Multiple sequence alignment - TraesCS1A01G278800

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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 TraesCS1A01G278800 chr1A 100.000 3587 0 0 1 3587 474433419 474429833 0.000000e+00 6625.0
1 TraesCS1A01G278800 chr1A 97.561 82 1 1 580 661 474432767 474432687 4.830000e-29 139.0
2 TraesCS1A01G278800 chr1A 97.561 82 1 1 653 733 474432840 474432759 4.830000e-29 139.0
3 TraesCS1A01G278800 chr1D 95.899 2024 68 7 797 2812 375369971 375367955 0.000000e+00 3264.0
4 TraesCS1A01G278800 chr1D 87.097 558 66 6 3035 3587 233888718 233889274 8.450000e-176 627.0
5 TraesCS1A01G278800 chr1D 89.776 401 35 4 67 464 375370394 375369997 3.200000e-140 508.0
6 TraesCS1A01G278800 chr1B 94.248 2034 82 8 784 2812 500539081 500541084 0.000000e+00 3075.0
7 TraesCS1A01G278800 chr1B 83.436 652 96 9 2940 3587 64930408 64931051 2.380000e-166 595.0
8 TraesCS1A01G278800 chr1B 84.006 619 66 15 68 661 500538113 500538723 6.720000e-157 564.0
9 TraesCS1A01G278800 chr3A 82.322 1335 204 28 1250 2568 616726279 616724961 0.000000e+00 1129.0
10 TraesCS1A01G278800 chr3D 82.001 1339 204 31 1250 2568 474450845 474452166 0.000000e+00 1103.0
11 TraesCS1A01G278800 chr3D 74.468 141 34 2 515 655 491179817 491179955 3.870000e-05 60.2
12 TraesCS1A01G278800 chr3D 82.812 64 11 0 665 728 491179892 491179955 1.390000e-04 58.4
13 TraesCS1A01G278800 chr3B 81.526 1337 211 32 1250 2568 630869134 630870452 0.000000e+00 1068.0
14 TraesCS1A01G278800 chr5A 84.946 651 90 8 2943 3587 607597550 607598198 0.000000e+00 652.0
15 TraesCS1A01G278800 chr2D 88.785 535 56 4 3057 3587 316140189 316140723 0.000000e+00 652.0
16 TraesCS1A01G278800 chr7D 85.077 650 76 10 2943 3587 453146510 453145877 0.000000e+00 643.0
17 TraesCS1A01G278800 chr7D 87.956 548 57 9 3047 3587 367576841 367577386 3.910000e-179 638.0
18 TraesCS1A01G278800 chr7D 87.500 552 64 5 3041 3587 412013345 412013896 1.820000e-177 632.0
19 TraesCS1A01G278800 chr2B 87.703 553 62 6 3041 3587 536614491 536613939 1.090000e-179 640.0
20 TraesCS1A01G278800 chr2A 83.056 661 94 14 2943 3587 757801771 757801113 5.160000e-163 584.0
21 TraesCS1A01G278800 chr4A 88.060 67 7 1 672 737 638667399 638667333 1.070000e-10 78.7
22 TraesCS1A01G278800 chr4A 87.302 63 8 0 599 661 638667399 638667337 4.970000e-09 73.1


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 TraesCS1A01G278800 chr1A 474429833 474433419 3586 True 2301.0 6625 98.3740 1 3587 3 chr1A.!!$R1 3586
1 TraesCS1A01G278800 chr1D 375367955 375370394 2439 True 1886.0 3264 92.8375 67 2812 2 chr1D.!!$R1 2745
2 TraesCS1A01G278800 chr1D 233888718 233889274 556 False 627.0 627 87.0970 3035 3587 1 chr1D.!!$F1 552
3 TraesCS1A01G278800 chr1B 500538113 500541084 2971 False 1819.5 3075 89.1270 68 2812 2 chr1B.!!$F2 2744
4 TraesCS1A01G278800 chr1B 64930408 64931051 643 False 595.0 595 83.4360 2940 3587 1 chr1B.!!$F1 647
5 TraesCS1A01G278800 chr3A 616724961 616726279 1318 True 1129.0 1129 82.3220 1250 2568 1 chr3A.!!$R1 1318
6 TraesCS1A01G278800 chr3D 474450845 474452166 1321 False 1103.0 1103 82.0010 1250 2568 1 chr3D.!!$F1 1318
7 TraesCS1A01G278800 chr3B 630869134 630870452 1318 False 1068.0 1068 81.5260 1250 2568 1 chr3B.!!$F1 1318
8 TraesCS1A01G278800 chr5A 607597550 607598198 648 False 652.0 652 84.9460 2943 3587 1 chr5A.!!$F1 644
9 TraesCS1A01G278800 chr2D 316140189 316140723 534 False 652.0 652 88.7850 3057 3587 1 chr2D.!!$F1 530
10 TraesCS1A01G278800 chr7D 453145877 453146510 633 True 643.0 643 85.0770 2943 3587 1 chr7D.!!$R1 644
11 TraesCS1A01G278800 chr7D 367576841 367577386 545 False 638.0 638 87.9560 3047 3587 1 chr7D.!!$F1 540
12 TraesCS1A01G278800 chr7D 412013345 412013896 551 False 632.0 632 87.5000 3041 3587 1 chr7D.!!$F2 546
13 TraesCS1A01G278800 chr2B 536613939 536614491 552 True 640.0 640 87.7030 3041 3587 1 chr2B.!!$R1 546
14 TraesCS1A01G278800 chr2A 757801113 757801771 658 True 584.0 584 83.0560 2943 3587 1 chr2A.!!$R1 644

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
