Multiple sequence alignment - TraesCS1D01G433900

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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 TraesCS1D01G433900 chr1D 100.000 4313 0 0 1 4313 483141065 483145377 0.000000e+00 7965.0
1 TraesCS1D01G433900 chr1D 80.189 530 46 29 3802 4303 492949071 492948573 4.130000e-90 342.0
2 TraesCS1D01G433900 chr1B 94.401 2536 107 21 811 3318 673173090 673175618 0.000000e+00 3864.0
3 TraesCS1D01G433900 chr1B 90.352 881 35 20 3480 4313 673175982 673176859 0.000000e+00 1110.0
4 TraesCS1D01G433900 chr1B 86.201 558 49 16 981 1520 534947376 534946829 2.890000e-161 579.0
5 TraesCS1D01G433900 chr1B 79.777 539 46 35 3802 4303 688706790 688707302 2.490000e-87 333.0
6 TraesCS1D01G433900 chr1B 91.736 121 8 2 50 168 673164796 673164916 2.670000e-37 167.0
7 TraesCS1D01G433900 chr1B 96.552 58 2 0 5 62 673164090 673164147 3.550000e-16 97.1
8 TraesCS1D01G433900 chr1B 88.732 71 7 1 315 385 673172024 673172093 7.680000e-13 86.1
9 TraesCS1D01G433900 chr1A 93.667 2479 110 19 816 3268 579861350 579863807 0.000000e+00 3664.0
10 TraesCS1D01G433900 chr1A 91.844 846 26 16 3505 4313 579864061 579864900 0.000000e+00 1140.0
11 TraesCS1D01G433900 chr1A 90.244 164 14 2 5 168 579859437 579859598 3.380000e-51 213.0
12 TraesCS1D01G433900 chr1A 88.485 165 16 3 5 168 579846739 579846901 3.400000e-46 196.0
13 TraesCS1D01G433900 chr1A 91.379 58 4 1 315 372 579857679 579857735 1.290000e-10 78.7
14 TraesCS1D01G433900 chr1A 91.379 58 4 1 315 372 579860969 579861025 1.290000e-10 78.7
15 TraesCS1D01G433900 chr1A 96.774 31 1 0 2341 2371 565421337 565421307 8.000000e-03 52.8
16 TraesCS1D01G433900 chr3B 88.462 676 61 4 2320 2995 446138475 446137817 0.000000e+00 800.0
17 TraesCS1D01G433900 chr3B 87.407 675 72 3 2320 2994 446145886 446145225 0.000000e+00 763.0
18 TraesCS1D01G433900 chr3B 91.796 451 31 3 1874 2324 446159485 446159041 1.320000e-174 623.0
19 TraesCS1D01G433900 chr3B 81.789 615 76 26 2270 2881 409043021 409042440 2.330000e-132 483.0
20 TraesCS1D01G433900 chr3D 81.169 616 81 25 2270 2881 312161650 312162234 3.040000e-126 462.0
21 TraesCS1D01G433900 chr3A 81.107 614 82 25 2270 2881 420170115 420169534 1.090000e-125 460.0
22 TraesCS1D01G433900 chr7B 87.179 78 8 2 724 801 224717094 224717019 2.140000e-13 87.9
23 TraesCS1D01G433900 chr6B 87.179 78 6 2 724 801 551951870 551951943 7.680000e-13 86.1
24 TraesCS1D01G433900 chr2A 84.615 78 8 2 724 801 151266611 151266684 1.660000e-09 75.0
25 TraesCS1D01G433900 chr4D 82.143 84 11 2 718 801 455531510 455531431 7.740000e-08 69.4
26 TraesCS1D01G433900 chr2B 95.455 44 1 1 724 767 428791631 428791673 7.740000e-08 69.4
27 TraesCS1D01G433900 chr5D 85.714 56 4 3 2343 2396 350682169 350682116 6.030000e-04 56.5


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 TraesCS1D01G433900 chr1D 483141065 483145377 4312 False 7965.00 7965 100.000000 1 4313 1 chr1D.!!$F1 4312
1 TraesCS1D01G433900 chr1B 673172024 673176859 4835 False 1686.70 3864 91.161667 315 4313 3 chr1B.!!$F3 3998
2 TraesCS1D01G433900 chr1B 534946829 534947376 547 True 579.00 579 86.201000 981 1520 1 chr1B.!!$R1 539
3 TraesCS1D01G433900 chr1B 688706790 688707302 512 False 333.00 333 79.777000 3802 4303 1 chr1B.!!$F1 501
4 TraesCS1D01G433900 chr1A 579857679 579864900 7221 False 1034.88 3664 91.702600 5 4313 5 chr1A.!!$F2 4308
5 TraesCS1D01G433900 chr3B 446137817 446138475 658 True 800.00 800 88.462000 2320 2995 1 chr3B.!!$R2 675
6 TraesCS1D01G433900 chr3B 446145225 446145886 661 True 763.00 763 87.407000 2320 2994 1 chr3B.!!$R3 674
7 TraesCS1D01G433900 chr3B 409042440 409043021 581 True 483.00 483 81.789000 2270 2881 1 chr3B.!!$R1 611
8 TraesCS1D01G433900 chr3D 312161650 312162234 584 False 462.00 462 81.169000 2270 2881 1 chr3D.!!$F1 611
9 TraesCS1D01G433900 chr3A 420169534 420170115 581 True 460.00 460 81.107000 2270 2881 1 chr3A.!!$R1 611

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
663 3839 0.107897 ACAGCACGGACTGACACAAA 60.108 50.0 13.19 0.0 40.25 2.83 F
965 4539 0.930742 GTTCATACGAGCCGAGCGAG 60.931 60.0 1.50 0.0 0.00 5.03 F
