Multiple sequence alignment - TraesCS6A01G092400

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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 TraesCS6A01G092400 chr6A 100.000 2627 0 0 1 2627 60491720 60494346 0.000000e+00 4852.0
1 TraesCS6A01G092400 chr6A 79.641 835 107 34 745 1566 60716334 60717118 2.300000e-150 542.0
2 TraesCS6A01G092400 chr6A 93.069 101 7 0 1638 1738 99966806 99966906 5.860000e-32 148.0
3 TraesCS6A01G092400 chr6B 91.320 1083 67 9 565 1636 116106663 116107729 0.000000e+00 1454.0
4 TraesCS6A01G092400 chr6B 95.167 807 28 5 1825 2627 199921766 199922565 0.000000e+00 1264.0
5 TraesCS6A01G092400 chr6B 80.071 843 101 34 745 1566 116351762 116352558 4.910000e-157 564.0
6 TraesCS6A01G092400 chr6B 82.258 372 51 6 1 370 116105855 116106213 9.130000e-80 307.0
7 TraesCS6A01G092400 chr6B 87.791 172 19 2 362 531 116106488 116106659 1.590000e-47 200.0
8 TraesCS6A01G092400 chr2D 96.650 806 21 4 1825 2627 584850874 584850072 0.000000e+00 1334.0
9 TraesCS6A01G092400 chr2D 79.730 370 53 13 91 444 645702301 645702664 5.610000e-62 248.0
10 TraesCS6A01G092400 chr2D 91.262 103 8 1 1638 1739 392160176 392160074 3.530000e-29 139.0
11 TraesCS6A01G092400 chr6D 90.028 1053 54 14 596 1636 46860825 46861838 0.000000e+00 1315.0
12 TraesCS6A01G092400 chr6D 93.863 554 27 4 1 551 46860273 46860822 0.000000e+00 828.0
13 TraesCS6A01G092400 chr6D 88.136 118 12 2 1632 1749 382423424 382423539 3.530000e-29 139.0
14 TraesCS6A01G092400 chr1B 94.919 807 34 4 1825 2627 538890571 538891374 0.000000e+00 1256.0
15 TraesCS6A01G092400 chr1B 81.977 344 52 7 1161 1499 330991676 330992014 1.540000e-72 283.0
16 TraesCS6A01G092400 chr1B 81.065 338 58 3 1160 1494 331084244 331084578 5.580000e-67 265.0
17 TraesCS6A01G092400 chr1B 80.417 240 39 5 722 960 330991002 330991234 2.690000e-40 176.0
18 TraesCS6A01G092400 chr1B 78.571 210 35 8 95 300 687193558 687193761 2.120000e-26 130.0
19 TraesCS6A01G092400 chr1B 76.680 253 44 11 709 956 331083501 331083743 2.740000e-25 126.0
20 TraesCS6A01G092400 chrUn 94.536 366 16 3 2266 2627 477253848 477253483 1.770000e-156 562.0
21 TraesCS6A01G092400 chr7A 81.842 380 47 10 83 448 625379043 625379414 1.530000e-77 300.0
22 TraesCS6A01G092400 chr7A 80.426 235 32 5 222 446 641342832 641343062 1.620000e-37 167.0
23 TraesCS6A01G092400 chr7B 81.053 380 47 9 83 448 586334397 586334765 1.990000e-71 279.0
24 TraesCS6A01G092400 chr1A 81.105 344 57 6 1160 1499 300577196 300577535 4.310000e-68 268.0
25 TraesCS6A01G092400 chr1A 80.233 344 62 3 1160 1500 300672835 300673175 1.210000e-63 254.0
26 TraesCS6A01G092400 chr1A 79.835 243 38 7 722 960 300576519 300576754 1.620000e-37 167.0
27 TraesCS6A01G092400 chr1A 78.919 185 34 4 734 915 300672132 300672314 1.280000e-23 121.0
28 TraesCS6A01G092400 chr1D 80.802 349 60 5 1158 1503 246970460 246970116 1.550000e-67 267.0
29 TraesCS6A01G092400 chr1D 80.417 240 35 8 725 960 247123821 247123590 3.480000e-39 172.0
30 TraesCS6A01G092400 chr1D 81.081 148 23 2 809 956 246971071 246970929 2.140000e-21 113.0
31 TraesCS6A01G092400 chr7D 82.119 302 36 7 161 448 543391324 543391621 2.610000e-60 243.0
32 TraesCS6A01G092400 chr7D 89.091 110 10 1 1631 1738 21093716 21093607 4.560000e-28 135.0
33 TraesCS6A01G092400 chr7D 87.288 118 13 2 1632 1749 607677709 607677594 1.640000e-27 134.0
34 TraesCS6A01G092400 chr7D 74.151 383 59 24 86 453 88715238 88714881 3.550000e-24 122.0
35 TraesCS6A01G092400 chr5A 78.761 339 51 12 86 420 374890866 374891187 9.530000e-50 207.0
36 TraesCS6A01G092400 chr5A 90.654 107 10 0 1636 1742 652051853 652051747 2.730000e-30 143.0
37 TraesCS6A01G092400 chr4D 77.454 377 63 10 87 447 507755005 507755375 3.430000e-49 206.0
38 TraesCS6A01G092400 chr3A 78.274 336 55 11 129 447 747600968 747600634 1.590000e-47 200.0
39 TraesCS6A01G092400 chr3A 78.059 237 35 8 223 446 37653002 37652770 1.640000e-27 134.0
40 TraesCS6A01G092400 chr3B 80.889 225 29 10 181 394 46036918 46036697 5.820000e-37 165.0
41 TraesCS6A01G092400 chr3B 88.991 109 12 0 1638 1746 199227091 199226983 4.560000e-28 135.0
42 TraesCS6A01G092400 chr2A 89.831 118 9 2 1624 1739 557061038 557060922 5.860000e-32 148.0
43 TraesCS6A01G092400 chr5B 79.279 222 36 8 83 300 599794193 599794408 2.110000e-31 147.0
44 TraesCS6A01G092400 chr5B 83.898 118 13 3 79 195 545190720 545190608 9.940000e-20 108.0