724 761 0.034186 CTGCCCAGCCAATAGGTCAA 60.034 55.0 0.0 0.0 37.19 3.18 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2658 3010 0.389948 GACCACATCGTCCACAGGTC 60.39 60.0 0.0 0.0 38.77 3.85 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
56 57 7.589574 AATAACACATTTGTTTTATTCCCGC 57.410 32.000 1.97 0.00 43.89 6.13
57 58 4.592485 ACACATTTGTTTTATTCCCGCA 57.408 36.364 0.00 0.00 28.43 5.69
58 59 4.950050 ACACATTTGTTTTATTCCCGCAA 58.050 34.783 0.00 0.00 28.43 4.85
59 60 5.360591 ACACATTTGTTTTATTCCCGCAAA 58.639 33.333 0.00 0.00 34.25 3.68
60 61 5.817816 ACACATTTGTTTTATTCCCGCAAAA 59.182 32.000 0.00 0.00 33.60 2.44
61 62 6.316390 ACACATTTGTTTTATTCCCGCAAAAA 59.684 30.769 0.00 0.00 33.60 1.94
91 92 7.370317 CACATTTGTTTTATTTCAAGCAACACG 59.630 33.333 0.00 0.00 0.00 4.49
106 107 7.380065 TCAAGCAACACGTTTTAATGTAATTCC 59.620 33.333 0.00 0.00 37.87 3.01
107 108 6.153756 AGCAACACGTTTTAATGTAATTCCC 58.846 36.000 0.00 0.00 37.87 3.97
159 160 1.413118 AAAAGGTGCCACTTTCCAGG 58.587 50.000 0.00 0.00 39.63 4.45
212 213 5.681639 TGAGGATCAGAGAGAATACGTACA 58.318 41.667 0.00 0.00 42.56 2.90
213 214 5.527951 TGAGGATCAGAGAGAATACGTACAC 59.472 44.000 0.00 0.00 42.56 2.90
251 252 1.270550 CCAATCCGCAAATATCTGGGC 59.729 52.381 0.00 0.00 0.00 5.36
259 260 2.560105 GCAAATATCTGGGCAGAATCCC 59.440 50.000 0.00 0.00 46.73 3.85
306 314 4.122046 GTGACTTTGCAATGCCTTTTTCT 58.878 39.130 11.96 0.00 0.00 2.52
331 339 2.103432 TGAGAGCGACAGGTTTGGTAAA 59.897 45.455 0.00 0.00 0.00 2.01
333 341 3.074412 AGAGCGACAGGTTTGGTAAATG 58.926 45.455 0.00 0.00 0.00 2.32
342 350 2.094752 GGTTTGGTAAATGCTGCATCGT 60.095 45.455 16.55 9.63 0.00 3.73
345 353 3.485947 TGGTAAATGCTGCATCGTTTC 57.514 42.857 16.55 5.45 0.00 2.78
364 372 5.448632 CGTTTCAGCCAGTGGTAAATTATCC 60.449 44.000 11.74 0.00 0.00 2.59
370 378 4.632153 CCAGTGGTAAATTATCCTCTCGG 58.368 47.826 0.00 4.15 0.00 4.63
390 398 3.370061 CGGTTTTCCTATTCCTCGTCAAC 59.630 47.826 0.00 0.00 37.95 3.18
398 406 6.127101 TCCTATTCCTCGTCAACTGAAGATA 58.873 40.000 0.00 0.00 32.45 1.98
476 495 0.519961 GTTGGTGCGTATGGTTGACC 59.480 55.000 0.00 0.00 0.00 4.02
489 508 1.676014 GGTTGACCAGTTCGGATGAGG 60.676 57.143 0.00 0.00 38.63 3.86
495 514 0.833287 CAGTTCGGATGAGGGGTGAT 59.167 55.000 0.00 0.00 0.00 3.06
497 516 0.830648 GTTCGGATGAGGGGTGATGA 59.169 55.000 0.00 0.00 0.00 2.92
498 517 0.830648 TTCGGATGAGGGGTGATGAC 59.169 55.000 0.00 0.00 0.00 3.06
500 519 1.391933 CGGATGAGGGGTGATGACGA 61.392 60.000 0.00 0.00 0.00 4.20
501 520 0.105039 GGATGAGGGGTGATGACGAC 59.895 60.000 0.00 0.00 0.00 4.34
502 521 0.824109 GATGAGGGGTGATGACGACA 59.176 55.000 0.00 0.00 0.00 4.35
503 522 1.414181 GATGAGGGGTGATGACGACAT 59.586 52.381 0.00 0.00 39.67 3.06
505 524 1.628340 TGAGGGGTGATGACGACATTT 59.372 47.619 1.10 0.00 36.82 2.32
506 525 2.039746 TGAGGGGTGATGACGACATTTT 59.960 45.455 1.10 0.00 36.82 1.82
540 577 8.829373 AAAATAAGACCAATCCAAGAGCTAAT 57.171 30.769 0.00 0.00 0.00 1.73
542 579 5.707066 AAGACCAATCCAAGAGCTAATCT 57.293 39.130 0.00 0.00 41.27 2.40
544 581 6.072199 AGACCAATCCAAGAGCTAATCTTT 57.928 37.500 0.00 0.00 46.49 2.52
545 582 7.200434 AGACCAATCCAAGAGCTAATCTTTA 57.800 36.000 0.00 0.00 46.49 1.85
550 587 8.230472 CAATCCAAGAGCTAATCTTTATTGGT 57.770 34.615 11.29 0.00 46.49 3.67
551 588 8.348507 CAATCCAAGAGCTAATCTTTATTGGTC 58.651 37.037 11.29 0.00 46.49 4.02
582 619 1.418373 AAAGAAATTTTGCGAGCGCC 58.582 45.000 12.70 0.00 41.09 6.53
594 631 4.856607 AGCGCCGCGTCTTAGAGC 62.857 66.667 15.34 2.14 0.00 4.09
596 633 4.492160 CGCCGCGTCTTAGAGCCA 62.492 66.667 4.92 0.00 0.00 4.75
610 647 3.373565 GCCAAGGCTTGAACCCGG 61.374 66.667 28.18 11.60 38.26 5.73
656 693 1.449601 AGCCAATAGGTCAACGCCG 60.450 57.895 0.00 0.00 37.19 6.46
661 698 2.221906 AATAGGTCAACGCCGCGTCT 62.222 55.000 20.46 14.11 39.99 4.18
662 699 2.221906 ATAGGTCAACGCCGCGTCTT 62.222 55.000 20.46 5.91 39.99 3.01
663 700 1.585267 TAGGTCAACGCCGCGTCTTA 61.585 55.000 20.46 4.85 39.99 2.10
664 701 2.442188 GGTCAACGCCGCGTCTTAG 61.442 63.158 20.46 9.83 39.99 2.18
