Multiple sequence alignment - TraesCS1D01G011500

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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 TraesCS1D01G011500 chr1D 100.000 2547 0 0 1 2547 6282002 6279456 0.000000e+00 4704.0
1 TraesCS1D01G011500 chr1B 87.407 1477 85 37 1115 2547 8395733 8394314 0.000000e+00 1604.0
2 TraesCS1D01G011500 chr1B 86.801 447 30 12 667 1108 8396501 8396079 2.970000e-129 472.0
3 TraesCS1D01G011500 chr1A 85.246 671 61 24 1225 1864 7526178 7525515 0.000000e+00 656.0
4 TraesCS1D01G011500 chr1A 86.356 601 61 13 50 637 7527516 7526924 9.940000e-179 636.0
5 TraesCS1D01G011500 chr1A 88.623 334 19 10 873 1205 7526574 7526259 3.070000e-104 388.0
6 TraesCS1D01G011500 chr1A 87.395 119 6 3 681 799 7526726 7526617 7.400000e-26 128.0
7 TraesCS1D01G011500 chr6B 86.864 236 26 4 39 269 338017827 338017592 2.510000e-65 259.0
8 TraesCS1D01G011500 chr2D 86.383 235 29 3 39 270 277781715 277781481 1.170000e-63 254.0
9 TraesCS1D01G011500 chr6A 86.026 229 27 5 39 264 346432649 346432875 9.110000e-60 241.0
10 TraesCS1D01G011500 chr2A 85.169 236 32 3 39 271 293888254 293888489 3.270000e-59 239.0
11 TraesCS1D01G011500 chr2A 79.667 300 29 25 91 382 455633971 455634246 1.200000e-43 187.0
12 TraesCS1D01G011500 chr6D 83.898 236 28 7 39 269 249997944 249997714 1.530000e-52 217.0
13 TraesCS1D01G011500 chr6D 82.449 245 29 10 146 382 81677496 81677258 4.300000e-48 202.0
14 TraesCS1D01G011500 chr4D 82.158 241 33 9 146 382 255933126 255933360 5.560000e-47 198.0
15 TraesCS1D01G011500 chr4A 92.683 41 3 0 17 57 410681374 410681334 2.740000e-05 60.2
16 TraesCS1D01G011500 chr7B 96.970 33 1 0 24 56 363112890 363112858 3.540000e-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 TraesCS1D01G011500 chr1D 6279456 6282002 2546 True 4704 4704 100.000 1 2547 1 chr1D.!!$R1 2546
1 TraesCS1D01G011500 chr1B 8394314 8396501 2187 True 1038 1604 87.104 667 2547 2 chr1B.!!$R1 1880
2 TraesCS1D01G011500 chr1A 7525515 7527516 2001 True 452 656 86.905 50 1864 4 chr1A.!!$R1 1814

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
598 610 0.179134 AAGAGATAGACACGCCGTGC 60.179 55.0 18.59 10.32 36.98 5.34 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1924 2581 0.234884 CGCCACACTTTCGAGGAAAC 59.765 55.0 0.0 0.0 0.0 2.78 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
25 26 8.068892 CCCTTTTTCTACTAGTGTAGTCATCT 57.931 38.462 5.39 0.00 44.74 2.90
26 27 8.532819 CCCTTTTTCTACTAGTGTAGTCATCTT 58.467 37.037 5.39 0.00 44.74 2.40
27 28 9.575783 CCTTTTTCTACTAGTGTAGTCATCTTC 57.424 37.037 5.39 0.00 44.74 2.87
31 32 8.665643 TTCTACTAGTGTAGTCATCTTCTAGC 57.334 38.462 5.39 0.00 44.74 3.42
32 33 8.025270 TCTACTAGTGTAGTCATCTTCTAGCT 57.975 38.462 5.39 0.00 44.74 3.32
33 34 8.145767 TCTACTAGTGTAGTCATCTTCTAGCTC 58.854 40.741 5.39 0.00 44.74 4.09
34 35 6.059484 ACTAGTGTAGTCATCTTCTAGCTCC 58.941 44.000 0.00 0.00 32.47 4.70
35 36 3.880490 AGTGTAGTCATCTTCTAGCTCCG 59.120 47.826 0.00 0.00 0.00 4.63
36 37 3.878103 GTGTAGTCATCTTCTAGCTCCGA 59.122 47.826 0.00 0.00 0.00 4.55
37 38 4.335874 GTGTAGTCATCTTCTAGCTCCGAA 59.664 45.833 0.00 0.00 0.00 4.30
38 39 5.009210 GTGTAGTCATCTTCTAGCTCCGAAT 59.991 44.000 0.00 0.00 0.00 3.34
39 40 5.594725 TGTAGTCATCTTCTAGCTCCGAATT 59.405 40.000 0.00 0.00 0.00 2.17
40 41 6.771267 TGTAGTCATCTTCTAGCTCCGAATTA 59.229 38.462 0.00 0.00 0.00 1.40
41 42 6.325919 AGTCATCTTCTAGCTCCGAATTAG 57.674 41.667 0.00 0.00 0.00 1.73
42 43 5.242838 AGTCATCTTCTAGCTCCGAATTAGG 59.757 44.000 0.00 0.00 0.00 2.69
43 44 4.524714 TCATCTTCTAGCTCCGAATTAGGG 59.475 45.833 4.63 0.00 0.00 3.53
44 45 3.912248 TCTTCTAGCTCCGAATTAGGGT 58.088 45.455 4.63 0.00 0.00 4.34
45 46 4.287552 TCTTCTAGCTCCGAATTAGGGTT 58.712 43.478 4.63 0.00 0.00 4.11
46 47 5.452255 TCTTCTAGCTCCGAATTAGGGTTA 58.548 41.667 4.63 0.00 0.00 2.85
47 48 6.075984 TCTTCTAGCTCCGAATTAGGGTTAT 58.924 40.000 4.63 0.00 0.00 1.89
