Multiple sequence alignment - TraesCS2B01G097900

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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 TraesCS2B01G097900 chr2B 100.000 5035 0 0 1 5035 57782615 57777581 0.000000e+00 9299.0
1 TraesCS2B01G097900 chr2B 83.906 2678 300 72 1662 4249 57682002 57679366 0.000000e+00 2436.0
2 TraesCS2B01G097900 chr2B 86.321 636 48 17 900 1503 57682762 57682134 0.000000e+00 656.0
3 TraesCS2B01G097900 chr2A 93.872 4210 194 31 718 4909 38333008 38328845 0.000000e+00 6287.0
4 TraesCS2B01G097900 chr2A 84.436 2737 309 71 1599 4245 38324152 38321443 0.000000e+00 2586.0
5 TraesCS2B01G097900 chr2A 86.473 621 58 13 910 1507 38324936 38324319 0.000000e+00 658.0
6 TraesCS2B01G097900 chr2A 93.664 363 18 4 219 576 38333477 38333115 5.740000e-149 538.0
7 TraesCS2B01G097900 chr2A 93.519 108 7 0 127 234 38333606 38333499 1.450000e-35 161.0
8 TraesCS2B01G097900 chr2A 97.500 80 2 0 2 81 38333679 38333600 2.440000e-28 137.0
9 TraesCS2B01G097900 chr2D 92.543 2588 153 17 2333 4909 35024354 35021796 0.000000e+00 3674.0
10 TraesCS2B01G097900 chr2D 83.607 2684 289 75 1662 4249 35002605 34999977 0.000000e+00 2379.0
11 TraesCS2B01G097900 chr2D 89.004 1646 123 28 718 2327 35026014 35024391 0.000000e+00 1984.0
12 TraesCS2B01G097900 chr2D 85.692 643 53 16 900 1503 35003379 35002737 4.250000e-180 641.0
13 TraesCS2B01G097900 chr2D 88.235 476 21 16 259 719 35026495 35026040 2.060000e-148 536.0
14 TraesCS2B01G097900 chr2D 93.130 262 10 4 1 262 35026828 35026575 1.320000e-100 377.0
15 TraesCS2B01G097900 chr4A 77.231 874 151 35 1660 2507 731420097 731420948 7.630000e-128 468.0
16 TraesCS2B01G097900 chr4A 79.482 541 79 18 997 1507 731419353 731419891 6.200000e-94 355.0
17 TraesCS2B01G097900 chr4A 80.493 487 76 14 3013 3487 731421430 731421909 6.200000e-94 355.0
18 TraesCS2B01G097900 chr4A 83.654 104 17 0 1275 1378 723692785 723692682 1.150000e-16 99.0
19 TraesCS2B01G097900 chr7D 75.943 1060 170 56 1662 2671 8293968 8292944 2.750000e-127 466.0
20 TraesCS2B01G097900 chr7D 81.870 524 70 21 991 1500 8333659 8333147 7.800000e-113 418.0
21 TraesCS2B01G097900 chr7D 81.481 486 74 12 3013 3487 8292658 8292178 7.910000e-103 385.0
22 TraesCS2B01G097900 chr7D 77.340 203 34 7 3830 4020 8291818 8291616 5.330000e-20 110.0
23 TraesCS2B01G097900 chr7D 82.857 105 18 0 1275 1379 13454224 13454328 1.490000e-15 95.3
24 TraesCS2B01G097900 chr7A 75.720 972 173 46 1730 2672 8751531 8750594 3.600000e-116 429.0
25 TraesCS2B01G097900 chr7A 81.263 491 71 16 3013 3487 8750305 8749820 1.320000e-100 377.0
26 TraesCS2B01G097900 chr7A 80.113 533 77 11 993 1500 8762942 8762414 2.210000e-98 370.0
27 TraesCS2B01G097900 chr6D 74.542 1037 184 56 1659 2675 396841937 396840961 3.680000e-101 379.0
28 TraesCS2B01G097900 chr6D 94.853 136 6 1 4901 5035 298614727 298614592 1.420000e-50 211.0
29 TraesCS2B01G097900 chr6D 89.437 142 12 2 991 1129 396845859 396845718 5.180000e-40 176.0
30 TraesCS2B01G097900 chr6D 78.995 219 32 9 3826 4031 396839688 396839471 2.440000e-28 137.0
31 TraesCS2B01G097900 chr6D 96.078 51 2 0 2818 2868 396840828 396840778 3.230000e-12 84.2
32 TraesCS2B01G097900 chr6A 74.153 1033 186 52 1662 2675 543208490 543207520 2.230000e-93 353.0
33 TraesCS2B01G097900 chr6A 87.500 248 28 3 3029 3275 543207136 543206891 2.970000e-72 283.0
34 TraesCS2B01G097900 chr6A 78.605 215 32 9 3830 4031 543206238 543206025 4.090000e-26 130.0
35 TraesCS2B01G097900 chr6A 96.078 51 2 0 2818 2868 543207387 543207337 3.230000e-12 84.2
36 TraesCS2B01G097900 chr6B 73.643 1032 192 51 1662 2675 593356569 593355600 4.860000e-85 326.0
37 TraesCS2B01G097900 chr6B 77.652 528 84 22 991 1503 593358839 593358331 1.770000e-74 291.0
38 TraesCS2B01G097900 chr6B 96.970 132 2 2 4906 5035 637049816 637049685 2.360000e-53 220.0
39 TraesCS2B01G097900 chr6B 93.056 144 6 4 4894 5034 558282091 558282233 1.840000e-49 207.0
40 TraesCS2B01G097900 chr6B 88.732 142 13 3 4413 4552 452412488 452412628 2.410000e-38 171.0
41 TraesCS2B01G097900 chr6B 90.083 121 11 1 4413 4532 213534881 213535001 6.750000e-34 156.0
42 TraesCS2B01G097900 chr6B 90.083 121 11 1 4413 4532 452417251 452417371 6.750000e-34 156.0
43 TraesCS2B01G097900 chr6B 77.056 231 37 13 3830 4045 593354331 593354102 8.860000e-23 119.0
44 TraesCS2B01G097900 chr6B 92.188 64 4 1 580 643 566341297 566341359 6.940000e-14 89.8
45 TraesCS2B01G097900 chr6B 96.970 33 0 1 610 642 664828244 664828213 3.000000e-03 54.7
46 TraesCS2B01G097900 chr3D 95.588 136 4 2 4902 5035 49453745 49453880 3.050000e-52 217.0
47 TraesCS2B01G097900 chr3D 96.923 130 2 2 4906 5033 460387568 460387697 3.050000e-52 217.0
48 TraesCS2B01G097900 chr3D 96.212 132 3 2 4906 5035 50502514 50502645 1.100000e-51 215.0
49 TraesCS2B01G097900 chr3D 96.212 132 4 1 4905 5035 312896741 312896872 1.100000e-51 215.0
50 TraesCS2B01G097900 chr3D 87.218 133 15 2 4413 4544 230849195 230849064 3.140000e-32 150.0
51 TraesCS2B01G097900 chr3D 90.476 42 4 0 4865 4906 613435637 613435678 7.040000e-04 56.5
52 TraesCS2B01G097900 chr1B 96.212 132 3 2 4906 5035 630841054 630841185 1.100000e-51 215.0
53 TraesCS2B01G097900 chr1B 90.076 131 10 2 4412 4539 221526389 221526259 3.120000e-37 167.0
