Multiple sequence alignment - TraesCS7D01G057100

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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 TraesCS7D01G057100 chr7D 100.000 3016 0 0 1314 4329 30504800 30501785 0.000000e+00 5570
1 TraesCS7D01G057100 chr7D 100.000 1159 0 0 1 1159 30506113 30504955 0.000000e+00 2141
2 TraesCS7D01G057100 chr7D 85.230 501 68 5 2697 3196 111408999 111408504 1.070000e-140 510
3 TraesCS7D01G057100 chr7D 83.399 506 72 9 2697 3196 111315206 111314707 3.950000e-125 459
4 TraesCS7D01G057100 chr7D 78.806 670 111 24 3675 4329 111279236 111278583 5.180000e-114 422
5 TraesCS7D01G057100 chr7D 85.831 367 51 1 1670 2036 40196872 40196507 5.250000e-104 388
6 TraesCS7D01G057100 chr7D 94.196 224 13 0 4106 4329 30470604 30470381 4.150000e-90 342
7 TraesCS7D01G057100 chr7D 80.306 457 67 11 87 542 30830007 30829573 1.500000e-84 324
8 TraesCS7D01G057100 chr7D 76.018 442 82 17 3902 4329 111404710 111404279 1.580000e-49 207
9 TraesCS7D01G057100 chr7D 88.095 168 20 0 2032 2199 40195897 40195730 2.640000e-47 200
10 TraesCS7D01G057100 chr7D 80.755 265 36 9 3244 3495 111400059 111399797 4.420000e-45 193
11 TraesCS7D01G057100 chr7D 80.297 269 28 12 3106 3370 111406842 111406595 3.440000e-41 180
12 TraesCS7D01G057100 chr7D 77.667 300 58 7 3994 4291 111221763 111221471 1.600000e-39 174
13 TraesCS7D01G057100 chr7D 74.783 230 26 9 3106 3335 111313802 111313605 1.670000e-09 75
14 TraesCS7D01G057100 chr4A 95.991 3018 105 4 1314 4329 698050673 698053676 0.000000e+00 4889
15 TraesCS7D01G057100 chr4A 86.879 503 50 8 2514 3007 646591410 646590915 2.280000e-152 549
16 TraesCS7D01G057100 chr4A 82.453 530 48 17 1 527 697961455 697961942 5.180000e-114 422
17 TraesCS7D01G057100 chr4A 93.173 249 8 7 911 1159 698050421 698050660 1.480000e-94 357
18 TraesCS7D01G057100 chr4A 79.592 441 77 11 3901 4329 646326127 646325688 1.960000e-78 303
19 TraesCS7D01G057100 chr4A 76.606 436 87 10 33 466 698049826 698050248 4.360000e-55 226
20 TraesCS7D01G057100 chr4A 91.241 137 11 1 1314 1449 697962548 697962684 7.390000e-43 185
21 TraesCS7D01G057100 chr7A 95.829 3021 94 20 1314 4329 31078252 31075259 0.000000e+00 4852
22 TraesCS7D01G057100 chr7A 94.843 543 26 2 1 542 31079225 31078684 0.000000e+00 846
23 TraesCS7D01G057100 chr7A 83.075 969 127 17 1674 2634 40100762 40099823 0.000000e+00 846
24 TraesCS7D01G057100 chr7A 82.573 723 82 23 2927 3609 40099806 40099088 8.010000e-167 597
25 TraesCS7D01G057100 chr7A 90.465 430 19 6 745 1159 31078687 31078265 8.180000e-152 547
26 TraesCS7D01G057100 chr7A 86.057 459 60 3 2697 3154 116594739 116594284 1.400000e-134 490
27 TraesCS7D01G057100 chr7A 92.195 205 16 0 541 745 83025308 83025512 1.520000e-74 291
28 TraesCS7D01G057100 chr1D 84.770 893 87 25 2038 2919 491981338 491982192 0.000000e+00 850
29 TraesCS7D01G057100 chr1D 84.722 216 32 1 3066 3281 491982201 491982415 9.430000e-52 215
30 TraesCS7D01G057100 chr7B 85.696 776 95 9 2019 2785 71064183 71063415 0.000000e+00 804
31 TraesCS7D01G057100 chr7B 80.515 544 81 14 2269 2810 71136832 71136312 1.130000e-105 394
32 TraesCS7D01G057100 chr7B 84.810 316 43 4 2875 3190 71063410 71063100 3.250000e-81 313
33 TraesCS7D01G057100 chr7B 91.429 210 17 1 537 745 518916810 518917019 1.970000e-73 287
34 TraesCS7D01G057100 chr7B 85.484 186 22 5 4147 4329 70872229 70872046 5.710000e-44 189
35 TraesCS7D01G057100 chr7B 79.851 268 33 15 3248 3495 70866491 70866225 4.450000e-40 176
36 TraesCS7D01G057100 chr1B 83.763 776 74 16 2038 2801 684787044 684787779 0.000000e+00 688
37 TraesCS7D01G057100 chr5B 91.866 209 17 0 537 745 669220566 669220358 4.230000e-75 292
38 TraesCS7D01G057100 chr5B 91.388 209 17 1 537 745 508712093 508712300 7.090000e-73 285
39 TraesCS7D01G057100 chr5D 93.782 193 11 1 545 737 424891443 424891634 5.480000e-74 289
40 TraesCS7D01G057100 chr5A 91.388 209 18 0 537 745 277328860 277328652 1.970000e-73 287
41 TraesCS7D01G057100 chr2B 89.778 225 22 1 540 764 534099449 534099672 1.970000e-73 287