665 702 1.443194 GTCAACGCCGCGTCTTAGA 60.443 57.895 20.46 12.02 39.99 2.10
666 703 1.154093 TCAACGCCGCGTCTTAGAG 60.154 57.895 20.46 5.58 39.99 2.43
667 704 2.506438 AACGCCGCGTCTTAGAGC 60.506 61.111 20.46 0.00 39.99 4.09
668 705 3.984200 AACGCCGCGTCTTAGAGCC 62.984 63.158 20.46 0.00 39.99 4.70
669 706 4.492160 CGCCGCGTCTTAGAGCCA 62.492 66.667 4.92 0.00 0.00 4.75
670 707 2.125673 GCCGCGTCTTAGAGCCAA 60.126 61.111 4.92 0.00 0.00 4.52
671 708 2.167861 GCCGCGTCTTAGAGCCAAG 61.168 63.158 4.92 0.00 0.00 3.61
672 709 1.519455 CCGCGTCTTAGAGCCAAGG 60.519 63.158 4.92 0.00 0.00 3.61
673 710 2.167861 CGCGTCTTAGAGCCAAGGC 61.168 63.158 2.02 2.02 42.33 4.35
683 720 3.373565 GCCAAGGCTTGAACCCGG 61.374 66.667 28.18 11.60 38.26 5.73
684 721 2.676471 CCAAGGCTTGAACCCGGG 60.676 66.667 28.18 22.25 0.00 5.73
685 722 2.676471 CAAGGCTTGAACCCGGGG 60.676 66.667 27.92 12.73 0.00 5.73
686 723 3.979497 AAGGCTTGAACCCGGGGG 61.979 66.667 27.92 5.70 42.03 5.40
702 739 4.182433 GGGGCTGGCAGCTACCTC 62.182 72.222 35.73 20.26 41.99 3.85
703 740 3.402681 GGGCTGGCAGCTACCTCA 61.403 66.667 35.73 0.00 41.99 3.86
704 741 2.188994 GGCTGGCAGCTACCTCAG 59.811 66.667 35.73 0.00 41.99 3.35
722 759 4.567318 CTGCCCAGCCAATAGGTC 57.433 61.111 0.00 0.00 37.19 3.85
723 760 1.609239 CTGCCCAGCCAATAGGTCA 59.391 57.895 0.00 0.00 37.19 4.02
724 761 0.034186 CTGCCCAGCCAATAGGTCAA 60.034 55.000 0.00 0.00 37.19 3.18
725 762 0.323360 TGCCCAGCCAATAGGTCAAC 60.323 55.000 0.00 0.00 37.19 3.18
726 763 1.376609 GCCCAGCCAATAGGTCAACG 61.377 60.000 0.00 0.00 37.19 4.10
727 764 1.376609 CCCAGCCAATAGGTCAACGC 61.377 60.000 0.00 0.00 37.19 4.84
728 765 1.376609 CCAGCCAATAGGTCAACGCC 61.377 60.000 0.00 0.00 37.19 5.68
729 766 1.077716 AGCCAATAGGTCAACGCCC 60.078 57.895 0.00 0.00 37.19 6.13
730 767 2.469516 GCCAATAGGTCAACGCCCG 61.470 63.158 0.00 0.00 37.19 6.13
731 768 1.078708 CCAATAGGTCAACGCCCGT 60.079 57.895 0.00 0.00 0.00 5.28
732 769 1.087771 CCAATAGGTCAACGCCCGTC 61.088 60.000 0.00 0.00 0.00 4.79
755 792 4.440103 CCTCACGACGACGGAATTTATAAG 59.560 45.833 12.58 0.00 44.46 1.73
760 797 6.417044 CACGACGACGGAATTTATAAGAGAAT 59.583 38.462 12.58 0.00 44.46 2.40
777 814 6.185114 AGAGAATGTTTATCAGAGGGATGG 57.815 41.667 0.00 0.00 36.72 3.51
780 817 4.713792 ATGTTTATCAGAGGGATGGTCC 57.286 45.455 0.00 0.00 36.72 4.46
787 1131 0.621862 AGAGGGATGGTCCAGGGTTC 60.622 60.000 0.00 0.00 38.64 3.62
795 1139 0.036294 GGTCCAGGGTTCGGAGAAAG 60.036 60.000 0.00 0.00 45.90 2.62
801 1145 1.900486 AGGGTTCGGAGAAAGTCGATT 59.100 47.619 0.00 0.00 45.90 3.34
810 1154 6.395629 TCGGAGAAAGTCGATTGAAACTAAT 58.604 36.000 0.00 0.00 0.00 1.73
842 1186 3.787785 GGTTGTGAACCGTTGGATTTTT 58.212 40.909 0.00 0.00 42.62 1.94
845 1189 5.404066 GGTTGTGAACCGTTGGATTTTTATG 59.596 40.000 0.00 0.00 42.62 1.90
855 1199 0.920664 GATTTTTATGCAACGGCGGC 59.079 50.000 13.24 6.51 45.35 6.53
894 1238 1.059098 TCTCTGCTTTCTCTGGCCAA 58.941 50.000 7.01 0.00 0.00 4.52
899 1243 0.525311 GCTTTCTCTGGCCAAGAAGC 59.475 55.000 21.65 20.69 34.42 3.86
926 1270 4.223700 ACTTCTTATCAGCACATCCACTCA 59.776 41.667 0.00 0.00 0.00 3.41
958 1303 4.722700 GCCACAGCCCACGGTCAT 62.723 66.667 0.00 0.00 0.00 3.06
982 1331 5.643348 TCTCGCAACAATGTACAAGATGAAT 59.357 36.000 0.00 0.00 0.00 2.57
993 1342 4.429854 ACAAGATGAATAGGAGAAGGCC 57.570 45.455 0.00 0.00 0.00 5.19
1020 1369 3.316573 GAACCCAGACCCAGCTCCG 62.317 68.421 0.00 0.00 0.00 4.63
1023 1372 3.314331 CCAGACCCAGCTCCGTGT 61.314 66.667 0.00 0.00 0.00 4.49
1065 1414 3.585990 CGATGCCCAACGCCATCC 61.586 66.667 0.00 0.00 36.24 3.51
1794 2143 1.195674 GACTTCAGCCGCAACTTCTTC 59.804 52.381 0.00 0.00 0.00 2.87
1885 2234 1.657751 CCTCCGTGAGCGAGTCATCA 61.658 60.000 0.00 0.00 41.33 3.07
1943 2292 0.940991 GCCAACCGCTGCAGAAAAAG 60.941 55.000 20.43 3.27 0.00 2.27
1965 2314 3.044986 CAACGAAGACGACGAGGTTAAA 58.955 45.455 0.00 0.00 42.66 1.52
2001 2350 0.985490 ATCTGAAGGTCCAGGGAGGC 60.985 60.000 0.00 0.00 37.29 4.70
2616 2968 4.415150 CATCTGGCCGCCCTGTGT 62.415 66.667 7.03 0.00 0.00 3.72
2658 3010 1.070376 CGCATAAGATGTGACATGGCG 60.070 52.381 1.23 6.77 43.24 5.69
