Multiple sequence alignment - TraesCS7D01G499900

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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 TraesCS7D01G499900 chr7D 100.000 5648 0 0 1 5648 606316736 606322383 0.000000e+00 10430.0
1 TraesCS7D01G499900 chr7D 84.652 3362 455 38 1490 4810 606339583 606342924 0.000000e+00 3293.0
2 TraesCS7D01G499900 chr7D 85.691 1803 217 28 2993 4769 606536526 606538313 0.000000e+00 1862.0
3 TraesCS7D01G499900 chr7D 86.709 474 48 5 5179 5648 606343164 606343626 3.900000e-141 512.0
4 TraesCS7D01G499900 chr7B 87.457 4664 475 51 1 4599 690248397 690253015 0.000000e+00 5271.0
5 TraesCS7D01G499900 chr7B 87.305 3206 341 46 887 4066 690415966 690419131 0.000000e+00 3605.0
6 TraesCS7D01G499900 chr7B 84.275 2124 306 24 1491 3605 690299988 690302092 0.000000e+00 2047.0
7 TraesCS7D01G499900 chr7B 83.619 1868 248 32 3167 5010 690257308 690259141 0.000000e+00 1701.0
8 TraesCS7D01G499900 chr7B 86.293 839 99 8 3655 4481 690302088 690302922 0.000000e+00 898.0
9 TraesCS7D01G499900 chr7B 88.158 456 46 6 4156 4609 690419129 690419578 2.320000e-148 536.0
10 TraesCS7D01G499900 chr7B 80.755 556 66 26 5096 5648 690259654 690260171 4.100000e-106 396.0
11 TraesCS7D01G499900 chr7B 84.173 278 38 6 2888 3162 690254201 690254475 1.210000e-66 265.0
12 TraesCS7D01G499900 chr7B 83.562 73 8 4 4699 4769 690419656 690419726 1.310000e-06 65.8
13 TraesCS7D01G499900 chrUn 83.283 4660 610 108 536 5103 83314468 83319050 0.000000e+00 4133.0
14 TraesCS7D01G499900 chrUn 88.393 2197 193 33 887 3057 83331011 83333171 0.000000e+00 2588.0
15 TraesCS7D01G499900 chrUn 88.444 900 93 6 3051 3949 83338421 83339310 0.000000e+00 1075.0
16 TraesCS7D01G499900 chrUn 72.456 2280 523 80 2320 4548 34002647 34004872 7.980000e-178 634.0
17 TraesCS7D01G499900 chrUn 72.135 1213 302 30 2330 3530 324828160 324826972 9.070000e-88 335.0
18 TraesCS7D01G499900 chrUn 83.704 270 44 0 1533 1802 34313435 34313166 7.260000e-64 255.0
19 TraesCS7D01G499900 chrUn 77.405 447 87 10 1533 1975 34217679 34217243 2.610000e-63 254.0
20 TraesCS7D01G499900 chrUn 82.222 270 48 0 1533 1802 246977845 246978114 3.400000e-57 233.0
21 TraesCS7D01G499900 chr7A 83.713 3334 457 55 1490 4769 698588910 698592211 0.000000e+00 3073.0
22 TraesCS7D01G499900 chr3A 73.059 1069 258 26 2317 3375 8000624 8001672 9.000000e-93 351.0
23 TraesCS7D01G499900 chr3A 83.871 279 43 2 1533 1810 8167006 8166729 1.210000e-66 265.0
24 TraesCS7D01G499900 chr3D 78.032 437 79 13 1533 1962 1119216 1119642 5.610000e-65 259.0


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 TraesCS7D01G499900 chr7D 606316736 606322383 5647 False 10430.000000 10430 100.000000 1 5648 1 chr7D.!!$F1 5647
1 TraesCS7D01G499900 chr7D 606339583 606343626 4043 False 1902.500000 3293 85.680500 1490 5648 2 chr7D.!!$F3 4158
2 TraesCS7D01G499900 chr7D 606536526 606538313 1787 False 1862.000000 1862 85.691000 2993 4769 1 chr7D.!!$F2 1776
3 TraesCS7D01G499900 chr7B 690248397 690260171 11774 False 1908.250000 5271 84.001000 1 5648 4 chr7B.!!$F1 5647
4 TraesCS7D01G499900 chr7B 690299988 690302922 2934 False 1472.500000 2047 85.284000 1491 4481 2 chr7B.!!$F2 2990
5 TraesCS7D01G499900 chr7B 690415966 690419726 3760 False 1402.266667 3605 86.341667 887 4769 3 chr7B.!!$F3 3882
6 TraesCS7D01G499900 chrUn 83314468 83319050 4582 False 4133.000000 4133 83.283000 536 5103 1 chrUn.!!$F2 4567
7 TraesCS7D01G499900 chrUn 83331011 83333171 2160 False 2588.000000 2588 88.393000 887 3057 1 chrUn.!!$F3 2170
8 TraesCS7D01G499900 chrUn 83338421 83339310 889 False 1075.000000 1075 88.444000 3051 3949 1 chrUn.!!$F4 898
9 TraesCS7D01G499900 chrUn 34002647 34004872 2225 False 634.000000 634 72.456000 2320 4548 1 chrUn.!!$F1 2228
10 TraesCS7D01G499900 chrUn 324826972 324828160 1188 True 335.000000 335 72.135000 2330 3530 1 chrUn.!!$R3 1200
11 TraesCS7D01G499900 chr7A 698588910 698592211 3301 False 3073.000000 3073 83.713000 1490 4769 1 chr7A.!!$F1 3279
