Multiple sequence alignment - TraesCS3B01G176500

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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 TraesCS3B01G176500 chr3B 100.000 2821 0 0 1 2821 179368581 179371401 0.000000e+00 5210.0
1 TraesCS3B01G176500 chr3B 100.000 477 0 0 3266 3742 179371846 179372322 0.000000e+00 881.0
2 TraesCS3B01G176500 chr3B 95.385 130 4 2 1872 2001 244019916 244020043 4.900000e-49 206.0
3 TraesCS3B01G176500 chr3B 96.825 63 2 0 1812 1874 145314549 145314611 5.110000e-19 106.0
4 TraesCS3B01G176500 chr3A 92.997 2299 71 27 1 2243 134236687 134238951 0.000000e+00 3271.0
5 TraesCS3B01G176500 chr3A 96.462 424 12 2 2378 2801 134239074 134239494 0.000000e+00 697.0
6 TraesCS3B01G176500 chr3A 97.059 170 5 0 3573 3742 19336533 19336364 1.700000e-73 287.0
7 TraesCS3B01G176500 chr3A 90.000 90 4 2 2299 2387 134238956 134239041 1.100000e-20 111.0
8 TraesCS3B01G176500 chr3A 95.238 63 3 0 1812 1874 211817404 211817342 2.380000e-17 100.0
9 TraesCS3B01G176500 chr3D 92.359 1806 75 20 1 1780 125481331 125483099 0.000000e+00 2512.0
10 TraesCS3B01G176500 chr3D 93.873 408 23 1 2394 2801 125483627 125484032 6.870000e-172 614.0
11 TraesCS3B01G176500 chr3D 91.632 239 20 0 3291 3529 125484517 125484755 7.750000e-87 331.0
12 TraesCS3B01G176500 chr2A 92.632 190 13 1 1812 2001 695349749 695349937 4.760000e-69 272.0
13 TraesCS3B01G176500 chr2A 90.260 154 12 2 1880 2032 286435084 286434933 8.200000e-47 198.0
14 TraesCS3B01G176500 chr2A 89.172 157 10 7 1851 2001 486497228 486497073 4.930000e-44 189.0
15 TraesCS3B01G176500 chr7A 95.294 170 8 0 3573 3742 479839908 479839739 1.710000e-68 270.0
16 TraesCS3B01G176500 chr7A 95.489 133 6 0 1880 2012 687928109 687928241 2.930000e-51 213.0
17 TraesCS3B01G176500 chr1B 95.294 170 8 0 3573 3742 17726549 17726380 1.710000e-68 270.0
18 TraesCS3B01G176500 chr1B 94.706 170 9 0 3573 3742 562193403 562193234 7.970000e-67 265.0
19 TraesCS3B01G176500 chr2B 94.706 170 9 0 3573 3742 520227569 520227738 7.970000e-67 265.0
20 TraesCS3B01G176500 chr2B 89.333 75 6 2 1800 1874 200262759 200262831 3.980000e-15 93.5
21 TraesCS3B01G176500 chr7B 94.118 170 9 1 3573 3742 597247616 597247784 1.330000e-64 257.0
22 TraesCS3B01G176500 chr7B 92.174 115 8 1 1866 1980 585762055 585762168 1.080000e-35 161.0
23 TraesCS3B01G176500 chr7B 95.238 63 3 0 1812 1874 401541304 401541366 2.380000e-17 100.0
24 TraesCS3B01G176500 chr7B 94.872 39 2 0 264 302 445423165 445423203 1.120000e-05 62.1
25 TraesCS3B01G176500 chr4B 86.935 199 20 4 1815 2007 645076874 645076676 6.290000e-53 219.0
26 TraesCS3B01G176500 chr4B 90.506 158 12 3 1880 2035 448873650 448873806 4.900000e-49 206.0
27 TraesCS3B01G176500 chr4A 91.503 153 11 2 1880 2031 387107503 387107352 3.790000e-50 209.0
28 TraesCS3B01G176500 chr4A 93.939 132 7 1 1870 2001 458527567 458527697 8.200000e-47 198.0
29 TraesCS3B01G176500 chr4A 93.182 132 8 1 1870 2001 458243643 458243773 3.810000e-45 193.0
30 TraesCS3B01G176500 chr7D 91.391 151 9 4 1880 2028 509114850 509114702 1.760000e-48 204.0
31 TraesCS3B01G176500 chr7D 93.023 43 3 0 260 302 427631583 427631625 3.120000e-06 63.9
32 TraesCS3B01G176500 chr6A 91.447 152 7 6 1880 2027 502319150 502319001 1.760000e-48 204.0
33 TraesCS3B01G176500 chr2D 95.349 129 5 1 1871 1999 25640097 25640224 1.760000e-48 204.0
34 TraesCS3B01G176500 chr5A 85.714 168 24 0 3573 3740 653954692 653954859 1.070000e-40 178.0
35 TraesCS3B01G176500 chr5B 82.143 168 29 1 3573 3740 662601783 662601949 3.900000e-30 143.0
36 TraesCS3B01G176500 chr6B 95.238 63 3 0 1812 1874 227833077 227833139 2.380000e-17 100.0
37 TraesCS3B01G176500 chr1A 89.333 75 7 1 1801 1874 507204023 507204097 3.980000e-15 93.5


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 TraesCS3B01G176500 chr3B 179368581 179372322 3741 False 3045.500000 5210 100.000000 1 3742 2 chr3B.!!$F3 3741
1 TraesCS3B01G176500 chr3A 134236687 134239494 2807 False 1359.666667 3271 93.153000 1 2801 3 chr3A.!!$F1 2800
2 TraesCS3B01G176500 chr3D 125481331 125484755 3424 False 1152.333333 2512 92.621333 1 3529 3 chr3D.!!$F1 3528

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
675 682 1.077501 CAAGACATGGGCCATCGGT 60.078 57.895 18.16 13.08 0.00 4.69 F
2244 2306 1.063114 AGTCTAACCCTAGGTCGCCAT 60.063 52.381 8.29 0.00 33.12 4.40 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2433 2552 1.074405 AGCACCCAATTTCTGCAGAGA 59.926 47.619 17.43 13.58 33.06 3.10 R
3581 3700 0.030705 AGGGGAGAAGCAGCCATAGA 60.031 55.000 0.00 0.00 0.00 1.98 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
68 69 1.818674 CCAACATTTCTACCCACAGCC 59.181 52.381 0.00 0.00 0.00 4.85
120 121 2.292292 CCAACCAAACTAACCACTTCGG 59.708 50.000 0.00 0.00 42.50 4.30
306 307 1.365633 GATAGCGTGGAGGCTCCTG 59.634 63.158 32.28 24.78 43.54 3.86
620 626 2.374170 GAGGGAGGAGAGAGGTAGGTAG 59.626 59.091 0.00 0.00 0.00 3.18
675 682 1.077501 CAAGACATGGGCCATCGGT 60.078 57.895 18.16 13.08 0.00 4.69
692 699 2.094442 TCGGTCGTCTGCAACATTCATA 60.094 45.455 0.00 0.00 0.00 2.15
697 709 2.223021 CGTCTGCAACATTCATAACGGG 60.223 50.000 0.00 0.00 0.00 5.28
