Multiple sequence alignment - TraesCS5B01G035100

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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 TraesCS5B01G035100 chr5B 100.000 4558 0 0 1 4558 38161178 38165735 0.000000e+00 8418.0
1 TraesCS5B01G035100 chr5B 83.531 844 122 16 2724 3559 41255830 41254996 0.000000e+00 773.0
2 TraesCS5B01G035100 chr5B 76.631 1027 224 16 2404 3422 683997983 683996965 1.850000e-153 553.0
3 TraesCS5B01G035100 chr5B 73.306 1446 300 57 1339 2740 41260252 41258849 1.930000e-123 453.0
4 TraesCS5B01G035100 chr5B 77.259 664 138 8 2545 3198 38050598 38049938 1.200000e-100 377.0
5 TraesCS5B01G035100 chr5A 94.742 3842 170 17 4 3828 32709506 32705680 0.000000e+00 5947.0
6 TraesCS5B01G035100 chr5A 81.747 767 114 18 2825 3577 33176875 33176121 6.480000e-173 617.0
7 TraesCS5B01G035100 chr5A 86.523 371 35 9 4192 4558 32705454 32705095 1.190000e-105 394.0
8 TraesCS5B01G035100 chr5A 89.333 225 21 2 3931 4152 32705682 32705458 3.470000e-71 279.0
9 TraesCS5B01G035100 chr5D 94.665 3655 158 7 1 3653 42929437 42925818 0.000000e+00 5635.0
10 TraesCS5B01G035100 chr5D 87.382 634 61 7 3931 4558 42925470 42924850 0.000000e+00 710.0
11 TraesCS5B01G035100 chr5D 78.037 1029 213 13 2405 3426 541944426 541943404 1.790000e-178 636.0
12 TraesCS5B01G035100 chr5D 76.260 1032 225 20 2404 3422 541948923 541947899 8.680000e-147 531.0
13 TraesCS5B01G035100 chr5D 85.000 520 55 10 2637 3143 42948267 42947758 1.460000e-139 507.0
14 TraesCS5B01G035100 chr5D 93.814 194 11 1 3636 3828 42925661 42925468 1.600000e-74 291.0
15 TraesCS5B01G035100 chr5D 81.013 237 35 7 2407 2641 541937629 541937401 3.620000e-41 180.0
16 TraesCS5B01G035100 chr6D 96.091 486 19 0 1382 1867 269966351 269966836 0.000000e+00 793.0
17 TraesCS5B01G035100 chr6D 95.445 483 22 0 1385 1867 269965684 269965202 0.000000e+00 771.0
18 TraesCS5B01G035100 chr4A 95.349 473 22 0 1395 1867 360414408 360413936 0.000000e+00 752.0
19 TraesCS5B01G035100 chr4A 78.116 1019 211 12 2404 3416 627366502 627367514 1.790000e-178 636.0
20 TraesCS5B01G035100 chr4A 76.598 1064 225 22 2368 3416 627362075 627363129 8.560000e-157 564.0
21 TraesCS5B01G035100 chr3D 95.475 221 10 0 1647 1867 608502017 608501797 2.020000e-93 353.0
22 TraesCS5B01G035100 chr1D 91.304 46 2 2 3121 3165 7444717 7444761 1.370000e-05 62.1


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 TraesCS5B01G035100 chr5B 38161178 38165735 4557 False 8418.000000 8418 100.000000 1 4558 1 chr5B.!!$F1 4557
1 TraesCS5B01G035100 chr5B 41254996 41260252 5256 True 613.000000 773 78.418500 1339 3559 2 chr5B.!!$R3 2220
2 TraesCS5B01G035100 chr5B 683996965 683997983 1018 True 553.000000 553 76.631000 2404 3422 1 chr5B.!!$R2 1018
3 TraesCS5B01G035100 chr5B 38049938 38050598 660 True 377.000000 377 77.259000 2545 3198 1 chr5B.!!$R1 653
4 TraesCS5B01G035100 chr5A 32705095 32709506 4411 True 2206.666667 5947 90.199333 4 4558 3 chr5A.!!$R2 4554
5 TraesCS5B01G035100 chr5A 33176121 33176875 754 True 617.000000 617 81.747000 2825 3577 1 chr5A.!!$R1 752
6 TraesCS5B01G035100 chr5D 42924850 42929437 4587 True 2212.000000 5635 91.953667 1 4558 3 chr5D.!!$R3 4557
7 TraesCS5B01G035100 chr5D 541943404 541948923 5519 True 583.500000 636 77.148500 2404 3426 2 chr5D.!!$R4 1022
8 TraesCS5B01G035100 chr5D 42947758 42948267 509 True 507.000000 507 85.000000 2637 3143 1 chr5D.!!$R1 506
9 TraesCS5B01G035100 chr4A 627362075 627367514 5439 False 600.000000 636 77.357000 2368 3416 2 chr4A.!!$F1 1048

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
285 288 0.244994 AGCTGACCGACTAGTGCTTG 59.755 55.000 0.00 0.00 0.00 4.01 F
1072 1095 0.539051 ATCTGCAACCTCTTCCGGAG 59.461 55.000 3.34 0.00 41.51 4.63 F
1333 1356 1.129809 GCGTCGAACACCACAATCG 59.870 57.895 0.00 0.00 37.90 3.34 F
2606 2700 0.095417 GCAACGATCGAGTTCTTGGC 59.905 55.000 24.34 3.07 30.96 4.52 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1555 1583 0.611896 GTGAGGTTTGGGGTGATGGG 60.612 60.000 0.00 0.0 0.00 4.00 R
2606 2700 0.396139 CCATTCCATGACCCCCACAG 60.396 60.000 0.00 0.0 0.00 3.66 R
3242 11231 2.704572 CGGAGCTTCTTCTGGTGAAAT 58.295 47.619 0.00 0.0 0.00 2.17 R
4205 12373 0.037303 AACATCACCAGTGAGCAGGG 59.963 55.000 6.63 0.0 43.61 4.45 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
45 46 2.032030 GTCAGCATGCGTGTAAACAGTT 60.032 45.455 13.01 0.00 34.76 3.16
285 288 0.244994 AGCTGACCGACTAGTGCTTG 59.755 55.000 0.00 0.00 0.00 4.01
370 373 3.443329 TGCATTCACATGTGGGACATTAC 59.557 43.478 25.16 8.05 44.52 1.89