48 49 5.979288 TCTAGCTCCGAATTAGGGTTATC 57.021 43.478 4.63 0.00 0.00 1.75
49 50 5.391256 TCTAGCTCCGAATTAGGGTTATCA 58.609 41.667 4.63 0.00 0.00 2.15
50 51 5.836898 TCTAGCTCCGAATTAGGGTTATCAA 59.163 40.000 4.63 0.00 0.00 2.57
51 52 5.367945 AGCTCCGAATTAGGGTTATCAAA 57.632 39.130 4.63 0.00 0.00 2.69
52 53 5.368989 AGCTCCGAATTAGGGTTATCAAAG 58.631 41.667 4.63 0.00 0.00 2.77
53 54 5.104485 AGCTCCGAATTAGGGTTATCAAAGT 60.104 40.000 4.63 0.00 0.00 2.66
54 55 6.099269 AGCTCCGAATTAGGGTTATCAAAGTA 59.901 38.462 4.63 0.00 0.00 2.24
55 56 6.935208 GCTCCGAATTAGGGTTATCAAAGTAT 59.065 38.462 4.63 0.00 0.00 2.12
92 93 4.500127 GAGAGCTTTTCTCCTTGTACCTC 58.500 47.826 0.00 0.00 45.53 3.85
136 137 1.428869 AAGGAGAAGGATCCCCATCG 58.571 55.000 8.55 0.00 40.53 3.84
139 140 2.090719 AGGAGAAGGATCCCCATCGTAA 60.091 50.000 8.55 0.00 40.53 3.18
202 208 3.008375 CACCAAGACCTCATCTCCTTTGA 59.992 47.826 0.00 0.00 36.27 2.69
215 221 6.955851 TCATCTCCTTTGAATTTGGGAAGAAT 59.044 34.615 0.00 0.00 0.00 2.40
227 233 3.686016 TGGGAAGAATCTTACCTTGTGC 58.314 45.455 23.64 0.00 0.00 4.57
243 249 5.130311 ACCTTGTGCTATTTTCCCTTTGTTT 59.870 36.000 0.00 0.00 0.00 2.83
245 251 6.542005 CCTTGTGCTATTTTCCCTTTGTTTTT 59.458 34.615 0.00 0.00 0.00 1.94
261 267 6.723298 TTGTTTTTCATGTACCTTGTGGAT 57.277 33.333 0.00 0.00 37.04 3.41
266 272 4.908601 TCATGTACCTTGTGGATCTTGT 57.091 40.909 0.00 0.00 37.04 3.16
279 285 5.012046 TGTGGATCTTGTGTAGATGTGAGTT 59.988 40.000 0.00 0.00 43.75 3.01
280 286 5.349817 GTGGATCTTGTGTAGATGTGAGTTG 59.650 44.000 0.00 0.00 43.75 3.16
285 291 5.301805 TCTTGTGTAGATGTGAGTTGAGTGA 59.698 40.000 0.00 0.00 0.00 3.41
310 316 5.132502 TGTGTGATTGGACTTGTTCTTGAT 58.867 37.500 0.00 0.00 0.00 2.57
315 321 7.284261 TGTGATTGGACTTGTTCTTGATTGTTA 59.716 33.333 0.00 0.00 0.00 2.41
333 339 6.861065 TTGTTACTCTTGTGATTTCTCCAC 57.139 37.500 0.00 0.00 35.23 4.02
340 346 5.123227 TCTTGTGATTTCTCCACGTTCTTT 58.877 37.500 0.00 0.00 37.34 2.52
342 348 3.813166 TGTGATTTCTCCACGTTCTTTCC 59.187 43.478 0.00 0.00 37.34 3.13
352 358 2.353579 CACGTTCTTTCCCGTGTTCTTT 59.646 45.455 4.17 0.00 46.87 2.52
354 360 3.557185 ACGTTCTTTCCCGTGTTCTTTAC 59.443 43.478 0.00 0.00 35.69 2.01
382 388 4.210331 CCCCCTTCGATTCATGAAAGATT 58.790 43.478 13.09 0.00 0.00 2.40
387 393 7.880195 CCCCTTCGATTCATGAAAGATTACTAT 59.120 37.037 13.09 0.00 0.00 2.12
398 404 6.122277 TGAAAGATTACTATCAAGGGCTTGG 58.878 40.000 0.00 0.00 40.78 3.61
399 405 5.717119 AAGATTACTATCAAGGGCTTGGT 57.283 39.130 0.00 0.00 40.78 3.67
434 443 3.073209 TGCATATAGAGGAGAGGAGACGT 59.927 47.826 0.00 0.00 0.00 4.34
437 446 0.462225 TAGAGGAGAGGAGACGTGCG 60.462 60.000 0.00 0.00 0.00 5.34
465 474 3.701664 AGGGCAACTCCATAAGGAAAAG 58.298 45.455 0.00 0.00 45.19 2.27
466 475 3.333680 AGGGCAACTCCATAAGGAAAAGA 59.666 43.478 0.00 0.00 45.19 2.52
467 476 4.086457 GGGCAACTCCATAAGGAAAAGAA 58.914 43.478 0.00 0.00 45.19 2.52
468 477 4.158579 GGGCAACTCCATAAGGAAAAGAAG 59.841 45.833 0.00 0.00 45.19 2.85
469 478 5.010282 GGCAACTCCATAAGGAAAAGAAGA 58.990 41.667 0.00 0.00 45.19 2.87
470 479 5.476945 GGCAACTCCATAAGGAAAAGAAGAA 59.523 40.000 0.00 0.00 45.19 2.52
471 480 6.349694 GGCAACTCCATAAGGAAAAGAAGAAG 60.350 42.308 0.00 0.00 45.19 2.85
480 489 9.899226 CATAAGGAAAAGAAGAAGAAAAACGAT 57.101 29.630 0.00 0.00 0.00 3.73
482 491 7.568199 AGGAAAAGAAGAAGAAAAACGATGA 57.432 32.000 0.00 0.00 0.00 2.92
494 503 1.438651 AACGATGATCCAACACACGG 58.561 50.000 0.00 0.00 0.00 4.94
503 512 0.667993 CCAACACACGGATGCAAACT 59.332 50.000 0.00 0.00 0.00 2.66
504 513 1.876799 CCAACACACGGATGCAAACTA 59.123 47.619 0.00 0.00 0.00 2.24
531 540 2.418692 TGTCTGTCACGTGTTTGTGTT 58.581 42.857 16.51 0.00 40.74 3.32
532 541 2.158645 TGTCTGTCACGTGTTTGTGTTG 59.841 45.455 16.51 0.00 40.74 3.33
542 554 3.052036 GTGTTTGTGTTGATGCATGTCC 58.948 45.455 2.46 0.00 0.00 4.02
554 566 4.335315 TGATGCATGTCCGTCCTAAATTTC 59.665 41.667 2.46 0.00 0.00 2.17
570 582 5.416271 AAATTTCAGCCTGATTTGCATCT 57.584 34.783 0.00 0.00 0.00 2.90
