796 43.478 25.97 17.27 36.59 3.50
839 897 5.587861 ACCTAGGCAAGTAGTACTACCTTT 58.412 41.667 25.97 14.16 36.59 3.11
840 898 6.021672 ACCTAGGCAAGTAGTACTACCTTTT 58.978 40.000 25.97 13.51 36.59 2.27
863 1055 4.377839 TTTTTGTGTGAGATCGGCAAAA 57.622 36.364 9.86 9.86 37.29 2.44
865 1057 3.347958 TTGTGTGAGATCGGCAAAAAC 57.652 42.857 0.00 0.00 0.00 2.43
866 1058 1.262950 TGTGTGAGATCGGCAAAAACG 59.737 47.619 0.00 0.00 0.00 3.60
873 1065 2.709170 TCGGCAAAAACGATGGTGT 58.291 47.368 0.00 0.00 35.12 4.16
1040 1258 3.324930 TCCACAGCCTCCTGCCTG 61.325 66.667 0.00 0.00 43.02 4.85
1051 1269 0.107831 TCCTGCCTGCACGTTTAACT 59.892 50.000 0.00 0.00 0.00 2.24
1094 1320 2.158740 GCAAATTACCCTCCTCTCCTCC 60.159 54.545 0.00 0.00 0.00 4.30
1095 1321 2.089600 AATTACCCTCCTCTCCTCCG 57.910 55.000 0.00 0.00 0.00 4.63
1163 1399 2.513897 GGGAAACGCCAGGATCCG 60.514 66.667 5.98 1.07 38.95 4.18
1164 1400 2.267961 GGAAACGCCAGGATCCGT 59.732 61.111 5.98 0.00 39.70 4.69
1176 1412 1.569548 AGGATCCGTAAGACCTCCAGA 59.430 52.381 5.98 0.00 43.02 3.86
1508 1776 1.529309 GAGGTGAGCCATTCCCCTC 59.471 63.158 0.00 0.00 42.20 4.30
1509 1777 1.988982 GAGGTGAGCCATTCCCCTCC 61.989 65.000 0.00 0.00 42.73 4.30
1510 1778 2.597903 GTGAGCCATTCCCCTCCC 59.402 66.667 0.00 0.00 0.00 4.30
1511 1779 2.696125 TGAGCCATTCCCCTCCCC 60.696 66.667 0.00 0.00 0.00 4.81
1512 1780 3.502875 GAGCCATTCCCCTCCCCC 61.503 72.222 0.00 0.00 0.00 5.40
1536 1804 1.684386 CCAGATCTGCCCTCTTCGCT 61.684 60.000 17.76 0.00 0.00 4.93
1555 1823 4.109675 CGGCGGGGTTGATTCCCT 62.110 66.667 0.00 0.00 46.27 4.20
1556 1824 2.737881 CGGCGGGGTTGATTCCCTA 61.738 63.158 0.00 0.00 46.27 3.53
1557 1825 1.148498 GGCGGGGTTGATTCCCTAG 59.852 63.158 1.72 0.00 46.27 3.02
1608 1876 3.089874 TGGAGCATTAGGCCCGCT 61.090 61.111 0.00 1.88 46.50 5.52
1633 1901 3.741476 CTTGCCGCCTTGCACCTC 61.741 66.667 0.00 0.00 41.88 3.85
1703 1971 3.791973 TTTTTCTTCGCAAGCTCCAAA 57.208 38.095 0.00 0.00 37.18 3.28
1705 1973 4.320608 TTTTCTTCGCAAGCTCCAAATT 57.679 36.364 0.00 0.00 37.18 1.82
1706 1974 2.995466 TCTTCGCAAGCTCCAAATTG 57.005 45.000 0.00 0.00 37.18 2.32
1707 1975 1.068333 TCTTCGCAAGCTCCAAATTGC 60.068 47.619 0.00 0.00 46.53 3.56
1852 2122 1.804748 CTCACGCCTTTTTGGAGGTAC 59.195 52.381 0.00 0.00 40.14 3.34
1910 2180 1.910580 CTGCTATCCCCAACCGTGGT 61.911 60.000 0.00 0.00 44.30 4.16
1913 2183 0.466963 CTATCCCCAACCGTGGTACC 59.533 60.000 4.43 4.43 44.30 3.34
1929 2199 5.583061 CGTGGTACCACTAATATTTCTTGCA 59.417 40.000 35.83 0.00 44.16 4.08
