Multiple sequence alignment - TraesCS2B01G534600

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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 TraesCS2B01G534600 chr2B 100.000 4977 0 0 1 4977 730853087 730848111 0.000000e+00 9191.0
1 TraesCS2B01G534600 chr2A 93.721 3042 121 27 1444 4442 734151615 734148601 0.000000e+00 4495.0
2 TraesCS2B01G534600 chr2A 87.112 1451 94 37 1 1383 734153053 734151628 0.000000e+00 1557.0
3 TraesCS2B01G534600 chr2A 92.308 221 12 4 4684 4899 734148333 734148113 4.840000e-80 309.0
4 TraesCS2B01G534600 chr2D 93.765 2903 104 36 1750 4598 600760228 600757349 0.000000e+00 4287.0
5 TraesCS2B01G534600 chr2D 90.030 1344 69 21 1 1294 600762077 600760749 0.000000e+00 1679.0
6 TraesCS2B01G534600 chr2D 90.572 297 22 5 1444 1737 600760693 600760400 6.040000e-104 388.0
7 TraesCS2B01G534600 chr2D 91.139 79 6 1 4899 4977 112927001 112927078 6.810000e-19 106.0
8 TraesCS2B01G534600 chr2D 91.935 62 4 1 4916 4977 636409808 636409868 8.880000e-13 86.1
9 TraesCS2B01G534600 chr7B 80.556 144 17 7 1941 2078 246032688 246032550 3.170000e-17 100.0
10 TraesCS2B01G534600 chr5B 90.323 62 5 1 4916 4977 635616798 635616738 4.130000e-11 80.5


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 TraesCS2B01G534600 chr2B 730848111 730853087 4976 True 9191.000000 9191 100.000000 1 4977 1 chr2B.!!$R1 4976
1 TraesCS2B01G534600 chr2A 734148113 734153053 4940 True 2120.333333 4495 91.047000 1 4899 3 chr2A.!!$R1 4898
2 TraesCS2B01G534600 chr2D 600757349 600762077 4728 True 2118.000000 4287 91.455667 1 4598 3 chr2D.!!$R1 4597

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
519 557 0.028242 CGCCGACAGCTACTCAGTAG 59.972 60.0 7.56 7.56 40.39 2.57 F
840 904 0.106519 AAACTTGACCTGGTGCAGCT 60.107 50.0 18.08 0.00 0.00 4.24 F
844 908 0.111061 TTGACCTGGTGCAGCTTGAT 59.889 50.0 18.08 0.00 0.00 2.57 F
1565 1649 0.246635 AACACCGTTAGCTGAGCGAT 59.753 50.0 0.00 0.00 0.00 4.58 F
2559 2813 0.921896 AGCATGTGGGAGGCTATTGT 59.078 50.0 0.00 0.00 40.84 2.71 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1324 1406 0.550914 TGCCAAAGGTCTCCAAGTGT 59.449 50.000 0.00 0.0 0.00 3.55 R
2559 2813 0.660488 CGTTAACACTGCAAGCCACA 59.340 50.000 6.39 0.0 37.60 4.17 R
2599 2853 4.227300 TCAATGGCATTAACCAGGTACTCT 59.773 41.667 13.23 0.0 44.71 3.24 R
2959 3215 1.883678 TGAATCAGATGCTCCCTGGA 58.116 50.000 0.00 0.0 32.73 3.86 R
4510 4831 0.032540 GCACACAGGAGGGCAAAAAG 59.967 55.000 0.00 0.0 0.00 2.27 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
18 19 2.732016 CGTTCCCACCACGACTGA 59.268 61.111 0.00 0.00 40.20 3.41
27 28 0.106149 ACCACGACTGACTTTGACCC 59.894 55.000 0.00 0.00 0.00 4.46
35 36 0.193574 TGACTTTGACCCCCTCCTCT 59.806 55.000 0.00 0.00 0.00 3.69
113 127 2.758089 GCCTGCTGTTGCTGATCCG 61.758 63.158 0.00 0.00 40.01 4.18
225 255 3.865745 GGTCGACGCAACTAGTAGTAGTA 59.134 47.826 10.68 0.00 38.66 1.82
226 256 4.026145 GGTCGACGCAACTAGTAGTAGTAG 60.026 50.000 10.68 10.04 38.66 2.57
227 257 4.564769 GTCGACGCAACTAGTAGTAGTAGT 59.435 45.833 10.68 11.28 38.66 2.73
334 372 1.482593 CCTCCTCGGAGCACAATTACT 59.517 52.381 7.46 0.00 40.69 2.24
338 376 0.459585 TCGGAGCACAATTACTCGCC 60.460 55.000 0.00 0.00 33.55 5.54
340 378 1.668419 GGAGCACAATTACTCGCCAT 58.332 50.000 0.00 0.00 33.55 4.40
341 379 1.599542 GGAGCACAATTACTCGCCATC 59.400 52.381 0.00 0.00 33.55 3.51
342 380 2.555199 GAGCACAATTACTCGCCATCT 58.445 47.619 0.00 0.00 0.00 2.90
343 381 2.939103 GAGCACAATTACTCGCCATCTT 59.061 45.455 0.00 0.00 0.00 2.40
347 385 2.505819 ACAATTACTCGCCATCTTCCCT 59.494 45.455 0.00 0.00 0.00 4.20
348 386 3.134458 CAATTACTCGCCATCTTCCCTC 58.866 50.000 0.00 0.00 0.00 4.30
349 387 1.120530 TTACTCGCCATCTTCCCTCC 58.879 55.000 0.00 0.00 0.00 4.30
350 388 0.759436 TACTCGCCATCTTCCCTCCC 60.759 60.000 0.00 0.00 0.00 4.30
351 389 2.768344 TCGCCATCTTCCCTCCCC 60.768 66.667 0.00 0.00 0.00 4.81
352 390 3.878667 CGCCATCTTCCCTCCCCC 61.879 72.222 0.00 0.00 0.00 5.40