45 TraesCS6A01G092400 chr3D 88.288 111 12 1 1638 1747 574860800 574860690 5.900000e-27 132.0
46 TraesCS6A01G092400 chr4B 93.182 44 2 1 129 172 669918063 669918105 2.180000e-06 63.9
47 TraesCS6A01G092400 chr5D 100.000 29 0 0 145 173 300944250 300944278 1.000000e-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 TraesCS6A01G092400 chr6A 60491720 60494346 2626 False 4852.000000 4852 100.0000 1 2627 1 chr6A.!!$F1 2626
1 TraesCS6A01G092400 chr6A 60716334 60717118 784 False 542.000000 542 79.6410 745 1566 1 chr6A.!!$F2 821
2 TraesCS6A01G092400 chr6B 199921766 199922565 799 False 1264.000000 1264 95.1670 1825 2627 1 chr6B.!!$F2 802
3 TraesCS6A01G092400 chr6B 116105855 116107729 1874 False 653.666667 1454 87.1230 1 1636 3 chr6B.!!$F3 1635
4 TraesCS6A01G092400 chr6B 116351762 116352558 796 False 564.000000 564 80.0710 745 1566 1 chr6B.!!$F1 821
5 TraesCS6A01G092400 chr2D 584850072 584850874 802 True 1334.000000 1334 96.6500 1825 2627 1 chr2D.!!$R2 802
6 TraesCS6A01G092400 chr6D 46860273 46861838 1565 False 1071.500000 1315 91.9455 1 1636 2 chr6D.!!$F2 1635
7 TraesCS6A01G092400 chr1B 538890571 538891374 803 False 1256.000000 1256 94.9190 1825 2627 1 chr1B.!!$F1 802
8 TraesCS6A01G092400 chr1B 330991002 330992014 1012 False 229.500000 283 81.1970 722 1499 2 chr1B.!!$F3 777
9 TraesCS6A01G092400 chr1A 300576519 300577535 1016 False 217.500000 268 80.4700 722 1499 2 chr1A.!!$F1 777

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
563 853 0.098552 CACACACGCACACACACATT 59.901 50.0 0.0 0.0 0.0 2.71 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1744 2355 0.104855 CGACACGTCCATCCATCCAT 59.895 55.0 0.0 0.0 0.0 3.41 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
109 111 8.239478 TCTACCTAAATAGTTCATCCCCACTAT 58.761 37.037 0.00 0.00 37.75 2.12
111 113 6.849697 ACCTAAATAGTTCATCCCCACTATCA 59.150 38.462 0.00 0.00 35.54 2.15
125 127 8.651589 TCCCCACTATCACTATTATCTTACAG 57.348 38.462 0.00 0.00 0.00 2.74
173 175 1.079681 CCCACCACAACATGCATGC 60.080 57.895 26.53 11.82 0.00 4.06
176 178 0.171679 CACCACAACATGCATGCGAT 59.828 50.000 26.53 10.41 0.00 4.58
177 179 0.889994 ACCACAACATGCATGCGATT 59.110 45.000 26.53 10.84 0.00 3.34
178 180 1.273048 ACCACAACATGCATGCGATTT 59.727 42.857 26.53 10.46 0.00 2.17
180 182 2.737783 CCACAACATGCATGCGATTTTT 59.262 40.909 26.53 9.32 0.00 1.94
238 242 0.112995 ACCACACATGCCACCTCATT 59.887 50.000 0.00 0.00 0.00 2.57
269 274 5.512788 CCACTCGACATGCATGTAATTTTTC 59.487 40.000 31.45 16.20 41.95 2.29
294 299 7.833682 TCCCCATTATGTTATGCCACTTATATG 59.166 37.037 0.00 0.00 0.00 1.78
517 807 2.030335 CGTTTGTTTTCTTGCCTTTGCC 59.970 45.455 0.00 0.00 36.33 4.52
551 841 0.179227 CACACACACACACACACACG 60.179 55.000 0.00 0.00 0.00 4.49
552 842 1.225991 CACACACACACACACACGC 60.226 57.895 0.00 0.00 0.00 5.34
553 843 1.669437 ACACACACACACACACGCA 60.669 52.632 0.00 0.00 0.00 5.24
554 844 1.225991 CACACACACACACACGCAC 60.226 57.895 0.00 0.00 0.00 5.34
555 845 1.669437 ACACACACACACACGCACA 60.669 52.632 0.00 0.00 0.00 4.57
556 846 1.225991 CACACACACACACGCACAC 60.226 57.895 0.00 0.00 0.00 3.82
557 847 1.669437 ACACACACACACGCACACA 60.669 52.632 0.00 0.00 0.00 3.72
558 848 1.225991 CACACACACACGCACACAC 60.226 57.895 0.00 0.00 0.00 3.82
559 849 1.669437 ACACACACACGCACACACA 60.669 52.632 0.00 0.00 0.00 3.72
560 850 1.225991 CACACACACGCACACACAC 60.226 57.895 0.00 0.00 0.00 3.82
561 851 1.669437 ACACACACGCACACACACA 60.669 52.632 0.00 0.00 0.00 3.72
562 852 1.024046 ACACACACGCACACACACAT 61.024 50.000 0.00 0.00 0.00 3.21
563 853 0.098552 CACACACGCACACACACATT 59.901 50.000 0.00 0.00 0.00 2.71
584 874 5.860941 TTCTCTCTCTCTCTCTCTCTCTC 57.139 47.826 0.00 0.00 0.00 3.20
592 882 5.523588 TCTCTCTCTCTCTCTCTCTCTCTT 58.476 45.833 0.00 0.00 0.00 2.85
659 949 3.055094 AGAGGGCTCACGTGATTAAACAT 60.055 43.478 20.40 5.37 0.00 2.71
666 956 6.907212 GGCTCACGTGATTAAACATCAATAAG 59.093 38.462 20.40 2.23 0.00 1.73
686 976 7.700322 ATAAGGATTAACGCGCATGATATAG 57.300 36.000 5.73 0.00 32.17 1.31
690 980 5.231568 GGATTAACGCGCATGATATAGGTAC 59.768 44.000 5.73 0.00 0.00 3.34
703 996 8.762645 CATGATATAGGTACCTACATTGGACAT 58.237 37.037 24.07 13.82 0.00 3.06
773 1068 9.614792 ACGATTAACAGCTTAGATTTAGGAAAT 57.385 29.630 0.00 0.00 0.00 2.17
894 1206 4.865925 CCACGTAATCCAAACGAACTCATA 59.134 41.667 2.27 0.00 42.90 2.15
907 1219 7.470289 AACGAACTCATATCTACAATTCAGC 57.530 36.000 0.00 0.00 0.00 4.26