398 404 6.678568 AGAGCTATACTTTGACTGGCATAT 57.321 37.500 0.00 0.00 0.00 1.78
399 405 6.462500 AGAGCTATACTTTGACTGGCATATG 58.538 40.000 0.00 0.00 0.00 1.78
400 406 6.268617 AGAGCTATACTTTGACTGGCATATGA 59.731 38.462 6.97 0.00 0.00 2.15
501 507 7.032377 ACTCAATTTCAGAGAAACCTTCAAC 57.968 36.000 0.00 0.00 36.91 3.18
509 515 4.570772 CAGAGAAACCTTCAACAGAAACGA 59.429 41.667 0.00 0.00 0.00 3.85
595 601 8.821686 ATACAAATGGGTGACAAGATTTATCA 57.178 30.769 0.00 0.00 0.00 2.15
632 638 6.357367 ACTGTGGTATCACTTTCTTTCACTT 58.643 36.000 7.81 0.00 43.94 3.16
633 639 6.828785 ACTGTGGTATCACTTTCTTTCACTTT 59.171 34.615 7.81 0.00 43.94 2.66
665 673 8.403236 ACTTGTCAATACAAAGGACTAAACAAC 58.597 33.333 0.00 0.00 44.79 3.32
667 675 6.829298 TGTCAATACAAAGGACTAAACAACCA 59.171 34.615 0.00 0.00 30.91 3.67
768 776 0.904649 TCAACGCTGATCTCACCCAT 59.095 50.000 0.00 0.00 0.00 4.00
908 918 2.301296 AGGATCCATGGTCTATCAAGCG 59.699 50.000 15.82 0.00 0.00 4.68
918 928 3.382546 GGTCTATCAAGCGTAGGGTACAA 59.617 47.826 0.00 0.00 0.00 2.41
948 963 6.941436 AGATAGAAGGAAAATGAGATGGCATC 59.059 38.462 19.78 19.78 0.00 3.91
977 1000 2.282462 AAAGGCAGTTCTGCGGGG 60.282 61.111 16.84 0.00 35.24 5.73
998 1021 3.558033 GAGTAACCACCAAGTTCCCAAA 58.442 45.455 0.00 0.00 0.00 3.28
1071 1094 1.757118 CTATCTGCAACCTCTTCCGGA 59.243 52.381 0.00 0.00 0.00 5.14
1072 1095 0.539051 ATCTGCAACCTCTTCCGGAG 59.461 55.000 3.34 0.00 41.51 4.63
1095 1118 1.377202 CATAGCGTTGCCAGGGTGT 60.377 57.895 0.00 0.00 0.00 4.16
1117 1140 1.298339 GACAAGTGTGGCAACGTGC 60.298 57.895 12.67 0.00 44.08 5.34
1131 1154 2.675242 CGTGCCAATCCCCTACCCA 61.675 63.158 0.00 0.00 0.00 4.51
1333 1356 1.129809 GCGTCGAACACCACAATCG 59.870 57.895 0.00 0.00 37.90 3.34
1447 1474 2.487775 TGGGTATCATTGGTGGCTACT 58.512 47.619 0.00 0.00 0.00 2.57
1476 1503 2.579657 CCCAGACCTGTACGTGGCA 61.580 63.158 0.00 0.00 0.00 4.92
1836 1865 1.885887 TCAAACAGCTATTGTGTGGGC 59.114 47.619 10.29 0.00 43.94 5.36
1980 2019 3.012518 GGATAAGCAACTGTCACTGCAT 58.987 45.455 5.81 0.00 41.17 3.96
2061 2135 8.088365 AGGACTATATTTTGAGTTTTGGTTTGC 58.912 33.333 0.00 0.00 0.00 3.68
2067 2141 5.982465 TTTGAGTTTTGGTTTGCTTATGC 57.018 34.783 0.00 0.00 40.20 3.14
2073 2147 6.223120 AGTTTTGGTTTGCTTATGCCTTTAG 58.777 36.000 0.00 0.00 38.71 1.85
2120 2194 4.580868 TCTCTTCAGACATAGACGAGTGT 58.419 43.478 0.00 0.00 34.21 3.55
2266 2340 1.831106 TGGATGTCGACCTGTGCTAAT 59.169 47.619 14.12 0.00 0.00 1.73
2297 2371 5.190925 TGAACAGGTGGTTATAGGTAAGCAT 59.809 40.000 3.76 0.00 46.43 3.79
2304 2378 5.867716 GTGGTTATAGGTAAGCATCATACCG 59.132 44.000 3.76 0.00 46.43 4.02
2313 2388 5.047235 GGTAAGCATCATACCGGAGAGTATT 60.047 44.000 9.46 2.22 33.97 1.89
2606 2700 0.095417 GCAACGATCGAGTTCTTGGC 59.905 55.000 24.34 3.07 30.96 4.52
2643 2737 9.628500 ATGGAATGGTTTATAGAGGAACTTTAC 57.372 33.333 0.00 0.00 41.55 2.01
2792 5932 0.811616 GCTTGGAGGTAGATGTGCCG 60.812 60.000 0.00 0.00 32.57 5.69
2816 5956 6.129088 CGATGTTGGTGTATGAGTTCATATCG 60.129 42.308 5.22 5.49 40.53 2.92
3029 6175 1.202382 GCAGATTTTGGAGCATCAGCC 60.202 52.381 0.00 0.00 43.56 4.85
3165 11153 5.104067 AGTTTTGGGGTTGTTCTTCTAGAGT 60.104 40.000 0.00 0.00 0.00 3.24
3168 11156 5.740290 TGGGGTTGTTCTTCTAGAGTTAG 57.260 43.478 0.00 0.00 0.00 2.34
3237 11226 1.399343 CGCTATCGCATGCCTTCATTG 60.399 52.381 13.15 1.77 35.30 2.82
3242 11231 0.522626 CGCATGCCTTCATTGTGACA 59.477 50.000 13.15 0.00 0.00 3.58
3272 11261 4.926238 CAGAAGAAGCTCCGCGATATATTT 59.074 41.667 8.23 0.00 0.00 1.40
3494 11484 9.656040 GAATCATCAATGTCTATAGCTTCTGAT 57.344 33.333 0.00 0.00 0.00 2.90
3534 11524 1.608590 CGAACACAGCCAAATTGGTCT 59.391 47.619 14.17 8.39 40.46 3.85
3547 11537 6.205658 GCCAAATTGGTCTTAGATGTAGATCC 59.794 42.308 14.17 0.00 40.46 3.36
3599 11589 2.682846 TGCTGGGGCAATAGTGGG 59.317 61.111 0.00 0.00 46.36 4.61
3600 11590 2.834968 GCTGGGGCAATAGTGGGC 60.835 66.667 0.00 0.00 38.54 5.36
3604 11594 1.227853 GGGGCAATAGTGGGCGTAG 60.228 63.158 0.00 0.00 0.00 3.51
3805 11970 7.750903 GCTTCAATTTTACTCACTGGTTCATAC 59.249 37.037 0.00 0.00 0.00 2.39
3837 12002 7.534723 TTACTACATGTTGAGGTCTACTTGT 57.465 36.000 14.37 14.30 40.68 3.16
3838 12003 6.420913 ACTACATGTTGAGGTCTACTTGTT 57.579 37.500 14.37 0.86 39.33 2.83
3839 12004 6.456501 ACTACATGTTGAGGTCTACTTGTTC 58.543 40.000 14.37 0.00 39.33 3.18
3840 12005 5.290493 ACATGTTGAGGTCTACTTGTTCA 57.710 39.130 0.00 0.00 36.93 3.18
3841 12006 5.057149 ACATGTTGAGGTCTACTTGTTCAC 58.943 41.667 0.00 0.00 36.93 3.18
3842 12007 4.746535 TGTTGAGGTCTACTTGTTCACA 57.253 40.909 0.00 0.00 0.00 3.58
3843 12008 5.290493 TGTTGAGGTCTACTTGTTCACAT 57.710 39.130 0.00 0.00 0.00 3.21