391 429 3.636231 TGCCAGGCTAACCGCACT 61.636 61.111 14.15 0.00 42.76 4.40
396 434 0.179108 CAGGCTAACCGCACTAGGAC 60.179 60.000 0.00 0.00 42.76 3.85
397 435 0.324460 AGGCTAACCGCACTAGGACT 60.324 55.000 0.00 0.00 42.76 3.85
414 452 3.792053 CTCCGAGATTTCCCCGGCG 62.792 68.421 0.00 0.00 42.70 6.46
473 511 1.460273 GCCTCTGATCTCTCCCCGAC 61.460 65.000 0.00 0.00 0.00 4.79
478 516 3.735251 GATCTCTCCCCGACCCCGT 62.735 68.421 0.00 0.00 0.00 5.28
519 557 0.028242 CGCCGACAGCTACTCAGTAG 59.972 60.000 7.56 7.56 40.39 2.57
579 622 1.272704 GCCTGGATTGGGTTCTTCCTT 60.273 52.381 0.00 0.00 36.25 3.36
592 638 2.743553 TCTTCCTTCGTAGGTAAGGGG 58.256 52.381 8.06 0.00 43.20 4.79
595 641 2.460669 TCCTTCGTAGGTAAGGGGAAC 58.539 52.381 8.06 0.00 43.20 3.62
596 642 2.181975 CCTTCGTAGGTAAGGGGAACA 58.818 52.381 0.00 0.00 39.94 3.18
597 643 2.167900 CCTTCGTAGGTAAGGGGAACAG 59.832 54.545 0.00 0.00 39.94 3.16
598 644 1.188863 TCGTAGGTAAGGGGAACAGC 58.811 55.000 0.00 0.00 0.00 4.40
599 645 1.192428 CGTAGGTAAGGGGAACAGCT 58.808 55.000 0.00 0.00 0.00 4.24
647 706 2.369394 GGATTGATTCCTCGGTTTGCT 58.631 47.619 0.00 0.00 41.78 3.91
653 712 3.726517 CCTCGGTTTGCTGTGGCG 61.727 66.667 0.00 0.00 42.25 5.69
686 746 5.360144 TCGAGATCCGAATAGTTCTTTTCCT 59.640 40.000 4.13 0.00 45.43 3.36
692 752 6.531021 TCCGAATAGTTCTTTTCCTCAGTTT 58.469 36.000 0.00 0.00 0.00 2.66
694 754 8.152246 TCCGAATAGTTCTTTTCCTCAGTTTAA 58.848 33.333 0.00 0.00 0.00 1.52
701 761 8.050930 AGTTCTTTTCCTCAGTTTAACCAGTTA 58.949 33.333 0.00 0.00 0.00 2.24
723 786 2.397549 CGATCTGATTGCTGCATCGTA 58.602 47.619 1.84 0.00 33.29 3.43
731 794 2.176273 GCTGCATCGTACCCTGCTG 61.176 63.158 13.62 13.59 39.16 4.41
756 819 4.715520 CGATCATAGTTCAATCGGGTTG 57.284 45.455 0.00 0.00 38.82 3.77
837 901 0.179234 TCGAAACTTGACCTGGTGCA 59.821 50.000 2.82 0.00 0.00 4.57
838 902 0.588252 CGAAACTTGACCTGGTGCAG 59.412 55.000 2.82 1.75 0.00 4.41
840 904 0.106519 AAACTTGACCTGGTGCAGCT 60.107 50.000 18.08 0.00 0.00 4.24
841 905 0.106519 AACTTGACCTGGTGCAGCTT 60.107 50.000 18.08 0.86 0.00 3.74
842 906 0.820891 ACTTGACCTGGTGCAGCTTG 60.821 55.000 18.08 10.37 0.00 4.01
843 907 0.535780 CTTGACCTGGTGCAGCTTGA 60.536 55.000 18.08 0.00 0.00 3.02
844 908 0.111061 TTGACCTGGTGCAGCTTGAT 59.889 50.000 18.08 0.00 0.00 2.57
893 970 1.040893 TATCCCACGTCATGTCCGCT 61.041 55.000 7.31 0.00 0.00 5.52
908 985 2.127232 GCTGCTTTGACGCGGAAC 60.127 61.111 12.47 1.68 38.57 3.62
932 1012 2.325393 ATCGAATTCCCACCGGCCTC 62.325 60.000 0.00 0.00 0.00 4.70
1054 1134 1.534729 AAAGGCAAACGTCCTGGATC 58.465 50.000 0.00 0.00 33.43 3.36
1200 1280 1.586564 CCCTGCGACGATCGTTCTC 60.587 63.158 23.63 14.35 42.81 2.87
1280 1362 6.128499 TGTGGCGCGTTAATTTATATATCACC 60.128 38.462 8.43 0.00 0.00 4.02
1300 1382 3.632145 ACCAGTTGTAGGCTTTTTCACTG 59.368 43.478 0.00 0.00 0.00 3.66
1301 1383 3.882888 CCAGTTGTAGGCTTTTTCACTGA 59.117 43.478 0.00 0.00 0.00 3.41
1304 1386 5.973565 CAGTTGTAGGCTTTTTCACTGAAAG 59.026 40.000 4.43 0.00 42.29 2.62
1328 1410 9.569122 AAGTAATAATTGTAAGTCAACCACACT 57.431 29.630 0.00 0.00 38.97 3.55
1346 1428 1.215423 ACTTGGAGACCTTTGGCAAGT 59.785 47.619 0.00 0.00 31.08 3.16
1362 1444 3.944015 GGCAAGTGCTGATGATCTTACTT 59.056 43.478 2.85 0.00 41.70 2.24
1366 1448 6.019156 GCAAGTGCTGATGATCTTACTTACTC 60.019 42.308 8.42 1.37 38.21 2.59
1409 1491 7.498239 AGGAGTAGTTTGTTCAGTAGTTTTTCC 59.502 37.037 0.00 0.00 0.00 3.13
1410 1492 7.498239 GGAGTAGTTTGTTCAGTAGTTTTTCCT 59.502 37.037 0.00 0.00 0.00 3.36
1411 1493 9.538508 GAGTAGTTTGTTCAGTAGTTTTTCCTA 57.461 33.333 0.00 0.00 0.00 2.94
1414 1496 7.649057 AGTTTGTTCAGTAGTTTTTCCTATGC 58.351 34.615 0.00 0.00 0.00 3.14
1415 1497 7.502561 AGTTTGTTCAGTAGTTTTTCCTATGCT 59.497 33.333 0.00 0.00 0.00 3.79
1416 1498 6.801539 TGTTCAGTAGTTTTTCCTATGCTG 57.198 37.500 0.00 0.00 0.00 4.41
1417 1499 6.296026 TGTTCAGTAGTTTTTCCTATGCTGT 58.704 36.000 0.00 0.00 0.00 4.40
1418 1500 7.446769 TGTTCAGTAGTTTTTCCTATGCTGTA 58.553 34.615 0.00 0.00 0.00 2.74