910 1222 6.145209 CGAACTCATATCTACAATTCAGCTGG 59.855 42.308 15.13 0.00 0.00 4.85
956 1271 0.249489 GCCTGTATAGAGCACACCGG 60.249 60.000 0.00 0.00 0.00 5.28
1032 1458 0.531974 TCGAACCAGCCACAACTCAC 60.532 55.000 0.00 0.00 0.00 3.51
1049 1475 2.202878 CCATCACTACCCACGGCG 60.203 66.667 4.80 4.80 0.00 6.46
1058 1484 0.608856 TACCCACGGCGAGTCAAGTA 60.609 55.000 16.62 3.40 0.00 2.24
1060 1486 1.585006 CCACGGCGAGTCAAGTACT 59.415 57.895 16.62 0.00 42.80 2.73
1423 2024 2.997897 GTGGACACCTCCCTCGCT 60.998 66.667 0.00 0.00 35.34 4.93
1505 2112 1.436336 GCCTGAAGCCATGCATGAC 59.564 57.895 28.31 17.34 34.61 3.06
1566 2177 2.494445 CCATCGACGGCAGTGCTA 59.506 61.111 16.11 0.00 0.00 3.49
1567 2178 1.589993 CCATCGACGGCAGTGCTAG 60.590 63.158 16.11 12.06 0.00 3.42
1568 2179 1.139734 CATCGACGGCAGTGCTAGT 59.860 57.895 16.11 15.33 0.00 2.57
1569 2180 0.458543 CATCGACGGCAGTGCTAGTT 60.459 55.000 16.11 0.00 0.00 2.24
1596 2207 1.024271 CCATACCACATTTCAGGGCG 58.976 55.000 0.00 0.00 0.00 6.13
1601 2212 1.503542 CACATTTCAGGGCGAGTGC 59.496 57.895 0.00 0.00 41.71 4.40
1636 2247 6.091437 GCTACGTGTGTCAGAATAAAGTACT 58.909 40.000 0.00 0.00 0.00 2.73
1637 2248 6.250951 GCTACGTGTGTCAGAATAAAGTACTC 59.749 42.308 0.00 0.00 0.00 2.59
1638 2249 6.328641 ACGTGTGTCAGAATAAAGTACTCT 57.671 37.500 0.00 0.00 0.00 3.24
1639 2250 6.380190 ACGTGTGTCAGAATAAAGTACTCTC 58.620 40.000 0.00 0.00 0.00 3.20
1640 2251 6.207025 ACGTGTGTCAGAATAAAGTACTCTCT 59.793 38.462 0.00 0.00 0.00 3.10
1641 2252 6.524933 CGTGTGTCAGAATAAAGTACTCTCTG 59.475 42.308 13.89 13.89 35.82 3.35
1642 2253 7.371936 GTGTGTCAGAATAAAGTACTCTCTGT 58.628 38.462 17.16 0.00 35.93 3.41
1643 2254 7.868415 GTGTGTCAGAATAAAGTACTCTCTGTT 59.132 37.037 17.16 3.87 35.93 3.16
1644 2255 8.421784 TGTGTCAGAATAAAGTACTCTCTGTTT 58.578 33.333 17.16 3.29 35.93 2.83
1645 2256 8.917655 GTGTCAGAATAAAGTACTCTCTGTTTC 58.082 37.037 17.16 12.21 35.93 2.78
1646 2257 8.638873 TGTCAGAATAAAGTACTCTCTGTTTCA 58.361 33.333 17.16 13.66 35.93 2.69
1647 2258 9.477484 GTCAGAATAAAGTACTCTCTGTTTCAA 57.523 33.333 17.16 3.18 35.93 2.69
1656 2267 9.490379 AAGTACTCTCTGTTTCAAATTATTCGT 57.510 29.630 0.00 0.00 0.00 3.85
1657 2268 9.141400 AGTACTCTCTGTTTCAAATTATTCGTC 57.859 33.333 0.00 0.00 0.00 4.20
1658 2269 7.050281 ACTCTCTGTTTCAAATTATTCGTCG 57.950 36.000 0.00 0.00 0.00 5.12
1659 2270 6.645415 ACTCTCTGTTTCAAATTATTCGTCGT 59.355 34.615 0.00 0.00 0.00 4.34
1660 2271 7.811236 ACTCTCTGTTTCAAATTATTCGTCGTA 59.189 33.333 0.00 0.00 0.00 3.43
1661 2272 8.169839 TCTCTGTTTCAAATTATTCGTCGTAG 57.830 34.615 0.00 0.00 0.00 3.51
1662 2273 8.024865 TCTCTGTTTCAAATTATTCGTCGTAGA 58.975 33.333 0.00 0.00 0.00 2.59
1663 2274 8.523523 TCTGTTTCAAATTATTCGTCGTAGAA 57.476 30.769 0.00 0.00 39.69 2.10
1664 2275 8.980610 TCTGTTTCAAATTATTCGTCGTAGAAA 58.019 29.630 0.00 0.00 39.69 2.52
1665 2276 9.755064 CTGTTTCAAATTATTCGTCGTAGAAAT 57.245 29.630 0.00 0.00 39.69 2.17
1666 2277 9.536558 TGTTTCAAATTATTCGTCGTAGAAATG 57.463 29.630 0.00 0.00 39.69 2.32
1667 2278 8.995906 GTTTCAAATTATTCGTCGTAGAAATGG 58.004 33.333 0.00 0.00 39.69 3.16
1668 2279 8.481974 TTCAAATTATTCGTCGTAGAAATGGA 57.518 30.769 0.00 0.00 39.69 3.41
1669 2280 8.657074 TCAAATTATTCGTCGTAGAAATGGAT 57.343 30.769 0.00 0.00 39.69 3.41
1670 2281 8.547894 TCAAATTATTCGTCGTAGAAATGGATG 58.452 33.333 0.00 0.00 39.69 3.51
1671 2282 8.335356 CAAATTATTCGTCGTAGAAATGGATGT 58.665 33.333 0.00 0.00 39.69 3.06
1672 2283 9.537192 AAATTATTCGTCGTAGAAATGGATGTA 57.463 29.630 0.00 0.00 39.69 2.29
1673 2284 9.706691 AATTATTCGTCGTAGAAATGGATGTAT 57.293 29.630 0.00 0.00 39.69 2.29
1674 2285 9.706691 ATTATTCGTCGTAGAAATGGATGTATT 57.293 29.630 0.00 0.00 39.69 1.89
1675 2286 9.537192 TTATTCGTCGTAGAAATGGATGTATTT 57.463 29.630 0.00 0.00 39.69 1.40
1677 2288 8.929827 TTCGTCGTAGAAATGGATGTATTTAA 57.070 30.769 0.00 0.00 39.69 1.52
1678 2289 8.929827 TCGTCGTAGAAATGGATGTATTTAAA 57.070 30.769 0.00 0.00 39.69 1.52
1679 2290 9.368674 TCGTCGTAGAAATGGATGTATTTAAAA 57.631 29.630 0.00 0.00 39.69 1.52
1680 2291 9.417284 CGTCGTAGAAATGGATGTATTTAAAAC 57.583 33.333 0.00 0.00 39.69 2.43
1711 2322 7.036996 ACATCTAGATACATCCATATCTGCG 57.963 40.000 4.54 0.00 41.17 5.18
1712 2323 6.830838 ACATCTAGATACATCCATATCTGCGA 59.169 38.462 4.54 3.39 41.17 5.10
1713 2324 7.505248 ACATCTAGATACATCCATATCTGCGAT 59.495 37.037 4.54 5.15 41.17 4.58
1714 2325 9.007901 CATCTAGATACATCCATATCTGCGATA 57.992 37.037 4.54 1.68 41.17 2.92