12 TraesCS7D01G499900 chr3A 8000624 8001672 1048 False 351.000000 351 73.059000 2317 3375 1 chr3A.!!$F1 1058

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
676 701 0.321671 GACAAGGCTACCTGCAGACA 59.678 55.0 17.39 0.54 45.15 3.41 F
1522 1629 0.618458 TCCGAATTCTTCAGGGGTGG 59.382 55.0 3.52 0.00 0.00 4.61 F
2564 2698 0.321122 CCTTGGTGCACTGACTCTCC 60.321 60.0 17.98 0.00 0.00 3.71 F
3470 9332 0.179200 GCCGTGCATTAACCAGAACG 60.179 55.0 0.00 0.00 0.00 3.95 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2564 2698 2.559998 AAACTGAAGGCACAACAACG 57.440 45.0 0.00 0.0 0.00 4.10 R
2914 3049 0.971386 CCAGCTTTGCCTTGTCCATT 59.029 50.0 0.00 0.0 0.00 3.16 R
3895 9785 0.253044 GAACCAGCCAGCTGTATCCA 59.747 55.0 17.86 0.0 42.15 3.41 R
4696 10651 0.039617 GAGCGTCCATCTGATCTCGG 60.040 60.0 0.00 0.0 0.00 4.63 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
27 28 8.552083 TCTGACATAATATGTGGAATATGTGC 57.448 34.615 11.03 0.00 45.03 4.57
28 29 8.156165 TCTGACATAATATGTGGAATATGTGCA 58.844 33.333 11.03 0.00 45.03 4.57
46 50 7.647907 ATGTGCAATTTCTGAAGAATTTCAC 57.352 32.000 9.29 9.29 38.37 3.18
83 87 8.010733 ACTCTTTGATTCTCCAAATTTTGTGA 57.989 30.769 8.26 3.73 35.72 3.58
99 103 8.851541 AATTTTGTGATTTGTATGCCTTTGAT 57.148 26.923 0.00 0.00 0.00 2.57
207 220 8.759481 TGTGAAGAACTAGACTGATATCTGAT 57.241 34.615 15.75 6.90 0.00 2.90
309 322 1.934589 CAACAGTCTCCAACACGACA 58.065 50.000 0.00 0.00 32.68 4.35
317 330 2.877786 TCTCCAACACGACAACTACGTA 59.122 45.455 0.00 0.00 42.07 3.57
338 351 2.656947 TCAGTTTTGGGGTGGAAGAG 57.343 50.000 0.00 0.00 0.00 2.85
344 357 2.285743 GGGGTGGAAGAGAGGGCT 60.286 66.667 0.00 0.00 0.00 5.19
345 358 2.371259 GGGGTGGAAGAGAGGGCTC 61.371 68.421 0.00 0.00 41.62 4.70
433 446 4.880759 CAGATATTCTGGCTACCTCACTG 58.119 47.826 0.00 0.00 40.71 3.66
455 468 4.341235 TGGAATAGAGGTACATGTTCGGAG 59.659 45.833 2.30 0.00 0.00 4.63
462 475 5.129485 AGAGGTACATGTTCGGAGATCAATT 59.871 40.000 2.30 0.00 39.84 2.32
482 495 2.008752 ACTGTTTGCTTTGTTGGTGC 57.991 45.000 0.00 0.00 0.00 5.01
515 528 7.069986 ACTGGGTACATATGTAGAGAATCACT 58.930 38.462 15.93 0.00 37.82 3.41
516 529 7.014711 ACTGGGTACATATGTAGAGAATCACTG 59.985 40.741 15.93 10.29 37.82 3.66
620 635 1.203287 GCAAGGAATTGTGCCTTCTCC 59.797 52.381 0.00 0.00 43.68 3.71
674 699 1.591703 CGACAAGGCTACCTGCAGA 59.408 57.895 17.39 0.00 45.15 4.26
675 700 0.737715 CGACAAGGCTACCTGCAGAC 60.738 60.000 17.39 1.04 45.15 3.51
676 701 0.321671 GACAAGGCTACCTGCAGACA 59.678 55.000 17.39 0.54 45.15 3.41
678 703 1.352352 ACAAGGCTACCTGCAGACAAT 59.648 47.619 17.39 0.00 45.15 2.71
679 704 2.571653 ACAAGGCTACCTGCAGACAATA 59.428 45.455 17.39 1.03 45.15 1.90
681 706 3.760580 AGGCTACCTGCAGACAATATC 57.239 47.619 17.39 0.00 45.15 1.63
682 707 3.312890 AGGCTACCTGCAGACAATATCT 58.687 45.455 17.39 0.75 45.15 1.98
683 708 4.483950 AGGCTACCTGCAGACAATATCTA 58.516 43.478 17.39 0.00 45.15 1.98
684 709 5.090139 AGGCTACCTGCAGACAATATCTAT 58.910 41.667 17.39 0.00 45.15 1.98
685 710 5.186797 AGGCTACCTGCAGACAATATCTATC 59.813 44.000 17.39 0.00 45.15 2.08
686 711 5.186797 GGCTACCTGCAGACAATATCTATCT 59.813 44.000 17.39 0.00 45.15 1.98
687 712 6.295575 GGCTACCTGCAGACAATATCTATCTT 60.296 42.308 17.39 0.00 45.15 2.40
703 732 2.820059 TCTTCCTGCATAGTATGGCG 57.180 50.000 12.07 2.24 0.00 5.69
704 733 1.151668 CTTCCTGCATAGTATGGCGC 58.848 55.000 12.07 0.00 0.00 6.53
740 778 7.068716 TCTGATCTGCAGTACTTGAAGCTTATA 59.931 37.037 14.67 0.00 45.14 0.98
741 779 7.730084 TGATCTGCAGTACTTGAAGCTTATAT 58.270 34.615 14.67 0.00 31.83 0.86
827 870 2.910360 CACATGGCGGGATCTCCA 59.090 61.111 0.00 4.78 37.91 3.86
848 891 1.334869 AGCTTTCTTTGTCGGTTGCTG 59.665 47.619 0.00 0.00 0.00 4.41
1012 1073 8.715191 AGTGAATTTCATCATGACTTCTACTC 57.285 34.615 0.00 0.00 0.00 2.59
1239 1317 4.141914 GGTACATGGCTAGCTAGAGTGTTT 60.142 45.833 25.15 5.77 0.00 2.83
1519 1626 5.234466 AGATATTCCGAATTCTTCAGGGG 57.766 43.478 3.52 0.00 0.00 4.79
1521 1628 2.489938 TTCCGAATTCTTCAGGGGTG 57.510 50.000 3.52 0.00 0.00 4.61