1419 1501 7.934665 TGTTCAGTAGTTTTTCCTATGCTGTAA 59.065 33.333 0.00 0.00 0.00 2.41
1420 1502 8.947115 GTTCAGTAGTTTTTCCTATGCTGTAAT 58.053 33.333 0.00 0.00 0.00 1.89
1448 1530 9.527157 TTTCATCATAAAATTAGGTCCAGTTCA 57.473 29.630 0.00 0.00 0.00 3.18
1449 1531 9.527157 TTCATCATAAAATTAGGTCCAGTTCAA 57.473 29.630 0.00 0.00 0.00 2.69
1450 1532 9.527157 TCATCATAAAATTAGGTCCAGTTCAAA 57.473 29.630 0.00 0.00 0.00 2.69
1468 1550 6.260271 AGTTCAAAGCAGGTTTAAGTACAGAC 59.740 38.462 0.00 0.00 0.00 3.51
1472 1554 5.148651 AGCAGGTTTAAGTACAGACGATT 57.851 39.130 0.00 0.00 0.00 3.34
1479 1561 6.308282 GGTTTAAGTACAGACGATTCAGTGAG 59.692 42.308 0.00 0.00 0.00 3.51
1504 1588 9.182214 AGTGCTGACATTGTTTATATTTCATCT 57.818 29.630 0.00 0.00 0.00 2.90
1564 1648 0.883153 TAACACCGTTAGCTGAGCGA 59.117 50.000 0.00 0.00 0.00 4.93
1565 1649 0.246635 AACACCGTTAGCTGAGCGAT 59.753 50.000 0.00 0.00 0.00 4.58
1605 1689 6.308566 AGTGAGTTACCAGACTCTCTACTTT 58.691 40.000 7.58 0.00 44.33 2.66
1614 1698 4.688413 CAGACTCTCTACTTTGTTTCCTGC 59.312 45.833 0.00 0.00 0.00 4.85
1646 1730 7.771927 AAAATCTGACATCATTTCCTGTTCT 57.228 32.000 0.00 0.00 0.00 3.01
1647 1731 6.998968 AATCTGACATCATTTCCTGTTCTC 57.001 37.500 0.00 0.00 0.00 2.87
1802 2053 4.421365 GGCCTTCTGAATGCCACA 57.579 55.556 25.65 0.00 44.70 4.17
1826 2077 5.988310 TTGGAAATGCAACTGAGATGATT 57.012 34.783 0.00 0.00 0.00 2.57
1955 2206 4.216257 GCTGGTGGTATTATTCATCGCAAT 59.784 41.667 0.00 0.00 0.00 3.56
2002 2253 7.440856 GGTGATGTTTGTGTGGTTGATTTTATT 59.559 33.333 0.00 0.00 0.00 1.40
2559 2813 0.921896 AGCATGTGGGAGGCTATTGT 59.078 50.000 0.00 0.00 40.84 2.71
2599 2853 5.989477 ACGATATGGATTTCTGTCCTTTCA 58.011 37.500 0.00 0.00 39.12 2.69
2637 2891 6.916360 TGCCATTGAGGTATTTTCTTTCTT 57.084 33.333 0.00 0.00 40.61 2.52
2781 3036 4.009675 GTGTCAGGGAAAATGTGCATCTA 58.990 43.478 0.00 0.00 0.00 1.98
2789 3044 7.063780 CAGGGAAAATGTGCATCTACAATTTTC 59.936 37.037 15.09 15.09 34.70 2.29
2872 3128 5.291614 GCGTGCATGTTTTATCAATTGGAAT 59.708 36.000 7.93 0.00 0.00 3.01
2894 3150 6.597832 ATGGAGAGAGTACCAATATAGTGC 57.402 41.667 0.00 0.00 39.69 4.40
2959 3215 9.880157 ATTGATTATTGTTTTGCTCTATTGCTT 57.120 25.926 0.00 0.00 0.00 3.91
3123 3381 0.973632 GCCGATGTTTTTCCCCCTTT 59.026 50.000 0.00 0.00 0.00 3.11
3236 3494 7.714377 TCAATGTTTGTGGTAATGCTTTTGAAT 59.286 29.630 0.00 0.00 0.00 2.57
3355 3614 6.743575 ATGTTAAATGTTCTACTGGTCTGC 57.256 37.500 0.00 0.00 0.00 4.26
3421 3680 2.610833 TGCGCATCATGTCTGATTTCTC 59.389 45.455 5.66 0.00 40.20 2.87
3600 3860 7.071572 AGGTAAGTTCTTAAGTGGTACCAAGAA 59.928 37.037 18.31 18.56 35.28 2.52
3631 3891 6.015095 TGGTTAAACATAAACATGCATGGTGA 60.015 34.615 29.41 18.56 0.00 4.02
3640 3900 3.359033 ACATGCATGGTGAGCTTGTAAT 58.641 40.909 29.41 1.63 45.06 1.89
3661 3921 3.815809 TGTGTTTTGTACTCCTTGAGGG 58.184 45.455 0.00 0.00 33.35 4.30
3678 3961 5.450818 TGAGGGCATATTTCTAGTTGGTT 57.549 39.130 0.00 0.00 0.00 3.67
3709 3992 3.347216 TCCATCTTGGTAAAGCTTCAGC 58.653 45.455 0.00 0.00 39.03 4.26
3863 4147 1.591619 GTAAGCACTAATTCGTCGGCC 59.408 52.381 0.00 0.00 0.00 6.13
3939 4240 7.172868 TGAATATGGAATGAACATGCAAGTT 57.827 32.000 7.09 7.09 0.00 2.66
3949 4250 2.380660 ACATGCAAGTTTTAACGCACG 58.619 42.857 0.00 0.00 37.17 5.34
3988 4289 0.960364 ATGATTGACGCCACCACCAC 60.960 55.000 0.00 0.00 0.00 4.16
3995 4296 4.388499 GCCACCACCACCGACGAT 62.388 66.667 0.00 0.00 0.00 3.73
4032 4333 2.310647 ACCAAAATACCCCCGATGACTT 59.689 45.455 0.00 0.00 0.00 3.01
4144 4445 0.458543 ACACCAGATCATCGTGCGTC 60.459 55.000 0.00 0.00 0.00 5.19
4176 4478 1.303317 CTAAACTGCTGCGGGGGTT 60.303 57.895 13.87 6.50 0.00 4.11
4294 4605 2.420129 CCGCCCTAAGTCTGCTGTATTT 60.420 50.000 0.00 0.00 0.00 1.40
4411 4732 2.162408 TGCATAGACAGACAGACTCACG 59.838 50.000 0.00 0.00 0.00 4.35
4446 4767 8.746052 ATATTGAGACGGACCAATTTTTATGA 57.254 30.769 0.00 0.00 35.02 2.15
4510 4831 3.074412 CCTATTGTGTGTGACCTTGGAC 58.926 50.000 0.00 0.00 0.00 4.02
