Multiple sequence alignment - TraesCS2B01G490300

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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 TraesCS2B01G490300 chr2B 100.000 3497 0 0 1 3497 688059256 688062752 0.000000e+00 6458
1 TraesCS2B01G490300 chr2B 77.178 241 55 0 211 451 658187751 658187991 1.310000e-29 141
2 TraesCS2B01G490300 chr2D 92.460 2321 151 15 459 2762 572609941 572612254 0.000000e+00 3295
3 TraesCS2B01G490300 chr2D 87.389 674 81 4 2826 3496 301548659 301549331 0.000000e+00 771
4 TraesCS2B01G490300 chr2D 93.307 254 16 1 210 463 572534085 572534337 1.190000e-99 374
5 TraesCS2B01G490300 chr2D 89.503 181 19 0 3 183 572533820 572534000 2.720000e-56 230
6 TraesCS2B01G490300 chr2D 80.142 282 43 9 179 451 552548722 552548999 7.660000e-47 198
7 TraesCS2B01G490300 chr2D 80.311 193 32 6 265 455 508387581 508387769 1.310000e-29 141
8 TraesCS2B01G490300 chr5B 87.425 668 78 5 2832 3496 147032635 147033299 0.000000e+00 763
9 TraesCS2B01G490300 chr5A 87.292 661 80 4 2834 3493 283635838 283636495 0.000000e+00 752
10 TraesCS2B01G490300 chrUn 86.716 670 86 3 2828 3496 202753444 202754111 0.000000e+00 741
11 TraesCS2B01G490300 chr6D 86.736 671 83 6 2828 3496 366764071 366763405 0.000000e+00 741
12 TraesCS2B01G490300 chr4B 86.716 670 86 3 2828 3496 139418515 139419182 0.000000e+00 741
13 TraesCS2B01G490300 chr4B 79.348 276 51 6 205 474 495633204 495633479 4.610000e-44 189
14 TraesCS2B01G490300 chr5D 86.519 675 87 4 2824 3496 74977994 74977322 0.000000e+00 739
15 TraesCS2B01G490300 chr5D 87.293 181 23 0 2 182 428662373 428662193 1.270000e-49 207
16 TraesCS2B01G490300 chr5D 85.792 183 25 1 2 184 433049282 433049101 3.560000e-45 193
17 TraesCS2B01G490300 chr4D 86.519 675 88 3 2824 3496 202300926 202300253 0.000000e+00 739
18 TraesCS2B01G490300 chr4D 85.714 182 26 0 2 183 322215756 322215937 3.560000e-45 193
19 TraesCS2B01G490300 chr4D 77.876 226 37 8 234 453 101482110 101482328 1.020000e-25 128
20 TraesCS2B01G490300 chr1D 86.324 680 87 6 2819 3496 97564276 97564951 0.000000e+00 736
21 TraesCS2B01G490300 chr1D 77.615 478 78 19 2 454 257347007 257347480 2.680000e-66 263
22 TraesCS2B01G490300 chr2A 82.653 294 43 7 180 467 209669562 209669853 1.610000e-63 254
23 TraesCS2B01G490300 chr2A 86.264 182 24 1 2 183 60989960 60990140 2.750000e-46 196
24 TraesCS2B01G490300 chr7D 83.395 271 38 7 206 473 12891144 12890878 9.700000e-61 244
25 TraesCS2B01G490300 chr7D 85.714 182 26 0 1 182 12891383 12891202 3.560000e-45 193
26 TraesCS2B01G490300 chr1B 84.348 230 35 1 210 438 325490576 325490347 1.260000e-54 224
27 TraesCS2B01G490300 chr3A 85.870 184 22 4 2 183 54654100 54654281 3.560000e-45 193
28 TraesCS2B01G490300 chr7B 85.165 182 27 0 2 183 366027901 366027720 1.660000e-43 187


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 TraesCS2B01G490300 chr2B 688059256 688062752 3496 False 6458.0 6458 100.0000 1 3497 1 chr2B.!!$F2 3496
1 TraesCS2B01G490300 chr2D 572609941 572612254 2313 False 3295.0 3295 92.4600 459 2762 1 chr2D.!!$F4 2303
2 TraesCS2B01G490300 chr2D 301548659 301549331 672 False 771.0 771 87.3890 2826 3496 1 chr2D.!!$F1 670
3 TraesCS2B01G490300 chr2D 572533820 572534337 517 False 302.0 374 91.4050 3 463 2 chr2D.!!$F5 460
4 TraesCS2B01G490300 chr5B 147032635 147033299 664 False 763.0 763 87.4250 2832 3496 1 chr5B.!!$F1 664
5 TraesCS2B01G490300 chr5A 283635838 283636495 657 False 752.0 752 87.2920 2834 3493 1 chr5A.!!$F1 659
6 TraesCS2B01G490300 chrUn 202753444 202754111 667 False 741.0 741 86.7160 2828 3496 1 chrUn.!!$F1 668
7 TraesCS2B01G490300 chr6D 366763405 366764071 666 True 741.0 741 86.7360 2828 3496 1 chr6D.!!$R1 668
8 TraesCS2B01G490300 chr4B 139418515 139419182 667 False 741.0 741 86.7160 2828 3496 1 chr4B.!!$F1 668
9 TraesCS2B01G490300 chr5D 74977322 74977994 672 True 739.0 739 86.5190 2824 3496 1 chr5D.!!$R1 672
10 TraesCS2B01G490300 chr4D 202300253 202300926 673 True 739.0 739 86.5190 2824 3496 1 chr4D.!!$R1 672
