Multiple sequence alignment - TraesCS3B01G266800

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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 TraesCS3B01G266800 chr3B 100.000 3639 0 0 1 3639 427591989 427588351 0.000000e+00 6721
1 TraesCS3B01G266800 chr3D 89.816 3476 139 67 1 3340 330064652 330061256 0.000000e+00 4259
2 TraesCS3B01G266800 chr3D 83.117 154 19 5 1786 1934 401171652 401171803 2.280000e-27 134
3 TraesCS3B01G266800 chr3A 89.867 2477 120 65 1012 3409 445281209 445278785 0.000000e+00 3062
4 TraesCS3B01G266800 chr3A 88.868 530 25 14 510 1015 445281766 445281247 3.990000e-174 621
5 TraesCS3B01G266800 chr3A 89.298 299 30 2 1 298 445282154 445281857 1.230000e-99 374
6 TraesCS3B01G266800 chr3A 82.468 154 20 5 1786 1934 521629611 521629762 1.060000e-25 128
7 TraesCS3B01G266800 chr4D 84.146 164 19 7 1780 1938 479525195 479525356 6.290000e-33 152
8 TraesCS3B01G266800 chr4A 86.923 130 14 3 1780 1906 685826807 685826936 3.790000e-30 143
9 TraesCS3B01G266800 chr2A 81.646 158 26 3 1780 1934 673195666 673195509 1.060000e-25 128
10 TraesCS3B01G266800 chr2D 81.013 158 27 3 1780 1934 528589613 528589456 4.930000e-24 122
11 TraesCS3B01G266800 chr2B 81.013 158 27 3 1780 1934 626883848 626883691 4.930000e-24 122


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 TraesCS3B01G266800 chr3B 427588351 427591989 3638 True 6721.000000 6721 100.000000 1 3639 1 chr3B.!!$R1 3638
1 TraesCS3B01G266800 chr3D 330061256 330064652 3396 True 4259.000000 4259 89.816000 1 3340 1 chr3D.!!$R1 3339
2 TraesCS3B01G266800 chr3A 445278785 445282154 3369 True 1352.333333 3062 89.344333 1 3409 3 chr3A.!!$R1 3408

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
315 321 0.246635 ACGTGATGAACCCTTCTCCG 59.753 55.0 0.0 0.0 0.0 4.63 F
970 1018 0.269173 ACATCCCCAAACCCCCAAAA 59.731 50.0 0.0 0.0 0.0 2.44 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1160 1266 0.030908 AACTATACGAGCAGGCGAGC 59.969 55.0 0.0 0.0 34.83 5.03 R
2889 3108 0.232303 CAAACTCGAACACGGCACTC 59.768 55.0 0.0 0.0 0.00 3.51 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
33 34 1.868519 GCAACCGTGTTTCGTCTCTCT 60.869 52.381 0.00 0.00 37.94 3.10
38 39 1.194997 CGTGTTTCGTCTCTCTCTCGT 59.805 52.381 0.00 0.00 34.52 4.18
298 304 1.129251 CAGGAAACACATGCAGCTACG 59.871 52.381 0.00 0.00 0.00 3.51
315 321 0.246635 ACGTGATGAACCCTTCTCCG 59.753 55.000 0.00 0.00 0.00 4.63
400 408 2.744202 CCCATCTTCCTGAAAGAACACG 59.256 50.000 0.00 0.00 46.85 4.49
430 438 0.976641 AAGAGAAGGACACGATGGCA 59.023 50.000 0.00 0.00 0.00 4.92
528 546 2.203001 CCATGCCCGTCACGCATA 60.203 61.111 0.00 0.00 45.06 3.14
585 611 2.034532 CACACATCCAGCCAGCCA 59.965 61.111 0.00 0.00 0.00 4.75
587 613 2.226315 ACACATCCAGCCAGCCAGA 61.226 57.895 0.00 0.00 0.00 3.86
676 702 2.858344 CAGCTACGAGTAAAATGGACGG 59.142 50.000 0.00 0.00 0.00 4.79
677 703 2.756760 AGCTACGAGTAAAATGGACGGA 59.243 45.455 0.00 0.00 0.00 4.69
678 704 3.114065 GCTACGAGTAAAATGGACGGAG 58.886 50.000 0.00 0.00 37.87 4.63
679 705 2.667473 ACGAGTAAAATGGACGGAGG 57.333 50.000 0.00 0.00 0.00 4.30
680 706 1.287425 CGAGTAAAATGGACGGAGGC 58.713 55.000 0.00 0.00 0.00 4.70
681 707 1.287425 GAGTAAAATGGACGGAGGCG 58.713 55.000 0.00 0.00 0.00 5.52
682 708 0.899720 AGTAAAATGGACGGAGGCGA 59.100 50.000 0.00 0.00 0.00 5.54
683 709 1.276989 AGTAAAATGGACGGAGGCGAA 59.723 47.619 0.00 0.00 0.00 4.70
684 710 1.664151 GTAAAATGGACGGAGGCGAAG 59.336 52.381 0.00 0.00 0.00 3.79
748 780 3.020984 GCGGGATTTGAAATGGAACCTA 58.979 45.455 0.00 0.00 0.00 3.08
930 978 3.245315 CGGCGCTAACGAACCTCG 61.245 66.667 7.64 0.00 46.93 4.63
944 992 2.575993 CTCGGCCAGTCCACTCTG 59.424 66.667 2.24 0.00 35.45 3.35
953 1001 2.023673 CAGTCCACTCTGCCAAAAACA 58.976 47.619 0.00 0.00 0.00 2.83
970 1018 0.269173 ACATCCCCAAACCCCCAAAA 59.731 50.000 0.00 0.00 0.00 2.44
1062 1155 1.593209 TTCCTCGCGCTTTCGTTGT 60.593 52.632 5.56 0.00 38.14 3.32
1073 1166 1.369839 TTTCGTTGTTGCGCTCCACA 61.370 50.000 9.73 6.23 0.00 4.17
1092 1185 2.109128 ACACTCCTCTGTTCCTCTCTCA 59.891 50.000 0.00 0.00 0.00 3.27
1110 1203 5.084818 TCTCATCGAGCCAAGATTTTACA 57.915 39.130 0.00 0.00 0.00 2.41