4514 4835 3.080300 TGTGTGTGACCTTGGACTTTT 57.920 42.857 0.00 0.00 0.00 2.27
4516 4837 3.192422 TGTGTGTGACCTTGGACTTTTTG 59.808 43.478 0.00 0.00 0.00 2.44
4542 4867 4.641645 TGTGCCGCCCAGTGAAGG 62.642 66.667 0.00 0.00 0.00 3.46
4549 4874 1.152963 GCCCAGTGAAGGTGTGTGT 60.153 57.895 0.00 0.00 0.00 3.72
4550 4875 1.447317 GCCCAGTGAAGGTGTGTGTG 61.447 60.000 0.00 0.00 0.00 3.82
4551 4876 0.107214 CCCAGTGAAGGTGTGTGTGT 60.107 55.000 0.00 0.00 0.00 3.72
4553 4878 0.378257 CAGTGAAGGTGTGTGTGTGC 59.622 55.000 0.00 0.00 0.00 4.57
4554 4879 0.253044 AGTGAAGGTGTGTGTGTGCT 59.747 50.000 0.00 0.00 0.00 4.40
4555 4880 0.378257 GTGAAGGTGTGTGTGTGCTG 59.622 55.000 0.00 0.00 0.00 4.41
4556 4881 0.747644 TGAAGGTGTGTGTGTGCTGG 60.748 55.000 0.00 0.00 0.00 4.85
4557 4882 0.748005 GAAGGTGTGTGTGTGCTGGT 60.748 55.000 0.00 0.00 0.00 4.00
4564 4889 0.179076 TGTGTGTGCTGGTCAGTCAG 60.179 55.000 0.00 0.00 37.79 3.51
4567 4892 2.427320 GTGCTGGTCAGTCAGGCA 59.573 61.111 0.00 0.00 35.43 4.75
4568 4893 1.670406 GTGCTGGTCAGTCAGGCAG 60.670 63.158 0.00 0.00 35.43 4.85
4573 4898 2.046507 GTCAGTCAGGCAGCAGGG 60.047 66.667 0.00 0.00 0.00 4.45
4574 4899 3.324930 TCAGTCAGGCAGCAGGGG 61.325 66.667 0.00 0.00 0.00 4.79
4590 4915 2.595655 GGGGACTGTACATGGGCC 59.404 66.667 0.00 0.00 0.00 5.80
4608 4933 3.249189 TCCCACCACAGCCCACTC 61.249 66.667 0.00 0.00 0.00 3.51
4618 4943 1.770110 AGCCCACTCTGTCCCAACA 60.770 57.895 0.00 0.00 0.00 3.33
4619 4944 1.600916 GCCCACTCTGTCCCAACAC 60.601 63.158 0.00 0.00 0.00 3.32
4628 4953 1.405105 CTGTCCCAACACTGTTTGGTG 59.595 52.381 10.96 0.00 44.16 4.17
4637 4962 4.028993 ACACTGTTTGGTGGGTAATAGG 57.971 45.455 0.00 0.00 41.09 2.57
4677 5010 5.221843 TGTTACATGGGTATAAGCAGGATCC 60.222 44.000 2.48 2.48 0.00 3.36
4678 5011 3.326521 ACATGGGTATAAGCAGGATCCA 58.673 45.455 15.82 0.00 0.00 3.41
4723 5110 2.772287 GTTCAAGAACTGCAGGCTACT 58.228 47.619 19.93 8.42 38.25 2.57
4748 5135 4.737598 CGAACACGATAGCAAGTTATTCG 58.262 43.478 0.00 0.00 42.67 3.34
4758 5145 2.222953 GCAAGTTATTCGGGCTACAACG 60.223 50.000 0.00 0.00 0.00 4.10
4769 5156 1.730612 GGCTACAACGCTAGTGAAACC 59.269 52.381 10.99 0.00 37.80 3.27
4805 5192 2.491675 ACCTTGGTTTAGGCTACAGC 57.508 50.000 3.00 3.00 38.99 4.40
4818 5205 2.985896 GCTACAGCCAACCAGATTGTA 58.014 47.619 0.00 0.00 36.47 2.41
4848 5236 3.181440 TGCTTCAGAAGTGAACATCCCTT 60.181 43.478 11.94 0.00 37.79 3.95
4873 5262 5.568685 TTCACAAATGACCGAAACTTTGA 57.431 34.783 0.00 0.00 33.38 2.69
4884 5273 3.202906 CGAAACTTTGAGAACCCAGACA 58.797 45.455 0.00 0.00 0.00 3.41
4899 5288 4.707448 ACCCAGACACAGACTACATCTAAG 59.293 45.833 0.00 0.00 35.15 2.18
4900 5289 4.950475 CCCAGACACAGACTACATCTAAGA 59.050 45.833 0.00 0.00 35.15 2.10
4901 5290 5.067153 CCCAGACACAGACTACATCTAAGAG 59.933 48.000 0.00 0.00 35.15 2.85
4902 5291 5.449862 CCAGACACAGACTACATCTAAGAGC 60.450 48.000 0.00 0.00 35.15 4.09
4903 5292 5.124617 CAGACACAGACTACATCTAAGAGCA 59.875 44.000 0.00 0.00 35.15 4.26
4904 5293 5.890985 AGACACAGACTACATCTAAGAGCAT 59.109 40.000 0.00 0.00 35.15 3.79
4905 5294 6.039270 AGACACAGACTACATCTAAGAGCATC 59.961 42.308 0.00 0.00 35.15 3.91
4906 5295 5.654209 ACACAGACTACATCTAAGAGCATCA 59.346 40.000 0.00 0.00 34.01 3.07
4907 5296 5.976534 CACAGACTACATCTAAGAGCATCAC 59.023 44.000 0.00 0.00 34.01 3.06
4908 5297 5.890985 ACAGACTACATCTAAGAGCATCACT 59.109 40.000 0.00 0.00 34.01 3.41
4909 5298 7.012799 CACAGACTACATCTAAGAGCATCACTA 59.987 40.741 0.00 0.00 34.01 2.74
4910 5299 7.012894 ACAGACTACATCTAAGAGCATCACTAC 59.987 40.741 0.00 0.00 34.01 2.73
4911 5300 7.228507 CAGACTACATCTAAGAGCATCACTACT 59.771 40.741 0.00 0.00 34.01 2.57
4912 5301 8.433599 AGACTACATCTAAGAGCATCACTACTA 58.566 37.037 0.00 0.00 34.01 1.82
4913 5302 8.615878 ACTACATCTAAGAGCATCACTACTAG 57.384 38.462 0.00 0.00 37.82 2.57
4914 5303 8.215050 ACTACATCTAAGAGCATCACTACTAGT 58.785 37.037 0.00 0.00 37.82 2.57
4915 5304 9.713713 CTACATCTAAGAGCATCACTACTAGTA 57.286 37.037 1.89 1.89 37.82 1.82