54 TraesCS2B01G097900 chr1B 88.806 134 14 1 4413 4545 173421918 173421785 4.030000e-36 163.0
55 TraesCS2B01G097900 chr1B 97.143 35 0 1 609 643 496471298 496471331 1.960000e-04 58.4
56 TraesCS2B01G097900 chr7B 93.007 143 8 2 4895 5035 202989402 202989544 1.840000e-49 207.0
57 TraesCS2B01G097900 chr7B 97.297 37 1 0 4873 4909 703591992 703592028 4.210000e-06 63.9
58 TraesCS2B01G097900 chr7B 96.970 33 1 0 611 643 188928303 188928335 7.040000e-04 56.5
59 TraesCS2B01G097900 chr7B 94.286 35 2 0 609 643 749677618 749677652 3.000000e-03 54.7
60 TraesCS2B01G097900 chr4D 88.525 122 11 3 4413 4532 214766616 214766736 1.460000e-30 145.0
61 TraesCS2B01G097900 chrUn 100.000 32 0 0 4874 4905 131209424 131209393 5.440000e-05 60.2
62 TraesCS2B01G097900 chrUn 94.444 36 2 0 4874 4909 131209272 131209237 7.040000e-04 56.5
63 TraesCS2B01G097900 chr3B 100.000 31 0 0 611 641 487879985 487879955 1.960000e-04 58.4
64 TraesCS2B01G097900 chr3B 96.970 33 1 0 4874 4906 58853815 58853847 7.040000e-04 56.5
65 TraesCS2B01G097900 chr1D 97.059 34 0 1 610 643 331602904 331602936 7.040000e-04 56.5
66 TraesCS2B01G097900 chr1A 100.000 29 0 0 615 643 9994678 9994650 3.000000e-03 54.7


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 TraesCS2B01G097900 chr2B 57777581 57782615 5034 True 9299.000000 9299 100.000000 1 5035 1 chr2B.!!$R1 5034
1 TraesCS2B01G097900 chr2B 57679366 57682762 3396 True 1546.000000 2436 85.113500 900 4249 2 chr2B.!!$R2 3349
2 TraesCS2B01G097900 chr2A 38321443 38333679 12236 True 1727.833333 6287 91.577333 2 4909 6 chr2A.!!$R1 4907
3 TraesCS2B01G097900 chr2D 35021796 35026828 5032 True 1642.750000 3674 90.728000 1 4909 4 chr2D.!!$R2 4908
4 TraesCS2B01G097900 chr2D 34999977 35003379 3402 True 1510.000000 2379 84.649500 900 4249 2 chr2D.!!$R1 3349
5 TraesCS2B01G097900 chr4A 731419353 731421909 2556 False 392.666667 468 79.068667 997 3487 3 chr4A.!!$F1 2490
6 TraesCS2B01G097900 chr7D 8333147 8333659 512 True 418.000000 418 81.870000 991 1500 1 chr7D.!!$R1 509
7 TraesCS2B01G097900 chr7D 8291616 8293968 2352 True 320.333333 466 78.254667 1662 4020 3 chr7D.!!$R2 2358
8 TraesCS2B01G097900 chr7A 8749820 8751531 1711 True 403.000000 429 78.491500 1730 3487 2 chr7A.!!$R2 1757
9 TraesCS2B01G097900 chr7A 8762414 8762942 528 True 370.000000 370 80.113000 993 1500 1 chr7A.!!$R1 507
10 TraesCS2B01G097900 chr6A 543206025 543208490 2465 True 212.550000 353 84.084000 1662 4031 4 chr6A.!!$R1 2369
11 TraesCS2B01G097900 chr6B 593354102 593358839 4737 True 245.333333 326 76.117000 991 4045 3 chr6B.!!$R3 3054

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
416 538 0.169009 GACGGAAAGTGGCTCATTGC 59.831 55.000 0.00 0.00 41.94 3.56 F
645 786 0.322187 TCAGTTTAAGGCCGGGCTTC 60.322 55.000 42.74 29.30 0.00 3.86 F
646 787 0.322546 CAGTTTAAGGCCGGGCTTCT 60.323 55.000 42.74 30.93 0.00 2.85 F
647 788 1.065709 CAGTTTAAGGCCGGGCTTCTA 60.066 52.381 42.74 29.43 0.00 2.10 F
980 1161 1.439679 GTCGGTGTGACCTTGATTCC 58.560 55.000 0.00 0.00 42.04 3.01 F
1300 1546 1.452833 GCTGCTGGGGTTCATCTCC 60.453 63.158 0.00 0.00 37.17 3.71 F
1321 1567 1.891919 GCTGCTCACCGTGTTCCAA 60.892 57.895 0.00 0.00 0.00 3.53 F
1918 3866 2.373224 GGAGGCCAAGATCCAAGAAAG 58.627 52.381 5.01 0.00 35.54 2.62 F
2497 12536 4.224370 AGGTTGTCGGTATCAGGTAAATGT 59.776 41.667 0.00 0.00 0.00 2.71 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1601 3474 0.035739 GTGGAACGGGGCAAAGACTA 59.964 55.000 0.00 0.00 0.00 2.59 R
1872 3820 1.002366 CGCCAATTTCTCGTCTGGAG 58.998 55.000 0.00 0.00 44.58 3.86 R
2022 3983 1.545651 GCTGCAAGTTAGGACCCAACT 60.546 52.381 0.00 0.00 37.85 3.16 R
2346 12348 4.973168 TCTTTGATTCCACTAGCAGTGTT 58.027 39.130 13.06 0.00 44.50 3.32 R
2804 12926 1.635487 AGACATACCACCCTGCAATGT 59.365 47.619 0.00 0.00 33.63 2.71 R
3099 13310 1.952367 GCTGTATGCTTCTGGGCAACT 60.952 52.381 0.00 0.00 45.68 3.16 R
3504 13752 9.288576 TCTCAAGATTTCTCAACACAATATTGT 57.711 29.630 15.47 15.47 43.36 2.71 R
3911 14267 0.525761 TATTTGGGCTTCTTGTGCGC 59.474 50.000 0.00 0.00 42.57 6.09 R
4263 14632 0.739462 TCCTGCCGTTTCACTATGCG 60.739 55.000 0.00 0.00 0.00 4.73 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
66 67 4.084507 CGTCGCAGATTGAAATGTTTCTC 58.915 43.478 6.99 0.00 40.67 2.87
100 101 6.610075 ATGCAATTTTTAACCCAGAGTGAT 57.390 33.333 0.00 0.00 0.00 3.06
103 104 8.133024 TGCAATTTTTAACCCAGAGTGATATT 57.867 30.769 0.00 0.00 0.00 1.28
105 106 7.706607 GCAATTTTTAACCCAGAGTGATATTCC 59.293 37.037 0.00 0.00 0.00 3.01
109 110 9.983024 TTTTTAACCCAGAGTGATATTCCAATA 57.017 29.630 0.00 0.00 0.00 1.90
111 112 9.573166 TTTAACCCAGAGTGATATTCCAATATG 57.427 33.333 0.00 0.00 31.96 1.78
112 113 6.131972 ACCCAGAGTGATATTCCAATATGG 57.868 41.667 0.00 0.00 41.52 2.74
113 114 5.612688 ACCCAGAGTGATATTCCAATATGGT 59.387 40.000 0.00 0.00 40.61 3.55
114 115 5.942236 CCCAGAGTGATATTCCAATATGGTG 59.058 44.000 0.00 0.00 40.61 4.17
115 116 6.466326 CCCAGAGTGATATTCCAATATGGTGT 60.466 42.308 0.00 0.00 40.61 4.16
116 117 7.000472 CCAGAGTGATATTCCAATATGGTGTT 59.000 38.462 0.00 0.00 38.32 3.32
117 118 7.503566 CCAGAGTGATATTCCAATATGGTGTTT 59.496 37.037 0.00 0.00 38.32 2.83
118 119 8.562892 CAGAGTGATATTCCAATATGGTGTTTC 58.437 37.037 0.00 0.00 39.03 2.78
