Multiple sequence alignment - TraesCS6A01G371700

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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 TraesCS6A01G371700 chr6A 100.000 4108 0 0 411 4518 595674174 595670067 0.000000e+00 7587.0
1 TraesCS6A01G371700 chr6A 92.086 1870 133 11 1685 3547 595693953 595692092 0.000000e+00 2619.0
2 TraesCS6A01G371700 chr6A 84.475 438 47 15 4041 4473 595691693 595691272 3.250000e-111 412.0
3 TraesCS6A01G371700 chr6A 94.030 134 8 0 3912 4045 595691870 595691737 2.130000e-48 204.0
4 TraesCS6A01G371700 chr6A 100.000 43 0 0 1 43 595674584 595674542 3.750000e-11 80.5
5 TraesCS6A01G371700 chr6D 91.189 3212 227 32 415 3603 450202425 450199247 0.000000e+00 4313.0
6 TraesCS6A01G371700 chr6D 96.540 2081 51 7 1686 3754 450198576 450196505 0.000000e+00 3424.0
7 TraesCS6A01G371700 chr6D 89.463 484 30 16 4041 4518 450196324 450195856 3.890000e-165 592.0
8 TraesCS6A01G371700 chr6D 96.014 276 5 4 1369 1644 450199053 450198784 1.150000e-120 444.0
9 TraesCS6A01G371700 chr6D 94.030 134 8 0 3912 4045 450196508 450196375 2.130000e-48 204.0
10 TraesCS6A01G371700 chr6D 92.500 80 6 0 3912 3991 450199118 450199039 1.030000e-21 115.0
11 TraesCS6A01G371700 chr6D 97.561 41 1 0 1 41 450202735 450202695 2.250000e-08 71.3
12 TraesCS6A01G371700 chr6B 89.742 3373 266 52 411 3754 682683352 682680031 0.000000e+00 4239.0
13 TraesCS6A01G371700 chr6B 92.553 2068 129 12 1697 3750 682671245 682669189 0.000000e+00 2942.0
14 TraesCS6A01G371700 chr6B 91.820 1907 138 12 1694 3591 682718367 682716470 0.000000e+00 2641.0
15 TraesCS6A01G371700 chr6B 92.773 1107 69 6 559 1657 682672570 682671467 0.000000e+00 1591.0
16 TraesCS6A01G371700 chr6B 90.449 1225 89 19 411 1621 682719921 682718711 0.000000e+00 1589.0
17 TraesCS6A01G371700 chr6B 92.586 1079 68 7 411 1479 682709003 682707927 0.000000e+00 1539.0
18 TraesCS6A01G371700 chr6B 80.912 592 64 21 3912 4473 682716351 682715779 5.400000e-114 422.0
19 TraesCS6A01G371700 chr6B 79.912 453 62 15 4041 4473 682679856 682679413 5.680000e-79 305.0
20 TraesCS6A01G371700 chr6B 89.404 151 12 3 4321 4469 682669171 682669023 2.150000e-43 187.0
21 TraesCS6A01G371700 chr6B 90.441 136 12 1 3912 4046 682680034 682679899 1.290000e-40 178.0
22 TraesCS6A01G371700 chr6B 86.875 160 16 4 3755 3910 697606196 697606354 1.670000e-39 174.0
23 TraesCS6A01G371700 chr6B 97.561 41 1 0 1 41 682683414 682683374 2.250000e-08 71.3
24 TraesCS6A01G371700 chr4D 88.462 156 12 2 3755 3910 10394447 10394298 2.780000e-42 183.0
25 TraesCS6A01G371700 chr3A 87.671 146 10 4 3755 3899 428442980 428443118 3.620000e-36 163.0
26 TraesCS6A01G371700 chr3A 84.270 178 13 8 3755 3918 37342030 37342206 4.680000e-35 159.0
27 TraesCS6A01G371700 chr3A 84.667 150 17 5 3755 3899 76547391 76547243 1.310000e-30 145.0
28 TraesCS6A01G371700 chr3A 81.633 196 14 13 3728 3910 705546187 705546373 4.710000e-30 143.0
29 TraesCS6A01G371700 chr3A 83.766 154 17 4 1974 2126 121652230 121652376 6.090000e-29 139.0
30 TraesCS6A01G371700 chr5A 83.908 174 16 9 3755 3919 552277383 552277553 6.050000e-34 156.0
31 TraesCS6A01G371700 chr5A 84.000 150 14 3 1977 2126 338234108 338233969 7.880000e-28 135.0
32 TraesCS6A01G371700 chr1B 84.810 158 17 3 3755 3906 13392458 13392614 7.830000e-33 152.0
33 TraesCS6A01G371700 chr7A 84.768 151 15 4 3755 3899 721066864 721067012 1.310000e-30 145.0
34 TraesCS6A01G371700 chr2A 86.667 75 8 2 2004 2077 117384428 117384355 1.040000e-11 82.4
35 TraesCS6A01G371700 chr2A 93.478 46 3 0 1969 2014 55179632 55179587 8.110000e-08 69.4
36 TraesCS6A01G371700 chr2D 93.023 43 3 0 1972 2014 54698608 54698566 3.770000e-06 63.9


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 TraesCS6A01G371700 chr6A 595670067 595674584 4517 True 3833.750000 7587 100.000000 1 4518 2 chr6A.!!$R1 4517
1 TraesCS6A01G371700 chr6A 595691272 595693953 2681 True 1078.333333 2619 90.197000 1685 4473 3 chr6A.!!$R2 2788
2 TraesCS6A01G371700 chr6D 450195856 450202735 6879 True 1309.042857 4313 93.899571 1 4518 7 chr6D.!!$R1 4517
3 TraesCS6A01G371700 chr6B 682669023 682672570 3547 True 1573.333333 2942 91.576667 559 4469 3 chr6B.!!$R2 3910
4 TraesCS6A01G371700 chr6B 682715779 682719921 4142 True 1550.666667 2641 87.727000 411 4473 3 chr6B.!!$R4 4062
5 TraesCS6A01G371700 chr6B 682707927 682709003 1076 True 1539.000000 1539 92.586000 411 1479 1 chr6B.!!$R1 1068