1164 1270 4.504916 CAGGCAGAGGACGGCTCG 62.505 72.222 0.00 0.00 37.12 5.03
1168 1274 4.504916 CAGAGGACGGCTCGCCTG 62.505 72.222 6.35 2.57 34.66 4.85
1175 1281 4.271816 CGGCTCGCCTGCTCGTAT 62.272 66.667 6.35 0.00 0.00 3.06
1176 1282 2.904676 CGGCTCGCCTGCTCGTATA 61.905 63.158 6.35 0.00 0.00 1.47
1177 1283 1.081108 GGCTCGCCTGCTCGTATAG 60.081 63.158 0.00 0.00 0.00 1.31
1178 1284 1.655329 GCTCGCCTGCTCGTATAGT 59.345 57.895 0.00 0.00 0.00 2.12
1179 1285 0.030908 GCTCGCCTGCTCGTATAGTT 59.969 55.000 0.00 0.00 0.00 2.24
1206 1312 5.239744 TGTTACATTTCTGCTCGCCTTTTTA 59.760 36.000 0.00 0.00 0.00 1.52
1207 1313 4.846779 ACATTTCTGCTCGCCTTTTTAA 57.153 36.364 0.00 0.00 0.00 1.52
1208 1314 5.195001 ACATTTCTGCTCGCCTTTTTAAA 57.805 34.783 0.00 0.00 0.00 1.52
1209 1315 5.783111 ACATTTCTGCTCGCCTTTTTAAAT 58.217 33.333 0.00 0.00 0.00 1.40
1290 1422 2.574399 GTCCTCCTCACTGCCGTC 59.426 66.667 0.00 0.00 0.00 4.79
1346 1500 1.057847 CGTTCAATCGTTCGTCAGCTC 59.942 52.381 0.00 0.00 0.00 4.09
1351 1505 1.923227 ATCGTTCGTCAGCTCGCTCA 61.923 55.000 0.00 0.00 0.00 4.26
1353 1507 1.803519 GTTCGTCAGCTCGCTCAGG 60.804 63.158 0.00 0.00 0.00 3.86
1354 1508 3.633094 TTCGTCAGCTCGCTCAGGC 62.633 63.158 0.00 0.00 0.00 4.85
1420 1574 2.812011 GGGCTCGTTTTCAGCTTTCTAA 59.188 45.455 0.00 0.00 37.05 2.10
1421 1575 3.252458 GGGCTCGTTTTCAGCTTTCTAAA 59.748 43.478 0.00 0.00 37.05 1.85
1422 1576 4.219802 GGCTCGTTTTCAGCTTTCTAAAC 58.780 43.478 0.00 0.00 37.05 2.01
1423 1577 4.023963 GGCTCGTTTTCAGCTTTCTAAACT 60.024 41.667 0.00 0.00 37.05 2.66
1424 1578 4.906437 GCTCGTTTTCAGCTTTCTAAACTG 59.094 41.667 0.00 0.00 33.75 3.16
1450 1604 2.292587 TGTCTTCAAAGGGGTTTTGGGT 60.293 45.455 0.37 0.00 45.05 4.51
1461 1615 2.495084 GGTTTTGGGTGAGAGAGACAC 58.505 52.381 0.00 0.00 37.51 3.67
1468 1622 1.249407 GTGAGAGAGACACCCTTCGT 58.751 55.000 0.00 0.00 32.84 3.85
1477 1631 2.030562 ACCCTTCGTGTGCTTCCG 59.969 61.111 0.00 0.00 0.00 4.30
1483 1637 3.345808 CGTGTGCTTCCGGTGGTG 61.346 66.667 0.00 0.00 0.00 4.17
1484 1638 2.978010 GTGTGCTTCCGGTGGTGG 60.978 66.667 0.00 0.00 0.00 4.61
1485 1639 3.164977 TGTGCTTCCGGTGGTGGA 61.165 61.111 0.00 0.00 35.83 4.02
1486 1640 2.358737 GTGCTTCCGGTGGTGGAG 60.359 66.667 0.00 0.00 39.72 3.86
1487 1641 2.525629 TGCTTCCGGTGGTGGAGA 60.526 61.111 0.00 0.00 39.72 3.71
1488 1642 2.144078 TGCTTCCGGTGGTGGAGAA 61.144 57.895 0.00 0.00 39.72 2.87
1490 1644 1.827399 GCTTCCGGTGGTGGAGAAGA 61.827 60.000 0.00 0.00 39.72 2.87
1491 1645 0.685097 CTTCCGGTGGTGGAGAAGAA 59.315 55.000 0.00 0.00 39.72 2.52
1492 1646 0.685097 TTCCGGTGGTGGAGAAGAAG 59.315 55.000 0.00 0.00 39.72 2.85
1493 1647 0.178944 TCCGGTGGTGGAGAAGAAGA 60.179 55.000 0.00 0.00 33.05 2.87
1494 1648 0.247736 CCGGTGGTGGAGAAGAAGAG 59.752 60.000 0.00 0.00 0.00 2.85
1495 1649 0.969894 CGGTGGTGGAGAAGAAGAGT 59.030 55.000 0.00 0.00 0.00 3.24
1729 1893 1.303091 GCGTGTTGGTGGATGTACCC 61.303 60.000 0.00 0.00 40.09 3.69
1956 2120 0.666577 CGACGACCAACTTCTCCACC 60.667 60.000 0.00 0.00 0.00 4.61
1960 2124 1.353091 GACCAACTTCTCCACCTCCT 58.647 55.000 0.00 0.00 0.00 3.69
1964 2128 1.002544 CAACTTCTCCACCTCCTCCAC 59.997 57.143 0.00 0.00 0.00 4.02
1965 2129 0.900647 ACTTCTCCACCTCCTCCACG 60.901 60.000 0.00 0.00 0.00 4.94
1966 2130 0.612174 CTTCTCCACCTCCTCCACGA 60.612 60.000 0.00 0.00 0.00 4.35
1967 2131 0.178944 TTCTCCACCTCCTCCACGAA 60.179 55.000 0.00 0.00 0.00 3.85
1968 2132 0.041238 TCTCCACCTCCTCCACGAAT 59.959 55.000 0.00 0.00 0.00 3.34
1979 2143 3.564027 CACGAATTCGGAGGGCGC 61.564 66.667 29.79 0.00 44.95 6.53
2510 2686 4.671549 CCGTGTGCGTTGCTGCTG 62.672 66.667 0.00 0.00 36.15 4.41
2535 2712 1.535896 TGTTGAGTCGACGAGAAGAGG 59.464 52.381 10.46 0.00 0.00 3.69
2542 2719 3.374678 AGTCGACGAGAAGAGGAATGTAC 59.625 47.826 10.46 0.00 0.00 2.90
2580 2767 0.608640 ACTGCTGTGCTGGGTACTAC 59.391 55.000 0.00 0.00 0.00 2.73
2581 2768 0.898320 CTGCTGTGCTGGGTACTACT 59.102 55.000 0.00 0.00 0.00 2.57
2582 2769 2.100197 CTGCTGTGCTGGGTACTACTA 58.900 52.381 0.00 0.00 0.00 1.82
2583 2770 1.822990 TGCTGTGCTGGGTACTACTAC 59.177 52.381 0.00 0.00 0.00 2.73
2609 2799 4.531659 ACGTCAAAGTTTTCTGTACTGC 57.468 40.909 0.00 0.00 0.00 4.40