119 120 8.497745 AGAGTGATATTCCAATATGGTGTTTCT 58.502 33.333 0.00 0.00 39.03 2.52
120 121 9.125026 GAGTGATATTCCAATATGGTGTTTCTT 57.875 33.333 0.00 0.00 39.03 2.52
154 155 5.006386 CCTAGATATTCCAATGGTGCCTTC 58.994 45.833 0.00 0.00 0.00 3.46
209 210 2.572290 ACCCGGTCAACAAAAGAAGAG 58.428 47.619 0.00 0.00 0.00 2.85
318 440 8.504815 GCTAGGTCTTTAGTTCCTTTAAAACTG 58.495 37.037 1.99 0.00 37.52 3.16
372 494 9.285770 GACTGTAAATTTGAAAATTCCGGATAC 57.714 33.333 4.15 0.20 37.62 2.24
397 519 0.721718 CTCTTCCTTGTTTAGCGGCG 59.278 55.000 0.51 0.51 0.00 6.46
416 538 0.169009 GACGGAAAGTGGCTCATTGC 59.831 55.000 0.00 0.00 41.94 3.56
488 610 7.148490 GCAACAAATTAACCAACAACAAAGACT 60.148 33.333 0.00 0.00 0.00 3.24
489 611 9.360093 CAACAAATTAACCAACAACAAAGACTA 57.640 29.630 0.00 0.00 0.00 2.59
490 612 9.930693 AACAAATTAACCAACAACAAAGACTAA 57.069 25.926 0.00 0.00 0.00 2.24
491 613 9.930693 ACAAATTAACCAACAACAAAGACTAAA 57.069 25.926 0.00 0.00 0.00 1.85
498 620 8.871686 ACCAACAACAAAGACTAAATTCAATC 57.128 30.769 0.00 0.00 0.00 2.67
499 621 8.474025 ACCAACAACAAAGACTAAATTCAATCA 58.526 29.630 0.00 0.00 0.00 2.57
500 622 9.311916 CCAACAACAAAGACTAAATTCAATCAA 57.688 29.630 0.00 0.00 0.00 2.57
578 719 5.617252 TGATCTCCTTTTCCGTTTTGTACT 58.383 37.500 0.00 0.00 0.00 2.73
588 729 4.060205 TCCGTTTTGTACTGCTAAACCTC 58.940 43.478 0.00 0.00 38.82 3.85
605 746 4.999939 CGTTGCACTTTGGCGGCC 63.000 66.667 13.32 13.32 36.28 6.13
643 784 1.299976 CTCAGTTTAAGGCCGGGCT 59.700 57.895 27.45 27.45 0.00 5.19
644 785 0.322546 CTCAGTTTAAGGCCGGGCTT 60.323 55.000 40.63 40.63 0.00 4.35
645 786 0.322187 TCAGTTTAAGGCCGGGCTTC 60.322 55.000 42.74 29.30 0.00 3.86
646 787 0.322546 CAGTTTAAGGCCGGGCTTCT 60.323 55.000 42.74 30.93 0.00 2.85
647 788 1.065709 CAGTTTAAGGCCGGGCTTCTA 60.066 52.381 42.74 29.43 0.00 2.10
648 789 1.631898 AGTTTAAGGCCGGGCTTCTAA 59.368 47.619 42.74 32.64 0.00 2.10
649 790 1.741706 GTTTAAGGCCGGGCTTCTAAC 59.258 52.381 42.74 36.92 0.00 2.34
655 805 1.548719 GGCCGGGCTTCTAACAAAAAT 59.451 47.619 22.87 0.00 0.00 1.82
678 828 4.764823 TCATCATACAAAACAACCCAGACC 59.235 41.667 0.00 0.00 0.00 3.85
719 870 7.889469 AGTTTCCAGTTCGTTAATAGTAGTGA 58.111 34.615 0.00 0.00 0.00 3.41
720 871 8.362639 AGTTTCCAGTTCGTTAATAGTAGTGAA 58.637 33.333 0.00 0.00 0.00 3.18
722 873 6.860080 TCCAGTTCGTTAATAGTAGTGAAGG 58.140 40.000 0.00 0.00 0.00 3.46
980 1161 1.439679 GTCGGTGTGACCTTGATTCC 58.560 55.000 0.00 0.00 42.04 3.01
1184 1425 2.107366 TGTCCAATCGACCATCAGCTA 58.893 47.619 0.00 0.00 41.18 3.32
1186 1427 3.126831 GTCCAATCGACCATCAGCTAAG 58.873 50.000 0.00 0.00 35.23 2.18
1300 1546 1.452833 GCTGCTGGGGTTCATCTCC 60.453 63.158 0.00 0.00 37.17 3.71
1321 1567 1.891919 GCTGCTCACCGTGTTCCAA 60.892 57.895 0.00 0.00 0.00 3.53
1528 1896 8.347004 TGAATTGGTGCTTGATTTTGTCTATA 57.653 30.769 0.00 0.00 0.00 1.31
1586 2980 3.829948 TGTCGATCGAAAACTCTGGTAC 58.170 45.455 21.31 3.72 0.00 3.34
1601 3474 9.623000 AAACTCTGGTACATTGTTACTACTTTT 57.377 29.630 0.00 0.00 38.20 2.27
1771 3663 7.233389 TCTCAGTGCTATTACAGTTCTTCTT 57.767 36.000 0.00 0.00 0.00 2.52
1872 3820 9.921637 TTTTCCTGATTACCATGTTAATTGTTC 57.078 29.630 0.00 0.00 0.00 3.18
1918 3866 2.373224 GGAGGCCAAGATCCAAGAAAG 58.627 52.381 5.01 0.00 35.54 2.62
1969 3924 9.343539 ACTTTCCTAATTTAGCTAATGATGACC 57.656 33.333 7.08 0.00 0.00 4.02
1985 3942 5.684704 TGATGACCTCACAAGTTTTCTTCT 58.315 37.500 0.00 0.00 38.17 2.85
1988 3949 7.388776 TGATGACCTCACAAGTTTTCTTCTATG 59.611 37.037 0.00 0.00 38.17 2.23
1995 3956 9.869844 CTCACAAGTTTTCTTCTATGTAAAGTG 57.130 33.333 0.00 0.00 38.17 3.16
1996 3957 9.391006 TCACAAGTTTTCTTCTATGTAAAGTGT 57.609 29.630 0.00 0.00 38.17 3.55
1997 3958 9.438291 CACAAGTTTTCTTCTATGTAAAGTGTG 57.562 33.333 0.00 0.00 38.17 3.82
1998 3959 9.174166 ACAAGTTTTCTTCTATGTAAAGTGTGT 57.826 29.630 0.00 0.00 38.17 3.72
2140 12096 4.832266 GGATATTTGGTTGGATGGTATGCA 59.168 41.667 0.00 0.00 0.00 3.96
2236 12207 6.094603 ACTCATCATCTTTTTAGCGCTCATTT 59.905 34.615 16.34 0.00 0.00 2.32
2328 12299 4.616953 ACCAACCAACATTTTCATCGAAC 58.383 39.130 0.00 0.00 0.00 3.95
2371 12373 6.506500 CACTGCTAGTGGAATCAAAGAAAT 57.493 37.500 8.03 0.00 42.35 2.17
2497 12536 4.224370 AGGTTGTCGGTATCAGGTAAATGT 59.776 41.667 0.00 0.00 0.00 2.71
2509 12548 9.669353 GTATCAGGTAAATGTTCAATGCTATTG 57.331 33.333 3.36 3.36 0.00 1.90
2532 12571 8.436046 TTGTTACAAAATACGTGACCTACTTT 57.564 30.769 0.00 0.00 0.00 2.66
2533 12572 8.436046 TGTTACAAAATACGTGACCTACTTTT 57.564 30.769 0.00 0.00 0.00 2.27
2681 12770 6.183360 TGTTCAAGGTATGTATCACTAGAGGC 60.183 42.308 0.00 0.00 0.00 4.70
2804 12926 8.842358 AAAATAACTCCACTCTTGTTTATCGA 57.158 30.769 0.00 0.00 0.00 3.59
2810 12932 4.391830 TCCACTCTTGTTTATCGACATTGC 59.608 41.667 0.00 0.00 0.00 3.56
2838 12960 7.280356 GGTGGTATGTCTACATTTGGATAACT 58.720 38.462 0.12 0.00 37.76 2.24
3099 13310 6.545666 ACATCATTACGGAATTGGCTTATGAA 59.454 34.615 0.00 0.00 0.00 2.57
3360 13588 7.215719 AGTTTAGGATTTGCTAGTTCCAAAC 57.784 36.000 0.00 7.14 35.27 2.93
3638 13900 9.506018 TCTCTCATGTGAGTTCAATTCATAAAA 57.494 29.630 20.99 0.00 42.60 1.52
3716 14023 6.241645 ACCTATAATTAGCCATTCTTGAGCC 58.758 40.000 0.00 0.00 0.00 4.70
3741 14090 8.487176 CCATACAAAGCTTGTTTTCACAAATAC 58.513 33.333 0.00 0.00 42.53 1.89