6 TraesCS6A01G371700 chr6B 682679413 682683414 4001 True 1198.325000 4239 89.414000 1 4473 4 chr6B.!!$R3 4472

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
476 477 0.546507 TAGGATGCCTGGACCACACA 60.547 55.0 0.00 0.0 34.61 3.72 F
686 688 0.815734 CCCATGGCAGAAAGAGCAAG 59.184 55.0 6.09 0.0 0.00 4.01 F
1812 2099 0.329261 CCTCCCCTTGCTCACATCAA 59.671 55.0 0.00 0.0 0.00 2.57 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1789 2076 1.075659 GTGAGCAAGGGGAGGCTTT 59.924 57.895 0.0 0.0 41.22 3.51 R
2040 2329 4.282703 GTCCGACATATACCTTACACCCAT 59.717 45.833 0.0 0.0 0.00 4.00 R
3788 6735 0.109342 ATAGCTGATTTGGAGGCCCG 59.891 55.000 0.0 0.0 34.29 6.13 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
446 447 2.100605 GGATTCTATCCCGCCATGTC 57.899 55.000 0.00 0.00 43.88 3.06
465 466 1.486310 TCTGTCACCATGTAGGATGCC 59.514 52.381 0.00 0.00 41.22 4.40
476 477 0.546507 TAGGATGCCTGGACCACACA 60.547 55.000 0.00 0.00 34.61 3.72
496 497 3.443681 ACATGCCCACTTTGTGCTATTAC 59.556 43.478 0.00 0.00 31.34 1.89
508 509 6.398234 TTGTGCTATTACCTCTTTTGCAAA 57.602 33.333 8.05 8.05 0.00 3.68
509 510 5.768317 TGTGCTATTACCTCTTTTGCAAAC 58.232 37.500 12.39 0.00 0.00 2.93
686 688 0.815734 CCCATGGCAGAAAGAGCAAG 59.184 55.000 6.09 0.00 0.00 4.01
691 693 1.271054 TGGCAGAAAGAGCAAGAGGAC 60.271 52.381 0.00 0.00 0.00 3.85
820 822 8.010697 TCTACATCCCATGAAAGAGGAACTATA 58.989 37.037 0.00 0.00 41.55 1.31
936 938 3.239449 TCTTCTCTTTCCAGTGGCAGTA 58.761 45.455 3.51 0.00 0.00 2.74
1083 1086 8.757982 ATATGCATAGAAACCTTCAAGTGATT 57.242 30.769 12.79 0.00 0.00 2.57
1095 1098 6.590292 ACCTTCAAGTGATTAGTATGTTCACG 59.410 38.462 0.00 0.00 43.49 4.35
1099 1102 8.771920 TCAAGTGATTAGTATGTTCACGAATT 57.228 30.769 0.00 0.00 43.49 2.17
1141 1151 3.878086 TGCATCTTCTTTGACGTTGAC 57.122 42.857 0.00 0.00 0.00 3.18
1197 1208 8.678199 TCAACAGAAACAACAATGTACACAATA 58.322 29.630 0.00 0.00 39.40 1.90
1224 1235 3.678056 TCTATTCAACTTGGTGCTCGT 57.322 42.857 0.00 0.00 0.00 4.18
1332 1343 8.206867 CAGGATGAAGTATCTATTTCAAGGTCA 58.793 37.037 0.13 0.00 39.69 4.02
1431 1444 9.820229 TTCATTGAAAATCTATTGACGTACAAC 57.180 29.630 0.00 0.00 41.52 3.32
1439 1452 8.603242 AATCTATTGACGTACAACTTTTCACT 57.397 30.769 0.00 0.00 41.52 3.41
1587 1602 8.602424 TGTCTATCTATTTTTCTTCACCAAGGA 58.398 33.333 0.00 0.00 0.00 3.36
1650 1665 6.479660 ACATTTTGTGTCAAACTTTAGCCATG 59.520 34.615 0.00 0.00 35.77 3.66
1757 2042 7.613022 TGCTTTGAAATGGAATGAATCTCTACT 59.387 33.333 0.00 0.00 0.00 2.57
1789 2076 5.221945 TGAGGTGGTTGTATGTTCATTGGTA 60.222 40.000 0.00 0.00 0.00 3.25
1804 2091 1.140134 TGGTAAAGCCTCCCCTTGCT 61.140 55.000 0.00 0.00 40.17 3.91
1812 2099 0.329261 CCTCCCCTTGCTCACATCAA 59.671 55.000 0.00 0.00 0.00 2.57
1835 2122 7.547722 TCAAGCATCAATCCAATCAAATCAAAG 59.452 33.333 0.00 0.00 0.00 2.77
1920 2209 7.468141 AATCGGTCATTCTAGCTATATGTCA 57.532 36.000 12.95 0.00 0.00 3.58
2063 2352 3.638160 TGGGTGTAAGGTATATGTCGGAC 59.362 47.826 0.00 0.00 0.00 4.79
2277 5148 2.468777 GCACGAAAACATGAAACTGCAG 59.531 45.455 13.48 13.48 0.00 4.41
2683 5556 7.414222 AGCATGTATGGAGTCATTTCAAATT 57.586 32.000 0.00 0.00 34.96 1.82
2954 5828 2.668279 CGAAAACGCATGGAAAGGGAAG 60.668 50.000 0.00 0.00 0.00 3.46
2967 5841 3.751479 AAGGGAAGAAAACATGGCAAC 57.249 42.857 0.00 0.00 0.00 4.17
2981 5855 2.294074 TGGCAACGTTAATGGATAGCC 58.706 47.619 13.42 13.42 41.15 3.93
3030 5904 1.654105 CGTGAAGACTCGCCATACAAC 59.346 52.381 0.00 0.00 0.00 3.32
3247 6122 0.251165 GAGCCTTACAACTTGGGGCA 60.251 55.000 18.42 0.00 44.60 5.36
3273 6148 3.868757 TGACGAGTTCCAGTATTCCAG 57.131 47.619 0.00 0.00 0.00 3.86
3307 6182 5.305585 AGTGACGAACCATGTGAAGTTATT 58.694 37.500 0.00 0.00 0.00 1.40
3612 6546 0.399376 TACCATGTAGGGTCGGGCAT 60.399 55.000 0.00 0.00 43.89 4.40
3681 6624 6.610075 AAGTGCCATTGAAAGATTTACCAT 57.390 33.333 0.00 0.00 0.00 3.55
3710 6657 8.343366 CAGTCCATAAAGATTGAATCATGAGTG 58.657 37.037 0.00 4.16 0.00 3.51
3711 6658 8.270030 AGTCCATAAAGATTGAATCATGAGTGA 58.730 33.333 0.00 0.00 39.04 3.41
3712 6659 8.557864 GTCCATAAAGATTGAATCATGAGTGAG 58.442 37.037 0.00 0.00 37.87 3.51
3713 6660 8.270030 TCCATAAAGATTGAATCATGAGTGAGT 58.730 33.333 0.00 0.00 37.87 3.41
3750 6697 6.719370 AGAAATCAGATAGCTTACTCTCCGAT 59.281 38.462 0.00 0.00 0.00 4.18
3751 6698 6.909550 AATCAGATAGCTTACTCTCCGATT 57.090 37.500 0.00 0.00 0.00 3.34
3752 6699 6.909550 ATCAGATAGCTTACTCTCCGATTT 57.090 37.500 0.00 0.00 0.00 2.17