586 598 8.969260 ATTTGCATCTACATGAACAAGAGATA 57.031 30.769 0.00 0.00 30.57 1.98
592 604 6.786207 TCTACATGAACAAGAGATAGACACG 58.214 40.000 0.00 0.00 0.00 4.49
598 610 0.179134 AAGAGATAGACACGCCGTGC 60.179 55.000 18.59 10.32 36.98 5.34
599 611 1.138883 GAGATAGACACGCCGTGCA 59.861 57.895 18.59 2.92 36.98 4.57
603 615 2.954020 ATAGACACGCCGTGCATCCG 62.954 60.000 18.59 0.00 36.98 4.18
615 627 3.723172 CATCCGCTTGATGTCCGG 58.277 61.111 0.00 0.00 44.91 5.14
617 629 4.812476 TCCGCTTGATGTCCGGCG 62.812 66.667 0.00 0.00 45.97 6.46
637 649 2.811317 CGGACTCAAGCGTCAGCC 60.811 66.667 0.00 0.00 46.67 4.85
638 650 2.435059 GGACTCAAGCGTCAGCCC 60.435 66.667 0.00 0.00 46.67 5.19
639 651 2.435059 GACTCAAGCGTCAGCCCC 60.435 66.667 0.00 0.00 46.67 5.80
640 652 3.959991 GACTCAAGCGTCAGCCCCC 62.960 68.421 0.00 0.00 46.67 5.40
654 666 2.117423 CCCCCAACAACCTCCCAC 59.883 66.667 0.00 0.00 0.00 4.61
655 667 2.773527 CCCCCAACAACCTCCCACA 61.774 63.158 0.00 0.00 0.00 4.17
656 668 1.228552 CCCCAACAACCTCCCACAG 60.229 63.158 0.00 0.00 0.00 3.66
664 676 4.136978 CCTCCCACAGGTGCTACT 57.863 61.111 0.00 0.00 37.53 2.57
665 677 2.377136 CCTCCCACAGGTGCTACTT 58.623 57.895 0.00 0.00 37.53 2.24
738 904 6.690194 AAGCAAATCAATTCCAGCTAGTAG 57.310 37.500 0.00 0.00 0.00 2.57
739 905 5.749462 AGCAAATCAATTCCAGCTAGTAGT 58.251 37.500 0.00 0.00 0.00 2.73
763 930 3.477210 AACAAGATTAGCGAGGGGATC 57.523 47.619 0.00 0.00 0.00 3.36
830 1008 7.562454 TTAATCCAAGGCTAAAATTAGGACG 57.438 36.000 2.61 0.00 0.00 4.79
831 1009 4.829872 TCCAAGGCTAAAATTAGGACGA 57.170 40.909 0.00 0.00 0.00 4.20
832 1010 4.510571 TCCAAGGCTAAAATTAGGACGAC 58.489 43.478 0.00 0.00 0.00 4.34
833 1011 4.020039 TCCAAGGCTAAAATTAGGACGACA 60.020 41.667 0.00 0.00 0.00 4.35
834 1012 4.698304 CCAAGGCTAAAATTAGGACGACAA 59.302 41.667 0.00 0.00 0.00 3.18
835 1013 5.357032 CCAAGGCTAAAATTAGGACGACAAT 59.643 40.000 0.00 0.00 0.00 2.71
836 1014 6.127730 CCAAGGCTAAAATTAGGACGACAATT 60.128 38.462 0.00 0.00 0.00 2.32
837 1015 7.066525 CCAAGGCTAAAATTAGGACGACAATTA 59.933 37.037 0.00 0.00 0.00 1.40
838 1016 8.455682 CAAGGCTAAAATTAGGACGACAATTAA 58.544 33.333 0.00 0.00 0.00 1.40
853 1031 9.365311 GACGACAATTAATTATGACCATAAACG 57.635 33.333 0.00 0.00 36.90 3.60
1078 1264 2.393768 GCCACTGTGATGCTGTCCG 61.394 63.158 9.86 0.00 0.00 4.79
1108 1294 2.543777 ATCAGGTTAGTGCAACACGT 57.456 45.000 0.00 0.00 41.43 4.49
1109 1295 2.319136 TCAGGTTAGTGCAACACGTT 57.681 45.000 0.00 0.00 41.43 3.99
1110 1296 2.634600 TCAGGTTAGTGCAACACGTTT 58.365 42.857 0.00 0.00 41.43 3.60
1111 1297 2.610374 TCAGGTTAGTGCAACACGTTTC 59.390 45.455 0.00 0.00 41.43 2.78
1172 1704 5.646577 TCTACTGCCTCTGTAAAACTCTC 57.353 43.478 0.00 0.00 0.00 3.20
1173 1705 3.686916 ACTGCCTCTGTAAAACTCTCC 57.313 47.619 0.00 0.00 0.00 3.71
1274 1873 9.784531 AAGATATTGATTGTACCAATCTACCAG 57.215 33.333 15.67 0.00 35.94 4.00
1279 1878 8.556213 TTGATTGTACCAATCTACCAGTTAAC 57.444 34.615 15.67 0.00 0.00 2.01
1310 1909 4.022589 ATGCATGTACCAGCAAGATATTGC 60.023 41.667 17.22 17.22 44.88 3.56
1328 1930 8.220559 AGATATTGCTTGTACCAATCTACCAAT 58.779 33.333 0.00 0.00 34.87 3.16
1332 1934 5.414454 TGCTTGTACCAATCTACCAATTGAC 59.586 40.000 7.12 0.00 38.64 3.18
1335 1937 4.289934 TGTACCAATCTACCAATTGACCCA 59.710 41.667 7.12 0.00 38.64 4.51
1561 2167 7.936496 TCATGCTTGATAACATAACCTTGAA 57.064 32.000 0.00 0.00 0.00 2.69
1602 2210 9.093458 ACATTGTCAGTGATCAGGATATGTATA 57.907 33.333 17.34 0.00 0.00 1.47
1605 2213 7.550712 TGTCAGTGATCAGGATATGTATATGC 58.449 38.462 0.00 0.00 0.00 3.14
1606 2214 7.178983 TGTCAGTGATCAGGATATGTATATGCA 59.821 37.037 0.00 0.00 34.03 3.96
1607 2215 8.202811 GTCAGTGATCAGGATATGTATATGCAT 58.797 37.037 11.25 11.25 34.03 3.96
1608 2216 8.202137 TCAGTGATCAGGATATGTATATGCATG 58.798 37.037 15.72 1.14 34.03 4.06
1609 2217 6.990939 AGTGATCAGGATATGTATATGCATGC 59.009 38.462 15.72 11.82 34.03 4.06
1698 2335 7.572523 TTCTGAGTTTGAGATTTGTCATGTT 57.427 32.000 0.00 0.00 0.00 2.71