3844 12009 5.680619 TGTTGAGGTCTACTTGTTCACATT 58.319 37.500 0.00 0.00 0.00 2.71
3845 12010 6.119536 TGTTGAGGTCTACTTGTTCACATTT 58.880 36.000 0.00 0.00 0.00 2.32
3846 12011 7.276658 TGTTGAGGTCTACTTGTTCACATTTA 58.723 34.615 0.00 0.00 0.00 1.40
3847 12012 7.936847 TGTTGAGGTCTACTTGTTCACATTTAT 59.063 33.333 0.00 0.00 0.00 1.40
3848 12013 7.905604 TGAGGTCTACTTGTTCACATTTATG 57.094 36.000 0.00 0.00 0.00 1.90
3849 12014 7.676004 TGAGGTCTACTTGTTCACATTTATGA 58.324 34.615 0.00 0.00 0.00 2.15
3850 12015 8.321353 TGAGGTCTACTTGTTCACATTTATGAT 58.679 33.333 0.00 0.00 0.00 2.45
3851 12016 8.723942 AGGTCTACTTGTTCACATTTATGATC 57.276 34.615 0.00 0.00 0.00 2.92
3852 12017 8.543774 AGGTCTACTTGTTCACATTTATGATCT 58.456 33.333 0.00 0.00 0.00 2.75
3853 12018 8.821894 GGTCTACTTGTTCACATTTATGATCTC 58.178 37.037 0.00 0.00 0.00 2.75
3854 12019 8.821894 GTCTACTTGTTCACATTTATGATCTCC 58.178 37.037 0.00 0.00 0.00 3.71
3855 12020 7.987458 TCTACTTGTTCACATTTATGATCTCCC 59.013 37.037 0.00 0.00 0.00 4.30
3856 12021 6.484288 ACTTGTTCACATTTATGATCTCCCA 58.516 36.000 0.00 0.00 0.00 4.37
3857 12022 6.375455 ACTTGTTCACATTTATGATCTCCCAC 59.625 38.462 0.00 0.00 0.00 4.61
3858 12023 6.065976 TGTTCACATTTATGATCTCCCACT 57.934 37.500 0.00 0.00 0.00 4.00
3859 12024 6.484288 TGTTCACATTTATGATCTCCCACTT 58.516 36.000 0.00 0.00 0.00 3.16
3860 12025 6.599244 TGTTCACATTTATGATCTCCCACTTC 59.401 38.462 0.00 0.00 0.00 3.01
3861 12026 6.566079 TCACATTTATGATCTCCCACTTCT 57.434 37.500 0.00 0.00 0.00 2.85
3862 12027 6.586344 TCACATTTATGATCTCCCACTTCTC 58.414 40.000 0.00 0.00 0.00 2.87
3863 12028 6.385176 TCACATTTATGATCTCCCACTTCTCT 59.615 38.462 0.00 0.00 0.00 3.10
3864 12029 7.052873 CACATTTATGATCTCCCACTTCTCTT 58.947 38.462 0.00 0.00 0.00 2.85
3865 12030 7.555554 CACATTTATGATCTCCCACTTCTCTTT 59.444 37.037 0.00 0.00 0.00 2.52
3866 12031 7.555554 ACATTTATGATCTCCCACTTCTCTTTG 59.444 37.037 0.00 0.00 0.00 2.77
3867 12032 3.340814 TGATCTCCCACTTCTCTTTGC 57.659 47.619 0.00 0.00 0.00 3.68
3868 12033 2.909006 TGATCTCCCACTTCTCTTTGCT 59.091 45.455 0.00 0.00 0.00 3.91
3869 12034 3.055530 TGATCTCCCACTTCTCTTTGCTC 60.056 47.826 0.00 0.00 0.00 4.26
3870 12035 2.329267 TCTCCCACTTCTCTTTGCTCA 58.671 47.619 0.00 0.00 0.00 4.26
3871 12036 2.909006 TCTCCCACTTCTCTTTGCTCAT 59.091 45.455 0.00 0.00 0.00 2.90
3872 12037 3.328931 TCTCCCACTTCTCTTTGCTCATT 59.671 43.478 0.00 0.00 0.00 2.57
3873 12038 3.679389 TCCCACTTCTCTTTGCTCATTC 58.321 45.455 0.00 0.00 0.00 2.67
3874 12039 3.072915 TCCCACTTCTCTTTGCTCATTCA 59.927 43.478 0.00 0.00 0.00 2.57
3875 12040 4.015084 CCCACTTCTCTTTGCTCATTCAT 58.985 43.478 0.00 0.00 0.00 2.57
3876 12041 4.461781 CCCACTTCTCTTTGCTCATTCATT 59.538 41.667 0.00 0.00 0.00 2.57
3877 12042 5.047519 CCCACTTCTCTTTGCTCATTCATTT 60.048 40.000 0.00 0.00 0.00 2.32
3878 12043 6.151648 CCCACTTCTCTTTGCTCATTCATTTA 59.848 38.462 0.00 0.00 0.00 1.40
3879 12044 7.309377 CCCACTTCTCTTTGCTCATTCATTTAA 60.309 37.037 0.00 0.00 0.00 1.52
3880 12045 7.540055 CCACTTCTCTTTGCTCATTCATTTAAC 59.460 37.037 0.00 0.00 0.00 2.01
3881 12046 8.077991 CACTTCTCTTTGCTCATTCATTTAACA 58.922 33.333 0.00 0.00 0.00 2.41
3882 12047 8.295288 ACTTCTCTTTGCTCATTCATTTAACAG 58.705 33.333 0.00 0.00 0.00 3.16
3883 12048 7.149569 TCTCTTTGCTCATTCATTTAACAGG 57.850 36.000 0.00 0.00 0.00 4.00
3884 12049 6.151648 TCTCTTTGCTCATTCATTTAACAGGG 59.848 38.462 0.00 0.00 0.00 4.45
3885 12050 5.774690 TCTTTGCTCATTCATTTAACAGGGT 59.225 36.000 0.00 0.00 0.00 4.34
3886 12051 6.267471 TCTTTGCTCATTCATTTAACAGGGTT 59.733 34.615 0.00 0.00 0.00 4.11
3887 12052 6.418057 TTGCTCATTCATTTAACAGGGTTT 57.582 33.333 0.00 0.00 0.00 3.27
3888 12053 6.024552 TGCTCATTCATTTAACAGGGTTTC 57.975 37.500 0.00 0.00 0.00 2.78
3889 12054 5.774690 TGCTCATTCATTTAACAGGGTTTCT 59.225 36.000 0.00 0.00 0.00 2.52
3890 12055 6.071952 TGCTCATTCATTTAACAGGGTTTCTC 60.072 38.462 0.00 0.00 0.00 2.87
3891 12056 6.151817 GCTCATTCATTTAACAGGGTTTCTCT 59.848 38.462 0.00 0.00 0.00 3.10
3892 12057 7.627300 GCTCATTCATTTAACAGGGTTTCTCTC 60.627 40.741 0.00 0.00 0.00 3.20
3893 12058 7.461749 TCATTCATTTAACAGGGTTTCTCTCT 58.538 34.615 0.00 0.00 0.00 3.10
3894 12059 8.602424 TCATTCATTTAACAGGGTTTCTCTCTA 58.398 33.333 0.00 0.00 0.00 2.43
3895 12060 9.401058 CATTCATTTAACAGGGTTTCTCTCTAT 57.599 33.333 0.00 0.00 0.00 1.98
3896 12061 9.620259 ATTCATTTAACAGGGTTTCTCTCTATC 57.380 33.333 0.00 0.00 0.00 2.08
3897 12062 7.565680 TCATTTAACAGGGTTTCTCTCTATCC 58.434 38.462 0.00 0.00 0.00 2.59
3898 12063 6.945636 TTTAACAGGGTTTCTCTCTATCCA 57.054 37.500 0.00 0.00 0.00 3.41