2666 3018 2.034879 GTGACATGGCGACCTGTGG 61.035 63.158 3.05 0.00 0.00 4.17
2667 3019 2.213513 TGACATGGCGACCTGTGGA 61.214 57.895 3.05 0.00 0.00 4.02
2748 3100 7.384932 CAGCAGATACGTAATGGATTTGTATGA 59.615 37.037 0.00 0.00 0.00 2.15
2754 3106 6.494842 ACGTAATGGATTTGTATGATTGCAC 58.505 36.000 0.00 0.00 0.00 4.57
2781 3137 9.160496 GATATCAAGAAATATCATGGACTGGTC 57.840 37.037 0.00 0.00 38.15 4.02
2812 3170 1.043816 ATATCCAGGAGTGACCAGCG 58.956 55.000 0.00 0.00 42.04 5.18
2813 3171 1.676678 TATCCAGGAGTGACCAGCGC 61.677 60.000 0.00 0.00 42.04 5.92
2814 3172 3.699894 CCAGGAGTGACCAGCGCT 61.700 66.667 2.64 2.64 42.04 5.92
2819 3177 3.142393 AGTGACCAGCGCTCAAGT 58.858 55.556 7.13 5.23 29.41 3.16
2820 3178 1.005630 AGTGACCAGCGCTCAAGTC 60.006 57.895 19.80 19.80 29.41 3.01
2821 3179 2.049156 TGACCAGCGCTCAAGTCG 60.049 61.111 20.68 5.42 31.75 4.18
2829 3187 3.843240 GCTCAAGTCGCGCCGAAG 61.843 66.667 0.00 0.00 37.72 3.79
2830 3188 2.126463 CTCAAGTCGCGCCGAAGA 60.126 61.111 0.00 1.51 37.72 2.87
2831 3189 2.126463 TCAAGTCGCGCCGAAGAG 60.126 61.111 0.00 0.00 37.72 2.85
2832 3190 3.181967 CAAGTCGCGCCGAAGAGG 61.182 66.667 0.00 0.00 44.97 3.69
2833 3191 4.436998 AAGTCGCGCCGAAGAGGG 62.437 66.667 0.00 0.00 41.48 4.30
2841 3199 4.821935 CCGAAGAGGGCCAAAACT 57.178 55.556 6.18 0.00 35.97 2.66
2842 3200 3.948735 CCGAAGAGGGCCAAAACTA 57.051 52.632 6.18 0.00 35.97 2.24
2843 3201 1.450025 CCGAAGAGGGCCAAAACTAC 58.550 55.000 6.18 0.00 35.97 2.73
2844 3202 1.003233 CCGAAGAGGGCCAAAACTACT 59.997 52.381 6.18 0.00 35.97 2.57
2845 3203 2.076863 CGAAGAGGGCCAAAACTACTG 58.923 52.381 6.18 0.00 0.00 2.74
2846 3204 2.550208 CGAAGAGGGCCAAAACTACTGT 60.550 50.000 6.18 0.00 0.00 3.55
2847 3205 3.487372 GAAGAGGGCCAAAACTACTGTT 58.513 45.455 6.18 0.00 38.16 3.16
2849 3207 4.717279 AGAGGGCCAAAACTACTGTTTA 57.283 40.909 6.18 0.00 44.70 2.01
2850 3208 5.256806 AGAGGGCCAAAACTACTGTTTAT 57.743 39.130 6.18 0.00 44.70 1.40
2851 3209 5.641155 AGAGGGCCAAAACTACTGTTTATT 58.359 37.500 6.18 0.00 44.70 1.40
2852 3210 6.075315 AGAGGGCCAAAACTACTGTTTATTT 58.925 36.000 6.18 0.00 44.70 1.40
2853 3211 6.553476 AGAGGGCCAAAACTACTGTTTATTTT 59.447 34.615 6.18 0.00 44.70 1.82
2854 3212 7.070696 AGAGGGCCAAAACTACTGTTTATTTTT 59.929 33.333 6.18 0.00 44.70 1.94
2911 3269 9.869757 TGAAGTTAAGTATGATCTCATTTCGAA 57.130 29.630 0.00 0.00 37.76 3.71
2914 3272 9.877178 AGTTAAGTATGATCTCATTTCGAAACT 57.123 29.630 13.81 0.00 37.76 2.66
2918 3276 7.978982 AGTATGATCTCATTTCGAAACTTTGG 58.021 34.615 13.81 2.93 37.76 3.28
2919 3277 5.046910 TGATCTCATTTCGAAACTTTGGC 57.953 39.130 13.81 2.91 0.00 4.52
2920 3278 4.518590 TGATCTCATTTCGAAACTTTGGCA 59.481 37.500 13.81 5.54 0.00 4.92
2921 3279 5.183713 TGATCTCATTTCGAAACTTTGGCAT 59.816 36.000 13.81 3.89 0.00 4.40
2922 3280 4.797471 TCTCATTTCGAAACTTTGGCATG 58.203 39.130 13.81 5.14 0.00 4.06
2923 3281 4.518590 TCTCATTTCGAAACTTTGGCATGA 59.481 37.500 13.81 9.34 0.00 3.07
2924 3282 5.009510 TCTCATTTCGAAACTTTGGCATGAA 59.990 36.000 13.81 0.00 0.00 2.57
2925 3283 4.981674 TCATTTCGAAACTTTGGCATGAAC 59.018 37.500 13.81 0.00 0.00 3.18
2926 3284 3.363341 TTCGAAACTTTGGCATGAACC 57.637 42.857 0.00 0.00 0.00 3.62
2927 3285 2.302260 TCGAAACTTTGGCATGAACCA 58.698 42.857 0.00 0.00 38.16 3.67
2928 3286 2.034053 TCGAAACTTTGGCATGAACCAC 59.966 45.455 0.00 0.00 40.19 4.16
2929 3287 2.754472 GAAACTTTGGCATGAACCACC 58.246 47.619 0.00 0.00 40.19 4.61
2930 3288 2.086610 AACTTTGGCATGAACCACCT 57.913 45.000 0.00 0.00 40.19 4.00
2931 3289 2.086610 ACTTTGGCATGAACCACCTT 57.913 45.000 0.00 0.00 40.19 3.50
2932 3290 1.963515 ACTTTGGCATGAACCACCTTC 59.036 47.619 0.00 0.00 40.19 3.46
2933 3291 1.962807 CTTTGGCATGAACCACCTTCA 59.037 47.619 0.00 0.00 43.28 3.02
2934 3292 1.327303 TTGGCATGAACCACCTTCAC 58.673 50.000 0.00 0.00 41.87 3.18
2935 3293 0.888736 TGGCATGAACCACCTTCACG 60.889 55.000 0.00 0.00 41.87 4.35
2936 3294 0.605319 GGCATGAACCACCTTCACGA 60.605 55.000 0.00 0.00 41.87 4.35
2937 3295 0.517316 GCATGAACCACCTTCACGAC 59.483 55.000 0.00 0.00 41.87 4.34