1705 2342 4.239304 TGAGATTTGTCATGTTGCAATGC 58.761 39.130 0.59 0.00 0.00 3.56
1716 2353 3.899734 TGTTGCAATGCACTTGTACATC 58.100 40.909 7.72 0.00 38.71 3.06
1729 2366 1.564818 TGTACATCTCTCTCTCCCCGT 59.435 52.381 0.00 0.00 0.00 5.28
1735 2373 0.820074 CTCTCTCTCCCCGTACGCAT 60.820 60.000 10.49 0.00 0.00 4.73
1761 2399 2.966516 GGTCTCTCGTCTTCCCCAATAT 59.033 50.000 0.00 0.00 0.00 1.28
1854 2492 1.475403 GACCGATCCAGAGTCTCCAA 58.525 55.000 0.00 0.00 0.00 3.53
1864 2502 2.961741 CAGAGTCTCCAAGCTAGCCATA 59.038 50.000 12.13 0.00 0.00 2.74
1865 2503 2.962421 AGAGTCTCCAAGCTAGCCATAC 59.038 50.000 12.13 1.69 0.00 2.39
1883 2540 4.504097 CCATACCGTATATGATCACGCATG 59.496 45.833 0.00 3.82 36.85 4.06
1902 2559 2.346803 TGCTTGCACCGAATTCTCTAC 58.653 47.619 3.52 0.00 0.00 2.59
1912 2569 7.867909 TGCACCGAATTCTCTACTTATTATCAG 59.132 37.037 3.52 0.00 0.00 2.90
1924 2581 5.749620 ACTTATTATCAGAGTACGTGAGCG 58.250 41.667 0.00 0.00 44.93 5.03
1943 2600 0.234884 GTTTCCTCGAAAGTGTGGCG 59.765 55.000 0.00 0.00 31.87 5.69
1953 2610 1.101049 AAGTGTGGCGTGGTGAAAGG 61.101 55.000 0.00 0.00 0.00 3.11
2026 2683 2.154462 CTGAACCATGGTTGTGGAGAC 58.846 52.381 34.47 17.90 42.02 3.36
2065 2726 4.097135 TGAGCGTGTGAAATTCCAAAAGAA 59.903 37.500 0.00 0.00 39.32 2.52
2074 2735 7.815068 TGTGAAATTCCAAAAGAAAGAAAACGA 59.185 29.630 0.00 0.00 38.21 3.85
2113 2774 5.221722 TGAGAAGCAAGGAGGCGATAATTAT 60.222 40.000 0.00 0.00 39.27 1.28
2164 2825 8.974060 CCTAAAATTAGGCAGGTAGTTAATCA 57.026 34.615 6.30 0.00 43.43 2.57
2170 2831 4.298626 AGGCAGGTAGTTAATCATCTCCA 58.701 43.478 0.00 0.00 0.00 3.86
2174 2835 7.072454 AGGCAGGTAGTTAATCATCTCCATAAA 59.928 37.037 0.00 0.00 0.00 1.40
2175 2836 7.173390 GGCAGGTAGTTAATCATCTCCATAAAC 59.827 40.741 0.00 0.00 0.00 2.01
2176 2837 7.095607 GCAGGTAGTTAATCATCTCCATAAACG 60.096 40.741 0.00 0.00 0.00 3.60
2177 2838 7.926555 CAGGTAGTTAATCATCTCCATAAACGT 59.073 37.037 0.00 0.00 0.00 3.99
2190 2851 3.274202 CATAAACGTACGCCATAAACGC 58.726 45.455 16.72 0.00 40.18 4.84
2207 2868 2.202987 CAGGCAGGCTGGATCGAC 60.203 66.667 17.64 0.00 0.00 4.20
2217 2878 0.596083 CTGGATCGACCTGCGTGATC 60.596 60.000 0.00 0.00 41.80 2.92
2230 2891 1.704641 CGTGATCACATCTCCCCCTA 58.295 55.000 24.93 0.00 0.00 3.53
2277 2938 2.430332 CGCCCCAATATCAAACCACAAT 59.570 45.455 0.00 0.00 0.00 2.71
2320 2981 1.077212 GGCCATGATGCTGTCCTGT 60.077 57.895 0.00 0.00 0.00 4.00
2387 3048 9.658799 AATCCATTATATGTACATCTACTGTGC 57.341 33.333 12.68 0.00 38.92 4.57
2388 3049 8.422577 TCCATTATATGTACATCTACTGTGCT 57.577 34.615 12.68 0.00 40.74 4.40
2389 3050 8.523658 TCCATTATATGTACATCTACTGTGCTC 58.476 37.037 12.68 0.00 40.74 4.26
2390 3051 8.526978 CCATTATATGTACATCTACTGTGCTCT 58.473 37.037 12.68 0.00 40.74 4.09
2393 3054 9.794719 TTATATGTACATCTACTGTGCTCTAGT 57.205 33.333 12.68 0.00 40.74 2.57
2394 3055 8.698973 ATATGTACATCTACTGTGCTCTAGTT 57.301 34.615 12.68 0.00 40.74 2.24
2395 3056 6.438259 TGTACATCTACTGTGCTCTAGTTC 57.562 41.667 0.00 0.00 40.74 3.01
2396 3057 5.944007 TGTACATCTACTGTGCTCTAGTTCA 59.056 40.000 0.00 0.00 40.74 3.18
2417 3078 8.137437 AGTTCATTTTTGTTCCATTCTGTGTAG 58.863 33.333 0.00 0.00 0.00 2.74
2418 3079 6.446318 TCATTTTTGTTCCATTCTGTGTAGC 58.554 36.000 0.00 0.00 0.00 3.58
2419 3080 6.265196 TCATTTTTGTTCCATTCTGTGTAGCT 59.735 34.615 0.00 0.00 0.00 3.32
2420 3081 6.463995 TTTTTGTTCCATTCTGTGTAGCTT 57.536 33.333 0.00 0.00 0.00 3.74
2421 3082 6.463995 TTTTGTTCCATTCTGTGTAGCTTT 57.536 33.333 0.00 0.00 0.00 3.51
2424 3085 5.830912 TGTTCCATTCTGTGTAGCTTTTTG 58.169 37.500 0.00 0.00 0.00 2.44
2425 3086 4.503741 TCCATTCTGTGTAGCTTTTTGC 57.496 40.909 0.00 0.00 43.29 3.68
2426 3087 3.888323 TCCATTCTGTGTAGCTTTTTGCA 59.112 39.130 0.00 0.00 45.94 4.08
2427 3088 4.523943 TCCATTCTGTGTAGCTTTTTGCAT 59.476 37.500 0.00 0.00 45.94 3.96
2428 3089 4.624024 CCATTCTGTGTAGCTTTTTGCATG 59.376 41.667 0.00 0.00 45.94 4.06
2429 3090 5.463286 CATTCTGTGTAGCTTTTTGCATGA 58.537 37.500 0.00 0.00 45.94 3.07