1715 2326 8.980481 TCTAGATACATCCATATCTGCGATAA 57.020 34.615 5.70 0.00 41.17 1.75
1716 2327 9.408648 TCTAGATACATCCATATCTGCGATAAA 57.591 33.333 5.70 0.00 41.17 1.40
1723 2334 8.820933 ACATCCATATCTGCGATAAATAATTCG 58.179 33.333 0.00 0.00 38.37 3.34
1724 2335 9.034544 CATCCATATCTGCGATAAATAATTCGA 57.965 33.333 0.00 0.00 37.55 3.71
1725 2336 8.996024 TCCATATCTGCGATAAATAATTCGAA 57.004 30.769 0.00 0.00 37.55 3.71
1726 2337 9.430623 TCCATATCTGCGATAAATAATTCGAAA 57.569 29.630 0.00 0.00 37.55 3.46
1727 2338 9.478019 CCATATCTGCGATAAATAATTCGAAAC 57.522 33.333 0.00 0.00 37.55 2.78
1732 2343 8.761497 TCTGCGATAAATAATTCGAAACTAAGG 58.239 33.333 0.00 0.00 37.55 2.69
1733 2344 7.857569 TGCGATAAATAATTCGAAACTAAGGG 58.142 34.615 0.00 0.00 37.55 3.95
1734 2345 7.711772 TGCGATAAATAATTCGAAACTAAGGGA 59.288 33.333 0.00 0.00 37.55 4.20
1735 2346 8.221766 GCGATAAATAATTCGAAACTAAGGGAG 58.778 37.037 0.00 0.00 37.55 4.30
1736 2347 9.257651 CGATAAATAATTCGAAACTAAGGGAGT 57.742 33.333 0.00 0.00 37.51 3.85
1739 2350 7.998753 AATAATTCGAAACTAAGGGAGTACG 57.001 36.000 0.00 0.00 37.44 3.67
1740 2351 5.397142 AATTCGAAACTAAGGGAGTACGT 57.603 39.130 0.00 0.00 37.44 3.57
1741 2352 4.853924 TTCGAAACTAAGGGAGTACGTT 57.146 40.909 0.00 0.00 37.44 3.99
1742 2353 4.164822 TCGAAACTAAGGGAGTACGTTG 57.835 45.455 0.00 0.00 37.44 4.10
1743 2354 3.569701 TCGAAACTAAGGGAGTACGTTGT 59.430 43.478 0.00 0.00 37.44 3.32
1744 2355 4.759693 TCGAAACTAAGGGAGTACGTTGTA 59.240 41.667 0.00 0.00 37.44 2.41
1745 2356 5.415701 TCGAAACTAAGGGAGTACGTTGTAT 59.584 40.000 0.00 0.00 37.44 2.29
1746 2357 5.514204 CGAAACTAAGGGAGTACGTTGTATG 59.486 44.000 0.00 0.00 37.44 2.39
1747 2358 4.996788 ACTAAGGGAGTACGTTGTATGG 57.003 45.455 0.00 0.00 36.27 2.74
1748 2359 4.603131 ACTAAGGGAGTACGTTGTATGGA 58.397 43.478 0.00 0.00 36.27 3.41
1749 2360 5.206587 ACTAAGGGAGTACGTTGTATGGAT 58.793 41.667 0.00 0.00 36.27 3.41
1750 2361 4.402056 AAGGGAGTACGTTGTATGGATG 57.598 45.455 0.00 0.00 0.00 3.51
1751 2362 2.698797 AGGGAGTACGTTGTATGGATGG 59.301 50.000 0.00 0.00 0.00 3.51
1752 2363 2.696707 GGGAGTACGTTGTATGGATGGA 59.303 50.000 0.00 0.00 0.00 3.41
1753 2364 3.323979 GGGAGTACGTTGTATGGATGGAT 59.676 47.826 0.00 0.00 0.00 3.41
1754 2365 4.307432 GGAGTACGTTGTATGGATGGATG 58.693 47.826 0.00 0.00 0.00 3.51
1755 2366 4.307432 GAGTACGTTGTATGGATGGATGG 58.693 47.826 0.00 0.00 0.00 3.51
1756 2367 3.964688 AGTACGTTGTATGGATGGATGGA 59.035 43.478 0.00 0.00 0.00 3.41
1757 2368 3.194005 ACGTTGTATGGATGGATGGAC 57.806 47.619 0.00 0.00 0.00 4.02
1758 2369 2.135139 CGTTGTATGGATGGATGGACG 58.865 52.381 0.00 0.00 0.00 4.79
1759 2370 2.483013 CGTTGTATGGATGGATGGACGT 60.483 50.000 0.00 0.00 0.00 4.34
1760 2371 2.872245 GTTGTATGGATGGATGGACGTG 59.128 50.000 0.00 0.00 0.00 4.49
1761 2372 2.115427 TGTATGGATGGATGGACGTGT 58.885 47.619 0.00 0.00 0.00 4.49
1762 2373 2.102420 TGTATGGATGGATGGACGTGTC 59.898 50.000 0.00 0.00 0.00 3.67
1763 2374 0.104855 ATGGATGGATGGACGTGTCG 59.895 55.000 0.00 0.00 0.00 4.35
1764 2375 1.227263 GGATGGATGGACGTGTCGG 60.227 63.158 0.00 0.00 0.00 4.79
1765 2376 1.515954 GATGGATGGACGTGTCGGT 59.484 57.895 0.00 0.00 0.00 4.69
1766 2377 0.806102 GATGGATGGACGTGTCGGTG 60.806 60.000 0.00 0.00 0.00 4.94
1767 2378 1.541310 ATGGATGGACGTGTCGGTGT 61.541 55.000 0.00 0.00 0.00 4.16
1768 2379 1.445582 GGATGGACGTGTCGGTGTC 60.446 63.158 0.00 0.00 0.00 3.67
1769 2380 1.287815 GATGGACGTGTCGGTGTCA 59.712 57.895 0.00 0.00 36.83 3.58
1770 2381 0.319211 GATGGACGTGTCGGTGTCAA 60.319 55.000 0.00 0.00 36.83 3.18
1771 2382 0.320374 ATGGACGTGTCGGTGTCAAT 59.680 50.000 0.00 0.00 36.83 2.57
1772 2383 0.960286 TGGACGTGTCGGTGTCAATA 59.040 50.000 0.00 0.00 36.83 1.90
1773 2384 1.546923 TGGACGTGTCGGTGTCAATAT 59.453 47.619 0.00 0.00 36.83 1.28
1774 2385 2.190981 GGACGTGTCGGTGTCAATATC 58.809 52.381 0.00 0.00 36.83 1.63
1775 2386 2.416296 GGACGTGTCGGTGTCAATATCA 60.416 50.000 0.00 0.00 36.83 2.15
1776 2387 2.852413 GACGTGTCGGTGTCAATATCAG 59.148 50.000 0.00 0.00 35.20 2.90
1777 2388 2.230508 ACGTGTCGGTGTCAATATCAGT 59.769 45.455 0.00 0.00 0.00 3.41
1778 2389 3.250744 CGTGTCGGTGTCAATATCAGTT 58.749 45.455 0.00 0.00 0.00 3.16
1779 2390 3.678072 CGTGTCGGTGTCAATATCAGTTT 59.322 43.478 0.00 0.00 0.00 2.66
1780 2391 4.201589 CGTGTCGGTGTCAATATCAGTTTC 60.202 45.833 0.00 0.00 0.00 2.78
1781 2392 4.688879 GTGTCGGTGTCAATATCAGTTTCA 59.311 41.667 0.00 0.00 0.00 2.69
1782 2393 5.351465 GTGTCGGTGTCAATATCAGTTTCAT 59.649 40.000 0.00 0.00 0.00 2.57