717 729 2.302260 GCCTCTTAAATTCTGGGCCTC 58.698 52.381 4.53 0.00 34.19 4.70
724 736 6.256053 TCTTAAATTCTGGGCCTCATTTTCT 58.744 36.000 4.53 0.00 0.00 2.52
807 836 4.637387 ATCCTTCCTTCTATGCCATCAG 57.363 45.455 0.00 0.00 0.00 2.90
880 912 4.586235 ACCAAACCGGCAGCTGCT 62.586 61.111 35.82 16.13 41.70 4.24
983 1018 4.025401 CCCGCGTGCTGTTGGTTC 62.025 66.667 4.92 0.00 0.00 3.62
985 1020 4.368808 CGCGTGCTGTTGGTTCGG 62.369 66.667 0.00 0.00 0.00 4.30
1181 1216 2.561037 CCTTGCGTTTGGTGGACCC 61.561 63.158 0.00 0.00 34.29 4.46
1301 1354 7.982354 ACTGAGTAATCTTATCTTTGTGCCTAC 59.018 37.037 0.00 0.00 0.00 3.18
1309 1362 6.430000 TCTTATCTTTGTGCCTACCTGTTTTC 59.570 38.462 0.00 0.00 0.00 2.29
1324 1377 4.281688 CCTGTTTTCTGGATGGACAATTGT 59.718 41.667 11.78 11.78 40.71 2.71
1325 1378 5.199024 TGTTTTCTGGATGGACAATTGTG 57.801 39.130 17.58 0.00 0.00 3.33
1326 1379 4.039004 TGTTTTCTGGATGGACAATTGTGG 59.961 41.667 17.58 0.00 0.00 4.17
1343 1396 3.232279 GGTGGGACTCCATAGCTCT 57.768 57.895 0.00 0.00 46.09 4.09
1385 1438 3.438781 TCATGTGCTTCCGTGTAATTTCC 59.561 43.478 0.00 0.00 0.00 3.13
1410 1463 3.861276 AAATGAGCACCATGTCACATG 57.139 42.857 11.18 11.18 35.24 3.21
1467 1520 8.520351 GCTAAAGGAATACATACTTTTGTTGGT 58.480 33.333 0.00 0.00 36.07 3.67
1471 1524 5.867174 GGAATACATACTTTTGTTGGTTGGC 59.133 40.000 0.00 0.00 0.00 4.52
1523 1576 7.041984 CCTGGTTAAGTGTGAGAAGTTAGAAAC 60.042 40.741 0.00 0.00 0.00 2.78
1596 1649 6.374894 ACTTGTCTGTACCACTTAGCTAGTAG 59.625 42.308 0.00 0.00 34.56 2.57
1599 1652 6.820656 TGTCTGTACCACTTAGCTAGTAGTAC 59.179 42.308 17.02 17.02 46.09 2.73
1637 1691 4.709886 CCGAGGTAATTCCCCTTTGAAAAT 59.290 41.667 0.00 0.00 36.75 1.82
1721 1776 1.066716 ACCGCTAGTTAAATGACGCCA 60.067 47.619 0.00 0.00 0.00 5.69
1729 1784 7.688167 CGCTAGTTAAATGACGCCATATTATTG 59.312 37.037 0.00 0.00 31.59 1.90
1780 1835 8.084985 TGTCAGGTGGATATGTGTTATCTAAA 57.915 34.615 0.00 0.00 37.45 1.85
1810 1865 7.965107 GCAGAATGACTACTCCAAAAAGTTATG 59.035 37.037 0.00 0.00 39.69 1.90
1838 1899 2.227194 ACAACAAAGCCTTTAGTCCCG 58.773 47.619 0.00 0.00 0.00 5.14
2041 2103 7.783090 ACATGCAAAATAAATTGACAACACA 57.217 28.000 0.00 0.00 31.84 3.72
2084 2146 8.998377 TCATGACATTTTTAAATCAGAAGTCGA 58.002 29.630 0.00 0.00 0.00 4.20
2085 2147 9.778993 CATGACATTTTTAAATCAGAAGTCGAT 57.221 29.630 0.00 0.00 0.00 3.59
2086 2148 9.994432 ATGACATTTTTAAATCAGAAGTCGATC 57.006 29.630 0.00 0.00 0.00 3.69
2087 2149 9.219603 TGACATTTTTAAATCAGAAGTCGATCT 57.780 29.630 0.00 0.00 0.00 2.75
2207 2269 1.622811 CTCAGCTCCTCTTGTCCACTT 59.377 52.381 0.00 0.00 0.00 3.16
2228 2290 2.972348 TCTTGGTCCCACAGTTAGTCT 58.028 47.619 0.00 0.00 0.00 3.24
2244 2306 1.063114 AGTCTAACCCTAGGTCGCCAT 60.063 52.381 8.29 0.00 33.12 4.40
2246 2308 2.037144 TCTAACCCTAGGTCGCCATTC 58.963 52.381 8.29 0.00 33.12 2.67
2256 2321 5.646360 CCTAGGTCGCCATTCTCTTTAAAAA 59.354 40.000 0.00 0.00 0.00 1.94
2281 2346 4.591498 ACTAGGTAGGTGTCATTCACAACA 59.409 41.667 0.00 0.00 46.45 3.33
2283 2348 4.134563 AGGTAGGTGTCATTCACAACAAC 58.865 43.478 0.62 0.00 46.45 3.32
2284 2349 3.880490 GGTAGGTGTCATTCACAACAACA 59.120 43.478 0.62 0.00 46.45 3.33
2285 2350 4.336993 GGTAGGTGTCATTCACAACAACAA 59.663 41.667 0.62 0.00 46.45 2.83
2286 2351 5.163602 GGTAGGTGTCATTCACAACAACAAA 60.164 40.000 0.62 0.00 46.45 2.83
2287 2352 5.398603 AGGTGTCATTCACAACAACAAAA 57.601 34.783 0.62 0.00 46.45 2.44
2288 2353 5.788450 AGGTGTCATTCACAACAACAAAAA 58.212 33.333 0.62 0.00 46.45 1.94
2292 2357 7.393327 GTGTCATTCACAACAACAAAAATCAG 58.607 34.615 0.00 0.00 45.51 2.90
2320 2385 9.476202 TTCAGTTTCTCAATGTATATATGACCG 57.524 33.333 0.00 0.00 0.00 4.79
2387 2453 4.173036 TGGAATGCACCTTTCGATTTTC 57.827 40.909 0.00 0.00 0.00 2.29
2388 2454 3.056891 TGGAATGCACCTTTCGATTTTCC 60.057 43.478 0.00 0.00 33.58 3.13
2466 2585 8.815912 AGAAATTGGGTGCTAACAGAAATAATT 58.184 29.630 0.00 0.00 0.00 1.40
2575 2694 6.377327 TTTGTCTTTTCCTGTCTCATGTTC 57.623 37.500 0.00 0.00 0.00 3.18
2593 2712 1.661463 TCTCCTCCAGGCAAGTCATT 58.339 50.000 0.00 0.00 34.44 2.57
2809 2928 6.727824 CAGTCATACTGGTTTGGTTTAGAG 57.272 41.667 0.00 0.00 42.35 2.43
2811 2930 6.710744 CAGTCATACTGGTTTGGTTTAGAGTT 59.289 38.462 0.00 0.00 42.35 3.01
2812 2931 6.710744 AGTCATACTGGTTTGGTTTAGAGTTG 59.289 38.462 0.00 0.00 0.00 3.16
2814 2933 4.513406 ACTGGTTTGGTTTAGAGTTGGA 57.487 40.909 0.00 0.00 0.00 3.53
2815 2934 5.061721 ACTGGTTTGGTTTAGAGTTGGAT 57.938 39.130 0.00 0.00 0.00 3.41
2816 2935 5.454966 ACTGGTTTGGTTTAGAGTTGGATT 58.545 37.500 0.00 0.00 0.00 3.01
2817 2936 5.535030 ACTGGTTTGGTTTAGAGTTGGATTC 59.465 40.000 0.00 0.00 0.00 2.52
2818 2937 4.830600 TGGTTTGGTTTAGAGTTGGATTCC 59.169 41.667 0.00 0.00 0.00 3.01
2819 2938 4.219944 GGTTTGGTTTAGAGTTGGATTCCC 59.780 45.833 0.00 0.00 0.00 3.97
2820 2939 3.732048 TGGTTTAGAGTTGGATTCCCC 57.268 47.619 0.00 0.00 0.00 4.81
3385 3504 0.322456 TTTGCTGCTGCCGTTCCTAT 60.322 50.000 13.47 0.00 38.71 2.57
3399 3518 4.752101 CCGTTCCTATCCAGTTTCATGATC 59.248 45.833 0.00 0.00 0.00 2.92
3400 3519 4.445718 CGTTCCTATCCAGTTTCATGATCG 59.554 45.833 0.00 0.00 0.00 3.69