2636 2826 0.529992 GATACGCTGCAGGGTGTACC 60.530 60.000 38.13 21.33 41.49 3.34
2637 2827 2.292794 ATACGCTGCAGGGTGTACCG 62.293 60.000 38.13 22.93 46.96 4.02
2638 2828 4.373116 CGCTGCAGGGTGTACCGT 62.373 66.667 21.92 0.00 46.96 4.83
2639 2829 2.975536 GCTGCAGGGTGTACCGTA 59.024 61.111 17.12 0.00 46.96 4.02
2717 2929 1.818959 ATGCGTGCTTTGGTTGGCAT 61.819 50.000 0.00 0.00 40.66 4.40
2823 3035 1.147376 CGGTCGGGGCCATGATTTA 59.853 57.895 4.39 0.00 0.00 1.40
2863 3075 1.613317 ATCAACGGGGCTCGATCACA 61.613 55.000 16.65 0.00 42.43 3.58
2868 3080 1.826024 GGGGCTCGATCACACTCAT 59.174 57.895 0.00 0.00 0.00 2.90
2873 3092 1.683917 GCTCGATCACACTCATACCCT 59.316 52.381 0.00 0.00 0.00 4.34
2900 3119 0.824759 GATCTAGGGAGTGCCGTGTT 59.175 55.000 0.00 0.00 33.56 3.32
2901 3120 0.824759 ATCTAGGGAGTGCCGTGTTC 59.175 55.000 0.00 0.00 33.56 3.18
2921 3140 2.488937 TCGAGTTTGCATCGGTACAGTA 59.511 45.455 8.24 0.00 40.54 2.74
3180 3405 1.212616 GAGGGAGTGAATGCGAATCG 58.787 55.000 0.00 0.00 0.00 3.34
3181 3406 0.824109 AGGGAGTGAATGCGAATCGA 59.176 50.000 6.91 0.00 0.00 3.59
3182 3407 1.202463 AGGGAGTGAATGCGAATCGAG 60.202 52.381 6.91 0.00 0.00 4.04
3183 3408 0.579156 GGAGTGAATGCGAATCGAGC 59.421 55.000 6.91 0.00 0.00 5.03
3239 3474 4.025858 GTCCTGCAGGCTGGCTCA 62.026 66.667 28.91 5.83 35.38 4.26
3341 3584 4.000988 GGAGACAACGCAAAAGATAAGGA 58.999 43.478 0.00 0.00 0.00 3.36
3348 3591 2.869192 CGCAAAAGATAAGGAGGAGCTC 59.131 50.000 4.71 4.71 0.00 4.09
3352 3595 5.115480 CAAAAGATAAGGAGGAGCTCAGAC 58.885 45.833 17.19 4.29 31.08 3.51
3365 3608 3.702048 CAGACCGGCGGGAAGGAA 61.702 66.667 31.78 0.00 36.97 3.36
3367 3610 3.703127 GACCGGCGGGAAGGAACT 61.703 66.667 31.78 5.90 37.10 3.01
3401 3644 1.278238 CCGACGATGCCTACTGTTTC 58.722 55.000 0.00 0.00 0.00 2.78
3405 3648 3.060895 CGACGATGCCTACTGTTTCTTTC 59.939 47.826 0.00 0.00 0.00 2.62
3407 3650 4.642429 ACGATGCCTACTGTTTCTTTCTT 58.358 39.130 0.00 0.00 0.00 2.52
3408 3651 5.063880 ACGATGCCTACTGTTTCTTTCTTT 58.936 37.500 0.00 0.00 0.00 2.52
3409 3652 5.531287 ACGATGCCTACTGTTTCTTTCTTTT 59.469 36.000 0.00 0.00 0.00 2.27
3410 3653 6.080406 CGATGCCTACTGTTTCTTTCTTTTC 58.920 40.000 0.00 0.00 0.00 2.29
3411 3654 6.073003 CGATGCCTACTGTTTCTTTCTTTTCT 60.073 38.462 0.00 0.00 0.00 2.52
3412 3655 7.520614 CGATGCCTACTGTTTCTTTCTTTTCTT 60.521 37.037 0.00 0.00 0.00 2.52
3413 3656 7.404671 TGCCTACTGTTTCTTTCTTTTCTTT 57.595 32.000 0.00 0.00 0.00 2.52
3414 3657 7.836842 TGCCTACTGTTTCTTTCTTTTCTTTT 58.163 30.769 0.00 0.00 0.00 2.27
3415 3658 8.311109 TGCCTACTGTTTCTTTCTTTTCTTTTT 58.689 29.630 0.00 0.00 0.00 1.94
3416 3659 8.595533 GCCTACTGTTTCTTTCTTTTCTTTTTG 58.404 33.333 0.00 0.00 0.00 2.44
3417 3660 9.855021 CCTACTGTTTCTTTCTTTTCTTTTTGA 57.145 29.630 0.00 0.00 0.00 2.69
3420 3663 9.981114 ACTGTTTCTTTCTTTTCTTTTTGAGAA 57.019 25.926 0.00 0.00 42.56 2.87
3431 3674 4.606961 TCTTTTTGAGAAACGGTTGATGC 58.393 39.130 0.00 0.00 0.00 3.91
3432 3675 3.363341 TTTTGAGAAACGGTTGATGCC 57.637 42.857 0.00 0.00 0.00 4.40
3433 3676 2.270352 TTGAGAAACGGTTGATGCCT 57.730 45.000 0.00 0.00 0.00 4.75
3434 3677 3.410631 TTGAGAAACGGTTGATGCCTA 57.589 42.857 0.00 0.00 0.00 3.93
3435 3678 2.695359 TGAGAAACGGTTGATGCCTAC 58.305 47.619 0.00 0.00 0.00 3.18
3436 3679 2.301870 TGAGAAACGGTTGATGCCTACT 59.698 45.455 0.00 0.00 0.00 2.57
3437 3680 2.673368 GAGAAACGGTTGATGCCTACTG 59.327 50.000 0.00 0.00 0.00 2.74
3438 3681 1.130561 GAAACGGTTGATGCCTACTGC 59.869 52.381 0.00 0.00 41.77 4.40
3439 3682 0.324943 AACGGTTGATGCCTACTGCT 59.675 50.000 0.00 0.00 42.00 4.24
3440 3683 0.391661 ACGGTTGATGCCTACTGCTG 60.392 55.000 0.00 0.00 42.00 4.41
3441 3684 0.108186 CGGTTGATGCCTACTGCTGA 60.108 55.000 0.00 0.00 42.00 4.26
3442 3685 1.661341 GGTTGATGCCTACTGCTGAG 58.339 55.000 0.00 0.00 42.00 3.35
3443 3686 1.661341 GTTGATGCCTACTGCTGAGG 58.339 55.000 0.00 1.35 42.00 3.86
3444 3687 1.065854 GTTGATGCCTACTGCTGAGGT 60.066 52.381 0.00 0.00 42.00 3.85
3445 3688 0.538584 TGATGCCTACTGCTGAGGTG 59.461 55.000 0.00 0.00 42.00 4.00
3446 3689 0.826715 GATGCCTACTGCTGAGGTGA 59.173 55.000 0.00 0.00 42.00 4.02