11 TraesCS2B01G490300 chr1D 97564276 97564951 675 False 736.0 736 86.3240 2819 3496 1 chr1D.!!$F1 677
12 TraesCS2B01G490300 chr7D 12890878 12891383 505 True 218.5 244 84.5545 1 473 2 chr7D.!!$R1 472

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
499 559 0.245539 TGCTTGTGGTCGTACCTAGC 59.754 55.0 13.65 13.65 39.58 3.42 F
1215 1284 0.397941 ACACACCACCAGATCACAGG 59.602 55.0 0.00 0.00 0.00 4.00 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1374 1443 0.100682 TTCCACGCGAGATAGCTCAC 59.899 55.0 15.93 0.0 41.36 3.51 R
2785 2862 0.039527 GCGCTAAGTGGTTTTGGTGG 60.040 55.0 0.00 0.0 0.00 4.61 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
37 38 4.411212 AGTGGTATTGGGGTGGAGTAATAC 59.589 45.833 0.00 0.00 36.02 1.89
47 48 5.534278 GGGGTGGAGTAATACTAGTAGACAC 59.466 48.000 16.21 13.14 0.00 3.67
50 51 6.776603 GGTGGAGTAATACTAGTAGACACCAT 59.223 42.308 25.90 7.92 42.99 3.55
79 80 8.737175 AGTTTAACGATCTACTTATCACAGACA 58.263 33.333 0.00 0.00 0.00 3.41
151 152 8.927675 ACACTATTCTGTTAATTACCCAACAA 57.072 30.769 0.00 0.00 34.43 2.83
169 170 5.417811 CAACAATAATTTGCCTACCATGCA 58.582 37.500 0.00 0.00 36.22 3.96
247 306 4.336433 CACTTTGCCCTATCACTATTGGTG 59.664 45.833 0.00 0.00 46.60 4.17
287 346 3.593442 AGAACAAGGGGATTGACAACA 57.407 42.857 0.00 0.00 41.83 3.33
293 352 4.104102 ACAAGGGGATTGACAACACTCTTA 59.896 41.667 5.92 0.00 41.83 2.10
294 353 5.222130 ACAAGGGGATTGACAACACTCTTAT 60.222 40.000 5.92 0.00 41.83 1.73
338 397 6.458232 TTATTTGTTTGTGTGCAGGTACTT 57.542 33.333 0.00 0.00 34.60 2.24
341 400 1.263217 GTTTGTGTGCAGGTACTTCCG 59.737 52.381 0.00 0.00 41.99 4.30
356 415 4.445452 ACTTCCGACGTTATTAGCTTCA 57.555 40.909 0.00 0.00 0.00 3.02
365 424 5.352284 ACGTTATTAGCTTCATGACTCCTG 58.648 41.667 0.00 0.00 0.00 3.86
395 454 5.800296 TGATAAACCTTGGTTCTTCATCGA 58.200 37.500 5.43 0.00 0.00 3.59
404 463 6.183360 CCTTGGTTCTTCATCGAGTGAAATAC 60.183 42.308 10.21 10.17 45.74 1.89
467 527 2.555325 TCCAACACTTCGTCGTGAGTAT 59.445 45.455 12.45 0.00 38.27 2.12
491 551 2.078849 TGTATGAGTGCTTGTGGTCG 57.921 50.000 0.00 0.00 0.00 4.79
499 559 0.245539 TGCTTGTGGTCGTACCTAGC 59.754 55.000 13.65 13.65 39.58 3.42
500 560 0.245539 GCTTGTGGTCGTACCTAGCA 59.754 55.000 14.69 0.00 39.58 3.49
502 562 2.677037 GCTTGTGGTCGTACCTAGCATT 60.677 50.000 14.69 0.00 39.58 3.56
515 575 4.353777 ACCTAGCATTGTCTTCTCACCTA 58.646 43.478 0.00 0.00 0.00 3.08
556 620 8.664669 TTCTGCTAAAAAGGAAAATTATCCCT 57.335 30.769 0.00 0.00 40.59 4.20
574 638 1.699634 CCTGAAGGTTCCACTTCTCCA 59.300 52.381 7.38 0.00 45.49 3.86
575 639 2.106511 CCTGAAGGTTCCACTTCTCCAA 59.893 50.000 7.38 0.00 45.49 3.53
586 650 7.976175 GGTTCCACTTCTCCAAATATTGATTTC 59.024 37.037 0.00 0.00 32.73 2.17
638 702 6.394809 ACAACAAGTAAGGAAACAAGGTTTG 58.605 36.000 0.00 0.00 0.00 2.93
663 727 9.689976 TGTTGGTTATCAAAGTGTTATCATTTG 57.310 29.630 0.00 0.00 37.08 2.32
671 738 7.885297 TCAAAGTGTTATCATTTGGAAAGAGG 58.115 34.615 0.00 0.00 35.21 3.69
674 741 5.774690 AGTGTTATCATTTGGAAAGAGGCAA 59.225 36.000 0.00 0.00 0.00 4.52
677 744 6.151648 TGTTATCATTTGGAAAGAGGCAAGAG 59.848 38.462 0.00 0.00 0.00 2.85
694 761 2.171003 AGAGCCGGAAAAATCCTTTGG 58.829 47.619 5.05 0.00 0.00 3.28
700 768 5.247337 AGCCGGAAAAATCCTTTGGAAAATA 59.753 36.000 5.05 0.00 34.34 1.40
703 771 7.158697 CCGGAAAAATCCTTTGGAAAATAGTT 58.841 34.615 0.00 0.00 34.34 2.24
740 808 7.957002 TCAAAAGTGTTAAAATATGGAGCCAA 58.043 30.769 0.00 0.00 0.00 4.52
857 925 4.259356 GTGGACTCACCCCTTTGTATTAC 58.741 47.826 0.00 0.00 37.92 1.89
912 980 5.934043 TGATCTATTTGCATATCCCAGAACG 59.066 40.000 0.00 0.00 0.00 3.95
919 987 3.387699 TGCATATCCCAGAACGATCTTGA 59.612 43.478 0.00 0.00 32.03 3.02
953 1021 9.893634 TGTATTCCAACTAATAAGATTTCGGAA 57.106 29.630 0.00 0.00 34.71 4.30
988 1057 4.053295 TGTTAACTCACGGTAGAAGTTGC 58.947 43.478 7.22 6.44 0.00 4.17
1037 1106 4.339247 GCATTCTTAGGGCTAAAGATTGCA 59.661 41.667 26.08 8.24 34.46 4.08
1126 1195 6.327154 TCTTGGTATCAATATATACGCGTGG 58.673 40.000 24.59 2.40 33.85 4.94
1134 1203 1.700955 ATATACGCGTGGGGAGAGTT 58.299 50.000 24.59 0.00 0.00 3.01