1623 5227 0.755686 ACGAGATGAGATCCAAGCCC 59.244 55.0 0.00 0.0 0.00 5.19 F
3079 6720 0.038159 GTGTCTGTAGCTGCGTCCTT 60.038 55.0 0.00 0.0 0.00 3.36 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1623 5227 2.106938 TGCTCCTGCCGCGATAAG 59.893 61.111 8.23 1.00 38.71 1.73 R
2772 6403 0.108520 CCACCCTGTACGCGTACATT 60.109 55.000 42.24 29.39 44.15 2.71 R
3213 6854 0.666913 CGTCGGACATTATCCTCGGT 59.333 55.000 9.10 0.00 46.69 4.69 R
4184 8157 1.164041 AAACTGTTCGCCACGAAGGG 61.164 55.000 2.15 2.03 46.54 3.95 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
28 1783 4.590850 AAAGTTCTGCCATTTTCACCTC 57.409 40.909 0.00 0.00 0.00 3.85
30 1785 3.152341 AGTTCTGCCATTTTCACCTCTG 58.848 45.455 0.00 0.00 0.00 3.35
62 1817 9.578439 AAATCAAACAACTCTTCTTTCTTCTTG 57.422 29.630 0.00 0.00 0.00 3.02
64 1819 7.752695 TCAAACAACTCTTCTTTCTTCTTGTC 58.247 34.615 0.00 0.00 0.00 3.18
65 1820 7.390440 TCAAACAACTCTTCTTTCTTCTTGTCA 59.610 33.333 0.00 0.00 0.00 3.58
83 1838 2.162408 GTCAAATTCCCTTTCCAGCTCG 59.838 50.000 0.00 0.00 0.00 5.03
86 1841 2.876368 ATTCCCTTTCCAGCTCGCCG 62.876 60.000 0.00 0.00 0.00 6.46
109 1864 2.401766 GCCTTGCACCAGATGTCGG 61.402 63.158 0.00 0.00 0.00 4.79
112 1867 1.642037 CTTGCACCAGATGTCGGCTG 61.642 60.000 0.00 0.00 0.00 4.85
129 1884 0.448990 CTGGCCACACAACATGATCG 59.551 55.000 0.00 0.00 0.00 3.69
151 1906 9.099454 GATCGGATTCATATTAGTATGGTTTCC 57.901 37.037 5.50 8.10 38.57 3.13
152 1907 8.202461 TCGGATTCATATTAGTATGGTTTCCT 57.798 34.615 5.50 0.00 38.57 3.36
153 1908 8.656806 TCGGATTCATATTAGTATGGTTTCCTT 58.343 33.333 5.50 0.00 38.57 3.36
154 1909 8.721478 CGGATTCATATTAGTATGGTTTCCTTG 58.279 37.037 5.50 0.00 38.57 3.61
155 1910 9.793259 GGATTCATATTAGTATGGTTTCCTTGA 57.207 33.333 5.50 0.00 38.57 3.02
168 1958 7.333528 TGGTTTCCTTGATAGAAATGTATGC 57.666 36.000 0.00 0.00 35.77 3.14
173 1963 8.621532 TTCCTTGATAGAAATGTATGCCATAC 57.378 34.615 7.93 7.93 36.29 2.39
228 2018 7.448748 AAACAAACCCTGTCATACATAGTTC 57.551 36.000 0.00 0.00 37.23 3.01
232 2022 6.620877 AACCCTGTCATACATAGTTCAGAA 57.379 37.500 0.00 0.00 0.00 3.02
233 2023 6.814954 ACCCTGTCATACATAGTTCAGAAT 57.185 37.500 0.00 0.00 0.00 2.40
234 2024 7.200434 ACCCTGTCATACATAGTTCAGAATT 57.800 36.000 0.00 0.00 0.00 2.17
235 2025 7.050377 ACCCTGTCATACATAGTTCAGAATTG 58.950 38.462 0.00 0.00 0.00 2.32
238 2028 7.225538 CCTGTCATACATAGTTCAGAATTGGTC 59.774 40.741 0.00 0.00 0.00 4.02
239 2029 7.619965 TGTCATACATAGTTCAGAATTGGTCA 58.380 34.615 0.00 0.00 0.00 4.02
241 2031 7.549134 GTCATACATAGTTCAGAATTGGTCACA 59.451 37.037 0.00 0.00 0.00 3.58
242 2032 7.549134 TCATACATAGTTCAGAATTGGTCACAC 59.451 37.037 0.00 0.00 0.00 3.82
243 2033 5.003804 ACATAGTTCAGAATTGGTCACACC 58.996 41.667 0.00 0.00 39.22 4.16
245 2035 3.480470 AGTTCAGAATTGGTCACACCTG 58.520 45.455 0.00 0.00 39.58 4.00
246 2036 2.554032 GTTCAGAATTGGTCACACCTGG 59.446 50.000 0.00 0.00 39.58 4.45
247 2037 2.054021 TCAGAATTGGTCACACCTGGA 58.946 47.619 0.00 0.00 39.58 3.86
249 2039 3.074390 TCAGAATTGGTCACACCTGGAAT 59.926 43.478 0.00 0.00 39.58 3.01
250 2040 3.441572 CAGAATTGGTCACACCTGGAATC 59.558 47.826 0.00 0.00 39.58 2.52
251 2041 3.074390 AGAATTGGTCACACCTGGAATCA 59.926 43.478 0.00 0.00 39.58 2.57
253 2043 3.524095 TTGGTCACACCTGGAATCAAT 57.476 42.857 0.00 0.00 39.58 2.57
254 2044 3.524095 TGGTCACACCTGGAATCAATT 57.476 42.857 0.00 0.00 39.58 2.32
257 2047 3.378427 GGTCACACCTGGAATCAATTAGC 59.622 47.826 0.00 0.00 34.73 3.09
271 3145 7.148086 GGAATCAATTAGCGGCATGGATATTAA 60.148 37.037 1.45 0.00 0.00 1.40
276 3150 3.832527 AGCGGCATGGATATTAACCTTT 58.167 40.909 1.45 0.00 0.00 3.11
277 3151 4.215109 AGCGGCATGGATATTAACCTTTT 58.785 39.130 1.45 0.00 0.00 2.27
279 3153 5.473504 AGCGGCATGGATATTAACCTTTTAG 59.526 40.000 1.45 0.00 0.00 1.85
280 3154 5.335661 GCGGCATGGATATTAACCTTTTAGG 60.336 44.000 0.00 0.00 42.49 2.69
372 3350 1.205460 ACCTGGTAATGGGCTTCGGT 61.205 55.000 0.00 0.00 0.00 4.69
374 3352 0.463833 CTGGTAATGGGCTTCGGTCC 60.464 60.000 0.00 0.00 40.83 4.46
379 3357 4.218856 TGGGCTTCGGTCCACTAA 57.781 55.556 0.00 0.00 45.92 2.24