1522 1629 0.618458 TCCGAATTCTTCAGGGGTGG 59.382 55.000 3.52 0.00 0.00 4.61
1758 1865 7.636150 CTGTTCTGGATAAACAGGATGAATT 57.364 36.000 7.88 0.00 46.32 2.17
1889 1996 3.508402 TGGTAGTGACAACGAGATTGCTA 59.492 43.478 0.00 0.00 42.62 3.49
2057 2164 3.391296 TGATAGGATGGGGTTTCTAGCAC 59.609 47.826 0.00 0.00 0.00 4.40
2311 2445 3.270877 CCGAGAAATAACCTGGAAGTGG 58.729 50.000 0.00 0.00 0.00 4.00
2564 2698 0.321122 CCTTGGTGCACTGACTCTCC 60.321 60.000 17.98 0.00 0.00 3.71
2655 2790 5.869579 AGACCACTGTACAGATGACAAAAT 58.130 37.500 29.30 0.03 0.00 1.82
2841 2976 1.263356 TGCTTACAAGGCCGACTACT 58.737 50.000 0.00 0.00 0.00 2.57
2911 3046 1.532437 TCAACAGATGCAAGCAACTCG 59.468 47.619 1.56 1.93 0.00 4.18
2914 3049 2.766313 ACAGATGCAAGCAACTCGTTA 58.234 42.857 1.56 0.00 0.00 3.18
3017 3152 5.335976 GCAAGTAGCCTTCAAGTGCTTATTT 60.336 40.000 5.80 0.00 39.00 1.40
3097 3232 3.758554 TGAAGTCCTTTAGCTTTGATGGC 59.241 43.478 0.00 0.00 0.00 4.40
3099 3234 3.350833 AGTCCTTTAGCTTTGATGGCTG 58.649 45.455 0.00 0.00 40.52 4.85
3181 3319 1.609783 CCCAGCAACTAAGGAGGGG 59.390 63.158 0.00 0.00 32.59 4.79
3281 9140 3.093057 GAGCTTGACCTCTCTGGAACTA 58.907 50.000 0.00 0.00 39.71 2.24
3470 9332 0.179200 GCCGTGCATTAACCAGAACG 60.179 55.000 0.00 0.00 0.00 3.95
3473 9335 2.159707 CCGTGCATTAACCAGAACGAAG 60.160 50.000 6.51 0.00 33.03 3.79
3476 9338 1.810151 GCATTAACCAGAACGAAGCCA 59.190 47.619 0.00 0.00 0.00 4.75
3479 9341 4.618227 GCATTAACCAGAACGAAGCCATTT 60.618 41.667 0.00 0.00 0.00 2.32
3530 9392 4.090057 GGCTTGCTCGGTCGTTGC 62.090 66.667 0.00 4.80 0.00 4.17
3549 9411 6.034150 TCGTTGCGGCAACTATTATATAATCG 59.966 38.462 34.78 21.04 41.62 3.34
3564 9429 9.822185 ATTATATAATCGTTATGCAGCTGATGA 57.178 29.630 20.43 7.77 0.00 2.92
3770 9647 2.618053 CTAAGCCTCCCACTAACAACG 58.382 52.381 0.00 0.00 0.00 4.10
3772 9649 1.636148 AGCCTCCCACTAACAACGTA 58.364 50.000 0.00 0.00 0.00 3.57
3884 9774 4.219944 TCCACGATGTCTTAACTAGTGCTT 59.780 41.667 0.00 0.00 0.00 3.91
3895 9785 6.940298 TCTTAACTAGTGCTTGTTTGCCTAAT 59.060 34.615 0.00 0.00 31.51 1.73
3918 9808 4.806936 CAGCTGGCTGGTTCTCAA 57.193 55.556 14.11 0.00 40.17 3.02
3928 9818 2.328099 GGTTCTCAAGCAGTGCCGG 61.328 63.158 12.58 4.17 0.00 6.13
3949 9839 0.474854 TGGAGAGGTGCCCCAAGTTA 60.475 55.000 0.00 0.00 0.00 2.24
3966 9856 3.599348 AGTTAGGTGAAGTCTTCCCCTT 58.401 45.455 20.14 1.82 38.54 3.95
4034 9924 1.699634 TCCTAATGGCCTGCTGGATAC 59.300 52.381 14.77 3.21 34.57 2.24
4534 10445 3.181443 ACAAGAAGAAACTACCCAGGGTG 60.181 47.826 23.01 13.56 36.19 4.61
4553 10464 0.889306 GTCCGTGCTCAGGTACTCTT 59.111 55.000 0.00 0.00 34.60 2.85
4576 10487 8.739039 TCTTTCCTACATGTAACAAATCCATTG 58.261 33.333 7.06 0.00 44.95 2.82
4596 10507 5.776519 TTGTTGCTTGTGCTAAACTTTTG 57.223 34.783 0.00 0.00 40.48 2.44
4599 10511 4.305989 TGCTTGTGCTAAACTTTTGAGG 57.694 40.909 0.00 0.00 40.48 3.86
4609 10521 6.426937 TGCTAAACTTTTGAGGTCATACTCAC 59.573 38.462 0.00 0.00 46.44 3.51
4613 10565 6.808008 ACTTTTGAGGTCATACTCACATTG 57.192 37.500 0.00 0.00 46.44 2.82
4619 10571 6.166279 TGAGGTCATACTCACATTGTTTCTC 58.834 40.000 0.00 0.00 42.26 2.87
4621 10576 6.402222 AGGTCATACTCACATTGTTTCTCTC 58.598 40.000 0.00 0.00 0.00 3.20
4622 10577 6.212388 AGGTCATACTCACATTGTTTCTCTCT 59.788 38.462 0.00 0.00 0.00 3.10
4623 10578 6.312426 GGTCATACTCACATTGTTTCTCTCTG 59.688 42.308 0.00 0.00 0.00 3.35
4652 10607 2.435805 TCACATTGCCTAGGTGATCCTC 59.564 50.000 11.31 0.00 43.94 3.71
4664 10619 1.226974 GATCCTCGCGCTGCACTTA 60.227 57.895 5.56 0.00 0.00 2.24
4671 10626 1.135228 TCGCGCTGCACTTAACTGATA 60.135 47.619 5.56 0.00 0.00 2.15
4677 10632 4.446371 GCTGCACTTAACTGATATGGTCT 58.554 43.478 0.00 0.00 0.00 3.85
4683 10638 6.371548 GCACTTAACTGATATGGTCTGTTCAA 59.628 38.462 7.96 3.49 44.69 2.69
4684 10639 7.066284 GCACTTAACTGATATGGTCTGTTCAAT 59.934 37.037 7.96 0.00 44.69 2.57
4690 10645 6.990939 ACTGATATGGTCTGTTCAATGATCTG 59.009 38.462 0.00 0.00 35.73 2.90
4696 10651 6.108687 TGGTCTGTTCAATGATCTGTACATC 58.891 40.000 0.00 0.00 0.00 3.06