1214 1283 1.516161 CACACACCACCAGATCACAG 58.484 55.000 0.00 0.00 0.00 3.66
1215 1284 0.397941 ACACACCACCAGATCACAGG 59.602 55.000 0.00 0.00 0.00 4.00
1219 1288 1.153489 CCACCAGATCACAGGAGCG 60.153 63.158 5.95 0.00 33.76 5.03
1312 1381 5.360144 TCCTGTGAAGTACCTTATGCTCTAC 59.640 44.000 0.00 0.00 0.00 2.59
1316 1385 7.620880 TGTGAAGTACCTTATGCTCTACAAAT 58.379 34.615 0.00 0.00 0.00 2.32
1330 1399 5.009110 GCTCTACAAATGCTTATTCCCTTCC 59.991 44.000 0.00 0.00 0.00 3.46
1345 1414 2.207501 CTTCCTGGGATGCTGCCACT 62.208 60.000 0.00 0.00 30.85 4.00
1346 1415 0.913934 TTCCTGGGATGCTGCCACTA 60.914 55.000 0.00 0.00 30.85 2.74
1349 1418 0.463295 CTGGGATGCTGCCACTACTG 60.463 60.000 0.00 0.00 30.85 2.74
1358 1427 1.257750 TGCCACTACTGATGTCGGCT 61.258 55.000 0.00 0.00 40.27 5.52
1360 1429 1.927895 CCACTACTGATGTCGGCTTC 58.072 55.000 0.00 0.00 0.00 3.86
1384 1453 2.786495 CCGCCACCGTGAGCTATCT 61.786 63.158 0.00 0.00 0.00 1.98
1483 1552 1.202927 AGTTTCCACCACCTCCATGTG 60.203 52.381 0.00 0.00 35.98 3.21
1504 1573 2.752903 GGAAAATACACTCGGCACCATT 59.247 45.455 0.00 0.00 0.00 3.16
1524 1593 1.761711 TGGAACAATAAGGGGGTGGA 58.238 50.000 0.00 0.00 31.92 4.02
1580 1649 6.073003 CGAGGAAGGTATTGCAAATAAGATCC 60.073 42.308 1.71 7.77 0.00 3.36
1588 1657 2.580322 TGCAAATAAGATCCTCCCCACA 59.420 45.455 0.00 0.00 0.00 4.17
1636 1705 4.220602 GCAACCAACAAGGACCAGATATTT 59.779 41.667 0.00 0.00 41.22 1.40
1663 1732 3.655211 CCAGCCACCCAGGAGCTT 61.655 66.667 3.67 0.00 41.22 3.74
1672 1741 0.034186 CCCAGGAGCTTGTGGCATTA 60.034 55.000 9.36 0.00 44.79 1.90
1714 1783 0.462581 GCGACATCAAGGAGCCATCA 60.463 55.000 0.00 0.00 0.00 3.07
1739 1808 4.022589 CAGTTCTTGGCTTTGATGTGTCAT 60.023 41.667 0.00 0.00 33.56 3.06
1744 1813 2.563620 TGGCTTTGATGTGTCATGCAAT 59.436 40.909 0.00 0.00 36.52 3.56
1772 1841 1.272807 TGTGGCCAGGTACTTCTACC 58.727 55.000 5.11 0.00 42.84 3.18
1792 1861 9.577110 TTCTACCAGTACTTTGAACATAATACG 57.423 33.333 0.00 0.00 0.00 3.06
1834 1903 2.739932 CGAGATCGGGCATGAAGTCTTT 60.740 50.000 0.00 0.00 35.37 2.52
1840 1909 3.074412 CGGGCATGAAGTCTTTACACTT 58.926 45.455 0.00 0.00 39.43 3.16
1846 1915 4.764050 TGAAGTCTTTACACTTGGTGGA 57.236 40.909 2.75 0.00 36.71 4.02
1852 1921 4.039366 GTCTTTACACTTGGTGGAGACTCT 59.961 45.833 16.24 0.00 38.16 3.24
1872 1941 0.179094 TGGATGCGTACCGATGAACC 60.179 55.000 0.00 0.00 0.00 3.62
1882 1951 1.431488 CCGATGAACCACCAGATGCG 61.431 60.000 0.00 0.00 0.00 4.73
1888 1957 0.680921 AACCACCAGATGCGATTGGG 60.681 55.000 5.35 0.00 38.82 4.12
1889 1958 1.224315 CCACCAGATGCGATTGGGA 59.776 57.895 5.35 0.00 38.82 4.37
1911 1980 0.821517 ACACGACCAGTCTTCACACA 59.178 50.000 0.00 0.00 0.00 3.72
1921 1990 1.153756 CTTCACACAGGGGGCCTTT 59.846 57.895 0.84 0.00 0.00 3.11
1951 2020 1.202806 ACTTATGCACCCCATGATCCG 60.203 52.381 0.00 0.00 35.34 4.18
1974 2043 0.671781 GAGAGTGTGCTGGTGCGATT 60.672 55.000 0.00 0.00 43.34 3.34
2005 2074 3.873910 CAATAGGAGGTTCGATGTGGTT 58.126 45.455 0.00 0.00 0.00 3.67
2026 2095 3.553095 AAGCCCACCTCGCTTCACC 62.553 63.158 0.00 0.00 42.94 4.02
2029 2098 2.671070 CCACCTCGCTTCACCCAT 59.329 61.111 0.00 0.00 0.00 4.00
2032 2101 2.283529 ACCTCGCTTCACCCATCGT 61.284 57.895 0.00 0.00 0.00 3.73
2045 2114 3.253188 CACCCATCGTTGTGAAATTGACT 59.747 43.478 0.00 0.00 34.37 3.41
2085 2154 4.818534 ACAAGTTGTGCTATGTCAACAG 57.181 40.909 7.96 5.33 44.08 3.16
2095 2164 0.588252 ATGTCAACAGCAACGCAGAC 59.412 50.000 0.00 0.00 0.00 3.51
2104 2173 1.064060 AGCAACGCAGACACAAACTTC 59.936 47.619 0.00 0.00 0.00 3.01
2119 2188 0.956633 ACTTCATTGTGTGGCAGCTG 59.043 50.000 10.11 10.11 0.00 4.24
2122 2191 0.607217 TCATTGTGTGGCAGCTGGAG 60.607 55.000 17.12 0.00 0.00 3.86
2179 2248 5.455525 GCGATGTAGCATTAAACCATTGAAC 59.544 40.000 0.00 0.00 37.05 3.18
2188 2257 6.677913 CATTAAACCATTGAACGAAGACCTT 58.322 36.000 0.00 0.00 0.00 3.50
2193 2262 1.961793 TTGAACGAAGACCTTGGTGG 58.038 50.000 0.00 0.00 42.93 4.61
2210 2279 2.225017 GGTGGTGAATCCTTCTTCCCAA 60.225 50.000 0.00 0.00 37.07 4.12
2272 2341 2.685897 TGAAAAGTTGTACTGGTGCCAC 59.314 45.455 0.00 0.00 0.00 5.01