42 TraesCS7D01G057100 chr2A 90.909 209 17 2 538 746 763297867 763298073 3.300000e-71 279
43 TraesCS7D01G057100 chr4B 90.385 208 20 0 539 746 584967878 584968085 1.530000e-69 274


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 TraesCS7D01G057100 chr7D 30501785 30506113 4328 True 3855.500000 5570 100.000000 1 4329 2 chr7D.!!$R6 4328
1 TraesCS7D01G057100 chr7D 111278583 111279236 653 True 422.000000 422 78.806000 3675 4329 1 chr7D.!!$R4 654
2 TraesCS7D01G057100 chr7D 111404279 111408999 4720 True 299.000000 510 80.515000 2697 4329 3 chr7D.!!$R9 1632
3 TraesCS7D01G057100 chr7D 40195730 40196872 1142 True 294.000000 388 86.963000 1670 2199 2 chr7D.!!$R7 529
4 TraesCS7D01G057100 chr7D 111313605 111315206 1601 True 267.000000 459 79.091000 2697 3335 2 chr7D.!!$R8 638
5 TraesCS7D01G057100 chr4A 698049826 698053676 3850 False 1824.000000 4889 88.590000 33 4329 3 chr4A.!!$F2 4296
6 TraesCS7D01G057100 chr4A 697961455 697962684 1229 False 303.500000 422 86.847000 1 1449 2 chr4A.!!$F1 1448
7 TraesCS7D01G057100 chr7A 31075259 31079225 3966 True 2081.666667 4852 93.712333 1 4329 3 chr7A.!!$R2 4328
8 TraesCS7D01G057100 chr7A 40099088 40100762 1674 True 721.500000 846 82.824000 1674 3609 2 chr7A.!!$R3 1935
9 TraesCS7D01G057100 chr1D 491981338 491982415 1077 False 532.500000 850 84.746000 2038 3281 2 chr1D.!!$F1 1243
10 TraesCS7D01G057100 chr7B 71063100 71064183 1083 True 558.500000 804 85.253000 2019 3190 2 chr7B.!!$R4 1171
11 TraesCS7D01G057100 chr7B 71136312 71136832 520 True 394.000000 394 80.515000 2269 2810 1 chr7B.!!$R3 541
12 TraesCS7D01G057100 chr1B 684787044 684787779 735 False 688.000000 688 83.763000 2038 2801 1 chr1B.!!$F1 763

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
678 838 0.033504 GAGGTGTGCTCGTCCAGAAA 59.966 55.0 3.39 0.0 0.00 2.52 F
682 842 0.179234 TGTGCTCGTCCAGAAACCAA 59.821 50.0 0.00 0.0 0.00 3.67 F
881 1060 0.250989 GACACCGAACATTTGGGGGA 60.251 55.0 5.12 0.0 39.62 4.81 F
946 1145 0.321671 TTAGCTGCCCTGTGACTGTC 59.678 55.0 0.00 0.0 0.00 3.51 F
2614 3486 1.115467 ACGAGGACTATGGGCTTGAG 58.885 55.0 0.00 0.0 0.00 3.02 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2596 3468 0.249657 GCTCAAGCCCATAGTCCTCG 60.250 60.0 0.0 0.0 34.31 4.63 R
2614 3486 0.250640 CATAGTGCTCCATCCCAGGC 60.251 60.0 0.0 0.0 0.00 4.85 R
2705 3577 0.328258 ACACTAATGCCAGGGTCCAC 59.672 55.0 0.0 0.0 0.00 4.02 R
3319 4258 5.472137 GCCTTCAACACTTCATTACCAGTAA 59.528 40.0 0.0 0.0 0.00 2.24 R
4201 8331 0.099968 CAATTGGCAGGCAGATGTCG 59.900 55.0 0.0 0.0 0.00 4.35 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
24 25 2.396590 AGACACACGGACAACTTGTT 57.603 45.000 0.00 0.00 0.00 2.83
34 35 6.183360 ACACGGACAACTTGTTGGAAAATAAT 60.183 34.615 16.48 0.00 0.00 1.28
168 169 1.078848 ACCTCGCATGCCTGAAGAC 60.079 57.895 13.15 0.00 0.00 3.01
172 173 2.036571 CGCATGCCTGAAGACTGCA 61.037 57.895 13.15 0.00 39.68 4.41
205 206 1.280421 GACCTTCCTCTGCACCTTCAT 59.720 52.381 0.00 0.00 0.00 2.57
538 698 6.037786 TCTCTAATTGTTCCGTGAGTCATT 57.962 37.500 0.00 0.00 0.00 2.57
539 699 6.464222 TCTCTAATTGTTCCGTGAGTCATTT 58.536 36.000 0.00 0.00 0.00 2.32
540 700 7.608153 TCTCTAATTGTTCCGTGAGTCATTTA 58.392 34.615 0.00 0.00 0.00 1.40
541 701 7.759886 TCTCTAATTGTTCCGTGAGTCATTTAG 59.240 37.037 0.00 0.00 0.00 1.85
542 702 5.880054 AATTGTTCCGTGAGTCATTTAGG 57.120 39.130 0.00 0.00 0.00 2.69
543 703 4.610605 TTGTTCCGTGAGTCATTTAGGA 57.389 40.909 0.00 0.77 0.00 2.94
544 704 4.610605 TGTTCCGTGAGTCATTTAGGAA 57.389 40.909 14.33 14.33 35.64 3.36
545 705 4.963373 TGTTCCGTGAGTCATTTAGGAAA 58.037 39.130 17.82 9.92 39.16 3.13
546 706 4.753107 TGTTCCGTGAGTCATTTAGGAAAC 59.247 41.667 17.82 13.97 39.16 2.78
547 707 3.581755 TCCGTGAGTCATTTAGGAAACG 58.418 45.455 0.00 0.00 0.00 3.60
548 708 3.006110 TCCGTGAGTCATTTAGGAAACGT 59.994 43.478 0.00 0.00 0.00 3.99
549 709 3.744426 CCGTGAGTCATTTAGGAAACGTT 59.256 43.478 0.00 0.00 0.00 3.99
550 710 4.212636 CCGTGAGTCATTTAGGAAACGTTT 59.787 41.667 14.57 14.57 0.00 3.60