3417 3536 3.195610 TGATCGCAGGTGTCTGAAATAGT 59.804 43.478 0.00 0.00 43.49 2.12
3418 3537 3.232213 TCGCAGGTGTCTGAAATAGTC 57.768 47.619 0.00 0.00 43.49 2.59
3429 3548 4.627467 GTCTGAAATAGTCGCATGAACAGT 59.373 41.667 0.00 0.00 0.00 3.55
3435 3554 0.385974 GTCGCATGAACAGTTGCCAC 60.386 55.000 0.00 0.00 35.41 5.01
3451 3570 4.574674 TGCCACCTCTTCACAGATTTAT 57.425 40.909 0.00 0.00 0.00 1.40
3453 3572 4.263462 TGCCACCTCTTCACAGATTTATGT 60.263 41.667 0.00 0.00 0.00 2.29
3459 3578 8.446273 CACCTCTTCACAGATTTATGTTTGTAG 58.554 37.037 0.00 0.00 0.00 2.74
3467 3586 9.599322 CACAGATTTATGTTTGTAGTTGTTCTC 57.401 33.333 0.00 0.00 0.00 2.87
3472 3591 2.869801 TGTTTGTAGTTGTTCTCTGCCG 59.130 45.455 0.00 0.00 0.00 5.69
3500 3619 3.388024 TCGATAGAAGGGGAACTTGATGG 59.612 47.826 0.00 0.00 46.15 3.51
3509 3628 2.488153 GGGAACTTGATGGTTTCGAAGG 59.512 50.000 0.00 0.00 0.00 3.46
3519 3638 7.045126 TGATGGTTTCGAAGGTAATTTTTGT 57.955 32.000 0.00 0.00 0.00 2.83
3529 3648 6.581166 CGAAGGTAATTTTTGTCCTGTTTAGC 59.419 38.462 0.00 0.00 0.00 3.09
3530 3649 6.009115 AGGTAATTTTTGTCCTGTTTAGCG 57.991 37.500 0.00 0.00 0.00 4.26
3531 3650 5.766174 AGGTAATTTTTGTCCTGTTTAGCGA 59.234 36.000 0.00 0.00 0.00 4.93
3532 3651 6.263617 AGGTAATTTTTGTCCTGTTTAGCGAA 59.736 34.615 0.00 0.00 0.00 4.70
3533 3652 6.581166 GGTAATTTTTGTCCTGTTTAGCGAAG 59.419 38.462 0.00 0.00 0.00 3.79
3534 3653 5.767816 ATTTTTGTCCTGTTTAGCGAAGT 57.232 34.783 0.00 0.00 0.00 3.01
3535 3654 5.570234 TTTTTGTCCTGTTTAGCGAAGTT 57.430 34.783 0.00 0.00 0.00 2.66
3536 3655 6.680874 TTTTTGTCCTGTTTAGCGAAGTTA 57.319 33.333 0.00 0.00 0.00 2.24
3537 3656 5.917541 TTTGTCCTGTTTAGCGAAGTTAG 57.082 39.130 0.00 0.00 0.00 2.34
3538 3657 4.595762 TGTCCTGTTTAGCGAAGTTAGT 57.404 40.909 0.00 0.00 0.00 2.24
3539 3658 5.710513 TGTCCTGTTTAGCGAAGTTAGTA 57.289 39.130 0.00 0.00 0.00 1.82
3540 3659 5.706916 TGTCCTGTTTAGCGAAGTTAGTAG 58.293 41.667 0.00 0.00 0.00 2.57
3541 3660 5.242393 TGTCCTGTTTAGCGAAGTTAGTAGT 59.758 40.000 0.00 0.00 0.00 2.73
3542 3661 6.430925 TGTCCTGTTTAGCGAAGTTAGTAGTA 59.569 38.462 0.00 0.00 0.00 1.82
3543 3662 6.744993 GTCCTGTTTAGCGAAGTTAGTAGTAC 59.255 42.308 0.00 0.00 0.00 2.73
3544 3663 6.430925 TCCTGTTTAGCGAAGTTAGTAGTACA 59.569 38.462 2.52 0.00 0.00 2.90
3545 3664 7.040478 TCCTGTTTAGCGAAGTTAGTAGTACAA 60.040 37.037 2.52 0.00 0.00 2.41
3546 3665 7.596248 CCTGTTTAGCGAAGTTAGTAGTACAAA 59.404 37.037 2.52 0.00 0.00 2.83
3547 3666 8.870160 TGTTTAGCGAAGTTAGTAGTACAAAA 57.130 30.769 2.52 0.00 0.00 2.44
3548 3667 9.480053 TGTTTAGCGAAGTTAGTAGTACAAAAT 57.520 29.630 2.52 0.00 0.00 1.82
3551 3670 9.695526 TTAGCGAAGTTAGTAGTACAAAATTGA 57.304 29.630 2.52 0.00 0.00 2.57
3552 3671 8.240883 AGCGAAGTTAGTAGTACAAAATTGAG 57.759 34.615 2.52 0.00 0.00 3.02
3553 3672 7.871463 AGCGAAGTTAGTAGTACAAAATTGAGT 59.129 33.333 2.52 0.00 0.00 3.41
3554 3673 8.160976 GCGAAGTTAGTAGTACAAAATTGAGTC 58.839 37.037 2.52 0.00 0.00 3.36
3555 3674 9.188588 CGAAGTTAGTAGTACAAAATTGAGTCA 57.811 33.333 2.52 0.00 0.00 3.41
3568 3687 9.480053 ACAAAATTGAGTCATTTATTTGTCCTG 57.520 29.630 14.95 7.78 0.00 3.86
3569 3688 9.480053 CAAAATTGAGTCATTTATTTGTCCTGT 57.520 29.630 0.00 0.00 0.00 4.00
3575 3694 9.295825 TGAGTCATTTATTTGTCCTGTTTATGT 57.704 29.630 0.00 0.00 0.00 2.29
3576 3695 9.559958 GAGTCATTTATTTGTCCTGTTTATGTG 57.440 33.333 0.00 0.00 0.00 3.21
3577 3696 8.522830 AGTCATTTATTTGTCCTGTTTATGTGG 58.477 33.333 0.00 0.00 0.00 4.17
3578 3697 8.519526 GTCATTTATTTGTCCTGTTTATGTGGA 58.480 33.333 0.00 0.00 0.00 4.02
3579 3698 9.253832 TCATTTATTTGTCCTGTTTATGTGGAT 57.746 29.630 0.00 0.00 32.03 3.41
3580 3699 9.520204 CATTTATTTGTCCTGTTTATGTGGATC 57.480 33.333 0.00 0.00 32.03 3.36
3581 3700 8.877864 TTTATTTGTCCTGTTTATGTGGATCT 57.122 30.769 0.00 0.00 32.03 2.75
3582 3701 8.506168 TTATTTGTCCTGTTTATGTGGATCTC 57.494 34.615 0.00 0.00 32.03 2.75
3583 3702 5.762179 TTGTCCTGTTTATGTGGATCTCT 57.238 39.130 0.00 0.00 32.03 3.10
3584 3703 6.867519 TTGTCCTGTTTATGTGGATCTCTA 57.132 37.500 0.00 0.00 32.03 2.43
3585 3704 7.437713 TTGTCCTGTTTATGTGGATCTCTAT 57.562 36.000 0.00 0.00 32.03 1.98
3586 3705 6.820335 TGTCCTGTTTATGTGGATCTCTATG 58.180 40.000 0.00 0.00 32.03 2.23
3587 3706 6.183361 TGTCCTGTTTATGTGGATCTCTATGG 60.183 42.308 0.00 0.00 32.03 2.74
3588 3707 4.999950 CCTGTTTATGTGGATCTCTATGGC 59.000 45.833 0.00 0.00 0.00 4.40
3589 3708 5.221803 CCTGTTTATGTGGATCTCTATGGCT 60.222 44.000 0.00 0.00 0.00 4.75
3590 3709 5.614308 TGTTTATGTGGATCTCTATGGCTG 58.386 41.667 0.00 0.00 0.00 4.85
3591 3710 2.855209 ATGTGGATCTCTATGGCTGC 57.145 50.000 0.00 0.00 0.00 5.25
3592 3711 1.798626 TGTGGATCTCTATGGCTGCT 58.201 50.000 0.00 0.00 0.00 4.24
3593 3712 2.121948 TGTGGATCTCTATGGCTGCTT 58.878 47.619 0.00 0.00 0.00 3.91
3594 3713 2.103771 TGTGGATCTCTATGGCTGCTTC 59.896 50.000 0.00 0.00 0.00 3.86
3595 3714 2.368221 GTGGATCTCTATGGCTGCTTCT 59.632 50.000 0.00 0.00 0.00 2.85
3596 3715 2.632028 TGGATCTCTATGGCTGCTTCTC 59.368 50.000 0.00 0.00 0.00 2.87
3597 3716 2.028203 GGATCTCTATGGCTGCTTCTCC 60.028 54.545 0.00 0.00 0.00 3.71
3598 3717 1.418334 TCTCTATGGCTGCTTCTCCC 58.582 55.000 0.00 0.00 0.00 4.30