1992 2262 1.597937 CCTGTGCTGTGAAAACTTCGC 60.598 52.381 0.00 0.00 40.51 4.70
2052 2322 5.560722 ACCCTAAAATTTGGTTGGGAAAG 57.439 39.130 18.79 0.00 38.08 2.62
2056 2326 1.064003 AATTTGGTTGGGAAAGGGGC 58.936 50.000 0.00 0.00 0.00 5.80
2512 2790 3.861840 AGTATACATGTGTGTGCCTGAC 58.138 45.455 9.11 0.00 39.39 3.51
2582 2860 1.244019 GCGGTGGAAATGCTCTGGTT 61.244 55.000 0.00 0.00 0.00 3.67
2583 2861 0.523072 CGGTGGAAATGCTCTGGTTG 59.477 55.000 0.00 0.00 0.00 3.77
2615 2896 2.887337 ACCTTGTTCTTGCCGTTTTTG 58.113 42.857 0.00 0.00 0.00 2.44
2791 3090 1.150827 CAGAACGAACAGCATGCTCA 58.849 50.000 19.68 0.00 42.53 4.26
2862 3169 0.906282 TGCATCTGAGCCTGTCCTCA 60.906 55.000 0.00 0.00 39.42 3.86
2870 3177 2.306805 TGAGCCTGTCCTCAAATGTGAT 59.693 45.455 0.00 0.00 38.81 3.06
2888 3195 4.837298 TGTGATTCACCAAATGATTCCCAA 59.163 37.500 14.05 0.00 37.04 4.12
2891 3198 7.179872 TGTGATTCACCAAATGATTCCCAATTA 59.820 33.333 14.05 0.00 37.04 1.40
2892 3199 7.492344 GTGATTCACCAAATGATTCCCAATTAC 59.508 37.037 5.44 0.00 37.04 1.89
2897 3204 5.245075 ACCAAATGATTCCCAATTACGTGTT 59.755 36.000 0.00 0.00 0.00 3.32
2970 3429 6.218019 TGGCAGCATCAAATTTATATTCAGC 58.782 36.000 0.00 0.00 0.00 4.26
2974 3433 8.030692 GCAGCATCAAATTTATATTCAGCCATA 58.969 33.333 0.00 0.00 0.00 2.74
3027 3486 4.434330 CGATGTTAAAACGCTCCTTCAGTC 60.434 45.833 0.00 0.00 0.00 3.51
3208 3688 3.631250 TGATTTCAGGGTAATTCTGGCC 58.369 45.455 0.00 0.00 33.36 5.36
3952 4432 2.874849 CACTGCAGTTTTTGTTTCCGT 58.125 42.857 18.94 0.00 0.00 4.69
4105 4585 5.357314 TCCTGAAGAGTATACGTTCCAAGAG 59.643 44.000 14.76 8.06 0.00 2.85
4257 4737 2.127251 GTGGTTTACTTTGCAAGCTGC 58.873 47.619 0.00 0.00 45.29 5.25
4280 4760 1.750399 CATGGGTGCCACTGCCTAC 60.750 63.158 0.00 0.00 35.80 3.18
4591 5071 1.380302 CAAGTGGCCTTACCCTGCT 59.620 57.895 3.32 0.00 37.83 4.24
4631 5115 5.643379 TCATATTTTTCACCTTGGTGCTC 57.357 39.130 14.49 0.00 0.00 4.26
4673 5157 5.731686 GCACCGATGAAAATCTGATTTCCTC 60.732 44.000 15.43 11.03 38.30 3.71
4699 5183 4.202441 ACTGGATTTTCTGATTCCCATCG 58.798 43.478 0.00 0.00 31.08 3.84
4771 5394 5.616866 CGGGTAAGTACAACTTCTGCATTTG 60.617 44.000 0.00 0.00 39.51 2.32
4849 5472 2.304761 TGGTAACCCTTGGACTGACATC 59.695 50.000 0.00 0.00 0.00 3.06
4878 5501 3.071479 GTCGAAATCTTGGTGCTTGGTA 58.929 45.455 0.00 0.00 0.00 3.25
4908 5531 7.095060 GCTGTATCATCTGTTCAGTTTTTCTCA 60.095 37.037 0.00 0.00 0.00 3.27
4924 5547 2.799017 TCTCATGCATGTTTTCCTGCT 58.201 42.857 25.43 0.00 41.02 4.24
