Multiple sequence alignment - TraesCS6B01G127100

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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 TraesCS6B01G127100 chr6B 100.000 2845 0 0 1 2845 122958176 122955332 0.000000e+00 5254
1 TraesCS6B01G127100 chr6B 87.020 547 48 10 1199 1726 262672345 262671803 1.890000e-166 595
2 TraesCS6B01G127100 chr6D 88.127 2173 107 63 641 2737 48513664 48515761 0.000000e+00 2444
3 TraesCS6B01G127100 chr6D 88.110 328 17 8 3 309 48513079 48513405 1.240000e-98 370
4 TraesCS6B01G127100 chr6D 87.879 198 8 5 471 655 48513453 48513647 4.770000e-53 219
5 TraesCS6B01G127100 chr6A 88.525 1281 64 36 601 1863 66303259 66302044 0.000000e+00 1474
6 TraesCS6B01G127100 chr6A 89.573 211 13 4 2 204 66303718 66303509 2.810000e-65 259
7 TraesCS6B01G127100 chr6A 83.607 183 16 4 2462 2643 66296344 66296175 2.930000e-35 159
8 TraesCS6B01G127100 chr1B 91.489 799 56 9 930 1727 274034345 274035132 0.000000e+00 1088
9 TraesCS6B01G127100 chr1B 88.603 816 68 10 930 1727 258370744 258369936 0.000000e+00 968
10 TraesCS6B01G127100 chr7B 91.054 816 52 10 930 1727 748323265 748322453 0.000000e+00 1083
11 TraesCS6B01G127100 chr7B 87.828 534 43 11 1212 1727 700098305 700098834 8.720000e-170 606
12 TraesCS6B01G127100 chr7B 93.103 290 17 1 930 1216 700084353 700084642 3.390000e-114 422
13 TraesCS6B01G127100 chr3B 90.123 729 54 6 930 1640 307379199 307379927 0.000000e+00 931
14 TraesCS6B01G127100 chrUn 86.536 817 62 18 930 1727 50339734 50340521 0.000000e+00 856


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 TraesCS6B01G127100 chr6B 122955332 122958176 2844 True 5254.0 5254 100.000000 1 2845 1 chr6B.!!$R1 2844
1 TraesCS6B01G127100 chr6B 262671803 262672345 542 True 595.0 595 87.020000 1199 1726 1 chr6B.!!$R2 527
2 TraesCS6B01G127100 chr6D 48513079 48515761 2682 False 1011.0 2444 88.038667 3 2737 3 chr6D.!!$F1 2734
3 TraesCS6B01G127100 chr6A 66302044 66303718 1674 True 866.5 1474 89.049000 2 1863 2 chr6A.!!$R2 1861
4 TraesCS6B01G127100 chr1B 274034345 274035132 787 False 1088.0 1088 91.489000 930 1727 1 chr1B.!!$F1 797
5 TraesCS6B01G127100 chr1B 258369936 258370744 808 True 968.0 968 88.603000 930 1727 1 chr1B.!!$R1 797
6 TraesCS6B01G127100 chr7B 748322453 748323265 812 True 1083.0 1083 91.054000 930 1727 1 chr7B.!!$R1 797
7 TraesCS6B01G127100 chr7B 700098305 700098834 529 False 606.0 606 87.828000 1212 1727 1 chr7B.!!$F2 515
8 TraesCS6B01G127100 chr3B 307379199 307379927 728 False 931.0 931 90.123000 930 1640 1 chr3B.!!$F1 710
9 TraesCS6B01G127100 chrUn 50339734 50340521 787 False 856.0 856 86.536000 930 1727 1 chrUn.!!$F1 797

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
915 1003 0.10412 TCACACTCACACGGGTTCAG 59.896 55.0 0.0 0.0 0.0 3.02 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1907 2054 0.034896 ACCAACGAGAACCAGCGATT 59.965 50.0 0.0 0.0 0.0 3.34 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
95 103 0.459489 ACCGAGCAAAAGCAAAAGCA 59.541 45.000 0.00 0.00 0.00 3.91
97 114 2.137523 CCGAGCAAAAGCAAAAGCAAT 58.862 42.857 0.00 0.00 0.00 3.56
106 123 6.358822 GCAAAAGCAAAAGCAATCTTGATTTC 59.641 34.615 6.62 0.00 44.98 2.17
145 162 6.042093 GGGTCTGAACTGTCTTCCATATATCA 59.958 42.308 0.00 0.00 0.00 2.15
187 210 1.675641 GATGAGGTGCCAAAGCGGT 60.676 57.895 0.00 0.00 44.31 5.68
280 303 1.128692 CGGTGCTTCAGAATTCGGTTC 59.871 52.381 5.48 0.00 37.08 3.62
351 382 4.451150 CTTGCCTAGCACGCCCGA 62.451 66.667 0.00 0.00 38.71 5.14
352 383 3.740128 CTTGCCTAGCACGCCCGAT 62.740 63.158 0.00 0.00 38.71 4.18
353 384 3.733344 TTGCCTAGCACGCCCGATC 62.733 63.158 0.00 0.00 38.71 3.69
354 385 4.221422 GCCTAGCACGCCCGATCA 62.221 66.667 0.00 0.00 0.00 2.92
355 386 2.028190 CCTAGCACGCCCGATCAG 59.972 66.667 0.00 0.00 0.00 2.90
356 387 2.659897 CTAGCACGCCCGATCAGC 60.660 66.667 0.00 0.00 0.00 4.26
357 388 3.430565 CTAGCACGCCCGATCAGCA 62.431 63.158 5.64 0.00 0.00 4.41
358 389 2.906182 CTAGCACGCCCGATCAGCAA 62.906 60.000 5.64 0.00 0.00 3.91
359 390 2.906182 TAGCACGCCCGATCAGCAAG 62.906 60.000 5.64 0.00 0.00 4.01
360 391 2.125552 CACGCCCGATCAGCAAGA 60.126 61.111 5.64 0.00 0.00 3.02
361 392 2.125512 ACGCCCGATCAGCAAGAC 60.126 61.111 5.64 0.00 0.00 3.01
362 393 2.185350 CGCCCGATCAGCAAGACT 59.815 61.111 5.64 0.00 0.00 3.24
363 394 1.448540 CGCCCGATCAGCAAGACTT 60.449 57.895 5.64 0.00 0.00 3.01
364 395 1.021390 CGCCCGATCAGCAAGACTTT 61.021 55.000 5.64 0.00 0.00 2.66
365 396 1.168714 GCCCGATCAGCAAGACTTTT 58.831 50.000 0.00 0.00 0.00 2.27
366 397 1.541588 GCCCGATCAGCAAGACTTTTT 59.458 47.619 0.00 0.00 0.00 1.94
388 419 3.735237 TTTTTGGTGTGTGTGTGTGTT 57.265 38.095 0.00 0.00 0.00 3.32
389 420 4.848562 TTTTTGGTGTGTGTGTGTGTTA 57.151 36.364 0.00 0.00 0.00 2.41