1783 2394 5.937540 TGTCGGTGTCAATATCAGTTTCATT 59.062 36.000 0.00 0.00 0.00 2.57
1784 2395 6.128309 TGTCGGTGTCAATATCAGTTTCATTG 60.128 38.462 0.00 0.00 0.00 2.82
1785 2396 5.353956 TCGGTGTCAATATCAGTTTCATTGG 59.646 40.000 0.00 0.00 31.88 3.16
1786 2397 5.123820 CGGTGTCAATATCAGTTTCATTGGT 59.876 40.000 0.00 0.00 31.88 3.67
1787 2398 6.324819 GGTGTCAATATCAGTTTCATTGGTG 58.675 40.000 0.00 0.00 31.88 4.17
1788 2399 6.071952 GGTGTCAATATCAGTTTCATTGGTGT 60.072 38.462 0.00 0.00 31.88 4.16
1789 2400 7.370383 GTGTCAATATCAGTTTCATTGGTGTT 58.630 34.615 0.00 0.00 31.88 3.32
1790 2401 7.867403 GTGTCAATATCAGTTTCATTGGTGTTT 59.133 33.333 0.00 0.00 31.88 2.83
1791 2402 8.081633 TGTCAATATCAGTTTCATTGGTGTTTC 58.918 33.333 0.00 0.00 31.88 2.78
1792 2403 8.299570 GTCAATATCAGTTTCATTGGTGTTTCT 58.700 33.333 0.00 0.00 31.88 2.52
1793 2404 9.513906 TCAATATCAGTTTCATTGGTGTTTCTA 57.486 29.630 0.00 0.00 31.88 2.10
1794 2405 9.559958 CAATATCAGTTTCATTGGTGTTTCTAC 57.440 33.333 0.00 0.00 0.00 2.59
1795 2406 5.666969 TCAGTTTCATTGGTGTTTCTACG 57.333 39.130 0.00 0.00 0.00 3.51
1796 2407 5.120399 TCAGTTTCATTGGTGTTTCTACGT 58.880 37.500 0.00 0.00 0.00 3.57
1797 2408 6.282167 TCAGTTTCATTGGTGTTTCTACGTA 58.718 36.000 0.00 0.00 0.00 3.57
1798 2409 6.201425 TCAGTTTCATTGGTGTTTCTACGTAC 59.799 38.462 0.00 0.00 0.00 3.67
1799 2410 5.467735 AGTTTCATTGGTGTTTCTACGTACC 59.532 40.000 0.00 0.00 0.00 3.34
1800 2411 3.577667 TCATTGGTGTTTCTACGTACCG 58.422 45.455 0.00 0.00 35.98 4.02
1801 2412 3.005684 TCATTGGTGTTTCTACGTACCGT 59.994 43.478 0.00 0.00 44.35 4.83
1802 2413 2.420628 TGGTGTTTCTACGTACCGTG 57.579 50.000 0.00 0.00 41.39 4.94
1803 2414 1.680735 TGGTGTTTCTACGTACCGTGT 59.319 47.619 0.00 0.00 41.39 4.49
1804 2415 2.881513 TGGTGTTTCTACGTACCGTGTA 59.118 45.455 0.00 0.00 41.39 2.90
1805 2416 3.316588 TGGTGTTTCTACGTACCGTGTAA 59.683 43.478 0.00 0.00 41.39 2.41
1806 2417 4.022416 TGGTGTTTCTACGTACCGTGTAAT 60.022 41.667 0.00 0.00 41.39 1.89
1807 2418 5.182190 TGGTGTTTCTACGTACCGTGTAATA 59.818 40.000 0.00 0.00 41.39 0.98
1808 2419 6.090129 GGTGTTTCTACGTACCGTGTAATAA 58.910 40.000 0.00 0.00 41.39 1.40
1809 2420 6.584563 GGTGTTTCTACGTACCGTGTAATAAA 59.415 38.462 0.00 0.00 41.39 1.40
1810 2421 7.115663 GGTGTTTCTACGTACCGTGTAATAAAA 59.884 37.037 0.00 0.00 41.39 1.52
1811 2422 8.647226 GTGTTTCTACGTACCGTGTAATAAAAT 58.353 33.333 0.00 0.00 41.39 1.82
1812 2423 9.847706 TGTTTCTACGTACCGTGTAATAAAATA 57.152 29.630 0.00 0.00 41.39 1.40
1830 2441 6.743575 AAAATATTACTAGATCATGCCGCC 57.256 37.500 0.00 0.00 0.00 6.13
2072 2689 7.978975 GCTATGATGTAGTGAACTTCTTCTTCT 59.021 37.037 0.00 0.00 34.22 2.85
2075 2692 7.726216 TGATGTAGTGAACTTCTTCTTCTTCA 58.274 34.615 0.00 0.27 34.22 3.02
2076 2693 8.370940 TGATGTAGTGAACTTCTTCTTCTTCAT 58.629 33.333 0.00 0.00 34.22 2.57
2077 2694 9.862371 GATGTAGTGAACTTCTTCTTCTTCATA 57.138 33.333 0.00 0.00 29.23 2.15
2300 2917 6.808704 TCATTTCTCTATGTTTCTCACGACAG 59.191 38.462 0.00 0.00 0.00 3.51
2301 2918 4.098055 TCTCTATGTTTCTCACGACAGC 57.902 45.455 0.00 0.00 0.00 4.40
2308 2925 3.242706 TGTTTCTCACGACAGCACAAATG 60.243 43.478 0.00 0.00 0.00 2.32
2358 2975 3.515316 AACCGCAGACGTGGAGGTG 62.515 63.158 12.01 0.00 46.55 4.00
2485 3105 4.347360 TGGATAGTCCATGATGCTTCAG 57.653 45.455 8.40 1.15 42.67 3.02
2553 3174 7.030165 TGTTAACAAAAAGCATGAAGAAACGA 58.970 30.769 5.64 0.00 0.00 3.85
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
55 57 0.378257 CGCGCATTGCTACAGGAATT 59.622 50.000 8.75 0.00 43.27 2.17
56 58 1.439353 CCGCGCATTGCTACAGGAAT 61.439 55.000 8.75 0.00 43.27 3.01
109 111 6.479990 GTGCATGCACTGTAAGATAATAGTGA 59.520 38.462 37.48 0.00 42.28 3.41
111 113 6.348498 TGTGCATGCACTGTAAGATAATAGT 58.652 36.000 41.43 0.00 46.30 2.12
125 127 3.562557 TGAGATGACATATGTGCATGCAC 59.437 43.478 38.00 38.00 46.33 4.57
238 242 1.621317 TGCATGTCGAGTGGACCTTTA 59.379 47.619 2.56 0.00 45.46 1.85
251 255 5.083533 TGGGGAAAAATTACATGCATGTC 57.916 39.130 34.54 18.38 41.97 3.06
269 274 7.416664 GCATATAAGTGGCATAACATAATGGGG 60.417 40.741 0.00 0.00 0.00 4.96
517 807 4.619336 GTGTGTGTGTGTTTACAAGTTTGG 59.381 41.667 0.00 0.00 38.82 3.28
551 841 2.992543 GAGAGAGAGAATGTGTGTGTGC 59.007 50.000 0.00 0.00 0.00 4.57
552 842 4.218200 AGAGAGAGAGAGAATGTGTGTGTG 59.782 45.833 0.00 0.00 0.00 3.82
553 843 4.406456 AGAGAGAGAGAGAATGTGTGTGT 58.594 43.478 0.00 0.00 0.00 3.72
554 844 4.701651 AGAGAGAGAGAGAGAATGTGTGTG 59.298 45.833 0.00 0.00 0.00 3.82