3780 14130 9.320295 AGGGATTTATTGACATGGTAAGAAAAA 57.680 29.630 0.00 0.00 0.00 1.94
3910 14266 1.303317 GGGCTGAAAAGGCTCGGAA 60.303 57.895 0.00 0.00 34.52 4.30
3911 14267 1.308783 GGGCTGAAAAGGCTCGGAAG 61.309 60.000 0.00 0.00 34.52 3.46
4200 14569 0.338814 TCACCTTCTCTACCCCTCCC 59.661 60.000 0.00 0.00 0.00 4.30
4217 14586 1.349026 TCCCTCAGCAAACCTTCTCTG 59.651 52.381 0.00 0.00 0.00 3.35
4237 14606 4.111916 CTGCGTGACTTGTCCAAAATTTT 58.888 39.130 0.00 0.00 0.00 1.82
4271 14640 6.090898 GCCCTATTAACTAATGTCGCATAGTG 59.909 42.308 0.00 0.00 32.84 2.74
4278 14647 1.006832 ATGTCGCATAGTGAAACGGC 58.993 50.000 0.00 0.00 45.86 5.68
4288 14657 3.643159 AGTGAAACGGCAGGATTTTTC 57.357 42.857 0.00 0.00 45.86 2.29
4289 14658 3.222603 AGTGAAACGGCAGGATTTTTCT 58.777 40.909 0.00 0.00 45.86 2.52
4303 14672 8.246180 GCAGGATTTTTCTAGTTCATTGAATGA 58.754 33.333 3.29 3.29 37.55 2.57
4332 14701 5.519566 TGAATGATGCACTTGAACAAACAAC 59.480 36.000 0.00 0.00 0.00 3.32
4448 14817 3.604875 ATGATGGCTTTTGGCTTTCTG 57.395 42.857 0.00 0.00 46.20 3.02
4463 14832 4.262420 GGCTTTCTGTATTTTGGCCTTTGA 60.262 41.667 3.32 0.00 35.73 2.69
4472 14841 1.075601 TTGGCCTTTGATCTCCCACT 58.924 50.000 3.32 0.00 0.00 4.00
4493 14862 7.824289 CCCACTTGTACTTGTATATATGATGGG 59.176 40.741 0.00 0.00 34.02 4.00
4500 14869 9.379791 GTACTTGTATATATGATGGGTTTAGCC 57.620 37.037 0.00 0.00 0.00 3.93
4514 14884 6.571624 TGGGTTTAGCCTCCTGATATACTAT 58.428 40.000 0.00 0.00 37.43 2.12
4517 14887 7.038231 GGGTTTAGCCTCCTGATATACTATGTT 60.038 40.741 0.00 0.00 37.43 2.71
4549 14919 4.778213 AACATGGTATCAGTGCTATGGT 57.222 40.909 0.00 0.00 34.11 3.55
4564 14934 4.039245 TGCTATGGTTTAGATCTTCCTCCG 59.961 45.833 0.00 0.00 0.00 4.63
4566 14936 3.110293 TGGTTTAGATCTTCCTCCGGA 57.890 47.619 2.93 2.93 0.00 5.14
4578 14948 1.658114 CTCCGGACGACACAACTCA 59.342 57.895 0.00 0.00 0.00 3.41
4587 14957 4.563184 GGACGACACAACTCATCTTATGAC 59.437 45.833 0.00 0.00 35.06 3.06
4621 14991 4.208746 GTCCGATTCTCCTCTTTCTCCTA 58.791 47.826 0.00 0.00 0.00 2.94
4626 14996 5.823570 CGATTCTCCTCTTTCTCCTACTGTA 59.176 44.000 0.00 0.00 0.00 2.74
4681 15051 4.440880 CAAATTGGTTTTGCTGTCCAGAA 58.559 39.130 0.00 0.00 38.42 3.02
4684 15054 0.317854 GGTTTTGCTGTCCAGAACGC 60.318 55.000 0.00 0.00 38.93 4.84
4685 15055 0.663153 GTTTTGCTGTCCAGAACGCT 59.337 50.000 0.00 0.00 30.19 5.07
4690 15060 2.346803 TGCTGTCCAGAACGCTAAATC 58.653 47.619 0.00 0.00 0.00 2.17
4694 15064 0.177141 TCCAGAACGCTAAATCCCGG 59.823 55.000 0.00 0.00 0.00 5.73
4697 15067 0.611714 AGAACGCTAAATCCCGGTGT 59.388 50.000 0.00 0.00 0.00 4.16
4701 15071 2.178235 GCTAAATCCCGGTGTCGCC 61.178 63.158 0.00 0.00 34.56 5.54
4703 15073 1.968050 CTAAATCCCGGTGTCGCCCT 61.968 60.000 0.00 0.00 34.56 5.19
4741 15111 2.303022 ACCATCATCTCGTTGTTCCTGT 59.697 45.455 0.00 0.00 0.00 4.00
4743 15113 3.368843 CCATCATCTCGTTGTTCCTGTCT 60.369 47.826 0.00 0.00 0.00 3.41
4744 15114 4.142160 CCATCATCTCGTTGTTCCTGTCTA 60.142 45.833 0.00 0.00 0.00 2.59
4749 15119 1.000506 TCGTTGTTCCTGTCTACCTGC 59.999 52.381 0.00 0.00 0.00 4.85
4778 15148 2.431683 GGCAGTTGCTCCCTCACA 59.568 61.111 3.88 0.00 41.70 3.58
4786 15156 2.997315 CTCCCTCACAGTCGCCCA 60.997 66.667 0.00 0.00 0.00 5.36
4792 15162 2.815211 CACAGTCGCCCATCACCG 60.815 66.667 0.00 0.00 0.00 4.94
4801 15171 2.671070 CCATCACCGCCTCCAAGT 59.329 61.111 0.00 0.00 0.00 3.16
4809 15179 4.785453 GCCTCCAAGTCCGGCAGG 62.785 72.222 0.00 0.00 43.25 4.85
4811 15181 4.020617 CTCCAAGTCCGGCAGGCA 62.021 66.667 0.00 0.00 37.47 4.75
4831 15201 0.103208 CCGAGATCTCCAGGTTTCCG 59.897 60.000 17.13 2.52 0.00 4.30
4834 15204 0.909610 AGATCTCCAGGTTTCCGCCA 60.910 55.000 0.00 0.00 0.00 5.69
4836 15206 1.201429 ATCTCCAGGTTTCCGCCAGT 61.201 55.000 0.00 0.00 0.00 4.00
4839 15209 2.030562 CAGGTTTCCGCCAGTCGT 59.969 61.111 0.00 0.00 36.19 4.34
4850 15220 2.125952 CAGTCGTCGCCATCTGCA 60.126 61.111 0.00 0.00 41.33 4.41
4851 15221 1.737735 CAGTCGTCGCCATCTGCAA 60.738 57.895 0.00 0.00 41.33 4.08
4906 15276 5.803967 GCTTTTGTCATTCTCATCATCCAAC 59.196 40.000 0.00 0.00 0.00 3.77
4909 15279 5.169992 TGTCATTCTCATCATCCAACTGT 57.830 39.130 0.00 0.00 0.00 3.55
4910 15280 5.563592 TGTCATTCTCATCATCCAACTGTT 58.436 37.500 0.00 0.00 0.00 3.16
4911 15281 5.413523 TGTCATTCTCATCATCCAACTGTTG 59.586 40.000 13.50 13.50 0.00 3.33
4924 15294 4.789012 CAACTGTTGGGAAATGTAGCAT 57.211 40.909 12.66 0.00 0.00 3.79
4925 15295 4.487948 CAACTGTTGGGAAATGTAGCATG 58.512 43.478 12.66 0.00 0.00 4.06
4926 15296 2.493278 ACTGTTGGGAAATGTAGCATGC 59.507 45.455 10.51 10.51 0.00 4.06
4927 15297 2.492881 CTGTTGGGAAATGTAGCATGCA 59.507 45.455 21.98 2.77 33.12 3.96
4928 15298 2.896044 TGTTGGGAAATGTAGCATGCAA 59.104 40.909 21.98 5.23 31.62 4.08
4929 15299 3.514706 TGTTGGGAAATGTAGCATGCAAT 59.485 39.130 21.98 7.61 31.62 3.56
4930 15300 4.020396 TGTTGGGAAATGTAGCATGCAATT 60.020 37.500 21.98 13.44 31.62 2.32
4931 15301 4.822685 TGGGAAATGTAGCATGCAATTT 57.177 36.364 21.98 20.58 31.62 1.82
4932 15302 4.757594 TGGGAAATGTAGCATGCAATTTC 58.242 39.130 28.05 28.05 31.62 2.17
4933 15303 4.122046 GGGAAATGTAGCATGCAATTTCC 58.878 43.478 35.84 35.84 42.05 3.13
4934 15304 4.382901 GGGAAATGTAGCATGCAATTTCCA 60.383 41.667 39.07 23.25 38.91 3.53
4935 15305 5.177326 GGAAATGTAGCATGCAATTTCCAA 58.823 37.500 36.97 15.47 42.18 3.53