4916 5305 8.385898 ACATCTAAGAGCATCACTACTAGTAC 57.614 38.462 0.00 0.00 37.82 2.73
4917 5306 7.446013 ACATCTAAGAGCATCACTACTAGTACC 59.554 40.741 0.00 0.00 37.82 3.34
4918 5307 5.990386 TCTAAGAGCATCACTACTAGTACCG 59.010 44.000 0.00 0.00 37.82 4.02
4919 5308 4.153673 AGAGCATCACTACTAGTACCGT 57.846 45.455 0.00 0.00 37.82 4.83
4920 5309 4.128643 AGAGCATCACTACTAGTACCGTC 58.871 47.826 0.00 0.00 37.82 4.79
4921 5310 3.875727 GAGCATCACTACTAGTACCGTCA 59.124 47.826 0.00 0.00 33.17 4.35
4922 5311 4.267536 AGCATCACTACTAGTACCGTCAA 58.732 43.478 0.00 0.00 0.00 3.18
4923 5312 4.703575 AGCATCACTACTAGTACCGTCAAA 59.296 41.667 0.00 0.00 0.00 2.69
4924 5313 4.797349 GCATCACTACTAGTACCGTCAAAC 59.203 45.833 0.00 0.00 0.00 2.93
4925 5314 5.338365 CATCACTACTAGTACCGTCAAACC 58.662 45.833 0.00 0.00 0.00 3.27
4926 5315 4.655963 TCACTACTAGTACCGTCAAACCT 58.344 43.478 0.00 0.00 0.00 3.50
4927 5316 5.072741 TCACTACTAGTACCGTCAAACCTT 58.927 41.667 0.00 0.00 0.00 3.50
4928 5317 5.536161 TCACTACTAGTACCGTCAAACCTTT 59.464 40.000 0.00 0.00 0.00 3.11
4929 5318 6.714810 TCACTACTAGTACCGTCAAACCTTTA 59.285 38.462 0.00 0.00 0.00 1.85
4930 5319 7.394359 TCACTACTAGTACCGTCAAACCTTTAT 59.606 37.037 0.00 0.00 0.00 1.40
4931 5320 8.677300 CACTACTAGTACCGTCAAACCTTTATA 58.323 37.037 0.00 0.00 0.00 0.98
4932 5321 9.243105 ACTACTAGTACCGTCAAACCTTTATAA 57.757 33.333 0.00 0.00 0.00 0.98
4939 5328 9.853921 GTACCGTCAAACCTTTATAAATAATCG 57.146 33.333 0.00 0.00 0.00 3.34
4940 5329 8.721019 ACCGTCAAACCTTTATAAATAATCGA 57.279 30.769 0.00 0.00 0.00 3.59
4941 5330 9.333724 ACCGTCAAACCTTTATAAATAATCGAT 57.666 29.630 0.00 0.00 0.00 3.59
4963 5352 3.677190 TTTTTACAGTTTGCGAGCGAA 57.323 38.095 0.00 0.00 0.00 4.70
4964 5353 3.677190 TTTTACAGTTTGCGAGCGAAA 57.323 38.095 0.00 0.00 0.00 3.46
4965 5354 3.677190 TTTACAGTTTGCGAGCGAAAA 57.323 38.095 0.00 0.00 0.00 2.29
4966 5355 3.677190 TTACAGTTTGCGAGCGAAAAA 57.323 38.095 0.00 0.00 0.00 1.94
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
18 19 0.547954 GGAGAGGAGGGGGTCAAAGT 60.548 60.000 0.00 0.00 0.00 2.66
27 28 2.123640 GTCGGAGGGAGAGGAGGG 60.124 72.222 0.00 0.00 0.00 4.30
35 36 0.614979 CCCAAGAAGAGTCGGAGGGA 60.615 60.000 0.00 0.00 36.58 4.20
227 257 4.514585 AAACCAGCACCACCGCCA 62.515 61.111 0.00 0.00 0.00 5.69
334 372 2.768344 GGGGAGGGAAGATGGCGA 60.768 66.667 0.00 0.00 0.00 5.54
359 397 3.188786 GCACTAAGCGAGCACGGG 61.189 66.667 5.52 0.00 40.15 5.28
391 429 1.753141 CGGGGAAATCTCGGAGTCCTA 60.753 57.143 7.77 0.00 0.00 2.94
396 434 2.109181 GCCGGGGAAATCTCGGAG 59.891 66.667 8.64 0.00 45.96 4.63
397 435 3.845259 CGCCGGGGAAATCTCGGA 61.845 66.667 14.46 0.00 45.96 4.55
473 511 1.019805 GCGAGGAAGAAGAAACGGGG 61.020 60.000 0.00 0.00 0.00 5.73
478 516 2.259618 CGAATCGCGAGGAAGAAGAAA 58.740 47.619 16.66 0.00 44.57 2.52
555 598 2.037847 AACCCAATCCAGGCCTGC 59.962 61.111 28.39 0.00 0.00 4.85
579 622 1.188863 GCTGTTCCCCTTACCTACGA 58.811 55.000 0.00 0.00 0.00 3.43
598 644 4.300189 ACTGTCGAATCAAGCTAGCTAG 57.700 45.455 19.70 16.84 0.00 3.42
599 645 4.440250 GGAACTGTCGAATCAAGCTAGCTA 60.440 45.833 19.70 3.08 0.00 3.32
653 712 2.018866 CGGATCTCGATTGCTCGGC 61.019 63.158 0.00 0.00 45.10 5.54
683 742 3.896888 TCGGTAACTGGTTAAACTGAGGA 59.103 43.478 4.19 0.00 0.00 3.71
686 746 5.244402 TCAGATCGGTAACTGGTTAAACTGA 59.756 40.000 4.19 0.00 35.20 3.41
692 752 4.161565 AGCAATCAGATCGGTAACTGGTTA 59.838 41.667 0.00 0.00 35.63 2.85
694 754 2.501723 AGCAATCAGATCGGTAACTGGT 59.498 45.455 0.00 0.00 35.20 4.00
701 761 1.590932 GATGCAGCAATCAGATCGGT 58.409 50.000 0.00 0.00 0.00 4.69
723 786 1.898472 CTATGATCGGATCAGCAGGGT 59.102 52.381 23.59 10.15 43.53 4.34
756 819 0.459411 GCGAGCTGGAGAGGAAGAAC 60.459 60.000 0.00 0.00 0.00 3.01
812 875 2.290641 CCAGGTCAAGTTTCGAAACAGG 59.709 50.000 35.29 27.14 41.30 4.00
893 970 2.250939 CCTGTTCCGCGTCAAAGCA 61.251 57.895 4.92 0.00 36.85 3.91
922 999 3.628646 CTTTCCCAGAGGCCGGTGG 62.629 68.421 17.39 17.39 0.00 4.61