551 711 5.137403 CGTGAGTCATTTAGGAAACGTTTG 58.863 41.667 20.10 2.56 0.00 2.93
552 712 5.449304 GTGAGTCATTTAGGAAACGTTTGG 58.551 41.667 20.10 0.00 0.00 3.28
553 713 5.237779 GTGAGTCATTTAGGAAACGTTTGGA 59.762 40.000 20.10 0.00 0.00 3.53
554 714 6.001460 TGAGTCATTTAGGAAACGTTTGGAT 58.999 36.000 20.10 6.37 0.00 3.41
555 715 6.148811 TGAGTCATTTAGGAAACGTTTGGATC 59.851 38.462 20.10 3.41 0.00 3.36
556 716 5.414765 AGTCATTTAGGAAACGTTTGGATCC 59.585 40.000 20.10 13.53 0.00 3.36
557 717 4.703093 TCATTTAGGAAACGTTTGGATCCC 59.297 41.667 20.10 12.81 32.15 3.85
558 718 4.376225 TTTAGGAAACGTTTGGATCCCT 57.624 40.909 20.10 19.28 32.15 4.20
559 719 2.491675 AGGAAACGTTTGGATCCCTC 57.508 50.000 20.10 0.52 32.15 4.30
560 720 1.084289 GGAAACGTTTGGATCCCTCG 58.916 55.000 20.10 13.36 0.00 4.63
561 721 0.446616 GAAACGTTTGGATCCCTCGC 59.553 55.000 20.10 0.00 0.00 5.03
562 722 0.958876 AAACGTTTGGATCCCTCGCC 60.959 55.000 13.81 0.00 0.00 5.54
563 723 1.838073 AACGTTTGGATCCCTCGCCT 61.838 55.000 9.90 0.12 0.00 5.52
564 724 1.815421 CGTTTGGATCCCTCGCCTG 60.815 63.158 9.90 0.00 0.00 4.85
565 725 1.602237 GTTTGGATCCCTCGCCTGA 59.398 57.895 9.90 0.00 0.00 3.86
566 726 0.181350 GTTTGGATCCCTCGCCTGAT 59.819 55.000 9.90 0.00 0.00 2.90
567 727 0.918983 TTTGGATCCCTCGCCTGATT 59.081 50.000 9.90 0.00 0.00 2.57
568 728 0.181114 TTGGATCCCTCGCCTGATTG 59.819 55.000 9.90 0.00 0.00 2.67
569 729 1.599240 GGATCCCTCGCCTGATTGC 60.599 63.158 0.00 0.00 0.00 3.56
570 730 1.599240 GATCCCTCGCCTGATTGCC 60.599 63.158 0.00 0.00 0.00 4.52
571 731 2.049627 GATCCCTCGCCTGATTGCCT 62.050 60.000 0.00 0.00 0.00 4.75
572 732 2.049627 ATCCCTCGCCTGATTGCCTC 62.050 60.000 0.00 0.00 0.00 4.70
573 733 2.587194 CCTCGCCTGATTGCCTCG 60.587 66.667 0.00 0.00 0.00 4.63
574 734 3.267860 CTCGCCTGATTGCCTCGC 61.268 66.667 0.00 0.00 0.00 5.03
575 735 3.729965 CTCGCCTGATTGCCTCGCT 62.730 63.158 0.00 0.00 0.00 4.93
576 736 2.106938 CGCCTGATTGCCTCGCTA 59.893 61.111 0.00 0.00 0.00 4.26
577 737 1.953138 CGCCTGATTGCCTCGCTAG 60.953 63.158 0.00 0.00 0.00 3.42
578 738 1.596477 GCCTGATTGCCTCGCTAGG 60.596 63.158 0.00 0.00 46.76 3.02
611 771 4.697756 CCACGGAGGCGAGCCAAA 62.698 66.667 17.18 0.00 38.92 3.28
612 772 2.436646 CACGGAGGCGAGCCAAAT 60.437 61.111 17.18 0.00 38.92 2.32
613 773 2.125106 ACGGAGGCGAGCCAAATC 60.125 61.111 17.18 5.12 38.92 2.17
614 774 3.264897 CGGAGGCGAGCCAAATCG 61.265 66.667 17.18 9.92 45.48 3.34
615 775 2.897350 GGAGGCGAGCCAAATCGG 60.897 66.667 17.18 0.00 42.94 4.18
624 784 3.929948 CCAAATCGGCTCGCTCGC 61.930 66.667 0.00 0.00 0.00 5.03
625 785 2.887568 CAAATCGGCTCGCTCGCT 60.888 61.111 0.00 0.00 0.00 4.93
626 786 2.583593 AAATCGGCTCGCTCGCTC 60.584 61.111 0.00 0.00 0.00 5.03
627 787 3.356639 AAATCGGCTCGCTCGCTCA 62.357 57.895 0.00 0.00 0.00 4.26
628 788 2.835701 AAATCGGCTCGCTCGCTCAA 62.836 55.000 0.00 0.00 0.00 3.02
629 789 2.835701 AATCGGCTCGCTCGCTCAAA 62.836 55.000 0.00 0.00 0.00 2.69
630 790 3.843240 CGGCTCGCTCGCTCAAAC 61.843 66.667 0.00 0.00 0.00 2.93
631 791 3.843240 GGCTCGCTCGCTCAAACG 61.843 66.667 0.00 0.00 0.00 3.60
632 792 4.491328 GCTCGCTCGCTCAAACGC 62.491 66.667 0.00 0.00 0.00 4.84
641 801 2.701120 GCTCAAACGCGAGAAAAGC 58.299 52.632 15.93 11.28 34.79 3.51
642 802 0.235926 GCTCAAACGCGAGAAAAGCT 59.764 50.000 15.93 0.00 34.79 3.74
643 803 1.942585 CTCAAACGCGAGAAAAGCTG 58.057 50.000 15.93 0.00 34.79 4.24
644 804 0.586319 TCAAACGCGAGAAAAGCTGG 59.414 50.000 15.93 0.00 0.00 4.85
645 805 0.586319 CAAACGCGAGAAAAGCTGGA 59.414 50.000 15.93 0.00 0.00 3.86
646 806 1.002900 CAAACGCGAGAAAAGCTGGAA 60.003 47.619 15.93 0.00 0.00 3.53
647 807 1.305201 AACGCGAGAAAAGCTGGAAA 58.695 45.000 15.93 0.00 0.00 3.13
648 808 0.586802 ACGCGAGAAAAGCTGGAAAC 59.413 50.000 15.93 0.00 0.00 2.78
649 809 0.868406 CGCGAGAAAAGCTGGAAACT 59.132 50.000 0.00 0.00 0.00 2.66
650 810 1.398960 CGCGAGAAAAGCTGGAAACTG 60.399 52.381 0.00 0.00 0.00 3.16
662 822 2.932614 CTGGAAACTGCTGATAACGAGG 59.067 50.000 0.00 0.00 0.00 4.63
663 823 2.301870 TGGAAACTGCTGATAACGAGGT 59.698 45.455 0.00 0.00 0.00 3.85
