Multiple sequence alignment - TraesCS7D01G226500

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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 TraesCS7D01G226500 chr7D 100.000 2929 0 0 1 2929 186419738 186416810 0.000000e+00 5409
1 TraesCS7D01G226500 chr7B 87.874 1839 131 42 801 2572 329365184 329363371 0.000000e+00 2076
2 TraesCS7D01G226500 chr7A 88.337 1732 133 28 935 2627 198651582 198653283 0.000000e+00 2015
3 TraesCS7D01G226500 chr7A 87.889 611 60 11 48 655 198650606 198651205 0.000000e+00 706
4 TraesCS7D01G226500 chr7A 90.476 294 14 3 2645 2929 198653268 198653556 2.760000e-100 375


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 TraesCS7D01G226500 chr7D 186416810 186419738 2928 True 5409 5409 100.000000 1 2929 1 chr7D.!!$R1 2928
1 TraesCS7D01G226500 chr7B 329363371 329365184 1813 True 2076 2076 87.874000 801 2572 1 chr7B.!!$R1 1771
2 TraesCS7D01G226500 chr7A 198650606 198653556 2950 False 1032 2015 88.900667 48 2929 3 chr7A.!!$F1 2881

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
20 21 0.110486 ACGGGCTGGTTGAACAGATT 59.890 50.0 0.00 0.0 40.97 2.40 F
113 114 0.251165 GTGGCCTGGGTGTATGTGTT 60.251 55.0 3.32 0.0 0.00 3.32 F
1116 1334 0.252284 TCTTCTCCTCCACCTCCACC 60.252 60.0 0.00 0.0 0.00 4.61 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1175 1393 0.875059 GGCTTGTGAGAAGAAACGGG 59.125 55.000 0.00 0.0 0.00 5.28 R
1313 1533 1.325943 GAAGACACTAGCGCAAGATGC 59.674 52.381 11.47 0.0 40.69 3.91 R
2780 3068 0.378962 CGACTCGAGGACCTGATCAC 59.621 60.000 18.41 0.0 0.00 3.06 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
17 18 3.655481 GACGGGCTGGTTGAACAG 58.345 61.111 0.00 0.00 41.41 3.16
18 19 1.070786 GACGGGCTGGTTGAACAGA 59.929 57.895 0.00 0.00 40.97 3.41
19 20 0.321653 GACGGGCTGGTTGAACAGAT 60.322 55.000 0.00 0.00 40.97 2.90
20 21 0.110486 ACGGGCTGGTTGAACAGATT 59.890 50.000 0.00 0.00 40.97 2.40
21 22 1.349688 ACGGGCTGGTTGAACAGATTA 59.650 47.619 0.00 0.00 40.97 1.75
22 23 2.224670 ACGGGCTGGTTGAACAGATTAA 60.225 45.455 0.00 0.00 40.97 1.40
23 24 2.817258 CGGGCTGGTTGAACAGATTAAA 59.183 45.455 0.00 0.00 40.97 1.52
24 25 3.443681 CGGGCTGGTTGAACAGATTAAAT 59.556 43.478 0.00 0.00 40.97 1.40
25 26 4.675146 CGGGCTGGTTGAACAGATTAAATG 60.675 45.833 0.00 0.00 40.97 2.32