4697 10652 5.525378 GGTCTGTTCAATGATCTGTACATCC 59.475 44.000 0.00 0.00 0.00 3.51
4718 10675 2.013483 GATCAGATGGACGCTCGCG 61.013 63.158 10.06 10.06 46.03 5.87
4719 10676 3.490793 ATCAGATGGACGCTCGCGG 62.491 63.158 16.18 0.00 44.69 6.46
4769 10735 1.550327 TGGTTTGTTGTGTGCTTCCA 58.450 45.000 0.00 0.00 0.00 3.53
4792 10758 1.303561 TAGCTTGCCTGGGTTGCTG 60.304 57.895 0.00 0.00 35.47 4.41
4812 10778 2.439135 TGGCTAGCTGCTTAATCATGGA 59.561 45.455 15.72 0.00 42.39 3.41
4813 10779 3.117926 TGGCTAGCTGCTTAATCATGGAA 60.118 43.478 15.72 0.00 42.39 3.53
4814 10780 3.501445 GGCTAGCTGCTTAATCATGGAAG 59.499 47.826 15.72 0.00 42.39 3.46
4815 10781 3.501445 GCTAGCTGCTTAATCATGGAAGG 59.499 47.826 7.79 0.00 38.95 3.46
4816 10782 3.939740 AGCTGCTTAATCATGGAAGGA 57.060 42.857 0.00 0.00 0.00 3.36
4817 10783 4.240881 AGCTGCTTAATCATGGAAGGAA 57.759 40.909 0.00 0.00 0.00 3.36
4818 10784 4.603131 AGCTGCTTAATCATGGAAGGAAA 58.397 39.130 0.00 0.00 0.00 3.13
4819 10785 5.018809 AGCTGCTTAATCATGGAAGGAAAA 58.981 37.500 0.00 0.00 0.00 2.29
4820 10786 5.481473 AGCTGCTTAATCATGGAAGGAAAAA 59.519 36.000 0.00 0.00 0.00 1.94
4821 10787 6.155737 AGCTGCTTAATCATGGAAGGAAAAAT 59.844 34.615 0.00 0.00 0.00 1.82
4822 10788 6.820152 GCTGCTTAATCATGGAAGGAAAAATT 59.180 34.615 0.00 0.00 0.00 1.82
4827 10793 4.806640 TCATGGAAGGAAAAATTCAGGC 57.193 40.909 0.00 0.00 0.00 4.85
4841 10807 4.309950 AGGCGGTGTTGGTCGTCC 62.310 66.667 0.00 0.00 0.00 4.79
4845 10811 1.005512 CGGTGTTGGTCGTCCATCA 60.006 57.895 8.16 8.16 43.91 3.07
4865 10831 4.600062 TCAATGGTCTCTCACTGCTACTA 58.400 43.478 0.00 0.00 0.00 1.82
4866 10832 5.204292 TCAATGGTCTCTCACTGCTACTAT 58.796 41.667 0.00 0.00 0.00 2.12
4867 10833 5.658634 TCAATGGTCTCTCACTGCTACTATT 59.341 40.000 0.00 0.00 0.00 1.73
4958 10928 1.471684 CAGGATTGTTCTTGCCTGCTC 59.528 52.381 0.00 0.00 41.17 4.26
4961 10931 1.915614 ATTGTTCTTGCCTGCTCGCG 61.916 55.000 0.00 0.00 0.00 5.87
4995 10965 1.956477 AGAAGTTTGGCTTGCGATTGT 59.044 42.857 0.00 0.00 37.59 2.71
5018 10988 2.949644 GGTGCCTCTTAGTTGTGTGTTT 59.050 45.455 0.00 0.00 0.00 2.83
5020 10990 3.377172 GTGCCTCTTAGTTGTGTGTTTGT 59.623 43.478 0.00 0.00 0.00 2.83
5021 10991 3.376859 TGCCTCTTAGTTGTGTGTTTGTG 59.623 43.478 0.00 0.00 0.00 3.33
5022 10992 3.377172 GCCTCTTAGTTGTGTGTTTGTGT 59.623 43.478 0.00 0.00 0.00 3.72
5023 10993 4.573201 GCCTCTTAGTTGTGTGTTTGTGTA 59.427 41.667 0.00 0.00 0.00 2.90
5024 10994 5.503520 GCCTCTTAGTTGTGTGTTTGTGTAC 60.504 44.000 0.00 0.00 0.00 2.90
5025 10995 5.007332 CCTCTTAGTTGTGTGTTTGTGTACC 59.993 44.000 0.00 0.00 0.00 3.34
5026 10996 5.736813 TCTTAGTTGTGTGTTTGTGTACCT 58.263 37.500 0.00 0.00 0.00 3.08
5029 10999 5.347620 AGTTGTGTGTTTGTGTACCTAGA 57.652 39.130 0.00 0.00 0.00 2.43
5030 11000 5.357257 AGTTGTGTGTTTGTGTACCTAGAG 58.643 41.667 0.00 0.00 0.00 2.43
5033 11003 5.353938 TGTGTGTTTGTGTACCTAGAGTTC 58.646 41.667 0.00 0.00 0.00 3.01
5053 11422 4.277515 TCTTGACTAAGCAGCATCTGTT 57.722 40.909 0.00 0.00 33.43 3.16
5055 11424 5.793817 TCTTGACTAAGCAGCATCTGTTTA 58.206 37.500 0.00 3.73 36.41 2.01
5105 11502 0.179020 TGGTTTGAGAGCTGTGTGGG 60.179 55.000 0.00 0.00 0.00 4.61
5112 11509 1.003355 GAGCTGTGTGGGCTTGCTA 60.003 57.895 0.00 0.00 40.40 3.49
5129 11526 2.093181 TGCTACTGGTTGTGTGAGTGTT 60.093 45.455 0.00 0.00 0.00 3.32
5131 11528 3.242739 GCTACTGGTTGTGTGAGTGTTTG 60.243 47.826 0.00 0.00 0.00 2.93
5133 11530 3.153919 ACTGGTTGTGTGAGTGTTTGTT 58.846 40.909 0.00 0.00 0.00 2.83
5134 11531 4.328536 ACTGGTTGTGTGAGTGTTTGTTA 58.671 39.130 0.00 0.00 0.00 2.41
5135 11532 4.155280 ACTGGTTGTGTGAGTGTTTGTTAC 59.845 41.667 0.00 0.00 0.00 2.50
5142 11539 5.105957 TGTGTGAGTGTTTGTTACATGCTTT 60.106 36.000 0.00 0.00 39.39 3.51
5143 11540 5.455525 GTGTGAGTGTTTGTTACATGCTTTC 59.544 40.000 0.00 0.00 39.39 2.62
5144 11541 5.124617 TGTGAGTGTTTGTTACATGCTTTCA 59.875 36.000 0.00 0.00 39.39 2.69
5145 11542 6.033341 GTGAGTGTTTGTTACATGCTTTCAA 58.967 36.000 0.00 0.00 39.39 2.69