381 3359 1.221021 GGGCTTCGGTCCACTAAGG 59.779 63.158 0.00 0.00 40.02 2.69
406 3516 7.309133 GGAATTGACTGACAAAATATGTGGTCA 60.309 37.037 2.98 2.98 44.12 4.02
423 3533 6.468543 TGTGGTCAGTATATTTAACACAGCA 58.531 36.000 0.00 0.00 33.23 4.41
426 3536 7.962918 GTGGTCAGTATATTTAACACAGCAAAG 59.037 37.037 0.00 0.00 0.00 2.77
442 3557 2.034685 GCAAAGACAGAGAACAAACCCC 59.965 50.000 0.00 0.00 0.00 4.95
468 3583 3.821421 AAAGAATGTAGCTAGGTCCCG 57.179 47.619 0.00 0.00 0.00 5.14
472 3587 0.556747 ATGTAGCTAGGTCCCGGTCT 59.443 55.000 0.00 0.00 0.00 3.85
482 3597 1.677942 GTCCCGGTCTACTAGGACTG 58.322 60.000 0.00 0.00 44.46 3.51
485 3600 2.022934 CCCGGTCTACTAGGACTGAAC 58.977 57.143 0.00 0.00 43.20 3.18
491 3606 5.359009 CGGTCTACTAGGACTGAACCAAATA 59.641 44.000 2.65 0.00 43.20 1.40
495 3610 8.475639 GTCTACTAGGACTGAACCAAATATCAA 58.524 37.037 0.00 0.00 33.81 2.57
498 3613 6.986817 ACTAGGACTGAACCAAATATCAATCG 59.013 38.462 0.00 0.00 0.00 3.34
502 3617 6.984474 GGACTGAACCAAATATCAATCGAGTA 59.016 38.462 0.00 0.00 0.00 2.59
576 3692 6.045318 CACGGATCTCATGTAAGATTTGACT 58.955 40.000 0.00 0.00 36.13 3.41
615 3764 6.738114 TGCCAAGACTGAAAAAGAATAACAG 58.262 36.000 0.00 0.00 35.14 3.16
648 3798 4.691860 AGCAAGATCATTAACACACAGC 57.308 40.909 0.00 0.00 0.00 4.40
651 3801 4.397382 CAAGATCATTAACACACAGCACG 58.603 43.478 0.00 0.00 0.00 5.34
663 3839 0.107897 ACAGCACGGACTGACACAAA 60.108 50.000 13.19 0.00 40.25 2.83
672 3848 6.129194 GCACGGACTGACACAAAATAAAATTC 60.129 38.462 0.00 0.00 0.00 2.17
678 3854 8.006298 ACTGACACAAAATAAAATTCCAGACA 57.994 30.769 0.00 0.00 0.00 3.41
697 3873 5.969435 CAGACAACATACATGCAGCTAAATG 59.031 40.000 6.31 6.31 0.00 2.32
732 3908 7.787424 AGCAAAGACCTTCTATATACTTCCTCT 59.213 37.037 0.00 0.00 0.00 3.69
773 3949 8.594881 AGTGTTTAGATCACTCACTGTTTTAG 57.405 34.615 10.45 0.00 41.52 1.85
774 3950 8.204836 AGTGTTTAGATCACTCACTGTTTTAGT 58.795 33.333 10.45 0.00 41.52 2.24
775 3951 9.472361 GTGTTTAGATCACTCACTGTTTTAGTA 57.528 33.333 0.00 0.00 33.99 1.82
815 4378 8.954834 ATATATCCTTATATCCTCTGAGGCAG 57.045 38.462 19.08 8.81 34.61 4.85
817 4380 5.600669 TCCTTATATCCTCTGAGGCAGTA 57.399 43.478 19.08 11.44 34.61 2.74
818 4381 5.326069 TCCTTATATCCTCTGAGGCAGTAC 58.674 45.833 19.08 0.00 34.61 2.73
819 4382 5.075205 TCCTTATATCCTCTGAGGCAGTACT 59.925 44.000 19.08 0.00 34.61 2.73
820 4383 5.777732 CCTTATATCCTCTGAGGCAGTACTT 59.222 44.000 19.08 2.25 34.61 2.24
821 4384 6.948886 CCTTATATCCTCTGAGGCAGTACTTA 59.051 42.308 19.08 0.00 34.61 2.24
841 4404 9.731819 GTACTTAAAGAAAAAGTAAGCAAGCTT 57.268 29.630 12.42 12.42 40.22 3.74
965 4539 0.930742 GTTCATACGAGCCGAGCGAG 60.931 60.000 1.50 0.00 0.00 5.03
1372 4976 3.386237 GCCTCCTCTGGTGCGTCT 61.386 66.667 0.00 0.00 0.00 4.18
1383 4987 4.700365 TGCGTCTCCGTCGTGCTG 62.700 66.667 0.00 0.00 36.15 4.41
1619 5223 1.335182 GCTCGACGAGATGAGATCCAA 59.665 52.381 28.43 0.00 34.04 3.53
1623 5227 0.755686 ACGAGATGAGATCCAAGCCC 59.244 55.000 0.00 0.00 0.00 5.19
1626 5230 2.630098 CGAGATGAGATCCAAGCCCTTA 59.370 50.000 0.00 0.00 0.00 2.69
1722 5326 2.434185 GGCGACTTCCACATGCGA 60.434 61.111 0.00 0.00 0.00 5.10
1886 5490 2.214216 ACTGCCGGTACTGCTTCCA 61.214 57.895 1.90 0.00 39.97 3.53
2738 6363 4.704833 GTGGCAGAAGCAGGCGGA 62.705 66.667 0.00 0.00 44.61 5.54
2739 6364 4.704833 TGGCAGAAGCAGGCGGAC 62.705 66.667 0.00 0.00 44.61 4.79
2791 6422 2.964174 TGTACGCGTACAGGGTGG 59.036 61.111 40.10 0.00 46.11 4.61
2981 6615 2.435059 GCCGTCCTCCAAGAGCAC 60.435 66.667 0.00 0.00 0.00 4.40
3079 6720 0.038159 GTGTCTGTAGCTGCGTCCTT 60.038 55.000 0.00 0.00 0.00 3.36
3156 6797 2.962569 CCGCAGAAGTCGAGGTCA 59.037 61.111 0.00 0.00 0.00 4.02
3213 6854 2.753043 GGAGCCCTACGACGGACA 60.753 66.667 0.00 0.00 0.00 4.02
3267 6922 2.584608 GTGATCCCACAGTCCCGG 59.415 66.667 0.00 0.00 42.72 5.73
3268 6923 3.399181 TGATCCCACAGTCCCGGC 61.399 66.667 0.00 0.00 0.00 6.13
3269 6924 4.530857 GATCCCACAGTCCCGGCG 62.531 72.222 0.00 0.00 0.00 6.46
3300 6955 1.666011 GGGTCACGCTTCAGACTCA 59.334 57.895 0.00 0.00 35.33 3.41
3303 6958 1.000163 GGTCACGCTTCAGACTCAGAA 60.000 52.381 0.00 0.00 35.18 3.02
