Multiple sequence alignment - TraesCS7B01G327600

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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 TraesCS7B01G327600 chr7B 100.000 3198 0 0 1 3198 581797382 581794185 0.000000e+00 5906.0
1 TraesCS7B01G327600 chr7D 92.551 1678 89 17 619 2271 538990258 538988592 0.000000e+00 2374.0
2 TraesCS7B01G327600 chr7D 83.798 574 49 25 2393 2933 538988480 538987918 3.680000e-139 505.0
3 TraesCS7B01G327600 chr7A 91.228 1710 81 18 598 2265 620637236 620635554 0.000000e+00 2263.0
4 TraesCS7B01G327600 chr7A 97.541 488 12 0 1 488 155972510 155972997 0.000000e+00 835.0
5 TraesCS7B01G327600 chr7A 85.242 454 36 12 2340 2773 620635418 620634976 3.790000e-119 438.0
6 TraesCS7B01G327600 chr7A 81.701 388 28 12 2345 2715 620633953 620633592 1.880000e-72 283.0
7 TraesCS7B01G327600 chr7A 84.772 197 22 6 2081 2271 620634477 620634283 1.170000e-44 191.0
8 TraesCS7B01G327600 chr2B 98.344 483 8 0 1 483 23684405 23684887 0.000000e+00 848.0
9 TraesCS7B01G327600 chr2B 85.507 69 4 4 474 537 750112208 750112275 2.060000e-07 67.6
10 TraesCS7B01G327600 chr4A 97.746 488 11 0 1 488 601213521 601214008 0.000000e+00 841.0
11 TraesCS7B01G327600 chr5A 97.541 488 12 0 1 488 47579471 47578984 0.000000e+00 835.0
12 TraesCS7B01G327600 chr3B 97.541 488 12 0 1 488 534979637 534979150 0.000000e+00 835.0
13 TraesCS7B01G327600 chr3B 97.336 488 13 0 1 488 443353016 443353503 0.000000e+00 830.0
14 TraesCS7B01G327600 chr5B 97.336 488 13 0 1 488 121685812 121685325 0.000000e+00 830.0
15 TraesCS7B01G327600 chr5B 96.600 500 17 0 1 500 121687958 121687459 0.000000e+00 830.0
16 TraesCS7B01G327600 chr6B 97.131 488 14 0 1 488 460920167 460920654 0.000000e+00 824.0
17 TraesCS7B01G327600 chr6D 93.750 48 2 1 491 538 157735580 157735626 1.590000e-08 71.3
18 TraesCS7B01G327600 chr1A 87.931 58 5 2 487 544 284320219 284320274 2.060000e-07 67.6


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 TraesCS7B01G327600 chr7B 581794185 581797382 3197 True 5906.00 5906 100.00000 1 3198 1 chr7B.!!$R1 3197
1 TraesCS7B01G327600 chr7D 538987918 538990258 2340 True 1439.50 2374 88.17450 619 2933 2 chr7D.!!$R1 2314
2 TraesCS7B01G327600 chr7A 620633592 620637236 3644 True 793.75 2263 85.73575 598 2773 4 chr7A.!!$R1 2175
3 TraesCS7B01G327600 chr5B 121685325 121687958 2633 True 830.00 830 96.96800 1 500 2 chr5B.!!$R1 499

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
982 1634 0.037734 CCCTTTATATCCCCCGTGGC 59.962 60.0 0.0 0.0 0.0 5.01 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2799 4433 0.105964 TGCAAGTAAACAGGGGCCAA 60.106 50.0 4.39 0.0 0.0 4.52 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
157 158 7.504924 AAAGTCAGACGAAAATAAACCATGA 57.495 32.000 0.00 0.00 0.00 3.07
275 276 6.239204 CCACGATTATCTTCCCTACATACACA 60.239 42.308 0.00 0.00 0.00 3.72
291 292 7.149569 ACATACACATGATTGTTTCCTTCTG 57.850 36.000 0.00 0.00 35.96 3.02
324 325 5.942236 ACAGATTGGCTAGCACCATTATATG 59.058 40.000 18.24 7.70 40.13 1.78
343 344 0.097150 GTCGGGAGCAAGAAAATCGC 59.903 55.000 0.00 0.00 0.00 4.58
407 408 6.471198 GGTTACCTTAAGTTAATTGATTGCGC 59.529 38.462 0.00 0.00 0.00 6.09
499 623 0.841289 AGGTGGGACGAAAAACCTGA 59.159 50.000 0.00 0.00 41.52 3.86
511 635 4.389077 CGAAAAACCTGAAAGCGAGACTAT 59.611 41.667 0.00 0.00 0.00 2.12
517 641 4.705507 ACCTGAAAGCGAGACTATCAACTA 59.294 41.667 0.00 0.00 0.00 2.24
518 642 5.361285 ACCTGAAAGCGAGACTATCAACTAT 59.639 40.000 0.00 0.00 0.00 2.12
520 644 6.758886 CCTGAAAGCGAGACTATCAACTATTT 59.241 38.462 0.00 0.00 0.00 1.40
529 653 9.967346 CGAGACTATCAACTATTTCATTAGGAA 57.033 33.333 0.00 0.00 0.00 3.36
546 670 8.526978 TCATTAGGAAATAGAGATCAAGATCCG 58.473 37.037 6.45 0.00 38.58 4.18
548 672 6.095432 AGGAAATAGAGATCAAGATCCGTG 57.905 41.667 6.45 0.00 38.58 4.94
549 673 5.600484 AGGAAATAGAGATCAAGATCCGTGT 59.400 40.000 6.45 0.00 38.58 4.49
550 674 6.098982 AGGAAATAGAGATCAAGATCCGTGTT 59.901 38.462 6.45 0.00 38.58 3.32
551 675 6.422400 GGAAATAGAGATCAAGATCCGTGTTC 59.578 42.308 6.45 5.01 38.58 3.18
552 676 3.810310 AGAGATCAAGATCCGTGTTCC 57.190 47.619 6.45 0.00 38.58 3.62
553 677 3.099905 AGAGATCAAGATCCGTGTTCCA 58.900 45.455 6.45 0.00 38.58 3.53
556 680 5.363868 AGAGATCAAGATCCGTGTTCCATAA 59.636 40.000 6.45 0.00 38.58 1.90
557 681 5.360591 AGATCAAGATCCGTGTTCCATAAC 58.639 41.667 6.45 0.00 38.58 1.89
558 682 4.545208 TCAAGATCCGTGTTCCATAACA 57.455 40.909 0.00 0.00 43.32 2.41
560 684 3.543680 AGATCCGTGTTCCATAACAGG 57.456 47.619 4.43 4.43 46.06 4.00
563 687 2.086510 CGTGTTCCATAACAGGGCG 58.913 57.895 3.64 0.00 46.06 6.13
564 688 0.390603 CGTGTTCCATAACAGGGCGA 60.391 55.000 3.64 0.00 46.06 5.54
566 690 2.482316 CGTGTTCCATAACAGGGCGATA 60.482 50.000 3.64 0.00 46.06 2.92
567 691 3.740115 GTGTTCCATAACAGGGCGATAT 58.260 45.455 0.00 0.00 46.06 1.63
569 693 5.488341 GTGTTCCATAACAGGGCGATATAT 58.512 41.667 0.00 0.00 46.06 0.86
570 694 5.938125 GTGTTCCATAACAGGGCGATATATT 59.062 40.000 0.00 0.00 46.06 1.28
571 695 5.937540 TGTTCCATAACAGGGCGATATATTG 59.062 40.000 0.00 0.00 40.69 1.90
572 696 6.170506 GTTCCATAACAGGGCGATATATTGA 58.829 40.000 3.97 0.00 35.56 2.57
575 699 7.497595 TCCATAACAGGGCGATATATTGATAC 58.502 38.462 3.97 0.00 0.00 2.24
576 700 6.706270 CCATAACAGGGCGATATATTGATACC 59.294 42.308 3.97 2.93 0.00 2.73