3599 3718 0.396060 CTCTATGGCTGCTTCTCCCC 59.604 60.000 0.00 0.00 0.00 4.81
3600 3719 0.030705 TCTATGGCTGCTTCTCCCCT 60.031 55.000 0.00 0.00 0.00 4.79
3601 3720 0.396060 CTATGGCTGCTTCTCCCCTC 59.604 60.000 0.00 0.00 0.00 4.30
3602 3721 1.402896 TATGGCTGCTTCTCCCCTCG 61.403 60.000 0.00 0.00 0.00 4.63
3603 3722 3.394836 GGCTGCTTCTCCCCTCGT 61.395 66.667 0.00 0.00 0.00 4.18
3604 3723 2.125350 GCTGCTTCTCCCCTCGTG 60.125 66.667 0.00 0.00 0.00 4.35
3605 3724 2.125350 CTGCTTCTCCCCTCGTGC 60.125 66.667 0.00 0.00 0.00 5.34
3606 3725 2.604686 TGCTTCTCCCCTCGTGCT 60.605 61.111 0.00 0.00 0.00 4.40
3607 3726 2.177594 CTGCTTCTCCCCTCGTGCTT 62.178 60.000 0.00 0.00 0.00 3.91
3608 3727 1.448717 GCTTCTCCCCTCGTGCTTC 60.449 63.158 0.00 0.00 0.00 3.86
3609 3728 1.153745 CTTCTCCCCTCGTGCTTCG 60.154 63.158 0.00 0.00 41.41 3.79
3610 3729 2.564553 CTTCTCCCCTCGTGCTTCGG 62.565 65.000 2.56 0.00 40.32 4.30
3611 3730 4.148825 CTCCCCTCGTGCTTCGGG 62.149 72.222 2.56 0.00 40.13 5.14
3614 3733 4.394712 CCCTCGTGCTTCGGGCTT 62.395 66.667 3.33 0.00 42.39 4.35
3615 3734 2.815647 CCTCGTGCTTCGGGCTTC 60.816 66.667 3.33 0.00 42.39 3.86
3616 3735 2.262915 CTCGTGCTTCGGGCTTCT 59.737 61.111 3.33 0.00 42.39 2.85
3617 3736 1.807573 CTCGTGCTTCGGGCTTCTC 60.808 63.158 3.33 0.00 42.39 2.87
3618 3737 2.048222 CGTGCTTCGGGCTTCTCA 60.048 61.111 3.33 0.00 42.39 3.27
3619 3738 2.383527 CGTGCTTCGGGCTTCTCAC 61.384 63.158 3.33 0.00 42.39 3.51
3620 3739 2.035442 GTGCTTCGGGCTTCTCACC 61.035 63.158 3.33 0.00 42.39 4.02
3621 3740 2.436824 GCTTCGGGCTTCTCACCC 60.437 66.667 0.00 0.00 44.63 4.61
3622 3741 2.269241 CTTCGGGCTTCTCACCCC 59.731 66.667 0.00 0.00 45.37 4.95
3623 3742 2.528127 TTCGGGCTTCTCACCCCA 60.528 61.111 0.00 0.00 45.37 4.96
3624 3743 1.915078 CTTCGGGCTTCTCACCCCAT 61.915 60.000 0.00 0.00 45.37 4.00
3625 3744 2.124570 CGGGCTTCTCACCCCATG 60.125 66.667 0.00 0.00 45.37 3.66
3626 3745 2.971598 CGGGCTTCTCACCCCATGT 61.972 63.158 0.00 0.00 45.37 3.21
3627 3746 1.384191 GGGCTTCTCACCCCATGTT 59.616 57.895 0.00 0.00 42.01 2.71
3628 3747 0.967380 GGGCTTCTCACCCCATGTTG 60.967 60.000 0.00 0.00 42.01 3.33
3629 3748 0.967380 GGCTTCTCACCCCATGTTGG 60.967 60.000 0.00 0.00 37.25 3.77
3639 3758 2.555123 CCATGTTGGGTCCAGTTCG 58.445 57.895 0.00 0.00 32.67 3.95
3640 3759 0.036164 CCATGTTGGGTCCAGTTCGA 59.964 55.000 0.00 0.00 32.67 3.71
3641 3760 1.156736 CATGTTGGGTCCAGTTCGAC 58.843 55.000 0.00 0.00 0.00 4.20
3642 3761 0.320421 ATGTTGGGTCCAGTTCGACG 60.320 55.000 0.00 0.00 33.30 5.12
3643 3762 2.029964 TTGGGTCCAGTTCGACGC 59.970 61.111 0.00 0.00 43.88 5.19
3644 3763 3.524648 TTGGGTCCAGTTCGACGCC 62.525 63.158 3.71 0.00 43.19 5.68
3645 3764 4.754667 GGGTCCAGTTCGACGCCC 62.755 72.222 0.00 0.00 39.21 6.13
3646 3765 4.754667 GGTCCAGTTCGACGCCCC 62.755 72.222 0.00 0.00 33.30 5.80
3647 3766 3.998672 GTCCAGTTCGACGCCCCA 61.999 66.667 0.00 0.00 0.00 4.96
3648 3767 3.235481 TCCAGTTCGACGCCCCAA 61.235 61.111 0.00 0.00 0.00 4.12
3649 3768 2.742372 CCAGTTCGACGCCCCAAG 60.742 66.667 0.00 0.00 0.00 3.61
3650 3769 2.030562 CAGTTCGACGCCCCAAGT 59.969 61.111 0.00 0.00 0.00 3.16
3651 3770 2.030562 AGTTCGACGCCCCAAGTG 59.969 61.111 0.00 0.00 0.00 3.16
3652 3771 2.280592 GTTCGACGCCCCAAGTGT 60.281 61.111 0.00 0.00 43.60 3.55
3653 3772 1.890510 GTTCGACGCCCCAAGTGTT 60.891 57.895 0.00 0.00 40.03 3.32
3654 3773 0.600782 GTTCGACGCCCCAAGTGTTA 60.601 55.000 0.00 0.00 40.03 2.41
3655 3774 0.600782 TTCGACGCCCCAAGTGTTAC 60.601 55.000 0.00 0.00 40.03 2.50
3656 3775 2.030958 CGACGCCCCAAGTGTTACC 61.031 63.158 0.00 0.00 40.03 2.85
3657 3776 2.030958 GACGCCCCAAGTGTTACCG 61.031 63.158 0.00 0.00 40.03 4.02
3658 3777 2.744709 CGCCCCAAGTGTTACCGG 60.745 66.667 0.00 0.00 0.00 5.28
3659 3778 2.751688 GCCCCAAGTGTTACCGGA 59.248 61.111 9.46 0.00 0.00 5.14
3660 3779 1.673337 GCCCCAAGTGTTACCGGAC 60.673 63.158 9.46 0.00 0.00 4.79
3661 3780 2.063774 CCCCAAGTGTTACCGGACT 58.936 57.895 9.46 0.00 0.00 3.85
3662 3781 0.399075 CCCCAAGTGTTACCGGACTT 59.601 55.000 9.46 4.02 32.48 3.01
3663 3782 1.609841 CCCCAAGTGTTACCGGACTTC 60.610 57.143 9.46 0.00 29.73 3.01
3664 3783 1.425412 CCAAGTGTTACCGGACTTCG 58.575 55.000 9.46 0.00 38.88 3.79
3665 3784 1.000060 CCAAGTGTTACCGGACTTCGA 60.000 52.381 9.46 0.00 42.43 3.71
3666 3785 2.325761 CAAGTGTTACCGGACTTCGAG 58.674 52.381 9.46 0.00 42.43 4.04
3667 3786 0.886563 AGTGTTACCGGACTTCGAGG 59.113 55.000 9.46 0.00 42.43 4.63
3668 3787 0.108945 GTGTTACCGGACTTCGAGGG 60.109 60.000 9.46 0.00 42.43 4.30
3669 3788 1.252904 TGTTACCGGACTTCGAGGGG 61.253 60.000 9.46 0.00 42.43 4.79
3670 3789 1.683365 TTACCGGACTTCGAGGGGG 60.683 63.158 9.46 0.00 42.43 5.40
3671 3790 2.445492 TTACCGGACTTCGAGGGGGT 62.445 60.000 9.46 10.97 42.43 4.95
3672 3791 3.771160 CCGGACTTCGAGGGGGTG 61.771 72.222 0.00 0.00 42.43 4.61
3673 3792 3.771160 CGGACTTCGAGGGGGTGG 61.771 72.222 0.00 0.00 42.43 4.61
3674 3793 4.097361 GGACTTCGAGGGGGTGGC 62.097 72.222 0.00 0.00 0.00 5.01
3675 3794 4.097361 GACTTCGAGGGGGTGGCC 62.097 72.222 0.00 0.00 0.00 5.36
3676 3795 4.658786 ACTTCGAGGGGGTGGCCT 62.659 66.667 3.32 0.00 0.00 5.19
3677 3796 3.787001 CTTCGAGGGGGTGGCCTC 61.787 72.222 3.32 0.00 0.00 4.70