3358 7033 6.268825 ACTCAGTAGAAAACGCATCTTAGA 57.731 37.500 0.00 0.00 0.00 2.10
3406 7086 9.773328 TTCAGAAGCAGATTTTACATAAATTCG 57.227 29.630 0.00 0.00 33.28 3.34
3410 7090 9.434559 GAAGCAGATTTTACATAAATTCGGTAC 57.565 33.333 0.00 0.00 33.28 3.34
3426 7106 2.960819 GGTACGTGCATCAGAAACTCT 58.039 47.619 5.86 0.00 0.00 3.24
3427 7107 4.106029 GGTACGTGCATCAGAAACTCTA 57.894 45.455 5.86 0.00 0.00 2.43
3430 7110 5.581085 GGTACGTGCATCAGAAACTCTAATT 59.419 40.000 5.86 0.00 0.00 1.40
3431 7111 5.536554 ACGTGCATCAGAAACTCTAATTG 57.463 39.130 0.00 0.00 0.00 2.32
3432 7112 4.142816 ACGTGCATCAGAAACTCTAATTGC 60.143 41.667 0.00 0.00 0.00 3.56
3433 7113 4.093998 CGTGCATCAGAAACTCTAATTGCT 59.906 41.667 0.00 0.00 30.75 3.91
3434 7114 5.567552 GTGCATCAGAAACTCTAATTGCTC 58.432 41.667 0.00 0.00 30.75 4.26
3435 7115 4.330894 TGCATCAGAAACTCTAATTGCTCG 59.669 41.667 0.00 0.00 30.75 5.03
3436 7116 4.331168 GCATCAGAAACTCTAATTGCTCGT 59.669 41.667 0.00 0.00 0.00 4.18
3452 7310 4.682787 TGCTCGTCATATGGAAACTACTG 58.317 43.478 2.13 0.00 0.00 2.74
3454 7312 5.069119 TGCTCGTCATATGGAAACTACTGAT 59.931 40.000 2.13 0.00 0.00 2.90
3455 7313 6.264518 TGCTCGTCATATGGAAACTACTGATA 59.735 38.462 2.13 0.00 0.00 2.15
3456 7314 6.583050 GCTCGTCATATGGAAACTACTGATAC 59.417 42.308 2.13 0.00 0.00 2.24
3457 7315 7.576861 TCGTCATATGGAAACTACTGATACA 57.423 36.000 2.13 0.00 0.00 2.29
3459 7317 6.359883 CGTCATATGGAAACTACTGATACACG 59.640 42.308 2.13 0.00 0.00 4.49
3460 7318 7.201145 GTCATATGGAAACTACTGATACACGT 58.799 38.462 2.13 0.00 0.00 4.49
3461 7319 8.347771 GTCATATGGAAACTACTGATACACGTA 58.652 37.037 2.13 0.00 0.00 3.57
3462 7320 8.565416 TCATATGGAAACTACTGATACACGTAG 58.435 37.037 2.13 0.00 39.14 3.51
3464 7322 7.870509 ATGGAAACTACTGATACACGTAGTA 57.129 36.000 2.89 0.00 43.92 1.82
3465 7323 7.312657 TGGAAACTACTGATACACGTAGTAG 57.687 40.000 17.10 17.10 43.92 2.57
3467 7325 7.772292 TGGAAACTACTGATACACGTAGTAGAT 59.228 37.037 22.97 12.55 43.92 1.98
3468 7326 8.068977 GGAAACTACTGATACACGTAGTAGATG 58.931 40.741 22.97 4.64 43.92 2.90
3469 7327 7.493743 AACTACTGATACACGTAGTAGATGG 57.506 40.000 22.97 4.35 43.92 3.51
3473 7331 6.793349 ACTGATACACGTAGTAGATGGAAAC 58.207 40.000 0.00 0.00 41.61 2.78
3474 7332 6.376299 ACTGATACACGTAGTAGATGGAAACA 59.624 38.462 0.00 0.00 41.61 2.83
3475 7333 7.094075 ACTGATACACGTAGTAGATGGAAACAA 60.094 37.037 0.00 0.00 43.20 2.83
3476 7334 7.778083 TGATACACGTAGTAGATGGAAACAAT 58.222 34.615 0.00 0.00 43.20 2.71
3477 7335 7.704899 TGATACACGTAGTAGATGGAAACAATG 59.295 37.037 0.00 0.00 43.20 2.82
3478 7336 5.175859 ACACGTAGTAGATGGAAACAATGG 58.824 41.667 0.00 0.00 43.20 3.16
3479 7337 4.570772 CACGTAGTAGATGGAAACAATGGG 59.429 45.833 0.00 0.00 43.20 4.00
3481 7339 5.626116 ACGTAGTAGATGGAAACAATGGGTC 60.626 44.000 0.00 0.00 43.23 4.46
3482 7340 7.982427 ACGTAGTAGATGGAAACAATGGGTCA 61.982 42.308 0.00 0.00 43.23 4.02
3483 7341 9.210803 ACGTAGTAGATGGAAACAATGGGTCAT 62.211 40.741 0.00 0.00 43.23 3.06
3494 7356 5.168647 ACAATGGGTCATCAATTGCAAAT 57.831 34.783 1.71 0.00 0.00 2.32
3554 7451 6.016024 AGCAGCATTGATGTCAAAGAGTTTTA 60.016 34.615 3.56 0.00 39.55 1.52
3609 7521 2.880268 TGAGACATGCCAGTCACAAAAG 59.120 45.455 8.16 0.00 40.98 2.27
3610 7522 2.227388 GAGACATGCCAGTCACAAAAGG 59.773 50.000 8.16 0.00 40.98 3.11
3615 7527 3.071874 TGCCAGTCACAAAAGGGATAG 57.928 47.619 0.00 0.00 0.00 2.08
3616 7528 2.642311 TGCCAGTCACAAAAGGGATAGA 59.358 45.455 0.00 0.00 0.00 1.98
3618 7530 4.079253 GCCAGTCACAAAAGGGATAGAAA 58.921 43.478 0.00 0.00 0.00 2.52
3620 7532 5.393461 GCCAGTCACAAAAGGGATAGAAATG 60.393 44.000 0.00 0.00 0.00 2.32
3621 7533 5.945784 CCAGTCACAAAAGGGATAGAAATGA 59.054 40.000 0.00 0.00 0.00 2.57
3622 7534 6.094603 CCAGTCACAAAAGGGATAGAAATGAG 59.905 42.308 0.00 0.00 0.00 2.90
3623 7535 6.881065 CAGTCACAAAAGGGATAGAAATGAGA 59.119 38.462 0.00 0.00 0.00 3.27
3624 7536 6.881602 AGTCACAAAAGGGATAGAAATGAGAC 59.118 38.462 0.00 0.00 0.00 3.36
3625 7537 5.874810 TCACAAAAGGGATAGAAATGAGACG 59.125 40.000 0.00 0.00 0.00 4.18
3794 7711 5.944007 ACAGCCAACTTATTACTTTCCGAAT 59.056 36.000 0.00 0.00 0.00 3.34