664 824 2.673368 GGAAACTGCTGATAACGAGGTG 59.327 50.000 0.00 0.00 0.00 4.00
665 825 3.326747 GAAACTGCTGATAACGAGGTGT 58.673 45.455 0.00 0.00 0.00 4.16
666 826 2.370281 ACTGCTGATAACGAGGTGTG 57.630 50.000 0.00 0.00 0.00 3.82
667 827 1.002366 CTGCTGATAACGAGGTGTGC 58.998 55.000 0.00 0.00 0.00 4.57
668 828 0.608130 TGCTGATAACGAGGTGTGCT 59.392 50.000 0.00 0.00 0.00 4.40
669 829 1.281899 GCTGATAACGAGGTGTGCTC 58.718 55.000 0.00 0.00 0.00 4.26
675 835 2.126307 CGAGGTGTGCTCGTCCAG 60.126 66.667 0.00 0.00 39.25 3.86
676 836 2.626780 CGAGGTGTGCTCGTCCAGA 61.627 63.158 0.00 0.00 39.25 3.86
677 837 1.666011 GAGGTGTGCTCGTCCAGAA 59.334 57.895 3.39 0.00 0.00 3.02
678 838 0.033504 GAGGTGTGCTCGTCCAGAAA 59.966 55.000 3.39 0.00 0.00 2.52
679 839 0.249911 AGGTGTGCTCGTCCAGAAAC 60.250 55.000 3.39 0.00 0.00 2.78
680 840 1.228657 GGTGTGCTCGTCCAGAAACC 61.229 60.000 0.00 0.00 0.00 3.27
681 841 0.531974 GTGTGCTCGTCCAGAAACCA 60.532 55.000 0.00 0.00 0.00 3.67
682 842 0.179234 TGTGCTCGTCCAGAAACCAA 59.821 50.000 0.00 0.00 0.00 3.67
683 843 1.305201 GTGCTCGTCCAGAAACCAAA 58.695 50.000 0.00 0.00 0.00 3.28
684 844 1.880027 GTGCTCGTCCAGAAACCAAAT 59.120 47.619 0.00 0.00 0.00 2.32
685 845 1.879380 TGCTCGTCCAGAAACCAAATG 59.121 47.619 0.00 0.00 0.00 2.32
686 846 1.401539 GCTCGTCCAGAAACCAAATGC 60.402 52.381 0.00 0.00 0.00 3.56
687 847 2.154462 CTCGTCCAGAAACCAAATGCT 58.846 47.619 0.00 0.00 0.00 3.79
688 848 2.554032 CTCGTCCAGAAACCAAATGCTT 59.446 45.455 0.00 0.00 0.00 3.91
689 849 2.552315 TCGTCCAGAAACCAAATGCTTC 59.448 45.455 0.00 0.00 0.00 3.86
690 850 2.665519 CGTCCAGAAACCAAATGCTTCG 60.666 50.000 0.00 0.00 0.00 3.79
691 851 1.269448 TCCAGAAACCAAATGCTTCGC 59.731 47.619 0.00 0.00 0.00 4.70
692 852 1.669795 CCAGAAACCAAATGCTTCGCC 60.670 52.381 0.00 0.00 0.00 5.54
693 853 1.270550 CAGAAACCAAATGCTTCGCCT 59.729 47.619 0.00 0.00 0.00 5.52
694 854 1.270550 AGAAACCAAATGCTTCGCCTG 59.729 47.619 0.00 0.00 0.00 4.85
695 855 0.319813 AAACCAAATGCTTCGCCTGC 60.320 50.000 0.00 0.00 0.00 4.85
696 856 1.181098 AACCAAATGCTTCGCCTGCT 61.181 50.000 0.00 0.00 0.00 4.24
697 857 1.181098 ACCAAATGCTTCGCCTGCTT 61.181 50.000 0.00 0.00 0.00 3.91
698 858 0.734942 CCAAATGCTTCGCCTGCTTG 60.735 55.000 0.00 0.00 0.00 4.01
699 859 1.080298 AAATGCTTCGCCTGCTTGC 60.080 52.632 0.00 0.00 0.00 4.01
700 860 1.530013 AAATGCTTCGCCTGCTTGCT 61.530 50.000 0.00 0.00 0.00 3.91
701 861 2.209064 AATGCTTCGCCTGCTTGCTG 62.209 55.000 0.00 0.00 0.00 4.41
702 862 4.112341 GCTTCGCCTGCTTGCTGG 62.112 66.667 13.17 13.17 0.00 4.85
703 863 3.437795 CTTCGCCTGCTTGCTGGG 61.438 66.667 17.89 9.88 0.00 4.45
704 864 4.269523 TTCGCCTGCTTGCTGGGT 62.270 61.111 17.89 0.00 0.00 4.51
705 865 4.704833 TCGCCTGCTTGCTGGGTC 62.705 66.667 17.89 3.98 0.00 4.46
707 867 3.060615 GCCTGCTTGCTGGGTCAG 61.061 66.667 17.89 0.00 34.12 3.51
708 868 2.360852 CCTGCTTGCTGGGTCAGG 60.361 66.667 10.18 0.00 39.95 3.86
709 869 3.060615 CTGCTTGCTGGGTCAGGC 61.061 66.667 0.00 0.00 39.22 4.85
710 870 3.564345 CTGCTTGCTGGGTCAGGCT 62.564 63.158 0.00 0.00 39.45 4.58
711 871 2.189191 CTGCTTGCTGGGTCAGGCTA 62.189 60.000 0.00 0.00 39.45 3.93
712 872 1.451028 GCTTGCTGGGTCAGGCTAG 60.451 63.158 0.00 0.00 36.32 3.42
713 873 1.222936 CTTGCTGGGTCAGGCTAGG 59.777 63.158 0.00 0.00 31.21 3.02
714 874 2.883267 CTTGCTGGGTCAGGCTAGGC 62.883 65.000 8.55 8.55 31.21 3.93
715 875 4.537433 GCTGGGTCAGGCTAGGCG 62.537 72.222 11.10 6.24 31.21 5.52
716 876 2.759973 CTGGGTCAGGCTAGGCGA 60.760 66.667 11.10 8.59 0.00 5.54
717 877 2.759973 TGGGTCAGGCTAGGCGAG 60.760 66.667 11.10 8.02 0.00 5.03
731 891 2.202851 CGAGCGCTTGCCTGAGAT 60.203 61.111 13.26 0.00 40.41 2.75
732 892 2.236382 CGAGCGCTTGCCTGAGATC 61.236 63.158 13.26 0.00 40.41 2.75
733 893 1.886777 GAGCGCTTGCCTGAGATCC 60.887 63.158 13.26 0.00 40.41 3.36
734 894 2.124983 GCGCTTGCCTGAGATCCA 60.125 61.111 0.00 0.00 0.00 3.41
735 895 1.746615 GCGCTTGCCTGAGATCCAA 60.747 57.895 0.00 0.00 0.00 3.53
736 896 1.308069 GCGCTTGCCTGAGATCCAAA 61.308 55.000 0.00 0.00 0.00 3.28