2310 2379 2.445145 TGAAGGAATTGGTGGACCTTGA 59.555 45.455 0.00 0.00 41.90 3.02
2346 2415 4.325028 TTGAGCGACAAAGGTTACACTA 57.675 40.909 0.00 0.00 35.39 2.74
2349 2418 3.596214 AGCGACAAAGGTTACACTATGG 58.404 45.455 0.00 0.00 0.00 2.74
2354 2423 5.567224 CGACAAAGGTTACACTATGGTGGTA 60.567 44.000 14.25 1.24 46.85 3.25
2421 2490 6.108687 TCTCCATTAAGATGTGCAACTACTG 58.891 40.000 0.00 0.00 38.04 2.74
2449 2518 5.255687 TGATTTTAGAGATGTGGTGCATGT 58.744 37.500 0.00 0.00 38.06 3.21
2454 2523 3.603532 AGAGATGTGGTGCATGTAGTTG 58.396 45.455 0.00 0.00 38.06 3.16
2529 2598 2.189594 ACTAGGTTTTTGCCCCGTAC 57.810 50.000 0.00 0.00 0.00 3.67
2534 2603 1.538512 GGTTTTTGCCCCGTACTTCTC 59.461 52.381 0.00 0.00 0.00 2.87
2536 2605 0.393820 TTTTGCCCCGTACTTCTCGT 59.606 50.000 0.00 0.00 0.00 4.18
2537 2606 0.320073 TTTGCCCCGTACTTCTCGTG 60.320 55.000 0.00 0.00 0.00 4.35
2538 2607 1.466025 TTGCCCCGTACTTCTCGTGT 61.466 55.000 0.00 0.00 0.00 4.49
2557 2634 3.961414 TGGGGACAGCGGGTTTCC 61.961 66.667 3.80 3.80 35.01 3.13
2565 2642 1.972795 ACAGCGGGTTTCCTAGTTGTA 59.027 47.619 0.00 0.00 0.00 2.41
2649 2726 8.568794 ACTACAAAAGAAATCAAAAGGAGCTAC 58.431 33.333 0.00 0.00 0.00 3.58
2652 2729 7.015584 ACAAAAGAAATCAAAAGGAGCTACCAT 59.984 33.333 0.00 0.00 42.04 3.55
2653 2730 6.521151 AAGAAATCAAAAGGAGCTACCATG 57.479 37.500 0.00 0.00 42.04 3.66
2654 2731 5.574188 AGAAATCAAAAGGAGCTACCATGT 58.426 37.500 0.00 0.00 42.04 3.21
2675 2752 7.655328 CCATGTGGTTTAAAAAGCTCACAAATA 59.345 33.333 10.49 0.00 40.97 1.40
2754 2831 7.339466 CAGTGGGCCTCTTTTAAATGTTATAGT 59.661 37.037 5.13 0.00 0.00 2.12
2758 2835 7.338449 GGGCCTCTTTTAAATGTTATAGTGTGA 59.662 37.037 0.84 0.00 0.00 3.58
2788 2865 7.945033 AAAATGTATGTTCATGTGTTTCCAC 57.055 32.000 0.00 0.00 42.19 4.02
2789 2866 5.643379 ATGTATGTTCATGTGTTTCCACC 57.357 39.130 0.00 0.00 41.09 4.61
2790 2867 4.464947 TGTATGTTCATGTGTTTCCACCA 58.535 39.130 0.00 0.00 41.09 4.17
2791 2868 4.889995 TGTATGTTCATGTGTTTCCACCAA 59.110 37.500 0.00 0.00 41.09 3.67
2792 2869 5.360999 TGTATGTTCATGTGTTTCCACCAAA 59.639 36.000 0.00 0.00 41.09 3.28
2793 2870 4.808414 TGTTCATGTGTTTCCACCAAAA 57.192 36.364 0.00 0.00 41.09 2.44
2794 2871 4.499183 TGTTCATGTGTTTCCACCAAAAC 58.501 39.130 0.00 0.00 41.09 2.43
2795 2872 3.810310 TCATGTGTTTCCACCAAAACC 57.190 42.857 0.00 0.00 41.09 3.27
2796 2873 3.099905 TCATGTGTTTCCACCAAAACCA 58.900 40.909 0.00 0.00 41.09 3.67
2797 2874 3.118956 TCATGTGTTTCCACCAAAACCAC 60.119 43.478 0.00 0.00 41.09 4.16
2798 2875 2.530701 TGTGTTTCCACCAAAACCACT 58.469 42.857 0.00 0.00 41.09 4.00
2799 2876 2.900546 TGTGTTTCCACCAAAACCACTT 59.099 40.909 0.00 0.00 41.09 3.16
2800 2877 4.087182 TGTGTTTCCACCAAAACCACTTA 58.913 39.130 0.00 0.00 41.09 2.24
2801 2878 4.158764 TGTGTTTCCACCAAAACCACTTAG 59.841 41.667 0.00 0.00 41.09 2.18
2802 2879 3.131400 TGTTTCCACCAAAACCACTTAGC 59.869 43.478 0.00 0.00 38.16 3.09
2803 2880 1.600023 TCCACCAAAACCACTTAGCG 58.400 50.000 0.00 0.00 0.00 4.26
2804 2881 0.039527 CCACCAAAACCACTTAGCGC 60.040 55.000 0.00 0.00 0.00 5.92
2805 2882 0.951558 CACCAAAACCACTTAGCGCT 59.048 50.000 17.26 17.26 0.00 5.92
2806 2883 1.069227 CACCAAAACCACTTAGCGCTC 60.069 52.381 16.34 0.00 0.00 5.03
2807 2884 0.165944 CCAAAACCACTTAGCGCTCG 59.834 55.000 16.34 9.49 0.00 5.03
2808 2885 1.144969 CAAAACCACTTAGCGCTCGA 58.855 50.000 16.34 2.51 0.00 4.04
2809 2886 1.136336 CAAAACCACTTAGCGCTCGAC 60.136 52.381 16.34 0.00 0.00 4.20
2810 2887 0.669625 AAACCACTTAGCGCTCGACC 60.670 55.000 16.34 0.00 0.00 4.79
2811 2888 1.533469 AACCACTTAGCGCTCGACCT 61.533 55.000 16.34 0.00 0.00 3.85
2812 2889 1.517257 CCACTTAGCGCTCGACCTG 60.517 63.158 16.34 3.14 0.00 4.00
2813 2890 1.213013 CACTTAGCGCTCGACCTGT 59.787 57.895 16.34 1.81 0.00 4.00
2814 2891 0.388649 CACTTAGCGCTCGACCTGTT 60.389 55.000 16.34 0.00 0.00 3.16
2815 2892 0.317479 ACTTAGCGCTCGACCTGTTT 59.683 50.000 16.34 0.00 0.00 2.83
2816 2893 1.270147 ACTTAGCGCTCGACCTGTTTT 60.270 47.619 16.34 0.00 0.00 2.43
2817 2894 2.029649 ACTTAGCGCTCGACCTGTTTTA 60.030 45.455 16.34 0.00 0.00 1.52