3693 3812 3.156157 CTCCGTCGAGGTAGTGTCT 57.844 57.895 4.18 0.00 41.99 3.41
3694 3813 1.008329 CTCCGTCGAGGTAGTGTCTC 58.992 60.000 4.18 0.00 41.99 3.36
3695 3814 0.392193 TCCGTCGAGGTAGTGTCTCC 60.392 60.000 4.18 0.00 41.99 3.71
3696 3815 1.703438 CCGTCGAGGTAGTGTCTCCG 61.703 65.000 4.18 0.00 34.51 4.63
3697 3816 1.703438 CGTCGAGGTAGTGTCTCCGG 61.703 65.000 0.00 0.00 0.00 5.14
3698 3817 0.676151 GTCGAGGTAGTGTCTCCGGT 60.676 60.000 0.00 0.00 0.00 5.28
3699 3818 0.675837 TCGAGGTAGTGTCTCCGGTG 60.676 60.000 0.00 0.00 0.00 4.94
3700 3819 0.959372 CGAGGTAGTGTCTCCGGTGT 60.959 60.000 0.00 0.00 0.00 4.16
3701 3820 1.254954 GAGGTAGTGTCTCCGGTGTT 58.745 55.000 0.00 0.00 0.00 3.32
3702 3821 0.966920 AGGTAGTGTCTCCGGTGTTG 59.033 55.000 0.00 0.00 0.00 3.33
3703 3822 0.669625 GGTAGTGTCTCCGGTGTTGC 60.670 60.000 0.00 0.00 0.00 4.17
3704 3823 0.032952 GTAGTGTCTCCGGTGTTGCA 59.967 55.000 0.00 0.00 0.00 4.08
3705 3824 0.317160 TAGTGTCTCCGGTGTTGCAG 59.683 55.000 0.00 0.00 0.00 4.41
3706 3825 1.069090 GTGTCTCCGGTGTTGCAGA 59.931 57.895 0.00 0.00 0.00 4.26
3707 3826 0.320771 GTGTCTCCGGTGTTGCAGAT 60.321 55.000 0.00 0.00 0.00 2.90
3708 3827 0.037326 TGTCTCCGGTGTTGCAGATC 60.037 55.000 0.00 0.00 0.00 2.75
3709 3828 0.037326 GTCTCCGGTGTTGCAGATCA 60.037 55.000 0.00 0.00 0.00 2.92
3710 3829 0.904649 TCTCCGGTGTTGCAGATCAT 59.095 50.000 0.00 0.00 0.00 2.45
3711 3830 1.012086 CTCCGGTGTTGCAGATCATG 58.988 55.000 0.00 0.00 0.00 3.07
3721 3840 2.227191 CAGATCATGCTCGAGCTGC 58.773 57.895 35.27 19.93 41.99 5.25
3722 3841 0.529992 CAGATCATGCTCGAGCTGCA 60.530 55.000 35.27 19.21 41.99 4.41
3723 3842 0.249531 AGATCATGCTCGAGCTGCAG 60.250 55.000 35.27 22.07 44.04 4.41
3724 3843 0.249363 GATCATGCTCGAGCTGCAGA 60.249 55.000 35.27 25.87 44.04 4.26
3725 3844 0.393448 ATCATGCTCGAGCTGCAGAT 59.607 50.000 35.27 26.72 44.04 2.90
3726 3845 0.529992 TCATGCTCGAGCTGCAGATG 60.530 55.000 35.27 28.07 44.04 2.90
3727 3846 0.810426 CATGCTCGAGCTGCAGATGT 60.810 55.000 35.27 10.43 44.04 3.06
3728 3847 0.107800 ATGCTCGAGCTGCAGATGTT 60.108 50.000 35.27 8.44 44.04 2.71
3729 3848 1.017701 TGCTCGAGCTGCAGATGTTG 61.018 55.000 35.27 3.22 42.66 3.33
3730 3849 0.738762 GCTCGAGCTGCAGATGTTGA 60.739 55.000 29.88 7.95 38.21 3.18
3731 3850 1.279152 CTCGAGCTGCAGATGTTGAG 58.721 55.000 20.43 14.07 0.00 3.02
3732 3851 0.605083 TCGAGCTGCAGATGTTGAGT 59.395 50.000 20.43 0.00 0.00 3.41
3733 3852 0.720027 CGAGCTGCAGATGTTGAGTG 59.280 55.000 20.43 0.00 0.00 3.51
3734 3853 1.085091 GAGCTGCAGATGTTGAGTGG 58.915 55.000 20.43 0.00 0.00 4.00
3735 3854 0.322277 AGCTGCAGATGTTGAGTGGG 60.322 55.000 20.43 0.00 0.00 4.61
3736 3855 1.310933 GCTGCAGATGTTGAGTGGGG 61.311 60.000 20.43 0.00 0.00 4.96
3737 3856 0.325933 CTGCAGATGTTGAGTGGGGA 59.674 55.000 8.42 0.00 0.00 4.81
3738 3857 0.770499 TGCAGATGTTGAGTGGGGAA 59.230 50.000 0.00 0.00 0.00 3.97
3739 3858 1.168714 GCAGATGTTGAGTGGGGAAC 58.831 55.000 0.00 0.00 0.00 3.62
3740 3859 1.271597 GCAGATGTTGAGTGGGGAACT 60.272 52.381 0.00 0.00 43.85 3.01
3741 3860 2.815589 GCAGATGTTGAGTGGGGAACTT 60.816 50.000 0.00 0.00 40.07 2.66
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
33 34 4.776795 ATGTTGGTAAATTCAACCGACC 57.223 40.909 20.15 8.94 46.81 4.79
68 69 2.300152 TCTGTAAACTGTGGAGAGGCTG 59.700 50.000 0.00 0.00 0.00 4.85
644 650 2.916702 TGTCTTGTCACTGTCAGCAT 57.083 45.000 0.00 0.00 0.00 3.79
675 682 2.670905 CCGTTATGAATGTTGCAGACGA 59.329 45.455 0.00 0.00 33.41 4.20
692 699 2.620627 CCCAGAATTTAAGAGGCCCGTT 60.621 50.000 0.00 0.00 0.00 4.44
697 709 2.302260 GAGGCCCAGAATTTAAGAGGC 58.698 52.381 0.00 0.00 39.73 4.70
717 729 4.530875 AGCCCAGATCCAAGTAGAAAATG 58.469 43.478 0.00 0.00 0.00 2.32
724 736 2.320781 GCTAGAGCCCAGATCCAAGTA 58.679 52.381 0.00 0.00 34.31 2.24
818 847 2.130073 GAAAGAAAACCAGCGGCGCT 62.130 55.000 31.35 31.35 40.77 5.92
983 1018 1.227943 ATGCCGATCCAATCCACCG 60.228 57.895 0.00 0.00 0.00 4.94
985 1020 0.179020 TCCATGCCGATCCAATCCAC 60.179 55.000 0.00 0.00 0.00 4.02
1162 1197 2.335011 GTCCACCAAACGCAAGGC 59.665 61.111 0.00 0.00 46.39 4.35
1164 1199 1.106944 AAGGGTCCACCAAACGCAAG 61.107 55.000 0.00 0.00 43.89 4.01
1181 1216 3.374988 TGTATCGGCAAGAATGAGCAAAG 59.625 43.478 0.00 0.00 0.00 2.77
1301 1354 4.281688 ACAATTGTCCATCCAGAAAACAGG 59.718 41.667 4.92 0.00 0.00 4.00
1309 1362 1.820519 CCACCACAATTGTCCATCCAG 59.179 52.381 8.48 0.00 0.00 3.86
1324 1377 0.339859 AGAGCTATGGAGTCCCACCA 59.660 55.000 6.74 0.00 46.98 4.17
1325 1378 1.044611 GAGAGCTATGGAGTCCCACC 58.955 60.000 6.74 0.00 46.98 4.61
1326 1379 1.781786 TGAGAGCTATGGAGTCCCAC 58.218 55.000 6.74 0.00 46.98 4.61
1385 1438 2.029739 TGACATGGTGCTCATTTTGCTG 60.030 45.455 0.00 0.00 32.92 4.41
1410 1463 3.486383 TGTTCCAACTGGACAAGGAATC 58.514 45.455 0.00 0.00 45.39 2.52
1467 1520 3.282021 GGCAAGTTGATATCTCTGCCAA 58.718 45.455 22.29 1.84 40.57 4.52
1471 1524 4.625028 TGATCGGCAAGTTGATATCTCTG 58.375 43.478 7.16 0.00 0.00 3.35
1523 1576 8.280497 AGTACAAACAAGTGATTTAACTAAGCG 58.720 33.333 0.00 0.00 0.00 4.68
1599 1652 8.913487 AATTACCTCGGGTACTAATAAATTGG 57.087 34.615 2.65 0.00 37.97 3.16