927 1007 0.540597 AAGCAACTTTCCCAGAGGCC 60.541 55.000 0.00 0.00 0.00 5.19
932 1012 4.550422 GCTAAAAGAAGCAACTTTCCCAG 58.450 43.478 8.22 7.57 42.30 4.45
1046 1126 2.669133 CCGTTGGGCAGATCCAGGA 61.669 63.158 0.00 0.00 38.17 3.86
1074 1154 0.829602 AGGACGGGATCATGCTCGAT 60.830 55.000 0.00 0.00 0.00 3.59
1182 1262 1.586564 GAGAACGATCGTCGCAGGG 60.587 63.158 22.98 0.00 45.12 4.45
1200 1280 5.348986 ACATGCCAATTCGTAGTGTAGTAG 58.651 41.667 0.00 0.00 0.00 2.57
1254 1334 7.292292 GTGATATATAAATTAACGCGCCACAA 58.708 34.615 5.73 0.00 0.00 3.33
1256 1336 6.128499 TGGTGATATATAAATTAACGCGCCAC 60.128 38.462 5.73 0.00 0.00 5.01
1257 1337 5.932883 TGGTGATATATAAATTAACGCGCCA 59.067 36.000 5.73 0.00 0.00 5.69
1280 1362 5.499139 TTCAGTGAAAAAGCCTACAACTG 57.501 39.130 2.20 0.00 0.00 3.16
1304 1386 9.607285 CAAGTGTGGTTGACTTACAATTATTAC 57.393 33.333 0.00 0.00 40.76 1.89
1316 1398 1.141053 GGTCTCCAAGTGTGGTTGACT 59.859 52.381 15.50 0.00 46.11 3.41
1317 1399 1.141053 AGGTCTCCAAGTGTGGTTGAC 59.859 52.381 10.77 10.77 46.11 3.18
1320 1402 2.654863 CAAAGGTCTCCAAGTGTGGTT 58.345 47.619 0.00 0.00 46.11 3.67
1323 1405 0.954452 GCCAAAGGTCTCCAAGTGTG 59.046 55.000 0.00 0.00 0.00 3.82
1324 1406 0.550914 TGCCAAAGGTCTCCAAGTGT 59.449 50.000 0.00 0.00 0.00 3.55
1328 1410 1.691196 CACTTGCCAAAGGTCTCCAA 58.309 50.000 0.00 0.00 37.76 3.53
1335 1417 1.250328 TCATCAGCACTTGCCAAAGG 58.750 50.000 0.00 0.00 43.38 3.11
1346 1428 7.594351 AGATGAGTAAGTAAGATCATCAGCA 57.406 36.000 14.45 0.00 46.77 4.41
1383 1465 7.498239 GGAAAAACTACTGAACAAACTACTCCT 59.502 37.037 0.00 0.00 0.00 3.69
1384 1466 7.498239 AGGAAAAACTACTGAACAAACTACTCC 59.502 37.037 0.00 0.00 0.00 3.85
1385 1467 8.434733 AGGAAAAACTACTGAACAAACTACTC 57.565 34.615 0.00 0.00 0.00 2.59
1388 1470 8.780249 GCATAGGAAAAACTACTGAACAAACTA 58.220 33.333 0.00 0.00 0.00 2.24
1389 1471 7.502561 AGCATAGGAAAAACTACTGAACAAACT 59.497 33.333 0.00 0.00 0.00 2.66
1422 1504 9.527157 TGAACTGGACCTAATTTTATGATGAAA 57.473 29.630 0.00 0.00 0.00 2.69
1423 1505 9.527157 TTGAACTGGACCTAATTTTATGATGAA 57.473 29.630 0.00 0.00 0.00 2.57
1424 1506 9.527157 TTTGAACTGGACCTAATTTTATGATGA 57.473 29.630 0.00 0.00 0.00 2.92
1425 1507 9.793252 CTTTGAACTGGACCTAATTTTATGATG 57.207 33.333 0.00 0.00 0.00 3.07
1426 1508 8.470002 GCTTTGAACTGGACCTAATTTTATGAT 58.530 33.333 0.00 0.00 0.00 2.45
1427 1509 7.450014 TGCTTTGAACTGGACCTAATTTTATGA 59.550 33.333 0.00 0.00 0.00 2.15
1428 1510 7.601856 TGCTTTGAACTGGACCTAATTTTATG 58.398 34.615 0.00 0.00 0.00 1.90
1429 1511 7.093771 CCTGCTTTGAACTGGACCTAATTTTAT 60.094 37.037 0.00 0.00 0.00 1.40
1430 1512 6.208599 CCTGCTTTGAACTGGACCTAATTTTA 59.791 38.462 0.00 0.00 0.00 1.52
1431 1513 5.011023 CCTGCTTTGAACTGGACCTAATTTT 59.989 40.000 0.00 0.00 0.00 1.82
1432 1514 4.524328 CCTGCTTTGAACTGGACCTAATTT 59.476 41.667 0.00 0.00 0.00 1.82
1433 1515 4.082125 CCTGCTTTGAACTGGACCTAATT 58.918 43.478 0.00 0.00 0.00 1.40
1434 1516 3.074538 ACCTGCTTTGAACTGGACCTAAT 59.925 43.478 0.00 0.00 0.00 1.73
1435 1517 2.441750 ACCTGCTTTGAACTGGACCTAA 59.558 45.455 0.00 0.00 0.00 2.69
1436 1518 2.054799 ACCTGCTTTGAACTGGACCTA 58.945 47.619 0.00 0.00 0.00 3.08
1437 1519 0.846693 ACCTGCTTTGAACTGGACCT 59.153 50.000 0.00 0.00 0.00 3.85
1438 1520 1.692411 AACCTGCTTTGAACTGGACC 58.308 50.000 0.00 0.00 0.00 4.46
1439 1521 4.338400 ACTTAAACCTGCTTTGAACTGGAC 59.662 41.667 0.00 0.00 0.00 4.02
1440 1522 4.532834 ACTTAAACCTGCTTTGAACTGGA 58.467 39.130 0.00 0.00 0.00 3.86
1441 1523 4.918810 ACTTAAACCTGCTTTGAACTGG 57.081 40.909 0.00 0.00 0.00 4.00
1442 1524 6.260050 TCTGTACTTAAACCTGCTTTGAACTG 59.740 38.462 0.00 0.00 0.00 3.16
1443 1525 6.260271 GTCTGTACTTAAACCTGCTTTGAACT 59.740 38.462 0.00 0.00 0.00 3.01
1444 1526 6.427974 GTCTGTACTTAAACCTGCTTTGAAC 58.572 40.000 0.00 0.00 0.00 3.18
1445 1527 5.235616 CGTCTGTACTTAAACCTGCTTTGAA 59.764 40.000 0.00 0.00 0.00 2.69
1446 1528 4.748102 CGTCTGTACTTAAACCTGCTTTGA 59.252 41.667 0.00 0.00 0.00 2.69