3753 6700 8.410673 AATCAGATAGCTTACTCTCCGATTTA 57.589 34.615 0.00 0.00 27.35 1.40
3754 6701 7.818997 TCAGATAGCTTACTCTCCGATTTAA 57.181 36.000 0.00 0.00 0.00 1.52
3755 6702 8.234136 TCAGATAGCTTACTCTCCGATTTAAA 57.766 34.615 0.00 0.00 0.00 1.52
3756 6703 8.861086 TCAGATAGCTTACTCTCCGATTTAAAT 58.139 33.333 0.00 0.00 0.00 1.40
3757 6704 8.920665 CAGATAGCTTACTCTCCGATTTAAATG 58.079 37.037 5.17 0.00 0.00 2.32
3758 6705 8.643324 AGATAGCTTACTCTCCGATTTAAATGT 58.357 33.333 5.17 0.00 0.00 2.71
3759 6706 9.262358 GATAGCTTACTCTCCGATTTAAATGTT 57.738 33.333 5.17 0.00 0.00 2.71
3760 6707 7.923414 AGCTTACTCTCCGATTTAAATGTTT 57.077 32.000 5.17 0.00 0.00 2.83
3761 6708 8.336801 AGCTTACTCTCCGATTTAAATGTTTT 57.663 30.769 5.17 0.00 0.00 2.43
3762 6709 9.444600 AGCTTACTCTCCGATTTAAATGTTTTA 57.555 29.630 5.17 0.00 0.00 1.52
3769 6716 9.710979 TCTCCGATTTAAATGTTTTAAATAGCG 57.289 29.630 5.17 14.16 35.44 4.26
3770 6717 8.844441 TCCGATTTAAATGTTTTAAATAGCGG 57.156 30.769 23.23 23.23 39.94 5.52
3771 6718 7.916450 TCCGATTTAAATGTTTTAAATAGCGGG 59.084 33.333 25.62 19.18 39.54 6.13
3772 6719 7.306341 CCGATTTAAATGTTTTAAATAGCGGGC 60.306 37.037 22.42 10.56 37.69 6.13
3773 6720 7.434013 CGATTTAAATGTTTTAAATAGCGGGCT 59.566 33.333 5.17 0.00 35.44 5.19
3774 6721 9.738832 GATTTAAATGTTTTAAATAGCGGGCTA 57.261 29.630 5.17 2.42 35.44 3.93
3776 6723 9.522804 TTTAAATGTTTTAAATAGCGGGCTATG 57.477 29.630 13.53 0.00 39.03 2.23
3777 6724 5.705609 ATGTTTTAAATAGCGGGCTATGG 57.294 39.130 13.53 0.00 39.03 2.74
3778 6725 4.783055 TGTTTTAAATAGCGGGCTATGGA 58.217 39.130 13.53 2.82 39.03 3.41
3779 6726 5.194432 TGTTTTAAATAGCGGGCTATGGAA 58.806 37.500 13.53 8.30 39.03 3.53
3780 6727 5.652891 TGTTTTAAATAGCGGGCTATGGAAA 59.347 36.000 13.53 12.97 39.03 3.13
3781 6728 6.153000 TGTTTTAAATAGCGGGCTATGGAAAA 59.847 34.615 13.53 17.02 39.03 2.29
3782 6729 6.969993 TTTAAATAGCGGGCTATGGAAAAT 57.030 33.333 13.53 0.00 39.03 1.82
3783 6730 8.354426 GTTTTAAATAGCGGGCTATGGAAAATA 58.646 33.333 22.50 9.79 39.03 1.40
3784 6731 7.681939 TTAAATAGCGGGCTATGGAAAATAG 57.318 36.000 13.53 0.00 39.03 1.73
3785 6732 4.910458 ATAGCGGGCTATGGAAAATAGT 57.090 40.909 12.15 0.00 37.80 2.12
3786 6733 2.851195 AGCGGGCTATGGAAAATAGTG 58.149 47.619 0.00 0.00 0.00 2.74
3787 6734 1.880027 GCGGGCTATGGAAAATAGTGG 59.120 52.381 0.00 0.00 0.00 4.00
3788 6735 1.880027 CGGGCTATGGAAAATAGTGGC 59.120 52.381 0.00 0.00 0.00 5.01
3789 6736 1.880027 GGGCTATGGAAAATAGTGGCG 59.120 52.381 0.00 0.00 0.00 5.69
3790 6737 1.880027 GGCTATGGAAAATAGTGGCGG 59.120 52.381 0.00 0.00 0.00 6.13
3791 6738 1.880027 GCTATGGAAAATAGTGGCGGG 59.120 52.381 0.00 0.00 0.00 6.13
3792 6739 1.880027 CTATGGAAAATAGTGGCGGGC 59.120 52.381 0.00 0.00 0.00 6.13
3793 6740 0.755327 ATGGAAAATAGTGGCGGGCC 60.755 55.000 1.86 1.86 0.00 5.80
3794 6741 1.076995 GGAAAATAGTGGCGGGCCT 60.077 57.895 11.55 0.54 36.94 5.19
3795 6742 1.101635 GGAAAATAGTGGCGGGCCTC 61.102 60.000 11.55 7.48 36.94 4.70
3796 6743 1.076995 AAAATAGTGGCGGGCCTCC 60.077 57.895 5.34 5.34 36.94 4.30
3797 6744 1.858739 AAAATAGTGGCGGGCCTCCA 61.859 55.000 12.19 12.19 36.94 3.86
3798 6745 1.858739 AAATAGTGGCGGGCCTCCAA 61.859 55.000 18.61 2.48 35.01 3.53
3799 6746 1.858739 AATAGTGGCGGGCCTCCAAA 61.859 55.000 18.61 9.17 35.01 3.28
3800 6747 1.645402 ATAGTGGCGGGCCTCCAAAT 61.645 55.000 18.61 11.24 35.01 2.32
3801 6748 2.265467 TAGTGGCGGGCCTCCAAATC 62.265 60.000 18.61 5.05 35.01 2.17
3802 6749 3.656280 TGGCGGGCCTCCAAATCA 61.656 61.111 14.10 0.00 36.94 2.57
3803 6750 2.830370 GGCGGGCCTCCAAATCAG 60.830 66.667 7.92 0.00 0.00 2.90
3804 6751 3.521796 GCGGGCCTCCAAATCAGC 61.522 66.667 0.84 0.00 0.00 4.26
3805 6752 2.273449 CGGGCCTCCAAATCAGCT 59.727 61.111 0.84 0.00 0.00 4.24
3806 6753 1.526887 CGGGCCTCCAAATCAGCTA 59.473 57.895 0.84 0.00 0.00 3.32
3807 6754 0.109342 CGGGCCTCCAAATCAGCTAT 59.891 55.000 0.84 0.00 0.00 2.97
3808 6755 1.347707 CGGGCCTCCAAATCAGCTATA 59.652 52.381 0.84 0.00 0.00 1.31
3809 6756 2.613977 CGGGCCTCCAAATCAGCTATAG 60.614 54.545 0.84 0.00 0.00 1.31
3810 6757 2.431454 GGCCTCCAAATCAGCTATAGC 58.569 52.381 17.33 17.33 42.49 2.97
3811 6758 2.224621 GGCCTCCAAATCAGCTATAGCA 60.225 50.000 26.07 7.38 45.16 3.49
3812 6759 3.072944 GCCTCCAAATCAGCTATAGCAG 58.927 50.000 26.07 18.60 45.16 4.24
3813 6760 3.244353 GCCTCCAAATCAGCTATAGCAGA 60.244 47.826 26.07 23.24 45.16 4.26