2435 3096 4.321745 GTGTAGCTTTTTGCATGATTGACG 59.678 41.667 0.00 0.00 45.94 4.35
2436 3097 3.921119 AGCTTTTTGCATGATTGACGA 57.079 38.095 0.00 0.00 45.94 4.20
2438 3099 4.171005 AGCTTTTTGCATGATTGACGATG 58.829 39.130 0.00 0.00 45.94 3.84
2439 3100 3.305094 GCTTTTTGCATGATTGACGATGG 59.695 43.478 0.00 0.00 42.31 3.51
2441 3102 4.517952 TTTTGCATGATTGACGATGGTT 57.482 36.364 0.00 0.00 0.00 3.67
2442 3103 5.635417 TTTTGCATGATTGACGATGGTTA 57.365 34.783 0.00 0.00 0.00 2.85
2443 3104 4.614555 TTGCATGATTGACGATGGTTAC 57.385 40.909 0.00 0.00 0.00 2.50
2444 3105 2.607180 TGCATGATTGACGATGGTTACG 59.393 45.455 0.00 0.00 0.00 3.18
2447 3108 1.826096 TGATTGACGATGGTTACGGGA 59.174 47.619 0.00 0.00 34.93 5.14
2463 3124 0.249280 GGGAAACACCGCACCTTTTG 60.249 55.000 0.00 0.00 40.11 2.44
2464 3125 0.741915 GGAAACACCGCACCTTTTGA 59.258 50.000 0.00 0.00 0.00 2.69
2475 3138 3.671433 CGCACCTTTTGAATGACTGATGG 60.671 47.826 0.00 0.00 0.00 3.51
2480 3143 4.219070 CCTTTTGAATGACTGATGGCAGAA 59.781 41.667 0.00 0.00 45.17 3.02
2497 3160 4.504097 GGCAGAAGTTGTTGTGATTTTGAC 59.496 41.667 0.00 0.00 0.00 3.18
2523 3186 3.499737 CATGCCCAAGGTCGACGC 61.500 66.667 9.92 7.46 0.00 5.19
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
9 10 7.218614 GGAGCTAGAAGATGACTACACTAGTA 58.781 42.308 0.00 0.00 39.59 1.82
10 11 6.059484 GGAGCTAGAAGATGACTACACTAGT 58.941 44.000 0.00 0.00 42.86 2.57
11 12 5.178623 CGGAGCTAGAAGATGACTACACTAG 59.821 48.000 0.00 0.00 32.93 2.57
12 13 5.057819 CGGAGCTAGAAGATGACTACACTA 58.942 45.833 0.00 0.00 0.00 2.74
13 14 3.880490 CGGAGCTAGAAGATGACTACACT 59.120 47.826 0.00 0.00 0.00 3.55
14 15 3.878103 TCGGAGCTAGAAGATGACTACAC 59.122 47.826 0.00 0.00 0.00 2.90
15 16 4.152284 TCGGAGCTAGAAGATGACTACA 57.848 45.455 0.00 0.00 0.00 2.74
16 17 5.699097 ATTCGGAGCTAGAAGATGACTAC 57.301 43.478 9.54 0.00 0.00 2.73
17 18 6.431543 CCTAATTCGGAGCTAGAAGATGACTA 59.568 42.308 9.54 0.00 0.00 2.59
18 19 5.242838 CCTAATTCGGAGCTAGAAGATGACT 59.757 44.000 9.54 0.00 0.00 3.41
19 20 5.465935 CCTAATTCGGAGCTAGAAGATGAC 58.534 45.833 9.54 0.00 0.00 3.06
20 21 4.524714 CCCTAATTCGGAGCTAGAAGATGA 59.475 45.833 9.54 0.00 0.00 2.92
21 22 4.282195 ACCCTAATTCGGAGCTAGAAGATG 59.718 45.833 9.54 3.17 0.00 2.90
22 23 4.484912 ACCCTAATTCGGAGCTAGAAGAT 58.515 43.478 9.54 4.67 0.00 2.40
23 24 3.912248 ACCCTAATTCGGAGCTAGAAGA 58.088 45.455 9.54 1.12 0.00 2.87
24 25 4.674281 AACCCTAATTCGGAGCTAGAAG 57.326 45.455 9.54 0.00 0.00 2.85
25 26 5.836898 TGATAACCCTAATTCGGAGCTAGAA 59.163 40.000 6.57 6.57 0.00 2.10
26 27 5.391256 TGATAACCCTAATTCGGAGCTAGA 58.609 41.667 0.00 0.00 0.00 2.43
27 28 5.723672 TGATAACCCTAATTCGGAGCTAG 57.276 43.478 0.00 0.00 0.00 3.42
28 29 6.099269 ACTTTGATAACCCTAATTCGGAGCTA 59.901 38.462 0.00 0.00 0.00 3.32
29 30 5.104485 ACTTTGATAACCCTAATTCGGAGCT 60.104 40.000 0.00 0.00 0.00 4.09
30 31 5.123936 ACTTTGATAACCCTAATTCGGAGC 58.876 41.667 0.00 0.00 0.00 4.70
31 32 9.991906 TTATACTTTGATAACCCTAATTCGGAG 57.008 33.333 0.00 0.00 0.00 4.63
123 124 5.785423 TGATAATCTTACGATGGGGATCCTT 59.215 40.000 12.58 0.00 0.00 3.36
136 137 6.211785 CCCTAGGGAGGTCTTGATAATCTTAC 59.788 46.154 24.99 0.00 41.95 2.34
139 140 4.423960 TCCCTAGGGAGGTCTTGATAATCT 59.576 45.833 27.73 0.00 41.95 2.40
153 158 6.974851 TCTAGATAGATCATTCTCCCTAGGGA 59.025 42.308 29.25 29.25 42.90 4.20
202 208 6.295292 GCACAAGGTAAGATTCTTCCCAAATT 60.295 38.462 10.33 0.00 0.00 1.82
215 221 5.514500 AGGGAAAATAGCACAAGGTAAGA 57.486 39.130 0.00 0.00 0.00 2.10
227 233 9.203421 GGTACATGAAAAACAAAGGGAAAATAG 57.797 33.333 0.00 0.00 0.00 1.73
243 249 5.473162 CACAAGATCCACAAGGTACATGAAA 59.527 40.000 0.00 0.00 35.89 2.69
245 251 4.041567 ACACAAGATCCACAAGGTACATGA 59.958 41.667 0.00 0.00 35.89 3.07
261 267 5.301805 TCACTCAACTCACATCTACACAAGA 59.698 40.000 0.00 0.00 39.02 3.02
266 272 5.928264 CACATTCACTCAACTCACATCTACA 59.072 40.000 0.00 0.00 0.00 2.74
279 285 4.356405 AGTCCAATCACACATTCACTCA 57.644 40.909 0.00 0.00 0.00 3.41