3899 12064 6.945636 TTAACAGGGTTTCTCTCTATCCAA 57.054 37.500 0.00 0.00 0.00 3.53
3900 12065 7.510675 TTAACAGGGTTTCTCTCTATCCAAT 57.489 36.000 0.00 0.00 0.00 3.16
3901 12066 8.618240 TTAACAGGGTTTCTCTCTATCCAATA 57.382 34.615 0.00 0.00 0.00 1.90
3902 12067 6.487299 ACAGGGTTTCTCTCTATCCAATAC 57.513 41.667 0.00 0.00 0.00 1.89
3903 12068 6.206042 ACAGGGTTTCTCTCTATCCAATACT 58.794 40.000 0.00 0.00 0.00 2.12
3904 12069 6.098982 ACAGGGTTTCTCTCTATCCAATACTG 59.901 42.308 0.00 0.00 0.00 2.74
3905 12070 5.071115 AGGGTTTCTCTCTATCCAATACTGC 59.929 44.000 0.00 0.00 0.00 4.40
3906 12071 5.301555 GGTTTCTCTCTATCCAATACTGCC 58.698 45.833 0.00 0.00 0.00 4.85
3907 12072 5.071115 GGTTTCTCTCTATCCAATACTGCCT 59.929 44.000 0.00 0.00 0.00 4.75
3908 12073 5.798125 TTCTCTCTATCCAATACTGCCTG 57.202 43.478 0.00 0.00 0.00 4.85
3909 12074 3.576118 TCTCTCTATCCAATACTGCCTGC 59.424 47.826 0.00 0.00 0.00 4.85
3910 12075 2.634940 TCTCTATCCAATACTGCCTGCC 59.365 50.000 0.00 0.00 0.00 4.85
3911 12076 2.636893 CTCTATCCAATACTGCCTGCCT 59.363 50.000 0.00 0.00 0.00 4.75
3912 12077 3.834813 CTCTATCCAATACTGCCTGCCTA 59.165 47.826 0.00 0.00 0.00 3.93
3913 12078 4.429505 TCTATCCAATACTGCCTGCCTAT 58.570 43.478 0.00 0.00 0.00 2.57
3914 12079 4.846367 TCTATCCAATACTGCCTGCCTATT 59.154 41.667 0.00 0.00 0.00 1.73
3915 12080 6.022958 TCTATCCAATACTGCCTGCCTATTA 58.977 40.000 0.00 0.00 0.00 0.98
3916 12081 4.623932 TCCAATACTGCCTGCCTATTAG 57.376 45.455 0.00 0.00 0.00 1.73
3917 12082 4.231273 TCCAATACTGCCTGCCTATTAGA 58.769 43.478 0.00 0.00 0.00 2.10
3918 12083 4.846367 TCCAATACTGCCTGCCTATTAGAT 59.154 41.667 0.00 0.00 0.00 1.98
3919 12084 5.310594 TCCAATACTGCCTGCCTATTAGATT 59.689 40.000 0.00 0.00 0.00 2.40
3920 12085 6.500400 TCCAATACTGCCTGCCTATTAGATTA 59.500 38.462 0.00 0.00 0.00 1.75
3921 12086 7.017155 TCCAATACTGCCTGCCTATTAGATTAA 59.983 37.037 0.00 0.00 0.00 1.40
3922 12087 7.335422 CCAATACTGCCTGCCTATTAGATTAAG 59.665 40.741 0.00 0.00 0.00 1.85
3923 12088 7.798710 ATACTGCCTGCCTATTAGATTAAGA 57.201 36.000 0.00 0.00 0.00 2.10
3924 12089 6.694445 ACTGCCTGCCTATTAGATTAAGAT 57.306 37.500 0.00 0.00 0.00 2.40
3925 12090 7.798710 ACTGCCTGCCTATTAGATTAAGATA 57.201 36.000 0.00 0.00 0.00 1.98
3926 12091 8.207350 ACTGCCTGCCTATTAGATTAAGATAA 57.793 34.615 0.00 0.00 0.00 1.75
3927 12092 8.660435 ACTGCCTGCCTATTAGATTAAGATAAA 58.340 33.333 0.00 0.00 0.00 1.40
3928 12093 8.848474 TGCCTGCCTATTAGATTAAGATAAAC 57.152 34.615 0.00 0.00 0.00 2.01
3929 12094 8.436778 TGCCTGCCTATTAGATTAAGATAAACA 58.563 33.333 0.00 0.00 0.00 2.83
3941 12106 8.997323 AGATTAAGATAAACAGAGTGCATATGC 58.003 33.333 21.09 21.09 42.50 3.14
4045 12213 9.614792 AGAATTAAGAAATTATTAGCCGTCACT 57.385 29.630 0.00 0.00 35.41 3.41
4073 12241 7.600752 GGAATCATCTACTAATCTGCACCTAAC 59.399 40.741 0.00 0.00 0.00 2.34
4088 12256 2.171448 ACCTAACCCAGCTGCAATAGAG 59.829 50.000 8.66 6.53 0.00 2.43
4102 12270 3.626670 GCAATAGAGAATGACAGCTGCTT 59.373 43.478 15.27 4.94 0.00 3.91
4105 12273 2.424557 AGAGAATGACAGCTGCTTGTG 58.575 47.619 15.27 0.00 0.00 3.33
4110 12278 0.107263 TGACAGCTGCTTGTGACCAA 60.107 50.000 15.27 0.00 0.00 3.67
4131 12299 0.749818 CTGGAGCTCTACCGCTGAGA 60.750 60.000 14.64 0.00 41.08 3.27
4152 12320 2.093447 ACCAGCAGGAACAGTACATAGC 60.093 50.000 0.35 0.00 38.69 2.97
4159 12327 2.483889 GGAACAGTACATAGCCTGGAGC 60.484 54.545 0.00 0.00 44.25 4.70
4202 12370 3.391296 GGTAGGTATCCAAGGATGAAGCA 59.609 47.826 11.82 0.00 36.17 3.91
4205 12373 2.576615 GTATCCAAGGATGAAGCACCC 58.423 52.381 11.82 0.00 36.17 4.61
4207 12375 1.380380 CCAAGGATGAAGCACCCCC 60.380 63.158 0.00 0.00 0.00 5.40
4237 12406 2.485814 GGTGATGTTGAGCTGAAGGTTC 59.514 50.000 0.00 0.00 0.00 3.62
4239 12408 1.734465 GATGTTGAGCTGAAGGTTCGG 59.266 52.381 0.00 0.00 36.64 4.30
4249 12418 1.140052 TGAAGGTTCGGTCTGCAGAAA 59.860 47.619 20.19 6.61 31.08 2.52
4250 12419 2.224523 TGAAGGTTCGGTCTGCAGAAAT 60.225 45.455 20.19 0.00 31.08 2.17
4251 12420 2.100605 AGGTTCGGTCTGCAGAAATC 57.899 50.000 20.19 9.99 31.08 2.17
4252 12421 1.087501 GGTTCGGTCTGCAGAAATCC 58.912 55.000 20.19 14.87 31.08 3.01
4253 12422 1.610624 GGTTCGGTCTGCAGAAATCCA 60.611 52.381 20.19 4.13 31.08 3.41
4254 12423 2.359900 GTTCGGTCTGCAGAAATCCAT 58.640 47.619 20.19 0.00 31.08 3.41
4273 12442 1.388547 TCCAGGAAATGTATTGCGGC 58.611 50.000 0.00 0.00 0.00 6.53
4301 12470 2.038689 AGCATGATATCACTGAGCCCAG 59.961 50.000 7.78 0.00 45.76 4.45
4309 12478 3.978272 CTGAGCCCAGTGTGCTTC 58.022 61.111 0.36 0.00 39.69 3.86
4311 12480 0.673022 CTGAGCCCAGTGTGCTTCTC 60.673 60.000 0.36 0.00 39.69 2.87