1721 1776 9.905713 TTTAGACAAGTTGCTCTCCAATAATAT 57.094 29.630 1.81 0.00 35.55 1.28
1729 1784 7.617041 ACATATTTTAGACAAGTTGCTCTCC 57.383 36.000 1.81 0.00 0.00 3.71
1780 1835 6.360370 TTTTGGAGTAGTCATTCTGCTAGT 57.640 37.500 0.00 0.00 39.14 2.57
1810 1865 5.867174 ACTAAAGGCTTTGTTGTTGTTGTTC 59.133 36.000 22.32 0.00 0.00 3.18
1838 1899 2.570302 TCTAGCCTACCCCAACTTGTTC 59.430 50.000 0.00 0.00 0.00 3.18
1862 1923 7.078228 CCCAAAAGAAAGAGTTATGAGTTTCG 58.922 38.462 0.00 0.00 34.69 3.46
1874 1935 5.536161 TGGAGATGAAACCCAAAAGAAAGAG 59.464 40.000 0.00 0.00 0.00 2.85
2041 2103 6.594744 TGTCATGACATAATAGGTGCATCTT 58.405 36.000 24.56 0.00 36.21 2.40
2108 2170 4.982295 CAGCTACCATTGATTGCATCATTG 59.018 41.667 0.00 1.01 39.39 2.82
2109 2171 4.891168 TCAGCTACCATTGATTGCATCATT 59.109 37.500 0.00 0.00 39.39 2.57
2110 2172 4.466827 TCAGCTACCATTGATTGCATCAT 58.533 39.130 0.00 0.00 39.39 2.45
2111 2173 3.888583 TCAGCTACCATTGATTGCATCA 58.111 40.909 0.00 0.00 37.55 3.07
2124 2186 1.154197 GTTCCGGTTGTTCAGCTACC 58.846 55.000 0.00 0.00 39.19 3.18
2207 2269 3.314693 AGACTAACTGTGGGACCAAGAA 58.685 45.455 0.00 0.00 0.00 2.52
2228 2290 2.037144 GAGAATGGCGACCTAGGGTTA 58.963 52.381 14.81 0.00 35.25 2.85
2269 2334 7.524294 ACTGATTTTTGTTGTTGTGAATGAC 57.476 32.000 0.00 0.00 0.00 3.06
2270 2335 8.545229 AAACTGATTTTTGTTGTTGTGAATGA 57.455 26.923 0.00 0.00 0.00 2.57
2278 2343 8.831715 AGAAACTGAAACTGATTTTTGTTGTT 57.168 26.923 0.00 0.00 0.00 2.83
2279 2344 8.087750 TGAGAAACTGAAACTGATTTTTGTTGT 58.912 29.630 0.00 0.00 0.00 3.32
2281 2346 9.657419 ATTGAGAAACTGAAACTGATTTTTGTT 57.343 25.926 0.00 0.00 0.00 2.83
2283 2348 9.090692 ACATTGAGAAACTGAAACTGATTTTTG 57.909 29.630 0.00 0.00 0.00 2.44
2314 2379 9.520204 GACAATTTTCATATCAAAATCGGTCAT 57.480 29.630 17.20 0.00 38.41 3.06
2315 2380 8.518702 TGACAATTTTCATATCAAAATCGGTCA 58.481 29.630 19.23 19.23 41.59 4.02
2316 2381 8.798153 GTGACAATTTTCATATCAAAATCGGTC 58.202 33.333 16.11 16.11 38.66 4.79
2317 2382 8.303156 TGTGACAATTTTCATATCAAAATCGGT 58.697 29.630 0.00 0.57 35.35 4.69
2318 2383 8.686397 TGTGACAATTTTCATATCAAAATCGG 57.314 30.769 0.00 0.00 35.35 4.18
2388 2454 2.563013 CTTCTCATGGCCACAGGGGG 62.563 65.000 8.16 0.00 37.04 5.40
2432 2551 1.471684 GCACCCAATTTCTGCAGAGAG 59.528 52.381 17.43 8.03 0.00 3.20
2433 2552 1.074405 AGCACCCAATTTCTGCAGAGA 59.926 47.619 17.43 13.58 33.06 3.10
2466 2585 9.863845 TGAAACAAACTGATCGTGACTAATATA 57.136 29.630 0.00 0.00 0.00 0.86
2563 2682 2.168106 CCTGGAGGAGAACATGAGACAG 59.832 54.545 0.00 0.00 37.39 3.51
2575 2694 1.747709 CAATGACTTGCCTGGAGGAG 58.252 55.000 0.00 0.00 37.39 3.69
3265 3384 9.421806 ACATAACATATTGGATTTTGTTGTGTG 57.578 29.630 13.69 5.91 46.05 3.82
3267 3386 8.797215 CGACATAACATATTGGATTTTGTTGTG 58.203 33.333 9.03 9.03 42.95 3.33
3268 3387 8.735315 TCGACATAACATATTGGATTTTGTTGT 58.265 29.630 0.00 0.00 34.39 3.32
3269 3388 9.225201 CTCGACATAACATATTGGATTTTGTTG 57.775 33.333 0.00 0.00 34.39 3.33
3270 3389 8.956426 ACTCGACATAACATATTGGATTTTGTT 58.044 29.630 0.00 0.00 36.37 2.83
3271 3390 8.506168 ACTCGACATAACATATTGGATTTTGT 57.494 30.769 0.00 0.00 0.00 2.83
3272 3391 9.225201 CAACTCGACATAACATATTGGATTTTG 57.775 33.333 0.00 0.00 0.00 2.44
3273 3392 8.956426 ACAACTCGACATAACATATTGGATTTT 58.044 29.630 0.00 0.00 0.00 1.82
3274 3393 8.506168 ACAACTCGACATAACATATTGGATTT 57.494 30.769 0.00 0.00 0.00 2.17
3275 3394 7.042725 CGACAACTCGACATAACATATTGGATT 60.043 37.037 0.00 0.00 43.06 3.01
3276 3395 6.420903 CGACAACTCGACATAACATATTGGAT 59.579 38.462 0.00 0.00 43.06 3.41
3277 3396 5.746721 CGACAACTCGACATAACATATTGGA 59.253 40.000 0.00 0.00 43.06 3.53
3278 3397 5.746721 TCGACAACTCGACATAACATATTGG 59.253 40.000 0.00 0.00 44.14 3.16
3279 3398 6.806120 TCGACAACTCGACATAACATATTG 57.194 37.500 0.00 0.00 44.14 1.90
3385 3504 1.278985 ACCTGCGATCATGAAACTGGA 59.721 47.619 19.20 4.17 0.00 3.86
3399 3518 1.920574 CGACTATTTCAGACACCTGCG 59.079 52.381 0.00 0.00 40.20 5.18
3400 3519 1.661112 GCGACTATTTCAGACACCTGC 59.339 52.381 0.00 0.00 40.20 4.85
3417 3536 1.514678 GGTGGCAACTGTTCATGCGA 61.515 55.000 0.00 0.00 43.47 5.10
3418 3537 1.081242 GGTGGCAACTGTTCATGCG 60.081 57.895 0.00 0.00 43.47 4.73
3429 3548 2.957402 AATCTGTGAAGAGGTGGCAA 57.043 45.000 0.00 0.00 0.00 4.52
3435 3554 8.553459 ACTACAAACATAAATCTGTGAAGAGG 57.447 34.615 0.00 0.00 0.00 3.69
3451 3570 2.869801 CGGCAGAGAACAACTACAAACA 59.130 45.455 0.00 0.00 0.00 2.83
3453 3572 3.462483 TCGGCAGAGAACAACTACAAA 57.538 42.857 0.00 0.00 0.00 2.83
3459 3578 1.390463 GACGATTCGGCAGAGAACAAC 59.610 52.381 7.13 0.00 33.63 3.32
3467 3586 2.311462 CTTCTATCGACGATTCGGCAG 58.689 52.381 16.73 6.94 45.90 4.85
3472 3591 3.318557 AGTTCCCCTTCTATCGACGATTC 59.681 47.826 16.73 0.00 0.00 2.52
3483 3602 3.767711 GAAACCATCAAGTTCCCCTTCT 58.232 45.455 0.00 0.00 0.00 2.85
3484 3603 2.488153 CGAAACCATCAAGTTCCCCTTC 59.512 50.000 0.00 0.00 0.00 3.46
3500 3619 6.500910 ACAGGACAAAAATTACCTTCGAAAC 58.499 36.000 0.00 0.00 0.00 2.78
3509 3628 7.136772 ACTTCGCTAAACAGGACAAAAATTAC 58.863 34.615 0.00 0.00 0.00 1.89
3519 3638 5.972107 ACTACTAACTTCGCTAAACAGGA 57.028 39.130 0.00 0.00 0.00 3.86