4184 8157 1.880027 CCCTTGTACAGAGCACCAAAC 59.120 52.381 0.00 0.00 0.00 2.93
4250 8223 1.676967 CTGGAGTGCCTCTTTGCCC 60.677 63.158 2.79 0.00 34.31 5.36
4286 8259 4.687215 GCAGCGTGACTCCAGCCA 62.687 66.667 0.00 0.00 0.00 4.75
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 4.390048 GGCAGAACTTTACCGCCA 57.610 55.556 0.00 0.00 42.50 5.69
1 2 1.173913 AATGGCAGAACTTTACCGCC 58.826 50.000 0.00 0.00 43.28 6.13
2 3 3.242518 GAAAATGGCAGAACTTTACCGC 58.757 45.455 0.00 0.00 0.00 5.68
3 4 4.226761 GTGAAAATGGCAGAACTTTACCG 58.773 43.478 0.00 0.00 0.00 4.02
4 5 4.280929 AGGTGAAAATGGCAGAACTTTACC 59.719 41.667 0.00 0.17 0.00 2.85
5 6 5.241728 AGAGGTGAAAATGGCAGAACTTTAC 59.758 40.000 0.00 0.00 0.00 2.01
6 7 5.241506 CAGAGGTGAAAATGGCAGAACTTTA 59.758 40.000 0.00 0.00 0.00 1.85
7 8 4.038402 CAGAGGTGAAAATGGCAGAACTTT 59.962 41.667 0.00 0.00 0.00 2.66
28 1783 5.179045 AGAGTTGTTTGATTTGCTCACAG 57.821 39.130 0.00 0.00 32.17 3.66
30 1785 5.825507 AGAAGAGTTGTTTGATTTGCTCAC 58.174 37.500 0.00 0.00 32.17 3.51
62 1817 2.162408 CGAGCTGGAAAGGGAATTTGAC 59.838 50.000 0.00 0.00 0.00 3.18
64 1819 1.135286 GCGAGCTGGAAAGGGAATTTG 60.135 52.381 0.00 0.00 0.00 2.32
65 1820 1.177401 GCGAGCTGGAAAGGGAATTT 58.823 50.000 0.00 0.00 0.00 1.82
86 1841 3.984193 ATCTGGTGCAAGGCCTCGC 62.984 63.158 9.35 9.35 0.00 5.03
100 1855 2.821366 GTGGCCAGCCGACATCTG 60.821 66.667 5.11 0.00 39.42 2.90
109 1864 0.171903 GATCATGTTGTGTGGCCAGC 59.828 55.000 5.11 2.20 0.00 4.85
112 1867 0.676466 TCCGATCATGTTGTGTGGCC 60.676 55.000 0.00 0.00 0.00 5.36
115 1870 4.888038 ATGAATCCGATCATGTTGTGTG 57.112 40.909 0.00 0.00 38.59 3.82
129 1884 9.793259 TCAAGGAAACCATACTAATATGAATCC 57.207 33.333 0.00 0.00 40.75 3.01
200 1990 9.528489 ACTATGTATGACAGGGTTTGTTTTTAT 57.472 29.630 0.00 0.00 41.05 1.40
215 2005 7.549134 TGTGACCAATTCTGAACTATGTATGAC 59.451 37.037 0.00 0.00 0.00 3.06
228 2018 2.566833 TCCAGGTGTGACCAATTCTG 57.433 50.000 0.00 0.00 41.95 3.02
232 2022 3.524095 TTGATTCCAGGTGTGACCAAT 57.476 42.857 0.00 0.00 41.95 3.16
233 2023 3.524095 ATTGATTCCAGGTGTGACCAA 57.476 42.857 0.00 0.00 41.95 3.67
234 2024 3.524095 AATTGATTCCAGGTGTGACCA 57.476 42.857 0.00 0.00 41.95 4.02
235 2025 3.378427 GCTAATTGATTCCAGGTGTGACC 59.622 47.826 0.00 0.00 38.99 4.02
238 2028 2.355756 CCGCTAATTGATTCCAGGTGTG 59.644 50.000 0.00 0.00 0.00 3.82
239 2029 2.643551 CCGCTAATTGATTCCAGGTGT 58.356 47.619 0.00 0.00 0.00 4.16
241 2031 1.064758 TGCCGCTAATTGATTCCAGGT 60.065 47.619 0.00 0.00 0.00 4.00
242 2032 1.679139 TGCCGCTAATTGATTCCAGG 58.321 50.000 0.00 0.00 0.00 4.45
243 2033 2.030540 CCATGCCGCTAATTGATTCCAG 60.031 50.000 0.00 0.00 0.00 3.86
245 2035 2.229792 TCCATGCCGCTAATTGATTCC 58.770 47.619 0.00 0.00 0.00 3.01
246 2036 5.824904 ATATCCATGCCGCTAATTGATTC 57.175 39.130 0.00 0.00 0.00 2.52
247 2037 7.362920 GGTTAATATCCATGCCGCTAATTGATT 60.363 37.037 0.00 0.00 0.00 2.57
249 2039 5.414454 GGTTAATATCCATGCCGCTAATTGA 59.586 40.000 0.00 0.00 0.00 2.57
250 2040 5.415701 AGGTTAATATCCATGCCGCTAATTG 59.584 40.000 0.00 0.00 0.00 2.32
251 2041 5.570320 AGGTTAATATCCATGCCGCTAATT 58.430 37.500 0.00 0.00 0.00 1.40
253 2043 4.634012 AGGTTAATATCCATGCCGCTAA 57.366 40.909 0.00 0.00 0.00 3.09
254 2044 4.634012 AAGGTTAATATCCATGCCGCTA 57.366 40.909 0.00 0.00 0.00 4.26
257 2047 6.001460 TCCTAAAAGGTTAATATCCATGCCG 58.999 40.000 0.00 0.00 36.53 5.69
290 3164 8.272173 TGTGTGGGTATTTTTGGGAAATTTTTA 58.728 29.630 0.00 0.00 0.00 1.52
291 3165 7.067615 GTGTGTGGGTATTTTTGGGAAATTTTT 59.932 33.333 0.00 0.00 0.00 1.94
296 3170 4.030913 TGTGTGTGGGTATTTTTGGGAAA 58.969 39.130 0.00 0.00 0.00 3.13
297 3171 3.385111 GTGTGTGTGGGTATTTTTGGGAA 59.615 43.478 0.00 0.00 0.00 3.97
299 3173 2.695666 TGTGTGTGTGGGTATTTTTGGG 59.304 45.455 0.00 0.00 0.00 4.12
300 3174 3.634448 TCTGTGTGTGTGGGTATTTTTGG 59.366 43.478 0.00 0.00 0.00 3.28
301 3175 4.909696 TCTGTGTGTGTGGGTATTTTTG 57.090 40.909 0.00 0.00 0.00 2.44
305 3230 4.431416 TCTTTCTGTGTGTGTGGGTATT 57.569 40.909 0.00 0.00 0.00 1.89
372 3350 5.560722 TTGTCAGTCAATTCCTTAGTGGA 57.439 39.130 0.00 0.00 44.51 4.02
374 3352 9.778993 CATATTTTGTCAGTCAATTCCTTAGTG 57.221 33.333 0.00 0.00 35.84 2.74