3447 3690 0.539051 ATGCCTACTGCTGAGGTGAC 59.461 55.000 0.00 0.00 42.00 3.67
3448 3691 1.153745 GCCTACTGCTGAGGTGACG 60.154 63.158 0.00 0.00 36.37 4.35
3449 3692 1.595993 GCCTACTGCTGAGGTGACGA 61.596 60.000 0.00 0.00 36.37 4.20
3450 3693 0.171455 CCTACTGCTGAGGTGACGAC 59.829 60.000 0.00 0.00 0.00 4.34
3451 3694 0.179187 CTACTGCTGAGGTGACGACG 60.179 60.000 0.00 0.00 0.00 5.12
3452 3695 0.604511 TACTGCTGAGGTGACGACGA 60.605 55.000 0.00 0.00 0.00 4.20
3453 3696 1.154131 CTGCTGAGGTGACGACGAG 60.154 63.158 0.00 0.00 0.00 4.18
3454 3697 1.857318 CTGCTGAGGTGACGACGAGT 61.857 60.000 0.00 0.00 0.00 4.18
3455 3698 1.442857 GCTGAGGTGACGACGAGTG 60.443 63.158 0.00 0.00 0.00 3.51
3456 3699 1.442857 CTGAGGTGACGACGAGTGC 60.443 63.158 0.00 0.00 0.00 4.40
3457 3700 2.126424 GAGGTGACGACGAGTGCC 60.126 66.667 0.00 0.00 0.00 5.01
3458 3701 3.948086 GAGGTGACGACGAGTGCCG 62.948 68.421 0.00 0.00 45.44 5.69
3467 3710 3.110178 CGAGTGCCGTTTCGACCC 61.110 66.667 0.00 0.00 39.06 4.46
3468 3711 2.342648 GAGTGCCGTTTCGACCCT 59.657 61.111 0.00 0.00 0.00 4.34
3469 3712 2.027625 GAGTGCCGTTTCGACCCTG 61.028 63.158 0.00 0.00 0.00 4.45
3470 3713 2.280592 GTGCCGTTTCGACCCTGT 60.281 61.111 0.00 0.00 0.00 4.00
3471 3714 2.280524 TGCCGTTTCGACCCTGTG 60.281 61.111 0.00 0.00 0.00 3.66
3472 3715 3.723348 GCCGTTTCGACCCTGTGC 61.723 66.667 0.00 0.00 0.00 4.57
3473 3716 2.280524 CCGTTTCGACCCTGTGCA 60.281 61.111 0.00 0.00 0.00 4.57
3474 3717 2.604174 CCGTTTCGACCCTGTGCAC 61.604 63.158 10.75 10.75 0.00 4.57
3475 3718 1.594293 CGTTTCGACCCTGTGCACT 60.594 57.895 19.41 0.00 0.00 4.40
3476 3719 1.557443 CGTTTCGACCCTGTGCACTC 61.557 60.000 19.41 6.05 0.00 3.51
3477 3720 1.300620 TTTCGACCCTGTGCACTCG 60.301 57.895 19.41 18.24 0.00 4.18
3478 3721 2.023414 TTTCGACCCTGTGCACTCGT 62.023 55.000 21.11 13.31 0.00 4.18
3479 3722 2.416244 TTCGACCCTGTGCACTCGTC 62.416 60.000 21.11 18.78 0.00 4.20
3480 3723 2.920645 CGACCCTGTGCACTCGTCT 61.921 63.158 19.41 0.00 0.00 4.18
3481 3724 1.367840 GACCCTGTGCACTCGTCTT 59.632 57.895 19.41 0.00 0.00 3.01
3482 3725 0.667792 GACCCTGTGCACTCGTCTTC 60.668 60.000 19.41 3.37 0.00 2.87
3483 3726 1.367471 CCCTGTGCACTCGTCTTCA 59.633 57.895 19.41 0.00 0.00 3.02
3484 3727 0.946221 CCCTGTGCACTCGTCTTCAC 60.946 60.000 19.41 0.00 0.00 3.18
3486 3729 1.278172 CTGTGCACTCGTCTTCACGG 61.278 60.000 19.41 0.00 46.70 4.94
3487 3730 2.355837 TGCACTCGTCTTCACGGC 60.356 61.111 0.00 0.00 46.70 5.68
3488 3731 3.112709 GCACTCGTCTTCACGGCC 61.113 66.667 0.00 0.00 46.70 6.13
3489 3732 2.338620 CACTCGTCTTCACGGCCA 59.661 61.111 2.24 0.00 46.70 5.36
3490 3733 1.079819 CACTCGTCTTCACGGCCAT 60.080 57.895 2.24 0.00 46.70 4.40
3491 3734 1.078759 CACTCGTCTTCACGGCCATC 61.079 60.000 2.24 0.00 46.70 3.51
3492 3735 1.215382 CTCGTCTTCACGGCCATCA 59.785 57.895 2.24 0.00 46.70 3.07
3493 3736 0.389817 CTCGTCTTCACGGCCATCAA 60.390 55.000 2.24 0.00 46.70 2.57
3494 3737 0.034198 TCGTCTTCACGGCCATCAAA 59.966 50.000 2.24 0.00 46.70 2.69
3495 3738 0.165944 CGTCTTCACGGCCATCAAAC 59.834 55.000 2.24 0.00 42.73 2.93
3496 3739 1.234821 GTCTTCACGGCCATCAAACA 58.765 50.000 2.24 0.00 0.00 2.83
3497 3740 1.812571 GTCTTCACGGCCATCAAACAT 59.187 47.619 2.24 0.00 0.00 2.71
3498 3741 3.006940 GTCTTCACGGCCATCAAACATA 58.993 45.455 2.24 0.00 0.00 2.29
3499 3742 3.006940 TCTTCACGGCCATCAAACATAC 58.993 45.455 2.24 0.00 0.00 2.39
3500 3743 1.364721 TCACGGCCATCAAACATACG 58.635 50.000 2.24 0.00 0.00 3.06
3501 3744 0.376852 CACGGCCATCAAACATACGG 59.623 55.000 2.24 0.00 0.00 4.02
3502 3745 0.035820 ACGGCCATCAAACATACGGT 60.036 50.000 2.24 0.00 0.00 4.83
3503 3746 0.376852 CGGCCATCAAACATACGGTG 59.623 55.000 2.24 0.00 0.00 4.94
3504 3747 0.738389 GGCCATCAAACATACGGTGG 59.262 55.000 0.00 0.00 0.00 4.61
3505 3748 0.100503 GCCATCAAACATACGGTGGC 59.899 55.000 0.00 0.00 44.37 5.01
3506 3749 0.738389 CCATCAAACATACGGTGGCC 59.262 55.000 0.00 0.00 0.00 5.36
3520 3763 4.400961 GGCCGAGCCTGCTGTCTT 62.401 66.667 7.58 0.00 46.69 3.01
3521 3764 3.123620 GCCGAGCCTGCTGTCTTG 61.124 66.667 0.00 0.00 0.00 3.02
3522 3765 3.123620 CCGAGCCTGCTGTCTTGC 61.124 66.667 0.00 0.00 0.00 4.01
3523 3766 3.485431 CGAGCCTGCTGTCTTGCG 61.485 66.667 0.00 0.00 35.36 4.85