26 27 4.220602 GGGCTGGTTGAACAGATTAAATGT 59.779 41.667 0.00 0.00 40.97 2.71
27 28 5.163513 GGCTGGTTGAACAGATTAAATGTG 58.836 41.667 0.00 0.00 40.97 3.21
28 29 5.048083 GGCTGGTTGAACAGATTAAATGTGA 60.048 40.000 0.00 0.00 40.97 3.58
29 30 5.858581 GCTGGTTGAACAGATTAAATGTGAC 59.141 40.000 0.00 0.00 40.97 3.67
30 31 5.996219 TGGTTGAACAGATTAAATGTGACG 58.004 37.500 0.00 0.00 0.00 4.35
31 32 5.760743 TGGTTGAACAGATTAAATGTGACGA 59.239 36.000 0.00 0.00 0.00 4.20
32 33 6.073276 TGGTTGAACAGATTAAATGTGACGAG 60.073 38.462 0.00 0.00 0.00 4.18
33 34 6.073222 GGTTGAACAGATTAAATGTGACGAGT 60.073 38.462 0.00 0.00 0.00 4.18
34 35 6.466308 TGAACAGATTAAATGTGACGAGTG 57.534 37.500 0.00 0.00 0.00 3.51
35 36 4.928661 ACAGATTAAATGTGACGAGTGC 57.071 40.909 0.00 0.00 0.00 4.40
36 37 3.684788 ACAGATTAAATGTGACGAGTGCC 59.315 43.478 0.00 0.00 0.00 5.01
37 38 3.684305 CAGATTAAATGTGACGAGTGCCA 59.316 43.478 0.00 0.00 0.00 4.92
38 39 4.154015 CAGATTAAATGTGACGAGTGCCAA 59.846 41.667 0.00 0.00 0.00 4.52
39 40 4.943705 AGATTAAATGTGACGAGTGCCAAT 59.056 37.500 0.00 0.00 0.00 3.16
40 41 2.995466 AAATGTGACGAGTGCCAATG 57.005 45.000 0.00 0.00 0.00 2.82
41 42 1.167851 AATGTGACGAGTGCCAATGG 58.832 50.000 0.00 0.00 0.00 3.16
54 55 1.307355 CCAATGGCGTCATGTCAGCA 61.307 55.000 1.74 0.00 34.22 4.41
89 90 2.079158 CACCTTGTCGTCTAGGTCGTA 58.921 52.381 12.25 0.00 45.20 3.43
102 103 1.449601 GTCGTACATGGTGGCCTGG 60.450 63.158 3.32 0.00 0.00 4.45
110 111 1.214305 ATGGTGGCCTGGGTGTATGT 61.214 55.000 3.32 0.00 0.00 2.29
113 114 0.251165 GTGGCCTGGGTGTATGTGTT 60.251 55.000 3.32 0.00 0.00 3.32
120 121 1.133325 TGGGTGTATGTGTTTGCCCTT 60.133 47.619 0.00 0.00 37.09 3.95
125 126 3.058224 GTGTATGTGTTTGCCCTTGAGTC 60.058 47.826 0.00 0.00 0.00 3.36
128 129 2.023673 TGTGTTTGCCCTTGAGTCTTG 58.976 47.619 0.00 0.00 0.00 3.02
134 135 1.064017 TGCCCTTGAGTCTTGGTTGTT 60.064 47.619 0.00 0.00 0.00 2.83
135 136 1.338020 GCCCTTGAGTCTTGGTTGTTG 59.662 52.381 0.00 0.00 0.00 3.33
141 142 1.940613 GAGTCTTGGTTGTTGCGTCTT 59.059 47.619 0.00 0.00 0.00 3.01
143 144 1.400494 GTCTTGGTTGTTGCGTCTTGT 59.600 47.619 0.00 0.00 0.00 3.16
145 146 2.159448 TCTTGGTTGTTGCGTCTTGTTG 60.159 45.455 0.00 0.00 0.00 3.33
151 152 0.454196 GTTGCGTCTTGTTGGGTTGT 59.546 50.000 0.00 0.00 0.00 3.32
156 157 2.672760 GCGTCTTGTTGGGTTGTGTTTT 60.673 45.455 0.00 0.00 0.00 2.43