5043 5679 0.109132 GCATTTCTTGCCTGGTTCCG 60.109 55.000 0.00 0.00 46.15 4.30
5247 5925 4.173256 GTTTTTGCACCAATCCCTTATCG 58.827 43.478 0.00 0.00 0.00 2.92
5290 5968 9.838975 TTTGTTTATGTTGTAGTATCAATGCAG 57.161 29.630 0.00 0.00 0.00 4.41
5300 5978 8.279970 TGTAGTATCAATGCAGTTTGCTAATT 57.720 30.769 2.48 0.00 45.31 1.40
5339 6031 9.452287 AAAATATAAGACGTTTTGGTAGGCTAA 57.548 29.630 0.83 0.00 0.00 3.09
5361 6053 7.117379 GCTAAGTTTAGTCTACCAAAACGTCAT 59.883 37.037 0.00 0.00 37.99 3.06
5362 6054 9.630098 CTAAGTTTAGTCTACCAAAACGTCATA 57.370 33.333 0.00 0.00 37.99 2.15
5387 6079 8.757982 ATATTTTGGAACGAGGTAGTAGTAGA 57.242 34.615 0.00 0.00 0.00 2.59
5427 6119 6.144854 GCACCATATACTAATTGTGCATGTG 58.855 40.000 7.49 0.00 46.16 3.21
5436 6128 1.697284 TTGTGCATGTGGTTTAGGCA 58.303 45.000 0.00 0.00 0.00 4.75
5458 6150 6.264067 GGCATCTATTAACCTGCTGATCTTTT 59.736 38.462 0.00 0.00 35.03 2.27
5503 6195 3.887716 GCAATTCTATCACCATCTGCCTT 59.112 43.478 0.00 0.00 0.00 4.35
5539 6231 2.510411 CCTGTCCTGTGTGTGCCA 59.490 61.111 0.00 0.00 0.00 4.92
5556 6248 4.826733 TGTGCCAGTCAGTGTTCAAATATT 59.173 37.500 0.00 0.00 0.00 1.28
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
2 3 1.078848 AGCGGCTCAGTGTTCCATC 60.079 57.895 0.00 0.00 0.00 3.51
22 23 2.427320 AGCGGCTCTGTTGCTCAA 59.573 55.556 0.00 0.00 32.44 3.02
66 67 0.455815 GGGATTTTTCGCGCTGGATT 59.544 50.000 5.56 0.00 0.00 3.01
68 69 2.395360 CGGGATTTTTCGCGCTGGA 61.395 57.895 5.56 0.00 39.06 3.86
72 73 1.348594 CTCTCGGGATTTTTCGCGC 59.651 57.895 0.00 0.00 44.12 6.86
75 76 2.415512 GTGGAACTCTCGGGATTTTTCG 59.584 50.000 0.00 0.00 0.00 3.46
100 102 3.119137 CCCGGATCTTTTTGTTGGATTCC 60.119 47.826 0.73 0.00 0.00 3.01
143 151 2.742116 GCTGACCGGGGGCTGATTA 61.742 63.158 6.32 0.00 0.00 1.75
181 190 3.259751 GTCGGGATGGTTACGCGC 61.260 66.667 5.73 0.00 41.95 6.86
233 242 0.979187 ATTTCCCGGGAAGCCGTCTA 60.979 55.000 33.64 19.27 35.38 2.59
251 260 1.477558 GCGATTCTGGGGTGGATTCAT 60.478 52.381 0.00 0.00 0.00 2.57
253 262 0.181350 AGCGATTCTGGGGTGGATTC 59.819 55.000 0.00 0.00 0.00 2.52
254 263 0.625849 AAGCGATTCTGGGGTGGATT 59.374 50.000 0.00 0.00 0.00 3.01
255 264 0.107017 CAAGCGATTCTGGGGTGGAT 60.107 55.000 0.00 0.00 0.00 3.41
260 269 0.181114 TGATCCAAGCGATTCTGGGG 59.819 55.000 0.00 0.00 36.47 4.96
389 403 0.969917 CCAACCGGGGCAATTCATCA 60.970 55.000 6.32 0.00 0.00 3.07
422 445 3.887716 AGTGCAGATTATCCATTTCCTGC 59.112 43.478 0.00 0.00 45.01 4.85