390 421 4.848562 TTTTGGTGTGTGTGTGTGTTAA 57.151 36.364 0.00 0.00 0.00 2.01
391 422 4.848562 TTTGGTGTGTGTGTGTGTTAAA 57.151 36.364 0.00 0.00 0.00 1.52
392 423 4.848562 TTGGTGTGTGTGTGTGTTAAAA 57.151 36.364 0.00 0.00 0.00 1.52
393 424 4.848562 TGGTGTGTGTGTGTGTTAAAAA 57.151 36.364 0.00 0.00 0.00 1.94
412 443 1.006086 AAACGCTTGTTTTTGCAGCC 58.994 45.000 0.00 0.00 43.11 4.85
413 444 0.809636 AACGCTTGTTTTTGCAGCCC 60.810 50.000 0.00 0.00 29.44 5.19
414 445 1.955663 CGCTTGTTTTTGCAGCCCC 60.956 57.895 0.00 0.00 0.00 5.80
415 446 1.955663 GCTTGTTTTTGCAGCCCCG 60.956 57.895 0.00 0.00 0.00 5.73
416 447 1.441311 CTTGTTTTTGCAGCCCCGT 59.559 52.632 0.00 0.00 0.00 5.28
428 459 2.494918 CCCCGTCTAGAAGCGTGG 59.505 66.667 0.00 0.00 0.00 4.94
434 465 1.534175 CGTCTAGAAGCGTGGTGGATC 60.534 57.143 0.00 0.00 0.00 3.36
435 466 1.112113 TCTAGAAGCGTGGTGGATCC 58.888 55.000 4.20 4.20 0.00 3.36
437 468 1.672854 TAGAAGCGTGGTGGATCCGG 61.673 60.000 7.39 0.00 39.52 5.14
438 469 4.096003 AAGCGTGGTGGATCCGGG 62.096 66.667 7.39 0.00 39.52 5.73
441 472 3.395702 CGTGGTGGATCCGGGGAA 61.396 66.667 7.39 0.00 39.52 3.97
444 475 2.366435 GGTGGATCCGGGGAAGGA 60.366 66.667 7.39 0.00 45.54 3.36
445 476 1.999002 GGTGGATCCGGGGAAGGAA 60.999 63.158 7.39 0.00 44.50 3.36
446 477 1.568118 GGTGGATCCGGGGAAGGAAA 61.568 60.000 7.39 0.00 44.50 3.13
447 478 0.551396 GTGGATCCGGGGAAGGAAAT 59.449 55.000 7.39 0.00 44.50 2.17
448 479 0.550914 TGGATCCGGGGAAGGAAATG 59.449 55.000 7.39 0.00 44.50 2.32
449 480 0.178990 GGATCCGGGGAAGGAAATGG 60.179 60.000 0.00 0.00 44.50 3.16
450 481 0.551396 GATCCGGGGAAGGAAATGGT 59.449 55.000 0.00 0.00 44.50 3.55
451 482 1.007607 ATCCGGGGAAGGAAATGGTT 58.992 50.000 0.00 0.00 44.50 3.67
452 483 0.781278 TCCGGGGAAGGAAATGGTTT 59.219 50.000 0.00 0.00 37.36 3.27
453 484 1.182667 CCGGGGAAGGAAATGGTTTC 58.817 55.000 0.00 0.00 38.94 2.78
454 485 1.272480 CCGGGGAAGGAAATGGTTTCT 60.272 52.381 0.00 0.00 39.59 2.52
455 486 1.818674 CGGGGAAGGAAATGGTTTCTG 59.181 52.381 2.84 0.00 39.59 3.02
456 487 2.817839 CGGGGAAGGAAATGGTTTCTGT 60.818 50.000 2.84 0.00 39.59 3.41
457 488 2.562738 GGGGAAGGAAATGGTTTCTGTG 59.437 50.000 2.84 0.00 39.59 3.66
458 489 2.562738 GGGAAGGAAATGGTTTCTGTGG 59.437 50.000 2.84 0.00 39.59 4.17
459 490 2.562738 GGAAGGAAATGGTTTCTGTGGG 59.437 50.000 2.84 0.00 39.59 4.61
460 491 2.309136 AGGAAATGGTTTCTGTGGGG 57.691 50.000 2.84 0.00 39.59 4.96
461 492 1.786441 AGGAAATGGTTTCTGTGGGGA 59.214 47.619 2.84 0.00 39.59 4.81
462 493 1.893137 GGAAATGGTTTCTGTGGGGAC 59.107 52.381 2.84 0.00 39.59 4.46
463 494 1.539827 GAAATGGTTTCTGTGGGGACG 59.460 52.381 0.00 0.00 36.73 4.79
464 495 0.768622 AATGGTTTCTGTGGGGACGA 59.231 50.000 0.00 0.00 0.00 4.20
465 496 0.324943 ATGGTTTCTGTGGGGACGAG 59.675 55.000 0.00 0.00 0.00 4.18
466 497 1.671379 GGTTTCTGTGGGGACGAGC 60.671 63.158 0.00 0.00 0.00 5.03
467 498 2.027625 GTTTCTGTGGGGACGAGCG 61.028 63.158 0.00 0.00 0.00 5.03
468 499 2.204461 TTTCTGTGGGGACGAGCGA 61.204 57.895 0.00 0.00 0.00 4.93
504 535 2.829206 CGGCTGTTCGTGGCAAACA 61.829 57.895 4.79 4.79 35.44 2.83
537 575 7.244192 GTGAATAATCCACGGAAAGAAAAGAG 58.756 38.462 0.00 0.00 0.00 2.85
539 577 7.663905 TGAATAATCCACGGAAAGAAAAGAGAA 59.336 33.333 0.00 0.00 0.00 2.87
548 588 6.146347 ACGGAAAGAAAAGAGAAGAAGAATCG 59.854 38.462 0.00 0.00 0.00 3.34
555 595 2.159170 AGAGAAGAAGAATCGAAGCGGG 60.159 50.000 0.00 0.00 0.00 6.13
557 597 0.902531 AAGAAGAATCGAAGCGGGGA 59.097 50.000 0.00 0.00 0.00 4.81
558 598 1.123928 AGAAGAATCGAAGCGGGGAT 58.876 50.000 0.00 0.00 0.00 3.85
561 601 2.203209 AATCGAAGCGGGGATGCC 60.203 61.111 0.00 0.00 34.65 4.40
655 696 1.591619 GGCATAGTAAAAGACCGCGTC 59.408 52.381 4.92 2.66 0.00 5.19
656 697 1.254570 GCATAGTAAAAGACCGCGTCG 59.745 52.381 4.92 0.00 37.67 5.12
657 698 2.523015 CATAGTAAAAGACCGCGTCGT 58.477 47.619 4.92 0.00 37.67 4.34
658 699 2.704725 TAGTAAAAGACCGCGTCGTT 57.295 45.000 4.92 4.73 37.67 3.85
659 700 1.134226 AGTAAAAGACCGCGTCGTTG 58.866 50.000 4.92 0.00 34.81 4.10
662 703 1.814211 AAAAGACCGCGTCGTTGTCG 61.814 55.000 4.92 0.00 34.81 4.35
761 829 1.866853 GCTTCCCTTCCAAGCAACCG 61.867 60.000 0.00 0.00 44.87 4.44
900 988 2.203001 CGCCACACACCAGTCACA 60.203 61.111 0.00 0.00 0.00 3.58
910 998 1.300931 CCAGTCACACTCACACGGG 60.301 63.158 0.00 0.00 0.00 5.28
915 1003 0.104120 TCACACTCACACGGGTTCAG 59.896 55.000 0.00 0.00 0.00 3.02
916 1004 0.104120 CACACTCACACGGGTTCAGA 59.896 55.000 0.36 0.00 0.00 3.27
917 1005 0.104304 ACACTCACACGGGTTCAGAC 59.896 55.000 0.36 0.00 0.00 3.51
918 1006 0.104120 CACTCACACGGGTTCAGACA 59.896 55.000 0.36 0.00 0.00 3.41
919 1007 0.104304 ACTCACACGGGTTCAGACAC 59.896 55.000 0.36 0.00 0.00 3.67
920 1008 0.104120 CTCACACGGGTTCAGACACA 59.896 55.000 0.00 0.00 0.00 3.72
921 1009 0.756294 TCACACGGGTTCAGACACAT 59.244 50.000 0.00 0.00 0.00 3.21