4318 12487 1.069765 AGTGTGCTTCTCACCACCG 59.930 57.895 0.00 0.00 45.03 4.94
4335 12504 3.006110 CCACCGGTGAGTGAACTTAGTTA 59.994 47.826 36.07 0.00 40.34 2.24
4344 12516 3.435671 AGTGAACTTAGTTAATGCGGCAC 59.564 43.478 4.03 0.29 0.00 5.01
4351 12523 5.820423 ACTTAGTTAATGCGGCACATATCAA 59.180 36.000 4.03 0.00 38.34 2.57
4353 12525 4.199310 AGTTAATGCGGCACATATCAAGT 58.801 39.130 4.03 0.00 38.34 3.16
4354 12526 4.640201 AGTTAATGCGGCACATATCAAGTT 59.360 37.500 4.03 0.00 38.34 2.66
4355 12527 5.820423 AGTTAATGCGGCACATATCAAGTTA 59.180 36.000 4.03 0.00 38.34 2.24
4356 12528 4.818534 AATGCGGCACATATCAAGTTAG 57.181 40.909 4.03 0.00 38.34 2.34
4357 12529 3.535280 TGCGGCACATATCAAGTTAGA 57.465 42.857 0.00 0.00 0.00 2.10
4373 12545 4.828829 AGTTAGATACAGTTTTGGGTCGG 58.171 43.478 0.00 0.00 0.00 4.79
4380 12552 1.057851 AGTTTTGGGTCGGGGACTGA 61.058 55.000 0.00 0.00 44.24 3.41
4406 12578 8.270744 AGGCTGAAGAAGATAACAACTGAATAT 58.729 33.333 0.00 0.00 0.00 1.28
4437 12609 4.461781 CACAGGGAGCTCATCTTTTTCATT 59.538 41.667 17.19 0.00 0.00 2.57
4448 12620 9.448294 GCTCATCTTTTTCATTGATGATAGAAC 57.552 33.333 0.00 0.00 43.48 3.01
4461 12633 9.887629 ATTGATGATAGAACCATAATAGCTCAG 57.112 33.333 0.00 0.00 0.00 3.35
4476 12648 1.073923 GCTCAGGGAAGAGAAAACCCA 59.926 52.381 0.00 0.00 45.43 4.51
4479 12651 0.036875 AGGGAAGAGAAAACCCAGCG 59.963 55.000 0.00 0.00 45.43 5.18
4489 12661 5.365895 AGAGAAAACCCAGCGTACCTAATAT 59.634 40.000 0.00 0.00 0.00 1.28
4490 12662 6.552350 AGAGAAAACCCAGCGTACCTAATATA 59.448 38.462 0.00 0.00 0.00 0.86
4518 12692 6.885376 GCCTAATAGTACTGCCATCTAGACTA 59.115 42.308 5.39 0.00 0.00 2.59
4539 12713 6.003950 ACTACAGGAAAACAACTACATGCAT 58.996 36.000 0.00 0.00 0.00 3.96
4540 12714 5.125100 ACAGGAAAACAACTACATGCATG 57.875 39.130 25.09 25.09 0.00 4.06
4541 12715 3.922240 CAGGAAAACAACTACATGCATGC 59.078 43.478 26.53 11.82 0.00 4.06
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
55 57 3.256960 GGTGAAGCCCCCTGACCA 61.257 66.667 0.00 0.00 0.00 4.02
58 60 1.139498 TGAATGGTGAAGCCCCCTGA 61.139 55.000 0.00 0.00 36.04 3.86
108 111 3.711704 AGGGAGTAAATGATGATCCGTGT 59.288 43.478 0.00 0.00 0.00 4.49
370 373 5.751028 GCCAGTCAAAGTATAGCTCTTAGTG 59.249 44.000 0.00 0.00 0.00 2.74
398 404 7.043565 GTCTTCACCGGTTTATAGGTTATTCA 58.956 38.462 2.97 0.00 39.00 2.57
399 405 7.270779 AGTCTTCACCGGTTTATAGGTTATTC 58.729 38.462 2.97 0.00 39.00 1.75
400 406 7.191593 AGTCTTCACCGGTTTATAGGTTATT 57.808 36.000 2.97 0.00 39.00 1.40
501 507 1.772182 AGTTCGCTCACTCGTTTCTG 58.228 50.000 0.00 0.00 0.00 3.02
595 601 9.243105 AGTGATACCACAGTTGCTTATATTTTT 57.757 29.630 0.00 0.00 45.54 1.94
632 638 6.260050 GTCCTTTGTATTGACAAGTGTCTGAA 59.740 38.462 12.43 0.39 46.11 3.02
633 639 5.758296 GTCCTTTGTATTGACAAGTGTCTGA 59.242 40.000 12.43 2.38 46.11 3.27
807 815 2.236146 ACTATTTCATGGGTGACAGCGA 59.764 45.455 0.00 0.00 33.11 4.93
908 918 8.019656 TCCTTCTATCTCATTTTGTACCCTAC 57.980 38.462 0.00 0.00 0.00 3.18
918 928 9.352191 CCATCTCATTTTCCTTCTATCTCATTT 57.648 33.333 0.00 0.00 0.00 2.32
943 958 2.872858 CCTTTCTAACTTAGCCGATGCC 59.127 50.000 0.00 0.00 38.69 4.40
948 963 2.973945 ACTGCCTTTCTAACTTAGCCG 58.026 47.619 0.00 0.00 0.00 5.52
977 1000 2.943036 TGGGAACTTGGTGGTTACTC 57.057 50.000 0.00 0.00 31.19 2.59
998 1021 2.026822 AGGACGGATGCTTCTTTCATGT 60.027 45.455 0.00 0.00 0.00 3.21
1071 1094 0.176680 CTGGCAACGCTATGGAGACT 59.823 55.000 0.00 0.00 42.51 3.24
1072 1095 0.811616 CCTGGCAACGCTATGGAGAC 60.812 60.000 0.00 0.00 42.51 3.36
1095 1118 0.813610 CGTTGCCACACTTGTCAGGA 60.814 55.000 0.00 0.00 0.00 3.86
1117 1140 2.034268 GCCAAATGGGTAGGGGATTGG 61.034 57.143 0.90 0.00 40.16 3.16
1131 1154 1.144496 GCCATTGCCGATGCCAAAT 59.856 52.632 0.00 0.00 36.33 2.32
1333 1356 0.949105 CCGCTGGTGTAGTTGTCCAC 60.949 60.000 0.00 0.00 0.00 4.02
1447 1474 1.827789 GGTCTGGGTTGCTGTGCAA 60.828 57.895 0.45 0.45 46.80 4.08
1476 1503 1.045911 GGCAGTAGGAGTAGCAGCCT 61.046 60.000 0.00 0.00 37.67 4.58
1555 1583 0.611896 GTGAGGTTTGGGGTGATGGG 60.612 60.000 0.00 0.00 0.00 4.00
1836 1865 3.762247 CCTGGGCCATTGGTTGCG 61.762 66.667 6.72 0.00 0.00 4.85
1952 1989 4.757149 GTGACAGTTGCTTATCCTGAGTTT 59.243 41.667 0.00 0.00 0.00 2.66
1955 1992 3.931468 CAGTGACAGTTGCTTATCCTGAG 59.069 47.826 0.00 0.00 0.00 3.35
1980 2019 6.922957 GGAACAAAAATCTACTGAAACATGCA 59.077 34.615 0.00 0.00 0.00 3.96
2036 2110 8.088365 AGCAAACCAAAACTCAAAATATAGTCC 58.912 33.333 0.00 0.00 0.00 3.85
2037 2111 9.476202 AAGCAAACCAAAACTCAAAATATAGTC 57.524 29.630 0.00 0.00 0.00 2.59
2041 2115 8.720562 GCATAAGCAAACCAAAACTCAAAATAT 58.279 29.630 0.00 0.00 41.58 1.28