440 463 8.968242 CCTCAAACTTTAACAGATTAAAAGTGC 58.032 33.333 0.85 0.00 39.28 4.40
444 467 8.347035 CCGACCTCAAACTTTAACAGATTAAAA 58.653 33.333 0.00 0.00 39.28 1.52
467 498 2.492881 TCTATCCGTTTGTTGCTACCGA 59.507 45.455 0.00 0.00 0.00 4.69
482 513 6.861144 TCTTCACATGATCGATCATCTATCC 58.139 40.000 32.92 3.77 45.23 2.59
484 515 8.583296 TCTTTCTTCACATGATCGATCATCTAT 58.417 33.333 32.92 20.51 45.23 1.98
496 527 7.723616 TCCAGGTTTATTTCTTTCTTCACATGA 59.276 33.333 0.00 0.00 0.00 3.07
504 535 5.501156 AGCGATCCAGGTTTATTTCTTTCT 58.499 37.500 0.00 0.00 0.00 2.52
514 545 0.609131 CCACCAAGCGATCCAGGTTT 60.609 55.000 0.00 0.00 30.44 3.27
517 548 1.746615 CACCACCAAGCGATCCAGG 60.747 63.158 0.00 0.00 0.00 4.45
518 549 1.746615 CCACCACCAAGCGATCCAG 60.747 63.158 0.00 0.00 0.00 3.86
519 550 1.773856 TTCCACCACCAAGCGATCCA 61.774 55.000 0.00 0.00 0.00 3.41
520 551 1.002624 TTCCACCACCAAGCGATCC 60.003 57.895 0.00 0.00 0.00 3.36
521 552 1.648467 GCTTCCACCACCAAGCGATC 61.648 60.000 0.00 0.00 35.97 3.69
522 553 1.675641 GCTTCCACCACCAAGCGAT 60.676 57.895 0.00 0.00 35.97 4.58
525 556 2.991540 GGGCTTCCACCACCAAGC 60.992 66.667 0.00 0.00 43.72 4.01
528 559 1.434513 ATCAAGGGCTTCCACCACCA 61.435 55.000 0.00 0.00 0.00 4.17
531 562 1.383799 CCATCAAGGGCTTCCACCA 59.616 57.895 0.00 0.00 0.00 4.17
540 571 2.441532 CAGCCCAGCCATCAAGGG 60.442 66.667 0.00 0.00 45.68 3.95
543 574 1.076559 CATCCAGCCCAGCCATCAA 60.077 57.895 0.00 0.00 0.00 2.57
544 575 2.599032 CATCCAGCCCAGCCATCA 59.401 61.111 0.00 0.00 0.00 3.07
545 576 2.910994 GCATCCAGCCCAGCCATC 60.911 66.667 0.00 0.00 37.23 3.51
602 649 1.202463 CCAGCTCATCGTAGTTCCTGG 60.202 57.143 0.00 0.00 33.27 4.45
603 650 1.751351 TCCAGCTCATCGTAGTTCCTG 59.249 52.381 0.00 0.00 0.00 3.86
604 651 1.751924 GTCCAGCTCATCGTAGTTCCT 59.248 52.381 0.00 0.00 0.00 3.36
609 660 0.955178 ATCCGTCCAGCTCATCGTAG 59.045 55.000 0.00 0.00 0.00 3.51
624 675 1.072173 TCAGGGTATGATTGGCATCCG 59.928 52.381 0.00 0.00 38.44 4.18
639 690 4.706476 TGGTTGCTAAAAGATTCATCAGGG 59.294 41.667 0.00 0.00 0.00 4.45
647 698 4.870123 TGCACATGGTTGCTAAAAGATT 57.130 36.364 9.44 0.00 43.41 2.40
666 717 4.554973 CCATTTTCTTTTCTTCGTCGATGC 59.445 41.667 0.00 0.00 0.00 3.91
673 727 5.288804 TGGAAAGCCATTTTCTTTTCTTCG 58.711 37.500 0.36 0.00 43.81 3.79
704 762 1.376609 ATAAAAGCGAGCCGGCCTTG 61.377 55.000 26.15 14.80 0.00 3.61
707 765 2.715624 CATAAAAGCGAGCCGGCC 59.284 61.111 26.15 14.23 0.00 6.13