577 701 4.386867 ACAGGGCGATATATTGATACCG 57.613 45.455 3.97 0.00 0.00 4.02
579 703 4.951715 ACAGGGCGATATATTGATACCGTA 59.048 41.667 3.97 0.00 0.00 4.02
580 704 5.419788 ACAGGGCGATATATTGATACCGTAA 59.580 40.000 3.97 0.00 0.00 3.18
581 705 5.747197 CAGGGCGATATATTGATACCGTAAC 59.253 44.000 3.97 0.00 0.00 2.50
582 706 5.419788 AGGGCGATATATTGATACCGTAACA 59.580 40.000 3.97 0.00 0.00 2.41
583 707 6.071221 AGGGCGATATATTGATACCGTAACAA 60.071 38.462 3.97 3.96 0.00 2.83
584 708 6.255020 GGGCGATATATTGATACCGTAACAAG 59.745 42.308 3.97 0.00 0.00 3.16
585 709 6.255020 GGCGATATATTGATACCGTAACAAGG 59.745 42.308 3.97 0.00 0.00 3.61
586 710 6.810182 GCGATATATTGATACCGTAACAAGGT 59.190 38.462 3.97 0.00 45.28 3.50
588 712 8.644619 CGATATATTGATACCGTAACAAGGTTG 58.355 37.037 7.26 0.00 42.81 3.77
589 713 8.842358 ATATATTGATACCGTAACAAGGTTGG 57.158 34.615 7.26 0.00 42.81 3.77
590 714 3.337694 TGATACCGTAACAAGGTTGGG 57.662 47.619 0.00 0.00 42.81 4.12
593 717 1.974875 CCGTAACAAGGTTGGGGCC 60.975 63.158 0.00 0.00 0.00 5.80
594 718 2.329614 CGTAACAAGGTTGGGGCCG 61.330 63.158 0.00 0.00 0.00 6.13
595 719 1.974875 GTAACAAGGTTGGGGCCGG 60.975 63.158 0.00 0.00 0.00 6.13
596 720 3.212796 TAACAAGGTTGGGGCCGGG 62.213 63.158 2.18 0.00 0.00 5.73
674 798 3.538346 CGTGATACAAACGACACGC 57.462 52.632 0.00 0.00 46.38 5.34
693 817 0.179217 CACACGTGCACCATGATTCG 60.179 55.000 17.22 5.25 0.00 3.34
787 924 2.444624 CCGGTTCTGCATGTCGACG 61.445 63.158 11.62 0.00 0.00 5.12
788 925 2.778679 GGTTCTGCATGTCGACGC 59.221 61.111 11.62 9.80 0.00 5.19
789 926 2.027073 GGTTCTGCATGTCGACGCA 61.027 57.895 15.82 15.82 36.52 5.24
845 983 3.931247 ACCCGCCGTGCAACACTA 61.931 61.111 0.00 0.00 35.74 2.74
849 987 1.083015 CGCCGTGCAACACTACAAC 60.083 57.895 0.00 0.00 35.74 3.32
878 1016 0.811915 AACTCGCAGCGTAGAGACAT 59.188 50.000 15.93 0.00 37.87 3.06
881 1019 1.867865 CTCGCAGCGTAGAGACATAGA 59.132 52.381 15.93 0.00 36.65 1.98
884 1022 3.315470 TCGCAGCGTAGAGACATAGAAAT 59.685 43.478 15.93 0.00 0.00 2.17
886 1024 4.848841 CGCAGCGTAGAGACATAGAAATAG 59.151 45.833 6.65 0.00 0.00 1.73
937 1075 4.328041 GGCTCCCTTTGCCTCTTC 57.672 61.111 0.00 0.00 46.38 2.87
977 1629 1.271217 GCGACACCCTTTATATCCCCC 60.271 57.143 0.00 0.00 0.00 5.40
978 1630 1.001633 CGACACCCTTTATATCCCCCG 59.998 57.143 0.00 0.00 0.00 5.73
979 1631 2.052468 GACACCCTTTATATCCCCCGT 58.948 52.381 0.00 0.00 0.00 5.28
981 1633 1.073284 CACCCTTTATATCCCCCGTGG 59.927 57.143 0.00 0.00 0.00 4.94
982 1634 0.037734 CCCTTTATATCCCCCGTGGC 59.962 60.000 0.00 0.00 0.00 5.01
986 1638 1.474332 TTATATCCCCCGTGGCGGTC 61.474 60.000 6.82 0.00 46.80 4.79
1106 1937 2.747855 GCTCCCAACAAGCTCGGG 60.748 66.667 4.47 4.47 41.76 5.14
1325 2757 2.462782 CCTCGACGACCTCCTCGAC 61.463 68.421 0.00 0.00 46.14 4.20
1448 2880 1.379977 CTCCACCAGCGTCCTCCTA 60.380 63.158 0.00 0.00 0.00 2.94
1451 2883 1.379977 CACCAGCGTCCTCCTAGGA 60.380 63.158 11.98 11.98 43.43 2.94
1482 2914 2.494918 GGGTCATGGTCTCCGACG 59.505 66.667 0.00 0.00 32.65 5.12
1880 3324 4.433186 AGACGACATTGTCTCTTCTGAG 57.567 45.455 14.54 0.00 45.97 3.35
1999 3443 2.462456 TTCGCTTTGTCAGATCTGCT 57.538 45.000 18.36 0.00 0.00 4.24
2015 3459 8.387039 TCAGATCTGCTATTGGTACTAGATACT 58.613 37.037 18.36 0.00 33.87 2.12
2091 3549 5.303747 AGTACATTGTCTTCTCTGACGAG 57.696 43.478 0.00 0.00 39.64 4.18
2135 3638 1.059098 TTCTGCTGTCATGGTGGTCT 58.941 50.000 0.00 0.00 0.00 3.85
2148 3651 0.037605 GTGGTCTCGAAATCGGTGGT 60.038 55.000 2.63 0.00 40.29 4.16
2281 3803 2.167487 AGAAGCTAGAGAAAGGAAGCGG 59.833 50.000 0.00 0.00 39.94 5.52
2303 3829 2.363306 TTGGCTTGGACATGAACACT 57.637 45.000 0.00 0.00 0.00 3.55
2304 3830 2.363306 TGGCTTGGACATGAACACTT 57.637 45.000 0.00 0.00 0.00 3.16
2330 3856 5.661503 TCCCCCAATACAATGTGATGTAT 57.338 39.130 0.00 0.00 45.93 2.29
2358 3932 7.114866 TGATATCAAGTTGATACCGGTTACA 57.885 36.000 24.43 11.17 41.62 2.41
2362 3936 6.778834 TCAAGTTGATACCGGTTACATCTA 57.221 37.500 15.04 3.86 0.00 1.98
2363 3937 6.802608 TCAAGTTGATACCGGTTACATCTAG 58.197 40.000 15.04 5.12 0.00 2.43
2365 3939 4.038883 AGTTGATACCGGTTACATCTAGCC 59.961 45.833 15.04 0.00 0.00 3.93
2373 3947 4.569564 CCGGTTACATCTAGCCTTTACAAC 59.430 45.833 0.00 0.00 0.00 3.32
2424 4014 4.907879 AACCAAAGAGCTCAAGAAGTTG 57.092 40.909 17.77 9.41 34.67 3.16
2462 4053 2.558359 ACTGCTCTGTTATTTTGCCACC 59.442 45.455 0.00 0.00 0.00 4.61
2471 4062 1.178534 ATTTTGCCACCACCCACGAG 61.179 55.000 0.00 0.00 0.00 4.18
2472 4063 2.272230 TTTTGCCACCACCCACGAGA 62.272 55.000 0.00 0.00 0.00 4.04
2473 4064 2.674563 TTTGCCACCACCCACGAGAG 62.675 60.000 0.00 0.00 0.00 3.20
2514 4105 1.203001 TGGTTGGTGGGTTCTTCATCC 60.203 52.381 0.00 0.00 0.00 3.51
2515 4106 1.075536 GGTTGGTGGGTTCTTCATCCT 59.924 52.381 0.00 0.00 0.00 3.24
2516 4107 2.307686 GGTTGGTGGGTTCTTCATCCTA 59.692 50.000 0.00 0.00 0.00 2.94
2538 4132 3.689649 ACTAGCCTTAAAGCACAAATCCG 59.310 43.478 0.00 0.00 34.23 4.18
2544 4138 4.498009 CCTTAAAGCACAAATCCGCATAGG 60.498 45.833 0.00 0.00 42.97 2.57
2571 4166 4.820897 TCAGTATGCCCTTATTATGCGAG 58.179 43.478 0.00 0.00 34.76 5.03
2641 4237 8.349245 TCCAAAATGTTTGCAGGTAATATATCG 58.651 33.333 0.00 0.00 0.00 2.92
2680 4277 1.651240 CCATGGTCCTTCAGCTTGCG 61.651 60.000 2.57 0.00 0.00 4.85
2685 4282 2.437359 CCTTCAGCTTGCGGAGGG 60.437 66.667 9.12 9.12 0.00 4.30