3814 6761 4.567971 CCTCCAAATCAGCTATAGCAGAG 58.432 47.826 26.07 15.15 45.16 3.35
3815 6762 4.563168 CCTCCAAATCAGCTATAGCAGAGG 60.563 50.000 26.07 19.39 45.16 3.69
3816 6763 3.072944 CCAAATCAGCTATAGCAGAGGC 58.927 50.000 26.07 0.00 45.16 4.70
3825 6772 4.244231 GCTATAGCAGAGGCGGAGCTATA 61.244 52.174 20.01 19.29 46.52 1.31
3826 6773 5.700750 GCTATAGCAGAGGCGGAGCTATAA 61.701 50.000 20.01 10.44 46.93 0.98
3827 6774 7.666525 GCTATAGCAGAGGCGGAGCTATAAC 62.667 52.000 20.01 15.41 46.93 1.89
3838 6785 4.632153 CGGAGCTATAACAGGCTATTTGT 58.368 43.478 0.00 0.00 39.05 2.83
3839 6786 4.449068 CGGAGCTATAACAGGCTATTTGTG 59.551 45.833 0.00 0.00 39.05 3.33
3840 6787 5.611374 GGAGCTATAACAGGCTATTTGTGA 58.389 41.667 0.00 0.00 39.05 3.58
3841 6788 6.055588 GGAGCTATAACAGGCTATTTGTGAA 58.944 40.000 0.00 0.00 39.05 3.18
3842 6789 6.203723 GGAGCTATAACAGGCTATTTGTGAAG 59.796 42.308 0.00 0.00 39.05 3.02
3843 6790 6.058183 AGCTATAACAGGCTATTTGTGAAGG 58.942 40.000 0.00 0.00 37.00 3.46
3844 6791 5.278022 GCTATAACAGGCTATTTGTGAAGGC 60.278 44.000 0.00 0.00 38.50 4.35
3845 6792 2.584835 ACAGGCTATTTGTGAAGGCA 57.415 45.000 0.00 0.00 40.56 4.75
3846 6793 2.875296 ACAGGCTATTTGTGAAGGCAA 58.125 42.857 0.00 0.00 40.56 4.52
3847 6794 2.558359 ACAGGCTATTTGTGAAGGCAAC 59.442 45.455 0.00 0.00 40.56 4.17
3848 6795 2.094545 CAGGCTATTTGTGAAGGCAACC 60.095 50.000 0.00 0.00 40.56 3.77
3849 6796 1.892474 GGCTATTTGTGAAGGCAACCA 59.108 47.619 0.00 0.00 38.14 3.67
3850 6797 2.497273 GGCTATTTGTGAAGGCAACCAT 59.503 45.455 0.00 0.00 38.14 3.55
3851 6798 3.055891 GGCTATTTGTGAAGGCAACCATT 60.056 43.478 0.00 0.00 38.14 3.16
3852 6799 4.563374 GGCTATTTGTGAAGGCAACCATTT 60.563 41.667 0.00 0.00 38.14 2.32
3853 6800 5.337169 GGCTATTTGTGAAGGCAACCATTTA 60.337 40.000 0.00 0.00 38.14 1.40
3854 6801 5.807011 GCTATTTGTGAAGGCAACCATTTAG 59.193 40.000 0.00 0.00 37.17 1.85
3855 6802 3.658757 TTGTGAAGGCAACCATTTAGC 57.341 42.857 0.00 0.00 37.17 3.09
3856 6803 1.539388 TGTGAAGGCAACCATTTAGCG 59.461 47.619 0.00 0.00 37.17 4.26
3857 6804 1.135402 GTGAAGGCAACCATTTAGCGG 60.135 52.381 0.00 0.00 37.17 5.52
3858 6805 0.179137 GAAGGCAACCATTTAGCGGC 60.179 55.000 0.00 0.00 37.17 6.53
3859 6806 0.897863 AAGGCAACCATTTAGCGGCA 60.898 50.000 1.45 0.00 37.17 5.69
3860 6807 1.153842 GGCAACCATTTAGCGGCAC 60.154 57.895 1.45 0.00 0.00 5.01
3861 6808 1.153842 GCAACCATTTAGCGGCACC 60.154 57.895 1.45 0.00 0.00 5.01
3862 6809 1.510844 CAACCATTTAGCGGCACCC 59.489 57.895 1.45 0.00 0.00 4.61
3863 6810 0.965363 CAACCATTTAGCGGCACCCT 60.965 55.000 1.45 0.00 0.00 4.34
3864 6811 0.621609 AACCATTTAGCGGCACCCTA 59.378 50.000 1.45 0.00 0.00 3.53
3865 6812 0.107361 ACCATTTAGCGGCACCCTAC 60.107 55.000 1.45 0.00 0.00 3.18
3866 6813 0.180406 CCATTTAGCGGCACCCTACT 59.820 55.000 1.45 0.00 0.00 2.57
3867 6814 1.299541 CATTTAGCGGCACCCTACTG 58.700 55.000 1.45 0.00 0.00 2.74
3868 6815 1.134521 CATTTAGCGGCACCCTACTGA 60.135 52.381 1.45 0.00 0.00 3.41
3869 6816 0.978151 TTTAGCGGCACCCTACTGAA 59.022 50.000 1.45 0.00 0.00 3.02
3870 6817 0.978151 TTAGCGGCACCCTACTGAAA 59.022 50.000 1.45 0.00 0.00 2.69
3871 6818 0.535335 TAGCGGCACCCTACTGAAAG 59.465 55.000 1.45 0.00 42.29 2.62
3872 6819 1.745489 GCGGCACCCTACTGAAAGG 60.745 63.158 0.00 0.00 39.30 3.11
3883 6830 5.603170 CCTACTGAAAGGGTTATAACGGA 57.397 43.478 9.46 0.00 39.30 4.69
3884 6831 5.598769 CCTACTGAAAGGGTTATAACGGAG 58.401 45.833 9.46 0.33 39.30 4.63
3885 6832 5.128335 CCTACTGAAAGGGTTATAACGGAGT 59.872 44.000 9.46 7.12 41.59 3.85
3900 6847 3.314541 CGGAGTTATAGCCGGCTATTT 57.685 47.619 44.65 31.93 43.67 1.40
3901 6848 4.445452 CGGAGTTATAGCCGGCTATTTA 57.555 45.455 44.65 31.98 43.67 1.40
3902 6849 4.813027 CGGAGTTATAGCCGGCTATTTAA 58.187 43.478 44.65 33.14 43.67 1.52
3903 6850 5.232463 CGGAGTTATAGCCGGCTATTTAAA 58.768 41.667 44.65 32.50 43.67 1.52
3904 6851 5.697633 CGGAGTTATAGCCGGCTATTTAAAA 59.302 40.000 44.65 32.18 43.67 1.52
3905 6852 6.347160 CGGAGTTATAGCCGGCTATTTAAAAC 60.347 42.308 44.65 38.24 43.67 2.43
3906 6853 6.709397 GGAGTTATAGCCGGCTATTTAAAACT 59.291 38.462 38.58 38.58 39.65 2.66
3907 6854 7.874528 GGAGTTATAGCCGGCTATTTAAAACTA 59.125 37.037 44.65 26.55 39.65 2.24
3908 6855 9.433153 GAGTTATAGCCGGCTATTTAAAACTAT 57.567 33.333 44.65 28.64 39.65 2.12
3909 6856 9.216117 AGTTATAGCCGGCTATTTAAAACTATG 57.784 33.333 44.65 0.00 39.65 2.23
3910 6857 8.996271 GTTATAGCCGGCTATTTAAAACTATGT 58.004 33.333 44.65 24.60 39.65 2.29