280 286 4.516698 ACAAGTCCAATCACACATTCACTC 59.483 41.667 0.00 0.00 0.00 3.51
285 291 5.593909 TCAAGAACAAGTCCAATCACACATT 59.406 36.000 0.00 0.00 0.00 2.71
310 316 5.465390 CGTGGAGAAATCACAAGAGTAACAA 59.535 40.000 0.00 0.00 35.03 2.83
315 321 3.753294 ACGTGGAGAAATCACAAGAGT 57.247 42.857 0.00 0.00 35.03 3.24
333 339 3.362304 CGTAAAGAACACGGGAAAGAACG 60.362 47.826 0.00 0.00 35.78 3.95
368 374 8.510505 GCCCTTGATAGTAATCTTTCATGAATC 58.489 37.037 9.40 1.00 33.20 2.52
371 377 7.141758 AGCCCTTGATAGTAATCTTTCATGA 57.858 36.000 0.00 0.00 33.20 3.07
382 388 3.130734 AGGACCAAGCCCTTGATAGTA 57.869 47.619 9.50 0.00 42.93 1.82
387 393 3.391296 GTGATATAGGACCAAGCCCTTGA 59.609 47.826 9.50 0.00 42.93 3.02
391 397 3.857157 TTGTGATATAGGACCAAGCCC 57.143 47.619 0.00 0.00 0.00 5.19
398 404 8.918116 TCCTCTATATGCATTGTGATATAGGAC 58.082 37.037 3.54 0.00 36.43 3.85
399 405 9.140874 CTCCTCTATATGCATTGTGATATAGGA 57.859 37.037 3.54 11.93 36.43 2.94
434 443 0.392461 GAGTTGCCCTAATCACCGCA 60.392 55.000 0.00 0.00 0.00 5.69
437 446 2.736670 ATGGAGTTGCCCTAATCACC 57.263 50.000 0.00 0.00 34.97 4.02
465 474 6.578919 GTGTTGGATCATCGTTTTTCTTCTTC 59.421 38.462 0.00 0.00 0.00 2.87
466 475 6.039270 TGTGTTGGATCATCGTTTTTCTTCTT 59.961 34.615 0.00 0.00 0.00 2.52
467 476 5.530915 TGTGTTGGATCATCGTTTTTCTTCT 59.469 36.000 0.00 0.00 0.00 2.85
468 477 5.625311 GTGTGTTGGATCATCGTTTTTCTTC 59.375 40.000 0.00 0.00 0.00 2.87
469 478 5.519722 GTGTGTTGGATCATCGTTTTTCTT 58.480 37.500 0.00 0.00 0.00 2.52
470 479 4.319477 CGTGTGTTGGATCATCGTTTTTCT 60.319 41.667 0.00 0.00 0.00 2.52
471 480 3.906008 CGTGTGTTGGATCATCGTTTTTC 59.094 43.478 0.00 0.00 0.00 2.29
480 489 0.036022 TGCATCCGTGTGTTGGATCA 59.964 50.000 0.00 0.00 44.41 2.92
514 523 3.353524 CATCAACACAAACACGTGACAG 58.646 45.455 25.01 13.10 39.34 3.51
515 524 2.477021 GCATCAACACAAACACGTGACA 60.477 45.455 25.01 0.00 39.34 3.58
520 529 2.720578 GACATGCATCAACACAAACACG 59.279 45.455 0.00 0.00 0.00 4.49
527 536 0.447801 GGACGGACATGCATCAACAC 59.552 55.000 0.00 0.00 0.00 3.32
531 540 3.558931 ATTTAGGACGGACATGCATCA 57.441 42.857 0.00 0.00 0.00 3.07
532 541 4.335315 TGAAATTTAGGACGGACATGCATC 59.665 41.667 0.00 0.00 0.00 3.91
542 554 5.335127 CAAATCAGGCTGAAATTTAGGACG 58.665 41.667 22.84 2.74 0.00 4.79
554 566 3.881089 TCATGTAGATGCAAATCAGGCTG 59.119 43.478 8.58 8.58 0.00 4.85
570 582 5.340803 GCGTGTCTATCTCTTGTTCATGTA 58.659 41.667 0.00 0.00 0.00 2.29
592 604 3.204827 ATCAAGCGGATGCACGGC 61.205 61.111 9.66 9.66 46.23 5.68
599 611 2.203070 GCCGGACATCAAGCGGAT 60.203 61.111 5.05 0.00 36.39 4.18
603 615 3.567797 GAGCGCCGGACATCAAGC 61.568 66.667 5.05 0.00 0.00 4.01
617 629 1.803519 CTGACGCTTGAGTCCGAGC 60.804 63.158 5.72 5.72 44.59 5.03
622 634 2.435059 GGGGCTGACGCTTGAGTC 60.435 66.667 0.00 0.00 41.30 3.36
637 649 2.117423 GTGGGAGGTTGTTGGGGG 59.883 66.667 0.00 0.00 0.00 5.40
638 650 1.228552 CTGTGGGAGGTTGTTGGGG 60.229 63.158 0.00 0.00 0.00 4.96
639 651 1.228552 CCTGTGGGAGGTTGTTGGG 60.229 63.158 0.00 0.00 37.02 4.12
640 652 4.500265 CCTGTGGGAGGTTGTTGG 57.500 61.111 0.00 0.00 37.02 3.77
648 660 3.914426 ATTAAGTAGCACCTGTGGGAG 57.086 47.619 0.00 0.00 36.25 4.30
649 661 3.585289 TGAATTAAGTAGCACCTGTGGGA 59.415 43.478 0.00 0.00 36.25 4.37
650 662 3.689649 GTGAATTAAGTAGCACCTGTGGG 59.310 47.826 0.00 0.00 38.88 4.61
651 663 3.370978 CGTGAATTAAGTAGCACCTGTGG 59.629 47.826 0.00 0.00 0.00 4.17
652 664 3.181520 GCGTGAATTAAGTAGCACCTGTG 60.182 47.826 0.00 0.00 0.00 3.66
653 665 3.000727 GCGTGAATTAAGTAGCACCTGT 58.999 45.455 0.00 0.00 0.00 4.00
654 666 3.000041 TGCGTGAATTAAGTAGCACCTG 59.000 45.455 0.00 0.00 0.00 4.00
655 667 3.328382 TGCGTGAATTAAGTAGCACCT 57.672 42.857 0.00 0.00 0.00 4.00
656 668 3.788797 GCATGCGTGAATTAAGTAGCACC 60.789 47.826 10.93 0.00 37.44 5.01
657 669 3.181511 TGCATGCGTGAATTAAGTAGCAC 60.182 43.478 14.09 0.00 37.44 4.40
658 670 3.006247 TGCATGCGTGAATTAAGTAGCA 58.994 40.909 14.09 3.36 39.02 3.49