922 1010 1.148310 CACACGGGTTCAGACACATC 58.852 55.000 0.00 0.00 0.00 3.06
923 1011 0.319555 ACACGGGTTCAGACACATCG 60.320 55.000 0.00 0.00 0.00 3.84
924 1012 1.374252 ACGGGTTCAGACACATCGC 60.374 57.895 0.00 0.00 0.00 4.58
925 1013 2.100631 CGGGTTCAGACACATCGCC 61.101 63.158 0.00 0.00 0.00 5.54
926 1014 1.296715 GGGTTCAGACACATCGCCT 59.703 57.895 0.00 0.00 0.00 5.52
927 1015 0.741221 GGGTTCAGACACATCGCCTC 60.741 60.000 0.00 0.00 0.00 4.70
928 1016 1.078759 GGTTCAGACACATCGCCTCG 61.079 60.000 0.00 0.00 0.00 4.63
1497 1599 1.684049 CCTCTTCCTCCAGCCGACT 60.684 63.158 0.00 0.00 0.00 4.18
1506 1611 4.697756 CAGCCGACTCCCGCCAAA 62.698 66.667 0.00 0.00 36.84 3.28
1517 1622 1.830408 CCGCCAAACCCAAGTCCAA 60.830 57.895 0.00 0.00 0.00 3.53
1563 1677 0.035458 CTCCGGCCAACAAGAAGACT 59.965 55.000 2.24 0.00 0.00 3.24
1792 1938 1.345715 GCACCACCCCTACTAGCCAT 61.346 60.000 0.00 0.00 0.00 4.40
1793 1939 0.759346 CACCACCCCTACTAGCCATC 59.241 60.000 0.00 0.00 0.00 3.51
1794 1940 0.341961 ACCACCCCTACTAGCCATCA 59.658 55.000 0.00 0.00 0.00 3.07
1795 1941 0.759346 CCACCCCTACTAGCCATCAC 59.241 60.000 0.00 0.00 0.00 3.06
1796 1942 1.496060 CACCCCTACTAGCCATCACA 58.504 55.000 0.00 0.00 0.00 3.58
1797 1943 2.050144 CACCCCTACTAGCCATCACAT 58.950 52.381 0.00 0.00 0.00 3.21
1798 1944 2.037772 CACCCCTACTAGCCATCACATC 59.962 54.545 0.00 0.00 0.00 3.06
1799 1945 1.625818 CCCCTACTAGCCATCACATCC 59.374 57.143 0.00 0.00 0.00 3.51
1800 1946 1.625818 CCCTACTAGCCATCACATCCC 59.374 57.143 0.00 0.00 0.00 3.85
1801 1947 2.329267 CCTACTAGCCATCACATCCCA 58.671 52.381 0.00 0.00 0.00 4.37
1832 1978 1.303309 GCTGCTGCCACGATAAATCT 58.697 50.000 3.85 0.00 0.00 2.40
1833 1979 1.262683 GCTGCTGCCACGATAAATCTC 59.737 52.381 3.85 0.00 0.00 2.75
1886 2033 1.519455 GTCAGATTCCACGCTCCCG 60.519 63.158 0.00 0.00 41.14 5.14
1920 2067 0.721718 CGGTCAAATCGCTGGTTCTC 59.278 55.000 0.00 0.00 0.00 2.87
1983 2130 4.213270 TGAACTTGTCAATTTCCAGCTACG 59.787 41.667 11.81 0.00 31.51 3.51
2008 2155 4.098349 CACGTACCCTATAGTTTACTGCCA 59.902 45.833 0.00 0.00 0.00 4.92
2026 2173 3.444742 TGCCAATTGTGAATCCATCTGTC 59.555 43.478 4.43 0.00 0.00 3.51
2027 2174 3.698040 GCCAATTGTGAATCCATCTGTCT 59.302 43.478 4.43 0.00 0.00 3.41
2062 2214 2.614481 GCTAATTCACCCGAGACCAACA 60.614 50.000 0.00 0.00 0.00 3.33
2168 2324 4.703897 TGGACTCTGAACTCGTCAAATTT 58.296 39.130 0.00 0.00 35.22 1.82
2170 2326 4.083802 GGACTCTGAACTCGTCAAATTTGG 60.084 45.833 17.90 4.61 35.22 3.28
2184 2340 1.876497 ATTTGGCGCTGCATTTCCGT 61.876 50.000 7.64 0.00 0.00 4.69
2193 2349 0.955428 TGCATTTCCGTGTCAGCTCC 60.955 55.000 0.00 0.00 0.00 4.70
2236 2400 1.299014 GAGCTGATCCTGTCTCGCG 60.299 63.158 0.00 0.00 0.00 5.87
2262 2426 1.444836 CGCAGTTTGTTATTCCCGGA 58.555 50.000 0.73 0.00 0.00 5.14
2274 2438 1.426751 TTCCCGGACCAGTACAAGTT 58.573 50.000 0.73 0.00 0.00 2.66
2292 2456 3.279434 AGTTGGCGAGTTTGGATAATCC 58.721 45.455 0.00 0.00 36.96 3.01
2342 2506 0.038166 AACAGCCATGGATTGACCGT 59.962 50.000 18.40 0.00 42.61 4.83
2345 2509 0.620556 AGCCATGGATTGACCGTTCT 59.379 50.000 18.40 0.00 42.61 3.01
2385 2569 0.753867 GAGGGAGGAGATTCCGTTCC 59.246 60.000 0.00 0.00 42.75 3.62
2386 2570 1.043673 AGGGAGGAGATTCCGTTCCG 61.044 60.000 0.00 0.00 42.75 4.30
2387 2571 1.328430 GGGAGGAGATTCCGTTCCGT 61.328 60.000 0.00 0.00 42.75 4.69
2388 2572 0.102663 GGAGGAGATTCCGTTCCGTC 59.897 60.000 0.00 0.00 42.75 4.79
2389 2573 0.102663 GAGGAGATTCCGTTCCGTCC 59.897 60.000 0.00 0.00 42.75 4.79
2395 2579 1.133025 GATTCCGTTCCGTCCGAAGTA 59.867 52.381 0.00 0.00 0.00 2.24
2413 2601 1.138266 GTAGGTGGCTGCGAGGAAATA 59.862 52.381 0.00 0.00 0.00 1.40
2505 2693 2.884012 TCTTTCCGTTTGTGTGCATGAT 59.116 40.909 0.00 0.00 0.00 2.45
2512 2700 4.274214 CCGTTTGTGTGCATGATCATCTAT 59.726 41.667 4.86 0.00 0.00 1.98
2513 2701 5.438117 CGTTTGTGTGCATGATCATCTATC 58.562 41.667 4.86 0.00 34.93 2.08
2521 2710 9.247126 GTGTGCATGATCATCTATCTATGTATC 57.753 37.037 4.86 0.00 35.45 2.24
2603 2794 2.619013 CGAAAGCCAGGTTCATGTTC 57.381 50.000 0.00 0.00 0.00 3.18
2631 2822 1.688197 AGAACGTGGTACTTTTCCCGA 59.312 47.619 0.00 0.00 0.00 5.14
2634 2825 3.130280 ACGTGGTACTTTTCCCGATTT 57.870 42.857 0.00 0.00 0.00 2.17
2674 2865 1.000019 ACTGGGGAGTCGGAATCGA 60.000 57.895 0.00 0.00 43.86 3.59
2687 2878 1.945354 GAATCGACCGACCAGGCTGA 61.945 60.000 17.94 0.00 46.52 4.26
2695 2886 1.293924 CGACCAGGCTGATTTGCTAG 58.706 55.000 17.94 0.00 0.00 3.42
2697 2888 2.284190 GACCAGGCTGATTTGCTAGTC 58.716 52.381 17.94 8.27 0.00 2.59
2698 2889 1.630369 ACCAGGCTGATTTGCTAGTCA 59.370 47.619 17.94 0.00 0.00 3.41
2709 2900 2.566529 CTAGTCAGCACACGCGGA 59.433 61.111 12.47 0.00 45.49 5.54
2727 2919 1.482278 GAGCTAGGCTCGATTTGTCG 58.518 55.000 3.74 0.00 45.85 4.35
2728 2920 0.818296 AGCTAGGCTCGATTTGTCGT 59.182 50.000 0.00 0.00 30.62 4.34