5146 11543 6.529829 GTGAGTGTTTGTTACATGCTTTCAAA 59.470 34.615 0.00 0.00 39.39 2.69
5271 11669 5.847515 GGAACCTTACGACAACAATTAAACG 59.152 40.000 0.00 0.00 0.00 3.60
5276 11674 3.868835 ACGACAACAATTAAACGTGCTC 58.131 40.909 0.00 0.00 32.93 4.26
5282 11680 6.599437 ACAACAATTAAACGTGCTCTGTATC 58.401 36.000 0.00 0.00 0.00 2.24
5299 11701 8.293867 GCTCTGTATCTCGTTAAGTTATCTGAT 58.706 37.037 0.00 0.00 0.00 2.90
5302 11704 9.531412 CTGTATCTCGTTAAGTTATCTGATACG 57.469 37.037 17.50 0.00 38.34 3.06
5303 11705 8.501580 TGTATCTCGTTAAGTTATCTGATACGG 58.498 37.037 17.50 1.50 38.34 4.02
5304 11706 7.741027 ATCTCGTTAAGTTATCTGATACGGA 57.259 36.000 8.11 5.69 0.00 4.69
5305 11707 7.187244 TCTCGTTAAGTTATCTGATACGGAG 57.813 40.000 8.11 5.54 0.00 4.63
5360 11762 9.102757 TCTGAAGAATCTGAATGTTATTACTGC 57.897 33.333 0.00 0.00 31.42 4.40
5363 11765 7.559590 AGAATCTGAATGTTATTACTGCACC 57.440 36.000 0.00 0.00 0.00 5.01
5380 11782 0.461961 ACCTAGCTTCTGACCATCGC 59.538 55.000 0.00 0.00 0.00 4.58
5414 11816 1.598924 GCTGTCAGTTTGTTGAGCTGC 60.599 52.381 0.93 0.00 36.61 5.25
5433 11835 2.365293 TGCGTGTATGGCTCAGATGTAT 59.635 45.455 0.00 0.00 0.00 2.29
5434 11836 3.572255 TGCGTGTATGGCTCAGATGTATA 59.428 43.478 0.00 0.00 0.00 1.47
5470 11872 6.878317 TCACTGGAGATAAAGTGGAGTATTG 58.122 40.000 3.21 0.00 43.28 1.90
5473 11875 6.213600 ACTGGAGATAAAGTGGAGTATTGTGT 59.786 38.462 0.00 0.00 0.00 3.72
5478 11880 8.362464 AGATAAAGTGGAGTATTGTGTGACTA 57.638 34.615 0.00 0.00 0.00 2.59
5483 11885 7.661536 AGTGGAGTATTGTGTGACTATACAT 57.338 36.000 9.82 0.00 38.61 2.29
5484 11886 8.762481 AGTGGAGTATTGTGTGACTATACATA 57.238 34.615 9.82 0.00 38.61 2.29
5486 11888 8.630917 GTGGAGTATTGTGTGACTATACATACT 58.369 37.037 9.82 0.00 38.61 2.12
5487 11889 8.847196 TGGAGTATTGTGTGACTATACATACTC 58.153 37.037 9.82 7.58 38.61 2.59
5488 11890 8.847196 GGAGTATTGTGTGACTATACATACTCA 58.153 37.037 15.00 0.00 38.61 3.41
5535 11937 2.738846 CAGTCCATCCGTATTAGCATGC 59.261 50.000 10.51 10.51 0.00 4.06
5539 11941 5.656859 AGTCCATCCGTATTAGCATGCTATA 59.343 40.000 27.35 17.90 0.00 1.31
5568 11975 0.167470 CAGAGCATTGCAGGTTGTCG 59.833 55.000 11.91 0.00 0.00 4.35
5574 11981 1.728971 CATTGCAGGTTGTCGTCTCTC 59.271 52.381 0.00 0.00 0.00 3.20
5593 12000 0.245539 CTGCCCTGCAATTTGTCTGG 59.754 55.000 0.00 4.48 38.41 3.86
5602 12009 5.314923 TGCAATTTGTCTGGCTAATCTTC 57.685 39.130 0.00 0.00 0.00 2.87
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
3 4 8.326680 TGCACATATTCCACATATTATGTCAG 57.673 34.615 6.34 2.27 42.70 3.51
21 22 8.579006 AGTGAAATTCTTCAGAAATTGCACATA 58.421 29.630 16.42 0.00 42.27 2.29
53 57 9.889128 AAAATTTGGAGAATCAAAGAGTTGAAA 57.111 25.926 0.00 0.00 46.66 2.69
89 93 6.819649 CCACAATAACAATCAATCAAAGGCAT 59.180 34.615 0.00 0.00 0.00 4.40
99 103 6.205853 AGCTACGAAACCACAATAACAATCAA 59.794 34.615 0.00 0.00 0.00 2.57
202 215 7.340232 CCATACTCCAAATTTTCTCCAATCAGA 59.660 37.037 0.00 0.00 0.00 3.27
207 220 8.112822 TCATACCATACTCCAAATTTTCTCCAA 58.887 33.333 0.00 0.00 0.00 3.53
309 322 4.758165 CACCCCAAAACTGAATACGTAGTT 59.242 41.667 0.08 0.00 37.78 2.24
317 330 3.140144 TCTCTTCCACCCCAAAACTGAAT 59.860 43.478 0.00 0.00 0.00 2.57
352 365 2.706952 TTTTCCCTTCCACGCCCCAG 62.707 60.000 0.00 0.00 0.00 4.45
353 366 2.706952 CTTTTCCCTTCCACGCCCCA 62.707 60.000 0.00 0.00 0.00 4.96
354 367 1.977009 CTTTTCCCTTCCACGCCCC 60.977 63.158 0.00 0.00 0.00 5.80
355 368 2.636412 GCTTTTCCCTTCCACGCCC 61.636 63.158 0.00 0.00 0.00 6.13
356 369 1.179174 AAGCTTTTCCCTTCCACGCC 61.179 55.000 0.00 0.00 0.00 5.68
357 370 0.241213 GAAGCTTTTCCCTTCCACGC 59.759 55.000 0.00 0.00 34.12 5.34
433 446 4.583489 TCTCCGAACATGTACCTCTATTCC 59.417 45.833 0.00 0.00 0.00 3.01
443 456 6.873997 ACAGTAATTGATCTCCGAACATGTA 58.126 36.000 0.00 0.00 0.00 2.29
455 468 6.701400 ACCAACAAAGCAAACAGTAATTGATC 59.299 34.615 0.00 0.00 0.00 2.92
462 475 2.757868 AGCACCAACAAAGCAAACAGTA 59.242 40.909 0.00 0.00 0.00 2.74
515 528 1.077068 GAAATCCGGATGTGCCCCA 60.077 57.895 19.95 0.00 0.00 4.96
516 529 1.828224 GGAAATCCGGATGTGCCCC 60.828 63.158 19.95 6.38 0.00 5.80