659 671 3.546815 CCTGCATGCGTGAATTAAGTAGC 60.547 47.826 14.09 0.00 0.00 3.58
660 672 3.871006 TCCTGCATGCGTGAATTAAGTAG 59.129 43.478 14.09 0.00 0.00 2.57
661 673 3.867857 TCCTGCATGCGTGAATTAAGTA 58.132 40.909 14.09 0.00 0.00 2.24
662 674 2.679837 CTCCTGCATGCGTGAATTAAGT 59.320 45.455 14.09 0.00 0.00 2.24
663 675 2.032550 CCTCCTGCATGCGTGAATTAAG 59.967 50.000 14.09 1.57 0.00 1.85
664 676 2.016318 CCTCCTGCATGCGTGAATTAA 58.984 47.619 14.09 0.00 0.00 1.40
665 677 1.065491 ACCTCCTGCATGCGTGAATTA 60.065 47.619 14.09 0.00 0.00 1.40
689 855 6.490566 TTTAAACGGTAGCAAGAGGATTTC 57.509 37.500 0.00 0.00 0.00 2.17
738 904 4.939439 TCCCCTCGCTAATCTTGTTTTTAC 59.061 41.667 0.00 0.00 0.00 2.01
739 905 5.168647 TCCCCTCGCTAATCTTGTTTTTA 57.831 39.130 0.00 0.00 0.00 1.52
745 911 1.337260 CCGATCCCCTCGCTAATCTTG 60.337 57.143 0.00 0.00 46.25 3.02
830 1008 9.677567 ATGCGTTTATGGTCATAATTAATTGTC 57.322 29.630 11.05 0.00 33.71 3.18
831 1009 9.462174 CATGCGTTTATGGTCATAATTAATTGT 57.538 29.630 11.05 0.84 33.71 2.71
832 1010 8.914654 CCATGCGTTTATGGTCATAATTAATTG 58.085 33.333 11.05 0.00 42.16 2.32
833 1011 8.855110 TCCATGCGTTTATGGTCATAATTAATT 58.145 29.630 5.89 5.89 46.23 1.40
834 1012 8.402798 TCCATGCGTTTATGGTCATAATTAAT 57.597 30.769 12.89 0.00 46.23 1.40
835 1013 7.040755 CCTCCATGCGTTTATGGTCATAATTAA 60.041 37.037 12.89 0.00 46.23 1.40
836 1014 6.429692 CCTCCATGCGTTTATGGTCATAATTA 59.570 38.462 12.89 0.00 46.23 1.40
837 1015 5.241506 CCTCCATGCGTTTATGGTCATAATT 59.758 40.000 12.89 0.00 46.23 1.40
838 1016 4.761739 CCTCCATGCGTTTATGGTCATAAT 59.238 41.667 12.89 0.00 46.23 1.28
846 1024 2.036958 TGGTCCTCCATGCGTTTATG 57.963 50.000 0.00 0.00 39.03 1.90
990 1176 2.884639 GGTAAACGCCATGCCAAGATAT 59.115 45.455 0.00 0.00 0.00 1.63
991 1177 2.294074 GGTAAACGCCATGCCAAGATA 58.706 47.619 0.00 0.00 0.00 1.98
1013 1199 1.116536 TACCACGCCTGTGTTCCTCA 61.117 55.000 0.00 0.00 44.92 3.86
1078 1264 2.213499 CTAACCTGATTCGGCATCACC 58.787 52.381 0.00 0.00 36.94 4.02
1128 1649 3.861840 TGAGAAGGAAATCATGTCGGTC 58.138 45.455 0.00 0.00 0.00 4.79
1132 1653 6.202570 GCAGTAGATGAGAAGGAAATCATGTC 59.797 42.308 0.00 0.00 36.30 3.06
1172 1704 3.776340 ACGTTTTAAAAGGCTTGTGTGG 58.224 40.909 18.10 0.00 0.00 4.17
1173 1705 4.668289 AGACGTTTTAAAAGGCTTGTGTG 58.332 39.130 18.10 0.00 0.00 3.82
1274 1873 5.358442 TGGTACATGCATACAATGGGTTAAC 59.642 40.000 0.00 0.00 0.00 2.01
1279 1878 2.294233 GCTGGTACATGCATACAATGGG 59.706 50.000 0.00 0.00 38.20 4.00
1328 1930 9.122954 AGGTATGGATTATATACAATGGGTCAA 57.877 33.333 0.00 0.00 33.66 3.18
1447 2050 4.414182 CAGTGGGGTCTATTTGGGGTATTA 59.586 45.833 0.00 0.00 0.00 0.98
1530 2133 4.135747 TGTTATCAAGCATGATGGACGA 57.864 40.909 14.51 2.71 45.82 4.20
1584 2190 6.990939 GCATGCATATACATATCCTGATCACT 59.009 38.462 14.21 0.00 0.00 3.41
1690 2327 2.101082 ACAAGTGCATTGCAACATGACA 59.899 40.909 13.94 0.00 43.15 3.58
1698 2335 3.678289 AGAGATGTACAAGTGCATTGCA 58.322 40.909 7.38 7.38 43.15 4.08
1705 2342 3.383185 GGGGAGAGAGAGATGTACAAGTG 59.617 52.174 0.00 0.00 0.00 3.16
1716 2353 0.820074 ATGCGTACGGGGAGAGAGAG 60.820 60.000 18.39 0.00 0.00 3.20
1729 2366 1.728069 GAGAGACCTGCGATGCGTA 59.272 57.895 0.00 0.00 0.00 4.42
1735 2373 1.306642 GGAAGACGAGAGACCTGCGA 61.307 60.000 0.00 0.00 0.00 5.10
1761 2399 1.839354 TGGCAAGGATGAGAGCATACA 59.161 47.619 0.00 0.00 37.85 2.29
1854 2492 5.067936 GTGATCATATACGGTATGGCTAGCT 59.932 44.000 15.72 0.00 0.00 3.32
1864 2502 2.029020 AGCATGCGTGATCATATACGGT 60.029 45.455 13.01 0.00 40.43 4.83
1865 2503 2.610433 AGCATGCGTGATCATATACGG 58.390 47.619 13.01 0.00 40.43 4.02
1883 2540 2.622436 AGTAGAGAATTCGGTGCAAGC 58.378 47.619 0.00 0.00 0.00 4.01
1898 2555 7.095732 CGCTCACGTACTCTGATAATAAGTAGA 60.096 40.741 0.00 0.00 33.53 2.59
1920 2577 1.192534 CACACTTTCGAGGAAACGCTC 59.807 52.381 0.00 0.00 0.00 5.03
1924 2581 0.234884 CGCCACACTTTCGAGGAAAC 59.765 55.000 0.00 0.00 0.00 2.78
1932 2589 0.736053 TTTCACCACGCCACACTTTC 59.264 50.000 0.00 0.00 0.00 2.62