3971 6919 8.667076 ATTAATCATGATTGAGAACGACATCA 57.333 30.769 27.59 3.17 34.73 3.07
3982 6930 4.894784 AGAACGACATCATACCAGTTTGT 58.105 39.130 0.00 0.00 0.00 2.83
4027 6975 2.606213 TGGACATCCAGGTCGCCA 60.606 61.111 0.00 0.00 42.01 5.69
4144 7165 3.312828 CTCATGTTCCTATAGCTCACGC 58.687 50.000 0.00 0.00 0.00 5.34
4153 7174 2.356313 AGCTCACGCTGTTGTCCG 60.356 61.111 0.00 0.00 46.86 4.79
4154 7175 3.414700 GCTCACGCTGTTGTCCGG 61.415 66.667 0.00 0.00 0.00 5.14
4155 7176 3.414700 CTCACGCTGTTGTCCGGC 61.415 66.667 0.00 0.00 42.41 6.13
4160 7181 2.357034 GCTGTTGTCCGGCGAGAA 60.357 61.111 9.30 0.00 35.28 2.87
4161 7182 1.959226 GCTGTTGTCCGGCGAGAAA 60.959 57.895 9.30 0.00 35.28 2.52
4162 7183 1.901650 GCTGTTGTCCGGCGAGAAAG 61.902 60.000 9.30 0.00 35.28 2.62
4163 7184 0.600255 CTGTTGTCCGGCGAGAAAGT 60.600 55.000 9.30 0.00 0.00 2.66
4164 7185 0.179067 TGTTGTCCGGCGAGAAAGTT 60.179 50.000 9.30 0.00 0.00 2.66
4165 7186 0.511653 GTTGTCCGGCGAGAAAGTTC 59.488 55.000 9.30 0.00 0.00 3.01
4166 7187 0.601841 TTGTCCGGCGAGAAAGTTCC 60.602 55.000 9.30 0.00 0.00 3.62
4167 7188 1.740664 GTCCGGCGAGAAAGTTCCC 60.741 63.158 9.30 0.00 0.00 3.97
4168 7189 1.911766 TCCGGCGAGAAAGTTCCCT 60.912 57.895 9.30 0.00 0.00 4.20
4169 7190 1.003718 CCGGCGAGAAAGTTCCCTT 60.004 57.895 9.30 0.00 0.00 3.95
4170 7191 1.298859 CCGGCGAGAAAGTTCCCTTG 61.299 60.000 9.30 0.00 0.00 3.61
4171 7192 0.602905 CGGCGAGAAAGTTCCCTTGT 60.603 55.000 0.00 0.00 0.00 3.16
4276 7297 2.753029 GAGTTGTCCAGGCAGGCT 59.247 61.111 0.00 0.00 37.29 4.58
4372 7407 1.035932 CGGGAGTACATCGAGGGTGT 61.036 60.000 0.69 0.00 0.00 4.16
4469 7505 8.983724 TGAAAACACGAAATTCTTTCAAGTTTT 58.016 25.926 20.24 20.24 46.75 2.43
4474 7510 8.983724 ACACGAAATTCTTTCAAGTTTTCAAAA 58.016 25.926 13.33 0.00 39.63 2.44
4486 7522 3.606346 AGTTTTCAAAACGCGAACACTTG 59.394 39.130 15.93 8.51 31.07 3.16
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
10 11 6.879458 AGAGTTACCACCAAATGTAGATTGTC 59.121 38.462 0.00 0.00 0.00 3.18
446 447 1.487976 AGGCATCCTACATGGTGACAG 59.512 52.381 0.00 0.00 36.12 3.51
465 466 1.973281 GTGGGCATGTGTGGTCCAG 60.973 63.158 0.00 0.00 0.00 3.86
912 914 2.909006 TGCCACTGGAAAGAGAAGATCT 59.091 45.455 0.00 0.00 41.27 2.75
919 921 6.161855 TGTATATACTGCCACTGGAAAGAG 57.838 41.667 13.89 0.00 0.00 2.85
936 938 7.380423 AAGTGCTTCTATGGGACTTGTATAT 57.620 36.000 0.00 0.00 42.20 0.86
1083 1086 9.309516 GGAGACAAATAATTCGTGAACATACTA 57.690 33.333 0.00 0.00 0.00 1.82
1197 1208 6.479884 AGCACCAAGTTGAATAGATCTCTTT 58.520 36.000 3.87 0.00 0.00 2.52
1524 1539 8.593945 TCAAGGGAAGCAATGATATTTTACTT 57.406 30.769 0.00 0.00 0.00 2.24
1557 1572 9.605275 TGGTGAAGAAAAATAGATAGACATGAG 57.395 33.333 0.00 0.00 0.00 2.90
1587 1602 9.981460 AACATGGAAGGAGAGAGTAATTATTTT 57.019 29.630 0.00 0.00 0.00 1.82
1677 1697 7.544217 GCCAAAATAATGGTCGTTCTACATTTT 59.456 33.333 0.00 0.00 42.75 1.82
1688 1708 6.538189 AAACTTTTGCCAAAATAATGGTCG 57.462 33.333 2.58 0.00 42.75 4.79
1690 1710 9.271828 CTCTTAAACTTTTGCCAAAATAATGGT 57.728 29.630 2.58 0.00 42.75 3.55
1729 2014 6.436532 AGAGATTCATTCCATTTCAAAGCACT 59.563 34.615 0.00 0.00 0.00 4.40
1757 2042 6.630203 ACATACAACCACCTCACCTTAATA 57.370 37.500 0.00 0.00 0.00 0.98
1759 2044 4.986054 ACATACAACCACCTCACCTTAA 57.014 40.909 0.00 0.00 0.00 1.85
1789 2076 1.075659 GTGAGCAAGGGGAGGCTTT 59.924 57.895 0.00 0.00 41.22 3.51
1804 2091 4.951094 TGATTGGATTGATGCTTGATGTGA 59.049 37.500 0.00 0.00 0.00 3.58
1812 2099 6.942976 ACTTTGATTTGATTGGATTGATGCT 58.057 32.000 0.00 0.00 0.00 3.79
1835 2122 4.402474 AGAGGGGCACTGCAAAATATTTAC 59.598 41.667 0.00 0.00 0.00 2.01
1920 2209 5.242838 TGATTTTCTTTTATTGCCCGTGTCT 59.757 36.000 0.00 0.00 0.00 3.41
2040 2329 4.282703 GTCCGACATATACCTTACACCCAT 59.717 45.833 0.00 0.00 0.00 4.00
2081 4951 4.457834 ACGGAGGCATACATATTCTAGC 57.542 45.455 0.00 0.00 0.00 3.42
2214 5084 8.029642 AGACTTATTTTACTGGACACAATTCG 57.970 34.615 0.00 0.00 0.00 3.34
2225 5095 9.884465 CAAAGGAAGACAAGACTTATTTTACTG 57.116 33.333 0.00 0.00 0.00 2.74
2532 5404 6.473131 GCGATGCATCTGAAATGAATTAACAA 59.527 34.615 23.73 0.00 0.00 2.83
2699 5572 9.474920 CACTTTGGCTTATTTCAGTCAAATTAA 57.525 29.630 1.18 0.00 45.15 1.40
2954 5828 4.551388 TCCATTAACGTTGCCATGTTTTC 58.449 39.130 11.99 0.00 33.87 2.29
2967 5841 1.069513 TCCCGTGGCTATCCATTAACG 59.930 52.381 0.00 0.00 45.62 3.18
2981 5855 0.523072 CTTGAGGCACAATTCCCGTG 59.477 55.000 0.00 0.00 37.88 4.94