2048 2122 4.257267 AGGCATAAGCAAACCAAAACTC 57.743 40.909 0.00 0.00 44.61 3.01
2266 2340 2.435372 AACCACCTGTTCAGCTTGAA 57.565 45.000 0.00 0.00 33.32 2.69
2313 2388 8.635765 AAATGCACCTTAGATAAACAAAGAGA 57.364 30.769 0.00 0.00 0.00 3.10
2357 2438 5.047590 TGCAGAATGATTGTTGAGATGCTTT 60.048 36.000 0.00 0.00 39.69 3.51
2366 2447 1.822990 AGGCCTGCAGAATGATTGTTG 59.177 47.619 17.39 0.00 39.69 3.33
2440 2528 1.956477 TCCTGTGCTTTCTTCTTTGCC 59.044 47.619 0.00 0.00 0.00 4.52
2441 2529 3.551659 CCTTCCTGTGCTTTCTTCTTTGC 60.552 47.826 0.00 0.00 0.00 3.68
2606 2700 0.396139 CCATTCCATGACCCCCACAG 60.396 60.000 0.00 0.00 0.00 3.66
2643 2737 4.508461 TGGCAACTTCTTTGTCATCATG 57.492 40.909 0.00 0.00 45.14 3.07
2792 5932 6.923508 TCGATATGAACTCATACACCAACATC 59.076 38.462 1.53 0.00 41.15 3.06
3029 6175 6.119240 TCATCTTTATCTATGGGCTTCAGG 57.881 41.667 0.00 0.00 0.00 3.86
3242 11231 2.704572 CGGAGCTTCTTCTGGTGAAAT 58.295 47.619 0.00 0.00 0.00 2.17
3494 11484 4.574892 TCGTGCTCTGGTATTTCATTTCA 58.425 39.130 0.00 0.00 0.00 2.69
3534 11524 6.983906 TCATCTTGCAGGATCTACATCTAA 57.016 37.500 8.60 0.00 0.00 2.10
3547 11537 4.895224 ACATGCAGTAATCATCTTGCAG 57.105 40.909 4.29 0.12 35.70 4.41
3590 11580 4.000988 ACAAGAAACTACGCCCACTATTG 58.999 43.478 0.00 0.00 0.00 1.90
3593 11583 2.629137 TCACAAGAAACTACGCCCACTA 59.371 45.455 0.00 0.00 0.00 2.74
3671 11835 5.234757 CAGAGCTGTCTTAGAAATCATGAGC 59.765 44.000 0.09 0.00 0.00 4.26
3776 11941 5.376625 ACCAGTGAGTAAAATTGAAGCTGA 58.623 37.500 0.00 0.00 0.00 4.26
3816 11981 6.366332 GTGAACAAGTAGACCTCAACATGTAG 59.634 42.308 0.00 0.00 28.29 2.74
3818 11983 5.057149 GTGAACAAGTAGACCTCAACATGT 58.943 41.667 0.00 0.00 0.00 3.21
3825 11990 8.723942 ATCATAAATGTGAACAAGTAGACCTC 57.276 34.615 0.00 0.00 0.00 3.85
3826 11991 8.543774 AGATCATAAATGTGAACAAGTAGACCT 58.456 33.333 0.00 0.00 0.00 3.85
3827 11992 8.723942 AGATCATAAATGTGAACAAGTAGACC 57.276 34.615 0.00 0.00 0.00 3.85
3828 11993 8.821894 GGAGATCATAAATGTGAACAAGTAGAC 58.178 37.037 0.00 0.00 0.00 2.59
3829 11994 7.987458 GGGAGATCATAAATGTGAACAAGTAGA 59.013 37.037 0.00 0.00 0.00 2.59
3830 11995 7.770433 TGGGAGATCATAAATGTGAACAAGTAG 59.230 37.037 0.00 0.00 0.00 2.57
3831 11996 7.552687 GTGGGAGATCATAAATGTGAACAAGTA 59.447 37.037 0.00 0.00 0.00 2.24
3832 11997 6.375455 GTGGGAGATCATAAATGTGAACAAGT 59.625 38.462 0.00 0.00 0.00 3.16
3833 11998 6.600822 AGTGGGAGATCATAAATGTGAACAAG 59.399 38.462 0.00 0.00 0.00 3.16
3834 11999 6.484288 AGTGGGAGATCATAAATGTGAACAA 58.516 36.000 0.00 0.00 0.00 2.83
3835 12000 6.065976 AGTGGGAGATCATAAATGTGAACA 57.934 37.500 0.00 0.00 0.00 3.18
3836 12001 6.825721 AGAAGTGGGAGATCATAAATGTGAAC 59.174 38.462 0.00 0.00 0.00 3.18
3837 12002 6.962182 AGAAGTGGGAGATCATAAATGTGAA 58.038 36.000 0.00 0.00 0.00 3.18
3838 12003 6.385176 AGAGAAGTGGGAGATCATAAATGTGA 59.615 38.462 0.00 0.00 0.00 3.58
3839 12004 6.590068 AGAGAAGTGGGAGATCATAAATGTG 58.410 40.000 0.00 0.00 0.00 3.21
3840 12005 6.821616 AGAGAAGTGGGAGATCATAAATGT 57.178 37.500 0.00 0.00 0.00 2.71
3841 12006 7.468357 GCAAAGAGAAGTGGGAGATCATAAATG 60.468 40.741 0.00 0.00 0.00 2.32
3842 12007 6.545298 GCAAAGAGAAGTGGGAGATCATAAAT 59.455 38.462 0.00 0.00 0.00 1.40
3843 12008 5.882557 GCAAAGAGAAGTGGGAGATCATAAA 59.117 40.000 0.00 0.00 0.00 1.40
3844 12009 5.190528 AGCAAAGAGAAGTGGGAGATCATAA 59.809 40.000 0.00 0.00 0.00 1.90
3845 12010 4.718774 AGCAAAGAGAAGTGGGAGATCATA 59.281 41.667 0.00 0.00 0.00 2.15
3846 12011 3.522750 AGCAAAGAGAAGTGGGAGATCAT 59.477 43.478 0.00 0.00 0.00 2.45
3847 12012 2.909006 AGCAAAGAGAAGTGGGAGATCA 59.091 45.455 0.00 0.00 0.00 2.92
3848 12013 3.055530 TGAGCAAAGAGAAGTGGGAGATC 60.056 47.826 0.00 0.00 0.00 2.75
3849 12014 2.909006 TGAGCAAAGAGAAGTGGGAGAT 59.091 45.455 0.00 0.00 0.00 2.75
3850 12015 2.329267 TGAGCAAAGAGAAGTGGGAGA 58.671 47.619 0.00 0.00 0.00 3.71
3851 12016 2.847327 TGAGCAAAGAGAAGTGGGAG 57.153 50.000 0.00 0.00 0.00 4.30
3852 12017 3.072915 TGAATGAGCAAAGAGAAGTGGGA 59.927 43.478 0.00 0.00 0.00 4.37
3853 12018 3.415212 TGAATGAGCAAAGAGAAGTGGG 58.585 45.455 0.00 0.00 0.00 4.61
3854 12019 5.640189 AATGAATGAGCAAAGAGAAGTGG 57.360 39.130 0.00 0.00 0.00 4.00
3855 12020 8.077991 TGTTAAATGAATGAGCAAAGAGAAGTG 58.922 33.333 0.00 0.00 0.00 3.16
3856 12021 8.169977 TGTTAAATGAATGAGCAAAGAGAAGT 57.830 30.769 0.00 0.00 0.00 3.01
3857 12022 7.754027 CCTGTTAAATGAATGAGCAAAGAGAAG 59.246 37.037 0.00 0.00 0.00 2.85
3858 12023 7.309377 CCCTGTTAAATGAATGAGCAAAGAGAA 60.309 37.037 0.00 0.00 0.00 2.87
3859 12024 6.151648 CCCTGTTAAATGAATGAGCAAAGAGA 59.848 38.462 0.00 0.00 0.00 3.10