4936 15306 5.642919 GGAAATGTAGCATGCAATTTCCAAA 59.357 36.000 36.97 14.28 42.18 3.28
4937 15307 6.149142 GGAAATGTAGCATGCAATTTCCAAAA 59.851 34.615 36.97 13.20 42.18 2.44
4938 15308 7.308469 GGAAATGTAGCATGCAATTTCCAAAAA 60.308 33.333 36.97 12.22 42.18 1.94
4954 15324 2.894307 AAAAATTCCTACGCTCACGC 57.106 45.000 0.00 0.00 45.53 5.34
4955 15325 1.803334 AAAATTCCTACGCTCACGCA 58.197 45.000 0.00 0.00 45.53 5.24
4956 15326 1.803334 AAATTCCTACGCTCACGCAA 58.197 45.000 0.00 0.00 45.53 4.85
4957 15327 1.359848 AATTCCTACGCTCACGCAAG 58.640 50.000 0.00 0.00 45.53 4.01
4958 15328 0.530744 ATTCCTACGCTCACGCAAGA 59.469 50.000 0.00 0.00 45.53 3.02
4959 15329 0.530744 TTCCTACGCTCACGCAAGAT 59.469 50.000 0.00 0.00 45.53 2.40
4960 15330 0.100682 TCCTACGCTCACGCAAGATC 59.899 55.000 0.00 0.00 45.53 2.75
4961 15331 0.101399 CCTACGCTCACGCAAGATCT 59.899 55.000 0.00 0.00 45.53 2.75
4962 15332 1.333931 CCTACGCTCACGCAAGATCTA 59.666 52.381 0.00 0.00 45.53 1.98
4963 15333 2.030717 CCTACGCTCACGCAAGATCTAT 60.031 50.000 0.00 0.00 45.53 1.98
4964 15334 2.126914 ACGCTCACGCAAGATCTATC 57.873 50.000 0.00 0.00 45.53 2.08
4965 15335 1.678627 ACGCTCACGCAAGATCTATCT 59.321 47.619 0.00 0.00 45.53 1.98
4966 15336 2.879026 ACGCTCACGCAAGATCTATCTA 59.121 45.455 0.00 0.00 45.53 1.98
4967 15337 3.058570 ACGCTCACGCAAGATCTATCTAG 60.059 47.826 0.00 0.00 45.53 2.43
4968 15338 3.669290 CGCTCACGCAAGATCTATCTAGG 60.669 52.174 0.00 0.00 43.62 3.02
4969 15339 3.504134 GCTCACGCAAGATCTATCTAGGA 59.496 47.826 0.00 0.00 43.62 2.94
4970 15340 4.379394 GCTCACGCAAGATCTATCTAGGAG 60.379 50.000 0.00 0.94 43.62 3.69
4971 15341 4.974399 TCACGCAAGATCTATCTAGGAGA 58.026 43.478 0.00 0.00 43.62 3.71
4972 15342 5.565509 TCACGCAAGATCTATCTAGGAGAT 58.434 41.667 0.00 7.55 38.77 2.75
4973 15343 5.414144 TCACGCAAGATCTATCTAGGAGATG 59.586 44.000 11.48 2.82 36.70 2.90
4974 15344 4.157656 ACGCAAGATCTATCTAGGAGATGC 59.842 45.833 11.48 9.81 36.70 3.91
4975 15345 4.157472 CGCAAGATCTATCTAGGAGATGCA 59.843 45.833 11.48 0.00 35.65 3.96
4976 15346 5.163530 CGCAAGATCTATCTAGGAGATGCAT 60.164 44.000 0.00 0.00 35.65 3.96
4977 15347 6.039159 CGCAAGATCTATCTAGGAGATGCATA 59.961 42.308 0.00 0.00 35.65 3.14
4978 15348 7.428020 GCAAGATCTATCTAGGAGATGCATAG 58.572 42.308 0.00 0.00 35.37 2.23
4979 15349 7.428020 CAAGATCTATCTAGGAGATGCATAGC 58.572 42.308 0.00 0.00 35.37 2.97
4980 15350 6.671605 AGATCTATCTAGGAGATGCATAGCA 58.328 40.000 0.00 0.00 38.03 3.49
4981 15351 7.124721 AGATCTATCTAGGAGATGCATAGCAA 58.875 38.462 0.00 0.00 37.47 3.91
4982 15352 6.522625 TCTATCTAGGAGATGCATAGCAAC 57.477 41.667 0.00 0.00 43.62 4.17
4983 15353 3.650070 TCTAGGAGATGCATAGCAACG 57.350 47.619 0.00 0.00 43.62 4.10
4984 15354 3.222603 TCTAGGAGATGCATAGCAACGA 58.777 45.455 0.00 0.00 43.62 3.85
4985 15355 2.522836 AGGAGATGCATAGCAACGAG 57.477 50.000 0.00 0.00 43.62 4.18
4986 15356 2.034878 AGGAGATGCATAGCAACGAGA 58.965 47.619 0.00 0.00 43.62 4.04
4987 15357 2.035704 AGGAGATGCATAGCAACGAGAG 59.964 50.000 0.00 0.00 43.62 3.20
4988 15358 2.402305 GAGATGCATAGCAACGAGAGG 58.598 52.381 0.00 0.00 43.62 3.69
4989 15359 1.069823 AGATGCATAGCAACGAGAGGG 59.930 52.381 0.00 0.00 43.62 4.30
4990 15360 0.107456 ATGCATAGCAACGAGAGGGG 59.893 55.000 0.00 0.00 43.62 4.79
4991 15361 0.975556 TGCATAGCAACGAGAGGGGA 60.976 55.000 0.00 0.00 34.76 4.81
4992 15362 0.249657 GCATAGCAACGAGAGGGGAG 60.250 60.000 0.00 0.00 0.00 4.30
4993 15363 1.403814 CATAGCAACGAGAGGGGAGA 58.596 55.000 0.00 0.00 0.00 3.71
4994 15364 1.339610 CATAGCAACGAGAGGGGAGAG 59.660 57.143 0.00 0.00 0.00 3.20
4995 15365 0.331954 TAGCAACGAGAGGGGAGAGT 59.668 55.000 0.00 0.00 0.00 3.24
4996 15366 1.216710 GCAACGAGAGGGGAGAGTG 59.783 63.158 0.00 0.00 0.00 3.51
4997 15367 1.536943 GCAACGAGAGGGGAGAGTGT 61.537 60.000 0.00 0.00 0.00 3.55
4998 15368 0.969894 CAACGAGAGGGGAGAGTGTT 59.030 55.000 0.00 0.00 0.00 3.32
4999 15369 1.067495 CAACGAGAGGGGAGAGTGTTC 60.067 57.143 0.00 0.00 0.00 3.18
5000 15370 0.612453 ACGAGAGGGGAGAGTGTTCC 60.612 60.000 0.00 0.00 36.46 3.62
5001 15371 0.612174 CGAGAGGGGAGAGTGTTCCA 60.612 60.000 0.00 0.00 39.09 3.53
5002 15372 0.899019 GAGAGGGGAGAGTGTTCCAC 59.101 60.000 0.00 0.00 41.20 4.02
5003 15373 0.900647 AGAGGGGAGAGTGTTCCACG 60.901 60.000 0.00 0.00 45.71 4.94
5004 15374 1.152312 AGGGGAGAGTGTTCCACGT 60.152 57.895 0.00 0.00 45.71 4.49
5005 15375 0.113776 AGGGGAGAGTGTTCCACGTA 59.886 55.000 0.00 0.00 45.71 3.57
5006 15376 0.245813 GGGGAGAGTGTTCCACGTAC 59.754 60.000 0.00 0.00 39.64 3.67
5007 15377 0.245813 GGGAGAGTGTTCCACGTACC 59.754 60.000 0.00 0.00 39.64 3.34
5008 15378 0.245813 GGAGAGTGTTCCACGTACCC 59.754 60.000 0.00 0.00 39.64 3.69
5009 15379 1.254954 GAGAGTGTTCCACGTACCCT 58.745 55.000 0.00 0.00 39.64 4.34
5010 15380 1.201880 GAGAGTGTTCCACGTACCCTC 59.798 57.143 0.00 0.00 39.64 4.30
5011 15381 0.109412 GAGTGTTCCACGTACCCTCG 60.109 60.000 0.00 0.00 39.64 4.63
5012 15382 0.825010 AGTGTTCCACGTACCCTCGT 60.825 55.000 0.00 0.00 45.10 4.18
5013 15383 0.881118 GTGTTCCACGTACCCTCGTA 59.119 55.000 0.00 0.00 42.27 3.43
5014 15384 1.135575 GTGTTCCACGTACCCTCGTAG 60.136 57.143 0.00 0.00 42.27 3.51
5015 15385 1.271325 TGTTCCACGTACCCTCGTAGA 60.271 52.381 0.00 0.00 42.27 2.59
5016 15386 1.131315 GTTCCACGTACCCTCGTAGAC 59.869 57.143 0.00 0.00 42.27 2.59