555 845 4.922206 AGAGAGAGAGAGAGAATGTGTGT 58.078 43.478 0.00 0.00 0.00 3.72
556 846 5.188434 AGAGAGAGAGAGAGAGAATGTGTG 58.812 45.833 0.00 0.00 0.00 3.82
557 847 5.190528 AGAGAGAGAGAGAGAGAGAATGTGT 59.809 44.000 0.00 0.00 0.00 3.72
558 848 5.678583 AGAGAGAGAGAGAGAGAGAATGTG 58.321 45.833 0.00 0.00 0.00 3.21
559 849 5.664908 AGAGAGAGAGAGAGAGAGAGAATGT 59.335 44.000 0.00 0.00 0.00 2.71
560 850 6.041865 AGAGAGAGAGAGAGAGAGAGAGAATG 59.958 46.154 0.00 0.00 0.00 2.67
561 851 6.142498 AGAGAGAGAGAGAGAGAGAGAGAAT 58.858 44.000 0.00 0.00 0.00 2.40
562 852 5.523588 AGAGAGAGAGAGAGAGAGAGAGAA 58.476 45.833 0.00 0.00 0.00 2.87
563 853 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
584 874 4.767478 TCTGCCATCAATGAAAGAGAGAG 58.233 43.478 0.00 0.00 0.00 3.20
616 906 9.029368 CCCTCTAGAATTTCTTTTTGAGGAAAT 57.971 33.333 23.74 0.00 41.50 2.17
659 949 4.123506 TCATGCGCGTTAATCCTTATTGA 58.876 39.130 8.43 0.00 0.00 2.57
666 956 4.181578 ACCTATATCATGCGCGTTAATCC 58.818 43.478 8.43 0.00 0.00 3.01
703 996 2.158827 TGAGCAAGAGCAAGTGTTGGTA 60.159 45.455 0.00 0.00 40.07 3.25
773 1068 8.810990 TTTCTACTACTCCAAACAAGGAAAAA 57.189 30.769 0.00 0.00 37.20 1.94
894 1206 2.507058 TGAGGCCAGCTGAATTGTAGAT 59.493 45.455 17.39 0.00 0.00 1.98
907 1219 2.507102 CGTACTGCGTGAGGCCAG 60.507 66.667 5.01 0.00 42.61 4.85
945 1260 2.997897 GACCTCCCGGTGTGCTCT 60.998 66.667 0.00 0.00 45.73 4.09
956 1271 2.026262 ACTCTCTCAGTCTCAGACCTCC 60.026 54.545 0.00 0.00 32.18 4.30
960 1275 3.807622 CCGATACTCTCTCAGTCTCAGAC 59.192 52.174 0.00 0.00 36.43 3.51
961 1276 3.452990 ACCGATACTCTCTCAGTCTCAGA 59.547 47.826 0.00 0.00 36.43 3.27
962 1277 3.804036 ACCGATACTCTCTCAGTCTCAG 58.196 50.000 0.00 0.00 36.43 3.35
963 1278 3.916359 ACCGATACTCTCTCAGTCTCA 57.084 47.619 0.00 0.00 36.43 3.27
964 1279 6.810182 GTCTATACCGATACTCTCTCAGTCTC 59.190 46.154 0.00 0.00 36.43 3.36
965 1280 6.570957 CGTCTATACCGATACTCTCTCAGTCT 60.571 46.154 0.00 0.00 36.43 3.24
966 1281 5.574055 CGTCTATACCGATACTCTCTCAGTC 59.426 48.000 0.00 0.00 36.43 3.51
967 1282 5.010922 ACGTCTATACCGATACTCTCTCAGT 59.989 44.000 0.00 0.00 39.41 3.41
1032 1458 2.202878 CGCCGTGGGTAGTGATGG 60.203 66.667 0.00 0.00 0.00 3.51
1071 1528 0.598065 GAGCTTGGTGTTCGCCATTT 59.402 50.000 5.91 0.00 38.48 2.32
1193 1791 1.339151 GCCCTCACCTCTGTCGAAATT 60.339 52.381 0.00 0.00 0.00 1.82
1423 2024 4.680237 CCGAGCGCCTTCCACACA 62.680 66.667 2.29 0.00 0.00 3.72
1505 2112 4.297891 CACGGGCGTATGCATGCG 62.298 66.667 29.62 29.62 45.35 4.73
1566 2177 2.125269 GGTATGGCGCCGTGAACT 60.125 61.111 31.45 8.94 0.00 3.01
1567 2178 2.435234 TGGTATGGCGCCGTGAAC 60.435 61.111 31.45 21.39 0.00 3.18
1568 2179 2.435234 GTGGTATGGCGCCGTGAA 60.435 61.111 31.45 9.56 0.00 3.18
1569 2180 2.529454 AATGTGGTATGGCGCCGTGA 62.529 55.000 31.45 9.87 0.00 4.35
1636 2247 8.024865 TCTACGACGAATAATTTGAAACAGAGA 58.975 33.333 0.00 0.00 0.00 3.10
1637 2248 8.169839 TCTACGACGAATAATTTGAAACAGAG 57.830 34.615 0.00 0.00 0.00 3.35
1638 2249 8.523523 TTCTACGACGAATAATTTGAAACAGA 57.476 30.769 0.00 0.00 0.00 3.41
1639 2250 9.755064 ATTTCTACGACGAATAATTTGAAACAG 57.245 29.630 0.00 0.00 0.00 3.16
1640 2251 9.536558 CATTTCTACGACGAATAATTTGAAACA 57.463 29.630 0.00 0.00 0.00 2.83
1641 2252 8.995906 CCATTTCTACGACGAATAATTTGAAAC 58.004 33.333 0.00 0.00 0.00 2.78
1642 2253 8.937884 TCCATTTCTACGACGAATAATTTGAAA 58.062 29.630 0.00 0.00 0.00 2.69
1643 2254 8.481974 TCCATTTCTACGACGAATAATTTGAA 57.518 30.769 0.00 0.00 0.00 2.69
1644 2255 8.547894 CATCCATTTCTACGACGAATAATTTGA 58.452 33.333 0.00 0.00 0.00 2.69
1645 2256 8.335356 ACATCCATTTCTACGACGAATAATTTG 58.665 33.333 0.00 0.00 0.00 2.32
1646 2257 8.433421 ACATCCATTTCTACGACGAATAATTT 57.567 30.769 0.00 0.00 0.00 1.82
1647 2258 9.706691 ATACATCCATTTCTACGACGAATAATT 57.293 29.630 0.00 0.00 0.00 1.40
1648 2259 9.706691 AATACATCCATTTCTACGACGAATAAT 57.293 29.630 0.00 0.00 0.00 1.28
1649 2260 9.537192 AAATACATCCATTTCTACGACGAATAA 57.463 29.630 0.00 0.00 0.00 1.40
1651 2262 9.537192 TTAAATACATCCATTTCTACGACGAAT 57.463 29.630 0.00 0.00 30.84 3.34
1652 2263 8.929827 TTAAATACATCCATTTCTACGACGAA 57.070 30.769 0.00 0.00 30.84 3.85
1653 2264 8.929827 TTTAAATACATCCATTTCTACGACGA 57.070 30.769 0.00 0.00 30.84 4.20
1654 2265 9.417284 GTTTTAAATACATCCATTTCTACGACG 57.583 33.333 0.00 0.00 30.84 5.12
1685 2296 8.791675 CGCAGATATGGATGTATCTAGATGTAT 58.208 37.037 15.79 9.11 38.93 2.29