3247 6122 2.622064 ACTGGAACTCGTCAAAAGCT 57.378 45.000 0.00 0.00 0.00 3.74
3273 6148 2.943993 GTTCGTCACTAGAAGGACCAC 58.056 52.381 0.00 0.00 0.00 4.16
3307 6182 5.221722 GCCATCTTCTCCTGTTATATGTCCA 60.222 44.000 0.00 0.00 0.00 4.02
3681 6624 8.048514 TCATGATTCAATCTTTATGGACTGTCA 58.951 33.333 10.38 0.00 0.00 3.58
3710 6657 8.785329 ATCTGATTTCTTAGTTTCCAGAACTC 57.215 34.615 0.00 0.00 33.62 3.01
3711 6658 9.883142 CTATCTGATTTCTTAGTTTCCAGAACT 57.117 33.333 0.00 0.00 33.62 3.01
3712 6659 8.608317 GCTATCTGATTTCTTAGTTTCCAGAAC 58.392 37.037 0.00 0.00 33.62 3.01
3713 6660 8.543774 AGCTATCTGATTTCTTAGTTTCCAGAA 58.456 33.333 0.00 0.00 33.62 3.02
3750 6697 9.522804 CATAGCCCGCTATTTAAAACATTTAAA 57.477 29.630 6.48 9.65 37.16 1.52
3751 6698 8.138712 CCATAGCCCGCTATTTAAAACATTTAA 58.861 33.333 6.48 0.00 37.16 1.52
3752 6699 7.502895 TCCATAGCCCGCTATTTAAAACATTTA 59.497 33.333 6.48 0.00 37.16 1.40
3753 6700 6.322712 TCCATAGCCCGCTATTTAAAACATTT 59.677 34.615 6.48 0.00 37.16 2.32
3754 6701 5.830991 TCCATAGCCCGCTATTTAAAACATT 59.169 36.000 6.48 0.00 37.16 2.71
3755 6702 5.381757 TCCATAGCCCGCTATTTAAAACAT 58.618 37.500 6.48 0.00 37.16 2.71
3756 6703 4.783055 TCCATAGCCCGCTATTTAAAACA 58.217 39.130 6.48 0.00 37.16 2.83
3757 6704 5.761165 TTCCATAGCCCGCTATTTAAAAC 57.239 39.130 6.48 0.00 37.16 2.43
3758 6705 6.777213 TTTTCCATAGCCCGCTATTTAAAA 57.223 33.333 6.48 12.19 37.16 1.52
3759 6706 6.969993 ATTTTCCATAGCCCGCTATTTAAA 57.030 33.333 6.48 7.56 37.16 1.52
3760 6707 7.174253 CACTATTTTCCATAGCCCGCTATTTAA 59.826 37.037 6.48 2.15 37.16 1.52
3761 6708 6.653320 CACTATTTTCCATAGCCCGCTATTTA 59.347 38.462 6.48 0.00 37.16 1.40
3762 6709 5.473504 CACTATTTTCCATAGCCCGCTATTT 59.526 40.000 6.48 0.00 37.16 1.40
3763 6710 5.003804 CACTATTTTCCATAGCCCGCTATT 58.996 41.667 6.48 0.00 37.16 1.73
3764 6711 4.565652 CCACTATTTTCCATAGCCCGCTAT 60.566 45.833 3.31 3.31 39.60 2.97
3765 6712 3.244422 CCACTATTTTCCATAGCCCGCTA 60.244 47.826 0.00 0.00 0.00 4.26
3766 6713 2.487265 CCACTATTTTCCATAGCCCGCT 60.487 50.000 0.00 0.00 0.00 5.52
3767 6714 1.880027 CCACTATTTTCCATAGCCCGC 59.120 52.381 0.00 0.00 0.00 6.13
3768 6715 1.880027 GCCACTATTTTCCATAGCCCG 59.120 52.381 0.00 0.00 0.00 6.13
3769 6716 1.880027 CGCCACTATTTTCCATAGCCC 59.120 52.381 0.00 0.00 0.00 5.19
3770 6717 1.880027 CCGCCACTATTTTCCATAGCC 59.120 52.381 0.00 0.00 0.00 3.93
3771 6718 1.880027 CCCGCCACTATTTTCCATAGC 59.120 52.381 0.00 0.00 0.00 2.97
3772 6719 1.880027 GCCCGCCACTATTTTCCATAG 59.120 52.381 0.00 0.00 0.00 2.23
3773 6720 1.477923 GGCCCGCCACTATTTTCCATA 60.478 52.381 0.00 0.00 35.81 2.74
3774 6721 0.755327 GGCCCGCCACTATTTTCCAT 60.755 55.000 0.00 0.00 35.81 3.41
3775 6722 1.379309 GGCCCGCCACTATTTTCCA 60.379 57.895 0.00 0.00 35.81 3.53
3776 6723 1.076995 AGGCCCGCCACTATTTTCC 60.077 57.895 8.74 0.00 38.92 3.13
3777 6724 1.101635 GGAGGCCCGCCACTATTTTC 61.102 60.000 8.74 0.00 38.92 2.29
3778 6725 1.076995 GGAGGCCCGCCACTATTTT 60.077 57.895 8.74 0.00 38.92 1.82
3779 6726 1.858739 TTGGAGGCCCGCCACTATTT 61.859 55.000 5.38 0.00 38.92 1.40
3780 6727 1.858739 TTTGGAGGCCCGCCACTATT 61.859 55.000 5.38 0.00 38.92 1.73
3781 6728 1.645402 ATTTGGAGGCCCGCCACTAT 61.645 55.000 5.38 0.00 38.92 2.12
3782 6729 2.265467 GATTTGGAGGCCCGCCACTA 62.265 60.000 5.38 0.00 38.92 2.74
3783 6730 3.645268 GATTTGGAGGCCCGCCACT 62.645 63.158 5.38 0.00 38.92 4.00
3784 6731 3.140814 GATTTGGAGGCCCGCCAC 61.141 66.667 5.38 0.86 38.92 5.01
3785 6732 3.643595 CTGATTTGGAGGCCCGCCA 62.644 63.158 0.35 0.35 38.92 5.69
3786 6733 2.830370 CTGATTTGGAGGCCCGCC 60.830 66.667 0.00 1.12 34.29 6.13
3787 6734 2.608970 TAGCTGATTTGGAGGCCCGC 62.609 60.000 0.00 0.00 34.29 6.13
3788 6735 0.109342 ATAGCTGATTTGGAGGCCCG 59.891 55.000 0.00 0.00 34.29 6.13
3789 6736 2.877708 GCTATAGCTGATTTGGAGGCCC 60.878 54.545 17.75 0.00 38.21 5.80
3790 6737 2.224621 TGCTATAGCTGATTTGGAGGCC 60.225 50.000 24.61 0.00 42.66 5.19
3791 6738 3.072944 CTGCTATAGCTGATTTGGAGGC 58.927 50.000 24.61 0.00 41.71 4.70
3792 6739 4.563168 CCTCTGCTATAGCTGATTTGGAGG 60.563 50.000 28.09 21.55 45.61 4.30
3793 6740 4.567971 CCTCTGCTATAGCTGATTTGGAG 58.432 47.826 28.09 17.73 45.61 3.86
3794 6741 3.244353 GCCTCTGCTATAGCTGATTTGGA 60.244 47.826 28.10 12.70 45.61 3.53
3795 6742 3.072944 GCCTCTGCTATAGCTGATTTGG 58.927 50.000 28.09 25.44 45.61 3.28
3796 6743 2.735663 CGCCTCTGCTATAGCTGATTTG 59.264 50.000 28.09 21.05 45.61 2.32
3797 6744 2.289320 CCGCCTCTGCTATAGCTGATTT 60.289 50.000 28.09 0.00 45.61 2.17