2686 4283 2.348998 CTTCAGCTTGCGGAGGGT 59.651 61.111 0.00 0.00 0.00 4.34
2687 4284 1.596934 CTTCAGCTTGCGGAGGGTA 59.403 57.895 0.00 0.00 0.00 3.69
2688 4285 0.741221 CTTCAGCTTGCGGAGGGTAC 60.741 60.000 0.00 0.00 0.00 3.34
2689 4286 1.192146 TTCAGCTTGCGGAGGGTACT 61.192 55.000 0.00 0.00 0.00 2.73
2690 4287 1.448540 CAGCTTGCGGAGGGTACTG 60.449 63.158 0.00 0.00 0.00 2.74
2718 4315 2.115291 GCTTTGGGAGATGGTCGCC 61.115 63.158 0.00 0.00 37.31 5.54
2753 4350 2.225856 ACCATTTTGGATGGGGGTTCAT 60.226 45.455 9.64 0.00 40.96 2.57
2793 4404 5.768317 ACATGAGTATTTGTTTTCGGTTGG 58.232 37.500 0.00 0.00 0.00 3.77
2799 4433 6.110033 AGTATTTGTTTTCGGTTGGCTTTTT 58.890 32.000 0.00 0.00 0.00 1.94
2816 4450 3.828875 TTTTTGGCCCCTGTTTACTTG 57.171 42.857 0.00 0.00 0.00 3.16
2822 4456 1.066929 GCCCCTGTTTACTTGCATTGG 60.067 52.381 0.00 0.00 0.00 3.16
2833 4467 7.714377 TGTTTACTTGCATTGGATGTTGAAAAT 59.286 29.630 2.14 0.00 0.00 1.82
2836 4470 5.697633 ACTTGCATTGGATGTTGAAAATGTC 59.302 36.000 0.00 0.00 33.50 3.06
2894 4530 6.049149 GGTTTTTCTCTCCCTTTGGAAAAAG 58.951 40.000 11.12 0.00 41.17 2.27
2902 4538 3.132111 TCCCTTTGGAAAAAGACAACAGC 59.868 43.478 0.00 0.00 37.86 4.40
2949 4712 9.586732 TCAATTTATTGATACTTTGATAGGGGG 57.413 33.333 1.12 0.00 41.51 5.40
2953 4716 9.640952 TTTATTGATACTTTGATAGGGGGAAAG 57.359 33.333 0.00 0.00 33.69 2.62
2955 4718 6.500589 TGATACTTTGATAGGGGGAAAGAG 57.499 41.667 0.00 0.00 32.18 2.85
2956 4719 6.209774 TGATACTTTGATAGGGGGAAAGAGA 58.790 40.000 0.00 0.00 32.18 3.10
2958 4721 4.699994 ACTTTGATAGGGGGAAAGAGAGA 58.300 43.478 0.00 0.00 32.18 3.10
2959 4722 4.719273 ACTTTGATAGGGGGAAAGAGAGAG 59.281 45.833 0.00 0.00 32.18 3.20
2962 4725 4.960332 TGATAGGGGGAAAGAGAGAGAAA 58.040 43.478 0.00 0.00 0.00 2.52
2963 4726 5.350547 TGATAGGGGGAAAGAGAGAGAAAA 58.649 41.667 0.00 0.00 0.00 2.29
2964 4727 5.426833 TGATAGGGGGAAAGAGAGAGAAAAG 59.573 44.000 0.00 0.00 0.00 2.27
2965 4728 3.875571 AGGGGGAAAGAGAGAGAAAAGA 58.124 45.455 0.00 0.00 0.00 2.52
2967 4730 5.604752 AGGGGGAAAGAGAGAGAAAAGATA 58.395 41.667 0.00 0.00 0.00 1.98
2968 4731 6.216541 AGGGGGAAAGAGAGAGAAAAGATAT 58.783 40.000 0.00 0.00 0.00 1.63
2969 4732 6.101005 AGGGGGAAAGAGAGAGAAAAGATATG 59.899 42.308 0.00 0.00 0.00 1.78
2971 4734 7.342581 GGGGAAAGAGAGAGAAAAGATATGTT 58.657 38.462 0.00 0.00 0.00 2.71
2973 4736 9.320352 GGGAAAGAGAGAGAAAAGATATGTTAC 57.680 37.037 0.00 0.00 0.00 2.50
2974 4737 9.320352 GGAAAGAGAGAGAAAAGATATGTTACC 57.680 37.037 0.00 0.00 0.00 2.85
2975 4738 9.877178 GAAAGAGAGAGAAAAGATATGTTACCA 57.123 33.333 0.00 0.00 0.00 3.25
2978 4741 9.660180 AGAGAGAGAAAAGATATGTTACCAAAC 57.340 33.333 0.00 0.00 36.07 2.93
2979 4742 9.660180 GAGAGAGAAAAGATATGTTACCAAACT 57.340 33.333 0.00 0.00 36.51 2.66
2982 4745 9.668497 AGAGAAAAGATATGTTACCAAACTACC 57.332 33.333 0.00 0.00 36.51 3.18
2983 4746 9.444600 GAGAAAAGATATGTTACCAAACTACCA 57.555 33.333 0.00 0.00 36.51 3.25
2987 4750 7.568199 AGATATGTTACCAAACTACCAATGC 57.432 36.000 0.00 0.00 36.51 3.56
2988 4751 4.695217 ATGTTACCAAACTACCAATGCG 57.305 40.909 0.00 0.00 36.51 4.73
2989 4752 3.741249 TGTTACCAAACTACCAATGCGA 58.259 40.909 0.00 0.00 36.51 5.10
2990 4753 4.328536 TGTTACCAAACTACCAATGCGAT 58.671 39.130 0.00 0.00 36.51 4.58
2991 4754 4.393680 TGTTACCAAACTACCAATGCGATC 59.606 41.667 0.00 0.00 36.51 3.69
2992 4755 3.066291 ACCAAACTACCAATGCGATCA 57.934 42.857 0.00 0.00 0.00 2.92
2993 4756 3.417101 ACCAAACTACCAATGCGATCAA 58.583 40.909 0.00 0.00 0.00 2.57
2996 4759 1.651987 ACTACCAATGCGATCAACGG 58.348 50.000 0.00 0.00 42.83 4.44
2997 4760 0.304705 CTACCAATGCGATCAACGGC 59.695 55.000 0.00 0.00 42.83 5.68
2998 4761 0.391793 TACCAATGCGATCAACGGCA 60.392 50.000 0.00 0.00 42.83 5.69
2999 4762 1.240641 ACCAATGCGATCAACGGCAA 61.241 50.000 0.00 0.00 42.83 4.52
3000 4763 0.798009 CCAATGCGATCAACGGCAAC 60.798 55.000 0.00 0.00 42.83 4.17
3001 4764 0.109827 CAATGCGATCAACGGCAACA 60.110 50.000 0.00 0.00 42.83 3.33
3002 4765 0.595588 AATGCGATCAACGGCAACAA 59.404 45.000 0.00 0.00 42.83 2.83
3004 4767 0.382158 TGCGATCAACGGCAACAAAA 59.618 45.000 0.00 0.00 42.83 2.44
3006 4769 1.052287 CGATCAACGGCAACAAAAGC 58.948 50.000 0.00 0.00 38.46 3.51
3008 4771 2.676076 GATCAACGGCAACAAAAGCAT 58.324 42.857 0.00 0.00 0.00 3.79
3009 4772 2.132740 TCAACGGCAACAAAAGCATC 57.867 45.000 0.00 0.00 0.00 3.91
3011 4774 1.522258 CAACGGCAACAAAAGCATCAC 59.478 47.619 0.00 0.00 0.00 3.06
3014 4777 1.142474 GGCAACAAAAGCATCACAGC 58.858 50.000 0.00 0.00 0.00 4.40
3016 4779 1.523934 GCAACAAAAGCATCACAGCAC 59.476 47.619 0.00 0.00 36.85 4.40
3017 4780 2.129607 CAACAAAAGCATCACAGCACC 58.870 47.619 0.00 0.00 36.85 5.01
3019 4782 2.034124 ACAAAAGCATCACAGCACCTT 58.966 42.857 0.00 0.00 36.85 3.50
3021 4784 3.054878 CAAAAGCATCACAGCACCTTTC 58.945 45.455 0.00 0.00 36.85 2.62
3022 4785 2.283145 AAGCATCACAGCACCTTTCT 57.717 45.000 0.00 0.00 36.85 2.52
3023 4786 1.531423 AGCATCACAGCACCTTTCTG 58.469 50.000 0.00 0.00 36.85 3.02
3025 4788 1.881973 GCATCACAGCACCTTTCTGAA 59.118 47.619 0.00 0.00 35.61 3.02
3027 4790 3.427233 GCATCACAGCACCTTTCTGAATC 60.427 47.826 0.00 0.00 35.61 2.52
3028 4791 3.777106 TCACAGCACCTTTCTGAATCT 57.223 42.857 0.00 0.00 35.61 2.40
3029 4792 4.890158 TCACAGCACCTTTCTGAATCTA 57.110 40.909 0.00 0.00 35.61 1.98
3032 5430 4.154918 CACAGCACCTTTCTGAATCTAACC 59.845 45.833 0.00 0.00 35.61 2.85