620 635 2.691011 TCAACCCTTCCTTTTCAAACCG 59.309 45.455 0.00 0.00 0.00 4.44
675 700 9.761504 CCATACTATGCAGGAAGATAGATATTG 57.238 37.037 0.00 0.00 0.00 1.90
676 701 8.428063 GCCATACTATGCAGGAAGATAGATATT 58.572 37.037 0.00 0.00 0.00 1.28
678 703 6.039829 CGCCATACTATGCAGGAAGATAGATA 59.960 42.308 0.00 0.00 0.00 1.98
679 704 5.163468 CGCCATACTATGCAGGAAGATAGAT 60.163 44.000 0.00 0.00 0.00 1.98
681 706 4.428209 CGCCATACTATGCAGGAAGATAG 58.572 47.826 0.00 0.00 0.00 2.08
682 707 3.368427 GCGCCATACTATGCAGGAAGATA 60.368 47.826 0.00 0.00 0.00 1.98
683 708 2.613977 GCGCCATACTATGCAGGAAGAT 60.614 50.000 0.00 0.00 0.00 2.40
684 709 1.270305 GCGCCATACTATGCAGGAAGA 60.270 52.381 0.00 0.00 0.00 2.87
685 710 1.151668 GCGCCATACTATGCAGGAAG 58.848 55.000 0.00 0.00 0.00 3.46
686 711 0.467804 TGCGCCATACTATGCAGGAA 59.532 50.000 4.18 0.00 32.73 3.36
687 712 0.467804 TTGCGCCATACTATGCAGGA 59.532 50.000 4.18 0.00 38.75 3.86
704 733 1.066358 TGCAGATCAGAGCAGAGGTTG 60.066 52.381 3.74 0.00 35.51 3.77
740 778 6.882610 TTTCAGCTATTTGACTGTTGTGAT 57.117 33.333 0.00 0.00 35.37 3.06
741 779 6.486320 TGATTTCAGCTATTTGACTGTTGTGA 59.514 34.615 0.00 0.00 35.37 3.58
820 863 3.126000 CCGACAAAGAAAGCTTGGAGATC 59.874 47.826 0.00 0.00 33.79 2.75
827 870 2.024414 AGCAACCGACAAAGAAAGCTT 58.976 42.857 0.00 0.00 35.37 3.74
848 891 1.723542 CATCACGACTTGACAGCAGAC 59.276 52.381 0.00 0.00 36.92 3.51
893 952 1.441515 GCATGCACAGCAACGACAG 60.442 57.895 14.21 0.00 43.62 3.51
1012 1073 8.786826 TTGAACAAGAGTATTACCCATGTAAG 57.213 34.615 0.00 0.00 40.16 2.34
1071 1135 8.630917 CCATGAAAATCTCAGCAGAATTAGATT 58.369 33.333 0.00 0.00 39.70 2.40
1138 1214 5.008613 ACGATTTATACATCACATGCCCAAC 59.991 40.000 0.00 0.00 0.00 3.77
1216 1294 2.959707 ACACTCTAGCTAGCCATGTACC 59.040 50.000 16.35 0.00 0.00 3.34
1239 1317 1.213296 GACCCCCAGCCTTATCAAGA 58.787 55.000 0.00 0.00 0.00 3.02
1757 1864 6.720748 TCATCAACTCCCTGAAAATCATCAAA 59.279 34.615 0.00 0.00 0.00 2.69
1758 1865 6.247676 TCATCAACTCCCTGAAAATCATCAA 58.752 36.000 0.00 0.00 0.00 2.57
1889 1996 4.079958 AGGAACACCAAAGTTGACTAGGTT 60.080 41.667 5.70 0.00 33.80 3.50
1999 2106 4.082190 TGAGTGTACCTCAGTTCATGTAGC 60.082 45.833 9.25 0.00 45.34 3.58
2057 2164 5.171476 CAGTAGTTCATACAACTGTCCAGG 58.829 45.833 0.00 0.00 36.79 4.45
2311 2445 5.824904 ACTTTGTGAGCACATTATCATCC 57.175 39.130 3.90 0.00 41.52 3.51
2564 2698 2.559998 AAACTGAAGGCACAACAACG 57.440 45.000 0.00 0.00 0.00 4.10
2655 2790 3.997856 AGTATGATCCTCTCCTTCCCCTA 59.002 47.826 0.00 0.00 0.00 3.53
2841 2976 2.376518 ACCCTGAGCCTTTGAAGATTCA 59.623 45.455 0.00 0.00 34.92 2.57
2911 3046 3.578688 CAGCTTTGCCTTGTCCATTAAC 58.421 45.455 0.00 0.00 0.00 2.01
2914 3049 0.971386 CCAGCTTTGCCTTGTCCATT 59.029 50.000 0.00 0.00 0.00 3.16
3017 3152 7.421087 TTTTAAGATCATTGCATCCATCCAA 57.579 32.000 0.00 0.00 0.00 3.53
3181 3319 6.267928 TGAGGGAAATATTAGAGACACTAGCC 59.732 42.308 0.00 0.00 32.30 3.93
3281 9140 8.157476 AGTACTGAAATCAAGTGTCCTAATTGT 58.843 33.333 0.00 0.00 35.90 2.71
3447 9309 1.078072 TGGTTAATGCACGGCCGAT 60.078 52.632 35.90 12.97 0.00 4.18
3476 9338 1.610554 GCATGCACCTCCAGCCAAAT 61.611 55.000 14.21 0.00 0.00 2.32
3479 9341 4.746309 GGCATGCACCTCCAGCCA 62.746 66.667 21.36 0.00 44.59 4.75
3530 9392 8.813282 TGCATAACGATTATATAATAGTTGCCG 58.187 33.333 29.41 21.65 40.23 5.69
3549 9411 5.496133 AACATTCTCATCAGCTGCATAAC 57.504 39.130 9.47 0.00 0.00 1.89
3770 9647 5.063186 CAGCAATCTCAATATGCCGATCTAC 59.937 44.000 0.00 0.00 40.93 2.59
3772 9649 4.001652 CAGCAATCTCAATATGCCGATCT 58.998 43.478 0.00 0.00 40.93 2.75
3830 9708 4.498009 GGATTCGGCAAACCATGTCATAAG 60.498 45.833 0.00 0.00 31.20 1.73
3832 9722 2.948979 GGATTCGGCAAACCATGTCATA 59.051 45.455 0.00 0.00 31.20 2.15
3884 9774 3.947196 CAGCTGTATCCATTAGGCAAACA 59.053 43.478 5.25 0.00 33.74 2.83
3895 9785 0.253044 GAACCAGCCAGCTGTATCCA 59.747 55.000 17.86 0.00 42.15 3.41
3918 9808 2.685017 TCTCCATCCGGCACTGCT 60.685 61.111 0.00 0.00 0.00 4.24