5017 15387 0.392998 TCCACGTACCCTCGTAGACC 60.393 60.000 0.00 0.00 42.27 3.85
5018 15388 0.677731 CCACGTACCCTCGTAGACCA 60.678 60.000 0.00 0.00 42.27 4.02
5019 15389 1.167851 CACGTACCCTCGTAGACCAA 58.832 55.000 0.00 0.00 42.27 3.67
5020 15390 1.541147 CACGTACCCTCGTAGACCAAA 59.459 52.381 0.00 0.00 42.27 3.28
5021 15391 2.030007 CACGTACCCTCGTAGACCAAAA 60.030 50.000 0.00 0.00 42.27 2.44
5022 15392 2.229784 ACGTACCCTCGTAGACCAAAAG 59.770 50.000 0.00 0.00 42.35 2.27
5023 15393 2.614779 GTACCCTCGTAGACCAAAAGC 58.385 52.381 0.00 0.00 0.00 3.51
5024 15394 0.037605 ACCCTCGTAGACCAAAAGCG 60.038 55.000 0.00 0.00 0.00 4.68
5025 15395 0.739813 CCCTCGTAGACCAAAAGCGG 60.740 60.000 0.00 0.00 0.00 5.52
5026 15396 0.245539 CCTCGTAGACCAAAAGCGGA 59.754 55.000 0.00 0.00 0.00 5.54
5027 15397 1.337447 CCTCGTAGACCAAAAGCGGAA 60.337 52.381 0.00 0.00 0.00 4.30
5028 15398 1.993370 CTCGTAGACCAAAAGCGGAAG 59.007 52.381 0.00 0.00 0.00 3.46
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
66 67 7.647318 GGGTTAAAAATTGCATTTCACAAAAGG 59.353 33.333 0.00 0.00 0.00 3.11
100 101 6.133356 GGGGAAGAAACACCATATTGGAATA 58.867 40.000 0.00 0.00 40.96 1.75
103 104 3.335183 TGGGGAAGAAACACCATATTGGA 59.665 43.478 0.00 0.00 40.96 3.53
105 106 4.599041 TCTGGGGAAGAAACACCATATTG 58.401 43.478 0.00 0.00 42.83 1.90
116 117 7.366551 GGAATATCTAGGTTTTCTGGGGAAGAA 60.367 40.741 6.21 0.00 43.37 2.52
117 118 6.101296 GGAATATCTAGGTTTTCTGGGGAAGA 59.899 42.308 6.21 0.00 32.61 2.87
118 119 6.126478 TGGAATATCTAGGTTTTCTGGGGAAG 60.126 42.308 6.21 0.00 32.61 3.46
119 120 5.734140 TGGAATATCTAGGTTTTCTGGGGAA 59.266 40.000 6.21 0.00 0.00 3.97
120 121 5.293643 TGGAATATCTAGGTTTTCTGGGGA 58.706 41.667 6.21 0.00 0.00 4.81
131 132 4.647564 AGGCACCATTGGAATATCTAGG 57.352 45.455 10.37 0.00 0.00 3.02
154 155 9.774742 GGTATTATTTTAGCTTGTCTGAAAGTG 57.225 33.333 0.00 0.00 34.38 3.16
345 467 6.683715 TCCGGAATTTTCAAATTTACAGTCC 58.316 36.000 0.00 0.00 38.64 3.85
365 487 2.320781 AGGAAGAGGTCATGTATCCGG 58.679 52.381 0.00 0.00 32.22 5.14
372 494 3.372206 CGCTAAACAAGGAAGAGGTCATG 59.628 47.826 0.00 0.00 0.00 3.07
397 519 0.169009 GCAATGAGCCACTTTCCGTC 59.831 55.000 0.00 0.00 37.23 4.79
416 538 4.044426 GCTTTTGGTAACTTTGCTGTCTG 58.956 43.478 0.00 0.00 37.61 3.51
503 625 9.527157 TCCCAACTGTCTAATCAAATTTGATAA 57.473 29.630 29.16 17.16 46.60 1.75
557 697 4.215613 GCAGTACAAAACGGAAAAGGAGAT 59.784 41.667 0.00 0.00 0.00 2.75
558 698 3.562557 GCAGTACAAAACGGAAAAGGAGA 59.437 43.478 0.00 0.00 0.00 3.71
559 699 3.564225 AGCAGTACAAAACGGAAAAGGAG 59.436 43.478 0.00 0.00 0.00 3.69
560 700 3.547746 AGCAGTACAAAACGGAAAAGGA 58.452 40.909 0.00 0.00 0.00 3.36
578 719 1.961793 AAGTGCAACGAGGTTTAGCA 58.038 45.000 0.00 0.00 45.86 3.49
588 729 4.999939 GGCCGCCAAAGTGCAACG 63.000 66.667 3.91 0.00 45.86 4.10
605 746 1.201414 GGCCCTTACAAATCCAACACG 59.799 52.381 0.00 0.00 0.00 4.49
647 788 8.835439 GGGTTGTTTTGTATGATGATTTTTGTT 58.165 29.630 0.00 0.00 0.00 2.83
648 789 7.989741 TGGGTTGTTTTGTATGATGATTTTTGT 59.010 29.630 0.00 0.00 0.00 2.83
649 790 8.375608 TGGGTTGTTTTGTATGATGATTTTTG 57.624 30.769 0.00 0.00 0.00 2.44
655 805 4.764823 GGTCTGGGTTGTTTTGTATGATGA 59.235 41.667 0.00 0.00 0.00 2.92
678 828 7.691158 ACTGGAAACTCGTTAAAAACTAGTTG 58.309 34.615 9.34 0.00 43.86 3.16
719 870 4.200092 AGTGCTCTTCTTTTTCGTTCCTT 58.800 39.130 0.00 0.00 0.00 3.36
720 871 3.809905 AGTGCTCTTCTTTTTCGTTCCT 58.190 40.909 0.00 0.00 0.00 3.36
722 873 6.713792 ATAGAGTGCTCTTCTTTTTCGTTC 57.286 37.500 7.05 0.00 40.93 3.95
926 1104 1.055849 TGGAGTGGCAAGCAAGAGTA 58.944 50.000 0.00 0.00 0.00 2.59
928 1106 1.471684 GAATGGAGTGGCAAGCAAGAG 59.528 52.381 0.00 0.00 0.00 2.85
1184 1425 2.670934 CGTGCCCAGAAGCTGCTT 60.671 61.111 15.92 15.92 0.00 3.91
1300 1546 2.281070 AACACGGTGAGCAGCAGG 60.281 61.111 16.29 0.00 0.00 4.85
1550 1921 4.029640 CGATCGACAAAGACGAGAGAAAAG 59.970 45.833 10.26 0.00 42.81 2.27
1586 2980 8.021396 GGGCAAAGACTAAAAGTAGTAACAATG 58.979 37.037 0.00 0.00 40.82 2.82
1601 3474 0.035739 GTGGAACGGGGCAAAGACTA 59.964 55.000 0.00 0.00 0.00 2.59
1771 3663 2.300723 AGTACGTACCTGTGCAATTCCA 59.699 45.455 21.80 0.00 0.00 3.53
1853 3798 8.398665 GTCTGGAGAACAATTAACATGGTAATC 58.601 37.037 16.26 5.18 0.00 1.75
1872 3820 1.002366 CGCCAATTTCTCGTCTGGAG 58.998 55.000 0.00 0.00 44.58 3.86
1918 3866 1.949525 GCATCATACCACCACCATCAC 59.050 52.381 0.00 0.00 0.00 3.06
1969 3924 9.869844 CACTTTACATAGAAGAAAACTTGTGAG 57.130 33.333 0.00 0.00 0.00 3.51
2002 3963 8.621286 CCCAACTTTCGTAAGCAGAAAATATAT 58.379 33.333 1.20 0.00 37.18 0.86
2022 3983 1.545651 GCTGCAAGTTAGGACCCAACT 60.546 52.381 0.00 0.00 37.85 3.16
2150 12107 7.665559 TGCATTTTGTTCTGATACTTAAGACCT 59.334 33.333 10.09 0.00 0.00 3.85
2151 12108 7.816640 TGCATTTTGTTCTGATACTTAAGACC 58.183 34.615 10.09 0.00 0.00 3.85
2183 12152 9.197306 GTCTTATACCCCAATTCCAAAGTAAAT 57.803 33.333 0.00 0.00 0.00 1.40
2236 12207 6.657117 TGACCGATCCATAGAATTGTTTGAAA 59.343 34.615 0.00 0.00 0.00 2.69
2342 12344 5.483685 TGATTCCACTAGCAGTGTTTACT 57.516 39.130 13.06 0.00 44.50 2.24
2346 12348 4.973168 TCTTTGATTCCACTAGCAGTGTT 58.027 39.130 13.06 0.00 44.50 3.32
2497 12536 9.335891 CACGTATTTTGTAACAATAGCATTGAA 57.664 29.630 13.53 2.03 0.00 2.69