3033 5431 4.202461 ACAGCACCTTTCTGAATCTAACCA 60.202 41.667 0.00 0.00 35.61 3.67
3035 5433 5.416952 CAGCACCTTTCTGAATCTAACCATT 59.583 40.000 0.00 0.00 33.54 3.16
3036 5434 5.416952 AGCACCTTTCTGAATCTAACCATTG 59.583 40.000 0.00 0.00 0.00 2.82
3038 5436 5.183713 CACCTTTCTGAATCTAACCATTGCA 59.816 40.000 0.00 0.00 0.00 4.08
3042 5440 5.295431 TCTGAATCTAACCATTGCAAACG 57.705 39.130 1.71 0.00 0.00 3.60
3044 5442 3.192422 TGAATCTAACCATTGCAAACGGG 59.808 43.478 19.32 15.80 0.00 5.28
3046 5444 2.865079 TCTAACCATTGCAAACGGGAA 58.135 42.857 19.32 8.34 0.00 3.97
3075 5473 5.234752 TCCGATGTGGATTATCAATAACCG 58.765 41.667 0.00 0.00 43.74 4.44
3076 5474 4.994852 CCGATGTGGATTATCAATAACCGT 59.005 41.667 0.00 0.00 42.00 4.83
3077 5475 5.107104 CCGATGTGGATTATCAATAACCGTG 60.107 44.000 0.00 0.00 42.00 4.94
3079 5477 4.456535 TGTGGATTATCAATAACCGTGGG 58.543 43.478 0.00 0.00 0.00 4.61
3080 5478 4.164413 TGTGGATTATCAATAACCGTGGGA 59.836 41.667 0.00 0.00 0.00 4.37
3081 5479 5.127491 GTGGATTATCAATAACCGTGGGAA 58.873 41.667 0.00 0.00 0.00 3.97
3082 5480 5.238650 GTGGATTATCAATAACCGTGGGAAG 59.761 44.000 0.00 0.00 0.00 3.46
3084 5482 5.469084 GGATTATCAATAACCGTGGGAAGAC 59.531 44.000 0.00 0.00 0.00 3.01
3086 5484 3.328382 TCAATAACCGTGGGAAGACAG 57.672 47.619 0.00 0.00 0.00 3.51
3087 5485 1.737793 CAATAACCGTGGGAAGACAGC 59.262 52.381 0.00 0.00 0.00 4.40
3088 5486 0.981183 ATAACCGTGGGAAGACAGCA 59.019 50.000 0.00 0.00 0.00 4.41
3090 5488 0.321653 AACCGTGGGAAGACAGCATC 60.322 55.000 0.00 0.00 0.00 3.91
3091 5489 1.450312 CCGTGGGAAGACAGCATCC 60.450 63.158 0.00 0.00 34.85 3.51
3093 5491 0.742281 CGTGGGAAGACAGCATCCTG 60.742 60.000 0.00 0.00 44.80 3.86
3095 5493 0.842030 TGGGAAGACAGCATCCTGGT 60.842 55.000 0.00 0.00 43.53 4.00
3096 5494 0.329596 GGGAAGACAGCATCCTGGTT 59.670 55.000 0.00 0.00 43.53 3.67
3097 5495 1.457346 GGAAGACAGCATCCTGGTTG 58.543 55.000 0.22 0.22 43.53 3.77
3098 5496 1.003580 GGAAGACAGCATCCTGGTTGA 59.996 52.381 8.93 0.00 43.53 3.18
3099 5497 2.354259 GAAGACAGCATCCTGGTTGAG 58.646 52.381 8.93 3.04 43.53 3.02
3100 5498 0.035630 AGACAGCATCCTGGTTGAGC 60.036 55.000 8.93 2.09 43.53 4.26
3101 5499 0.321919 GACAGCATCCTGGTTGAGCA 60.322 55.000 8.93 0.00 43.53 4.26
3102 5500 0.111061 ACAGCATCCTGGTTGAGCAA 59.889 50.000 8.93 0.00 43.53 3.91
3103 5501 1.272313 ACAGCATCCTGGTTGAGCAAT 60.272 47.619 8.93 0.00 43.53 3.56
3104 5502 2.025981 ACAGCATCCTGGTTGAGCAATA 60.026 45.455 8.93 0.00 43.53 1.90
3105 5503 3.220110 CAGCATCCTGGTTGAGCAATAT 58.780 45.455 8.93 0.00 35.38 1.28
3106 5504 3.004419 CAGCATCCTGGTTGAGCAATATG 59.996 47.826 8.93 0.00 35.38 1.78
3108 5506 3.252701 GCATCCTGGTTGAGCAATATGAG 59.747 47.826 8.93 0.00 0.00 2.90
3111 5509 2.947652 CCTGGTTGAGCAATATGAGTGG 59.052 50.000 0.00 0.00 0.00 4.00
3112 5510 3.614092 CTGGTTGAGCAATATGAGTGGT 58.386 45.455 0.00 0.00 0.00 4.16
3113 5511 4.012374 CTGGTTGAGCAATATGAGTGGTT 58.988 43.478 0.00 0.00 0.00 3.67
3115 5513 4.832266 TGGTTGAGCAATATGAGTGGTTTT 59.168 37.500 0.00 0.00 0.00 2.43
3138 5536 8.578308 TTTTTGAAAGACAAGCAATATGAGTG 57.422 30.769 0.00 0.00 39.77 3.51
3139 5537 5.885230 TGAAAGACAAGCAATATGAGTGG 57.115 39.130 0.00 0.00 0.00 4.00
3140 5538 4.156556 TGAAAGACAAGCAATATGAGTGGC 59.843 41.667 0.00 0.00 0.00 5.01
3141 5539 2.283298 AGACAAGCAATATGAGTGGCG 58.717 47.619 0.00 0.00 0.00 5.69
3142 5540 1.331756 GACAAGCAATATGAGTGGCGG 59.668 52.381 0.00 0.00 0.00 6.13
3144 5542 0.255890 AAGCAATATGAGTGGCGGGT 59.744 50.000 0.00 0.00 0.00 5.28
3145 5543 1.128200 AGCAATATGAGTGGCGGGTA 58.872 50.000 0.00 0.00 0.00 3.69
3146 5544 1.070758 AGCAATATGAGTGGCGGGTAG 59.929 52.381 0.00 0.00 0.00 3.18
3147 5545 1.202651 GCAATATGAGTGGCGGGTAGT 60.203 52.381 0.00 0.00 0.00 2.73
3148 5546 2.036733 GCAATATGAGTGGCGGGTAGTA 59.963 50.000 0.00 0.00 0.00 1.82
3149 5547 3.493699 GCAATATGAGTGGCGGGTAGTAA 60.494 47.826 0.00 0.00 0.00 2.24
3150 5548 4.699637 CAATATGAGTGGCGGGTAGTAAA 58.300 43.478 0.00 0.00 0.00 2.01
3151 5549 2.685850 ATGAGTGGCGGGTAGTAAAC 57.314 50.000 0.00 0.00 0.00 2.01
3152 5550 1.340088 TGAGTGGCGGGTAGTAAACA 58.660 50.000 0.00 0.00 0.00 2.83
3153 5551 1.693062 TGAGTGGCGGGTAGTAAACAA 59.307 47.619 0.00 0.00 0.00 2.83
3154 5552 2.104451 TGAGTGGCGGGTAGTAAACAAA 59.896 45.455 0.00 0.00 0.00 2.83
3155 5553 3.140623 GAGTGGCGGGTAGTAAACAAAA 58.859 45.455 0.00 0.00 0.00 2.44
3156 5554 2.880268 AGTGGCGGGTAGTAAACAAAAC 59.120 45.455 0.00 0.00 0.00 2.43
3157 5555 1.872313 TGGCGGGTAGTAAACAAAACG 59.128 47.619 0.00 0.00 0.00 3.60
3158 5556 2.142319 GGCGGGTAGTAAACAAAACGA 58.858 47.619 0.00 0.00 0.00 3.85
3159 5557 2.743664 GGCGGGTAGTAAACAAAACGAT 59.256 45.455 0.00 0.00 0.00 3.73
3161 5559 4.153256 GCGGGTAGTAAACAAAACGATTG 58.847 43.478 0.00 0.00 0.00 2.67
3162 5560 4.319694 GCGGGTAGTAAACAAAACGATTGT 60.320 41.667 5.70 5.70 0.00 2.71
3165 5563 7.351223 CGGGTAGTAAACAAAACGATTGTAAA 58.649 34.615 10.79 1.86 31.50 2.01
3166 5564 7.531534 CGGGTAGTAAACAAAACGATTGTAAAG 59.468 37.037 10.79 0.00 31.50 1.85
3167 5565 8.558700 GGGTAGTAAACAAAACGATTGTAAAGA 58.441 33.333 10.79 0.00 31.50 2.52
3168 5566 9.590088 GGTAGTAAACAAAACGATTGTAAAGAG 57.410 33.333 10.79 0.00 31.50 2.85
3171 5569 8.068380 AGTAAACAAAACGATTGTAAAGAGAGC 58.932 33.333 10.79 0.00 31.50 4.09
3173 5571 6.371809 ACAAAACGATTGTAAAGAGAGCAA 57.628 33.333 9.09 0.00 0.00 3.91