2938 3296 1.156736 CATGAACCACCTTCACGACC 58.843 55.000 0.00 0.00 41.87 4.79
2939 3297 0.762418 ATGAACCACCTTCACGACCA 59.238 50.000 0.00 0.00 41.87 4.02
2940 3298 0.542333 TGAACCACCTTCACGACCAA 59.458 50.000 0.00 0.00 33.65 3.67
2941 3299 0.942252 GAACCACCTTCACGACCAAC 59.058 55.000 0.00 0.00 0.00 3.77
2954 3312 1.565305 GACCAACAGCATCTCTAGCG 58.435 55.000 0.00 0.00 37.01 4.26
2959 3317 0.396417 ACAGCATCTCTAGCGGACCT 60.396 55.000 0.00 0.00 37.01 3.85
2963 3321 1.804372 GCATCTCTAGCGGACCTTGTG 60.804 57.143 0.00 0.00 0.00 3.33
2983 3341 2.814919 TGTAATGTCGACCCGCAAAATT 59.185 40.909 14.12 6.68 0.00 1.82
2995 3353 4.275443 ACCCGCAAAATTCGTTTACAGTTA 59.725 37.500 0.00 0.00 0.00 2.24
2999 3357 6.130723 CGCAAAATTCGTTTACAGTTAGTGA 58.869 36.000 0.00 0.00 0.00 3.41
3130 3503 3.872771 GCATTTCAATTTCGGGCATGAAT 59.127 39.130 0.00 0.00 32.35 2.57
3268 3647 9.597681 AAGATATCCAATTTCCATAATTGCTCT 57.402 29.630 0.00 2.63 36.56 4.09
3269 3648 9.597681 AGATATCCAATTTCCATAATTGCTCTT 57.402 29.630 0.00 0.00 36.56 2.85
3290 3669 7.121315 GCTCTTATTAGTTGGACCAACATCTTT 59.879 37.037 33.44 18.25 45.66 2.52
3308 3687 6.211184 ACATCTTTTCCATGCCTTCATTGTTA 59.789 34.615 0.00 0.00 0.00 2.41
3312 3691 5.596836 TTCCATGCCTTCATTGTTAATCC 57.403 39.130 0.00 0.00 0.00 3.01
3385 3764 2.299503 GACGGTGCTTCCCCTCTAGC 62.300 65.000 0.00 0.00 37.89 3.42
3419 3798 3.806625 GCACATGCAGTCCCATTATTT 57.193 42.857 0.00 0.00 41.59 1.40
3435 3814 6.980397 CCCATTATTTGCCTCAATTCTACAAC 59.020 38.462 0.00 0.00 0.00 3.32
3440 3819 1.666189 GCCTCAATTCTACAACCGAGC 59.334 52.381 0.00 0.00 0.00 5.03
3462 3841 7.357777 CGAGCGCACGAACATATATTAAGTTTA 60.358 37.037 23.01 0.00 35.09 2.01
3525 3909 1.255667 TGAGCGTCCACCTTCCTACC 61.256 60.000 0.00 0.00 0.00 3.18
3528 3912 1.623542 GCGTCCACCTTCCTACCCAT 61.624 60.000 0.00 0.00 0.00 4.00
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
36 37 4.592485 TGCGGGAATAAAACAAATGTGT 57.408 36.364 0.00 0.00 40.75 3.72
37 38 5.914085 TTTGCGGGAATAAAACAAATGTG 57.086 34.783 0.00 0.00 0.00 3.21
38 39 6.927294 TTTTTGCGGGAATAAAACAAATGT 57.073 29.167 0.00 0.00 30.95 2.71
64 65 8.174422 GTGTTGCTTGAAATAAAACAAATGTGT 58.826 29.630 0.00 0.00 40.75 3.72
65 66 7.370317 CGTGTTGCTTGAAATAAAACAAATGTG 59.630 33.333 0.00 0.00 32.92 3.21
91 92 9.191995 CACTTTGACAGGGAATTACATTAAAAC 57.808 33.333 0.00 0.00 0.00 2.43
200 201 8.684973 AAATTCACAGTAGTGTACGTATTCTC 57.315 34.615 2.08 0.00 46.01 2.87
212 213 6.543831 GGATTGGCATAGAAATTCACAGTAGT 59.456 38.462 0.00 0.00 0.00 2.73
213 214 6.293081 CGGATTGGCATAGAAATTCACAGTAG 60.293 42.308 0.00 0.00 0.00 2.57
251 252 2.355756 CGTTTGCATAGGTGGGATTCTG 59.644 50.000 0.00 0.00 0.00 3.02
306 314 1.939934 CAAACCTGTCGCTCTCACAAA 59.060 47.619 0.00 0.00 0.00 2.83
342 350 5.826643 AGGATAATTTACCACTGGCTGAAA 58.173 37.500 0.00 0.00 0.00 2.69
345 353 5.041191 AGAGGATAATTTACCACTGGCTG 57.959 43.478 0.00 0.00 0.00 4.85
364 372 3.130693 ACGAGGAATAGGAAAACCGAGAG 59.869 47.826 0.00 0.00 0.00 3.20
370 378 5.235516 TCAGTTGACGAGGAATAGGAAAAC 58.764 41.667 0.00 0.00 0.00 2.43
447 457 0.741574 ACGCACCAACGTGTTTCTCA 60.742 50.000 0.00 0.00 46.28 3.27
476 495 0.833287 ATCACCCCTCATCCGAACTG 59.167 55.000 0.00 0.00 0.00 3.16
511 530 8.109634 AGCTCTTGGATTGGTCTTATTTTTAGA 58.890 33.333 0.00 0.00 0.00 2.10
512 531 8.286191 AGCTCTTGGATTGGTCTTATTTTTAG 57.714 34.615 0.00 0.00 0.00 1.85
513 532 9.747898 TTAGCTCTTGGATTGGTCTTATTTTTA 57.252 29.630 0.00 0.00 0.00 1.52
514 533 8.650143 TTAGCTCTTGGATTGGTCTTATTTTT 57.350 30.769 0.00 0.00 0.00 1.94
516 535 8.277918 AGATTAGCTCTTGGATTGGTCTTATTT 58.722 33.333 0.00 0.00 0.00 1.40
517 536 7.810260 AGATTAGCTCTTGGATTGGTCTTATT 58.190 34.615 0.00 0.00 0.00 1.40
521 558 5.707066 AAGATTAGCTCTTGGATTGGTCT 57.293 39.130 0.00 0.00 42.76 3.85
529 566 7.872113 AAGACCAATAAAGATTAGCTCTTGG 57.128 36.000 0.00 5.34 43.60 3.61
562 599 1.792367 GGCGCTCGCAAAATTTCTTTT 59.208 42.857 16.36 0.00 44.11 2.27
563 600 1.418373 GGCGCTCGCAAAATTTCTTT 58.582 45.000 16.36 0.00 44.11 2.52
566 603 3.362838 CGGCGCTCGCAAAATTTC 58.637 55.556 16.36 0.00 44.11 2.17