157 158 3.580731 CGTCTTGTTGGGTTGTGTTTTT 58.419 40.909 0.00 0.00 0.00 1.94
280 282 7.667043 ACAAACTCTTGTCTTATTCGCATTA 57.333 32.000 0.00 0.00 42.25 1.90
295 297 9.781834 TTATTCGCATTAGACAAAATAAAGTGG 57.218 29.630 0.00 0.00 0.00 4.00
359 362 9.370126 CAACTTTTTGAAACTAACTCTCATACG 57.630 33.333 0.00 0.00 34.24 3.06
369 372 0.319040 CTCTCATACGTCCCATGGCG 60.319 60.000 6.09 8.35 0.00 5.69
385 388 3.923614 CGACATCGGAATCGCCTC 58.076 61.111 2.63 0.00 36.13 4.70
416 419 4.957296 ACACGAAGACACTGAAACCTAAT 58.043 39.130 0.00 0.00 0.00 1.73
419 422 6.645415 ACACGAAGACACTGAAACCTAATAAG 59.355 38.462 0.00 0.00 0.00 1.73
448 451 2.668550 GTCCCCGCACAACTCCAC 60.669 66.667 0.00 0.00 0.00 4.02
465 468 4.752879 CGGTCCCGTGCGTTCCAT 62.753 66.667 0.00 0.00 34.35 3.41
466 469 2.359478 GGTCCCGTGCGTTCCATT 60.359 61.111 0.00 0.00 0.00 3.16
467 470 2.396157 GGTCCCGTGCGTTCCATTC 61.396 63.158 0.00 0.00 0.00 2.67
468 471 2.046700 TCCCGTGCGTTCCATTCC 60.047 61.111 0.00 0.00 0.00 3.01
501 504 3.879932 GTTGGAGACGAGGAAAAACAG 57.120 47.619 0.00 0.00 0.00 3.16
502 505 1.878953 TGGAGACGAGGAAAAACAGC 58.121 50.000 0.00 0.00 0.00 4.40
504 507 0.790814 GAGACGAGGAAAAACAGCGG 59.209 55.000 0.00 0.00 0.00 5.52
506 509 1.202604 AGACGAGGAAAAACAGCGGAA 60.203 47.619 0.00 0.00 0.00 4.30
507 510 0.942252 ACGAGGAAAAACAGCGGAAC 59.058 50.000 0.00 0.00 0.00 3.62
508 511 0.941542 CGAGGAAAAACAGCGGAACA 59.058 50.000 0.00 0.00 0.00 3.18
509 512 1.332375 CGAGGAAAAACAGCGGAACAA 59.668 47.619 0.00 0.00 0.00 2.83
510 513 2.031157 CGAGGAAAAACAGCGGAACAAT 60.031 45.455 0.00 0.00 0.00 2.71
511 514 3.565516 GAGGAAAAACAGCGGAACAATC 58.434 45.455 0.00 0.00 0.00 2.67
512 515 2.031157 AGGAAAAACAGCGGAACAATCG 60.031 45.455 0.00 0.00 0.00 3.34
513 516 2.315901 GAAAAACAGCGGAACAATCGG 58.684 47.619 0.00 0.00 0.00 4.18
561 564 4.903054 AGGGTTTTTCCTAGGTTACGAAG 58.097 43.478 9.08 0.00 34.92 3.79
562 565 4.005650 GGGTTTTTCCTAGGTTACGAAGG 58.994 47.826 9.08 0.00 36.25 3.46
563 566 4.263025 GGGTTTTTCCTAGGTTACGAAGGA 60.263 45.833 9.08 0.90 37.64 3.36
564 567 5.308014 GGTTTTTCCTAGGTTACGAAGGAA 58.692 41.667 9.08 11.44 45.44 3.36
658 661 9.474920 TTTATCCTGCAAATTAAACAAACTCTG 57.525 29.630 0.00 0.00 0.00 3.35
660 663 6.503524 TCCTGCAAATTAAACAAACTCTGTC 58.496 36.000 0.00 0.00 37.23 3.51
661 664 5.691754 CCTGCAAATTAAACAAACTCTGTCC 59.308 40.000 0.00 0.00 37.23 4.02