2580 12657 9.139734 AGCATAACATGGAGATTAATTTGATGT 57.860 29.630 0.00 0.00 0.00 3.06
2581 12658 9.976511 AAGCATAACATGGAGATTAATTTGATG 57.023 29.630 0.00 0.00 0.00 3.07
2771 12891 8.784043 ACAAGAGTGGAGTTATTTTTCACATAC 58.216 33.333 0.00 0.00 0.00 2.39
2804 12926 1.635487 AGACATACCACCCTGCAATGT 59.365 47.619 0.00 0.00 33.63 2.71
2810 12932 4.080582 TCCAAATGTAGACATACCACCCTG 60.081 45.833 0.00 0.00 35.10 4.45
2838 12960 8.696374 TGTTTACTTACAATGAATGGAACCAAA 58.304 29.630 0.00 0.00 0.00 3.28
3003 13213 1.959042 AGTTGATGTCATGATCCCGC 58.041 50.000 0.00 0.00 0.00 6.13
3004 13214 5.059161 ACATAAGTTGATGTCATGATCCCG 58.941 41.667 0.00 0.00 34.97 5.14
3099 13310 1.952367 GCTGTATGCTTCTGGGCAACT 60.952 52.381 0.00 0.00 45.68 3.16
3504 13752 9.288576 TCTCAAGATTTCTCAACACAATATTGT 57.711 29.630 15.47 15.47 43.36 2.71
3700 14007 4.502105 TGTATGGCTCAAGAATGGCTAA 57.498 40.909 0.00 0.00 0.00 3.09
3716 14023 9.029243 TGTATTTGTGAAAACAAGCTTTGTATG 57.971 29.630 0.00 0.00 44.59 2.39
3741 14090 8.126700 GTCAATAAATCCCTTTACAACGGTATG 58.873 37.037 0.00 0.00 29.85 2.39
3910 14266 1.181098 ATTTGGGCTTCTTGTGCGCT 61.181 50.000 9.73 0.00 42.68 5.92
3911 14267 0.525761 TATTTGGGCTTCTTGTGCGC 59.474 50.000 0.00 0.00 42.57 6.09
3970 14338 6.072175 GGCCTGTGTATTTGTCATTTGAACTA 60.072 38.462 0.00 0.00 0.00 2.24
4100 14469 9.927668 TCAAAAGATATTTTTGGCCTCTAAAAG 57.072 29.630 3.32 0.00 39.25 2.27
4200 14569 0.795085 CGCAGAGAAGGTTTGCTGAG 59.205 55.000 0.00 0.00 35.73 3.35
4217 14586 6.576551 TTTAAAATTTTGGACAAGTCACGC 57.423 33.333 13.76 0.00 0.00 5.34
4245 14614 4.682778 TGCGACATTAGTTAATAGGGCT 57.317 40.909 0.00 0.00 0.00 5.19
4263 14632 0.739462 TCCTGCCGTTTCACTATGCG 60.739 55.000 0.00 0.00 0.00 4.73
4271 14640 5.048991 TGAACTAGAAAAATCCTGCCGTTTC 60.049 40.000 0.00 0.00 0.00 2.78
4275 14644 5.123820 TCAATGAACTAGAAAAATCCTGCCG 59.876 40.000 0.00 0.00 0.00 5.69
4303 14672 6.275494 TGTTCAAGTGCATCATTCATCATT 57.725 33.333 0.00 0.00 0.00 2.57
4304 14673 5.907866 TGTTCAAGTGCATCATTCATCAT 57.092 34.783 0.00 0.00 0.00 2.45
4305 14674 5.708877 TTGTTCAAGTGCATCATTCATCA 57.291 34.783 0.00 0.00 0.00 3.07
4306 14675 5.921976 TGTTTGTTCAAGTGCATCATTCATC 59.078 36.000 0.00 0.00 0.00 2.92
4307 14676 5.845103 TGTTTGTTCAAGTGCATCATTCAT 58.155 33.333 0.00 0.00 0.00 2.57
4308 14677 5.259832 TGTTTGTTCAAGTGCATCATTCA 57.740 34.783 0.00 0.00 0.00 2.57
4309 14678 5.519566 TGTTGTTTGTTCAAGTGCATCATTC 59.480 36.000 0.00 0.00 0.00 2.67
4332 14701 8.810427 GCAATTGAATCATTTATGTAACACCTG 58.190 33.333 10.34 0.00 0.00 4.00
4390 14759 2.937469 TATGATTTTGTGCTTGGCGG 57.063 45.000 0.00 0.00 0.00 6.13
4391 14760 4.626604 ACATTTATGATTTTGTGCTTGGCG 59.373 37.500 0.00 0.00 0.00 5.69
4434 14803 4.083855 GCCAAAATACAGAAAGCCAAAAGC 60.084 41.667 0.00 0.00 44.25 3.51
4448 14817 4.023291 TGGGAGATCAAAGGCCAAAATAC 58.977 43.478 5.01 0.00 0.00 1.89
4463 14832 9.601810 TCATATATACAAGTACAAGTGGGAGAT 57.398 33.333 0.00 0.00 0.00 2.75
4493 14862 7.332182 GCAACATAGTATATCAGGAGGCTAAAC 59.668 40.741 0.00 0.00 0.00 2.01
4514 14884 8.688747 TGATACCATGTTATGAATATGCAACA 57.311 30.769 0.00 0.00 35.53 3.33
4517 14887 7.094677 GCACTGATACCATGTTATGAATATGCA 60.095 37.037 0.00 0.00 0.00 3.96
4564 14934 4.563184 GTCATAAGATGAGTTGTGTCGTCC 59.437 45.833 0.00 0.00 40.53 4.79
4566 14936 4.495422 GGTCATAAGATGAGTTGTGTCGT 58.505 43.478 0.00 0.00 40.53 4.34
4597 14967 2.101750 GAGAAAGAGGAGAATCGGACCC 59.898 54.545 0.00 0.00 34.37 4.46
4602 14972 4.642885 ACAGTAGGAGAAAGAGGAGAATCG 59.357 45.833 0.00 0.00 34.37 3.34
4607 14977 7.505585 AGATGAATACAGTAGGAGAAAGAGGAG 59.494 40.741 0.00 0.00 0.00 3.69
4626 14996 8.930846 ATCGGATTTGGAGAAATAAGATGAAT 57.069 30.769 0.00 0.00 31.58 2.57
4644 15014 3.206150 CAATTTGGGACTCGATCGGATT 58.794 45.455 16.41 0.00 0.00 3.01
4681 15051 1.153706 CGACACCGGGATTTAGCGT 60.154 57.895 6.32 0.00 0.00 5.07
4684 15054 1.523032 GGGCGACACCGGGATTTAG 60.523 63.158 6.32 0.00 40.62 1.85
4685 15055 1.555477 AAGGGCGACACCGGGATTTA 61.555 55.000 6.32 0.00 40.62 1.40
4690 15060 2.596338 AAAAAGGGCGACACCGGG 60.596 61.111 6.32 0.00 40.62 5.73
4715 15085 3.313012 ACAACGAGATGATGGTTTCGA 57.687 42.857 0.00 0.00 36.89 3.71
4724 15094 3.192844 GGTAGACAGGAACAACGAGATGA 59.807 47.826 0.00 0.00 0.00 2.92
4726 15096 3.193691 CAGGTAGACAGGAACAACGAGAT 59.806 47.826 0.00 0.00 0.00 2.75
4727 15097 2.557056 CAGGTAGACAGGAACAACGAGA 59.443 50.000 0.00 0.00 0.00 4.04
4741 15111 1.895966 CAGAGCAGCTGCAGGTAGA 59.104 57.895 38.24 0.00 45.16 2.59
4762 15132 0.952984 GACTGTGAGGGAGCAACTGC 60.953 60.000 0.00 0.00 42.49 4.40
4764 15134 1.668294 CGACTGTGAGGGAGCAACT 59.332 57.895 0.00 0.00 0.00 3.16
4786 15156 2.990479 GGACTTGGAGGCGGTGAT 59.010 61.111 0.00 0.00 0.00 3.06
4806 15176 1.440893 CTGGAGATCTCGGTGCCTG 59.559 63.158 16.46 3.50 0.00 4.85
4809 15179 0.250513 AAACCTGGAGATCTCGGTGC 59.749 55.000 19.44 6.44 0.00 5.01
4811 15181 1.196012 GGAAACCTGGAGATCTCGGT 58.804 55.000 16.46 15.45 0.00 4.69
4814 15184 0.179070 GGCGGAAACCTGGAGATCTC 60.179 60.000 14.75 14.75 0.00 2.75
4816 15186 0.462759 CTGGCGGAAACCTGGAGATC 60.463 60.000 0.00 0.00 0.00 2.75
4831 15201 2.887568 CAGATGGCGACGACTGGC 60.888 66.667 0.65 0.00 34.16 4.85
4834 15204 1.738099 GTTGCAGATGGCGACGACT 60.738 57.895 0.65 0.00 46.48 4.18