575 612 4.531912 TCTAAGACGCGGCGCTCG 62.532 66.667 30.54 17.87 42.76 5.03
577 614 4.856607 GCTCTAAGACGCGGCGCT 62.857 66.667 30.54 17.31 0.00 5.92
579 616 3.982372 TTGGCTCTAAGACGCGGCG 62.982 63.158 22.36 22.36 0.00 6.46
582 619 2.167861 GCCTTGGCTCTAAGACGCG 61.168 63.158 3.53 3.53 0.00 6.01
587 624 2.087646 GGTTCAAGCCTTGGCTCTAAG 58.912 52.381 15.10 5.92 0.00 2.18
594 631 2.676471 CCCGGGTTCAAGCCTTGG 60.676 66.667 14.18 0.10 32.48 3.61
639 676 3.098555 CGGCGTTGACCTATTGGC 58.901 61.111 0.00 0.00 36.63 4.52
644 681 1.585267 TAAGACGCGGCGTTGACCTA 61.585 55.000 29.98 13.10 41.37 3.08
656 693 0.391793 AAGCCTTGGCTCTAAGACGC 60.392 55.000 15.10 0.00 0.00 5.19
661 698 1.271926 GGGTTCAAGCCTTGGCTCTAA 60.272 52.381 15.10 9.26 31.81 2.10
662 699 0.328258 GGGTTCAAGCCTTGGCTCTA 59.672 55.000 15.10 3.28 31.81 2.43
663 700 1.075659 GGGTTCAAGCCTTGGCTCT 59.924 57.895 15.10 2.82 31.81 4.09
664 701 2.335712 CGGGTTCAAGCCTTGGCTC 61.336 63.158 15.10 2.11 32.48 4.70
665 702 2.282462 CGGGTTCAAGCCTTGGCT 60.282 61.111 8.56 8.56 32.48 4.75
666 703 3.373565 CCGGGTTCAAGCCTTGGC 61.374 66.667 4.30 2.97 32.48 4.52
667 704 2.676471 CCCGGGTTCAAGCCTTGG 60.676 66.667 14.18 0.10 32.48 3.61
668 705 2.676471 CCCCGGGTTCAAGCCTTG 60.676 66.667 21.85 0.00 32.48 3.61
669 706 3.979497 CCCCCGGGTTCAAGCCTT 61.979 66.667 21.85 0.00 32.48 4.35
685 722 4.182433 GAGGTAGCTGCCAGCCCC 62.182 72.222 23.78 13.90 43.77 5.80
686 723 3.397613 CTGAGGTAGCTGCCAGCCC 62.398 68.421 23.78 8.59 43.77 5.19
687 724 2.188994 CTGAGGTAGCTGCCAGCC 59.811 66.667 23.78 11.77 43.77 4.85
705 742 0.034186 TTGACCTATTGGCTGGGCAG 60.034 55.000 0.00 0.00 43.03 4.85
706 743 0.323360 GTTGACCTATTGGCTGGGCA 60.323 55.000 0.00 0.00 40.05 5.36
707 744 1.376609 CGTTGACCTATTGGCTGGGC 61.377 60.000 0.00 0.00 36.63 5.36
708 745 1.376609 GCGTTGACCTATTGGCTGGG 61.377 60.000 0.00 0.00 36.63 4.45
709 746 1.376609 GGCGTTGACCTATTGGCTGG 61.377 60.000 0.00 0.00 36.63 4.85
710 747 1.376609 GGGCGTTGACCTATTGGCTG 61.377 60.000 0.00 0.00 36.63 4.85
711 748 1.077716 GGGCGTTGACCTATTGGCT 60.078 57.895 0.00 0.00 36.63 4.75
712 749 2.469516 CGGGCGTTGACCTATTGGC 61.470 63.158 0.00 0.00 36.63 4.52
713 750 1.078708 ACGGGCGTTGACCTATTGG 60.079 57.895 0.00 0.00 39.83 3.16
714 751 1.087771 GGACGGGCGTTGACCTATTG 61.088 60.000 0.00 0.00 0.00 1.90
715 752 1.219935 GGACGGGCGTTGACCTATT 59.780 57.895 0.00 0.00 0.00 1.73
716 753 1.673808 GAGGACGGGCGTTGACCTAT 61.674 60.000 0.00 0.00 0.00 2.57
717 754 2.283388 AGGACGGGCGTTGACCTA 60.283 61.111 0.00 0.00 0.00 3.08
718 755 3.692406 GAGGACGGGCGTTGACCT 61.692 66.667 0.00 0.00 0.00 3.85
719 756 3.998672 TGAGGACGGGCGTTGACC 61.999 66.667 0.00 0.00 0.00 4.02
720 757 2.737376 GTGAGGACGGGCGTTGAC 60.737 66.667 0.00 0.00 0.00 3.18
721 758 4.351938 CGTGAGGACGGGCGTTGA 62.352 66.667 0.00 0.00 42.18 3.18
722 759 4.351938 TCGTGAGGACGGGCGTTG 62.352 66.667 0.00 0.00 46.11 4.10
723 760 4.353437 GTCGTGAGGACGGGCGTT 62.353 66.667 0.00 0.00 46.11 4.84
730 767 0.109412 AATTCCGTCGTCGTGAGGAC 60.109 55.000 11.61 11.61 42.48 3.85
731 768 0.599558 AAATTCCGTCGTCGTGAGGA 59.400 50.000 0.71 0.00 34.34 3.71
732 769 2.267188 TAAATTCCGTCGTCGTGAGG 57.733 50.000 0.71 0.00 35.01 3.86
755 792 5.934781 ACCATCCCTCTGATAAACATTCTC 58.065 41.667 0.00 0.00 30.56 2.87
760 797 3.455910 CTGGACCATCCCTCTGATAAACA 59.544 47.826 0.00 0.00 35.03 2.83
769 806 1.915983 GAACCCTGGACCATCCCTC 59.084 63.158 0.00 0.00 35.03 4.30
776 813 0.036294 CTTTCTCCGAACCCTGGACC 60.036 60.000 0.00 0.00 0.00 4.46
777 814 0.685660 ACTTTCTCCGAACCCTGGAC 59.314 55.000 0.00 0.00 0.00 4.02
780 817 0.601558 TCGACTTTCTCCGAACCCTG 59.398 55.000 0.00 0.00 0.00 4.45
787 1131 6.648725 ATTAGTTTCAATCGACTTTCTCCG 57.351 37.500 0.00 0.00 0.00 4.63
855 1199 4.153411 AGAACCATAGAATAGACGAGGGG 58.847 47.826 0.00 0.00 0.00 4.79
899 1243 4.696877 TGGATGTGCTGATAAGAAGTTGTG 59.303 41.667 0.00 0.00 0.00 3.33
926 1270 0.400594 GTGGCTCCCAGGTACACTTT 59.599 55.000 0.00 0.00 32.34 2.66
958 1303 4.565022 TCATCTTGTACATTGTTGCGAGA 58.435 39.130 0.00 11.15 0.00 4.04