3175 5573 4.647291 AACGATTGTAAAGAGAGCAACG 57.353 40.909 0.00 0.00 0.00 4.10
3177 5575 2.668457 CGATTGTAAAGAGAGCAACGCT 59.332 45.455 0.00 0.00 43.88 5.07
3178 5576 3.482598 CGATTGTAAAGAGAGCAACGCTG 60.483 47.826 0.00 0.00 39.88 5.18
3180 5578 2.404215 TGTAAAGAGAGCAACGCTGAC 58.596 47.619 0.00 0.00 39.88 3.51
3181 5579 2.035961 TGTAAAGAGAGCAACGCTGACT 59.964 45.455 0.00 0.00 39.88 3.41
3182 5580 1.506493 AAAGAGAGCAACGCTGACTG 58.494 50.000 0.00 0.00 39.88 3.51
3183 5581 0.390860 AAGAGAGCAACGCTGACTGT 59.609 50.000 0.00 0.00 39.88 3.55
3184 5582 0.319383 AGAGAGCAACGCTGACTGTG 60.319 55.000 0.00 0.00 39.88 3.66
3185 5583 1.895280 GAGAGCAACGCTGACTGTGC 61.895 60.000 0.00 0.00 39.88 4.57
3187 5585 1.502163 GAGCAACGCTGACTGTGCTT 61.502 55.000 0.00 0.00 39.88 3.91
3189 5587 2.016961 CAACGCTGACTGTGCTTGT 58.983 52.632 0.00 0.00 0.00 3.16
3191 5589 1.070577 CAACGCTGACTGTGCTTGTAC 60.071 52.381 0.00 0.00 0.00 2.90
3194 5592 0.868406 GCTGACTGTGCTTGTACCAC 59.132 55.000 0.00 0.00 0.00 4.16
3195 5593 1.810031 GCTGACTGTGCTTGTACCACA 60.810 52.381 3.82 3.82 40.61 4.17
3197 5595 2.942376 CTGACTGTGCTTGTACCACAAA 59.058 45.455 5.19 0.00 42.11 2.83
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
137 138 6.934645 AGTCTTCATGGTTTATTTTCGTCTGA 59.065 34.615 0.00 0.00 0.00 3.27
152 153 5.491070 TGAGTTGGTGAATAGTCTTCATGG 58.509 41.667 0.00 0.00 0.00 3.66
154 155 6.611613 TCTGAGTTGGTGAATAGTCTTCAT 57.388 37.500 0.00 0.00 0.00 2.57
157 158 6.881602 GGAAATCTGAGTTGGTGAATAGTCTT 59.118 38.462 0.00 0.00 0.00 3.01
275 276 9.696917 GTTAACAAATCAGAAGGAAACAATCAT 57.303 29.630 0.00 0.00 0.00 2.45
291 292 6.030228 GTGCTAGCCAATCTGTTAACAAATC 58.970 40.000 13.29 0.00 0.00 2.17
324 325 0.097150 GCGATTTTCTTGCTCCCGAC 59.903 55.000 0.00 0.00 0.00 4.79
343 344 0.314302 AAACGGAGCGATATCTCGGG 59.686 55.000 2.47 0.00 45.15 5.14
407 408 6.160684 TGCATGACAATCAATTCTTTCCAAG 58.839 36.000 0.00 0.00 0.00 3.61
438 439 7.118535 TGCATGACAATCAATTCTTTCCAAATG 59.881 33.333 0.00 0.00 0.00 2.32
439 440 7.162761 TGCATGACAATCAATTCTTTCCAAAT 58.837 30.769 0.00 0.00 0.00 2.32
499 623 8.723942 AATGAAATAGTTGATAGTCTCGCTTT 57.276 30.769 0.00 0.00 0.00 3.51
520 644 8.526978 CGGATCTTGATCTCTATTTCCTAATGA 58.473 37.037 10.03 0.00 0.00 2.57
529 653 5.363868 TGGAACACGGATCTTGATCTCTATT 59.636 40.000 10.03 1.86 0.00 1.73
530 654 4.895889 TGGAACACGGATCTTGATCTCTAT 59.104 41.667 10.03 0.00 0.00 1.98
531 655 4.278310 TGGAACACGGATCTTGATCTCTA 58.722 43.478 10.03 0.00 0.00 2.43
532 656 3.099905 TGGAACACGGATCTTGATCTCT 58.900 45.455 10.03 0.00 0.00 3.10
533 657 3.526931 TGGAACACGGATCTTGATCTC 57.473 47.619 10.03 0.67 0.00 2.75
548 672 6.170506 TCAATATATCGCCCTGTTATGGAAC 58.829 40.000 0.00 0.00 36.00 3.62
549 673 6.367374 TCAATATATCGCCCTGTTATGGAA 57.633 37.500 0.00 0.00 0.00 3.53
550 674 6.560003 ATCAATATATCGCCCTGTTATGGA 57.440 37.500 0.00 0.00 0.00 3.41
551 675 6.706270 GGTATCAATATATCGCCCTGTTATGG 59.294 42.308 0.00 0.00 0.00 2.74
552 676 6.420903 CGGTATCAATATATCGCCCTGTTATG 59.579 42.308 0.00 0.00 35.54 1.90
553 677 6.097839 ACGGTATCAATATATCGCCCTGTTAT 59.902 38.462 0.00 0.00 44.45 1.89
556 680 3.767673 ACGGTATCAATATATCGCCCTGT 59.232 43.478 0.00 0.00 44.45 4.00
557 681 4.386867 ACGGTATCAATATATCGCCCTG 57.613 45.455 0.00 0.00 44.45 4.45
558 682 5.419788 TGTTACGGTATCAATATATCGCCCT 59.580 40.000 0.00 0.00 44.45 5.19
560 684 6.255020 CCTTGTTACGGTATCAATATATCGCC 59.745 42.308 11.03 0.00 44.45 5.54
561 685 6.810182 ACCTTGTTACGGTATCAATATATCGC 59.190 38.462 11.03 0.00 44.45 4.58
562 686 8.644619 CAACCTTGTTACGGTATCAATATATCG 58.355 37.037 11.03 0.00 45.76 2.92
563 687 8.932791 CCAACCTTGTTACGGTATCAATATATC 58.067 37.037 11.03 0.00 33.53 1.63
564 688 7.881232 CCCAACCTTGTTACGGTATCAATATAT 59.119 37.037 11.03 0.00 33.53 0.86
566 690 6.059484 CCCAACCTTGTTACGGTATCAATAT 58.941 40.000 11.03 2.11 33.53 1.28
567 691 5.430007 CCCAACCTTGTTACGGTATCAATA 58.570 41.667 11.03 0.00 33.53 1.90
569 693 3.559597 CCCCAACCTTGTTACGGTATCAA 60.560 47.826 10.35 10.35 33.53 2.57
570 694 2.027007 CCCCAACCTTGTTACGGTATCA 60.027 50.000 0.00 0.00 33.53 2.15
571 695 2.635714 CCCCAACCTTGTTACGGTATC 58.364 52.381 0.00 0.00 33.53 2.24
572 696 1.340308 GCCCCAACCTTGTTACGGTAT 60.340 52.381 0.00 0.00 33.53 2.73
575 699 1.974875 GGCCCCAACCTTGTTACGG 60.975 63.158 0.00 0.00 0.00 4.02
576 700 2.329614 CGGCCCCAACCTTGTTACG 61.330 63.158 0.00 0.00 0.00 3.18
577 701 1.974875 CCGGCCCCAACCTTGTTAC 60.975 63.158 0.00 0.00 0.00 2.50
579 703 4.614036 CCCGGCCCCAACCTTGTT 62.614 66.667 0.00 0.00 0.00 2.83
674 798 0.179217 CGAATCATGGTGCACGTGTG 60.179 55.000 18.38 7.11 37.38 3.82
691 815 1.691976 TCAAGTTGGAAAGAGAGGCGA 59.308 47.619 2.34 0.00 0.00 5.54
693 817 4.155644 CAGATTCAAGTTGGAAAGAGAGGC 59.844 45.833 2.34 0.00 0.00 4.70
845 983 3.386486 TGCGAGTTGACTTATTCGTTGT 58.614 40.909 0.00 0.00 35.61 3.32
849 987 1.007011 CGCTGCGAGTTGACTTATTCG 60.007 52.381 18.66 0.00 36.23 3.34
878 1016 8.227791 GTGCGATTTGTTTTGTCTCTATTTCTA 58.772 33.333 0.00 0.00 0.00 2.10
881 1019 6.734137 TGTGCGATTTGTTTTGTCTCTATTT 58.266 32.000 0.00 0.00 0.00 1.40
884 1022 5.065346 TGTTGTGCGATTTGTTTTGTCTCTA 59.935 36.000 0.00 0.00 0.00 2.43
886 1024 4.027702 GTGTTGTGCGATTTGTTTTGTCTC 60.028 41.667 0.00 0.00 0.00 3.36
937 1075 2.729156 GCCGCTGGAAATCTTTTTCTCG 60.729 50.000 0.00 1.65 40.91 4.04