2818 2895 2.728690 TAGCGCTCGACCTGTTTTAA 57.271 45.000 16.34 0.00 0.00 1.52
2819 2896 1.873698 AGCGCTCGACCTGTTTTAAA 58.126 45.000 2.64 0.00 0.00 1.52
2820 2897 2.423577 AGCGCTCGACCTGTTTTAAAT 58.576 42.857 2.64 0.00 0.00 1.40
2821 2898 2.159627 AGCGCTCGACCTGTTTTAAATG 59.840 45.455 2.64 0.00 0.00 2.32
2822 2899 2.505866 CGCTCGACCTGTTTTAAATGC 58.494 47.619 0.00 0.00 0.00 3.56
2823 2900 2.159627 CGCTCGACCTGTTTTAAATGCT 59.840 45.455 0.00 0.00 0.00 3.79
2824 2901 3.369756 CGCTCGACCTGTTTTAAATGCTA 59.630 43.478 0.00 0.00 0.00 3.49
2950 3030 6.546403 AGATAGTCATACCTGTGTTGTCGTAT 59.454 38.462 0.00 0.00 0.00 3.06
3014 3094 5.496556 TGTCCACTTCCATGACGATAAATT 58.503 37.500 0.00 0.00 0.00 1.82
3038 3118 4.026393 TCGTGTCATGTAAGTGTTTTCGTG 60.026 41.667 0.00 0.00 0.00 4.35
3041 3121 6.427150 GTGTCATGTAAGTGTTTTCGTGAAT 58.573 36.000 0.00 0.00 33.28 2.57
3043 3123 6.258947 TGTCATGTAAGTGTTTTCGTGAATGA 59.741 34.615 0.00 0.00 33.28 2.57
3067 3147 1.647545 CGACACATGGCATCCACCAC 61.648 60.000 0.00 0.00 44.17 4.16
3071 3151 0.112995 ACATGGCATCCACCACAACT 59.887 50.000 0.00 0.00 44.17 3.16
3121 3201 4.693042 TTGGATCCGATAACCCGTTAAT 57.307 40.909 7.39 0.00 0.00 1.40
3152 3232 3.307674 CAATGGTGATTTTCCACGTGTG 58.692 45.455 15.65 6.24 37.81 3.82
3183 3263 1.408340 TGGTCGAAGGAAACACGTGTA 59.592 47.619 23.69 0.00 34.84 2.90
3206 3286 2.362736 CTCCTCATTGGGACACATGTG 58.637 52.381 24.25 24.25 39.29 3.21
3229 3309 0.736325 CACCGAATGGACAGGACGAC 60.736 60.000 0.00 0.00 39.21 4.34
3241 3321 1.068472 CAGGACGACCCTATGATACGC 60.068 57.143 0.00 0.00 45.60 4.42
3318 3398 1.607148 ACTTTGTCAAAAGGTAGCGGC 59.393 47.619 0.00 0.00 46.01 6.53
3359 3439 4.219070 TGTTAACGGCCTAGTCGCATATAT 59.781 41.667 0.00 0.00 32.11 0.86
3362 3442 2.025155 CGGCCTAGTCGCATATATCCT 58.975 52.381 0.00 0.00 0.00 3.24
3434 3514 0.179045 GTAGCGTCATCTGGGCCATT 60.179 55.000 6.72 0.00 0.00 3.16
3462 3542 2.380064 TTCCAGCCCATTGTGACTTT 57.620 45.000 0.00 0.00 0.00 2.66
3470 3550 1.270550 CCATTGTGACTTTCAGCCCAC 59.729 52.381 0.00 0.00 0.00 4.61
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
16 17 4.637600 AGTATTACTCCACCCCAATACCA 58.362 43.478 0.00 0.00 35.43 3.25
20 21 6.781507 GTCTACTAGTATTACTCCACCCCAAT 59.218 42.308 2.33 0.00 0.00 3.16
37 38 9.798994 ATCGTTAAACTTAATGGTGTCTACTAG 57.201 33.333 2.42 0.00 32.00 2.57
79 80 9.516546 CATGGCATAATCTCATATAGGCATTAT 57.483 33.333 0.00 0.00 38.49 1.28
126 127 8.927675 TTGTTGGGTAATTAACAGAATAGTGT 57.072 30.769 2.32 0.00 37.98 3.55
134 135 8.878769 GGCAAATTATTGTTGGGTAATTAACAG 58.121 33.333 2.32 0.00 37.98 3.16
138 139 8.697292 GGTAGGCAAATTATTGTTGGGTAATTA 58.303 33.333 0.00 0.00 38.85 1.40
169 170 9.979578 TTTTTGTATTGATGAAAGCATGTAGTT 57.020 25.926 0.00 0.00 34.11 2.24
197 244 8.978539 GCAAGAAAGTAAAAGGAAAATTGTAGG 58.021 33.333 0.00 0.00 0.00 3.18
198 245 8.978539 GGCAAGAAAGTAAAAGGAAAATTGTAG 58.021 33.333 0.00 0.00 0.00 2.74
199 246 8.478877 TGGCAAGAAAGTAAAAGGAAAATTGTA 58.521 29.630 0.00 0.00 0.00 2.41
200 247 7.279981 GTGGCAAGAAAGTAAAAGGAAAATTGT 59.720 33.333 0.00 0.00 0.00 2.71
201 248 7.495606 AGTGGCAAGAAAGTAAAAGGAAAATTG 59.504 33.333 0.00 0.00 0.00 2.32
203 250 7.124573 AGTGGCAAGAAAGTAAAAGGAAAAT 57.875 32.000 0.00 0.00 0.00 1.82
204 251 6.538945 AGTGGCAAGAAAGTAAAAGGAAAA 57.461 33.333 0.00 0.00 0.00 2.29
205 252 6.538945 AAGTGGCAAGAAAGTAAAAGGAAA 57.461 33.333 0.00 0.00 0.00 3.13
208 267 4.507756 GCAAAGTGGCAAGAAAGTAAAAGG 59.492 41.667 0.00 0.00 0.00 3.11
259 318 3.584733 ATCCCCTTGTTCTTGCTATCC 57.415 47.619 0.00 0.00 0.00 2.59
287 346 2.375174 TGCACCCACCAAAGATAAGAGT 59.625 45.455 0.00 0.00 0.00 3.24
293 352 0.469705 TGCTTGCACCCACCAAAGAT 60.470 50.000 0.00 0.00 0.00 2.40
294 353 0.685785 TTGCTTGCACCCACCAAAGA 60.686 50.000 0.00 0.00 0.00 2.52
338 397 4.097437 AGTCATGAAGCTAATAACGTCGGA 59.903 41.667 0.00 0.00 0.00 4.55
341 400 5.460419 CAGGAGTCATGAAGCTAATAACGTC 59.540 44.000 0.00 0.00 0.00 4.34
356 415 4.574674 TTATCAAACCAGCAGGAGTCAT 57.425 40.909 0.35 0.00 38.69 3.06