2730 2922 1.324736 GCTAGGCTCGATTTGTCGTTG 59.675 52.381 0.00 0.00 0.00 4.10
2731 2923 2.607187 CTAGGCTCGATTTGTCGTTGT 58.393 47.619 0.00 0.00 0.00 3.32
2732 2924 2.736144 AGGCTCGATTTGTCGTTGTA 57.264 45.000 0.00 0.00 0.00 2.41
2733 2925 2.607187 AGGCTCGATTTGTCGTTGTAG 58.393 47.619 0.00 0.00 0.00 2.74
2734 2926 2.230508 AGGCTCGATTTGTCGTTGTAGA 59.769 45.455 0.00 0.00 0.00 2.59
2736 2928 3.181533 GGCTCGATTTGTCGTTGTAGAAC 60.182 47.826 0.00 0.00 0.00 3.01
2738 2930 2.981805 TCGATTTGTCGTTGTAGAACCG 59.018 45.455 0.00 0.00 0.00 4.44
2739 2931 2.727798 CGATTTGTCGTTGTAGAACCGT 59.272 45.455 0.00 0.00 0.00 4.83
2740 2932 3.421312 CGATTTGTCGTTGTAGAACCGTG 60.421 47.826 0.00 0.00 0.00 4.94
2741 2933 2.867287 TTGTCGTTGTAGAACCGTGA 57.133 45.000 0.00 0.00 0.00 4.35
2742 2934 3.374220 TTGTCGTTGTAGAACCGTGAT 57.626 42.857 0.00 0.00 0.00 3.06
2743 2935 3.374220 TGTCGTTGTAGAACCGTGATT 57.626 42.857 0.00 0.00 0.00 2.57
2744 2936 4.502171 TGTCGTTGTAGAACCGTGATTA 57.498 40.909 0.00 0.00 0.00 1.75
2745 2937 5.063180 TGTCGTTGTAGAACCGTGATTAT 57.937 39.130 0.00 0.00 0.00 1.28
2746 2938 6.193514 TGTCGTTGTAGAACCGTGATTATA 57.806 37.500 0.00 0.00 0.00 0.98
2747 2939 6.619744 TGTCGTTGTAGAACCGTGATTATAA 58.380 36.000 0.00 0.00 0.00 0.98
2748 2940 7.259882 TGTCGTTGTAGAACCGTGATTATAAT 58.740 34.615 0.00 0.00 0.00 1.28
2749 2941 7.433131 TGTCGTTGTAGAACCGTGATTATAATC 59.567 37.037 17.09 17.09 35.97 1.75
2750 2942 7.646922 GTCGTTGTAGAACCGTGATTATAATCT 59.353 37.037 22.77 7.25 36.39 2.40
2751 2943 7.646526 TCGTTGTAGAACCGTGATTATAATCTG 59.353 37.037 22.77 15.87 36.39 2.90
2752 2944 7.434307 CGTTGTAGAACCGTGATTATAATCTGT 59.566 37.037 22.77 15.28 36.39 3.41
2753 2945 8.753175 GTTGTAGAACCGTGATTATAATCTGTC 58.247 37.037 22.77 13.55 36.39 3.51
2754 2946 7.136772 TGTAGAACCGTGATTATAATCTGTCG 58.863 38.462 22.77 21.31 36.39 4.35
2755 2947 6.145338 AGAACCGTGATTATAATCTGTCGT 57.855 37.500 22.77 12.45 36.39 4.34
2756 2948 5.977725 AGAACCGTGATTATAATCTGTCGTG 59.022 40.000 22.77 18.12 36.39 4.35
2757 2949 5.509716 ACCGTGATTATAATCTGTCGTGA 57.490 39.130 22.77 1.81 36.39 4.35
2758 2950 6.085555 ACCGTGATTATAATCTGTCGTGAT 57.914 37.500 22.77 11.39 36.39 3.06
2759 2951 7.210718 ACCGTGATTATAATCTGTCGTGATA 57.789 36.000 22.77 0.49 36.39 2.15
2760 2952 7.654568 ACCGTGATTATAATCTGTCGTGATAA 58.345 34.615 22.77 0.00 36.39 1.75
2761 2953 8.304596 ACCGTGATTATAATCTGTCGTGATAAT 58.695 33.333 22.77 0.00 36.39 1.28
2762 2954 9.783256 CCGTGATTATAATCTGTCGTGATAATA 57.217 33.333 22.77 0.00 36.39 0.98
2769 2961 6.877556 AATCTGTCGTGATAATATCATCGC 57.122 37.500 6.21 8.62 42.04 4.58
2770 2962 5.371115 TCTGTCGTGATAATATCATCGCA 57.629 39.130 6.21 11.71 42.04 5.10
2771 2963 5.954335 TCTGTCGTGATAATATCATCGCAT 58.046 37.500 6.21 0.00 42.04 4.73
2772 2964 7.083875 TCTGTCGTGATAATATCATCGCATA 57.916 36.000 6.21 5.47 42.04 3.14
2773 2965 7.535139 TCTGTCGTGATAATATCATCGCATAA 58.465 34.615 6.21 4.60 42.04 1.90
2774 2966 8.190784 TCTGTCGTGATAATATCATCGCATAAT 58.809 33.333 6.21 0.00 42.04 1.28
2775 2967 8.118893 TGTCGTGATAATATCATCGCATAATG 57.881 34.615 6.21 0.00 42.04 1.90
2776 2968 7.973388 TGTCGTGATAATATCATCGCATAATGA 59.027 33.333 6.21 0.00 42.04 2.57
2777 2969 8.807581 GTCGTGATAATATCATCGCATAATGAA 58.192 33.333 6.21 0.00 42.04 2.57
2778 2970 9.533253 TCGTGATAATATCATCGCATAATGAAT 57.467 29.630 6.21 0.00 42.04 2.57
2779 2971 9.577003 CGTGATAATATCATCGCATAATGAATG 57.423 33.333 6.21 0.00 42.04 2.67
2780 2972 9.874215 GTGATAATATCATCGCATAATGAATGG 57.126 33.333 6.21 0.00 42.04 3.16
2781 2973 9.617523 TGATAATATCATCGCATAATGAATGGT 57.382 29.630 0.00 0.00 39.04 3.55
2782 2974 9.874215 GATAATATCATCGCATAATGAATGGTG 57.126 33.333 0.00 0.00 39.04 4.17
2783 2975 7.692460 AATATCATCGCATAATGAATGGTGT 57.308 32.000 0.00 0.00 39.04 4.16
2784 2976 8.791327 AATATCATCGCATAATGAATGGTGTA 57.209 30.769 0.00 0.00 39.04 2.90
2785 2977 8.791327 ATATCATCGCATAATGAATGGTGTAA 57.209 30.769 0.00 0.00 39.04 2.41
2786 2978 7.692460 ATCATCGCATAATGAATGGTGTAAT 57.308 32.000 0.00 0.00 39.04 1.89
2787 2979 7.509141 TCATCGCATAATGAATGGTGTAATT 57.491 32.000 0.00 0.00 35.99 1.40
2788 2980 7.584108 TCATCGCATAATGAATGGTGTAATTC 58.416 34.615 0.00 0.00 35.99 2.17
2789 2981 7.445096 TCATCGCATAATGAATGGTGTAATTCT 59.555 33.333 0.00 0.00 37.44 2.40
2790 2982 6.958255 TCGCATAATGAATGGTGTAATTCTG 58.042 36.000 0.00 0.00 37.44 3.02
2791 2983 5.626543 CGCATAATGAATGGTGTAATTCTGC 59.373 40.000 0.00 0.00 37.44 4.26
2792 2984 6.513884 CGCATAATGAATGGTGTAATTCTGCT 60.514 38.462 0.00 0.00 37.44 4.24
2793 2985 6.860023 GCATAATGAATGGTGTAATTCTGCTC 59.140 38.462 0.00 0.00 37.44 4.26
2794 2986 5.841957 AATGAATGGTGTAATTCTGCTCC 57.158 39.130 0.00 0.00 37.44 4.70
2795 2987 4.574674 TGAATGGTGTAATTCTGCTCCT 57.425 40.909 0.00 0.00 37.44 3.69