3860 12025 6.071728 ACCCTGTTAAATGAATGAGCAAAGAG 60.072 38.462 0.00 0.00 0.00 2.85
3861 12026 5.774690 ACCCTGTTAAATGAATGAGCAAAGA 59.225 36.000 0.00 0.00 0.00 2.52
3862 12027 6.029346 ACCCTGTTAAATGAATGAGCAAAG 57.971 37.500 0.00 0.00 0.00 2.77
3863 12028 6.418057 AACCCTGTTAAATGAATGAGCAAA 57.582 33.333 0.00 0.00 0.00 3.68
3864 12029 6.267471 AGAAACCCTGTTAAATGAATGAGCAA 59.733 34.615 0.00 0.00 0.00 3.91
3865 12030 5.774690 AGAAACCCTGTTAAATGAATGAGCA 59.225 36.000 0.00 0.00 0.00 4.26
3866 12031 6.151817 AGAGAAACCCTGTTAAATGAATGAGC 59.848 38.462 0.00 0.00 0.00 4.26
3867 12032 7.609532 AGAGAGAAACCCTGTTAAATGAATGAG 59.390 37.037 0.00 0.00 0.00 2.90
3868 12033 7.461749 AGAGAGAAACCCTGTTAAATGAATGA 58.538 34.615 0.00 0.00 0.00 2.57
3869 12034 7.693969 AGAGAGAAACCCTGTTAAATGAATG 57.306 36.000 0.00 0.00 0.00 2.67
3870 12035 9.620259 GATAGAGAGAAACCCTGTTAAATGAAT 57.380 33.333 0.00 0.00 0.00 2.57
3871 12036 8.047310 GGATAGAGAGAAACCCTGTTAAATGAA 58.953 37.037 0.00 0.00 0.00 2.57
3872 12037 7.182026 TGGATAGAGAGAAACCCTGTTAAATGA 59.818 37.037 0.00 0.00 0.00 2.57
3873 12038 7.338710 TGGATAGAGAGAAACCCTGTTAAATG 58.661 38.462 0.00 0.00 0.00 2.32
3874 12039 7.510675 TGGATAGAGAGAAACCCTGTTAAAT 57.489 36.000 0.00 0.00 0.00 1.40
3875 12040 6.945636 TGGATAGAGAGAAACCCTGTTAAA 57.054 37.500 0.00 0.00 0.00 1.52
3876 12041 6.945636 TTGGATAGAGAGAAACCCTGTTAA 57.054 37.500 0.00 0.00 0.00 2.01
3877 12042 7.844779 AGTATTGGATAGAGAGAAACCCTGTTA 59.155 37.037 0.00 0.00 0.00 2.41
3878 12043 6.674419 AGTATTGGATAGAGAGAAACCCTGTT 59.326 38.462 0.00 0.00 0.00 3.16
3879 12044 6.098982 CAGTATTGGATAGAGAGAAACCCTGT 59.901 42.308 0.00 0.00 0.00 4.00
3880 12045 6.520272 CAGTATTGGATAGAGAGAAACCCTG 58.480 44.000 0.00 0.00 0.00 4.45
3881 12046 5.071115 GCAGTATTGGATAGAGAGAAACCCT 59.929 44.000 0.00 0.00 0.00 4.34
3882 12047 5.301555 GCAGTATTGGATAGAGAGAAACCC 58.698 45.833 0.00 0.00 0.00 4.11
3883 12048 5.071115 AGGCAGTATTGGATAGAGAGAAACC 59.929 44.000 0.00 0.00 0.00 3.27
3884 12049 5.988561 CAGGCAGTATTGGATAGAGAGAAAC 59.011 44.000 0.00 0.00 0.00 2.78
3885 12050 5.453903 GCAGGCAGTATTGGATAGAGAGAAA 60.454 44.000 0.00 0.00 0.00 2.52
3886 12051 4.039730 GCAGGCAGTATTGGATAGAGAGAA 59.960 45.833 0.00 0.00 0.00 2.87
3887 12052 3.576118 GCAGGCAGTATTGGATAGAGAGA 59.424 47.826 0.00 0.00 0.00 3.10
3888 12053 3.306641 GGCAGGCAGTATTGGATAGAGAG 60.307 52.174 0.00 0.00 0.00 3.20
3889 12054 2.634940 GGCAGGCAGTATTGGATAGAGA 59.365 50.000 0.00 0.00 0.00 3.10
3890 12055 2.636893 AGGCAGGCAGTATTGGATAGAG 59.363 50.000 0.00 0.00 0.00 2.43
3891 12056 2.694397 AGGCAGGCAGTATTGGATAGA 58.306 47.619 0.00 0.00 0.00 1.98
3892 12057 4.833478 ATAGGCAGGCAGTATTGGATAG 57.167 45.455 0.00 0.00 0.00 2.08
3893 12058 6.022958 TCTAATAGGCAGGCAGTATTGGATA 58.977 40.000 0.00 0.00 0.00 2.59
3894 12059 4.846367 TCTAATAGGCAGGCAGTATTGGAT 59.154 41.667 0.00 0.00 0.00 3.41
3895 12060 4.231273 TCTAATAGGCAGGCAGTATTGGA 58.769 43.478 0.00 2.96 0.00 3.53
3896 12061 4.623932 TCTAATAGGCAGGCAGTATTGG 57.376 45.455 0.00 0.72 0.00 3.16
3897 12062 8.097038 TCTTAATCTAATAGGCAGGCAGTATTG 58.903 37.037 0.00 0.00 0.00 1.90
3898 12063 8.207350 TCTTAATCTAATAGGCAGGCAGTATT 57.793 34.615 0.00 0.86 0.00 1.89
3899 12064 7.798710 TCTTAATCTAATAGGCAGGCAGTAT 57.201 36.000 0.00 0.00 0.00 2.12
3900 12065 7.798710 ATCTTAATCTAATAGGCAGGCAGTA 57.201 36.000 0.00 0.00 0.00 2.74
3901 12066 6.694445 ATCTTAATCTAATAGGCAGGCAGT 57.306 37.500 0.00 0.00 0.00 4.40
3902 12067 8.940952 GTTTATCTTAATCTAATAGGCAGGCAG 58.059 37.037 0.00 0.00 0.00 4.85
3903 12068 8.436778 TGTTTATCTTAATCTAATAGGCAGGCA 58.563 33.333 0.00 0.00 0.00 4.75
3904 12069 8.848474 TGTTTATCTTAATCTAATAGGCAGGC 57.152 34.615 0.00 0.00 0.00 4.85
3915 12080 8.997323 GCATATGCACTCTGTTTATCTTAATCT 58.003 33.333 22.84 0.00 41.59 2.40
3916 12081 8.997323 AGCATATGCACTCTGTTTATCTTAATC 58.003 33.333 28.62 0.00 45.16 1.75
3917 12082 8.915057 AGCATATGCACTCTGTTTATCTTAAT 57.085 30.769 28.62 0.00 45.16 1.40
3918 12083 8.737168 AAGCATATGCACTCTGTTTATCTTAA 57.263 30.769 28.62 0.00 45.16 1.85
3919 12084 8.737168 AAAGCATATGCACTCTGTTTATCTTA 57.263 30.769 28.62 0.00 45.16 2.10
3920 12085 7.636150 AAAGCATATGCACTCTGTTTATCTT 57.364 32.000 28.62 7.26 45.16 2.40
3921 12086 8.737168 TTAAAGCATATGCACTCTGTTTATCT 57.263 30.769 28.62 0.81 45.16 1.98
3922 12087 8.072567 CCTTAAAGCATATGCACTCTGTTTATC 58.927 37.037 28.62 0.00 45.16 1.75
3923 12088 7.469181 GCCTTAAAGCATATGCACTCTGTTTAT 60.469 37.037 28.62 1.58 45.16 1.40
3924 12089 6.183360 GCCTTAAAGCATATGCACTCTGTTTA 60.183 38.462 28.62 18.89 45.16 2.01