982 1634 4.862823 GGAGGGGGAGGAGGACCG 62.863 77.778 0.00 0.00 41.83 4.79
984 1636 4.500826 GGGGAGGGGGAGGAGGAC 62.501 77.778 0.00 0.00 0.00 3.85
986 1638 4.038804 TTGGGGAGGGGGAGGAGG 62.039 72.222 0.00 0.00 0.00 4.30
988 1640 4.364686 GGTTGGGGAGGGGGAGGA 62.365 72.222 0.00 0.00 0.00 3.71
990 1642 2.534272 TTGGTTGGGGAGGGGGAG 60.534 66.667 0.00 0.00 0.00 4.30
992 1644 3.992641 GGTTGGTTGGGGAGGGGG 61.993 72.222 0.00 0.00 0.00 5.40
993 1645 3.992641 GGGTTGGTTGGGGAGGGG 61.993 72.222 0.00 0.00 0.00 4.79
994 1646 3.189646 TGGGTTGGTTGGGGAGGG 61.190 66.667 0.00 0.00 0.00 4.30
1230 2662 2.047179 GAAGCGCGGGAAGAAGGT 60.047 61.111 8.83 0.00 0.00 3.50
1305 2737 3.500222 GAGGAGGTCGTCGAGGAC 58.500 66.667 26.08 26.08 36.18 3.85
1404 2836 2.281761 CTTGGCGAGGCACTTGGT 60.282 61.111 0.00 0.00 41.55 3.67
1457 2889 1.987855 GACCATGACCCCCGAGACA 60.988 63.158 0.00 0.00 0.00 3.41
1899 3343 0.463620 GTGCCAGGATCTCCTCAGAC 59.536 60.000 0.00 0.00 46.65 3.51
1900 3344 0.337773 AGTGCCAGGATCTCCTCAGA 59.662 55.000 0.00 0.00 46.65 3.27
1901 3345 0.752054 GAGTGCCAGGATCTCCTCAG 59.248 60.000 0.00 0.00 46.65 3.35
1916 3360 3.902881 ATCAGCTCCCAAAGTAGAGTG 57.097 47.619 0.00 0.00 32.47 3.51
1917 3361 4.353777 TGTATCAGCTCCCAAAGTAGAGT 58.646 43.478 0.00 0.00 32.47 3.24
1918 3362 4.404073 ACTGTATCAGCTCCCAAAGTAGAG 59.596 45.833 0.00 0.00 34.37 2.43
1919 3363 4.353777 ACTGTATCAGCTCCCAAAGTAGA 58.646 43.478 0.00 0.00 34.37 2.59
1920 3364 4.744795 ACTGTATCAGCTCCCAAAGTAG 57.255 45.455 0.00 0.00 34.37 2.57
1999 3443 9.999660 CTACTGACTCAGTATCTAGTACCAATA 57.000 37.037 17.52 0.00 44.49 1.90
2015 3459 8.421784 AGTTACATTCTTTTGACTACTGACTCA 58.578 33.333 0.00 0.00 0.00 3.41
2025 3469 8.589335 TGTCACTCTAGTTACATTCTTTTGAC 57.411 34.615 0.00 0.00 28.28 3.18
2091 3549 6.758254 TCAATTCTTTCACAATTTCCTTCCC 58.242 36.000 0.00 0.00 0.00 3.97
2135 3638 2.004017 GTGCAATACCACCGATTTCGA 58.996 47.619 0.67 0.00 43.02 3.71
2202 3705 3.452990 TCGTGGCATCCTTAATCCTAACA 59.547 43.478 0.00 0.00 0.00 2.41
2281 3803 3.256631 AGTGTTCATGTCCAAGCCAATTC 59.743 43.478 0.00 0.00 0.00 2.17
2304 3830 5.545723 ACATCACATTGTATTGGGGGAAAAA 59.454 36.000 0.00 0.00 0.00 1.94
2333 3859 7.557724 TGTAACCGGTATCAACTTGATATCAA 58.442 34.615 17.07 17.07 39.77 2.57
2335 3861 8.088981 AGATGTAACCGGTATCAACTTGATATC 58.911 37.037 8.00 12.14 40.97 1.63
2336 3862 7.963532 AGATGTAACCGGTATCAACTTGATAT 58.036 34.615 8.00 1.95 40.97 1.63
2337 3863 7.356089 AGATGTAACCGGTATCAACTTGATA 57.644 36.000 8.00 7.31 38.26 2.15
2358 3932 5.877012 CAGTGTGATGTTGTAAAGGCTAGAT 59.123 40.000 0.00 0.00 0.00 1.98
2362 3936 3.815401 GACAGTGTGATGTTGTAAAGGCT 59.185 43.478 0.00 0.00 32.25 4.58
2363 3937 3.563808 TGACAGTGTGATGTTGTAAAGGC 59.436 43.478 0.00 0.00 32.25 4.35
2365 3939 4.506288 TCGTGACAGTGTGATGTTGTAAAG 59.494 41.667 0.00 0.00 32.25 1.85
2373 3947 3.802423 CAATGTTCGTGACAGTGTGATG 58.198 45.455 0.00 0.00 46.36 3.07
2424 4014 2.672195 GCAGTGTAGCAAAAGGGCAATC 60.672 50.000 0.00 0.00 35.83 2.67
2462 4053 6.576662 ACATATTCTATACTCTCGTGGGTG 57.423 41.667 0.00 0.00 0.00 4.61
2476 4067 9.559732 CACCAACCAATATCAGAACATATTCTA 57.440 33.333 0.00 0.00 43.69 2.10
2488 4079 4.202620 TGAAGAACCCACCAACCAATATCA 60.203 41.667 0.00 0.00 0.00 2.15
2514 4105 5.006746 CGGATTTGTGCTTTAAGGCTAGTAG 59.993 44.000 11.19 0.00 0.00 2.57
2515 4106 4.873827 CGGATTTGTGCTTTAAGGCTAGTA 59.126 41.667 11.19 0.00 0.00 1.82
2516 4107 3.689649 CGGATTTGTGCTTTAAGGCTAGT 59.310 43.478 11.19 0.00 0.00 2.57
2538 4132 3.772025 AGGGCATACTGATACTCCTATGC 59.228 47.826 0.00 0.00 40.45 3.14
2544 4138 6.477033 CGCATAATAAGGGCATACTGATACTC 59.523 42.308 0.00 0.00 0.00 2.59
2550 4144 4.569943 ACTCGCATAATAAGGGCATACTG 58.430 43.478 0.00 0.00 0.00 2.74
2551 4145 4.891992 ACTCGCATAATAAGGGCATACT 57.108 40.909 0.00 0.00 0.00 2.12
2552 4146 6.338146 TCATACTCGCATAATAAGGGCATAC 58.662 40.000 0.00 0.00 0.00 2.39
2553 4147 6.538945 TCATACTCGCATAATAAGGGCATA 57.461 37.500 0.00 0.00 0.00 3.14
2554 4148 5.420725 TCATACTCGCATAATAAGGGCAT 57.579 39.130 0.00 0.00 0.00 4.40
2555 4149 4.882842 TCATACTCGCATAATAAGGGCA 57.117 40.909 0.00 0.00 0.00 5.36
2571 4166 5.967674 CAGAATCATTTCGGCAGTTTCATAC 59.032 40.000 0.00 0.00 36.93 2.39
2623 4219 6.924060 AGTGACTCGATATATTACCTGCAAAC 59.076 38.462 0.00 0.00 0.00 2.93
2658 4254 1.815003 CAAGCTGAAGGACCATGGAAC 59.185 52.381 21.47 10.68 0.00 3.62
2680 4277 0.389948 CGTGCACTTCAGTACCCTCC 60.390 60.000 16.19 0.00 0.00 4.30
2685 4282 1.069906 CAAAGCCGTGCACTTCAGTAC 60.070 52.381 16.19 0.00 0.00 2.73
2686 4283 1.225855 CAAAGCCGTGCACTTCAGTA 58.774 50.000 16.19 0.00 0.00 2.74
2687 4284 1.447317 CCAAAGCCGTGCACTTCAGT 61.447 55.000 16.19 0.00 0.00 3.41
2688 4285 1.283793 CCAAAGCCGTGCACTTCAG 59.716 57.895 16.19 1.93 0.00 3.02
2689 4286 2.192861 CCCAAAGCCGTGCACTTCA 61.193 57.895 16.19 0.00 0.00 3.02
2690 4287 1.856265 CTCCCAAAGCCGTGCACTTC 61.856 60.000 16.19 6.18 0.00 3.01
2718 4315 5.652014 TCCAAAATGGTTGAACATAGCCTAG 59.348 40.000 0.00 0.00 39.03 3.02
2799 4433 0.105964 TGCAAGTAAACAGGGGCCAA 60.106 50.000 4.39 0.00 0.00 4.52
2806 4440 5.771469 TCAACATCCAATGCAAGTAAACAG 58.229 37.500 0.00 0.00 0.00 3.16
2812 4446 5.613329 ACATTTTCAACATCCAATGCAAGT 58.387 33.333 0.00 0.00 30.96 3.16
2816 4450 4.484236 TCGACATTTTCAACATCCAATGC 58.516 39.130 0.00 0.00 30.96 3.56