2796 2988 4.264253 TGAATGGTGTAATTCTGCTCCTG 58.736 43.478 0.00 0.00 37.44 3.86
2797 2989 2.113860 TGGTGTAATTCTGCTCCTGC 57.886 50.000 0.00 0.00 40.20 4.85
2806 2998 3.380995 TGCTCCTGCATCACGTCT 58.619 55.556 0.00 0.00 45.31 4.18
2807 2999 1.216444 TGCTCCTGCATCACGTCTC 59.784 57.895 0.00 0.00 45.31 3.36
2808 3000 1.216444 GCTCCTGCATCACGTCTCA 59.784 57.895 0.00 0.00 39.41 3.27
2809 3001 1.080995 GCTCCTGCATCACGTCTCAC 61.081 60.000 0.00 0.00 39.41 3.51
2821 3013 0.716108 CGTCTCACGTGGAATCAAGC 59.284 55.000 17.00 0.53 36.74 4.01
2822 3014 1.670087 CGTCTCACGTGGAATCAAGCT 60.670 52.381 17.00 0.00 36.74 3.74
2823 3015 2.415491 CGTCTCACGTGGAATCAAGCTA 60.415 50.000 17.00 0.00 36.74 3.32
2824 3016 3.182967 GTCTCACGTGGAATCAAGCTAG 58.817 50.000 17.00 1.22 0.00 3.42
2825 3017 1.929836 CTCACGTGGAATCAAGCTAGC 59.070 52.381 17.00 6.62 0.00 3.42
2826 3018 1.275010 TCACGTGGAATCAAGCTAGCA 59.725 47.619 18.83 0.00 0.00 3.49
2827 3019 1.662629 CACGTGGAATCAAGCTAGCAG 59.337 52.381 18.83 9.26 0.00 4.24
2828 3020 0.654683 CGTGGAATCAAGCTAGCAGC 59.345 55.000 18.83 0.00 42.84 5.25
2837 3029 4.100981 GCTAGCAGCGGAACAGAG 57.899 61.111 10.63 0.00 0.00 3.35
2838 3030 1.513158 GCTAGCAGCGGAACAGAGA 59.487 57.895 10.63 0.00 0.00 3.10
2839 3031 0.108615 GCTAGCAGCGGAACAGAGAA 60.109 55.000 10.63 0.00 0.00 2.87
2840 3032 1.634702 CTAGCAGCGGAACAGAGAAC 58.365 55.000 0.00 0.00 0.00 3.01
2841 3033 0.246635 TAGCAGCGGAACAGAGAACC 59.753 55.000 0.00 0.00 0.00 3.62
2842 3034 1.301716 GCAGCGGAACAGAGAACCA 60.302 57.895 0.00 0.00 0.00 3.67
2843 3035 0.884704 GCAGCGGAACAGAGAACCAA 60.885 55.000 0.00 0.00 0.00 3.67
2844 3036 1.813513 CAGCGGAACAGAGAACCAAT 58.186 50.000 0.00 0.00 0.00 3.16
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
18 19 3.057596 GCTTTGAATTGATCGGTTCACCA 60.058 43.478 10.95 2.84 34.34 4.17
95 103 5.643777 CCCTACTTGTGTCGAAATCAAGATT 59.356 40.000 22.97 10.81 40.35 2.40
97 114 4.562757 CCCCTACTTGTGTCGAAATCAAGA 60.563 45.833 22.97 11.62 40.35 3.02
145 162 4.568592 GGATCAGGGGATGAACAGAAAAGT 60.569 45.833 0.00 0.00 42.53 2.66
187 210 0.034896 GGAGCGAGGACAAGTGGAAA 59.965 55.000 0.00 0.00 0.00 3.13
280 303 2.429478 AGTCCAAAATTACGTTCCGGG 58.571 47.619 0.00 0.00 0.00 5.73
283 306 7.332678 ACACTACATAGTCCAAAATTACGTTCC 59.667 37.037 0.00 0.00 33.46 3.62
334 365 3.740128 ATCGGGCGTGCTAGGCAAG 62.740 63.158 7.70 1.42 41.47 4.01
335 366 3.733344 GATCGGGCGTGCTAGGCAA 62.733 63.158 7.70 0.00 41.47 4.52
337 368 4.221422 TGATCGGGCGTGCTAGGC 62.221 66.667 0.00 0.00 0.00 3.93
338 369 2.028190 CTGATCGGGCGTGCTAGG 59.972 66.667 0.00 0.00 0.00 3.02
339 370 2.659897 GCTGATCGGGCGTGCTAG 60.660 66.667 3.14 0.00 0.00 3.42
340 371 2.906182 CTTGCTGATCGGGCGTGCTA 62.906 60.000 3.14 0.00 0.00 3.49
341 372 4.393155 TTGCTGATCGGGCGTGCT 62.393 61.111 3.14 0.00 0.00 4.40
342 373 3.869272 CTTGCTGATCGGGCGTGC 61.869 66.667 3.14 0.00 0.00 5.34
343 374 2.125552 TCTTGCTGATCGGGCGTG 60.126 61.111 3.14 0.73 0.00 5.34
344 375 2.125512 GTCTTGCTGATCGGGCGT 60.126 61.111 3.14 0.00 0.00 5.68
345 376 1.021390 AAAGTCTTGCTGATCGGGCG 61.021 55.000 3.14 0.00 0.00 6.13
346 377 1.168714 AAAAGTCTTGCTGATCGGGC 58.831 50.000 3.14 3.56 0.00 6.13
368 399 3.735237 AACACACACACACACCAAAAA 57.265 38.095 0.00 0.00 0.00 1.94
369 400 4.848562 TTAACACACACACACACCAAAA 57.151 36.364 0.00 0.00 0.00 2.44
370 401 4.848562 TTTAACACACACACACACCAAA 57.151 36.364 0.00 0.00 0.00 3.28
371 402 4.848562 TTTTAACACACACACACACCAA 57.151 36.364 0.00 0.00 0.00 3.67
372 403 4.848562 TTTTTAACACACACACACACCA 57.151 36.364 0.00 0.00 0.00 4.17
394 425 0.809636 GGGCTGCAAAAACAAGCGTT 60.810 50.000 0.50 0.00 36.73 4.84
395 426 1.227234 GGGCTGCAAAAACAAGCGT 60.227 52.632 0.50 0.00 0.00 5.07
396 427 1.955663 GGGGCTGCAAAAACAAGCG 60.956 57.895 0.50 0.00 0.00 4.68
397 428 1.955663 CGGGGCTGCAAAAACAAGC 60.956 57.895 0.50 0.00 0.00 4.01
398 429 0.597377 GACGGGGCTGCAAAAACAAG 60.597 55.000 0.50 0.00 0.00 3.16
399 430 1.040339 AGACGGGGCTGCAAAAACAA 61.040 50.000 0.50 0.00 0.00 2.83
400 431 0.179015 TAGACGGGGCTGCAAAAACA 60.179 50.000 0.50 0.00 0.00 2.83
401 432 0.521735 CTAGACGGGGCTGCAAAAAC 59.478 55.000 0.50 0.00 0.00 2.43
402 433 0.398696 TCTAGACGGGGCTGCAAAAA 59.601 50.000 0.50 0.00 0.00 1.94
403 434 0.398696 TTCTAGACGGGGCTGCAAAA 59.601 50.000 0.50 0.00 0.00 2.44
404 435 0.036388 CTTCTAGACGGGGCTGCAAA 60.036 55.000 0.50 0.00 0.00 3.68
405 436 1.596934 CTTCTAGACGGGGCTGCAA 59.403 57.895 0.50 0.00 0.00 4.08
406 437 3.019003 GCTTCTAGACGGGGCTGCA 62.019 63.158 0.50 0.00 0.00 4.41
407 438 2.202946 GCTTCTAGACGGGGCTGC 60.203 66.667 0.00 0.00 0.00 5.25
408 439 2.105128 CGCTTCTAGACGGGGCTG 59.895 66.667 5.47 0.00 0.00 4.85
409 440 2.362632 ACGCTTCTAGACGGGGCT 60.363 61.111 16.21 0.00 0.00 5.19
410 441 2.202756 CACGCTTCTAGACGGGGC 60.203 66.667 16.21 7.07 0.00 5.80