3524 3767 3.123620 GAGCCTGCTGTCTTGCGG 61.124 66.667 0.00 0.00 38.94 5.69
3544 3787 3.605664 GCAGGCCGGCAGTTTGTT 61.606 61.111 30.85 0.61 0.00 2.83
3545 3788 2.336088 CAGGCCGGCAGTTTGTTG 59.664 61.111 30.85 10.19 0.00 3.33
3546 3789 3.605664 AGGCCGGCAGTTTGTTGC 61.606 61.111 30.85 7.16 43.34 4.17
3547 3790 3.605664 GGCCGGCAGTTTGTTGCT 61.606 61.111 30.85 0.00 43.57 3.91
3548 3791 2.265182 GGCCGGCAGTTTGTTGCTA 61.265 57.895 30.85 0.00 43.57 3.49
3549 3792 1.210155 GCCGGCAGTTTGTTGCTAG 59.790 57.895 24.80 0.00 43.57 3.42
3550 3793 1.875963 CCGGCAGTTTGTTGCTAGG 59.124 57.895 0.00 0.00 43.57 3.02
3551 3794 0.605319 CCGGCAGTTTGTTGCTAGGA 60.605 55.000 0.00 0.00 43.57 2.94
3552 3795 0.798776 CGGCAGTTTGTTGCTAGGAG 59.201 55.000 0.00 0.00 43.57 3.69
3553 3796 1.608025 CGGCAGTTTGTTGCTAGGAGA 60.608 52.381 0.00 0.00 43.57 3.71
3554 3797 2.079925 GGCAGTTTGTTGCTAGGAGAG 58.920 52.381 0.00 0.00 43.57 3.20
3588 3831 4.063967 CTACAGCCACCCGCACGA 62.064 66.667 0.00 0.00 41.38 4.35
3589 3832 4.367023 TACAGCCACCCGCACGAC 62.367 66.667 0.00 0.00 41.38 4.34
3618 3861 3.964875 CACAGCCCAACACCGCAC 61.965 66.667 0.00 0.00 0.00 5.34
3636 3879 4.435436 CGCTCCCACACGCTGCTA 62.435 66.667 0.00 0.00 0.00 3.49
3637 3880 2.510238 GCTCCCACACGCTGCTAG 60.510 66.667 0.00 0.00 0.00 3.42
3638 3881 2.510238 CTCCCACACGCTGCTAGC 60.510 66.667 8.10 8.10 38.02 3.42
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
24 25 1.823610 TCCAGTACGAGAGAGAGACGA 59.176 52.381 0.00 0.00 0.00 4.20
33 34 1.451567 CTCCGGCTCCAGTACGAGA 60.452 63.158 0.00 0.00 30.97 4.04
147 153 0.743688 CCTCATCCACACTCTCCTCG 59.256 60.000 0.00 0.00 0.00 4.63
250 256 1.078426 CGGAGGAACGAGGCCATTT 60.078 57.895 5.01 0.00 35.47 2.32
251 257 1.987855 TCGGAGGAACGAGGCCATT 60.988 57.895 5.01 0.00 38.06 3.16
261 267 0.250234 CTGGCTGAATGTCGGAGGAA 59.750 55.000 0.00 0.00 0.00 3.36
298 304 2.762535 TTCGGAGAAGGGTTCATCAC 57.237 50.000 0.00 0.00 45.90 3.06
323 329 3.131223 ACAGTCCTTCATCCATCACGTAG 59.869 47.826 0.00 0.00 0.00 3.51
333 341 3.491792 GCCTAGCACTACAGTCCTTCATC 60.492 52.174 0.00 0.00 0.00 2.92
335 343 1.825474 GCCTAGCACTACAGTCCTTCA 59.175 52.381 0.00 0.00 0.00 3.02
359 367 2.029918 GGGTTTTCCTAGCACTTGCTTG 60.030 50.000 9.44 7.38 44.13 4.01
400 408 1.561542 TCCTTCTCTTCAATGGAGGCC 59.438 52.381 0.00 0.00 0.00 5.19
565 583 2.270257 GCTGGCTGGATGTGTGCAA 61.270 57.895 0.00 0.00 0.00 4.08
585 611 0.830444 TAACTGGTGGCGTGGTCTCT 60.830 55.000 0.00 0.00 0.00 3.10
587 613 1.370064 GTAACTGGTGGCGTGGTCT 59.630 57.895 0.00 0.00 0.00 3.85
595 621 0.889186 GCACTGTGGGTAACTGGTGG 60.889 60.000 10.21 0.00 35.37 4.61
676 702 4.516195 GGACGCCTCCTTCGCCTC 62.516 72.222 0.00 0.00 33.07 4.70
696 722 0.828677 AATTACCGAACCCCGAGGAG 59.171 55.000 0.00 0.00 41.76 3.69
748 780 0.610785 CTGGCATTGGTTTACGGGGT 60.611 55.000 0.00 0.00 0.00 4.95
800 848 1.099689 GGCCGTAATTAAAGCCTGCA 58.900 50.000 16.34 0.00 42.34 4.41
834 882 4.590226 GTGAAAGCGTTTTTAACTCGGAA 58.410 39.130 0.00 0.00 0.00 4.30
835 883 3.302610 CGTGAAAGCGTTTTTAACTCGGA 60.303 43.478 0.00 0.00 0.00 4.55
836 884 2.962191 CGTGAAAGCGTTTTTAACTCGG 59.038 45.455 0.00 0.00 0.00 4.63
837 885 2.962191 CCGTGAAAGCGTTTTTAACTCG 59.038 45.455 0.00 0.00 0.00 4.18
944 992 1.544537 GGGTTTGGGGATGTTTTTGGC 60.545 52.381 0.00 0.00 0.00 4.52
953 1001 0.570727 AGTTTTGGGGGTTTGGGGAT 59.429 50.000 0.00 0.00 0.00 3.85
970 1018 0.028747 TGATGGGATGGGATGGGAGT 60.029 55.000 0.00 0.00 0.00 3.85
1062 1155 2.210013 AGAGGAGTGTGGAGCGCAA 61.210 57.895 11.47 0.00 0.00 4.85
1073 1166 3.631250 GATGAGAGAGGAACAGAGGAGT 58.369 50.000 0.00 0.00 0.00 3.85
1092 1185 5.091261 ACTCTGTAAAATCTTGGCTCGAT 57.909 39.130 0.00 0.00 0.00 3.59
1110 1203 5.814188 GGGATAATAACGGTTTTCGAACTCT 59.186 40.000 0.00 0.00 42.43 3.24
1159 1265 1.081108 CTATACGAGCAGGCGAGCC 60.081 63.158 5.89 5.89 34.23 4.70
1160 1266 0.030908 AACTATACGAGCAGGCGAGC 59.969 55.000 0.00 0.00 34.83 5.03
1161 1267 1.759994 CAACTATACGAGCAGGCGAG 58.240 55.000 0.00 0.00 34.83 5.03
1162 1268 0.248907 GCAACTATACGAGCAGGCGA 60.249 55.000 0.00 0.00 34.83 5.54
1164 1270 1.212616 CAGCAACTATACGAGCAGGC 58.787 55.000 0.00 0.00 0.00 4.85