1943 2600 1.782028 GCACCGTCACCTTTCACCAC 61.782 60.000 0.00 0.00 0.00 4.16
1953 2610 2.260869 ACTTGCATGGCACCGTCAC 61.261 57.895 4.44 0.00 38.71 3.67
2026 2683 0.248417 CTCATCTCGCTGTCCACTCG 60.248 60.000 0.00 0.00 0.00 4.18
2074 2735 6.317789 TGCTTCTCAGAACGAAAATTGATT 57.682 33.333 0.00 0.00 0.00 2.57
2085 2746 1.447945 GCCTCCTTGCTTCTCAGAAC 58.552 55.000 0.00 0.00 0.00 3.01
2090 2751 2.604046 TTATCGCCTCCTTGCTTCTC 57.396 50.000 0.00 0.00 0.00 2.87
2164 2825 3.746045 ATGGCGTACGTTTATGGAGAT 57.254 42.857 17.90 0.00 0.00 2.75
2170 2831 2.928757 TGCGTTTATGGCGTACGTTTAT 59.071 40.909 17.90 11.09 37.58 1.40
2174 2835 1.079875 CCTGCGTTTATGGCGTACGT 61.080 55.000 17.90 0.00 37.58 3.57
2175 2836 1.634225 CCTGCGTTTATGGCGTACG 59.366 57.895 11.84 11.84 38.26 3.67
2176 2837 1.350665 GCCTGCGTTTATGGCGTAC 59.649 57.895 0.00 0.00 37.11 3.67
2177 2838 3.802507 GCCTGCGTTTATGGCGTA 58.197 55.556 0.00 0.00 37.11 4.42
2190 2851 2.202987 GTCGATCCAGCCTGCCTG 60.203 66.667 0.00 0.00 41.41 4.85
2207 2868 0.531532 GGGAGATGTGATCACGCAGG 60.532 60.000 20.54 0.00 39.92 4.85
2217 2878 6.239064 GCTCGTTATATATAGGGGGAGATGTG 60.239 46.154 12.09 0.00 0.00 3.21
2230 2891 9.574458 GATGTGTTGACATAGCTCGTTATATAT 57.426 33.333 0.00 0.00 43.22 0.86
2254 2915 2.306847 GTGGTTTGATATTGGGGCGAT 58.693 47.619 0.00 0.00 0.00 4.58
2277 2938 9.443323 CCGATCTAAGATCTCTTCTAGTATTCA 57.557 37.037 0.00 0.00 37.40 2.57
2289 2950 4.431809 CATCATGGCCGATCTAAGATCTC 58.568 47.826 0.00 0.00 0.00 2.75
2320 2981 1.067142 GTTCACCGACTGTAGGCATGA 60.067 52.381 6.88 1.74 0.00 3.07
2377 3038 7.880195 ACAAAAATGAACTAGAGCACAGTAGAT 59.120 33.333 0.00 0.00 0.00 1.98
2378 3039 7.217200 ACAAAAATGAACTAGAGCACAGTAGA 58.783 34.615 0.00 0.00 0.00 2.59
2379 3040 7.426929 ACAAAAATGAACTAGAGCACAGTAG 57.573 36.000 0.00 0.00 0.00 2.57
2380 3041 7.041372 GGAACAAAAATGAACTAGAGCACAGTA 60.041 37.037 0.00 0.00 0.00 2.74
2381 3042 6.238759 GGAACAAAAATGAACTAGAGCACAGT 60.239 38.462 0.00 0.00 0.00 3.55
2382 3043 6.145535 GGAACAAAAATGAACTAGAGCACAG 58.854 40.000 0.00 0.00 0.00 3.66
2383 3044 5.592282 TGGAACAAAAATGAACTAGAGCACA 59.408 36.000 0.00 0.00 31.92 4.57
2384 3045 6.072112 TGGAACAAAAATGAACTAGAGCAC 57.928 37.500 0.00 0.00 31.92 4.40
2417 3078 3.305094 CCATCGTCAATCATGCAAAAAGC 59.695 43.478 0.00 0.00 45.96 3.51
2418 3079 4.487948 ACCATCGTCAATCATGCAAAAAG 58.512 39.130 0.00 0.00 0.00 2.27
2419 3080 4.517952 ACCATCGTCAATCATGCAAAAA 57.482 36.364 0.00 0.00 0.00 1.94
2420 3081 4.517952 AACCATCGTCAATCATGCAAAA 57.482 36.364 0.00 0.00 0.00 2.44
2421 3082 4.436718 CGTAACCATCGTCAATCATGCAAA 60.437 41.667 0.00 0.00 0.00 3.68
2424 3085 2.032894 CCGTAACCATCGTCAATCATGC 60.033 50.000 0.00 0.00 0.00 4.06
2425 3086 2.543848 CCCGTAACCATCGTCAATCATG 59.456 50.000 0.00 0.00 0.00 3.07
2426 3087 2.432874 TCCCGTAACCATCGTCAATCAT 59.567 45.455 0.00 0.00 0.00 2.45
2427 3088 1.826096 TCCCGTAACCATCGTCAATCA 59.174 47.619 0.00 0.00 0.00 2.57
2428 3089 2.589798 TCCCGTAACCATCGTCAATC 57.410 50.000 0.00 0.00 0.00 2.67
2429 3090 3.004862 GTTTCCCGTAACCATCGTCAAT 58.995 45.455 0.00 0.00 0.00 2.57
2435 3096 1.081094 CGGTGTTTCCCGTAACCATC 58.919 55.000 0.00 0.00 43.07 3.51
2436 3097 3.236604 CGGTGTTTCCCGTAACCAT 57.763 52.632 0.00 0.00 43.07 3.55
2444 3105 0.249280 CAAAAGGTGCGGTGTTTCCC 60.249 55.000 0.00 0.00 0.00 3.97
2447 3108 2.428890 TCATTCAAAAGGTGCGGTGTTT 59.571 40.909 0.00 0.00 0.00 2.83
2457 3118 3.760151 TCTGCCATCAGTCATTCAAAAGG 59.240 43.478 0.00 0.00 41.10 3.11
2463 3124 3.755378 ACAACTTCTGCCATCAGTCATTC 59.245 43.478 0.00 0.00 41.10 2.67
2464 3125 3.759581 ACAACTTCTGCCATCAGTCATT 58.240 40.909 0.00 0.00 41.10 2.57
2475 3138 4.504097 GGTCAAAATCACAACAACTTCTGC 59.496 41.667 0.00 0.00 0.00 4.26
2480 3143 3.370104 TGGGGTCAAAATCACAACAACT 58.630 40.909 0.00 0.00 0.00 3.16
2497 3160 1.683365 CTTGGGCATGGACTTGGGG 60.683 63.158 0.00 0.00 0.00 4.96


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

AutoCloner maintained by Alex Coulton.