412 443 1.153823 CACCACGCTTCTAGACGGG 60.154 63.158 11.21 11.21 0.00 5.28
413 444 1.153823 CCACCACGCTTCTAGACGG 60.154 63.158 7.56 0.00 0.00 4.79
414 445 0.456221 ATCCACCACGCTTCTAGACG 59.544 55.000 0.00 0.00 0.00 4.18
415 446 1.202428 GGATCCACCACGCTTCTAGAC 60.202 57.143 6.95 0.00 38.79 2.59
416 447 1.112113 GGATCCACCACGCTTCTAGA 58.888 55.000 6.95 0.00 38.79 2.43
428 459 0.551396 ATTTCCTTCCCCGGATCCAC 59.449 55.000 13.41 0.00 32.02 4.02
434 465 1.182667 GAAACCATTTCCTTCCCCGG 58.817 55.000 0.00 0.00 33.56 5.73
435 466 1.818674 CAGAAACCATTTCCTTCCCCG 59.181 52.381 0.00 0.00 40.54 5.73
437 468 2.562738 CCACAGAAACCATTTCCTTCCC 59.437 50.000 0.00 0.00 40.54 3.97
438 469 2.562738 CCCACAGAAACCATTTCCTTCC 59.437 50.000 0.00 0.00 40.54 3.46
439 470 2.562738 CCCCACAGAAACCATTTCCTTC 59.437 50.000 0.00 0.00 40.54 3.46
440 471 2.178984 TCCCCACAGAAACCATTTCCTT 59.821 45.455 0.00 0.00 40.54 3.36
441 472 1.786441 TCCCCACAGAAACCATTTCCT 59.214 47.619 0.00 0.00 40.54 3.36
444 475 1.144093 TCGTCCCCACAGAAACCATTT 59.856 47.619 0.00 0.00 0.00 2.32
445 476 0.768622 TCGTCCCCACAGAAACCATT 59.231 50.000 0.00 0.00 0.00 3.16
446 477 0.324943 CTCGTCCCCACAGAAACCAT 59.675 55.000 0.00 0.00 0.00 3.55
447 478 1.752198 CTCGTCCCCACAGAAACCA 59.248 57.895 0.00 0.00 0.00 3.67
448 479 1.671379 GCTCGTCCCCACAGAAACC 60.671 63.158 0.00 0.00 0.00 3.27
449 480 2.027625 CGCTCGTCCCCACAGAAAC 61.028 63.158 0.00 0.00 0.00 2.78
450 481 1.750341 TTCGCTCGTCCCCACAGAAA 61.750 55.000 0.00 0.00 0.00 2.52
451 482 2.204461 TTCGCTCGTCCCCACAGAA 61.204 57.895 0.00 0.00 0.00 3.02
452 483 2.599281 TTCGCTCGTCCCCACAGA 60.599 61.111 0.00 0.00 0.00 3.41
453 484 2.432628 GTTCGCTCGTCCCCACAG 60.433 66.667 0.00 0.00 0.00 3.66
454 485 4.351938 CGTTCGCTCGTCCCCACA 62.352 66.667 0.00 0.00 0.00 4.17
458 489 4.493747 CTCCCGTTCGCTCGTCCC 62.494 72.222 0.00 0.00 0.00 4.46
459 490 4.493747 CCTCCCGTTCGCTCGTCC 62.494 72.222 0.00 0.00 0.00 4.79
460 491 4.493747 CCCTCCCGTTCGCTCGTC 62.494 72.222 0.00 0.00 0.00 4.20
462 493 3.701604 CTTCCCTCCCGTTCGCTCG 62.702 68.421 0.00 0.00 0.00 5.03
463 494 2.168666 AACTTCCCTCCCGTTCGCTC 62.169 60.000 0.00 0.00 0.00 5.03
464 495 2.168666 GAACTTCCCTCCCGTTCGCT 62.169 60.000 0.00 0.00 0.00 4.93
465 496 1.740664 GAACTTCCCTCCCGTTCGC 60.741 63.158 0.00 0.00 0.00 4.70
466 497 1.079336 GGAACTTCCCTCCCGTTCG 60.079 63.158 0.00 0.00 38.27 3.95
467 498 0.249676 GAGGAACTTCCCTCCCGTTC 59.750 60.000 4.01 0.00 45.44 3.95
468 499 2.373921 GAGGAACTTCCCTCCCGTT 58.626 57.895 4.01 0.00 45.44 4.44
486 517 2.051345 GTTTGCCACGAACAGCCG 60.051 61.111 0.00 0.00 0.00 5.52
537 575 1.134788 TCCCCGCTTCGATTCTTCTTC 60.135 52.381 0.00 0.00 0.00 2.87
539 577 1.123928 ATCCCCGCTTCGATTCTTCT 58.876 50.000 0.00 0.00 0.00 2.85
603 644 0.970937 TCGATCGTTCTCCTTGGGCT 60.971 55.000 15.94 0.00 0.00 5.19
655 696 4.444838 TGGCCCCGATCGACAACG 62.445 66.667 18.66 0.00 41.26 4.10
656 697 2.818274 GTGGCCCCGATCGACAAC 60.818 66.667 18.66 5.60 0.00 3.32
657 698 4.444838 CGTGGCCCCGATCGACAA 62.445 66.667 18.66 0.00 0.00 3.18
761 829 0.749454 AGCCGTGCTTGGATGGATTC 60.749 55.000 4.53 0.00 33.89 2.52
855 943 0.942252 GGCCCGCGTTTATAAAGGAG 59.058 55.000 19.43 16.04 0.00 3.69
900 988 0.104304 GTGTCTGAACCCGTGTGAGT 59.896 55.000 0.00 0.00 0.00 3.41
910 998 1.687494 GCGAGGCGATGTGTCTGAAC 61.687 60.000 0.00 0.00 27.59 3.18
915 1003 2.583593 GAGGCGAGGCGATGTGTC 60.584 66.667 0.00 0.00 0.00 3.67
916 1004 4.498520 CGAGGCGAGGCGATGTGT 62.499 66.667 0.00 0.00 0.00 3.72
1008 1097 2.725312 GCTGAGGATGGTGGCGAGA 61.725 63.158 0.00 0.00 0.00 4.04
1497 1599 2.114411 GACTTGGGTTTGGCGGGA 59.886 61.111 0.00 0.00 0.00 5.14
1506 1611 1.371558 GCTCGTCTTGGACTTGGGT 59.628 57.895 0.00 0.00 0.00 4.51
1517 1622 4.635925 CGGATAATGCGCTCGTCT 57.364 55.556 9.73 0.00 0.00 4.18
1545 1650 0.472471 AAGTCTTCTTGTTGGCCGGA 59.528 50.000 5.05 0.00 32.09 5.14
1553 1667 1.069204 TCTGCTGCGAAGTCTTCTTGT 59.931 47.619 10.81 0.00 33.64 3.16
1563 1677 2.359107 CCCTGCTTCTGCTGCGAA 60.359 61.111 0.00 1.07 40.48 4.70
1706 1837 1.751927 CGGTAGGGCAGGTACGACT 60.752 63.158 0.00 0.00 0.00 4.18
1782 1913 3.055530 GGATGGGATGTGATGGCTAGTAG 60.056 52.174 0.00 0.00 0.00 2.57
1792 1938 1.308128 AGCAGGGGATGGGATGTGA 60.308 57.895 0.00 0.00 0.00 3.58
1793 1939 1.150081 GAGCAGGGGATGGGATGTG 59.850 63.158 0.00 0.00 0.00 3.21
1794 1940 2.081161 GGAGCAGGGGATGGGATGT 61.081 63.158 0.00 0.00 0.00 3.06
1795 1941 2.842058 GGAGCAGGGGATGGGATG 59.158 66.667 0.00 0.00 0.00 3.51
1796 1942 2.851102 CGGAGCAGGGGATGGGAT 60.851 66.667 0.00 0.00 0.00 3.85
1851 1998 7.268447 GGAATCTGACAAAAGAACGAATTAACG 59.732 37.037 0.00 0.00 39.31 3.18
1907 2054 0.034896 ACCAACGAGAACCAGCGATT 59.965 50.000 0.00 0.00 0.00 3.34
1909 2056 1.300620 CACCAACGAGAACCAGCGA 60.301 57.895 0.00 0.00 0.00 4.93