1165 1271 2.586258 ACAGCAACTATACGAGCAGG 57.414 50.000 0.00 0.00 0.00 4.85
1167 1273 4.443913 TGTAACAGCAACTATACGAGCA 57.556 40.909 0.00 0.00 0.00 4.26
1168 1274 5.968387 AATGTAACAGCAACTATACGAGC 57.032 39.130 0.00 0.00 0.00 5.03
1169 1275 7.613146 CAGAAATGTAACAGCAACTATACGAG 58.387 38.462 0.00 0.00 0.00 4.18
1170 1276 6.035650 GCAGAAATGTAACAGCAACTATACGA 59.964 38.462 0.00 0.00 0.00 3.43
1171 1277 6.036083 AGCAGAAATGTAACAGCAACTATACG 59.964 38.462 0.00 0.00 0.00 3.06
1172 1278 7.308782 AGCAGAAATGTAACAGCAACTATAC 57.691 36.000 0.00 0.00 0.00 1.47
1173 1279 6.255670 CGAGCAGAAATGTAACAGCAACTATA 59.744 38.462 0.00 0.00 0.00 1.31
1174 1280 5.063944 CGAGCAGAAATGTAACAGCAACTAT 59.936 40.000 0.00 0.00 0.00 2.12
1175 1281 4.388773 CGAGCAGAAATGTAACAGCAACTA 59.611 41.667 0.00 0.00 0.00 2.24
1176 1282 3.187227 CGAGCAGAAATGTAACAGCAACT 59.813 43.478 0.00 0.00 0.00 3.16
1177 1283 3.482786 CGAGCAGAAATGTAACAGCAAC 58.517 45.455 0.00 0.00 0.00 4.17
1178 1284 2.095768 GCGAGCAGAAATGTAACAGCAA 60.096 45.455 0.00 0.00 0.00 3.91
1179 1285 1.464608 GCGAGCAGAAATGTAACAGCA 59.535 47.619 0.00 0.00 0.00 4.41
1206 1312 7.461363 TCCTCCTCCTCTTTACCTTCTTTATTT 59.539 37.037 0.00 0.00 0.00 1.40
1207 1313 6.966461 TCCTCCTCCTCTTTACCTTCTTTATT 59.034 38.462 0.00 0.00 0.00 1.40
1208 1314 6.513033 TCCTCCTCCTCTTTACCTTCTTTAT 58.487 40.000 0.00 0.00 0.00 1.40
1209 1315 5.912103 TCCTCCTCCTCTTTACCTTCTTTA 58.088 41.667 0.00 0.00 0.00 1.85
1290 1422 3.365472 CAGGGGAATAAAGACCAAAGGG 58.635 50.000 0.00 0.00 41.29 3.95
1323 1455 0.668096 TGACGAACGATTGAACGGGG 60.668 55.000 0.14 0.00 37.61 5.73
1328 1482 1.336877 CGAGCTGACGAACGATTGAA 58.663 50.000 0.00 0.00 35.09 2.69
1336 1490 2.568612 CCTGAGCGAGCTGACGAA 59.431 61.111 0.84 0.00 35.09 3.85
1361 1515 2.437359 AAGCTGCAGCCTTAGCCG 60.437 61.111 34.39 0.00 43.38 5.52
1362 1516 2.117779 GGAAGCTGCAGCCTTAGCC 61.118 63.158 34.39 23.02 43.38 3.93
1363 1517 0.679321 AAGGAAGCTGCAGCCTTAGC 60.679 55.000 34.39 18.45 40.10 3.09
1364 1518 1.742268 GAAAGGAAGCTGCAGCCTTAG 59.258 52.381 34.39 0.00 40.97 2.18
1422 1576 1.151668 CCCTTTGAAGACAGACGCAG 58.848 55.000 0.00 0.00 0.00 5.18
1423 1577 0.250295 CCCCTTTGAAGACAGACGCA 60.250 55.000 0.00 0.00 0.00 5.24
1424 1578 0.250338 ACCCCTTTGAAGACAGACGC 60.250 55.000 0.00 0.00 0.00 5.19
1450 1604 1.248486 CACGAAGGGTGTCTCTCTCA 58.752 55.000 0.00 0.00 41.89 3.27
1461 1615 2.742372 CCGGAAGCACACGAAGGG 60.742 66.667 0.00 0.00 0.00 3.95
1463 1617 2.317609 CCACCGGAAGCACACGAAG 61.318 63.158 9.46 0.00 0.00 3.79
1464 1618 2.280524 CCACCGGAAGCACACGAA 60.281 61.111 9.46 0.00 0.00 3.85
1466 1620 3.345808 CACCACCGGAAGCACACG 61.346 66.667 9.46 0.00 0.00 4.49
1467 1621 2.978010 CCACCACCGGAAGCACAC 60.978 66.667 9.46 0.00 0.00 3.82
1468 1622 3.164977 TCCACCACCGGAAGCACA 61.165 61.111 9.46 0.00 29.93 4.57
1469 1623 2.358737 CTCCACCACCGGAAGCAC 60.359 66.667 9.46 0.00 33.65 4.40
1471 1625 1.376037 CTTCTCCACCACCGGAAGC 60.376 63.158 9.46 0.00 33.65 3.86
1475 1629 0.247736 CTCTTCTTCTCCACCACCGG 59.752 60.000 0.00 0.00 0.00 5.28
1477 1631 2.551071 CCAACTCTTCTTCTCCACCACC 60.551 54.545 0.00 0.00 0.00 4.61
1483 1637 1.355066 CGCGCCAACTCTTCTTCTCC 61.355 60.000 0.00 0.00 0.00 3.71
1484 1638 0.667792 ACGCGCCAACTCTTCTTCTC 60.668 55.000 5.73 0.00 0.00 2.87
1485 1639 0.946221 CACGCGCCAACTCTTCTTCT 60.946 55.000 5.73 0.00 0.00 2.85
1486 1640 1.493311 CACGCGCCAACTCTTCTTC 59.507 57.895 5.73 0.00 0.00 2.87
1487 1641 2.607892 GCACGCGCCAACTCTTCTT 61.608 57.895 5.73 0.00 0.00 2.52
1488 1642 3.044305 GCACGCGCCAACTCTTCT 61.044 61.111 5.73 0.00 0.00 2.85
1666 1830 2.743928 GCACTGCTCCGGTGAAGG 60.744 66.667 15.95 6.11 42.79 3.46
1869 2033 3.277211 CTCCTCGGCGGTGTCGAAA 62.277 63.158 7.21 0.00 39.77 3.46
1938 2102 0.680061 AGGTGGAGAAGTTGGTCGTC 59.320 55.000 0.00 0.00 0.00 4.20
1956 2120 3.650409 CTCCGAATTCGTGGAGGAG 57.350 57.895 25.10 18.97 46.55 3.69
1960 2124 2.582436 GCCCTCCGAATTCGTGGA 59.418 61.111 27.80 18.35 37.74 4.02
1965 2129 4.483243 TGGGCGCCCTCCGAATTC 62.483 66.667 43.34 16.73 40.02 2.17
1966 2130 4.489771 CTGGGCGCCCTCCGAATT 62.490 66.667 43.34 0.00 40.02 2.17