982 1331 1.419012 CATGCATCTGGCCTTCTCCTA 59.581 52.381 3.32 0.00 43.89 2.94
993 1342 1.386533 GGTCTGGGTTCATGCATCTG 58.613 55.000 0.00 0.00 0.00 2.90
1020 1369 4.966366 GTGGTCGACACGTTATATAGACAC 59.034 45.833 18.91 7.39 40.85 3.67
1217 1566 1.078759 CTTGGAGACGACGGTGATGC 61.079 60.000 0.00 0.00 0.00 3.91
1809 2158 3.068691 CCGGAGAAGCGGAGGACA 61.069 66.667 0.00 0.00 0.00 4.02
1842 2191 3.070060 GATGCGTCGAACGTCACC 58.930 61.111 0.00 0.00 44.73 4.02
1943 2292 0.938168 AACCTCGTCGTCTTCGTTGC 60.938 55.000 0.00 0.00 38.33 4.17
1965 2314 1.077930 ATCATGCACGAGCTTGCCT 60.078 52.632 14.47 0.00 43.46 4.75
2166 2518 2.583593 GTCGCCACGCTCTGGATC 60.584 66.667 1.49 0.00 43.95 3.36
2538 2890 2.081212 CAGGAACTCGTCGTCGCAC 61.081 63.158 0.00 0.00 34.60 5.34
2616 2968 3.006110 GCTGGTACTGTAGTGGTACAACA 59.994 47.826 2.54 0.00 44.16 3.33
2658 3010 0.389948 GACCACATCGTCCACAGGTC 60.390 60.000 0.00 0.00 38.77 3.85
2666 3018 0.389948 GTCCAGGTGACCACATCGTC 60.390 60.000 3.63 0.00 38.09 4.20
2667 3019 1.118965 TGTCCAGGTGACCACATCGT 61.119 55.000 3.63 0.00 43.78 3.73
2711 3063 1.131126 GTATCTGCTGCGCAACATGTT 59.869 47.619 14.79 4.92 38.41 2.71
2748 3100 8.456471 CCATGATATTTCTTGATATCGTGCAAT 58.544 33.333 16.25 0.00 45.81 3.56
2754 3106 7.821359 ACCAGTCCATGATATTTCTTGATATCG 59.179 37.037 0.00 0.00 40.37 2.92
2790 3146 2.965831 GCTGGTCACTCCTGGATATACA 59.034 50.000 0.00 0.00 35.96 2.29
2791 3147 2.029828 CGCTGGTCACTCCTGGATATAC 60.030 54.545 0.00 0.00 35.96 1.47
2812 3170 3.843240 CTTCGGCGCGACTTGAGC 61.843 66.667 12.10 0.00 43.44 4.26
2813 3171 2.126463 TCTTCGGCGCGACTTGAG 60.126 61.111 12.10 4.80 34.89 3.02
2814 3172 2.126463 CTCTTCGGCGCGACTTGA 60.126 61.111 12.10 3.98 34.89 3.02
2815 3173 3.181967 CCTCTTCGGCGCGACTTG 61.182 66.667 12.10 0.00 34.89 3.16
2816 3174 4.436998 CCCTCTTCGGCGCGACTT 62.437 66.667 12.10 0.00 34.89 3.01
2824 3182 1.003233 AGTAGTTTTGGCCCTCTTCGG 59.997 52.381 0.00 0.00 0.00 4.30
2825 3183 2.076863 CAGTAGTTTTGGCCCTCTTCG 58.923 52.381 0.00 0.00 0.00 3.79
2826 3184 3.141767 ACAGTAGTTTTGGCCCTCTTC 57.858 47.619 0.00 0.00 0.00 2.87
2827 3185 3.595190 AACAGTAGTTTTGGCCCTCTT 57.405 42.857 0.00 0.00 33.11 2.85
2828 3186 3.595190 AAACAGTAGTTTTGGCCCTCT 57.405 42.857 0.00 0.00 45.32 3.69
2829 3187 5.977489 AATAAACAGTAGTTTTGGCCCTC 57.023 39.130 0.00 0.00 45.32 4.30
2830 3188 6.740944 AAAATAAACAGTAGTTTTGGCCCT 57.259 33.333 0.00 0.00 45.32 5.19
2885 3243 9.869757 TTCGAAATGAGATCATACTTAACTTCA 57.130 29.630 0.00 0.00 35.10 3.02
2888 3246 9.877178 AGTTTCGAAATGAGATCATACTTAACT 57.123 29.630 14.69 0.00 35.10 2.24
2892 3250 8.454106 CCAAAGTTTCGAAATGAGATCATACTT 58.546 33.333 14.69 6.31 35.10 2.24
2893 3251 7.414540 GCCAAAGTTTCGAAATGAGATCATACT 60.415 37.037 14.69 0.00 35.10 2.12
2894 3252 6.688813 GCCAAAGTTTCGAAATGAGATCATAC 59.311 38.462 14.69 0.00 35.10 2.39
2895 3253 6.374053 TGCCAAAGTTTCGAAATGAGATCATA 59.626 34.615 14.69 0.00 35.10 2.15
2896 3254 5.183713 TGCCAAAGTTTCGAAATGAGATCAT 59.816 36.000 14.69 0.00 38.41 2.45
2897 3255 4.518590 TGCCAAAGTTTCGAAATGAGATCA 59.481 37.500 14.69 6.33 0.00 2.92
2898 3256 5.046910 TGCCAAAGTTTCGAAATGAGATC 57.953 39.130 14.69 0.00 0.00 2.75
2899 3257 5.183713 TCATGCCAAAGTTTCGAAATGAGAT 59.816 36.000 14.69 1.64 0.00 2.75
2900 3258 4.518590 TCATGCCAAAGTTTCGAAATGAGA 59.481 37.500 14.69 2.88 0.00 3.27
2901 3259 4.797471 TCATGCCAAAGTTTCGAAATGAG 58.203 39.130 14.69 4.90 0.00 2.90
2902 3260 4.844998 TCATGCCAAAGTTTCGAAATGA 57.155 36.364 14.69 8.09 0.00 2.57
2903 3261 4.150451 GGTTCATGCCAAAGTTTCGAAATG 59.850 41.667 14.69 8.39 0.00 2.32
2904 3262 4.202202 TGGTTCATGCCAAAGTTTCGAAAT 60.202 37.500 14.69 0.00 35.25 2.17
2905 3263 3.131223 TGGTTCATGCCAAAGTTTCGAAA 59.869 39.130 6.47 6.47 35.25 3.46
2906 3264 2.690497 TGGTTCATGCCAAAGTTTCGAA 59.310 40.909 0.00 0.00 35.25 3.71
2907 3265 2.034053 GTGGTTCATGCCAAAGTTTCGA 59.966 45.455 0.00 0.00 40.68 3.71
2908 3266 2.393764 GTGGTTCATGCCAAAGTTTCG 58.606 47.619 0.00 0.00 40.68 3.46
2909 3267 2.365293 AGGTGGTTCATGCCAAAGTTTC 59.635 45.455 0.00 0.00 40.68 2.78