1686 2297 7.993183 TCGCAGATATGGATGTATCTAGATGTA 59.007 37.037 15.79 4.44 38.93 2.29
1687 2298 6.830838 TCGCAGATATGGATGTATCTAGATGT 59.169 38.462 15.79 1.25 38.93 3.06
1688 2299 7.269477 TCGCAGATATGGATGTATCTAGATG 57.731 40.000 15.79 0.00 38.93 2.90
1689 2300 9.579932 TTATCGCAGATATGGATGTATCTAGAT 57.420 33.333 10.73 10.73 45.12 1.98
1690 2301 8.980481 TTATCGCAGATATGGATGTATCTAGA 57.020 34.615 0.00 0.00 45.12 2.43
1697 2308 8.820933 CGAATTATTTATCGCAGATATGGATGT 58.179 33.333 0.00 0.00 45.12 3.06
1698 2309 9.034544 TCGAATTATTTATCGCAGATATGGATG 57.965 33.333 0.00 0.00 45.12 3.51
1699 2310 9.599866 TTCGAATTATTTATCGCAGATATGGAT 57.400 29.630 0.00 0.00 45.12 3.41
1700 2311 8.996024 TTCGAATTATTTATCGCAGATATGGA 57.004 30.769 0.00 0.00 45.12 3.41
1701 2312 9.478019 GTTTCGAATTATTTATCGCAGATATGG 57.522 33.333 0.00 0.00 45.12 2.74
1706 2317 8.761497 CCTTAGTTTCGAATTATTTATCGCAGA 58.239 33.333 0.00 0.00 45.75 4.26
1707 2318 8.009974 CCCTTAGTTTCGAATTATTTATCGCAG 58.990 37.037 0.00 0.00 38.87 5.18
1708 2319 7.711772 TCCCTTAGTTTCGAATTATTTATCGCA 59.288 33.333 0.00 0.00 38.87 5.10
1709 2320 8.080083 TCCCTTAGTTTCGAATTATTTATCGC 57.920 34.615 0.00 0.00 38.87 4.58
1710 2321 9.257651 ACTCCCTTAGTTTCGAATTATTTATCG 57.742 33.333 0.00 0.00 36.26 2.92
1713 2324 9.520204 CGTACTCCCTTAGTTTCGAATTATTTA 57.480 33.333 0.00 0.00 39.80 1.40
1714 2325 8.037166 ACGTACTCCCTTAGTTTCGAATTATTT 58.963 33.333 0.00 0.00 39.80 1.40
1715 2326 7.550712 ACGTACTCCCTTAGTTTCGAATTATT 58.449 34.615 0.00 0.00 39.80 1.40
1716 2327 7.105241 ACGTACTCCCTTAGTTTCGAATTAT 57.895 36.000 0.00 0.00 39.80 1.28
1717 2328 6.515272 ACGTACTCCCTTAGTTTCGAATTA 57.485 37.500 0.00 0.00 39.80 1.40
1718 2329 5.397142 ACGTACTCCCTTAGTTTCGAATT 57.603 39.130 0.00 0.00 39.80 2.17
1719 2330 5.166398 CAACGTACTCCCTTAGTTTCGAAT 58.834 41.667 0.00 0.00 39.80 3.34
1720 2331 4.037923 ACAACGTACTCCCTTAGTTTCGAA 59.962 41.667 0.00 0.00 39.80 3.71
1721 2332 3.569701 ACAACGTACTCCCTTAGTTTCGA 59.430 43.478 0.00 0.00 39.80 3.71
1722 2333 3.905784 ACAACGTACTCCCTTAGTTTCG 58.094 45.455 0.00 0.00 39.80 3.46
1723 2334 5.809051 CCATACAACGTACTCCCTTAGTTTC 59.191 44.000 0.00 0.00 39.80 2.78
1724 2335 5.481473 TCCATACAACGTACTCCCTTAGTTT 59.519 40.000 0.00 0.00 39.80 2.66
1725 2336 5.018809 TCCATACAACGTACTCCCTTAGTT 58.981 41.667 0.00 0.00 39.80 2.24
1726 2337 4.603131 TCCATACAACGTACTCCCTTAGT 58.397 43.478 0.00 0.00 42.62 2.24
1727 2338 5.509163 CCATCCATACAACGTACTCCCTTAG 60.509 48.000 0.00 0.00 0.00 2.18
1728 2339 4.342951 CCATCCATACAACGTACTCCCTTA 59.657 45.833 0.00 0.00 0.00 2.69
1729 2340 3.134081 CCATCCATACAACGTACTCCCTT 59.866 47.826 0.00 0.00 0.00 3.95
1730 2341 2.698797 CCATCCATACAACGTACTCCCT 59.301 50.000 0.00 0.00 0.00 4.20
1731 2342 2.696707 TCCATCCATACAACGTACTCCC 59.303 50.000 0.00 0.00 0.00 4.30
1732 2343 4.307432 CATCCATCCATACAACGTACTCC 58.693 47.826 0.00 0.00 0.00 3.85
1733 2344 4.038763 TCCATCCATCCATACAACGTACTC 59.961 45.833 0.00 0.00 0.00 2.59
1734 2345 3.964688 TCCATCCATCCATACAACGTACT 59.035 43.478 0.00 0.00 0.00 2.73
1735 2346 4.056050 GTCCATCCATCCATACAACGTAC 58.944 47.826 0.00 0.00 0.00 3.67
1736 2347 3.243602 CGTCCATCCATCCATACAACGTA 60.244 47.826 0.00 0.00 0.00 3.57
1737 2348 2.483013 CGTCCATCCATCCATACAACGT 60.483 50.000 0.00 0.00 0.00 3.99
1738 2349 2.135139 CGTCCATCCATCCATACAACG 58.865 52.381 0.00 0.00 0.00 4.10
1739 2350 2.872245 CACGTCCATCCATCCATACAAC 59.128 50.000 0.00 0.00 0.00 3.32
1740 2351 2.503765 ACACGTCCATCCATCCATACAA 59.496 45.455 0.00 0.00 0.00 2.41
1741 2352 2.102420 GACACGTCCATCCATCCATACA 59.898 50.000 0.00 0.00 0.00 2.29
1742 2353 2.755650 GACACGTCCATCCATCCATAC 58.244 52.381 0.00 0.00 0.00 2.39
1743 2354 1.339929 CGACACGTCCATCCATCCATA 59.660 52.381 0.00 0.00 0.00 2.74
1744 2355 0.104855 CGACACGTCCATCCATCCAT 59.895 55.000 0.00 0.00 0.00 3.41
1745 2356 1.515487 CGACACGTCCATCCATCCA 59.485 57.895 0.00 0.00 0.00 3.41
1746 2357 1.227263 CCGACACGTCCATCCATCC 60.227 63.158 0.00 0.00 0.00 3.51
1747 2358 0.806102 CACCGACACGTCCATCCATC 60.806 60.000 0.00 0.00 0.00 3.51
1748 2359 1.218047 CACCGACACGTCCATCCAT 59.782 57.895 0.00 0.00 0.00 3.41
1749 2360 2.149803 GACACCGACACGTCCATCCA 62.150 60.000 0.00 0.00 0.00 3.41
1750 2361 1.445582 GACACCGACACGTCCATCC 60.446 63.158 0.00 0.00 0.00 3.51
1751 2362 0.319211 TTGACACCGACACGTCCATC 60.319 55.000 0.00 0.00 0.00 3.51
1752 2363 0.320374 ATTGACACCGACACGTCCAT 59.680 50.000 0.00 0.00 0.00 3.41