404 463 3.499537 TGATGTTGCACAGTAGCAGAAAG 59.500 43.478 0.00 0.00 46.54 2.62
481 541 0.245539 TGCTAGGTACGACCACAAGC 59.754 55.000 13.77 13.77 41.95 4.01
491 551 4.160626 AGGTGAGAAGACAATGCTAGGTAC 59.839 45.833 0.00 0.00 0.00 3.34
499 559 2.926200 CGCACTAGGTGAGAAGACAATG 59.074 50.000 1.57 0.00 35.44 2.82
500 560 2.675317 GCGCACTAGGTGAGAAGACAAT 60.675 50.000 0.30 0.00 35.44 2.71
502 562 0.243907 GCGCACTAGGTGAGAAGACA 59.756 55.000 0.30 0.00 35.44 3.41
515 575 1.267806 CAGAAGTGAATTTGGCGCACT 59.732 47.619 10.83 0.00 44.15 4.40
556 620 3.943671 TTTGGAGAAGTGGAACCTTCA 57.056 42.857 3.99 0.00 42.68 3.02
590 654 8.814931 TGTTCATATCCAAACATTTCTGGAAAT 58.185 29.630 3.06 3.06 44.77 2.17
604 668 8.573035 GTTTCCTTACTTGTTGTTCATATCCAA 58.427 33.333 0.00 0.00 0.00 3.53
607 671 9.612620 CTTGTTTCCTTACTTGTTGTTCATATC 57.387 33.333 0.00 0.00 0.00 1.63
638 702 9.139174 CCAAATGATAACACTTTGATAACCAAC 57.861 33.333 8.44 0.00 33.85 3.77
641 705 9.921637 TTTCCAAATGATAACACTTTGATAACC 57.078 29.630 8.44 0.00 32.15 2.85
645 709 8.526147 CCTCTTTCCAAATGATAACACTTTGAT 58.474 33.333 8.44 0.00 32.15 2.57
648 712 6.267471 TGCCTCTTTCCAAATGATAACACTTT 59.733 34.615 0.00 0.00 0.00 2.66
671 738 1.177401 AGGATTTTTCCGGCTCTTGC 58.823 50.000 0.00 0.00 38.76 4.01
674 741 2.171003 CCAAAGGATTTTTCCGGCTCT 58.829 47.619 0.00 0.00 35.03 4.09
677 744 3.394674 TTTCCAAAGGATTTTTCCGGC 57.605 42.857 0.00 0.00 35.03 6.13
679 746 9.699703 TTAACTATTTTCCAAAGGATTTTTCCG 57.300 29.630 0.00 0.00 35.03 4.30
710 778 9.369904 CTCCATATTTTAACACTTTTGATTGGG 57.630 33.333 0.00 0.00 0.00 4.12
725 793 7.016153 AGATATCGGTTGGCTCCATATTTTA 57.984 36.000 0.00 0.00 0.00 1.52
843 911 5.899278 ACAATCCAAGTAATACAAAGGGGT 58.101 37.500 0.00 0.00 0.00 4.95
887 955 6.091849 CGTTCTGGGATATGCAAATAGATCAG 59.908 42.308 0.00 0.00 0.00 2.90
889 957 6.166279 TCGTTCTGGGATATGCAAATAGATC 58.834 40.000 0.00 0.00 0.00 2.75
953 1021 6.365789 CCGTGAGTTAACATTGCATGATTTTT 59.634 34.615 8.61 0.00 0.00 1.94
954 1022 5.863397 CCGTGAGTTAACATTGCATGATTTT 59.137 36.000 8.61 0.00 0.00 1.82
975 1044 0.599558 TAGCACGCAACTTCTACCGT 59.400 50.000 0.00 0.00 0.00 4.83
1007 1076 3.872459 AGCCCTAAGAATGCATAGCTT 57.128 42.857 16.17 16.17 0.00 3.74
1014 1083 4.339247 TGCAATCTTTAGCCCTAAGAATGC 59.661 41.667 18.77 18.77 34.07 3.56
1017 1086 8.766994 ATTAATGCAATCTTTAGCCCTAAGAA 57.233 30.769 0.00 0.00 0.00 2.52
1112 1181 3.428532 ACTCTCCCCACGCGTATATATT 58.571 45.455 13.44 0.00 0.00 1.28
1122 1191 1.402456 CGTGTTAGAACTCTCCCCACG 60.402 57.143 9.74 9.74 36.17 4.94
1123 1192 1.067071 CCGTGTTAGAACTCTCCCCAC 60.067 57.143 0.00 0.00 0.00 4.61
1126 1195 0.606604 TGCCGTGTTAGAACTCTCCC 59.393 55.000 0.00 0.00 0.00 4.30
1134 1203 1.684450 TGAGTTGTCTGCCGTGTTAGA 59.316 47.619 0.00 0.00 0.00 2.10
1191 1260 0.537143 GATCTGGTGGTGTGTGGCAA 60.537 55.000 0.00 0.00 0.00 4.52
1214 1283 0.238553 GTGAGAACAAAAGGCGCTCC 59.761 55.000 7.64 0.00 0.00 4.70
1215 1284 0.238553 GGTGAGAACAAAAGGCGCTC 59.761 55.000 7.64 0.00 0.00 5.03
1219 1288 2.238521 TGGATGGTGAGAACAAAAGGC 58.761 47.619 0.00 0.00 0.00 4.35
1267 1336 0.676736 GGCGAACTAGGATCTCCCAG 59.323 60.000 0.00 0.00 37.41 4.45
1312 1381 4.660789 CCAGGAAGGGAATAAGCATTTG 57.339 45.455 0.00 0.00 0.00 2.32
1330 1399 0.463295 CAGTAGTGGCAGCATCCCAG 60.463 60.000 0.00 0.00 31.89 4.45
1336 1405 0.108662 CGACATCAGTAGTGGCAGCA 60.109 55.000 0.00 0.00 0.00 4.41
1345 1414 1.466866 CGAACGAAGCCGACATCAGTA 60.467 52.381 0.00 0.00 39.50 2.74
1346 1415 0.732880 CGAACGAAGCCGACATCAGT 60.733 55.000 0.00 0.00 39.50 3.41
1349 1418 2.695646 GCGAACGAAGCCGACATC 59.304 61.111 0.00 0.00 39.50 3.06
1374 1443 0.100682 TTCCACGCGAGATAGCTCAC 59.899 55.000 15.93 0.00 41.36 3.51
1378 1447 0.249489 ATGGTTCCACGCGAGATAGC 60.249 55.000 15.93 6.61 0.00 2.97
1384 1453 1.669760 GGACAATGGTTCCACGCGA 60.670 57.895 15.93 0.00 0.00 5.87
1483 1552 1.816074 TGGTGCCGAGTGTATTTTCC 58.184 50.000 0.00 0.00 0.00 3.13
1504 1573 2.074579 TCCACCCCCTTATTGTTCCAA 58.925 47.619 0.00 0.00 0.00 3.53
1524 1593 4.060205 GCACACCTTTTCAAGCATCAAAT 58.940 39.130 0.00 0.00 0.00 2.32