2433 2609 4.023128 CGACAAAATACTCTCGAGTCTCG 58.977 47.826 16.33 16.33 42.54 4.04
2434 2610 4.789119 CACGACAAAATACTCTCGAGTCTC 59.211 45.833 13.13 0.00 42.54 3.36
2435 2611 4.215827 ACACGACAAAATACTCTCGAGTCT 59.784 41.667 13.13 0.93 42.54 3.24
2436 2612 4.474113 ACACGACAAAATACTCTCGAGTC 58.526 43.478 13.13 0.00 42.54 3.36
2437 2613 4.500603 ACACGACAAAATACTCTCGAGT 57.499 40.909 13.13 4.81 45.02 4.18
2438 2614 4.491241 CGTACACGACAAAATACTCTCGAG 59.509 45.833 5.93 5.93 43.02 4.04
2510 2686 1.263484 TCTCGTCGACTCAACACAGAC 59.737 52.381 14.70 0.00 0.00 3.51
2535 2712 2.883386 ACTCTACCCGGATCGTACATTC 59.117 50.000 0.73 0.00 0.00 2.67
2542 2719 2.165845 AGTGAAAACTCTACCCGGATCG 59.834 50.000 0.73 0.00 0.00 3.69
2601 2788 1.067212 GTATCGGAGTGGGCAGTACAG 59.933 57.143 0.00 0.00 0.00 2.74
2609 2799 2.279517 GCAGCGTATCGGAGTGGG 60.280 66.667 0.00 0.00 0.00 4.61
2636 2826 6.722972 GTGAACAACACCTATACGTATACG 57.277 41.667 23.24 23.24 43.05 3.06
2742 2954 2.042639 CCCATTTGGAGCAGGGGG 60.043 66.667 0.00 0.00 37.66 5.40
2823 3035 1.670811 CCGGCAGATAATTTCGCAACT 59.329 47.619 0.00 0.00 0.00 3.16
2873 3092 2.752030 CACTCCCTAGATCCCAAGTCA 58.248 52.381 0.00 0.00 0.00 3.41
2885 3104 1.592400 CTCGAACACGGCACTCCCTA 61.592 60.000 0.00 0.00 0.00 3.53
2889 3108 0.232303 CAAACTCGAACACGGCACTC 59.768 55.000 0.00 0.00 0.00 3.51
2900 3119 1.271379 ACTGTACCGATGCAAACTCGA 59.729 47.619 9.69 0.00 38.38 4.04
2901 3120 1.710013 ACTGTACCGATGCAAACTCG 58.290 50.000 1.17 1.17 35.92 4.18
2999 3220 3.430453 CCATGAATACCCAAACACCTGT 58.570 45.455 0.00 0.00 0.00 4.00
3054 3278 2.519541 CCGAGCCCGATCTCAGGA 60.520 66.667 0.00 0.00 38.22 3.86
3283 3526 2.940410 ACCTTGGTACGTGTTCTTGTTG 59.060 45.455 0.00 0.00 0.00 3.33
3285 3528 2.168936 TCACCTTGGTACGTGTTCTTGT 59.831 45.455 0.00 0.00 0.00 3.16
3348 3591 3.702048 TTCCTTCCCGCCGGTCTG 61.702 66.667 1.90 0.00 0.00 3.51
3352 3595 2.186125 GTAGTTCCTTCCCGCCGG 59.814 66.667 0.00 0.00 0.00 6.13
3359 3602 2.098831 GCCGCCACGTAGTTCCTTC 61.099 63.158 0.00 0.00 41.61 3.46
3382 3625 1.135083 AGAAACAGTAGGCATCGTCGG 60.135 52.381 0.00 0.00 0.00 4.79
3386 3629 5.613358 AAAGAAAGAAACAGTAGGCATCG 57.387 39.130 0.00 0.00 0.00 3.84
3407 3650 9.454153 AGGCATCAACCGTTTCTCAAAAAGAAA 62.454 37.037 0.00 0.00 43.31 2.52
3408 3651 5.040635 GCATCAACCGTTTCTCAAAAAGAA 58.959 37.500 0.00 0.00 42.35 2.52
3409 3652 4.499019 GGCATCAACCGTTTCTCAAAAAGA 60.499 41.667 0.00 0.00 0.00 2.52
3410 3653 3.735746 GGCATCAACCGTTTCTCAAAAAG 59.264 43.478 0.00 0.00 0.00 2.27
3411 3654 3.383185 AGGCATCAACCGTTTCTCAAAAA 59.617 39.130 0.00 0.00 33.69 1.94
3412 3655 2.955660 AGGCATCAACCGTTTCTCAAAA 59.044 40.909 0.00 0.00 33.69 2.44
3413 3656 2.582052 AGGCATCAACCGTTTCTCAAA 58.418 42.857 0.00 0.00 33.69 2.69
3414 3657 2.270352 AGGCATCAACCGTTTCTCAA 57.730 45.000 0.00 0.00 33.69 3.02
3415 3658 2.301870 AGTAGGCATCAACCGTTTCTCA 59.698 45.455 0.00 0.00 33.69 3.27
3416 3659 2.673368 CAGTAGGCATCAACCGTTTCTC 59.327 50.000 0.00 0.00 33.69 2.87
3417 3660 2.699954 CAGTAGGCATCAACCGTTTCT 58.300 47.619 0.00 0.00 33.69 2.52
3418 3661 1.130561 GCAGTAGGCATCAACCGTTTC 59.869 52.381 0.00 0.00 43.97 2.78
3419 3662 1.165270 GCAGTAGGCATCAACCGTTT 58.835 50.000 0.00 0.00 43.97 3.60
3420 3663 2.854522 GCAGTAGGCATCAACCGTT 58.145 52.632 0.00 0.00 43.97 4.44
3421 3664 4.617875 GCAGTAGGCATCAACCGT 57.382 55.556 0.00 0.00 43.97 4.83
3430 3673 1.153745 CGTCACCTCAGCAGTAGGC 60.154 63.158 0.00 0.00 45.30 3.93
3431 3674 0.171455 GTCGTCACCTCAGCAGTAGG 59.829 60.000 0.00 0.00 40.20 3.18
3432 3675 0.179187 CGTCGTCACCTCAGCAGTAG 60.179 60.000 0.00 0.00 0.00 2.57
3433 3676 0.604511 TCGTCGTCACCTCAGCAGTA 60.605 55.000 0.00 0.00 0.00 2.74
3434 3677 1.857318 CTCGTCGTCACCTCAGCAGT 61.857 60.000 0.00 0.00 0.00 4.40
3435 3678 1.154131 CTCGTCGTCACCTCAGCAG 60.154 63.158 0.00 0.00 0.00 4.24
3436 3679 1.897137 ACTCGTCGTCACCTCAGCA 60.897 57.895 0.00 0.00 0.00 4.41
3437 3680 1.442857 CACTCGTCGTCACCTCAGC 60.443 63.158 0.00 0.00 0.00 4.26
3438 3681 1.442857 GCACTCGTCGTCACCTCAG 60.443 63.158 0.00 0.00 0.00 3.35
3439 3682 2.643272 GCACTCGTCGTCACCTCA 59.357 61.111 0.00 0.00 0.00 3.86