737 897 1.386533 CGCTTGCCTGAGATCCAAAT 58.613 50.000 0.00 0.00 0.00 2.32
738 898 1.065102 CGCTTGCCTGAGATCCAAATG 59.935 52.381 0.00 0.00 0.00 2.32
739 899 2.097825 GCTTGCCTGAGATCCAAATGT 58.902 47.619 0.00 0.00 0.00 2.71
740 900 2.494870 GCTTGCCTGAGATCCAAATGTT 59.505 45.455 0.00 0.00 0.00 2.71
741 901 3.428589 GCTTGCCTGAGATCCAAATGTTC 60.429 47.826 0.00 0.00 0.00 3.18
742 902 2.726821 TGCCTGAGATCCAAATGTTCC 58.273 47.619 0.00 0.00 0.00 3.62
743 903 2.027385 GCCTGAGATCCAAATGTTCCC 58.973 52.381 0.00 0.00 0.00 3.97
775 946 9.961264 TTCACCACCACAATTTATATACTACAA 57.039 29.630 0.00 0.00 0.00 2.41
876 1055 3.236816 GCATTGAGACACCGAACATTTG 58.763 45.455 0.00 0.00 0.00 2.32
877 1056 3.825308 CATTGAGACACCGAACATTTGG 58.175 45.455 0.00 0.00 37.75 3.28
878 1057 1.890876 TGAGACACCGAACATTTGGG 58.109 50.000 2.92 0.00 35.94 4.12
879 1058 1.165270 GAGACACCGAACATTTGGGG 58.835 55.000 0.00 0.00 41.20 4.96
880 1059 0.251165 AGACACCGAACATTTGGGGG 60.251 55.000 5.12 0.00 39.62 5.40
881 1060 0.250989 GACACCGAACATTTGGGGGA 60.251 55.000 5.12 0.00 39.62 4.81
883 1062 1.333177 CACCGAACATTTGGGGGAAA 58.667 50.000 2.92 0.00 33.09 3.13
884 1063 1.000394 CACCGAACATTTGGGGGAAAC 60.000 52.381 2.92 0.00 33.09 2.78
920 1119 4.181578 CGGAATAACTTGGAGATTCGTGT 58.818 43.478 0.00 0.00 31.57 4.49
946 1145 0.321671 TTAGCTGCCCTGTGACTGTC 59.678 55.000 0.00 0.00 0.00 3.51
956 1155 2.224378 CCTGTGACTGTCAGGTTGTGAT 60.224 50.000 11.41 0.00 45.09 3.06
970 1169 4.723789 AGGTTGTGATGGGATAACTCTGAT 59.276 41.667 0.00 0.00 0.00 2.90
1591 1791 3.453070 GATGCAGGAGGAGGACGGC 62.453 68.421 0.00 0.00 0.00 5.68
1621 1821 1.179814 ACTCCGTCACTCTGGTGTCC 61.180 60.000 0.00 0.00 43.41 4.02
1768 1968 4.660938 GGGGCGGTTGAGGTTGCT 62.661 66.667 0.00 0.00 0.00 3.91
1840 2040 3.435457 CCATGATCAAGGGGTATGCTGAA 60.435 47.826 9.20 0.00 0.00 3.02
1918 2118 4.736126 TGATGTGACGGATGTATCTGTT 57.264 40.909 7.70 0.00 45.91 3.16
2029 2229 2.408271 ATGTGTCGGTGATGAATGCT 57.592 45.000 0.00 0.00 0.00 3.79
2389 3259 8.679100 GTCAGTATAGCTAGAAGTCTCTTCAAA 58.321 37.037 11.27 0.00 32.70 2.69
2401 3271 4.074970 GTCTCTTCAAATCAGCAAGGGAA 58.925 43.478 0.00 0.00 28.26 3.97
2536 3408 3.581332 AGACAACATTCCTTTCGGTCCTA 59.419 43.478 0.00 0.00 0.00 2.94
2596 3468 5.052370 GCGGAAATATTTTTCGAGCATGAAC 60.052 40.000 21.16 4.96 41.84 3.18
2614 3486 1.115467 ACGAGGACTATGGGCTTGAG 58.885 55.000 0.00 0.00 0.00 3.02
3319 4258 4.843728 ACGGTAAATGTTCATGTGGAGAT 58.156 39.130 0.00 0.00 0.00 2.75
3328 4267 6.367374 TGTTCATGTGGAGATTACTGGTAA 57.633 37.500 0.00 0.00 0.00 2.85
3679 6366 5.860941 TCTCAGGGAACATTCTGTAGATC 57.139 43.478 0.00 0.00 33.13 2.75
3792 6501 8.421002 ACCACAGAAAACACTGCTATTTTATTT 58.579 29.630 0.00 0.00 41.06 1.40
3937 8047 8.454106 CCTGTAATGAAAATCAAGGACTGTAAG 58.546 37.037 0.00 0.00 42.29 2.34
3961 8089 7.875971 AGAACATTCTGTCTTTTATTCACCAC 58.124 34.615 0.00 0.00 35.89 4.16
3997 8125 8.620416 GCATTATCCCAAAATCCCATTAAAAAC 58.380 33.333 0.00 0.00 0.00 2.43
4016 8144 4.556942 AACGGATTGACATATGCATGTG 57.443 40.909 20.59 20.59 45.58 3.21
4090 8218 5.562298 ACTTTGAAGCTAAGGGTCACTTA 57.438 39.130 0.00 0.00 40.64 2.24
4155 8283 2.700783 TCCTGCTCCATGGACATGT 58.299 52.632 11.44 0.00 37.11 3.21
4201 8331 4.829064 TGAACTTTGTGCTAATGGTGTC 57.171 40.909 0.00 0.00 0.00 3.67
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
6 7 1.063469 CCAACAAGTTGTCCGTGTGTC 59.937 52.381 9.40 0.00 38.85 3.67
60 61 2.735126 CGCACACTTTTCCTTTGCAAGT 60.735 45.455 0.00 0.00 32.51 3.16
96 97 1.822990 ACATCAATGAGGCCAAGCAAG 59.177 47.619 5.01 0.00 0.00 4.01
172 173 1.818674 GGAAGGTCGGAACATGCAAAT 59.181 47.619 0.00 0.00 0.00 2.32
180 181 0.670854 GTGCAGAGGAAGGTCGGAAC 60.671 60.000 0.00 0.00 0.00 3.62
205 206 2.158971 GGGCAAAGCTTGAGGTGAAAAA 60.159 45.455 0.00 0.00 0.00 1.94
338 341 5.337169 GGCCCAAACTTATGCTTGTCATTTA 60.337 40.000 0.00 0.00 36.63 1.40
495 499 0.321298 ACCCCTTTGACCGATGTTCG 60.321 55.000 0.00 0.00 40.07 3.95
538 698 3.618019 CGAGGGATCCAAACGTTTCCTAA 60.618 47.826 15.23 1.77 0.00 2.69