715 773 2.866762 GCAGTAGTCCTCCATAAAAGCG 59.133 50.000 0.00 0.00 0.00 4.68
721 779 4.606210 TGTTGTAGCAGTAGTCCTCCATA 58.394 43.478 0.00 0.00 0.00 2.74
722 780 3.441101 TGTTGTAGCAGTAGTCCTCCAT 58.559 45.455 0.00 0.00 0.00 3.41
723 781 2.884320 TGTTGTAGCAGTAGTCCTCCA 58.116 47.619 0.00 0.00 0.00 3.86
724 782 3.955650 TTGTTGTAGCAGTAGTCCTCC 57.044 47.619 0.00 0.00 0.00 4.30
725 783 3.995048 GGTTTGTTGTAGCAGTAGTCCTC 59.005 47.826 0.00 0.00 0.00 3.71
726 784 3.554337 CGGTTTGTTGTAGCAGTAGTCCT 60.554 47.826 0.00 0.00 0.00 3.85
727 785 2.735134 CGGTTTGTTGTAGCAGTAGTCC 59.265 50.000 0.00 0.00 0.00 3.85
729 787 2.140717 GCGGTTTGTTGTAGCAGTAGT 58.859 47.619 0.00 0.00 0.00 2.73
730 788 2.413837 AGCGGTTTGTTGTAGCAGTAG 58.586 47.619 0.00 0.00 0.00 2.57
731 789 2.536761 AGCGGTTTGTTGTAGCAGTA 57.463 45.000 0.00 0.00 0.00 2.74
732 790 1.333619 CAAGCGGTTTGTTGTAGCAGT 59.666 47.619 0.00 0.00 31.92 4.40
733 791 1.601903 TCAAGCGGTTTGTTGTAGCAG 59.398 47.619 0.00 0.00 38.01 4.24
734 792 1.332375 GTCAAGCGGTTTGTTGTAGCA 59.668 47.619 0.00 0.00 38.01 3.49
735 793 1.334689 GGTCAAGCGGTTTGTTGTAGC 60.335 52.381 0.00 0.00 38.01 3.58
736 794 1.944024 TGGTCAAGCGGTTTGTTGTAG 59.056 47.619 0.00 0.00 38.01 2.74
737 795 2.039818 TGGTCAAGCGGTTTGTTGTA 57.960 45.000 0.00 0.00 38.01 2.41
738 796 1.178276 TTGGTCAAGCGGTTTGTTGT 58.822 45.000 0.00 0.00 38.01 3.32
747 805 3.052036 CTGATTTGGTTTTGGTCAAGCG 58.948 45.455 0.00 0.00 0.00 4.68
760 818 4.685628 CGTTGTTTCCATTTCCTGATTTGG 59.314 41.667 0.00 0.00 0.00 3.28
765 823 4.399618 TGTTTCGTTGTTTCCATTTCCTGA 59.600 37.500 0.00 0.00 0.00 3.86
768 826 3.489416 GCTGTTTCGTTGTTTCCATTTCC 59.511 43.478 0.00 0.00 0.00 3.13
780 838 6.560253 AGTAGAAATTGATGCTGTTTCGTT 57.440 33.333 0.00 0.00 37.04 3.85
801 859 9.210228 ACTTGCCTAGGTTTTATACATACTAGT 57.790 33.333 11.31 0.00 0.00 2.57
804 862 9.210228 ACTACTTGCCTAGGTTTTATACATACT 57.790 33.333 11.31 0.00 0.00 2.12
807 865 9.210228 AGTACTACTTGCCTAGGTTTTATACAT 57.790 33.333 11.31 0.00 0.00 2.29
809 867 9.958234 GTAGTACTACTTGCCTAGGTTTTATAC 57.042 37.037 23.17 5.33 33.45 1.47
812 870 7.184862 AGGTAGTACTACTTGCCTAGGTTTTA 58.815 38.462 27.71 0.00 32.94 1.52
815 873 5.204131 AGGTAGTACTACTTGCCTAGGTT 57.796 43.478 27.71 0.00 32.94 3.50
816 874 4.877436 AGGTAGTACTACTTGCCTAGGT 57.123 45.455 27.71 0.00 32.94 3.08
817 875 6.541934 AAAAGGTAGTACTACTTGCCTAGG 57.458 41.667 27.71 3.67 33.35 3.02
845 1035 2.286713 CGTTTTTGCCGATCTCACACAA 60.287 45.455 0.00 0.00 0.00 3.33