375 3353 9.520515 ACATATTTTGTCAGTCAATTCCTTAGT 57.479 29.630 0.00 0.00 35.84 2.24
377 3355 8.739039 CCACATATTTTGTCAGTCAATTCCTTA 58.261 33.333 0.00 0.00 36.00 2.69
379 3357 6.721208 ACCACATATTTTGTCAGTCAATTCCT 59.279 34.615 0.00 0.00 36.00 3.36
381 3359 7.592938 TGACCACATATTTTGTCAGTCAATTC 58.407 34.615 6.99 0.00 41.93 2.17
383 3361 7.149569 CTGACCACATATTTTGTCAGTCAAT 57.850 36.000 12.70 0.00 46.02 2.57
384 3362 6.558771 CTGACCACATATTTTGTCAGTCAA 57.441 37.500 12.70 0.00 46.02 3.18
406 3516 9.155975 CTCTGTCTTTGCTGTGTTAAATATACT 57.844 33.333 0.00 0.00 0.00 2.12
407 3517 9.151471 TCTCTGTCTTTGCTGTGTTAAATATAC 57.849 33.333 0.00 0.00 0.00 1.47
421 3531 2.034685 GGGGTTTGTTCTCTGTCTTTGC 59.965 50.000 0.00 0.00 0.00 3.68
423 3533 3.662759 TGGGGTTTGTTCTCTGTCTTT 57.337 42.857 0.00 0.00 0.00 2.52
426 3536 4.729227 TTTTTGGGGTTTGTTCTCTGTC 57.271 40.909 0.00 0.00 0.00 3.51
450 3565 1.063114 ACCGGGACCTAGCTACATTCT 60.063 52.381 6.32 0.00 0.00 2.40
452 3567 1.063114 AGACCGGGACCTAGCTACATT 60.063 52.381 6.32 0.00 0.00 2.71
453 3568 0.556747 AGACCGGGACCTAGCTACAT 59.443 55.000 6.32 0.00 0.00 2.29
457 3572 1.420891 CTAGTAGACCGGGACCTAGCT 59.579 57.143 6.32 7.14 0.00 3.32
466 3581 2.022934 GGTTCAGTCCTAGTAGACCGG 58.977 57.143 0.00 0.00 37.49 5.28
468 3583 5.678955 ATTTGGTTCAGTCCTAGTAGACC 57.321 43.478 0.00 0.00 37.49 3.85
472 3587 8.141909 CGATTGATATTTGGTTCAGTCCTAGTA 58.858 37.037 0.00 0.00 0.00 1.82
540 3655 3.634448 TGAGATCCGTGCAAAAGGAAAAA 59.366 39.130 10.34 0.00 40.32 1.94
541 3656 3.218453 TGAGATCCGTGCAAAAGGAAAA 58.782 40.909 10.34 0.00 40.32 2.29
542 3657 2.857483 TGAGATCCGTGCAAAAGGAAA 58.143 42.857 10.34 0.00 40.32 3.13
543 3658 2.559698 TGAGATCCGTGCAAAAGGAA 57.440 45.000 10.34 0.00 40.32 3.36
544 3659 2.290260 ACATGAGATCCGTGCAAAAGGA 60.290 45.455 0.00 8.94 41.30 3.36
545 3660 2.086869 ACATGAGATCCGTGCAAAAGG 58.913 47.619 0.00 0.00 35.17 3.11
546 3661 4.631377 TCTTACATGAGATCCGTGCAAAAG 59.369 41.667 0.00 0.00 35.17 2.27
576 3692 9.020731 TCAGTCTTGGCAGTCGATATTATATTA 57.979 33.333 0.00 0.00 0.00 0.98
592 3708 6.970484 TCTGTTATTCTTTTTCAGTCTTGGC 58.030 36.000 0.00 0.00 0.00 4.52
593 3709 8.786898 TCATCTGTTATTCTTTTTCAGTCTTGG 58.213 33.333 0.00 0.00 0.00 3.61
615 3764 6.595772 AATGATCTTGCTTTACGACTCATC 57.404 37.500 0.00 0.00 0.00 2.92
648 3798 6.362283 GGAATTTTATTTTGTGTCAGTCCGTG 59.638 38.462 0.00 0.00 0.00 4.94
651 3801 7.595130 GTCTGGAATTTTATTTTGTGTCAGTCC 59.405 37.037 0.00 0.00 0.00 3.85
663 3839 8.530311 TGCATGTATGTTGTCTGGAATTTTATT 58.470 29.630 0.00 0.00 0.00 1.40
672 3848 2.362736 AGCTGCATGTATGTTGTCTGG 58.637 47.619 1.02 0.00 0.00 3.86
687 3863 9.520204 TCTTTGCTATTTTATTCATTTAGCTGC 57.480 29.630 0.00 0.00 36.94 5.25
749 3925 8.366671 ACTAAAACAGTGAGTGATCTAAACAC 57.633 34.615 0.00 0.00 35.62 3.32
794 4357 5.022227 ACTGCCTCAGAGGATATAAGGAT 57.978 43.478 21.89 0.00 37.67 3.24
799 4362 8.225416 TCTTTAAGTACTGCCTCAGAGGATATA 58.775 37.037 21.89 5.32 37.67 0.86
801 4364 6.432581 TCTTTAAGTACTGCCTCAGAGGATA 58.567 40.000 21.89 7.16 37.67 2.59
803 4366 4.673968 TCTTTAAGTACTGCCTCAGAGGA 58.326 43.478 21.89 4.58 37.67 3.71
804 4367 5.407407 TTCTTTAAGTACTGCCTCAGAGG 57.593 43.478 12.81 12.81 38.80 3.69
805 4368 7.442666 ACTTTTTCTTTAAGTACTGCCTCAGAG 59.557 37.037 0.00 0.00 34.22 3.35
806 4369 7.280356 ACTTTTTCTTTAAGTACTGCCTCAGA 58.720 34.615 0.00 0.00 34.22 3.27
807 4370 7.497925 ACTTTTTCTTTAAGTACTGCCTCAG 57.502 36.000 0.00 0.00 34.22 3.35
808 4371 8.967664 TTACTTTTTCTTTAAGTACTGCCTCA 57.032 30.769 0.00 0.00 37.70 3.86
809 4372 8.016229 GCTTACTTTTTCTTTAAGTACTGCCTC 58.984 37.037 0.00 0.00 37.70 4.70
811 4374 7.645402 TGCTTACTTTTTCTTTAAGTACTGCC 58.355 34.615 0.00 0.00 37.70 4.85
812 4375 9.170584 CTTGCTTACTTTTTCTTTAAGTACTGC 57.829 33.333 0.00 0.00 37.70 4.40
813 4376 9.170584 GCTTGCTTACTTTTTCTTTAAGTACTG 57.829 33.333 0.00 0.00 37.70 2.74
814 4377 9.121658 AGCTTGCTTACTTTTTCTTTAAGTACT 57.878 29.630 0.00 0.00 37.70 2.73
815 4378 9.731819 AAGCTTGCTTACTTTTTCTTTAAGTAC 57.268 29.630 6.02 0.00 37.70 2.73
817 4380 8.251026 ACAAGCTTGCTTACTTTTTCTTTAAGT 58.749 29.630 26.27 0.00 39.13 2.24