539 699 2.093869 CGAGGGATCCAAACGTTTCCTA 60.094 50.000 15.23 4.00 0.00 2.94
540 700 1.338769 CGAGGGATCCAAACGTTTCCT 60.339 52.381 15.23 15.82 0.00 3.36
541 701 1.084289 CGAGGGATCCAAACGTTTCC 58.916 55.000 15.23 9.45 0.00 3.13
542 702 0.446616 GCGAGGGATCCAAACGTTTC 59.553 55.000 15.23 0.00 0.00 2.78
543 703 0.958876 GGCGAGGGATCCAAACGTTT 60.959 55.000 15.23 7.96 0.00 3.60
544 704 1.376812 GGCGAGGGATCCAAACGTT 60.377 57.895 15.23 0.00 0.00 3.99
545 705 2.267961 GGCGAGGGATCCAAACGT 59.732 61.111 15.23 0.00 0.00 3.99
546 706 1.815421 CAGGCGAGGGATCCAAACG 60.815 63.158 15.23 15.92 0.00 3.60
547 707 0.181350 ATCAGGCGAGGGATCCAAAC 59.819 55.000 15.23 3.03 0.00 2.93
548 708 0.918983 AATCAGGCGAGGGATCCAAA 59.081 50.000 15.23 0.00 0.00 3.28
549 709 0.181114 CAATCAGGCGAGGGATCCAA 59.819 55.000 15.23 0.00 0.00 3.53
550 710 1.832219 CAATCAGGCGAGGGATCCA 59.168 57.895 15.23 0.00 0.00 3.41
551 711 1.599240 GCAATCAGGCGAGGGATCC 60.599 63.158 1.92 1.92 0.00 3.36
552 712 1.599240 GGCAATCAGGCGAGGGATC 60.599 63.158 0.00 0.00 33.57 3.36
553 713 2.512896 GGCAATCAGGCGAGGGAT 59.487 61.111 0.00 0.00 33.57 3.85
560 720 1.596477 CCTAGCGAGGCAATCAGGC 60.596 63.158 0.00 0.00 44.61 4.85
561 721 4.766970 CCTAGCGAGGCAATCAGG 57.233 61.111 0.00 0.00 35.54 3.86
594 754 3.976701 ATTTGGCTCGCCTCCGTGG 62.977 63.158 9.65 0.00 36.94 4.94
595 755 2.436646 ATTTGGCTCGCCTCCGTG 60.437 61.111 9.65 0.00 36.94 4.94
596 756 2.125106 GATTTGGCTCGCCTCCGT 60.125 61.111 9.65 0.00 36.94 4.69
597 757 3.264897 CGATTTGGCTCGCCTCCG 61.265 66.667 9.65 3.87 36.94 4.63
598 758 2.897350 CCGATTTGGCTCGCCTCC 60.897 66.667 9.65 0.00 37.33 4.30
607 767 3.929948 GCGAGCGAGCCGATTTGG 61.930 66.667 9.45 0.00 42.50 3.28
608 768 2.864931 GAGCGAGCGAGCCGATTTG 61.865 63.158 9.45 0.00 38.01 2.32
609 769 2.583593 GAGCGAGCGAGCCGATTT 60.584 61.111 9.45 0.00 38.01 2.17
610 770 2.835701 TTTGAGCGAGCGAGCCGATT 62.836 55.000 9.45 0.00 38.01 3.34
611 771 3.356639 TTTGAGCGAGCGAGCCGAT 62.357 57.895 9.45 3.75 38.01 4.18
612 772 4.050934 TTTGAGCGAGCGAGCCGA 62.051 61.111 9.45 0.00 38.01 5.54
613 773 3.843240 GTTTGAGCGAGCGAGCCG 61.843 66.667 2.87 0.00 38.01 5.52
614 774 3.843240 CGTTTGAGCGAGCGAGCC 61.843 66.667 2.87 0.00 38.01 4.70
615 775 4.491328 GCGTTTGAGCGAGCGAGC 62.491 66.667 0.00 0.00 37.41 5.03
623 783 0.235926 AGCTTTTCTCGCGTTTGAGC 59.764 50.000 5.77 10.79 35.90 4.26
624 784 1.398960 CCAGCTTTTCTCGCGTTTGAG 60.399 52.381 5.77 0.00 37.33 3.02
625 785 0.586319 CCAGCTTTTCTCGCGTTTGA 59.414 50.000 5.77 0.00 0.00 2.69
626 786 0.586319 TCCAGCTTTTCTCGCGTTTG 59.414 50.000 5.77 0.00 0.00 2.93
627 787 1.305201 TTCCAGCTTTTCTCGCGTTT 58.695 45.000 5.77 0.00 0.00 3.60
628 788 1.002792 GTTTCCAGCTTTTCTCGCGTT 60.003 47.619 5.77 0.00 0.00 4.84
629 789 0.586802 GTTTCCAGCTTTTCTCGCGT 59.413 50.000 5.77 0.00 0.00 6.01
630 790 0.868406 AGTTTCCAGCTTTTCTCGCG 59.132 50.000 0.00 0.00 0.00 5.87
631 791 1.664302 GCAGTTTCCAGCTTTTCTCGC 60.664 52.381 0.00 0.00 0.00 5.03
632 792 1.876156 AGCAGTTTCCAGCTTTTCTCG 59.124 47.619 0.00 0.00 38.01 4.04
633 793 2.880890 TCAGCAGTTTCCAGCTTTTCTC 59.119 45.455 0.00 0.00 39.50 2.87
634 794 2.936202 TCAGCAGTTTCCAGCTTTTCT 58.064 42.857 0.00 0.00 39.50 2.52
635 795 3.930634 ATCAGCAGTTTCCAGCTTTTC 57.069 42.857 0.00 0.00 39.50 2.29
636 796 4.320494 CGTTATCAGCAGTTTCCAGCTTTT 60.320 41.667 0.00 0.00 39.50 2.27
637 797 3.189287 CGTTATCAGCAGTTTCCAGCTTT 59.811 43.478 0.00 0.00 39.50 3.51
638 798 2.744202 CGTTATCAGCAGTTTCCAGCTT 59.256 45.455 0.00 0.00 39.50 3.74
639 799 2.028112 TCGTTATCAGCAGTTTCCAGCT 60.028 45.455 0.00 0.00 42.94 4.24
640 800 2.346803 TCGTTATCAGCAGTTTCCAGC 58.653 47.619 0.00 0.00 0.00 4.85
641 801 2.932614 CCTCGTTATCAGCAGTTTCCAG 59.067 50.000 0.00 0.00 0.00 3.86
642 802 2.301870 ACCTCGTTATCAGCAGTTTCCA 59.698 45.455 0.00 0.00 0.00 3.53
643 803 2.673368 CACCTCGTTATCAGCAGTTTCC 59.327 50.000 0.00 0.00 0.00 3.13
644 804 3.123621 CACACCTCGTTATCAGCAGTTTC 59.876 47.826 0.00 0.00 0.00 2.78
645 805 3.067106 CACACCTCGTTATCAGCAGTTT 58.933 45.455 0.00 0.00 0.00 2.66