1753 2364 0.960286 TATTGACACCGACACGTCCA 59.040 50.000 0.00 0.00 0.00 4.02
1754 2365 2.190981 GATATTGACACCGACACGTCC 58.809 52.381 0.00 0.00 0.00 4.79
1755 2366 2.852413 CTGATATTGACACCGACACGTC 59.148 50.000 0.00 0.00 0.00 4.34
1756 2367 2.230508 ACTGATATTGACACCGACACGT 59.769 45.455 0.00 0.00 0.00 4.49
1757 2368 2.876091 ACTGATATTGACACCGACACG 58.124 47.619 0.00 0.00 0.00 4.49
1758 2369 4.688879 TGAAACTGATATTGACACCGACAC 59.311 41.667 0.00 0.00 0.00 3.67
1759 2370 4.888917 TGAAACTGATATTGACACCGACA 58.111 39.130 0.00 0.00 0.00 4.35
1760 2371 6.250819 CAATGAAACTGATATTGACACCGAC 58.749 40.000 0.00 0.00 0.00 4.79
1761 2372 5.353956 CCAATGAAACTGATATTGACACCGA 59.646 40.000 0.00 0.00 0.00 4.69
1762 2373 5.123820 ACCAATGAAACTGATATTGACACCG 59.876 40.000 0.00 0.00 0.00 4.94
1763 2374 6.071952 ACACCAATGAAACTGATATTGACACC 60.072 38.462 0.00 0.00 0.00 4.16
1764 2375 6.913170 ACACCAATGAAACTGATATTGACAC 58.087 36.000 0.00 0.00 0.00 3.67
1765 2376 7.523293 AACACCAATGAAACTGATATTGACA 57.477 32.000 0.00 0.00 0.00 3.58
1766 2377 8.299570 AGAAACACCAATGAAACTGATATTGAC 58.700 33.333 0.00 0.00 0.00 3.18
1767 2378 8.408043 AGAAACACCAATGAAACTGATATTGA 57.592 30.769 0.00 0.00 0.00 2.57
1768 2379 9.559958 GTAGAAACACCAATGAAACTGATATTG 57.440 33.333 0.00 0.00 0.00 1.90
1769 2380 8.450964 CGTAGAAACACCAATGAAACTGATATT 58.549 33.333 0.00 0.00 0.00 1.28
1770 2381 7.606456 ACGTAGAAACACCAATGAAACTGATAT 59.394 33.333 0.00 0.00 0.00 1.63
1771 2382 6.932400 ACGTAGAAACACCAATGAAACTGATA 59.068 34.615 0.00 0.00 0.00 2.15
1772 2383 5.763204 ACGTAGAAACACCAATGAAACTGAT 59.237 36.000 0.00 0.00 0.00 2.90
1773 2384 5.120399 ACGTAGAAACACCAATGAAACTGA 58.880 37.500 0.00 0.00 0.00 3.41
1774 2385 5.418310 ACGTAGAAACACCAATGAAACTG 57.582 39.130 0.00 0.00 0.00 3.16
1775 2386 5.467735 GGTACGTAGAAACACCAATGAAACT 59.532 40.000 0.00 0.00 0.00 2.66
1776 2387 5.682869 GGTACGTAGAAACACCAATGAAAC 58.317 41.667 0.00 0.00 0.00 2.78
1777 2388 5.927954 GGTACGTAGAAACACCAATGAAA 57.072 39.130 0.00 0.00 0.00 2.69
1804 2415 8.893727 GGCGGCATGATCTAGTAATATTTTATT 58.106 33.333 3.07 0.00 0.00 1.40
1805 2416 7.499232 GGGCGGCATGATCTAGTAATATTTTAT 59.501 37.037 12.47 0.00 0.00 1.40
1806 2417 6.821665 GGGCGGCATGATCTAGTAATATTTTA 59.178 38.462 12.47 0.00 0.00 1.52
1807 2418 5.648092 GGGCGGCATGATCTAGTAATATTTT 59.352 40.000 12.47 0.00 0.00 1.82
1808 2419 5.186198 GGGCGGCATGATCTAGTAATATTT 58.814 41.667 12.47 0.00 0.00 1.40
1809 2420 4.384208 GGGGCGGCATGATCTAGTAATATT 60.384 45.833 12.47 0.00 0.00 1.28
1810 2421 3.134804 GGGGCGGCATGATCTAGTAATAT 59.865 47.826 12.47 0.00 0.00 1.28
1811 2422 2.500098 GGGGCGGCATGATCTAGTAATA 59.500 50.000 12.47 0.00 0.00 0.98
1812 2423 1.279271 GGGGCGGCATGATCTAGTAAT 59.721 52.381 12.47 0.00 0.00 1.89
1813 2424 0.685097 GGGGCGGCATGATCTAGTAA 59.315 55.000 12.47 0.00 0.00 2.24
1814 2425 1.192146 GGGGGCGGCATGATCTAGTA 61.192 60.000 12.47 0.00 0.00 1.82
1815 2426 2.520536 GGGGGCGGCATGATCTAGT 61.521 63.158 12.47 0.00 0.00 2.57
1816 2427 1.845627 ATGGGGGCGGCATGATCTAG 61.846 60.000 12.47 0.00 0.00 2.43
1817 2428 1.841302 GATGGGGGCGGCATGATCTA 61.841 60.000 12.47 0.00 0.00 1.98
1818 2429 3.180799 ATGGGGGCGGCATGATCT 61.181 61.111 12.47 0.00 0.00 2.75
1819 2430 2.674380 GATGGGGGCGGCATGATC 60.674 66.667 12.47 4.42 0.00 2.92
1820 2431 4.290622 GGATGGGGGCGGCATGAT 62.291 66.667 12.47 0.00 0.00 2.45
1822 2433 4.837797 TTGGATGGGGGCGGCATG 62.838 66.667 12.47 0.00 0.00 4.06
1823 2434 2.894885 AAATTGGATGGGGGCGGCAT 62.895 55.000 12.47 0.00 0.00 4.40
2018 2635 8.211629 ACAGATCACATATTACCCTTTCTTACC 58.788 37.037 0.00 0.00 0.00 2.85
2072 2689 3.111853 GGTGGACATCAGCGATATGAA 57.888 47.619 3.44 0.00 33.95 2.57
2300 2917 7.475015 TGAATACTAATCTGAAGCATTTGTGC 58.525 34.615 0.00 0.00 0.00 4.57
2301 2918 8.886719 TCTGAATACTAATCTGAAGCATTTGTG 58.113 33.333 0.00 0.00 0.00 3.33
2308 2925 6.975772 ACGAAGTCTGAATACTAATCTGAAGC 59.024 38.462 0.00 0.00 29.74 3.86
2358 2975 2.227388 CCAGTTCATGTGCACTTTCCTC 59.773 50.000 19.41 4.56 0.00 3.71
2482 3102 5.183140 GCTGCCTTTAATAAACTGGTTCTGA 59.817 40.000 0.00 0.00 0.00 3.27
2485 3105 5.644977 AGCTGCCTTTAATAAACTGGTTC 57.355 39.130 0.00 0.00 0.00 3.62
2529 3150 7.444558 TCGTTTCTTCATGCTTTTTGTTAAC 57.555 32.000 0.00 0.00 0.00 2.01
2553 3174 8.041323 ACTTTCTGACGGTCAATATAAGTTCAT 58.959 33.333 12.54 0.00 0.00 2.57


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

AutoCloner maintained by Alex Coulton.