1910 2057 1.594293 ACACCAACGAGAACCAGCG 60.594 57.895 0.00 0.00 0.00 5.18
1920 2067 6.137926 CGCGATTTTATATTTACACACCAACG 59.862 38.462 0.00 0.00 0.00 4.10
1983 2130 4.614946 CAGTAAACTATAGGGTACGTGCC 58.385 47.826 15.14 15.14 0.00 5.01
1989 2136 7.051623 CACAATTGGCAGTAAACTATAGGGTA 58.948 38.462 10.83 0.00 0.00 3.69
2008 2155 8.408043 TTTACAAGACAGATGGATTCACAATT 57.592 30.769 0.00 0.00 0.00 2.32
2062 2214 7.246171 ACTGATGACTAATCTACACCAAACT 57.754 36.000 0.00 0.00 36.15 2.66
2132 2288 4.061596 CAGAGTCCAGAAAGGTCAGTTTC 58.938 47.826 0.00 0.00 39.02 2.78
2136 2292 3.323403 AGTTCAGAGTCCAGAAAGGTCAG 59.677 47.826 0.00 0.00 39.02 3.51
2168 2324 3.736100 CACGGAAATGCAGCGCCA 61.736 61.111 2.29 0.00 0.00 5.69
2170 2326 2.202349 GACACGGAAATGCAGCGC 60.202 61.111 0.00 0.00 0.00 5.92
2236 2400 4.201980 GGGAATAACAAACTGCGGTAATCC 60.202 45.833 0.00 0.00 0.00 3.01
2262 2426 0.756903 ACTCGCCAACTTGTACTGGT 59.243 50.000 0.00 0.00 34.97 4.00
2315 2479 1.337118 TCCATGGCTGTTTTCCAACC 58.663 50.000 6.96 0.00 37.13 3.77
2318 2482 2.562298 GTCAATCCATGGCTGTTTTCCA 59.438 45.455 6.96 0.00 38.09 3.53
2321 2485 1.545582 CGGTCAATCCATGGCTGTTTT 59.454 47.619 6.96 0.00 35.19 2.43
2342 2506 1.885887 CGCAAATCCTTTGACCCAGAA 59.114 47.619 3.87 0.00 43.26 3.02
2345 2509 1.698506 AACGCAAATCCTTTGACCCA 58.301 45.000 3.87 0.00 43.26 4.51
2354 2538 0.811281 CCTCCCTCAAACGCAAATCC 59.189 55.000 0.00 0.00 0.00 3.01
2361 2545 1.471676 CGGAATCTCCTCCCTCAAACG 60.472 57.143 0.00 0.00 33.30 3.60
2385 2569 1.153823 CAGCCACCTACTTCGGACG 60.154 63.158 0.00 0.00 0.00 4.79
2386 2570 1.448013 GCAGCCACCTACTTCGGAC 60.448 63.158 0.00 0.00 0.00 4.79
2387 2571 2.978824 GCAGCCACCTACTTCGGA 59.021 61.111 0.00 0.00 0.00 4.55
2388 2572 2.509336 CGCAGCCACCTACTTCGG 60.509 66.667 0.00 0.00 0.00 4.30
2389 2573 1.517257 CTCGCAGCCACCTACTTCG 60.517 63.158 0.00 0.00 0.00 3.79
2395 2579 0.839946 ATATTTCCTCGCAGCCACCT 59.160 50.000 0.00 0.00 0.00 4.00
2413 2601 1.671054 CTCGTGCAACCCGTGGAAT 60.671 57.895 0.00 0.00 0.00 3.01
2505 2693 6.806739 CCGCGTTTTGATACATAGATAGATGA 59.193 38.462 4.92 0.00 0.00 2.92
2512 2700 4.112716 TGACCGCGTTTTGATACATAGA 57.887 40.909 4.92 0.00 0.00 1.98
2513 2701 4.260212 CCTTGACCGCGTTTTGATACATAG 60.260 45.833 4.92 0.00 0.00 2.23
2521 2710 0.656205 CGAACCTTGACCGCGTTTTG 60.656 55.000 4.92 0.00 0.00 2.44
2549 2739 3.619233 ACCGTTGATAAACAAGTGCAC 57.381 42.857 9.40 9.40 39.30 4.57
2603 2794 6.365518 GGAAAAGTACCACGTTCTAGAAGAAG 59.634 42.308 5.12 3.30 34.42 2.85
2631 2822 1.999346 CCCTCTCGGGTTCCCAAAT 59.001 57.895 8.70 0.00 46.12 2.32
2647 2838 3.086600 CTCCCCAGTCCTCTGCCC 61.087 72.222 0.00 0.00 40.09 5.36
2648 2839 2.284995 ACTCCCCAGTCCTCTGCC 60.285 66.667 0.00 0.00 40.09 4.85
2650 2841 2.055042 CCGACTCCCCAGTCCTCTG 61.055 68.421 0.00 0.00 45.81 3.35
2657 2848 3.935024 TCGATTCCGACTCCCCAG 58.065 61.111 0.00 0.00 40.30 4.45
2674 2865 1.675641 GCAAATCAGCCTGGTCGGT 60.676 57.895 0.00 0.00 34.25 4.69
2676 2867 1.293924 CTAGCAAATCAGCCTGGTCG 58.706 55.000 0.00 0.00 34.23 4.79
2678 2869 1.630369 TGACTAGCAAATCAGCCTGGT 59.370 47.619 0.00 0.00 34.23 4.00
2679 2870 2.286872 CTGACTAGCAAATCAGCCTGG 58.713 52.381 0.00 0.00 36.22 4.45
2695 2886 3.626680 TAGCTCCGCGTGTGCTGAC 62.627 63.158 24.53 4.24 43.36 3.51
2697 2888 2.882777 CTAGCTCCGCGTGTGCTG 60.883 66.667 24.53 15.14 43.36 4.41
2698 2889 4.135153 CCTAGCTCCGCGTGTGCT 62.135 66.667 21.59 21.59 45.34 4.40
2700 2891 4.135153 AGCCTAGCTCCGCGTGTG 62.135 66.667 4.92 0.00 30.62 3.82
2721 2913 3.162202 TCACGGTTCTACAACGACAAA 57.838 42.857 0.00 0.00 32.68 2.83
2726 2918 7.434307 ACAGATTATAATCACGGTTCTACAACG 59.566 37.037 24.00 0.00 37.89 4.10
2727 2919 8.644318 ACAGATTATAATCACGGTTCTACAAC 57.356 34.615 24.00 0.00 37.89 3.32
2728 2920 7.646526 CGACAGATTATAATCACGGTTCTACAA 59.353 37.037 24.00 0.00 37.89 2.41
2730 2922 7.113124 CACGACAGATTATAATCACGGTTCTAC 59.887 40.741 26.68 13.04 37.89 2.59
2731 2923 7.012610 TCACGACAGATTATAATCACGGTTCTA 59.987 37.037 26.68 14.26 37.89 2.10
2732 2924 5.977725 CACGACAGATTATAATCACGGTTCT 59.022 40.000 26.68 14.03 37.89 3.01
2733 2925 5.975344 TCACGACAGATTATAATCACGGTTC 59.025 40.000 26.68 16.17 37.89 3.62
2734 2926 5.898174 TCACGACAGATTATAATCACGGTT 58.102 37.500 26.68 14.70 37.89 4.44
2736 2928 8.689251 ATTATCACGACAGATTATAATCACGG 57.311 34.615 26.68 19.05 37.89 4.94
2743 2935 9.665264 GCGATGATATTATCACGACAGATTATA 57.335 33.333 21.85 0.00 43.01 0.98
2744 2936 8.190784 TGCGATGATATTATCACGACAGATTAT 58.809 33.333 21.85 2.33 43.01 1.28
2745 2937 7.535139 TGCGATGATATTATCACGACAGATTA 58.465 34.615 21.85 0.00 43.01 1.75
2746 2938 6.389906 TGCGATGATATTATCACGACAGATT 58.610 36.000 21.85 3.45 43.01 2.40
2747 2939 5.954335 TGCGATGATATTATCACGACAGAT 58.046 37.500 21.85 4.02 43.01 2.90