3440 3683 2.126424 GGCACTCGTCGTCACCTC 60.126 66.667 0.00 0.00 0.00 3.85
3441 3684 4.039357 CGGCACTCGTCGTCACCT 62.039 66.667 0.00 0.00 34.87 4.00
3450 3693 3.110178 GGGTCGAAACGGCACTCG 61.110 66.667 0.00 0.00 45.88 4.18
3451 3694 2.027625 CAGGGTCGAAACGGCACTC 61.028 63.158 0.00 0.00 43.71 3.51
3453 3696 2.280592 ACAGGGTCGAAACGGCAC 60.281 61.111 0.00 0.00 33.87 5.01
3454 3697 2.280524 CACAGGGTCGAAACGGCA 60.281 61.111 0.00 0.00 30.88 5.69
3455 3698 3.723348 GCACAGGGTCGAAACGGC 61.723 66.667 0.00 0.00 0.00 5.68
3456 3699 2.280524 TGCACAGGGTCGAAACGG 60.281 61.111 0.00 0.00 0.00 4.44
3457 3700 1.557443 GAGTGCACAGGGTCGAAACG 61.557 60.000 21.04 0.00 0.00 3.60
3458 3701 1.557443 CGAGTGCACAGGGTCGAAAC 61.557 60.000 21.04 0.00 34.28 2.78
3459 3702 1.300620 CGAGTGCACAGGGTCGAAA 60.301 57.895 21.04 0.00 34.28 3.46
3460 3703 2.338620 CGAGTGCACAGGGTCGAA 59.661 61.111 21.04 0.00 34.28 3.71
3461 3704 2.910479 ACGAGTGCACAGGGTCGA 60.910 61.111 26.78 0.00 36.30 4.20
3462 3705 2.421877 AAGACGAGTGCACAGGGTCG 62.422 60.000 21.04 20.81 38.40 4.79
3463 3706 0.667792 GAAGACGAGTGCACAGGGTC 60.668 60.000 21.04 20.77 0.00 4.46
3464 3707 1.367840 GAAGACGAGTGCACAGGGT 59.632 57.895 21.04 13.31 0.00 4.34
3465 3708 0.946221 GTGAAGACGAGTGCACAGGG 60.946 60.000 21.04 9.91 0.00 4.45
3466 3709 2.522060 GTGAAGACGAGTGCACAGG 58.478 57.895 21.04 12.62 0.00 4.00
3476 3719 0.165944 GTTTGATGGCCGTGAAGACG 59.834 55.000 0.00 0.00 45.67 4.18
3477 3720 1.234821 TGTTTGATGGCCGTGAAGAC 58.765 50.000 0.00 2.37 0.00 3.01
3478 3721 2.198827 ATGTTTGATGGCCGTGAAGA 57.801 45.000 0.00 0.00 0.00 2.87
3479 3722 2.223021 CGTATGTTTGATGGCCGTGAAG 60.223 50.000 0.00 0.00 0.00 3.02
3480 3723 1.735018 CGTATGTTTGATGGCCGTGAA 59.265 47.619 0.00 0.00 0.00 3.18
3481 3724 1.364721 CGTATGTTTGATGGCCGTGA 58.635 50.000 0.00 0.00 0.00 4.35
3482 3725 0.376852 CCGTATGTTTGATGGCCGTG 59.623 55.000 0.00 0.00 0.00 4.94
3483 3726 0.035820 ACCGTATGTTTGATGGCCGT 60.036 50.000 0.00 0.00 0.00 5.68
3484 3727 0.376852 CACCGTATGTTTGATGGCCG 59.623 55.000 0.00 0.00 0.00 6.13
3485 3728 0.738389 CCACCGTATGTTTGATGGCC 59.262 55.000 0.00 0.00 0.00 5.36
3486 3729 0.100503 GCCACCGTATGTTTGATGGC 59.899 55.000 0.00 0.00 45.26 4.40
3487 3730 0.738389 GGCCACCGTATGTTTGATGG 59.262 55.000 0.00 0.00 0.00 3.51
3488 3731 0.376852 CGGCCACCGTATGTTTGATG 59.623 55.000 2.24 0.00 42.73 3.07
3489 3732 2.775351 CGGCCACCGTATGTTTGAT 58.225 52.632 2.24 0.00 42.73 2.57
3490 3733 4.287580 CGGCCACCGTATGTTTGA 57.712 55.556 2.24 0.00 42.73 2.69
3504 3747 3.123620 CAAGACAGCAGGCTCGGC 61.124 66.667 0.00 0.00 0.00 5.54
3505 3748 3.123620 GCAAGACAGCAGGCTCGG 61.124 66.667 0.00 0.00 0.00 4.63
3506 3749 3.485431 CGCAAGACAGCAGGCTCG 61.485 66.667 0.00 0.00 43.02 5.03
3507 3750 3.123620 CCGCAAGACAGCAGGCTC 61.124 66.667 0.00 0.00 43.02 4.70
3527 3770 3.605664 AACAAACTGCCGGCCTGC 61.606 61.111 26.77 12.95 0.00 4.85
3528 3771 2.336088 CAACAAACTGCCGGCCTG 59.664 61.111 26.77 19.48 0.00 4.85
3529 3772 2.690653 TAGCAACAAACTGCCGGCCT 62.691 55.000 26.77 12.77 43.73 5.19
3530 3773 2.200170 CTAGCAACAAACTGCCGGCC 62.200 60.000 26.77 6.44 43.73 6.13
3531 3774 1.210155 CTAGCAACAAACTGCCGGC 59.790 57.895 22.73 22.73 43.73 6.13
3532 3775 0.605319 TCCTAGCAACAAACTGCCGG 60.605 55.000 0.00 0.00 43.73 6.13
3533 3776 0.798776 CTCCTAGCAACAAACTGCCG 59.201 55.000 0.00 0.00 43.73 5.69
3534 3777 2.079925 CTCTCCTAGCAACAAACTGCC 58.920 52.381 0.00 0.00 43.73 4.85
3571 3814 4.063967 TCGTGCGGGTGGCTGTAG 62.064 66.667 0.00 0.00 44.05 2.74
3572 3815 4.367023 GTCGTGCGGGTGGCTGTA 62.367 66.667 0.00 0.00 44.05 2.74
3587 3830 4.367023 TGTGGCCTGCGTACCGTC 62.367 66.667 3.32 0.00 0.00 4.79
3588 3831 4.373116 CTGTGGCCTGCGTACCGT 62.373 66.667 3.32 0.00 0.00 4.83
3601 3844 3.964875 GTGCGGTGTTGGGCTGTG 61.965 66.667 0.00 0.00 0.00 3.66
3619 3862 4.435436 TAGCAGCGTGTGGGAGCG 62.435 66.667 0.00 0.00 38.61 5.03
3620 3863 2.510238 CTAGCAGCGTGTGGGAGC 60.510 66.667 0.00 0.00 0.00 4.70
3621 3864 2.510238 GCTAGCAGCGTGTGGGAG 60.510 66.667 10.63 0.00 0.00 4.30


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

AutoCloner maintained by Alex Coulton.