2822 4456 5.551760 ATCACCTCGACATTTTCAACATC 57.448 39.130 0.00 0.00 0.00 3.06
2833 4467 7.593825 CATACAGTCATTATATCACCTCGACA 58.406 38.462 0.00 0.00 0.00 4.35
2836 4470 6.389906 TGCATACAGTCATTATATCACCTCG 58.610 40.000 0.00 0.00 0.00 4.63
2894 4530 2.401766 CCTCCATGCCGCTGTTGTC 61.402 63.158 0.00 0.00 0.00 3.18
2902 4538 0.179048 TATGTGCTTCCTCCATGCCG 60.179 55.000 0.00 0.00 0.00 5.69
2936 4699 4.699994 TCTCTCTTTCCCCCTATCAAAGT 58.300 43.478 0.00 0.00 0.00 2.66
2938 4701 4.960332 TCTCTCTCTTTCCCCCTATCAAA 58.040 43.478 0.00 0.00 0.00 2.69
2939 4702 4.626942 TCTCTCTCTTTCCCCCTATCAA 57.373 45.455 0.00 0.00 0.00 2.57
2944 4707 3.875571 TCTTTTCTCTCTCTTTCCCCCT 58.124 45.455 0.00 0.00 0.00 4.79
2945 4708 4.853468 ATCTTTTCTCTCTCTTTCCCCC 57.147 45.455 0.00 0.00 0.00 5.40
2946 4709 6.894682 ACATATCTTTTCTCTCTCTTTCCCC 58.105 40.000 0.00 0.00 0.00 4.81
2949 4712 9.877178 TGGTAACATATCTTTTCTCTCTCTTTC 57.123 33.333 0.00 0.00 46.17 2.62
2969 4732 4.393680 TGATCGCATTGGTAGTTTGGTAAC 59.606 41.667 0.00 0.00 34.36 2.50
2971 4734 4.209307 TGATCGCATTGGTAGTTTGGTA 57.791 40.909 0.00 0.00 0.00 3.25
2973 4736 3.727673 CGTTGATCGCATTGGTAGTTTGG 60.728 47.826 0.00 0.00 0.00 3.28
2974 4737 3.416277 CGTTGATCGCATTGGTAGTTTG 58.584 45.455 0.00 0.00 0.00 2.93
2975 4738 2.418628 CCGTTGATCGCATTGGTAGTTT 59.581 45.455 0.00 0.00 38.35 2.66
2977 4740 1.651987 CCGTTGATCGCATTGGTAGT 58.348 50.000 0.00 0.00 38.35 2.73
2978 4741 0.304705 GCCGTTGATCGCATTGGTAG 59.695 55.000 0.00 0.00 38.35 3.18
2979 4742 0.391793 TGCCGTTGATCGCATTGGTA 60.392 50.000 0.00 0.00 38.35 3.25
2980 4743 1.240641 TTGCCGTTGATCGCATTGGT 61.241 50.000 0.00 0.00 38.35 3.67
2981 4744 0.798009 GTTGCCGTTGATCGCATTGG 60.798 55.000 0.00 0.00 38.35 3.16
2982 4745 0.109827 TGTTGCCGTTGATCGCATTG 60.110 50.000 0.00 0.00 38.35 2.82
2983 4746 0.595588 TTGTTGCCGTTGATCGCATT 59.404 45.000 0.00 0.00 38.35 3.56
2985 4748 0.382158 TTTTGTTGCCGTTGATCGCA 59.618 45.000 0.00 0.00 38.35 5.10
2986 4749 1.052287 CTTTTGTTGCCGTTGATCGC 58.948 50.000 0.00 0.00 38.35 4.58
2987 4750 1.052287 GCTTTTGTTGCCGTTGATCG 58.948 50.000 0.00 0.00 39.52 3.69
2988 4751 2.132740 TGCTTTTGTTGCCGTTGATC 57.867 45.000 0.00 0.00 0.00 2.92
2989 4752 2.035704 TGATGCTTTTGTTGCCGTTGAT 59.964 40.909 0.00 0.00 0.00 2.57
2990 4753 1.406898 TGATGCTTTTGTTGCCGTTGA 59.593 42.857 0.00 0.00 0.00 3.18
2991 4754 1.522258 GTGATGCTTTTGTTGCCGTTG 59.478 47.619 0.00 0.00 0.00 4.10
2992 4755 1.135915 TGTGATGCTTTTGTTGCCGTT 59.864 42.857 0.00 0.00 0.00 4.44
2993 4756 0.743688 TGTGATGCTTTTGTTGCCGT 59.256 45.000 0.00 0.00 0.00 5.68
2996 4759 1.523934 GTGCTGTGATGCTTTTGTTGC 59.476 47.619 0.00 0.00 0.00 4.17
2997 4760 2.129607 GGTGCTGTGATGCTTTTGTTG 58.870 47.619 0.00 0.00 0.00 3.33
2998 4761 2.034124 AGGTGCTGTGATGCTTTTGTT 58.966 42.857 0.00 0.00 0.00 2.83
2999 4762 1.696063 AGGTGCTGTGATGCTTTTGT 58.304 45.000 0.00 0.00 0.00 2.83
3000 4763 2.806608 AAGGTGCTGTGATGCTTTTG 57.193 45.000 0.00 0.00 0.00 2.44
3001 4764 2.961062 AGAAAGGTGCTGTGATGCTTTT 59.039 40.909 0.00 0.00 0.00 2.27
3002 4765 2.295349 CAGAAAGGTGCTGTGATGCTTT 59.705 45.455 0.00 0.00 0.00 3.51
3004 4767 1.072806 TCAGAAAGGTGCTGTGATGCT 59.927 47.619 0.00 0.00 34.98 3.79
3006 4769 4.008330 AGATTCAGAAAGGTGCTGTGATG 58.992 43.478 0.00 0.00 34.98 3.07
3008 4771 3.777106 AGATTCAGAAAGGTGCTGTGA 57.223 42.857 0.00 0.00 34.98 3.58
3009 4772 4.154918 GGTTAGATTCAGAAAGGTGCTGTG 59.845 45.833 0.00 0.00 34.98 3.66
3011 4774 4.326826 TGGTTAGATTCAGAAAGGTGCTG 58.673 43.478 0.00 0.00 34.71 4.41
3014 4777 5.183713 TGCAATGGTTAGATTCAGAAAGGTG 59.816 40.000 0.00 0.00 0.00 4.00
3016 4779 5.902613 TGCAATGGTTAGATTCAGAAAGG 57.097 39.130 0.00 0.00 0.00 3.11
3017 4780 6.306356 CGTTTGCAATGGTTAGATTCAGAAAG 59.694 38.462 0.00 0.00 0.00 2.62
3019 4782 5.335583 CCGTTTGCAATGGTTAGATTCAGAA 60.336 40.000 0.00 0.00 32.69 3.02
3021 4784 4.414852 CCGTTTGCAATGGTTAGATTCAG 58.585 43.478 0.00 0.00 32.69 3.02
3022 4785 3.192422 CCCGTTTGCAATGGTTAGATTCA 59.808 43.478 14.98 0.00 35.71 2.57
3023 4786 3.442273 TCCCGTTTGCAATGGTTAGATTC 59.558 43.478 14.98 0.00 35.71 2.52
3025 4788 3.080300 TCCCGTTTGCAATGGTTAGAT 57.920 42.857 14.98 0.00 35.71 1.98
3027 4790 2.556622 ACTTCCCGTTTGCAATGGTTAG 59.443 45.455 14.98 13.23 35.71 2.34
3028 4791 2.588620 ACTTCCCGTTTGCAATGGTTA 58.411 42.857 14.98 2.95 35.71 2.85
3029 4792 1.408969 ACTTCCCGTTTGCAATGGTT 58.591 45.000 14.98 0.00 35.71 3.67
3032 5430 4.173256 GGATAAACTTCCCGTTTGCAATG 58.827 43.478 0.00 0.00 45.10 2.82
3033 5431 3.119637 CGGATAAACTTCCCGTTTGCAAT 60.120 43.478 0.00 0.00 45.10 3.56
3035 5433 1.807742 CGGATAAACTTCCCGTTTGCA 59.192 47.619 0.00 0.00 45.10 4.08
3036 5434 2.078392 TCGGATAAACTTCCCGTTTGC 58.922 47.619 0.00 0.00 45.10 3.68
3038 5436 3.687698 CACATCGGATAAACTTCCCGTTT 59.312 43.478 0.00 0.00 46.94 3.60
3042 5440 3.553828 TCCACATCGGATAAACTTCCC 57.446 47.619 0.00 0.00 39.64 3.97
3055 5453 5.181245 CCCACGGTTATTGATAATCCACATC 59.819 44.000 0.00 0.00 0.00 3.06
3056 5454 5.070001 CCCACGGTTATTGATAATCCACAT 58.930 41.667 0.00 0.00 0.00 3.21
3058 5456 4.710324 TCCCACGGTTATTGATAATCCAC 58.290 43.478 0.00 0.00 0.00 4.02
3064 5462 4.682320 GCTGTCTTCCCACGGTTATTGATA 60.682 45.833 0.00 0.00 0.00 2.15
3065 5463 3.873910 CTGTCTTCCCACGGTTATTGAT 58.126 45.455 0.00 0.00 0.00 2.57