847 1037 1.529438 TCGTTTTTGCCGATCTCACAC 59.471 47.619 0.00 0.00 0.00 3.82
863 1055 1.686355 TGCTTCCAAACACCATCGTT 58.314 45.000 0.00 0.00 0.00 3.85
865 1057 4.601019 GAATATGCTTCCAAACACCATCG 58.399 43.478 0.00 0.00 0.00 3.84
866 1058 4.601019 CGAATATGCTTCCAAACACCATC 58.399 43.478 0.00 0.00 0.00 3.51
870 1062 3.429085 CAGCGAATATGCTTCCAAACAC 58.571 45.455 0.00 0.00 44.46 3.32
873 1065 2.997980 TCCAGCGAATATGCTTCCAAA 58.002 42.857 0.00 0.00 44.46 3.28
1030 1246 0.605319 TTAAACGTGCAGGCAGGAGG 60.605 55.000 19.49 1.09 35.94 4.30
1040 1258 3.580794 ACGAAGTGAAGTTAAACGTGC 57.419 42.857 0.00 0.00 42.51 5.34
1051 1269 4.987419 GTTGCGCAACGAAGTGAA 57.013 50.000 34.84 2.50 45.00 3.18
1074 1300 2.103263 CGGAGGAGAGGAGGGTAATTTG 59.897 54.545 0.00 0.00 0.00 2.32
1365 1632 0.611896 CGGGGGACAGGAAGCAATTT 60.612 55.000 0.00 0.00 0.00 1.82
1509 1777 4.201122 GCAGATCTGGGCAGGGGG 62.201 72.222 23.89 0.00 0.00 5.40
1510 1778 4.201122 GGCAGATCTGGGCAGGGG 62.201 72.222 23.89 0.00 0.00 4.79
1511 1779 4.201122 GGGCAGATCTGGGCAGGG 62.201 72.222 23.89 0.00 0.00 4.45
1512 1780 3.095163 AGGGCAGATCTGGGCAGG 61.095 66.667 23.89 0.00 0.00 4.85
1513 1781 1.633915 AAGAGGGCAGATCTGGGCAG 61.634 60.000 23.89 0.00 0.00 4.85
1514 1782 1.617536 AAGAGGGCAGATCTGGGCA 60.618 57.895 23.89 0.00 0.00 5.36
1515 1783 1.148048 GAAGAGGGCAGATCTGGGC 59.852 63.158 23.89 15.80 0.00 5.36
1516 1784 1.445095 CGAAGAGGGCAGATCTGGG 59.555 63.158 23.89 0.00 0.00 4.45
1545 1813 0.106894 CTCGGGGCTAGGGAATCAAC 59.893 60.000 0.00 0.00 0.00 3.18
1547 1815 0.191064 ATCTCGGGGCTAGGGAATCA 59.809 55.000 0.00 0.00 0.00 2.57
1548 1816 0.610687 CATCTCGGGGCTAGGGAATC 59.389 60.000 0.00 0.00 0.00 2.52
1549 1817 1.484444 GCATCTCGGGGCTAGGGAAT 61.484 60.000 0.00 0.00 0.00 3.01
1551 1819 2.524394 GCATCTCGGGGCTAGGGA 60.524 66.667 0.00 0.00 0.00 4.20
1553 1821 3.227276 ACGCATCTCGGGGCTAGG 61.227 66.667 0.00 0.00 43.86 3.02
1554 1822 2.028190 CACGCATCTCGGGGCTAG 59.972 66.667 0.00 0.00 43.86 3.42
1555 1823 4.221422 GCACGCATCTCGGGGCTA 62.221 66.667 0.00 0.00 43.10 3.93
1628 1896 1.064296 CGAGGACCGAATCGAGGTG 59.936 63.158 3.36 0.00 43.01 4.00
1633 1901 2.582498 GGCACGAGGACCGAATCG 60.582 66.667 0.00 0.00 44.36 3.34
1687 1955 1.068333 GCAATTTGGAGCTTGCGAAGA 60.068 47.619 0.00 0.00 38.47 2.87
1689 1957 3.495124 GCAATTTGGAGCTTGCGAA 57.505 47.368 0.00 0.00 38.47 4.70
1694 1962 0.318120 CCAACCGCAATTTGGAGCTT 59.682 50.000 2.42 0.00 45.69 3.74