3966 9856 6.944290 CAGCTCCTTCAATTCATATATTCCCA 59.056 38.462 0.00 0.00 0.00 4.37
3972 9862 6.239714 GGTCTCCAGCTCCTTCAATTCATATA 60.240 42.308 0.00 0.00 0.00 0.86
4391 10302 0.824109 TTCATGTCTCTGCTACGGGG 59.176 55.000 0.00 0.00 0.00 5.73
4495 10406 2.099638 TAGTAGCGCGAGTGCACG 59.900 61.111 12.10 0.96 42.97 5.34
4534 10445 0.889306 AAGAGTACCTGAGCACGGAC 59.111 55.000 0.00 0.00 0.00 4.79
4576 10487 4.504097 CCTCAAAAGTTTAGCACAAGCAAC 59.496 41.667 0.00 0.00 45.49 4.17
4579 10490 4.202010 TGACCTCAAAAGTTTAGCACAAGC 60.202 41.667 0.00 0.00 42.56 4.01
4580 10491 5.499139 TGACCTCAAAAGTTTAGCACAAG 57.501 39.130 0.00 0.00 0.00 3.16
4596 10507 6.402222 AGAGAAACAATGTGAGTATGACCTC 58.598 40.000 0.00 0.00 0.00 3.85
4599 10511 6.183360 GCAGAGAGAAACAATGTGAGTATGAC 60.183 42.308 0.00 0.00 0.00 3.06
4609 10521 2.095364 GTGGCAGCAGAGAGAAACAATG 60.095 50.000 0.00 0.00 0.00 2.82
4613 10565 1.270518 TGAGTGGCAGCAGAGAGAAAC 60.271 52.381 0.00 0.00 0.00 2.78
4619 10571 0.803117 CAATGTGAGTGGCAGCAGAG 59.197 55.000 0.00 0.00 0.00 3.35
4621 10576 1.211969 GCAATGTGAGTGGCAGCAG 59.788 57.895 0.00 0.00 0.00 4.24
4622 10577 2.270257 GGCAATGTGAGTGGCAGCA 61.270 57.895 0.00 0.00 41.05 4.41
4623 10578 0.677731 TAGGCAATGTGAGTGGCAGC 60.678 55.000 0.38 0.00 43.68 5.25
4652 10607 1.277326 TATCAGTTAAGTGCAGCGCG 58.723 50.000 0.00 0.00 0.00 6.86
4664 10619 7.498239 CAGATCATTGAACAGACCATATCAGTT 59.502 37.037 0.00 0.00 39.58 3.16
4671 10626 6.053632 TGTACAGATCATTGAACAGACCAT 57.946 37.500 0.00 0.00 0.00 3.55
4677 10632 5.127031 TCTCGGATGTACAGATCATTGAACA 59.873 40.000 0.33 0.00 0.00 3.18
4684 10639 4.718961 TCTGATCTCGGATGTACAGATCA 58.281 43.478 18.45 18.45 46.68 2.92
4696 10651 0.039617 GAGCGTCCATCTGATCTCGG 60.040 60.000 0.00 0.00 0.00 4.63
4697 10652 0.385348 CGAGCGTCCATCTGATCTCG 60.385 60.000 10.12 10.12 40.19 4.04
4718 10675 4.400961 AACCTGCAGGAGCGAGCC 62.401 66.667 39.19 0.00 46.23 4.70
4719 10676 2.817396 GAACCTGCAGGAGCGAGC 60.817 66.667 39.19 16.15 46.23 5.03
4720 10677 1.447489 CAGAACCTGCAGGAGCGAG 60.447 63.158 39.19 21.11 46.23 5.03
4721 10678 1.758440 AACAGAACCTGCAGGAGCGA 61.758 55.000 39.19 0.00 46.23 4.93
4722 10679 1.302033 AACAGAACCTGCAGGAGCG 60.302 57.895 39.19 23.91 46.23 5.03
4723 10680 1.860484 GCAACAGAACCTGCAGGAGC 61.860 60.000 39.19 27.23 38.48 4.70
4724 10681 0.535780 TGCAACAGAACCTGCAGGAG 60.536 55.000 39.19 24.88 43.44 3.69
4798 10764 8.036575 TGAATTTTTCCTTCCATGATTAAGCAG 58.963 33.333 0.00 0.00 0.00 4.24
4812 10778 2.316108 ACACCGCCTGAATTTTTCCTT 58.684 42.857 0.00 0.00 0.00 3.36
4813 10779 1.995376 ACACCGCCTGAATTTTTCCT 58.005 45.000 0.00 0.00 0.00 3.36
4814 10780 2.403259 CAACACCGCCTGAATTTTTCC 58.597 47.619 0.00 0.00 0.00 3.13
4815 10781 2.223947 ACCAACACCGCCTGAATTTTTC 60.224 45.455 0.00 0.00 0.00 2.29
4816 10782 1.760029 ACCAACACCGCCTGAATTTTT 59.240 42.857 0.00 0.00 0.00 1.94
4817 10783 1.339929 GACCAACACCGCCTGAATTTT 59.660 47.619 0.00 0.00 0.00 1.82
4818 10784 0.958822 GACCAACACCGCCTGAATTT 59.041 50.000 0.00 0.00 0.00 1.82
4819 10785 1.234615 CGACCAACACCGCCTGAATT 61.235 55.000 0.00 0.00 0.00 2.17
4820 10786 1.671054 CGACCAACACCGCCTGAAT 60.671 57.895 0.00 0.00 0.00 2.57
4821 10787 2.280524 CGACCAACACCGCCTGAA 60.281 61.111 0.00 0.00 0.00 3.02
4822 10788 3.509137 GACGACCAACACCGCCTGA 62.509 63.158 0.00 0.00 0.00 3.86
4841 10807 3.263489 AGCAGTGAGAGACCATTGATG 57.737 47.619 0.00 0.00 0.00 3.07
4845 10811 5.423610 ACAATAGTAGCAGTGAGAGACCATT 59.576 40.000 0.00 0.00 0.00 3.16
4850 10816 4.767409 ACACACAATAGTAGCAGTGAGAGA 59.233 41.667 0.00 0.00 35.97 3.10
4865 10831 3.509575 ACCTGACACAACAAACACACAAT 59.490 39.130 0.00 0.00 0.00 2.71
4866 10832 2.887783 ACCTGACACAACAAACACACAA 59.112 40.909 0.00 0.00 0.00 3.33
4867 10833 2.227626 CACCTGACACAACAAACACACA 59.772 45.455 0.00 0.00 0.00 3.72
4914 10880 7.665690 TGCTTCTTATTTGAAAGCCACAAATA 58.334 30.769 13.01 13.01 43.25 1.40
4961 10931 0.673644 ACTTCTGCACACATACCGGC 60.674 55.000 0.00 0.00 0.00 6.13
4964 10934 2.351738 GCCAAACTTCTGCACACATACC 60.352 50.000 0.00 0.00 0.00 2.73