4862 15232 2.358737 AAGAAACAGAGCCGGCGG 60.359 61.111 24.35 24.35 0.00 6.13
4871 15241 6.501781 AGAATGACAAAAGCTGAAGAAACAG 58.498 36.000 0.00 0.00 40.43 3.16
4906 15276 2.492881 TGCATGCTACATTTCCCAACAG 59.507 45.455 20.33 0.00 0.00 3.16
4909 15279 4.822685 AATTGCATGCTACATTTCCCAA 57.177 36.364 20.33 0.30 0.00 4.12
4910 15280 4.382901 GGAAATTGCATGCTACATTTCCCA 60.383 41.667 33.17 9.67 40.43 4.37
4911 15281 4.122046 GGAAATTGCATGCTACATTTCCC 58.878 43.478 33.17 23.97 40.43 3.97
4912 15282 4.757594 TGGAAATTGCATGCTACATTTCC 58.242 39.130 34.61 34.61 44.23 3.13
4913 15283 6.724694 TTTGGAAATTGCATGCTACATTTC 57.275 33.333 26.25 26.25 0.00 2.17
4914 15284 7.507733 TTTTTGGAAATTGCATGCTACATTT 57.492 28.000 20.33 18.65 0.00 2.32
4948 15318 5.000591 TCTCCTAGATAGATCTTGCGTGAG 58.999 45.833 0.00 1.23 38.32 3.51
4949 15319 4.974399 TCTCCTAGATAGATCTTGCGTGA 58.026 43.478 0.00 0.00 38.32 4.35
4950 15320 5.639757 CATCTCCTAGATAGATCTTGCGTG 58.360 45.833 0.00 0.00 38.32 5.34
4951 15321 4.157656 GCATCTCCTAGATAGATCTTGCGT 59.842 45.833 0.00 0.00 38.32 5.24
4952 15322 4.157472 TGCATCTCCTAGATAGATCTTGCG 59.843 45.833 0.00 0.00 36.48 4.85
4953 15323 5.657826 TGCATCTCCTAGATAGATCTTGC 57.342 43.478 0.00 0.69 38.32 4.01
4954 15324 7.068470 TGCTATGCATCTCCTAGATAGATCTTG 59.932 40.741 0.19 0.00 32.12 3.02
4955 15325 7.124721 TGCTATGCATCTCCTAGATAGATCTT 58.875 38.462 0.19 0.00 32.12 2.40
4956 15326 6.671605 TGCTATGCATCTCCTAGATAGATCT 58.328 40.000 0.19 0.00 32.12 2.75
4957 15327 6.957920 TGCTATGCATCTCCTAGATAGATC 57.042 41.667 0.19 0.00 32.12 2.75
4958 15328 6.183360 CGTTGCTATGCATCTCCTAGATAGAT 60.183 42.308 0.19 0.00 38.76 1.98
4959 15329 5.124617 CGTTGCTATGCATCTCCTAGATAGA 59.875 44.000 0.19 0.00 38.76 1.98
4960 15330 5.124617 TCGTTGCTATGCATCTCCTAGATAG 59.875 44.000 0.19 0.00 38.76 2.08
4961 15331 5.010282 TCGTTGCTATGCATCTCCTAGATA 58.990 41.667 0.19 0.00 38.76 1.98
4962 15332 3.829026 TCGTTGCTATGCATCTCCTAGAT 59.171 43.478 0.19 0.00 38.76 1.98
4963 15333 3.222603 TCGTTGCTATGCATCTCCTAGA 58.777 45.455 0.19 0.00 38.76 2.43
4964 15334 3.254411 TCTCGTTGCTATGCATCTCCTAG 59.746 47.826 0.19 0.00 38.76 3.02
4965 15335 3.222603 TCTCGTTGCTATGCATCTCCTA 58.777 45.455 0.19 0.00 38.76 2.94
4966 15336 2.034878 TCTCGTTGCTATGCATCTCCT 58.965 47.619 0.19 0.00 38.76 3.69
4967 15337 2.402305 CTCTCGTTGCTATGCATCTCC 58.598 52.381 0.19 0.00 38.76 3.71
4968 15338 2.402305 CCTCTCGTTGCTATGCATCTC 58.598 52.381 0.19 0.00 38.76 2.75
4969 15339 1.069823 CCCTCTCGTTGCTATGCATCT 59.930 52.381 0.19 0.00 38.76 2.90
4970 15340 1.506493 CCCTCTCGTTGCTATGCATC 58.494 55.000 0.19 0.00 38.76 3.91
4971 15341 0.107456 CCCCTCTCGTTGCTATGCAT 59.893 55.000 3.79 3.79 38.76 3.96
4972 15342 0.975556 TCCCCTCTCGTTGCTATGCA 60.976 55.000 0.00 0.00 36.47 3.96
4973 15343 0.249657 CTCCCCTCTCGTTGCTATGC 60.250 60.000 0.00 0.00 0.00 3.14
4974 15344 1.339610 CTCTCCCCTCTCGTTGCTATG 59.660 57.143 0.00 0.00 0.00 2.23
4975 15345 1.063567 ACTCTCCCCTCTCGTTGCTAT 60.064 52.381 0.00 0.00 0.00 2.97
4976 15346 0.331954 ACTCTCCCCTCTCGTTGCTA 59.668 55.000 0.00 0.00 0.00 3.49
4977 15347 1.077625 ACTCTCCCCTCTCGTTGCT 59.922 57.895 0.00 0.00 0.00 3.91
4978 15348 1.216710 CACTCTCCCCTCTCGTTGC 59.783 63.158 0.00 0.00 0.00 4.17
4979 15349 0.969894 AACACTCTCCCCTCTCGTTG 59.030 55.000 0.00 0.00 0.00 4.10
4980 15350 1.258676 GAACACTCTCCCCTCTCGTT 58.741 55.000 0.00 0.00 0.00 3.85
4981 15351 0.612453 GGAACACTCTCCCCTCTCGT 60.612 60.000 0.00 0.00 0.00 4.18
4982 15352 0.612174 TGGAACACTCTCCCCTCTCG 60.612 60.000 0.00 0.00 34.22 4.04
4983 15353 3.383162 TGGAACACTCTCCCCTCTC 57.617 57.895 0.00 0.00 34.22 3.20
4995 15365 1.167851 CTACGAGGGTACGTGGAACA 58.832 55.000 0.00 0.00 44.98 3.18
4996 15366 1.453155 TCTACGAGGGTACGTGGAAC 58.547 55.000 0.00 0.00 46.84 3.62
4997 15367 3.955145 TCTACGAGGGTACGTGGAA 57.045 52.632 0.00 0.00 46.84 3.53
4999 15369 0.677731 TGGTCTACGAGGGTACGTGG 60.678 60.000 0.00 0.00 46.02 4.94
5000 15370 1.167851 TTGGTCTACGAGGGTACGTG 58.832 55.000 0.00 0.00 46.02 4.49
5002 15372 2.872370 CTTTTGGTCTACGAGGGTACG 58.128 52.381 0.00 0.00 39.31 3.67
5003 15373 2.614779 GCTTTTGGTCTACGAGGGTAC 58.385 52.381 0.00 0.00 0.00 3.34
5004 15374 1.203052 CGCTTTTGGTCTACGAGGGTA 59.797 52.381 0.00 0.00 0.00 3.69
5005 15375 0.037605 CGCTTTTGGTCTACGAGGGT 60.038 55.000 0.00 0.00 0.00 4.34
5006 15376 0.739813 CCGCTTTTGGTCTACGAGGG 60.740 60.000 0.00 0.00 0.00 4.30
5007 15377 0.245539 TCCGCTTTTGGTCTACGAGG 59.754 55.000 0.00 0.00 0.00 4.63
5008 15378 1.993370 CTTCCGCTTTTGGTCTACGAG 59.007 52.381 0.00 0.00 0.00 4.18
5009 15379 1.938016 GCTTCCGCTTTTGGTCTACGA 60.938 52.381 0.00 0.00 0.00 3.43
5010 15380 0.442699 GCTTCCGCTTTTGGTCTACG 59.557 55.000 0.00 0.00 0.00 3.51
5011 15381 0.442699 CGCTTCCGCTTTTGGTCTAC 59.557 55.000 0.00 0.00 0.00 2.59
5012 15382 0.034337 ACGCTTCCGCTTTTGGTCTA 59.966 50.000 0.00 0.00 38.22 2.59
5013 15383 0.818040 AACGCTTCCGCTTTTGGTCT 60.818 50.000 0.00 0.00 38.22 3.85
5014 15384 0.869730 TAACGCTTCCGCTTTTGGTC 59.130 50.000 0.00 0.00 38.22 4.02
5015 15385 0.872388 CTAACGCTTCCGCTTTTGGT 59.128 50.000 0.00 0.00 38.22 3.67
5016 15386 3.676091 CTAACGCTTCCGCTTTTGG 57.324 52.632 0.00 0.00 38.22 3.28


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

AutoCloner maintained by Alex Coulton.