818 4381 8.534778 CACAAGCTTGCTTACTTTTTCTTTAAG 58.465 33.333 26.27 0.00 0.00 1.85
819 4382 8.032451 ACACAAGCTTGCTTACTTTTTCTTTAA 58.968 29.630 26.27 0.00 0.00 1.52
820 4383 7.543756 ACACAAGCTTGCTTACTTTTTCTTTA 58.456 30.769 26.27 0.00 0.00 1.85
821 4384 6.398095 ACACAAGCTTGCTTACTTTTTCTTT 58.602 32.000 26.27 0.00 0.00 2.52
1372 4976 3.371063 GGACTCCAGCACGACGGA 61.371 66.667 0.00 0.00 0.00 4.69
1383 4987 2.745492 ACGACCTCGACGGACTCC 60.745 66.667 0.78 0.00 43.02 3.85
1623 5227 2.106938 TGCTCCTGCCGCGATAAG 59.893 61.111 8.23 1.00 38.71 1.73
1886 5490 3.441290 CCCGCTTCTCCTCGTCGT 61.441 66.667 0.00 0.00 0.00 4.34
2250 5857 3.044059 GACGCTGCCATTGCCACTC 62.044 63.158 0.00 0.00 36.33 3.51
2256 5863 2.568090 GGGTTGACGCTGCCATTG 59.432 61.111 0.00 0.00 0.00 2.82
2772 6403 0.108520 CCACCCTGTACGCGTACATT 60.109 55.000 42.24 29.39 44.15 2.71
2791 6422 2.766229 GCCCCTCTCCCTCTCCAC 60.766 72.222 0.00 0.00 0.00 4.02
3079 6720 2.048222 CAACGGCGAGCTCCAAGA 60.048 61.111 16.62 0.00 0.00 3.02
3186 6827 3.296842 TAGGGCTCCGACCTGCTGA 62.297 63.158 0.00 0.00 43.53 4.26
3213 6854 0.666913 CGTCGGACATTATCCTCGGT 59.333 55.000 9.10 0.00 46.69 4.69
3278 6933 4.760047 CTGAAGCGTGACCCCCGG 62.760 72.222 0.00 0.00 0.00 5.73
3279 6934 3.691342 TCTGAAGCGTGACCCCCG 61.691 66.667 0.00 0.00 0.00 5.73
3280 6935 2.047179 GTCTGAAGCGTGACCCCC 60.047 66.667 0.00 0.00 0.00 5.40
3300 6955 3.955650 TTGCGTTTCTAGCCTAGTTCT 57.044 42.857 0.00 0.00 0.00 3.01
3303 6958 7.625828 AAAAATATTGCGTTTCTAGCCTAGT 57.374 32.000 0.00 0.00 0.00 2.57
3338 7004 6.093404 TCTGTCTAAGATGCGTTTTCTACTG 58.907 40.000 0.00 0.00 0.00 2.74
3339 7005 6.268825 TCTGTCTAAGATGCGTTTTCTACT 57.731 37.500 0.00 0.00 0.00 2.57
3340 7006 6.807230 TCTTCTGTCTAAGATGCGTTTTCTAC 59.193 38.462 0.00 0.00 33.93 2.59
3341 7007 6.920817 TCTTCTGTCTAAGATGCGTTTTCTA 58.079 36.000 0.00 0.00 33.93 2.10
3346 7021 5.392767 TCTTCTTCTGTCTAAGATGCGTT 57.607 39.130 0.00 0.00 35.48 4.84
3381 7061 8.397906 CCGAATTTATGTAAAATCTGCTTCTGA 58.602 33.333 0.00 0.00 0.00 3.27
3382 7062 8.184192 ACCGAATTTATGTAAAATCTGCTTCTG 58.816 33.333 0.00 0.00 0.00 3.02
3384 7064 9.434559 GTACCGAATTTATGTAAAATCTGCTTC 57.565 33.333 0.00 0.00 0.00 3.86
3385 7065 8.120465 CGTACCGAATTTATGTAAAATCTGCTT 58.880 33.333 0.00 0.00 0.00 3.91
3386 7066 7.279313 ACGTACCGAATTTATGTAAAATCTGCT 59.721 33.333 0.00 0.00 0.00 4.24
3387 7067 7.372396 CACGTACCGAATTTATGTAAAATCTGC 59.628 37.037 0.00 0.00 0.00 4.26
3388 7068 7.372396 GCACGTACCGAATTTATGTAAAATCTG 59.628 37.037 0.00 0.00 0.00 2.90
3389 7069 7.064847 TGCACGTACCGAATTTATGTAAAATCT 59.935 33.333 0.00 0.00 0.00 2.40
3390 7070 7.181418 TGCACGTACCGAATTTATGTAAAATC 58.819 34.615 0.00 0.00 0.00 2.17
3393 7073 6.313164 TGATGCACGTACCGAATTTATGTAAA 59.687 34.615 0.00 0.00 0.00 2.01
3395 7075 5.349809 TGATGCACGTACCGAATTTATGTA 58.650 37.500 0.00 0.00 0.00 2.29
3396 7076 4.185394 TGATGCACGTACCGAATTTATGT 58.815 39.130 0.00 0.00 0.00 2.29
3401 7081 2.665649 TCTGATGCACGTACCGAATT 57.334 45.000 0.00 0.00 0.00 2.17
3402 7082 2.665649 TTCTGATGCACGTACCGAAT 57.334 45.000 0.00 0.00 0.00 3.34
3403 7083 2.063266 GTTTCTGATGCACGTACCGAA 58.937 47.619 0.00 0.00 0.00 4.30
3406 7086 2.960819 AGAGTTTCTGATGCACGTACC 58.039 47.619 0.00 0.00 0.00 3.34
3410 7090 4.093998 AGCAATTAGAGTTTCTGATGCACG 59.906 41.667 0.00 0.00 34.95 5.34
3411 7091 5.557891 AGCAATTAGAGTTTCTGATGCAC 57.442 39.130 0.00 0.00 34.95 4.57
3412 7092 4.330894 CGAGCAATTAGAGTTTCTGATGCA 59.669 41.667 0.00 0.00 34.95 3.96
3413 7093 4.331168 ACGAGCAATTAGAGTTTCTGATGC 59.669 41.667 0.00 0.00 33.66 3.91
3415 7095 5.724328 TGACGAGCAATTAGAGTTTCTGAT 58.276 37.500 0.00 0.00 0.00 2.90
3416 7096 5.134202 TGACGAGCAATTAGAGTTTCTGA 57.866 39.130 0.00 0.00 0.00 3.27
3418 7098 6.703607 CCATATGACGAGCAATTAGAGTTTCT 59.296 38.462 3.65 0.00 0.00 2.52
3419 7099 6.701841 TCCATATGACGAGCAATTAGAGTTTC 59.298 38.462 3.65 0.00 0.00 2.78
3420 7100 6.582636 TCCATATGACGAGCAATTAGAGTTT 58.417 36.000 3.65 0.00 0.00 2.66
3421 7101 6.161855 TCCATATGACGAGCAATTAGAGTT 57.838 37.500 3.65 0.00 0.00 3.01