4965 10935 2.554032 AGCCAAACTTCTGCACACATAC 59.446 45.455 0.00 0.00 0.00 2.39
4995 10965 1.136828 ACACAACTAAGAGGCACCCA 58.863 50.000 0.00 0.00 0.00 4.51
5018 10988 6.072064 GCTTAGTCAAGAACTCTAGGTACACA 60.072 42.308 0.00 0.00 39.55 3.72
5020 10990 6.008331 TGCTTAGTCAAGAACTCTAGGTACA 58.992 40.000 0.00 0.00 39.55 2.90
5021 10991 6.512342 TGCTTAGTCAAGAACTCTAGGTAC 57.488 41.667 0.00 0.00 39.55 3.34
5022 10992 5.125739 GCTGCTTAGTCAAGAACTCTAGGTA 59.874 44.000 0.00 0.00 39.55 3.08
5023 10993 4.081917 GCTGCTTAGTCAAGAACTCTAGGT 60.082 45.833 0.00 0.00 39.55 3.08
5024 10994 4.081972 TGCTGCTTAGTCAAGAACTCTAGG 60.082 45.833 0.00 0.00 39.55 3.02
5025 10995 5.065704 TGCTGCTTAGTCAAGAACTCTAG 57.934 43.478 0.00 0.00 39.55 2.43
5026 10996 5.420421 AGATGCTGCTTAGTCAAGAACTCTA 59.580 40.000 0.00 0.00 39.55 2.43
5029 10999 4.252073 CAGATGCTGCTTAGTCAAGAACT 58.748 43.478 0.00 0.00 42.33 3.01
5030 11000 3.999663 ACAGATGCTGCTTAGTCAAGAAC 59.000 43.478 0.00 0.00 34.37 3.01
5033 11003 6.484540 CATAAACAGATGCTGCTTAGTCAAG 58.515 40.000 0.00 0.00 34.37 3.02
5078 11448 0.954452 GCTCTCAAACCACACAAGGG 59.046 55.000 0.00 0.00 0.00 3.95
5082 11452 1.065491 ACACAGCTCTCAAACCACACA 60.065 47.619 0.00 0.00 0.00 3.72
5105 11502 1.532868 CTCACACAACCAGTAGCAAGC 59.467 52.381 0.00 0.00 0.00 4.01
5112 11509 2.790433 ACAAACACTCACACAACCAGT 58.210 42.857 0.00 0.00 0.00 4.00
5195 11593 8.618677 AGAATATTACAATTGATCACTGCACAG 58.381 33.333 13.59 0.00 0.00 3.66
5196 11594 8.510243 AGAATATTACAATTGATCACTGCACA 57.490 30.769 13.59 0.00 0.00 4.57
5256 11654 3.900116 CAGAGCACGTTTAATTGTTGTCG 59.100 43.478 0.00 0.00 0.00 4.35
5271 11669 7.377397 CAGATAACTTAACGAGATACAGAGCAC 59.623 40.741 0.00 0.00 0.00 4.40
5276 11674 9.531412 CGTATCAGATAACTTAACGAGATACAG 57.469 37.037 16.12 10.15 37.50 2.74
5282 11680 6.957150 ACTCCGTATCAGATAACTTAACGAG 58.043 40.000 3.20 2.49 0.00 4.18
5299 11701 6.035005 GTCGCTGTCGTATATTATACTCCGTA 59.965 42.308 11.15 0.00 36.96 4.02
5300 11702 4.931601 TCGCTGTCGTATATTATACTCCGT 59.068 41.667 11.15 0.00 36.96 4.69
5301 11703 5.063186 AGTCGCTGTCGTATATTATACTCCG 59.937 44.000 11.15 7.01 36.96 4.63
5302 11704 6.128336 ACAGTCGCTGTCGTATATTATACTCC 60.128 42.308 11.15 3.47 41.21 3.85
5303 11705 6.829703 ACAGTCGCTGTCGTATATTATACTC 58.170 40.000 11.15 5.88 41.21 2.59
5304 11706 6.798315 ACAGTCGCTGTCGTATATTATACT 57.202 37.500 11.15 0.00 41.21 2.12
5305 11707 7.513132 TGTACAGTCGCTGTCGTATATTATAC 58.487 38.462 14.38 4.07 41.21 1.47
5360 11762 1.804372 GCGATGGTCAGAAGCTAGGTG 60.804 57.143 0.00 0.00 0.00 4.00
5363 11765 2.593346 AAGCGATGGTCAGAAGCTAG 57.407 50.000 0.00 0.00 37.15 3.42
5380 11782 5.186996 ACTGACAGCACAAATAACCAAAG 57.813 39.130 1.25 0.00 0.00 2.77
5414 11816 5.629079 TCTATACATCTGAGCCATACACG 57.371 43.478 0.00 0.00 0.00 4.49
5470 11872 9.457110 CAGAAGAATGAGTATGTATAGTCACAC 57.543 37.037 10.69 8.43 43.33 3.82
5473 11875 8.633561 CCACAGAAGAATGAGTATGTATAGTCA 58.366 37.037 10.83 10.83 44.29 3.41
5478 11880 9.739276 TTTTTCCACAGAAGAATGAGTATGTAT 57.261 29.630 0.00 0.00 32.35 2.29
5488 11890 7.651808 CAGTGTACATTTTTCCACAGAAGAAT 58.348 34.615 0.00 0.00 37.30 2.40
5489 11891 6.459573 GCAGTGTACATTTTTCCACAGAAGAA 60.460 38.462 0.00 0.00 32.35 2.52
5490 11892 5.008613 GCAGTGTACATTTTTCCACAGAAGA 59.991 40.000 0.00 0.00 32.35 2.87
5491 11893 5.215160 GCAGTGTACATTTTTCCACAGAAG 58.785 41.667 0.00 0.00 32.35 2.85
5492 11894 4.642437 TGCAGTGTACATTTTTCCACAGAA 59.358 37.500 0.00 0.00 0.00 3.02
5535 11937 6.312180 TGCAATGCTCTGCTATCGAATTATAG 59.688 38.462 6.82 0.00 43.07 1.31
5539 11941 3.208594 TGCAATGCTCTGCTATCGAATT 58.791 40.909 6.82 0.00 43.07 2.17
5568 11975 1.471684 CAAATTGCAGGGCAGAGAGAC 59.528 52.381 0.00 0.00 40.61 3.36
5574 11981 0.245539 CCAGACAAATTGCAGGGCAG 59.754 55.000 0.00 0.00 40.61 4.85
5593 12000 1.262683 GCACTGGATGCGAAGATTAGC 59.737 52.381 0.00 0.00 46.55 3.09


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

AutoCloner maintained by Alex Coulton.