3925 12090 5.393461 GCCTTAAAGCATATGCACTCTGTTT 60.393 40.000 28.62 19.83 45.16 2.83
3926 12091 4.096984 GCCTTAAAGCATATGCACTCTGTT 59.903 41.667 28.62 10.87 45.16 3.16
3927 12092 3.629398 GCCTTAAAGCATATGCACTCTGT 59.371 43.478 28.62 6.53 45.16 3.41
3928 12093 3.628942 TGCCTTAAAGCATATGCACTCTG 59.371 43.478 28.62 14.98 45.16 3.35
3929 12094 3.889815 TGCCTTAAAGCATATGCACTCT 58.110 40.909 28.62 12.35 45.16 3.24
3941 12106 3.891422 TCATGCCCAAATGCCTTAAAG 57.109 42.857 0.00 0.00 0.00 1.85
4040 12208 7.081349 CAGATTAGTAGATGATTCCGAGTGAC 58.919 42.308 0.00 0.00 0.00 3.67
4041 12209 6.294231 GCAGATTAGTAGATGATTCCGAGTGA 60.294 42.308 0.00 0.00 0.00 3.41
4044 12212 5.861251 GTGCAGATTAGTAGATGATTCCGAG 59.139 44.000 0.00 0.00 0.00 4.63
4045 12213 5.279006 GGTGCAGATTAGTAGATGATTCCGA 60.279 44.000 0.00 0.00 0.00 4.55
4048 12216 7.600752 GGTTAGGTGCAGATTAGTAGATGATTC 59.399 40.741 0.00 0.00 0.00 2.52
4057 12225 2.092914 GCTGGGTTAGGTGCAGATTAGT 60.093 50.000 0.00 0.00 0.00 2.24
4060 12228 0.995024 AGCTGGGTTAGGTGCAGATT 59.005 50.000 0.00 0.00 35.38 2.40
4073 12241 2.877168 GTCATTCTCTATTGCAGCTGGG 59.123 50.000 17.12 0.00 0.00 4.45
4088 12256 1.198637 GGTCACAAGCAGCTGTCATTC 59.801 52.381 16.64 0.00 0.00 2.67
4131 12299 2.093447 GCTATGTACTGTTCCTGCTGGT 60.093 50.000 9.73 0.00 34.23 4.00
4187 12355 0.259938 GGGGTGCTTCATCCTTGGAT 59.740 55.000 0.00 0.00 34.53 3.41
4202 12370 3.252284 CACCAGTGAGCAGGGGGT 61.252 66.667 0.00 0.00 0.00 4.95
4205 12373 0.037303 AACATCACCAGTGAGCAGGG 59.963 55.000 6.63 0.00 43.61 4.45
4207 12375 2.074576 CTCAACATCACCAGTGAGCAG 58.925 52.381 6.63 1.98 43.61 4.24
4214 12383 2.082231 CCTTCAGCTCAACATCACCAG 58.918 52.381 0.00 0.00 0.00 4.00
4237 12406 1.303309 GGATGGATTTCTGCAGACCG 58.697 55.000 18.03 0.00 0.00 4.79
4239 12408 2.092753 TCCTGGATGGATTTCTGCAGAC 60.093 50.000 18.03 5.40 40.56 3.51
4249 12418 3.822735 CGCAATACATTTCCTGGATGGAT 59.177 43.478 0.00 0.00 45.68 3.41
4250 12419 3.213506 CGCAATACATTTCCTGGATGGA 58.786 45.455 0.00 0.00 44.51 3.41
4251 12420 2.294233 CCGCAATACATTTCCTGGATGG 59.706 50.000 0.00 0.00 37.10 3.51
4252 12421 2.287788 GCCGCAATACATTTCCTGGATG 60.288 50.000 0.00 0.00 0.00 3.51
4253 12422 1.956477 GCCGCAATACATTTCCTGGAT 59.044 47.619 0.00 0.00 0.00 3.41
4254 12423 1.388547 GCCGCAATACATTTCCTGGA 58.611 50.000 0.00 0.00 0.00 3.86
4270 12439 1.808945 GATATCATGCTTTCTGGGCCG 59.191 52.381 0.00 0.00 0.00 6.13
4273 12442 4.711399 TCAGTGATATCATGCTTTCTGGG 58.289 43.478 9.02 0.00 0.00 4.45
4318 12487 4.092968 CCGCATTAACTAAGTTCACTCACC 59.907 45.833 0.00 0.00 0.00 4.02
4321 12490 3.682858 TGCCGCATTAACTAAGTTCACTC 59.317 43.478 0.00 0.00 0.00 3.51
4326 12495 5.820423 TGATATGTGCCGCATTAACTAAGTT 59.180 36.000 0.00 0.00 38.94 2.66
4335 12504 4.450976 TCTAACTTGATATGTGCCGCATT 58.549 39.130 0.00 0.00 38.94 3.56
4344 12516 9.396022 ACCCAAAACTGTATCTAACTTGATATG 57.604 33.333 0.00 0.00 32.39 1.78
4351 12523 4.323257 CCCGACCCAAAACTGTATCTAACT 60.323 45.833 0.00 0.00 0.00 2.24
4353 12525 3.054948 CCCCGACCCAAAACTGTATCTAA 60.055 47.826 0.00 0.00 0.00 2.10
4354 12526 2.502538 CCCCGACCCAAAACTGTATCTA 59.497 50.000 0.00 0.00 0.00 1.98
4355 12527 1.280998 CCCCGACCCAAAACTGTATCT 59.719 52.381 0.00 0.00 0.00 1.98
4356 12528 1.279846 TCCCCGACCCAAAACTGTATC 59.720 52.381 0.00 0.00 0.00 2.24
4357 12529 1.003928 GTCCCCGACCCAAAACTGTAT 59.996 52.381 0.00 0.00 0.00 2.29
4373 12545 1.270907 TCTTCTTCAGCCTCAGTCCC 58.729 55.000 0.00 0.00 0.00 4.46
4380 12552 5.489792 TCAGTTGTTATCTTCTTCAGCCT 57.510 39.130 0.00 0.00 0.00 4.58
4406 12578 4.718774 AGATGAGCTCCCTGTGAAGATTTA 59.281 41.667 12.15 0.00 0.00 1.40
4437 12609 7.093156 CCCTGAGCTATTATGGTTCTATCATCA 60.093 40.741 0.00 0.00 0.00 3.07
4448 12620 5.815233 TTCTCTTCCCTGAGCTATTATGG 57.185 43.478 0.00 0.00 34.29 2.74
4451 12623 5.104485 GGGTTTTCTCTTCCCTGAGCTATTA 60.104 44.000 0.00 0.00 38.29 0.98
4456 12628 1.073923 TGGGTTTTCTCTTCCCTGAGC 59.926 52.381 0.00 0.00 41.58 4.26
4461 12633 0.250770 ACGCTGGGTTTTCTCTTCCC 60.251 55.000 0.00 0.00 41.41 3.97
4476 12648 2.444421 AGGCGCTATATTAGGTACGCT 58.556 47.619 7.64 0.00 45.24 5.07
4479 12651 9.336171 AGTACTATTAGGCGCTATATTAGGTAC 57.664 37.037 7.64 11.28 0.00 3.34
4489 12661 2.589720 TGGCAGTACTATTAGGCGCTA 58.410 47.619 7.64 0.00 0.00 4.26
4490 12662 1.410004 TGGCAGTACTATTAGGCGCT 58.590 50.000 7.64 0.00 0.00 5.92
4518 12692 4.559300 GCATGCATGTAGTTGTTTTCCTGT 60.559 41.667 26.79 0.00 0.00 4.00
4539 12713 4.707584 CCTGGGTAGGCTAGAGCA 57.292 61.111 3.54 0.00 44.36 4.26


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

AutoCloner maintained by Alex Coulton.