646 806 2.688507 CACACCTCGTTATCAGCAGTT 58.311 47.619 0.00 0.00 0.00 3.16
647 807 1.673033 GCACACCTCGTTATCAGCAGT 60.673 52.381 0.00 0.00 0.00 4.40
648 808 1.002366 GCACACCTCGTTATCAGCAG 58.998 55.000 0.00 0.00 0.00 4.24
649 809 0.608130 AGCACACCTCGTTATCAGCA 59.392 50.000 0.00 0.00 0.00 4.41
650 810 1.281899 GAGCACACCTCGTTATCAGC 58.718 55.000 0.00 0.00 0.00 4.26
659 819 0.033504 TTTCTGGACGAGCACACCTC 59.966 55.000 0.00 0.00 37.22 3.85
660 820 0.249911 GTTTCTGGACGAGCACACCT 60.250 55.000 0.00 0.00 0.00 4.00
661 821 1.228657 GGTTTCTGGACGAGCACACC 61.229 60.000 0.00 0.00 0.00 4.16
662 822 0.531974 TGGTTTCTGGACGAGCACAC 60.532 55.000 0.00 0.00 0.00 3.82
663 823 0.179234 TTGGTTTCTGGACGAGCACA 59.821 50.000 0.00 0.00 0.00 4.57
664 824 1.305201 TTTGGTTTCTGGACGAGCAC 58.695 50.000 0.00 0.00 0.00 4.40
665 825 1.879380 CATTTGGTTTCTGGACGAGCA 59.121 47.619 0.00 0.00 0.00 4.26
666 826 1.401539 GCATTTGGTTTCTGGACGAGC 60.402 52.381 0.00 0.00 0.00 5.03
667 827 2.154462 AGCATTTGGTTTCTGGACGAG 58.846 47.619 0.00 0.00 0.00 4.18
668 828 2.270352 AGCATTTGGTTTCTGGACGA 57.730 45.000 0.00 0.00 0.00 4.20
669 829 2.665519 CGAAGCATTTGGTTTCTGGACG 60.666 50.000 0.00 0.00 34.85 4.79
670 830 2.933769 CGAAGCATTTGGTTTCTGGAC 58.066 47.619 0.00 0.00 34.85 4.02
686 846 3.437795 CCCAGCAAGCAGGCGAAG 61.438 66.667 0.00 0.00 39.27 3.79
687 847 4.269523 ACCCAGCAAGCAGGCGAA 62.270 61.111 0.00 0.00 39.27 4.70
688 848 4.704833 GACCCAGCAAGCAGGCGA 62.705 66.667 0.00 0.00 39.27 5.54
690 850 3.060615 CTGACCCAGCAAGCAGGC 61.061 66.667 0.00 0.00 0.00 4.85
691 851 2.360852 CCTGACCCAGCAAGCAGG 60.361 66.667 0.00 0.00 41.62 4.85
692 852 2.189191 TAGCCTGACCCAGCAAGCAG 62.189 60.000 0.00 0.00 0.00 4.24
693 853 2.189191 CTAGCCTGACCCAGCAAGCA 62.189 60.000 0.00 0.00 0.00 3.91
694 854 1.451028 CTAGCCTGACCCAGCAAGC 60.451 63.158 0.00 0.00 0.00 4.01
695 855 1.222936 CCTAGCCTGACCCAGCAAG 59.777 63.158 0.00 0.00 0.00 4.01
696 856 2.971598 GCCTAGCCTGACCCAGCAA 61.972 63.158 0.00 0.00 0.00 3.91
697 857 3.402681 GCCTAGCCTGACCCAGCA 61.403 66.667 0.00 0.00 0.00 4.41
698 858 4.537433 CGCCTAGCCTGACCCAGC 62.537 72.222 0.00 0.00 0.00 4.85
699 859 2.759973 TCGCCTAGCCTGACCCAG 60.760 66.667 0.00 0.00 0.00 4.45
700 860 2.759973 CTCGCCTAGCCTGACCCA 60.760 66.667 0.00 0.00 0.00 4.51
701 861 4.228567 GCTCGCCTAGCCTGACCC 62.229 72.222 0.00 0.00 46.25 4.46
714 874 2.202851 ATCTCAGGCAAGCGCTCG 60.203 61.111 12.06 0.00 38.60 5.03
715 875 1.886777 GGATCTCAGGCAAGCGCTC 60.887 63.158 12.06 0.00 38.60 5.03
716 876 2.188994 GGATCTCAGGCAAGCGCT 59.811 61.111 2.64 2.64 38.60 5.92
717 877 1.308069 TTTGGATCTCAGGCAAGCGC 61.308 55.000 0.00 0.00 37.44 5.92
718 878 1.065102 CATTTGGATCTCAGGCAAGCG 59.935 52.381 0.00 0.00 0.00 4.68
719 879 2.097825 ACATTTGGATCTCAGGCAAGC 58.902 47.619 0.00 0.00 0.00 4.01
720 880 3.129988 GGAACATTTGGATCTCAGGCAAG 59.870 47.826 0.00 0.00 0.00 4.01
721 881 3.091545 GGAACATTTGGATCTCAGGCAA 58.908 45.455 0.00 0.00 0.00 4.52
722 882 2.621407 GGGAACATTTGGATCTCAGGCA 60.621 50.000 0.00 0.00 0.00 4.75
723 883 2.027385 GGGAACATTTGGATCTCAGGC 58.973 52.381 0.00 0.00 0.00 4.85
724 884 3.659183 AGGGAACATTTGGATCTCAGG 57.341 47.619 0.00 0.00 0.00 3.86
725 885 5.749462 ACTAAGGGAACATTTGGATCTCAG 58.251 41.667 0.00 0.00 0.00 3.35
726 886 5.779241 ACTAAGGGAACATTTGGATCTCA 57.221 39.130 0.00 0.00 0.00 3.27
727 887 6.659242 TGAAACTAAGGGAACATTTGGATCTC 59.341 38.462 0.00 0.00 0.00 2.75
728 888 6.434340 GTGAAACTAAGGGAACATTTGGATCT 59.566 38.462 0.00 0.00 0.00 2.75
729 889 6.350194 GGTGAAACTAAGGGAACATTTGGATC 60.350 42.308 0.00 0.00 36.74 3.36
730 890 5.480422 GGTGAAACTAAGGGAACATTTGGAT 59.520 40.000 0.00 0.00 36.74 3.41
731 891 4.830600 GGTGAAACTAAGGGAACATTTGGA 59.169 41.667 0.00 0.00 36.74 3.53
732 892 4.586841 TGGTGAAACTAAGGGAACATTTGG 59.413 41.667 0.00 0.00 36.74 3.28
733 893 5.508994 GGTGGTGAAACTAAGGGAACATTTG 60.509 44.000 0.00 0.00 36.74 2.32
734 894 4.587262 GGTGGTGAAACTAAGGGAACATTT 59.413 41.667 0.00 0.00 36.74 2.32