1695 1963 1.535204 CCCAACCGCAATTTGGAGCT 61.535 55.000 9.10 0.00 45.69 4.09
1696 1964 1.079888 CCCAACCGCAATTTGGAGC 60.080 57.895 9.10 0.00 45.69 4.70
1697 1965 1.135024 CATCCCAACCGCAATTTGGAG 60.135 52.381 9.10 1.37 45.69 3.86
1698 1966 0.894141 CATCCCAACCGCAATTTGGA 59.106 50.000 9.10 1.52 45.69 3.53
1699 1967 0.740516 GCATCCCAACCGCAATTTGG 60.741 55.000 0.00 1.70 42.90 3.28
1700 1968 0.740516 GGCATCCCAACCGCAATTTG 60.741 55.000 0.00 0.00 0.00 2.32
1701 1969 1.596408 GGCATCCCAACCGCAATTT 59.404 52.632 0.00 0.00 0.00 1.82
1702 1970 2.709883 CGGCATCCCAACCGCAATT 61.710 57.895 0.00 0.00 43.44 2.32
1703 1971 3.140141 CGGCATCCCAACCGCAAT 61.140 61.111 0.00 0.00 43.44 3.56
1852 2122 0.635731 GACACGTCGCGAGATTCTTG 59.364 55.000 10.24 3.98 45.19 3.02
1876 2146 1.950630 GCAGCCCAAAAACACGCAG 60.951 57.895 0.00 0.00 0.00 5.18
1910 2180 6.036735 GCTCGTTGCAAGAAATATTAGTGGTA 59.963 38.462 0.00 0.00 42.31 3.25
1973 2243 1.331756 AGCGAAGTTTTCACAGCACAG 59.668 47.619 0.00 0.00 0.00 3.66
1975 2245 1.597937 CCAGCGAAGTTTTCACAGCAC 60.598 52.381 0.00 0.00 0.00 4.40
2049 2319 2.736531 CAAAAGCTGCGCCCCTTT 59.263 55.556 14.37 14.37 32.98 3.11
2052 2322 2.212900 CTAACCAAAAGCTGCGCCCC 62.213 60.000 4.18 0.00 0.00 5.80
2056 2326 4.154195 ACTGATAACTAACCAAAAGCTGCG 59.846 41.667 0.00 0.00 0.00 5.18
2244 2514 1.080995 GCCAGAGCTACAAGCACGAG 61.081 60.000 1.22 0.00 45.56 4.18
2512 2790 6.981722 ACTACTTGAGGCAACCATTTAAAAG 58.018 36.000 0.00 0.00 37.17 2.27
2615 2896 1.933853 GTGTTACCAGATCACGCCATC 59.066 52.381 0.00 0.00 0.00 3.51
2706 2995 1.101635 CGAGGACAGGCGTATGAGGA 61.102 60.000 0.00 0.00 0.00 3.71
2791 3090 1.204704 TCGATGCACGGAACAGAAGAT 59.795 47.619 8.46 0.00 42.82 2.40
2862 3169 6.013553 TGGGAATCATTTGGTGAATCACATTT 60.014 34.615 15.86 0.00 43.51 2.32
2870 3177 5.478679 ACGTAATTGGGAATCATTTGGTGAA 59.521 36.000 0.00 0.00 40.97 3.18
2970 3429 5.066505 GGTTCAGAGGTAGCAAAACATATGG 59.933 44.000 7.80 0.00 0.00 2.74
2974 3433 4.074970 CAGGTTCAGAGGTAGCAAAACAT 58.925 43.478 0.00 0.00 0.00 2.71
3027 3486 4.035558 GGCATTGACATACTGGTACACATG 59.964 45.833 0.00 0.00 33.38 3.21
3208 3688 3.344703 TGGCACACCAATCAAGAGG 57.655 52.632 0.00 0.00 45.37 3.69
3952 4432 5.278610 CTTGAAGGCAAAATCACTGATGTGA 60.279 40.000 1.23 1.23 44.14 3.58
4105 4585 0.810648 TGCCCAACTTCGCAATGATC 59.189 50.000 0.00 0.00 30.46 2.92
4280 4760 1.572085 CCAACCACTCTCAAGCAGCG 61.572 60.000 0.00 0.00 0.00 5.18
4431 4911 3.454858 TGAGCTCTTCTGGGAAGGTAAT 58.545 45.455 16.19 0.00 0.00 1.89