3529 3648 9.188588 TGACTCAATTTTGTACTACTAACTTCG 57.811 33.333 0.00 0.00 0.00 3.79
3542 3661 9.480053 CAGGACAAATAAATGACTCAATTTTGT 57.520 29.630 9.78 9.78 32.16 2.83
3543 3662 9.480053 ACAGGACAAATAAATGACTCAATTTTG 57.520 29.630 0.00 0.00 32.16 2.44
3549 3668 9.295825 ACATAAACAGGACAAATAAATGACTCA 57.704 29.630 0.00 0.00 0.00 3.41
3550 3669 9.559958 CACATAAACAGGACAAATAAATGACTC 57.440 33.333 0.00 0.00 0.00 3.36
3551 3670 8.522830 CCACATAAACAGGACAAATAAATGACT 58.477 33.333 0.00 0.00 0.00 3.41
3552 3671 8.519526 TCCACATAAACAGGACAAATAAATGAC 58.480 33.333 0.00 0.00 0.00 3.06
3553 3672 8.642935 TCCACATAAACAGGACAAATAAATGA 57.357 30.769 0.00 0.00 0.00 2.57
3554 3673 9.520204 GATCCACATAAACAGGACAAATAAATG 57.480 33.333 0.00 0.00 0.00 2.32
3555 3674 9.479549 AGATCCACATAAACAGGACAAATAAAT 57.520 29.630 0.00 0.00 0.00 1.40
3556 3675 8.877864 AGATCCACATAAACAGGACAAATAAA 57.122 30.769 0.00 0.00 0.00 1.40
3557 3676 8.328758 AGAGATCCACATAAACAGGACAAATAA 58.671 33.333 0.00 0.00 0.00 1.40
3558 3677 7.861629 AGAGATCCACATAAACAGGACAAATA 58.138 34.615 0.00 0.00 0.00 1.40
3559 3678 6.725364 AGAGATCCACATAAACAGGACAAAT 58.275 36.000 0.00 0.00 0.00 2.32
3560 3679 6.126863 AGAGATCCACATAAACAGGACAAA 57.873 37.500 0.00 0.00 0.00 2.83
3561 3680 5.762179 AGAGATCCACATAAACAGGACAA 57.238 39.130 0.00 0.00 0.00 3.18
3562 3681 6.183361 CCATAGAGATCCACATAAACAGGACA 60.183 42.308 0.00 0.00 0.00 4.02
3563 3682 6.226787 CCATAGAGATCCACATAAACAGGAC 58.773 44.000 0.00 0.00 0.00 3.85
3564 3683 5.221722 GCCATAGAGATCCACATAAACAGGA 60.222 44.000 0.00 0.00 0.00 3.86
3565 3684 4.999950 GCCATAGAGATCCACATAAACAGG 59.000 45.833 0.00 0.00 0.00 4.00
3566 3685 5.699915 CAGCCATAGAGATCCACATAAACAG 59.300 44.000 0.00 0.00 0.00 3.16
3567 3686 5.614308 CAGCCATAGAGATCCACATAAACA 58.386 41.667 0.00 0.00 0.00 2.83
3568 3687 4.453819 GCAGCCATAGAGATCCACATAAAC 59.546 45.833 0.00 0.00 0.00 2.01
3569 3688 4.349048 AGCAGCCATAGAGATCCACATAAA 59.651 41.667 0.00 0.00 0.00 1.40
3570 3689 3.906218 AGCAGCCATAGAGATCCACATAA 59.094 43.478 0.00 0.00 0.00 1.90
3571 3690 3.514539 AGCAGCCATAGAGATCCACATA 58.485 45.455 0.00 0.00 0.00 2.29
3572 3691 2.336891 AGCAGCCATAGAGATCCACAT 58.663 47.619 0.00 0.00 0.00 3.21
3573 3692 1.798626 AGCAGCCATAGAGATCCACA 58.201 50.000 0.00 0.00 0.00 4.17
3574 3693 2.368221 AGAAGCAGCCATAGAGATCCAC 59.632 50.000 0.00 0.00 0.00 4.02
3575 3694 2.632028 GAGAAGCAGCCATAGAGATCCA 59.368 50.000 0.00 0.00 0.00 3.41
3576 3695 2.028203 GGAGAAGCAGCCATAGAGATCC 60.028 54.545 0.00 0.00 0.00 3.36
3577 3696 2.028203 GGGAGAAGCAGCCATAGAGATC 60.028 54.545 0.00 0.00 0.00 2.75
3578 3697 1.977129 GGGAGAAGCAGCCATAGAGAT 59.023 52.381 0.00 0.00 0.00 2.75
3579 3698 1.418334 GGGAGAAGCAGCCATAGAGA 58.582 55.000 0.00 0.00 0.00 3.10
3580 3699 0.396060 GGGGAGAAGCAGCCATAGAG 59.604 60.000 0.00 0.00 0.00 2.43
3581 3700 0.030705 AGGGGAGAAGCAGCCATAGA 60.031 55.000 0.00 0.00 0.00 1.98
3582 3701 0.396060 GAGGGGAGAAGCAGCCATAG 59.604 60.000 0.00 0.00 0.00 2.23
3583 3702 1.402896 CGAGGGGAGAAGCAGCCATA 61.403 60.000 0.00 0.00 0.00 2.74
3584 3703 2.739996 CGAGGGGAGAAGCAGCCAT 61.740 63.158 0.00 0.00 0.00 4.40
3585 3704 3.393970 CGAGGGGAGAAGCAGCCA 61.394 66.667 0.00 0.00 0.00 4.75
3586 3705 3.394836 ACGAGGGGAGAAGCAGCC 61.395 66.667 0.00 0.00 0.00 4.85
3587 3706 2.125350 CACGAGGGGAGAAGCAGC 60.125 66.667 0.00 0.00 0.00 5.25
3588 3707 2.125350 GCACGAGGGGAGAAGCAG 60.125 66.667 0.00 0.00 0.00 4.24
3589 3708 2.172483 GAAGCACGAGGGGAGAAGCA 62.172 60.000 0.00 0.00 0.00 3.91
3590 3709 1.448717 GAAGCACGAGGGGAGAAGC 60.449 63.158 0.00 0.00 0.00 3.86
3591 3710 1.153745 CGAAGCACGAGGGGAGAAG 60.154 63.158 0.00 0.00 45.77 2.85
3592 3711 2.646175 CCGAAGCACGAGGGGAGAA 61.646 63.158 4.96 0.00 45.77 2.87
3593 3712 3.068691 CCGAAGCACGAGGGGAGA 61.069 66.667 4.96 0.00 45.77 3.71
3594 3713 4.148825 CCCGAAGCACGAGGGGAG 62.149 72.222 4.96 0.00 45.77 4.30
3604 3723 2.436824 GGGTGAGAAGCCCGAAGC 60.437 66.667 0.00 0.00 44.25 3.86
3609 3728 0.967380 CAACATGGGGTGAGAAGCCC 60.967 60.000 6.03 6.03 45.35 5.19
3610 3729 0.967380 CCAACATGGGGTGAGAAGCC 60.967 60.000 0.00 0.00 32.67 4.35
3611 3730 2.571548 CCAACATGGGGTGAGAAGC 58.428 57.895 0.00 0.00 32.67 3.86
3621 3740 0.036164 TCGAACTGGACCCAACATGG 59.964 55.000 0.00 0.00 37.25 3.66
3622 3741 1.156736 GTCGAACTGGACCCAACATG 58.843 55.000 0.00 0.00 0.00 3.21
3623 3742 0.320421 CGTCGAACTGGACCCAACAT 60.320 55.000 0.00 0.00 33.30 2.71
3624 3743 1.068417 CGTCGAACTGGACCCAACA 59.932 57.895 0.00 0.00 33.30 3.33
3625 3744 2.315386 GCGTCGAACTGGACCCAAC 61.315 63.158 0.00 0.00 33.30 3.77
3626 3745 2.029964 GCGTCGAACTGGACCCAA 59.970 61.111 0.00 0.00 33.30 4.12
3627 3746 3.998672 GGCGTCGAACTGGACCCA 61.999 66.667 0.00 0.00 33.30 4.51
3628 3747 4.754667 GGGCGTCGAACTGGACCC 62.755 72.222 0.00 0.00 33.30 4.46
3629 3748 4.754667 GGGGCGTCGAACTGGACC 62.755 72.222 0.00 0.00 33.30 4.46
3630 3749 3.524648 TTGGGGCGTCGAACTGGAC 62.525 63.158 0.00 0.00 0.00 4.02
3631 3750 3.234630 CTTGGGGCGTCGAACTGGA 62.235 63.158 0.00 0.00 0.00 3.86
3632 3751 2.742372 CTTGGGGCGTCGAACTGG 60.742 66.667 0.00 0.00 0.00 4.00