1447 1529 4.748102 TCGTCTGTACTTAAACCTGCTTTG 59.252 41.667 0.00 0.00 0.00 2.77
1448 1530 4.952460 TCGTCTGTACTTAAACCTGCTTT 58.048 39.130 0.00 0.00 0.00 3.51
1449 1531 4.595762 TCGTCTGTACTTAAACCTGCTT 57.404 40.909 0.00 0.00 0.00 3.91
1450 1532 4.803098 ATCGTCTGTACTTAAACCTGCT 57.197 40.909 0.00 0.00 0.00 4.24
1472 1554 2.916702 ACAATGTCAGCACTCACTGA 57.083 45.000 0.00 0.00 44.32 3.41
1504 1588 5.385198 AGAAAAATCACTCCCTGCAGTTTA 58.615 37.500 13.81 0.00 0.00 2.01
1507 1591 3.515602 AGAAAAATCACTCCCTGCAGT 57.484 42.857 13.81 0.00 0.00 4.40
1564 1648 4.012374 CTCACTCAGTTGCATAACCCAAT 58.988 43.478 0.00 0.00 37.52 3.16
1565 1649 3.181445 ACTCACTCAGTTGCATAACCCAA 60.181 43.478 0.00 0.00 37.52 4.12
1605 1689 6.097554 TCAGATTTTAACAAAGGCAGGAAACA 59.902 34.615 0.00 0.00 0.00 2.83
1614 1698 9.143631 GGAAATGATGTCAGATTTTAACAAAGG 57.856 33.333 0.00 0.00 0.00 3.11
1665 1749 2.798976 TACGTGTTGGACCAGTGTAC 57.201 50.000 0.00 0.00 0.00 2.90
1762 2013 3.381272 TCCAACTGCAGTTTGGAGAAAAG 59.619 43.478 30.58 18.45 38.14 2.27
1774 2025 0.959372 CAGAAGGCCTCCAACTGCAG 60.959 60.000 13.48 13.48 0.00 4.41
1802 2053 5.988310 TCATCTCAGTTGCATTTCCAAAT 57.012 34.783 0.00 0.00 0.00 2.32
2341 2592 7.412853 CAATATAGTTTGTCATCAGCAAGGAC 58.587 38.462 0.00 0.00 0.00 3.85
2559 2813 0.660488 CGTTAACACTGCAAGCCACA 59.340 50.000 6.39 0.00 37.60 4.17
2599 2853 4.227300 TCAATGGCATTAACCAGGTACTCT 59.773 41.667 13.23 0.00 44.71 3.24
2637 2891 4.781775 TGTTGTCTTTTTCTACTGGGGA 57.218 40.909 0.00 0.00 0.00 4.81
2710 2965 7.106239 ACGGATTTTCTCAAGTCATCAACTAT 58.894 34.615 0.00 0.00 37.17 2.12
2847 3103 4.082300 TCCAATTGATAAAACATGCACGCT 60.082 37.500 7.12 0.00 0.00 5.07
2872 3128 5.706447 AGCACTATATTGGTACTCTCTCCA 58.294 41.667 0.00 0.00 0.00 3.86
2939 3195 6.127647 CCTGGAAGCAATAGAGCAAAACAATA 60.128 38.462 0.00 0.00 36.85 1.90
2959 3215 1.883678 TGAATCAGATGCTCCCTGGA 58.116 50.000 0.00 0.00 32.73 3.86
3123 3381 5.767665 TGCAAAAACAGTTAGAAGGATGCTA 59.232 36.000 0.00 0.00 0.00 3.49
3329 3588 8.726988 GCAGACCAGTAGAACATTTAACATTTA 58.273 33.333 0.00 0.00 0.00 1.40
3330 3589 7.573096 CGCAGACCAGTAGAACATTTAACATTT 60.573 37.037 0.00 0.00 0.00 2.32
3331 3590 6.128282 CGCAGACCAGTAGAACATTTAACATT 60.128 38.462 0.00 0.00 0.00 2.71
3332 3591 5.351465 CGCAGACCAGTAGAACATTTAACAT 59.649 40.000 0.00 0.00 0.00 2.71
3333 3592 4.688879 CGCAGACCAGTAGAACATTTAACA 59.311 41.667 0.00 0.00 0.00 2.41
3355 3614 3.788434 AGCAGTAATCAACAAACGACG 57.212 42.857 0.00 0.00 0.00 5.12
3421 3680 9.687717 GACAACACATGTTAAGTTTCAAAAATG 57.312 29.630 0.00 0.00 44.12 2.32
3600 3860 9.723601 ATGCATGTTTATGTTTAACCAAAAGAT 57.276 25.926 0.00 0.00 36.65 2.40
3631 3891 6.062095 AGGAGTACAAAACACATTACAAGCT 58.938 36.000 0.00 0.00 0.00 3.74
3640 3900 3.815809 CCCTCAAGGAGTACAAAACACA 58.184 45.455 0.00 0.00 38.24 3.72
3661 3921 7.764443 TGTCTGTAGAACCAACTAGAAATATGC 59.236 37.037 0.00 0.00 0.00 3.14
3678 3961 6.630413 GCTTTACCAAGATGGATGTCTGTAGA 60.630 42.308 2.85 0.00 40.96 2.59
3709 3992 7.878477 AAGACAAACAAATAAGCACATGATG 57.122 32.000 0.00 0.00 0.00 3.07
3754 4038 9.905713 ATAAGTCCTTTCAGATAGTTTGCAATA 57.094 29.630 0.00 0.00 0.00 1.90
3919 4203 7.540400 CGTTAAAACTTGCATGTTCATTCCATA 59.460 33.333 17.34 2.21 0.00 2.74
3920 4204 6.365789 CGTTAAAACTTGCATGTTCATTCCAT 59.634 34.615 17.34 0.00 0.00 3.41
3921 4205 5.689514 CGTTAAAACTTGCATGTTCATTCCA 59.310 36.000 17.34 0.00 0.00 3.53
3939 4240 2.400399 CAAGAGAGTCCGTGCGTTAAA 58.600 47.619 0.00 0.00 0.00 1.52
3949 4250 0.809241 CATCGCCTGCAAGAGAGTCC 60.809 60.000 0.00 0.00 34.07 3.85
3988 4289 4.669318 ACAGTAATTACAGTGATCGTCGG 58.331 43.478 17.65 0.00 0.00 4.79
3995 4296 9.439500 GGTATTTTGGTACAGTAATTACAGTGA 57.561 33.333 20.39 5.01 42.39 3.41
4032 4333 4.127171 GGCTTGTCGGAATAAGATTAGCA 58.873 43.478 7.27 0.00 32.32 3.49
4144 4445 3.458189 CAGTTTAGCTATGAAGGGACCG 58.542 50.000 0.00 0.00 0.00 4.79
4270 4573 4.096003 GCAGACTTAGGGCGGGCA 62.096 66.667 3.27 0.00 0.00 5.36