3798 6745 1.274728 CCGCCTCTGCTATAGCTGATT 59.725 52.381 28.09 0.00 45.61 2.57
3799 6746 0.894141 CCGCCTCTGCTATAGCTGAT 59.106 55.000 28.09 0.00 45.61 2.90
3800 6747 0.178990 TCCGCCTCTGCTATAGCTGA 60.179 55.000 26.74 26.74 44.81 4.26
3801 6748 0.243365 CTCCGCCTCTGCTATAGCTG 59.757 60.000 24.61 23.23 42.66 4.24
3802 6749 1.531739 GCTCCGCCTCTGCTATAGCT 61.532 60.000 24.61 0.00 42.66 3.32
3803 6750 1.080161 GCTCCGCCTCTGCTATAGC 60.080 63.158 18.18 18.18 42.50 2.97
3804 6751 1.827681 TAGCTCCGCCTCTGCTATAG 58.172 55.000 0.00 0.00 38.15 1.31
3805 6752 2.516227 ATAGCTCCGCCTCTGCTATA 57.484 50.000 5.10 0.00 44.94 1.31
3806 6753 3.372557 ATAGCTCCGCCTCTGCTAT 57.627 52.632 0.00 0.00 42.88 2.97
3807 6754 1.887198 GTTATAGCTCCGCCTCTGCTA 59.113 52.381 0.00 0.00 42.44 3.49
3808 6755 0.676736 GTTATAGCTCCGCCTCTGCT 59.323 55.000 0.00 0.00 40.43 4.24
3809 6756 0.389391 TGTTATAGCTCCGCCTCTGC 59.611 55.000 0.00 0.00 0.00 4.26
3810 6757 1.000283 CCTGTTATAGCTCCGCCTCTG 60.000 57.143 0.00 0.00 0.00 3.35
3811 6758 1.333177 CCTGTTATAGCTCCGCCTCT 58.667 55.000 0.00 0.00 0.00 3.69
3812 6759 0.319986 GCCTGTTATAGCTCCGCCTC 60.320 60.000 0.00 0.00 0.00 4.70
3813 6760 0.760945 AGCCTGTTATAGCTCCGCCT 60.761 55.000 0.00 0.00 32.71 5.52
3814 6761 0.966920 TAGCCTGTTATAGCTCCGCC 59.033 55.000 0.00 0.00 40.56 6.13
3815 6762 3.320673 AATAGCCTGTTATAGCTCCGC 57.679 47.619 0.00 0.00 40.56 5.54
3816 6763 4.449068 CACAAATAGCCTGTTATAGCTCCG 59.551 45.833 0.00 0.00 40.56 4.63
3817 6764 5.611374 TCACAAATAGCCTGTTATAGCTCC 58.389 41.667 0.00 0.00 40.56 4.70
3818 6765 6.203723 CCTTCACAAATAGCCTGTTATAGCTC 59.796 42.308 0.00 0.00 40.56 4.09
3819 6766 6.058183 CCTTCACAAATAGCCTGTTATAGCT 58.942 40.000 0.00 0.00 43.20 3.32
3820 6767 5.278022 GCCTTCACAAATAGCCTGTTATAGC 60.278 44.000 0.00 0.00 0.00 2.97
3821 6768 5.822519 TGCCTTCACAAATAGCCTGTTATAG 59.177 40.000 0.00 0.00 0.00 1.31
3822 6769 5.750524 TGCCTTCACAAATAGCCTGTTATA 58.249 37.500 0.00 0.00 0.00 0.98
3823 6770 4.599041 TGCCTTCACAAATAGCCTGTTAT 58.401 39.130 0.00 0.00 0.00 1.89
3824 6771 4.027674 TGCCTTCACAAATAGCCTGTTA 57.972 40.909 0.00 0.00 0.00 2.41
3825 6772 2.875296 TGCCTTCACAAATAGCCTGTT 58.125 42.857 0.00 0.00 0.00 3.16
3826 6773 2.558359 GTTGCCTTCACAAATAGCCTGT 59.442 45.455 0.00 0.00 0.00 4.00
3827 6774 2.094545 GGTTGCCTTCACAAATAGCCTG 60.095 50.000 0.00 0.00 0.00 4.85
3828 6775 2.171003 GGTTGCCTTCACAAATAGCCT 58.829 47.619 0.00 0.00 0.00 4.58
3829 6776 1.892474 TGGTTGCCTTCACAAATAGCC 59.108 47.619 0.00 0.00 0.00 3.93
3830 6777 3.874392 ATGGTTGCCTTCACAAATAGC 57.126 42.857 0.00 0.00 0.00 2.97
3831 6778 5.807011 GCTAAATGGTTGCCTTCACAAATAG 59.193 40.000 0.00 0.00 0.00 1.73
3832 6779 5.621104 CGCTAAATGGTTGCCTTCACAAATA 60.621 40.000 0.00 0.00 0.00 1.40
3833 6780 4.568956 GCTAAATGGTTGCCTTCACAAAT 58.431 39.130 0.00 0.00 0.00 2.32
3834 6781 3.551863 CGCTAAATGGTTGCCTTCACAAA 60.552 43.478 0.00 0.00 0.00 2.83
3835 6782 2.030363 CGCTAAATGGTTGCCTTCACAA 60.030 45.455 0.00 0.00 0.00 3.33
3836 6783 1.539388 CGCTAAATGGTTGCCTTCACA 59.461 47.619 0.00 0.00 0.00 3.58
3837 6784 1.135402 CCGCTAAATGGTTGCCTTCAC 60.135 52.381 0.00 0.00 0.00 3.18
3838 6785 1.173043 CCGCTAAATGGTTGCCTTCA 58.827 50.000 0.00 0.00 0.00 3.02
3839 6786 0.179137 GCCGCTAAATGGTTGCCTTC 60.179 55.000 0.00 0.00 0.00 3.46
3840 6787 0.897863 TGCCGCTAAATGGTTGCCTT 60.898 50.000 0.00 0.00 0.00 4.35
3841 6788 1.304052 TGCCGCTAAATGGTTGCCT 60.304 52.632 0.00 0.00 0.00 4.75
3842 6789 1.153842 GTGCCGCTAAATGGTTGCC 60.154 57.895 0.00 0.00 0.00 4.52
3843 6790 1.153842 GGTGCCGCTAAATGGTTGC 60.154 57.895 0.00 0.00 0.00 4.17
3844 6791 0.965363 AGGGTGCCGCTAAATGGTTG 60.965 55.000 0.00 0.00 0.00 3.77
3845 6792 0.621609 TAGGGTGCCGCTAAATGGTT 59.378 50.000 0.00 0.00 0.00 3.67
3846 6793 0.107361 GTAGGGTGCCGCTAAATGGT 60.107 55.000 0.00 0.00 30.97 3.55
3847 6794 0.180406 AGTAGGGTGCCGCTAAATGG 59.820 55.000 0.00 0.00 30.97 3.16
3848 6795 1.134521 TCAGTAGGGTGCCGCTAAATG 60.135 52.381 0.00 4.43 30.97 2.32
3849 6796 1.200519 TCAGTAGGGTGCCGCTAAAT 58.799 50.000 0.00 0.00 30.97 1.40
3850 6797 0.978151 TTCAGTAGGGTGCCGCTAAA 59.022 50.000 0.00 0.00 30.97 1.85
3851 6798 0.978151 TTTCAGTAGGGTGCCGCTAA 59.022 50.000 0.00 0.00 30.97 3.09
3852 6799 0.535335 CTTTCAGTAGGGTGCCGCTA 59.465 55.000 0.00 0.00 0.00 4.26
3853 6800 1.296715 CTTTCAGTAGGGTGCCGCT 59.703 57.895 0.00 0.00 0.00 5.52