3070 5468 0.981183 ATGCTGTCTTCCCACGGTTA 59.019 50.000 0.00 0.00 0.00 2.85
3071 5469 0.321653 GATGCTGTCTTCCCACGGTT 60.322 55.000 0.00 0.00 0.00 4.44
3072 5470 1.296715 GATGCTGTCTTCCCACGGT 59.703 57.895 0.00 0.00 0.00 4.83
3073 5471 1.450312 GGATGCTGTCTTCCCACGG 60.450 63.158 0.00 0.00 32.07 4.94
3074 5472 0.742281 CAGGATGCTGTCTTCCCACG 60.742 60.000 5.98 0.00 37.27 4.94
3075 5473 0.393537 CCAGGATGCTGTCTTCCCAC 60.394 60.000 13.65 0.00 37.27 4.61
3076 5474 0.842030 ACCAGGATGCTGTCTTCCCA 60.842 55.000 13.65 0.00 37.27 4.37
3077 5475 0.329596 AACCAGGATGCTGTCTTCCC 59.670 55.000 13.65 0.00 37.27 3.97
3079 5477 2.354259 CTCAACCAGGATGCTGTCTTC 58.646 52.381 13.65 0.00 31.97 2.87
3080 5478 1.612726 GCTCAACCAGGATGCTGTCTT 60.613 52.381 13.65 1.13 31.97 3.01
3081 5479 0.035630 GCTCAACCAGGATGCTGTCT 60.036 55.000 13.65 0.00 31.97 3.41
3082 5480 0.321919 TGCTCAACCAGGATGCTGTC 60.322 55.000 13.65 0.00 31.97 3.51
3084 5482 1.471119 ATTGCTCAACCAGGATGCTG 58.529 50.000 7.35 7.35 31.97 4.41
3086 5484 3.216800 TCATATTGCTCAACCAGGATGC 58.783 45.455 0.00 0.00 31.97 3.91
3087 5485 4.275196 CACTCATATTGCTCAACCAGGATG 59.725 45.833 0.00 0.00 0.00 3.51
3088 5486 4.458397 CACTCATATTGCTCAACCAGGAT 58.542 43.478 0.00 0.00 0.00 3.24
3090 5488 2.947652 CCACTCATATTGCTCAACCAGG 59.052 50.000 0.00 0.00 0.00 4.45
3091 5489 3.614092 ACCACTCATATTGCTCAACCAG 58.386 45.455 0.00 0.00 0.00 4.00
3093 5491 5.391312 AAAACCACTCATATTGCTCAACC 57.609 39.130 0.00 0.00 0.00 3.77
3113 5511 7.652909 CCACTCATATTGCTTGTCTTTCAAAAA 59.347 33.333 0.00 0.00 35.48 1.94
3115 5513 6.680810 CCACTCATATTGCTTGTCTTTCAAA 58.319 36.000 0.00 0.00 35.48 2.69
3118 5516 4.666237 GCCACTCATATTGCTTGTCTTTC 58.334 43.478 0.00 0.00 0.00 2.62
3119 5517 3.127548 CGCCACTCATATTGCTTGTCTTT 59.872 43.478 0.00 0.00 0.00 2.52
3120 5518 2.679837 CGCCACTCATATTGCTTGTCTT 59.320 45.455 0.00 0.00 0.00 3.01
3122 5520 1.331756 CCGCCACTCATATTGCTTGTC 59.668 52.381 0.00 0.00 0.00 3.18
3124 5522 0.664761 CCCGCCACTCATATTGCTTG 59.335 55.000 0.00 0.00 0.00 4.01
3126 5524 1.070758 CTACCCGCCACTCATATTGCT 59.929 52.381 0.00 0.00 0.00 3.91
3127 5525 1.202651 ACTACCCGCCACTCATATTGC 60.203 52.381 0.00 0.00 0.00 3.56
3128 5526 2.910688 ACTACCCGCCACTCATATTG 57.089 50.000 0.00 0.00 0.00 1.90
3129 5527 4.162698 TGTTTACTACCCGCCACTCATATT 59.837 41.667 0.00 0.00 0.00 1.28
3132 5530 1.903860 TGTTTACTACCCGCCACTCAT 59.096 47.619 0.00 0.00 0.00 2.90
3134 5532 2.460757 TTGTTTACTACCCGCCACTC 57.539 50.000 0.00 0.00 0.00 3.51
3135 5533 2.880268 GTTTTGTTTACTACCCGCCACT 59.120 45.455 0.00 0.00 0.00 4.00
3136 5534 2.349722 CGTTTTGTTTACTACCCGCCAC 60.350 50.000 0.00 0.00 0.00 5.01
3137 5535 1.872313 CGTTTTGTTTACTACCCGCCA 59.128 47.619 0.00 0.00 0.00 5.69
3138 5536 2.142319 TCGTTTTGTTTACTACCCGCC 58.858 47.619 0.00 0.00 0.00 6.13
3139 5537 4.153256 CAATCGTTTTGTTTACTACCCGC 58.847 43.478 0.00 0.00 0.00 6.13
3140 5538 5.347012 ACAATCGTTTTGTTTACTACCCG 57.653 39.130 1.50 0.00 0.00 5.28
3141 5539 8.558700 TCTTTACAATCGTTTTGTTTACTACCC 58.441 33.333 10.80 0.00 34.11 3.69
3142 5540 9.590088 CTCTTTACAATCGTTTTGTTTACTACC 57.410 33.333 10.80 0.00 34.11 3.18
3145 5543 8.068380 GCTCTCTTTACAATCGTTTTGTTTACT 58.932 33.333 10.80 0.00 34.11 2.24
3146 5544 7.853929 TGCTCTCTTTACAATCGTTTTGTTTAC 59.146 33.333 10.80 0.00 34.11 2.01
3147 5545 7.921787 TGCTCTCTTTACAATCGTTTTGTTTA 58.078 30.769 10.80 0.20 34.11 2.01
3148 5546 6.791303 TGCTCTCTTTACAATCGTTTTGTTT 58.209 32.000 10.80 0.00 34.11 2.83
3149 5547 6.371809 TGCTCTCTTTACAATCGTTTTGTT 57.628 33.333 10.80 0.00 34.11 2.83
3150 5548 6.199393 GTTGCTCTCTTTACAATCGTTTTGT 58.801 36.000 10.46 10.46 36.49 2.83
3151 5549 5.336990 CGTTGCTCTCTTTACAATCGTTTTG 59.663 40.000 0.00 0.36 0.00 2.44
3152 5550 5.440685 CGTTGCTCTCTTTACAATCGTTTT 58.559 37.500 0.00 0.00 0.00 2.43
3153 5551 4.610680 GCGTTGCTCTCTTTACAATCGTTT 60.611 41.667 0.00 0.00 0.00 3.60
3154 5552 3.120649 GCGTTGCTCTCTTTACAATCGTT 60.121 43.478 0.00 0.00 0.00 3.85
3155 5553 2.412089 GCGTTGCTCTCTTTACAATCGT 59.588 45.455 0.00 0.00 0.00 3.73
3156 5554 2.668457 AGCGTTGCTCTCTTTACAATCG 59.332 45.455 0.00 0.00 30.62 3.34
3157 5555 3.679980 TCAGCGTTGCTCTCTTTACAATC 59.320 43.478 0.00 0.00 36.40 2.67
3158 5556 3.433615 GTCAGCGTTGCTCTCTTTACAAT 59.566 43.478 0.00 0.00 36.40 2.71
3159 5557 2.800544 GTCAGCGTTGCTCTCTTTACAA 59.199 45.455 0.00 0.00 36.40 2.41
3161 5559 2.410053 CAGTCAGCGTTGCTCTCTTTAC 59.590 50.000 0.00 0.00 36.40 2.01
3162 5560 2.035961 ACAGTCAGCGTTGCTCTCTTTA 59.964 45.455 0.00 0.00 36.40 1.85
3165 5563 0.319383 CACAGTCAGCGTTGCTCTCT 60.319 55.000 0.00 0.00 36.40 3.10
3166 5564 1.895280 GCACAGTCAGCGTTGCTCTC 61.895 60.000 0.00 0.00 36.40 3.20
3167 5565 1.958205 GCACAGTCAGCGTTGCTCT 60.958 57.895 0.00 0.00 36.40 4.09
3168 5566 1.502163 AAGCACAGTCAGCGTTGCTC 61.502 55.000 0.00 0.00 36.40 4.26
3169 5567 1.524621 AAGCACAGTCAGCGTTGCT 60.525 52.632 0.00 0.00 40.77 3.91
3170 5568 1.369689 CAAGCACAGTCAGCGTTGC 60.370 57.895 0.00 0.00 37.01 4.17
3171 5569 1.070577 GTACAAGCACAGTCAGCGTTG 60.071 52.381 0.00 0.00 37.01 4.10
3173 5571 0.600255 GGTACAAGCACAGTCAGCGT 60.600 55.000 0.00 0.00 37.01 5.07
3175 5573 0.868406 GTGGTACAAGCACAGTCAGC 59.132 55.000 4.47 0.00 45.26 4.26


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

AutoCloner maintained by Alex Coulton.