2748 2940 5.371115 TGCGATGATATTATCACGACAGA 57.629 39.130 21.85 8.22 43.01 3.41
2749 2941 7.740519 TTATGCGATGATATTATCACGACAG 57.259 36.000 21.85 10.04 43.01 3.51
2750 2942 7.973388 TCATTATGCGATGATATTATCACGACA 59.027 33.333 21.85 19.15 43.01 4.35
2751 2943 8.340230 TCATTATGCGATGATATTATCACGAC 57.660 34.615 21.85 16.20 43.01 4.34
2752 2944 8.925161 TTCATTATGCGATGATATTATCACGA 57.075 30.769 21.85 12.97 43.01 4.35
2753 2945 9.577003 CATTCATTATGCGATGATATTATCACG 57.423 33.333 8.51 13.89 43.01 4.35
2754 2946 9.874215 CCATTCATTATGCGATGATATTATCAC 57.126 33.333 8.51 0.00 36.09 3.06
2755 2947 9.617523 ACCATTCATTATGCGATGATATTATCA 57.382 29.630 8.76 8.76 36.05 2.15
2756 2948 9.874215 CACCATTCATTATGCGATGATATTATC 57.126 33.333 9.03 0.00 36.05 1.75
2757 2949 9.399797 ACACCATTCATTATGCGATGATATTAT 57.600 29.630 9.03 0.00 36.05 1.28
2758 2950 8.791327 ACACCATTCATTATGCGATGATATTA 57.209 30.769 9.03 0.00 36.05 0.98
2759 2951 7.692460 ACACCATTCATTATGCGATGATATT 57.308 32.000 9.03 0.00 36.05 1.28
2760 2952 8.791327 TTACACCATTCATTATGCGATGATAT 57.209 30.769 9.03 0.00 36.05 1.63
2761 2953 8.791327 ATTACACCATTCATTATGCGATGATA 57.209 30.769 9.03 0.00 36.05 2.15
2762 2954 7.692460 ATTACACCATTCATTATGCGATGAT 57.308 32.000 9.03 0.00 36.05 2.45
2763 2955 7.445096 AGAATTACACCATTCATTATGCGATGA 59.555 33.333 9.03 0.00 35.85 2.92
2764 2956 7.536281 CAGAATTACACCATTCATTATGCGATG 59.464 37.037 0.00 0.00 35.85 3.84
2765 2957 7.587629 CAGAATTACACCATTCATTATGCGAT 58.412 34.615 0.00 0.00 35.85 4.58
2766 2958 6.513230 GCAGAATTACACCATTCATTATGCGA 60.513 38.462 0.00 0.00 35.85 5.10
2767 2959 5.626543 GCAGAATTACACCATTCATTATGCG 59.373 40.000 0.00 0.00 35.85 4.73
2768 2960 6.742109 AGCAGAATTACACCATTCATTATGC 58.258 36.000 2.83 2.83 35.85 3.14
2769 2961 7.230108 AGGAGCAGAATTACACCATTCATTATG 59.770 37.037 0.00 0.00 35.85 1.90
2770 2962 7.230108 CAGGAGCAGAATTACACCATTCATTAT 59.770 37.037 0.00 0.00 35.85 1.28
2771 2963 6.543465 CAGGAGCAGAATTACACCATTCATTA 59.457 38.462 0.00 0.00 35.85 1.90
2772 2964 5.359009 CAGGAGCAGAATTACACCATTCATT 59.641 40.000 0.00 0.00 35.85 2.57
2773 2965 4.885907 CAGGAGCAGAATTACACCATTCAT 59.114 41.667 0.00 0.00 35.85 2.57
2774 2966 4.264253 CAGGAGCAGAATTACACCATTCA 58.736 43.478 0.00 0.00 35.85 2.57
2775 2967 3.065925 GCAGGAGCAGAATTACACCATTC 59.934 47.826 0.00 0.00 41.58 2.67
2776 2968 3.019564 GCAGGAGCAGAATTACACCATT 58.980 45.455 0.00 0.00 41.58 3.16
2777 2969 2.648059 GCAGGAGCAGAATTACACCAT 58.352 47.619 0.00 0.00 41.58 3.55
2778 2970 2.113860 GCAGGAGCAGAATTACACCA 57.886 50.000 0.00 0.00 41.58 4.17
2790 2982 1.080995 GTGAGACGTGATGCAGGAGC 61.081 60.000 0.00 0.00 42.57 4.70
2791 2983 0.799917 CGTGAGACGTGATGCAGGAG 60.800 60.000 0.00 0.00 36.74 3.69
2792 2984 1.212751 CGTGAGACGTGATGCAGGA 59.787 57.895 0.00 0.00 36.74 3.86
2793 2985 3.772636 CGTGAGACGTGATGCAGG 58.227 61.111 0.00 0.00 36.74 4.85
2803 2995 2.086054 AGCTTGATTCCACGTGAGAC 57.914 50.000 19.30 6.11 0.00 3.36
2804 2996 2.417379 GCTAGCTTGATTCCACGTGAGA 60.417 50.000 19.30 9.99 0.00 3.27
2805 2997 1.929836 GCTAGCTTGATTCCACGTGAG 59.070 52.381 19.30 6.19 0.00 3.51
2806 2998 1.275010 TGCTAGCTTGATTCCACGTGA 59.725 47.619 19.30 0.00 0.00 4.35
2807 2999 1.662629 CTGCTAGCTTGATTCCACGTG 59.337 52.381 17.23 9.08 0.00 4.49
2808 3000 2.009042 GCTGCTAGCTTGATTCCACGT 61.009 52.381 17.23 0.00 38.45 4.49
2809 3001 0.654683 GCTGCTAGCTTGATTCCACG 59.345 55.000 17.23 0.00 38.45 4.94
2810 3002 0.654683 CGCTGCTAGCTTGATTCCAC 59.345 55.000 17.23 0.00 39.60 4.02
2811 3003 0.462581 CCGCTGCTAGCTTGATTCCA 60.463 55.000 17.23 0.00 39.60 3.53
2812 3004 0.179073 TCCGCTGCTAGCTTGATTCC 60.179 55.000 17.23 0.00 39.60 3.01
2813 3005 1.328986 GTTCCGCTGCTAGCTTGATTC 59.671 52.381 17.23 0.00 39.60 2.52
2814 3006 1.339055 TGTTCCGCTGCTAGCTTGATT 60.339 47.619 17.23 0.00 39.60 2.57
2815 3007 0.250234 TGTTCCGCTGCTAGCTTGAT 59.750 50.000 17.23 0.00 39.60 2.57
2816 3008 0.390340 CTGTTCCGCTGCTAGCTTGA 60.390 55.000 17.23 4.20 39.60 3.02
2817 3009 0.390340 TCTGTTCCGCTGCTAGCTTG 60.390 55.000 17.23 9.97 39.60 4.01
2818 3010 0.108424 CTCTGTTCCGCTGCTAGCTT 60.108 55.000 17.23 0.00 39.60 3.74
2819 3011 0.967887 TCTCTGTTCCGCTGCTAGCT 60.968 55.000 17.23 0.00 39.60 3.32
2820 3012 0.108615 TTCTCTGTTCCGCTGCTAGC 60.109 55.000 8.10 8.10 38.02 3.42
2821 3013 1.634702 GTTCTCTGTTCCGCTGCTAG 58.365 55.000 0.00 0.00 0.00 3.42
2822 3014 0.246635 GGTTCTCTGTTCCGCTGCTA 59.753 55.000 0.00 0.00 0.00 3.49
2823 3015 1.004440 GGTTCTCTGTTCCGCTGCT 60.004 57.895 0.00 0.00 0.00 4.24
2824 3016 0.884704 TTGGTTCTCTGTTCCGCTGC 60.885 55.000 0.00 0.00 0.00 5.25
2825 3017 1.813513 ATTGGTTCTCTGTTCCGCTG 58.186 50.000 0.00 0.00 0.00 5.18


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

AutoCloner maintained by Alex Coulton.