3422 7102 5.791336 TCCATATGACGAGCAATTAGAGT 57.209 39.130 3.65 0.00 0.00 3.24
3423 7103 6.703607 AGTTTCCATATGACGAGCAATTAGAG 59.296 38.462 3.65 0.00 0.00 2.43
3425 7105 6.851222 AGTTTCCATATGACGAGCAATTAG 57.149 37.500 3.65 0.00 0.00 1.73
3426 7106 7.438160 CAGTAGTTTCCATATGACGAGCAATTA 59.562 37.037 3.65 0.00 0.00 1.40
3427 7107 6.258727 CAGTAGTTTCCATATGACGAGCAATT 59.741 38.462 3.65 0.00 0.00 2.32
3430 7110 4.401202 TCAGTAGTTTCCATATGACGAGCA 59.599 41.667 3.65 0.00 0.00 4.26
3431 7111 4.933330 TCAGTAGTTTCCATATGACGAGC 58.067 43.478 3.65 0.00 0.00 5.03
3432 7112 7.591795 GTGTATCAGTAGTTTCCATATGACGAG 59.408 40.741 3.65 0.00 0.00 4.18
3433 7113 7.423199 GTGTATCAGTAGTTTCCATATGACGA 58.577 38.462 3.65 0.00 0.00 4.20
3434 7114 6.359883 CGTGTATCAGTAGTTTCCATATGACG 59.640 42.308 3.65 0.00 0.00 4.35
3435 7115 7.201145 ACGTGTATCAGTAGTTTCCATATGAC 58.799 38.462 3.65 0.00 0.00 3.06
3436 7116 7.342769 ACGTGTATCAGTAGTTTCCATATGA 57.657 36.000 3.65 0.00 0.00 2.15
3452 7310 7.169308 CCATTGTTTCCATCTACTACGTGTATC 59.831 40.741 0.00 0.00 0.00 2.24
3454 7312 6.334989 CCATTGTTTCCATCTACTACGTGTA 58.665 40.000 0.00 0.00 0.00 2.90
3455 7313 5.175859 CCATTGTTTCCATCTACTACGTGT 58.824 41.667 0.00 0.00 0.00 4.49
3456 7314 4.570772 CCCATTGTTTCCATCTACTACGTG 59.429 45.833 0.00 0.00 0.00 4.49
3457 7315 4.224370 ACCCATTGTTTCCATCTACTACGT 59.776 41.667 0.00 0.00 0.00 3.57
3459 7317 5.741011 TGACCCATTGTTTCCATCTACTAC 58.259 41.667 0.00 0.00 0.00 2.73
3460 7318 6.157820 TGATGACCCATTGTTTCCATCTACTA 59.842 38.462 0.00 0.00 33.55 1.82
3461 7319 4.927267 TGACCCATTGTTTCCATCTACT 57.073 40.909 0.00 0.00 0.00 2.57
3462 7320 5.192927 TGATGACCCATTGTTTCCATCTAC 58.807 41.667 0.00 0.00 33.55 2.59
3464 7322 4.320546 TGATGACCCATTGTTTCCATCT 57.679 40.909 0.00 0.00 33.55 2.90
3465 7323 5.603170 ATTGATGACCCATTGTTTCCATC 57.397 39.130 0.00 0.00 0.00 3.51
3467 7325 4.563168 GCAATTGATGACCCATTGTTTCCA 60.563 41.667 10.34 0.00 0.00 3.53
3468 7326 3.934579 GCAATTGATGACCCATTGTTTCC 59.065 43.478 10.34 0.00 0.00 3.13
3469 7327 4.567971 TGCAATTGATGACCCATTGTTTC 58.432 39.130 10.34 0.00 0.00 2.78
3473 7331 7.612668 TTTATTTGCAATTGATGACCCATTG 57.387 32.000 10.34 0.00 0.00 2.82
3474 7332 9.550406 CTATTTATTTGCAATTGATGACCCATT 57.450 29.630 10.34 0.00 0.00 3.16
3475 7333 8.926374 TCTATTTATTTGCAATTGATGACCCAT 58.074 29.630 10.34 0.00 0.00 4.00
3476 7334 8.196771 GTCTATTTATTTGCAATTGATGACCCA 58.803 33.333 10.34 0.00 0.00 4.51
3477 7335 8.416329 AGTCTATTTATTTGCAATTGATGACCC 58.584 33.333 10.34 0.00 0.00 4.46
3554 7451 5.882000 TGTTGCTGCTTATATGTGTCTGAAT 59.118 36.000 0.00 0.00 0.00 2.57
3568 7465 3.130869 TCATTTGTTGAGTGTTGCTGCTT 59.869 39.130 0.00 0.00 0.00 3.91
3593 7505 1.619654 TCCCTTTTGTGACTGGCATG 58.380 50.000 0.00 0.00 0.00 4.06
3609 7521 3.179443 TGCACGTCTCATTTCTATCCC 57.821 47.619 0.00 0.00 0.00 3.85
3610 7522 3.932710 TGTTGCACGTCTCATTTCTATCC 59.067 43.478 0.00 0.00 0.00 2.59
3615 7527 4.209452 TCTTTGTTGCACGTCTCATTTC 57.791 40.909 0.00 0.00 0.00 2.17
3616 7528 3.627577 ACTCTTTGTTGCACGTCTCATTT 59.372 39.130 0.00 0.00 0.00 2.32
3618 7530 2.545526 CACTCTTTGTTGCACGTCTCAT 59.454 45.455 0.00 0.00 0.00 2.90
3620 7532 2.201732 TCACTCTTTGTTGCACGTCTC 58.798 47.619 0.00 0.00 0.00 3.36
3621 7533 2.309528 TCACTCTTTGTTGCACGTCT 57.690 45.000 0.00 0.00 0.00 4.18
3622 7534 2.607635 TCTTCACTCTTTGTTGCACGTC 59.392 45.455 0.00 0.00 0.00 4.34
3623 7535 2.627945 TCTTCACTCTTTGTTGCACGT 58.372 42.857 0.00 0.00 0.00 4.49
3624 7536 3.673746 TTCTTCACTCTTTGTTGCACG 57.326 42.857 0.00 0.00 0.00 5.34
3625 7537 5.640732 TCTTTTCTTCACTCTTTGTTGCAC 58.359 37.500 0.00 0.00 0.00 4.57
3794 7711 1.136305 CGGAACCCTAATTGCTCTCGA 59.864 52.381 0.00 0.00 0.00 4.04
4035 7990 1.754234 GGTGCCTTCCATCGCCATT 60.754 57.895 0.00 0.00 33.28 3.16
4184 8157 1.164041 AAACTGTTCGCCACGAAGGG 61.164 55.000 2.15 2.03 46.54 3.95
4250 8223 4.808364 GCTGCTTCTATTGTTACTGGAGAG 59.192 45.833 0.00 0.00 0.00 3.20
4286 8259 2.092538 CAGGAGAAGGATGCAGATGGTT 60.093 50.000 0.00 0.00 0.00 3.67


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

AutoCloner maintained by Alex Coulton.