4631 5115 3.374745 GTGCCATCAACACAAGAAACAG 58.625 45.455 0.00 0.00 37.96 3.16
4673 5157 5.500234 TGGGAATCAGAAAATCCAGTAGTG 58.500 41.667 0.00 0.00 34.82 2.74
4699 5183 4.452795 GTCTTGGAAGCCAGAACTTCTTAC 59.547 45.833 4.46 0.00 44.51 2.34
4771 5394 0.590195 CAAGTCTGTTCACAGCTGCC 59.410 55.000 15.27 0.00 43.46 4.85
4849 5472 3.125829 CACCAAGATTTCGACATGTCCAG 59.874 47.826 20.03 7.32 0.00 3.86
4878 5501 5.108187 ACTGAACAGATGATACAGCCATT 57.892 39.130 8.87 0.00 32.67 3.16
4908 5531 2.226962 AGGAGCAGGAAAACATGCAT 57.773 45.000 9.32 0.00 45.01 3.96
5034 5670 2.128771 ATTGATTCACCGGAACCAGG 57.871 50.000 9.46 0.00 35.46 4.45
5043 5679 6.624423 ACAAACAGAGCATAATTGATTCACC 58.376 36.000 0.00 0.00 0.00 4.02
5187 5823 4.124238 CAACTCGTAAACAACTGAGGGAA 58.876 43.478 0.00 0.00 34.84 3.97
5247 5925 2.959030 ACAAAAAGGGTCTTCAGCTTCC 59.041 45.455 0.00 0.00 0.00 3.46
5356 6048 6.921857 ACTACCTCGTTCCAAAATATATGACG 59.078 38.462 0.00 0.00 0.00 4.35
5361 6053 9.851686 TCTACTACTACCTCGTTCCAAAATATA 57.148 33.333 0.00 0.00 0.00 0.86
5362 6054 8.757982 TCTACTACTACCTCGTTCCAAAATAT 57.242 34.615 0.00 0.00 0.00 1.28
5363 6055 8.757982 ATCTACTACTACCTCGTTCCAAAATA 57.242 34.615 0.00 0.00 0.00 1.40
5364 6056 7.657023 ATCTACTACTACCTCGTTCCAAAAT 57.343 36.000 0.00 0.00 0.00 1.82
5365 6057 7.472334 AATCTACTACTACCTCGTTCCAAAA 57.528 36.000 0.00 0.00 0.00 2.44
5366 6058 8.579850 TTAATCTACTACTACCTCGTTCCAAA 57.420 34.615 0.00 0.00 0.00 3.28
5367 6059 8.579850 TTTAATCTACTACTACCTCGTTCCAA 57.420 34.615 0.00 0.00 0.00 3.53
5368 6060 8.049117 TCTTTAATCTACTACTACCTCGTTCCA 58.951 37.037 0.00 0.00 0.00 3.53
5369 6061 8.443953 TCTTTAATCTACTACTACCTCGTTCC 57.556 38.462 0.00 0.00 0.00 3.62
5372 6064 9.624373 TCATTCTTTAATCTACTACTACCTCGT 57.376 33.333 0.00 0.00 0.00 4.18
5408 6100 9.066892 CCTAAACCACATGCACAATTAGTATAT 57.933 33.333 0.00 0.00 0.00 0.86
5412 6104 4.082245 GCCTAAACCACATGCACAATTAGT 60.082 41.667 0.00 0.00 0.00 2.24
5427 6119 5.239525 CAGCAGGTTAATAGATGCCTAAACC 59.760 44.000 0.00 0.00 39.51 3.27
5436 6128 8.489489 TCAGAAAAGATCAGCAGGTTAATAGAT 58.511 33.333 0.00 0.00 0.00 1.98
5487 6179 1.602311 GCCAAGGCAGATGGTGATAG 58.398 55.000 6.14 0.00 40.23 2.08
5503 6195 3.385433 CAGGGAAAAGATTATGCATGCCA 59.615 43.478 16.68 3.52 0.00 4.92
5539 6231 7.575720 GCCTAGCAAAATATTTGAACACTGACT 60.576 37.037 0.39 0.81 0.00 3.41


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

AutoCloner maintained by Alex Coulton.