3633 3752 2.030562 ACTTGGGGCGTCGAACTG 59.969 61.111 0.00 0.00 0.00 3.16
3634 3753 2.030562 CACTTGGGGCGTCGAACT 59.969 61.111 0.00 0.00 0.00 3.01
3635 3754 0.600782 TAACACTTGGGGCGTCGAAC 60.601 55.000 0.00 0.00 0.00 3.95
3636 3755 0.600782 GTAACACTTGGGGCGTCGAA 60.601 55.000 0.00 0.00 0.00 3.71
3637 3756 1.005867 GTAACACTTGGGGCGTCGA 60.006 57.895 0.00 0.00 0.00 4.20
3638 3757 2.030958 GGTAACACTTGGGGCGTCG 61.031 63.158 0.00 0.00 0.00 5.12
3639 3758 2.030958 CGGTAACACTTGGGGCGTC 61.031 63.158 0.00 0.00 0.00 5.19
3640 3759 2.031465 CGGTAACACTTGGGGCGT 59.969 61.111 0.00 0.00 0.00 5.68
3641 3760 2.744709 CCGGTAACACTTGGGGCG 60.745 66.667 0.00 0.00 0.00 6.13
3642 3761 1.673337 GTCCGGTAACACTTGGGGC 60.673 63.158 0.00 0.00 0.00 5.80
3643 3762 0.399075 AAGTCCGGTAACACTTGGGG 59.601 55.000 0.00 0.00 32.09 4.96
3644 3763 1.804601 GAAGTCCGGTAACACTTGGG 58.195 55.000 10.74 0.00 33.35 4.12
3645 3764 1.000060 TCGAAGTCCGGTAACACTTGG 60.000 52.381 10.74 9.69 33.35 3.61
3646 3765 2.325761 CTCGAAGTCCGGTAACACTTG 58.674 52.381 10.74 4.50 33.35 3.16
3647 3766 1.271656 CCTCGAAGTCCGGTAACACTT 59.728 52.381 5.99 5.99 35.68 3.16
3648 3767 0.886563 CCTCGAAGTCCGGTAACACT 59.113 55.000 0.00 0.00 39.14 3.55
3649 3768 0.108945 CCCTCGAAGTCCGGTAACAC 60.109 60.000 0.00 0.00 39.14 3.32
3650 3769 1.252904 CCCCTCGAAGTCCGGTAACA 61.253 60.000 0.00 0.00 39.14 2.41
3651 3770 1.514553 CCCCTCGAAGTCCGGTAAC 59.485 63.158 0.00 0.00 39.14 2.50
3652 3771 1.683365 CCCCCTCGAAGTCCGGTAA 60.683 63.158 0.00 0.00 39.14 2.85
3653 3772 2.043652 CCCCCTCGAAGTCCGGTA 60.044 66.667 0.00 0.00 39.14 4.02
3654 3773 4.312152 ACCCCCTCGAAGTCCGGT 62.312 66.667 0.00 0.00 39.14 5.28
3655 3774 3.771160 CACCCCCTCGAAGTCCGG 61.771 72.222 0.00 0.00 39.14 5.14
3656 3775 3.771160 CCACCCCCTCGAAGTCCG 61.771 72.222 0.00 0.00 40.25 4.79
3657 3776 4.097361 GCCACCCCCTCGAAGTCC 62.097 72.222 0.00 0.00 0.00 3.85
3658 3777 4.097361 GGCCACCCCCTCGAAGTC 62.097 72.222 0.00 0.00 0.00 3.01
3659 3778 4.658786 AGGCCACCCCCTCGAAGT 62.659 66.667 5.01 0.00 0.00 3.01
3660 3779 3.787001 GAGGCCACCCCCTCGAAG 61.787 72.222 5.01 0.00 41.79 3.79
3675 3794 1.008329 GAGACACTACCTCGACGGAG 58.992 60.000 7.76 0.10 40.14 4.63
3676 3795 0.392193 GGAGACACTACCTCGACGGA 60.392 60.000 7.76 0.00 36.31 4.69
3677 3796 1.703438 CGGAGACACTACCTCGACGG 61.703 65.000 0.00 0.03 39.35 4.79
3678 3797 1.703438 CCGGAGACACTACCTCGACG 61.703 65.000 0.00 0.00 0.00 5.12
3679 3798 0.676151 ACCGGAGACACTACCTCGAC 60.676 60.000 9.46 0.00 0.00 4.20
3680 3799 0.675837 CACCGGAGACACTACCTCGA 60.676 60.000 9.46 0.00 0.00 4.04
3681 3800 0.959372 ACACCGGAGACACTACCTCG 60.959 60.000 9.46 0.00 0.00 4.63
3682 3801 1.067776 CAACACCGGAGACACTACCTC 60.068 57.143 9.46 0.00 0.00 3.85
3683 3802 0.966920 CAACACCGGAGACACTACCT 59.033 55.000 9.46 0.00 0.00 3.08
3684 3803 0.669625 GCAACACCGGAGACACTACC 60.670 60.000 9.46 0.00 0.00 3.18
3685 3804 0.032952 TGCAACACCGGAGACACTAC 59.967 55.000 9.46 0.00 0.00 2.73
3686 3805 0.317160 CTGCAACACCGGAGACACTA 59.683 55.000 9.46 0.00 0.00 2.74
3687 3806 1.069765 CTGCAACACCGGAGACACT 59.930 57.895 9.46 0.00 0.00 3.55
3688 3807 0.320771 ATCTGCAACACCGGAGACAC 60.321 55.000 9.46 0.00 36.07 3.67
3689 3808 0.037326 GATCTGCAACACCGGAGACA 60.037 55.000 9.46 0.75 36.07 3.41
3690 3809 0.037326 TGATCTGCAACACCGGAGAC 60.037 55.000 9.46 0.00 36.07 3.36
3691 3810 0.904649 ATGATCTGCAACACCGGAGA 59.095 50.000 9.46 0.00 37.79 3.71
3692 3811 1.012086 CATGATCTGCAACACCGGAG 58.988 55.000 9.46 1.26 0.00 4.63
3693 3812 3.157727 CATGATCTGCAACACCGGA 57.842 52.632 9.46 0.00 0.00 5.14
3703 3822 0.529992 TGCAGCTCGAGCATGATCTG 60.530 55.000 36.87 25.59 45.16 2.90
3704 3823 0.249531 CTGCAGCTCGAGCATGATCT 60.250 55.000 36.87 14.56 45.16 2.75
3705 3824 0.249363 TCTGCAGCTCGAGCATGATC 60.249 55.000 36.87 20.52 45.16 2.92
3706 3825 0.393448 ATCTGCAGCTCGAGCATGAT 59.607 50.000 36.87 27.32 45.16 2.45
3707 3826 0.529992 CATCTGCAGCTCGAGCATGA 60.530 55.000 36.87 26.49 45.16 3.07
3708 3827 0.810426 ACATCTGCAGCTCGAGCATG 60.810 55.000 36.87 30.14 45.16 4.06
3709 3828 0.107800 AACATCTGCAGCTCGAGCAT 60.108 50.000 36.87 19.77 45.16 3.79
3710 3829 1.017701 CAACATCTGCAGCTCGAGCA 61.018 55.000 36.87 18.29 45.16 4.26
3711 3830 0.738762 TCAACATCTGCAGCTCGAGC 60.739 55.000 30.01 30.01 42.49 5.03
3712 3831 1.279152 CTCAACATCTGCAGCTCGAG 58.721 55.000 9.47 8.45 0.00 4.04
3713 3832 0.605083 ACTCAACATCTGCAGCTCGA 59.395 50.000 9.47 0.00 0.00 4.04
3714 3833 0.720027 CACTCAACATCTGCAGCTCG 59.280 55.000 9.47 1.78 0.00 5.03
3715 3834 1.085091 CCACTCAACATCTGCAGCTC 58.915 55.000 9.47 0.00 0.00 4.09
3716 3835 0.322277 CCCACTCAACATCTGCAGCT 60.322 55.000 9.47 0.00 0.00 4.24
3717 3836 1.310933 CCCCACTCAACATCTGCAGC 61.311 60.000 9.47 0.00 0.00 5.25
3718 3837 0.325933 TCCCCACTCAACATCTGCAG 59.674 55.000 7.63 7.63 0.00 4.41
3719 3838 0.770499 TTCCCCACTCAACATCTGCA 59.230 50.000 0.00 0.00 0.00 4.41
3720 3839 1.168714 GTTCCCCACTCAACATCTGC 58.831 55.000 0.00 0.00 0.00 4.26
3721 3840 2.867109 AGTTCCCCACTCAACATCTG 57.133 50.000 0.00 0.00 0.00 2.90


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

AutoCloner maintained by Alex Coulton.