4341 4658 5.162980 ACCACCCCATAGAAGAAGAAAAACT 60.163 40.000 0.00 0.00 0.00 2.66
4411 4732 4.498323 GTCCGTCTCAATATTCACACGTAC 59.502 45.833 0.00 1.20 0.00 3.67
4460 4781 5.006261 GCCACCATAAAAACTTGTCACAAAC 59.994 40.000 0.00 0.00 0.00 2.93
4462 4783 4.442192 GGCCACCATAAAAACTTGTCACAA 60.442 41.667 0.00 0.00 0.00 3.33
4463 4784 3.068873 GGCCACCATAAAAACTTGTCACA 59.931 43.478 0.00 0.00 0.00 3.58
4464 4785 3.649073 GGCCACCATAAAAACTTGTCAC 58.351 45.455 0.00 0.00 0.00 3.67
4465 4786 2.294791 CGGCCACCATAAAAACTTGTCA 59.705 45.455 2.24 0.00 0.00 3.58
4510 4831 0.032540 GCACACAGGAGGGCAAAAAG 59.967 55.000 0.00 0.00 0.00 2.27
4514 4835 4.641645 CGGCACACAGGAGGGCAA 62.642 66.667 0.00 0.00 0.00 4.52
4542 4867 0.744414 ACTGACCAGCACACACACAC 60.744 55.000 0.00 0.00 0.00 3.82
4549 4874 2.387476 CTGCCTGACTGACCAGCACA 62.387 60.000 0.00 0.00 32.97 4.57
4550 4875 1.670406 CTGCCTGACTGACCAGCAC 60.670 63.158 0.00 0.00 32.97 4.40
4551 4876 2.745698 CTGCCTGACTGACCAGCA 59.254 61.111 0.00 0.00 32.97 4.41
4553 4878 1.375652 CTGCTGCCTGACTGACCAG 60.376 63.158 0.00 0.00 0.00 4.00
4554 4879 2.745698 CTGCTGCCTGACTGACCA 59.254 61.111 0.00 0.00 0.00 4.02
4555 4880 2.046507 CCTGCTGCCTGACTGACC 60.047 66.667 0.00 0.00 0.00 4.02
4556 4881 2.046507 CCCTGCTGCCTGACTGAC 60.047 66.667 0.00 0.00 0.00 3.51
4557 4882 3.324930 CCCCTGCTGCCTGACTGA 61.325 66.667 0.00 0.00 0.00 3.41
4573 4898 1.984288 GAGGCCCATGTACAGTCCCC 61.984 65.000 0.00 0.00 0.00 4.81
4574 4899 1.527370 GAGGCCCATGTACAGTCCC 59.473 63.158 0.00 0.00 0.00 4.46
4590 4915 3.252284 AGTGGGCTGTGGTGGGAG 61.252 66.667 0.00 0.00 0.00 4.30
4600 4925 1.770110 TGTTGGGACAGAGTGGGCT 60.770 57.895 0.00 0.00 42.39 5.19
4618 4943 2.377193 TGCCTATTACCCACCAAACAGT 59.623 45.455 0.00 0.00 0.00 3.55
4619 4944 3.016736 CTGCCTATTACCCACCAAACAG 58.983 50.000 0.00 0.00 0.00 3.16
4637 4962 1.530013 AACATTCAGTGGGCTGCTGC 61.530 55.000 7.10 7.10 42.29 5.25
4653 4978 5.221843 GGATCCTGCTTATACCCATGTAACA 60.222 44.000 3.84 0.00 0.00 2.41
4709 5096 2.103042 CGCCAGTAGCCTGCAGTTC 61.103 63.158 13.81 3.92 38.78 3.01
4723 5110 0.037697 ACTTGCTATCGTGTTCGCCA 60.038 50.000 0.00 0.00 36.96 5.69
4748 5135 1.730612 GTTTCACTAGCGTTGTAGCCC 59.269 52.381 0.00 0.00 38.01 5.19
4805 5192 4.808558 CAAATGGTGTACAATCTGGTTGG 58.191 43.478 5.53 0.00 42.28 3.77
4818 5205 3.554934 TCACTTCTGAAGCAAATGGTGT 58.445 40.909 17.00 0.00 0.00 4.16
4848 5236 2.948979 AGTTTCGGTCATTTGTGAAGCA 59.051 40.909 0.00 0.00 0.00 3.91
4873 5262 2.958818 TGTAGTCTGTGTCTGGGTTCT 58.041 47.619 0.00 0.00 0.00 3.01
4884 5273 5.890985 AGTGATGCTCTTAGATGTAGTCTGT 59.109 40.000 0.00 0.00 37.83 3.41
4899 5288 3.875727 TGACGGTACTAGTAGTGATGCTC 59.124 47.826 13.29 2.23 0.00 4.26
4900 5289 3.882444 TGACGGTACTAGTAGTGATGCT 58.118 45.455 13.29 0.00 0.00 3.79
4901 5290 4.627611 TTGACGGTACTAGTAGTGATGC 57.372 45.455 13.29 0.97 0.00 3.91
4902 5291 5.125097 AGGTTTGACGGTACTAGTAGTGATG 59.875 44.000 13.29 4.73 0.00 3.07
4903 5292 5.259632 AGGTTTGACGGTACTAGTAGTGAT 58.740 41.667 13.29 0.00 0.00 3.06
4904 5293 4.655963 AGGTTTGACGGTACTAGTAGTGA 58.344 43.478 13.29 0.00 0.00 3.41
4905 5294 5.382618 AAGGTTTGACGGTACTAGTAGTG 57.617 43.478 13.29 1.23 0.00 2.74
4906 5295 7.709149 ATAAAGGTTTGACGGTACTAGTAGT 57.291 36.000 8.14 8.14 0.00 2.73
4913 5302 9.853921 CGATTATTTATAAAGGTTTGACGGTAC 57.146 33.333 3.94 0.00 0.00 3.34
4914 5303 9.814899 TCGATTATTTATAAAGGTTTGACGGTA 57.185 29.630 3.94 0.00 0.00 4.02
4915 5304 8.721019 TCGATTATTTATAAAGGTTTGACGGT 57.279 30.769 3.94 0.00 0.00 4.83
4943 5332 3.677190 TTCGCTCGCAAACTGTAAAAA 57.323 38.095 0.00 0.00 0.00 1.94
4944 5333 3.677190 TTTCGCTCGCAAACTGTAAAA 57.323 38.095 0.00 0.00 0.00 1.52
4945 5334 3.677190 TTTTCGCTCGCAAACTGTAAA 57.323 38.095 0.00 0.00 0.00 2.01
4946 5335 3.677190 TTTTTCGCTCGCAAACTGTAA 57.323 38.095 0.00 0.00 0.00 2.41


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

AutoCloner maintained by Alex Coulton.