2910 3268 2.397597 AGGTGGTTCATGCCAAAGTTT 58.602 42.857 0.00 0.00 40.68 2.66
2911 3269 2.086610 AGGTGGTTCATGCCAAAGTT 57.913 45.000 0.00 0.00 40.68 2.66
2912 3270 1.963515 GAAGGTGGTTCATGCCAAAGT 59.036 47.619 0.00 0.00 40.68 2.66
2913 3271 1.962807 TGAAGGTGGTTCATGCCAAAG 59.037 47.619 0.00 0.00 40.45 2.77
2914 3272 1.686052 GTGAAGGTGGTTCATGCCAAA 59.314 47.619 0.00 0.00 46.99 3.28
2915 3273 1.327303 GTGAAGGTGGTTCATGCCAA 58.673 50.000 0.00 0.00 46.99 4.52
2916 3274 0.888736 CGTGAAGGTGGTTCATGCCA 60.889 55.000 0.00 0.00 46.99 4.92
2917 3275 1.875963 CGTGAAGGTGGTTCATGCC 59.124 57.895 0.00 0.00 46.99 4.40
2919 3277 1.156736 GGTCGTGAAGGTGGTTCATG 58.843 55.000 1.26 1.26 46.99 3.07
2920 3278 0.762418 TGGTCGTGAAGGTGGTTCAT 59.238 50.000 0.00 0.00 46.99 2.57
2921 3279 0.542333 TTGGTCGTGAAGGTGGTTCA 59.458 50.000 0.00 0.00 43.26 3.18
2922 3280 0.942252 GTTGGTCGTGAAGGTGGTTC 59.058 55.000 0.00 0.00 35.48 3.62
2923 3281 0.253610 TGTTGGTCGTGAAGGTGGTT 59.746 50.000 0.00 0.00 0.00 3.67
2924 3282 0.179056 CTGTTGGTCGTGAAGGTGGT 60.179 55.000 0.00 0.00 0.00 4.16
2925 3283 1.507141 GCTGTTGGTCGTGAAGGTGG 61.507 60.000 0.00 0.00 0.00 4.61
2926 3284 0.813610 TGCTGTTGGTCGTGAAGGTG 60.814 55.000 0.00 0.00 0.00 4.00
2927 3285 0.108585 ATGCTGTTGGTCGTGAAGGT 59.891 50.000 0.00 0.00 0.00 3.50
2928 3286 0.798776 GATGCTGTTGGTCGTGAAGG 59.201 55.000 0.00 0.00 0.00 3.46
2929 3287 1.728971 GAGATGCTGTTGGTCGTGAAG 59.271 52.381 0.00 0.00 0.00 3.02
2930 3288 1.344438 AGAGATGCTGTTGGTCGTGAA 59.656 47.619 0.00 0.00 0.00 3.18
2931 3289 0.969149 AGAGATGCTGTTGGTCGTGA 59.031 50.000 0.00 0.00 0.00 4.35
2932 3290 2.534298 CTAGAGATGCTGTTGGTCGTG 58.466 52.381 0.00 0.00 0.00 4.35
2933 3291 1.134965 GCTAGAGATGCTGTTGGTCGT 60.135 52.381 0.00 0.00 0.00 4.34
2934 3292 1.565305 GCTAGAGATGCTGTTGGTCG 58.435 55.000 0.00 0.00 0.00 4.79
2935 3293 1.565305 CGCTAGAGATGCTGTTGGTC 58.435 55.000 0.00 0.00 0.00 4.02
2936 3294 0.176680 CCGCTAGAGATGCTGTTGGT 59.823 55.000 0.00 0.00 0.00 3.67
2937 3295 0.461548 TCCGCTAGAGATGCTGTTGG 59.538 55.000 0.00 0.00 0.00 3.77
2938 3296 1.565305 GTCCGCTAGAGATGCTGTTG 58.435 55.000 0.00 0.00 0.00 3.33
2939 3297 0.461961 GGTCCGCTAGAGATGCTGTT 59.538 55.000 0.00 0.00 0.00 3.16
2940 3298 0.396417 AGGTCCGCTAGAGATGCTGT 60.396 55.000 0.00 0.00 0.00 4.40
2941 3299 0.749649 AAGGTCCGCTAGAGATGCTG 59.250 55.000 0.00 0.00 0.00 4.41
2954 3312 2.344025 GGTCGACATTACACAAGGTCC 58.656 52.381 18.91 0.00 41.35 4.46
2959 3317 0.033642 TGCGGGTCGACATTACACAA 59.966 50.000 18.91 0.00 0.00 3.33
2963 3321 3.422655 GAATTTTGCGGGTCGACATTAC 58.577 45.455 18.91 4.02 0.00 1.89
3082 3455 2.822255 GATTTACGGGCTGGCGCA 60.822 61.111 10.83 0.00 38.10 6.09
3253 3632 9.693739 TCCAACTAATAAGAGCAATTATGGAAA 57.306 29.630 0.00 0.00 30.45 3.13
3268 3647 7.726291 TGGAAAAGATGTTGGTCCAACTAATAA 59.274 33.333 30.23 14.07 43.85 1.40
3269 3648 7.235079 TGGAAAAGATGTTGGTCCAACTAATA 58.765 34.615 30.23 14.42 43.85 0.98
3271 3650 5.450453 TGGAAAAGATGTTGGTCCAACTAA 58.550 37.500 30.23 15.44 43.85 2.24
3290 3669 4.097741 CGGATTAACAATGAAGGCATGGAA 59.902 41.667 0.00 0.00 34.26 3.53
3370 3749 1.199615 AGAAGCTAGAGGGGAAGCAC 58.800 55.000 0.00 0.00 41.32 4.40
3409 3788 6.430864 TGTAGAATTGAGGCAAATAATGGGA 58.569 36.000 0.00 0.00 0.00 4.37
3411 3790 6.980397 GGTTGTAGAATTGAGGCAAATAATGG 59.020 38.462 0.00 0.00 0.00 3.16
3415 3794 5.492895 TCGGTTGTAGAATTGAGGCAAATA 58.507 37.500 0.00 0.00 0.00 1.40
3419 3798 2.935238 GCTCGGTTGTAGAATTGAGGCA 60.935 50.000 6.31 0.00 0.00 4.75
3435 3814 1.698165 ATATATGTTCGTGCGCTCGG 58.302 50.000 28.87 12.60 0.00 4.63
3478 3861 8.657387 TTGGTATTGGGAAAAAGAATACATCA 57.343 30.769 0.00 0.00 35.24 3.07
3490 3873 3.829601 ACGCTCATTTTGGTATTGGGAAA 59.170 39.130 0.00 0.00 0.00 3.13
3525 3909 7.437565 CGATAGCTTATTGAGATGGTCATATGG 59.562 40.741 2.13 0.00 34.17 2.74
3528 3912 7.703058 TCGATAGCTTATTGAGATGGTCATA 57.297 36.000 0.00 0.00 34.17 2.15


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

AutoCloner maintained by Alex Coulton.