1555 1624 6.073003 GGATCTTATTTGCAATACCTTCCTCG 60.073 42.308 0.00 0.00 0.00 4.63
1559 1628 6.207614 GGGAGGATCTTATTTGCAATACCTTC 59.792 42.308 0.00 0.90 33.73 3.46
1580 1649 1.950484 GCCATTACAGTGTGTGGGGAG 60.950 57.143 23.20 6.09 32.35 4.30
1636 1705 1.304052 GGTGGCTGGGTTGCACATA 60.304 57.895 0.00 0.00 34.04 2.29
1675 1744 3.825160 AACATCTGGTGTGCCGCGT 62.825 57.895 4.92 0.00 41.14 6.01
1679 1748 2.870372 GCGAACATCTGGTGTGCC 59.130 61.111 0.00 0.00 41.14 5.01
1714 1783 2.295349 CACATCAAAGCCAAGAACTGCT 59.705 45.455 0.00 0.00 40.17 4.24
1719 1788 3.305539 GCATGACACATCAAAGCCAAGAA 60.306 43.478 0.00 0.00 38.69 2.52
1739 1808 1.818060 GGCCACAACATACTGATTGCA 59.182 47.619 0.00 0.00 0.00 4.08
1744 1813 1.064003 ACCTGGCCACAACATACTGA 58.936 50.000 0.00 0.00 0.00 3.41
1772 1841 9.784680 ACTAGACGTATTATGTTCAAAGTACTG 57.215 33.333 0.00 0.00 0.00 2.74
1792 1861 4.694509 TCGTAACTGAGAACTCCACTAGAC 59.305 45.833 0.00 0.00 0.00 2.59
1834 1903 2.632996 CCAAGAGTCTCCACCAAGTGTA 59.367 50.000 0.00 0.00 0.00 2.90
1840 1909 0.615331 GCATCCAAGAGTCTCCACCA 59.385 55.000 0.00 0.00 0.00 4.17
1872 1941 0.734889 GTTCCCAATCGCATCTGGTG 59.265 55.000 0.00 0.00 0.00 4.17
1882 1951 1.156736 CTGGTCGTGTGTTCCCAATC 58.843 55.000 0.00 0.00 0.00 2.67
1888 1957 1.859080 GTGAAGACTGGTCGTGTGTTC 59.141 52.381 0.00 0.00 37.94 3.18
1889 1958 1.206132 TGTGAAGACTGGTCGTGTGTT 59.794 47.619 0.00 0.00 34.09 3.32
1911 1980 2.246126 CCCCAGTAAAAGGCCCCCT 61.246 63.158 0.00 0.00 33.87 4.79
1921 1990 1.562475 GGTGCATAAGTCCCCCAGTAA 59.438 52.381 0.00 0.00 0.00 2.24
1951 2020 1.670406 CACCAGCACACTCTCCTGC 60.670 63.158 0.00 0.00 0.00 4.85
1974 2043 4.202223 CGAACCTCCTATTGCTTAGGCTAA 60.202 45.833 6.80 6.80 46.35 3.09
1996 2065 1.303236 TGGGCTTGGAACCACATCG 60.303 57.895 0.00 0.00 0.00 3.84
2026 2095 6.668541 AGATAGTCAATTTCACAACGATGG 57.331 37.500 0.00 0.00 0.00 3.51
2029 2098 6.394809 TGCTAGATAGTCAATTTCACAACGA 58.605 36.000 0.00 0.00 0.00 3.85
2032 2101 6.818644 GGTCTGCTAGATAGTCAATTTCACAA 59.181 38.462 0.00 0.00 0.00 3.33
2039 2108 4.586841 GTCCAGGTCTGCTAGATAGTCAAT 59.413 45.833 0.00 0.00 0.00 2.57
2041 2110 3.053619 TGTCCAGGTCTGCTAGATAGTCA 60.054 47.826 0.00 0.00 0.00 3.41
2045 2114 3.708451 TGTTGTCCAGGTCTGCTAGATA 58.292 45.455 0.00 0.00 0.00 1.98
2085 2154 1.202132 TGAAGTTTGTGTCTGCGTTGC 60.202 47.619 0.00 0.00 0.00 4.17
2104 2173 1.592400 CCTCCAGCTGCCACACAATG 61.592 60.000 8.66 0.00 0.00 2.82
2119 2188 1.839994 TGTCTTGTCCCATCATCCTCC 59.160 52.381 0.00 0.00 0.00 4.30
2122 2191 2.369394 GGTTGTCTTGTCCCATCATCC 58.631 52.381 0.00 0.00 0.00 3.51
2193 2262 5.077134 CCAAATTGGGAAGAAGGATTCAC 57.923 43.478 3.60 0.00 40.10 3.18
2210 2279 1.536174 CACCCCAACCTGCCCAAAT 60.536 57.895 0.00 0.00 0.00 2.32
2218 2287 5.546035 AAACTATAATTCCACCCCAACCT 57.454 39.130 0.00 0.00 0.00 3.50
2272 2341 4.342378 TCCTTCATATTTCCACTCCTCTCG 59.658 45.833 0.00 0.00 0.00 4.04
2285 2354 5.472301 AGGTCCACCAATTCCTTCATATT 57.528 39.130 0.00 0.00 38.89 1.28
2310 2379 3.077359 CGCTCAAAATCCACTTCCTCTT 58.923 45.455 0.00 0.00 0.00 2.85
2346 2415 4.467198 CTTCGGTAGAAGTTACCACCAT 57.533 45.455 4.43 0.00 46.58 3.55
2421 2490 6.072508 TGCACCACATCTCTAAAATCAACTTC 60.073 38.462 0.00 0.00 0.00 3.01
2529 2598 0.319900 CTGTCCCCACACACGAGAAG 60.320 60.000 0.00 0.00 0.00 2.85
2537 2606 3.785122 AAACCCGCTGTCCCCACAC 62.785 63.158 0.00 0.00 0.00 3.82
2538 2607 3.485346 GAAACCCGCTGTCCCCACA 62.485 63.158 0.00 0.00 0.00 4.17
2624 2701 8.023706 GGTAGCTCCTTTTGATTTCTTTTGTAG 58.976 37.037 0.00 0.00 0.00 2.74
2628 2705 6.976934 TGGTAGCTCCTTTTGATTTCTTTT 57.023 33.333 0.00 0.00 37.07 2.27
2632 2709 5.393461 CCACATGGTAGCTCCTTTTGATTTC 60.393 44.000 0.00 0.00 37.07 2.17
2649 2726 4.942852 TGTGAGCTTTTTAAACCACATGG 58.057 39.130 0.00 0.00 42.17 3.66
2652 2729 9.685828 GTATATTTGTGAGCTTTTTAAACCACA 57.314 29.630 0.00 0.00 33.38 4.17
2653 2730 9.908152 AGTATATTTGTGAGCTTTTTAAACCAC 57.092 29.630 0.00 0.00 0.00 4.16
2700 2777 7.321745 AGAAGCTTAGCGTGCTATTTAAAAT 57.678 32.000 0.00 0.00 40.22 1.82