3854 6801 1.745489 CCTTTCAGTAGGGTGCCGC 60.745 63.158 0.00 0.00 0.00 6.53
3855 6802 4.617875 CCTTTCAGTAGGGTGCCG 57.382 61.111 0.00 0.00 0.00 5.69
3861 6808 5.128335 ACTCCGTTATAACCCTTTCAGTAGG 59.872 44.000 10.01 1.84 34.92 3.18
3862 6809 6.218108 ACTCCGTTATAACCCTTTCAGTAG 57.782 41.667 10.01 0.00 0.00 2.57
3863 6810 6.610075 AACTCCGTTATAACCCTTTCAGTA 57.390 37.500 10.01 0.00 0.00 2.74
3864 6811 5.494390 AACTCCGTTATAACCCTTTCAGT 57.506 39.130 10.01 1.07 0.00 3.41
3865 6812 7.384387 GCTATAACTCCGTTATAACCCTTTCAG 59.616 40.741 10.01 0.52 39.49 3.02
3866 6813 7.212274 GCTATAACTCCGTTATAACCCTTTCA 58.788 38.462 10.01 0.00 39.49 2.69
3867 6814 6.648310 GGCTATAACTCCGTTATAACCCTTTC 59.352 42.308 10.01 0.00 39.43 2.62
3868 6815 6.528321 GGCTATAACTCCGTTATAACCCTTT 58.472 40.000 10.01 1.69 39.43 3.11
3869 6816 5.279156 CGGCTATAACTCCGTTATAACCCTT 60.279 44.000 10.01 0.00 40.92 3.95
3870 6817 4.219288 CGGCTATAACTCCGTTATAACCCT 59.781 45.833 10.01 0.00 40.92 4.34
3871 6818 4.488879 CGGCTATAACTCCGTTATAACCC 58.511 47.826 10.01 12.67 40.92 4.11
3872 6819 4.488879 CCGGCTATAACTCCGTTATAACC 58.511 47.826 10.01 12.78 40.74 2.85
3873 6820 3.922850 GCCGGCTATAACTCCGTTATAAC 59.077 47.826 22.15 5.47 43.87 1.89
3874 6821 3.828451 AGCCGGCTATAACTCCGTTATAA 59.172 43.478 31.86 0.00 43.87 0.98
3875 6822 3.424703 AGCCGGCTATAACTCCGTTATA 58.575 45.455 31.86 6.37 43.87 0.98
3876 6823 2.245582 AGCCGGCTATAACTCCGTTAT 58.754 47.619 31.86 0.00 43.87 1.89
3877 6824 1.696063 AGCCGGCTATAACTCCGTTA 58.304 50.000 31.86 0.00 43.87 3.18
3878 6825 1.696063 TAGCCGGCTATAACTCCGTT 58.304 50.000 32.24 6.88 43.87 4.44
3879 6826 1.920610 ATAGCCGGCTATAACTCCGT 58.079 50.000 41.03 20.49 43.87 4.69
3880 6827 3.314541 AAATAGCCGGCTATAACTCCG 57.685 47.619 41.53 0.00 44.89 4.63
3881 6828 6.709397 AGTTTTAAATAGCCGGCTATAACTCC 59.291 38.462 41.53 27.96 38.20 3.85
3882 6829 7.725818 AGTTTTAAATAGCCGGCTATAACTC 57.274 36.000 41.53 28.58 38.20 3.01
3883 6830 9.216117 CATAGTTTTAAATAGCCGGCTATAACT 57.784 33.333 38.87 38.87 38.20 2.24
3884 6831 8.996271 ACATAGTTTTAAATAGCCGGCTATAAC 58.004 33.333 41.53 36.86 38.20 1.89
3885 6832 9.563748 AACATAGTTTTAAATAGCCGGCTATAA 57.436 29.630 41.53 31.52 38.20 0.98
3886 6833 9.563748 AAACATAGTTTTAAATAGCCGGCTATA 57.436 29.630 41.53 28.18 38.20 1.31
3887 6834 8.459911 AAACATAGTTTTAAATAGCCGGCTAT 57.540 30.769 37.79 37.79 40.63 2.97
3888 6835 7.868906 AAACATAGTTTTAAATAGCCGGCTA 57.131 32.000 36.88 36.88 0.00 3.93
3889 6836 6.769134 AAACATAGTTTTAAATAGCCGGCT 57.231 33.333 34.85 34.85 0.00 5.52
3957 6905 4.801330 ACTGGTATGATGTCGTTCTCAA 57.199 40.909 0.00 0.00 0.00 3.02
3971 6919 5.984926 TCGTCTTTTTCGTACAAACTGGTAT 59.015 36.000 0.00 0.00 0.00 2.73
3982 6930 3.836949 ACGCCTAATCGTCTTTTTCGTA 58.163 40.909 0.00 0.00 38.44 3.43
4027 6975 2.113243 GAGGTGGAGCTGGGTTCGTT 62.113 60.000 0.00 0.00 0.00 3.85
4111 7115 2.816958 CATGAGCTCGCCGTTGCT 60.817 61.111 9.64 7.02 42.82 3.91
4112 7116 2.568935 GAACATGAGCTCGCCGTTGC 62.569 60.000 16.99 7.70 0.00 4.17
4113 7117 1.421485 GAACATGAGCTCGCCGTTG 59.579 57.895 16.99 8.79 0.00 4.10
4114 7118 1.741770 GGAACATGAGCTCGCCGTT 60.742 57.895 9.64 11.77 0.00 4.44
4144 7165 0.600255 ACTTTCTCGCCGGACAACAG 60.600 55.000 5.05 0.00 0.00 3.16
4151 7172 2.663196 AGGGAACTTTCTCGCCGG 59.337 61.111 0.00 0.00 37.44 6.13
4162 7183 1.078637 GGTAGCCGGACAAGGGAAC 60.079 63.158 5.05 0.00 0.00 3.62
4163 7184 1.128809 TTGGTAGCCGGACAAGGGAA 61.129 55.000 5.05 0.00 0.00 3.97
4164 7185 1.128809 TTTGGTAGCCGGACAAGGGA 61.129 55.000 5.05 0.00 0.00 4.20
4165 7186 0.958876 GTTTGGTAGCCGGACAAGGG 60.959 60.000 5.05 0.00 0.00 3.95
4166 7187 0.958876 GGTTTGGTAGCCGGACAAGG 60.959 60.000 5.05 0.00 0.00 3.61
4167 7188 1.296056 CGGTTTGGTAGCCGGACAAG 61.296 60.000 5.05 0.00 43.85 3.16
4168 7189 1.301874 CGGTTTGGTAGCCGGACAA 60.302 57.895 5.05 0.70 43.85 3.18
4169 7190 2.344500 CGGTTTGGTAGCCGGACA 59.656 61.111 5.05 0.00 43.85 4.02
4314 7335 1.755783 GCAAGGGCCCTGGATTCTG 60.756 63.158 32.15 22.09 0.00 3.02
4372 7407 1.132834 CATGCTTTTCTATGTGCGCCA 59.867 47.619 4.18 2.31 0.00 5.69
4469 7505 2.159824 TCAACAAGTGTTCGCGTTTTGA 59.840 40.909 5.77 0.00 35.83 2.69
4470 7506 2.510874 TCAACAAGTGTTCGCGTTTTG 58.489 42.857 5.77 7.54 35.83 2.44
4474 7510 3.414549 AATTTCAACAAGTGTTCGCGT 57.585 38.095 5.77 0.00 35.83 6.01


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

AutoCloner maintained by Alex Coulton.