735 895 4.149598 GGTGGTGAAACTAAGGGAACATT 58.850 43.478 0.00 0.00 36.74 2.71
736 896 3.139397 TGGTGGTGAAACTAAGGGAACAT 59.861 43.478 0.00 0.00 36.74 2.71
737 897 2.510382 TGGTGGTGAAACTAAGGGAACA 59.490 45.455 0.00 0.00 36.74 3.18
738 898 2.882761 GTGGTGGTGAAACTAAGGGAAC 59.117 50.000 0.00 0.00 36.74 3.62
739 899 2.510382 TGTGGTGGTGAAACTAAGGGAA 59.490 45.455 0.00 0.00 36.74 3.97
740 900 2.128535 TGTGGTGGTGAAACTAAGGGA 58.871 47.619 0.00 0.00 36.74 4.20
741 901 2.649531 TGTGGTGGTGAAACTAAGGG 57.350 50.000 0.00 0.00 36.74 3.95
742 902 5.529581 AAATTGTGGTGGTGAAACTAAGG 57.470 39.130 0.00 0.00 36.74 2.69
775 946 1.541588 GCAGTGCGGGAGAATTTTTCT 59.458 47.619 0.00 0.00 44.21 2.52
876 1055 0.107165 CGAATCTCCAGGTTTCCCCC 60.107 60.000 0.00 0.00 0.00 5.40
877 1056 0.618981 ACGAATCTCCAGGTTTCCCC 59.381 55.000 0.00 0.00 0.00 4.81
878 1057 1.739067 CACGAATCTCCAGGTTTCCC 58.261 55.000 0.00 0.00 0.00 3.97
879 1058 1.087501 GCACGAATCTCCAGGTTTCC 58.912 55.000 0.00 0.00 0.00 3.13
880 1059 0.721718 CGCACGAATCTCCAGGTTTC 59.278 55.000 0.00 0.00 0.00 2.78
881 1060 0.673644 CCGCACGAATCTCCAGGTTT 60.674 55.000 0.00 0.00 0.00 3.27
883 1062 1.541310 TTCCGCACGAATCTCCAGGT 61.541 55.000 0.00 0.00 0.00 4.00
884 1063 0.179073 ATTCCGCACGAATCTCCAGG 60.179 55.000 0.00 0.00 36.38 4.45
885 1064 2.509052 TATTCCGCACGAATCTCCAG 57.491 50.000 0.00 0.00 40.51 3.86
886 1065 2.167693 AGTTATTCCGCACGAATCTCCA 59.832 45.455 0.00 0.00 40.51 3.86
887 1066 2.822764 AGTTATTCCGCACGAATCTCC 58.177 47.619 0.00 0.00 40.51 3.71
920 1119 1.225426 CAGGGCAGCTAAGCATCCA 59.775 57.895 0.00 0.00 35.83 3.41
946 1145 4.080919 TCAGAGTTATCCCATCACAACCTG 60.081 45.833 0.00 0.00 0.00 4.00
982 1181 2.866762 GCATGTCCGTCCTCTTGTATTC 59.133 50.000 0.00 0.00 0.00 1.75
984 1183 2.111384 AGCATGTCCGTCCTCTTGTAT 58.889 47.619 0.00 0.00 0.00 2.29
985 1184 1.204704 CAGCATGTCCGTCCTCTTGTA 59.795 52.381 0.00 0.00 0.00 2.41
986 1185 0.036952 CAGCATGTCCGTCCTCTTGT 60.037 55.000 0.00 0.00 0.00 3.16
987 1186 2.759783 CAGCATGTCCGTCCTCTTG 58.240 57.895 0.00 0.00 0.00 3.02
1612 1812 4.314440 GGCAGCACGGACACCAGA 62.314 66.667 0.00 0.00 0.00 3.86
1717 1917 1.810030 GTCAAGGATCGCCGTGGAC 60.810 63.158 0.00 0.00 42.98 4.02
1768 1968 1.860641 TCCGATCAAAGACAGCCCTA 58.139 50.000 0.00 0.00 0.00 3.53
1794 1994 2.838736 TCCAAGACACAGAGTTCTTGC 58.161 47.619 5.92 0.00 35.69 4.01
1840 2040 1.133668 GCCTCAGTAGCATCCCCATTT 60.134 52.381 0.00 0.00 0.00 2.32
2029 2229 4.081476 CACTTGGAGTACATGGTGATCAGA 60.081 45.833 0.00 0.00 36.15 3.27
2389 3259 1.272872 ACATGCCTTTCCCTTGCTGAT 60.273 47.619 0.00 0.00 0.00 2.90
2401 3271 4.202182 GCATTCCATGTGATAACATGCCTT 60.202 41.667 16.84 1.59 44.39 4.35
2596 3468 0.249657 GCTCAAGCCCATAGTCCTCG 60.250 60.000 0.00 0.00 34.31 4.63
2614 3486 0.250640 CATAGTGCTCCATCCCAGGC 60.251 60.000 0.00 0.00 0.00 4.85
2705 3577 0.328258 ACACTAATGCCAGGGTCCAC 59.672 55.000 0.00 0.00 0.00 4.02
3319 4258 5.472137 GCCTTCAACACTTCATTACCAGTAA 59.528 40.000 0.00 0.00 0.00 2.24
3328 4267 3.498774 AGACTGCCTTCAACACTTCAT 57.501 42.857 0.00 0.00 0.00 2.57
3460 6124 6.091986 ACAAAGTGTGCCACAAATAAAACTTG 59.908 34.615 0.00 0.00 36.74 3.16
3679 6366 5.656416 ACAATACCAATGTAAATGGACTGGG 59.344 40.000 0.00 0.00 40.56 4.45
3792 6501 7.107639 TGTACATCATCTAATTCCAGACGAA 57.892 36.000 0.00 0.00 34.14 3.85
3911 8021 6.824305 ACAGTCCTTGATTTTCATTACAGG 57.176 37.500 0.00 0.00 0.00 4.00
3961 8089 2.374184 TGGGATAATGCGGGAACAAAG 58.626 47.619 0.00 0.00 0.00 2.77
3997 8125 4.511082 TGTACACATGCATATGTCAATCCG 59.489 41.667 15.14 0.00 45.53 4.18
4058 8186 6.183360 CCCTTAGCTTCAAAGTACACAAAACA 60.183 38.462 0.00 0.00 0.00 2.83
4138 8266 0.253894 TGACATGTCCATGGAGCAGG 59.746 55.000 22.85 19.09 42.91 4.85
4155 8283 4.679373 AACTGAGACAAAAGAGAGCTGA 57.321 40.909 0.00 0.00 0.00 4.26
4193 8323 0.615331 AGGCAGATGTCGACACCATT 59.385 50.000 22.71 4.38 0.00 3.16
4201 8331 0.099968 CAATTGGCAGGCAGATGTCG 59.900 55.000 0.00 0.00 0.00 4.35


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

AutoCloner maintained by Alex Coulton.