2728 2805 4.871933 AACATTTAAAAGAGGCCCACTG 57.128 40.909 0.00 0.00 0.00 3.66
2731 2808 7.122055 CACACTATAACATTTAAAAGAGGCCCA 59.878 37.037 0.00 0.00 0.00 5.36
2780 2857 3.131400 GCTAAGTGGTTTTGGTGGAAACA 59.869 43.478 3.32 0.00 40.44 2.83
2781 2858 3.713288 GCTAAGTGGTTTTGGTGGAAAC 58.287 45.455 0.00 0.00 38.49 2.78
2782 2859 2.359531 CGCTAAGTGGTTTTGGTGGAAA 59.640 45.455 0.00 0.00 0.00 3.13
2783 2860 1.950909 CGCTAAGTGGTTTTGGTGGAA 59.049 47.619 0.00 0.00 0.00 3.53
2784 2861 1.600023 CGCTAAGTGGTTTTGGTGGA 58.400 50.000 0.00 0.00 0.00 4.02
2785 2862 0.039527 GCGCTAAGTGGTTTTGGTGG 60.040 55.000 0.00 0.00 0.00 4.61
2786 2863 0.951558 AGCGCTAAGTGGTTTTGGTG 59.048 50.000 8.99 0.00 0.00 4.17
2787 2864 1.235724 GAGCGCTAAGTGGTTTTGGT 58.764 50.000 11.50 0.00 0.00 3.67
2788 2865 0.165944 CGAGCGCTAAGTGGTTTTGG 59.834 55.000 11.50 0.00 0.00 3.28
2789 2866 1.136336 GTCGAGCGCTAAGTGGTTTTG 60.136 52.381 11.50 0.00 0.00 2.44
2790 2867 1.145803 GTCGAGCGCTAAGTGGTTTT 58.854 50.000 11.50 0.00 0.00 2.43
2791 2868 0.669625 GGTCGAGCGCTAAGTGGTTT 60.670 55.000 11.50 0.00 0.00 3.27
2792 2869 1.080025 GGTCGAGCGCTAAGTGGTT 60.080 57.895 11.50 0.00 0.00 3.67
2793 2870 1.977544 AGGTCGAGCGCTAAGTGGT 60.978 57.895 11.50 0.00 0.00 4.16
2794 2871 1.517257 CAGGTCGAGCGCTAAGTGG 60.517 63.158 11.50 0.00 0.00 4.00
2795 2872 0.388649 AACAGGTCGAGCGCTAAGTG 60.389 55.000 11.50 6.53 0.00 3.16
2796 2873 0.317479 AAACAGGTCGAGCGCTAAGT 59.683 50.000 11.50 0.00 0.00 2.24
2797 2874 1.429463 AAAACAGGTCGAGCGCTAAG 58.571 50.000 11.50 8.18 0.00 2.18
2798 2875 2.728690 TAAAACAGGTCGAGCGCTAA 57.271 45.000 11.50 0.00 0.00 3.09
2799 2876 2.728690 TTAAAACAGGTCGAGCGCTA 57.271 45.000 11.50 0.00 0.00 4.26
2800 2877 1.873698 TTTAAAACAGGTCGAGCGCT 58.126 45.000 11.27 11.27 0.00 5.92
2801 2878 2.505866 CATTTAAAACAGGTCGAGCGC 58.494 47.619 9.28 0.00 0.00 5.92
2802 2879 2.159627 AGCATTTAAAACAGGTCGAGCG 59.840 45.455 9.28 6.93 0.00 5.03
2803 2880 3.831715 AGCATTTAAAACAGGTCGAGC 57.168 42.857 6.48 6.48 0.00 5.03
2804 2881 7.277981 AGTGTATAGCATTTAAAACAGGTCGAG 59.722 37.037 0.00 0.00 0.00 4.04
2805 2882 7.101054 AGTGTATAGCATTTAAAACAGGTCGA 58.899 34.615 0.00 0.00 0.00 4.20
2806 2883 7.303634 AGTGTATAGCATTTAAAACAGGTCG 57.696 36.000 0.00 0.00 0.00 4.79
2807 2884 8.610035 GGTAGTGTATAGCATTTAAAACAGGTC 58.390 37.037 0.00 0.00 0.00 3.85
2808 2885 8.104566 TGGTAGTGTATAGCATTTAAAACAGGT 58.895 33.333 0.00 0.00 0.00 4.00
2809 2886 8.500753 TGGTAGTGTATAGCATTTAAAACAGG 57.499 34.615 0.00 0.00 0.00 4.00
2985 3065 3.753272 CGTCATGGAAGTGGACATTTTCT 59.247 43.478 0.00 0.00 0.00 2.52
2989 3069 3.634397 ATCGTCATGGAAGTGGACATT 57.366 42.857 0.00 0.00 0.00 2.71
2990 3070 4.753516 TTATCGTCATGGAAGTGGACAT 57.246 40.909 0.00 0.00 0.00 3.06
3014 3094 4.567558 ACGAAAACACTTACATGACACGAA 59.432 37.500 0.00 0.00 0.00 3.85
3025 3105 6.645827 TCGGTTATCATTCACGAAAACACTTA 59.354 34.615 0.00 0.00 0.00 2.24
3038 3118 2.942376 TGCCATGTGTCGGTTATCATTC 59.058 45.455 0.00 0.00 0.00 2.67
3041 3121 2.560504 GATGCCATGTGTCGGTTATCA 58.439 47.619 0.00 0.00 0.00 2.15
3043 3123 1.211703 TGGATGCCATGTGTCGGTTAT 59.788 47.619 0.00 0.00 0.00 1.89
3089 3169 3.349879 GGATCCAAAACCGAACCCA 57.650 52.632 6.95 0.00 0.00 4.51
3121 3201 2.779755 ATCACCATTGGTCGTTGCTA 57.220 45.000 5.04 0.00 31.02 3.49
3152 3232 5.880054 TTCCTTCGACCAATGAGAATTTC 57.120 39.130 0.00 0.00 0.00 2.17
3183 3263 1.067295 TGTGTCCCAATGAGGAGCTT 58.933 50.000 0.00 0.00 41.22 3.74
3229 3309 0.671796 TGTGTCGGCGTATCATAGGG 59.328 55.000 6.85 0.00 0.00 3.53
3302 3382 1.302993 GGGCCGCTACCTTTTGACA 60.303 57.895 0.00 0.00 0.00 3.58
3359 3439 3.036091 AGTTAGCGGGCTGTAAATAGGA 58.964 45.455 2.86 0.00 0.00 2.94
3362 3442 3.735820 CGTGAGTTAGCGGGCTGTAAATA 60.736 47.826 2.86 0.00 0.00 1.40
3434 3514 4.585581 CACAATGGGCTGGAATCATATTGA 59.414 41.667 0.00 0.00 0.00 2.57
3470 3550 0.179084 AAGACGTCATGGGCCATACG 60.179 55.000 29.85 29.85 40.99 3.06


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

AutoCloner maintained by Alex Coulton.