662 665 5.596845 TGCAAATTAAACAAACTCTGTCCC 58.403 37.500 0.00 0.00 37.23 4.46
663 666 5.362430 TGCAAATTAAACAAACTCTGTCCCT 59.638 36.000 0.00 0.00 37.23 4.20
664 667 5.691754 GCAAATTAAACAAACTCTGTCCCTG 59.308 40.000 0.00 0.00 37.23 4.45
665 668 5.453567 AATTAAACAAACTCTGTCCCTGC 57.546 39.130 0.00 0.00 37.23 4.85
666 669 2.435372 AAACAAACTCTGTCCCTGCA 57.565 45.000 0.00 0.00 37.23 4.41
667 670 2.435372 AACAAACTCTGTCCCTGCAA 57.565 45.000 0.00 0.00 37.23 4.08
668 671 2.435372 ACAAACTCTGTCCCTGCAAA 57.565 45.000 0.00 0.00 29.87 3.68
669 672 2.733956 ACAAACTCTGTCCCTGCAAAA 58.266 42.857 0.00 0.00 29.87 2.44
670 673 3.096092 ACAAACTCTGTCCCTGCAAAAA 58.904 40.909 0.00 0.00 29.87 1.94
671 674 3.706086 ACAAACTCTGTCCCTGCAAAAAT 59.294 39.130 0.00 0.00 29.87 1.82
672 675 4.892934 ACAAACTCTGTCCCTGCAAAAATA 59.107 37.500 0.00 0.00 29.87 1.40
673 676 5.362430 ACAAACTCTGTCCCTGCAAAAATAA 59.638 36.000 0.00 0.00 29.87 1.40
674 677 6.041979 ACAAACTCTGTCCCTGCAAAAATAAT 59.958 34.615 0.00 0.00 29.87 1.28
675 678 7.232534 ACAAACTCTGTCCCTGCAAAAATAATA 59.767 33.333 0.00 0.00 29.87 0.98
676 679 7.775053 AACTCTGTCCCTGCAAAAATAATAA 57.225 32.000 0.00 0.00 0.00 1.40
677 680 7.961326 ACTCTGTCCCTGCAAAAATAATAAT 57.039 32.000 0.00 0.00 0.00 1.28
678 681 8.366359 ACTCTGTCCCTGCAAAAATAATAATT 57.634 30.769 0.00 0.00 0.00 1.40
679 682 9.474313 ACTCTGTCCCTGCAAAAATAATAATTA 57.526 29.630 0.00 0.00 0.00 1.40
796 973 6.273495 GGAATATAGTCTTCTCCCTGGGAATT 59.727 42.308 17.81 9.88 0.00 2.17
894 1076 2.861101 GCAGAGGCGATCGATCCCA 61.861 63.158 25.45 0.00 0.00 4.37
895 1077 1.006805 CAGAGGCGATCGATCCCAC 60.007 63.158 25.45 21.17 0.00 4.61
896 1078 2.203771 AGAGGCGATCGATCCCACC 61.204 63.158 25.45 20.86 0.00 4.61
897 1079 2.443952 AGGCGATCGATCCCACCA 60.444 61.111 25.45 0.00 0.00 4.17
898 1080 1.821061 GAGGCGATCGATCCCACCAT 61.821 60.000 25.45 13.47 0.00 3.55
899 1081 1.669115 GGCGATCGATCCCACCATG 60.669 63.158 21.57 4.93 0.00 3.66
900 1082 1.669115 GCGATCGATCCCACCATGG 60.669 63.158 21.57 11.19 37.25 3.66
901 1083 1.669115 CGATCGATCCCACCATGGC 60.669 63.158 19.51 0.00 35.79 4.40
902 1084 1.451504 GATCGATCCCACCATGGCA 59.548 57.895 13.04 0.00 35.79 4.92
918 1100 1.281867 TGGCACCATTTCCTCTTCGAT 59.718 47.619 0.00 0.00 0.00 3.59
919 1101 2.290896 TGGCACCATTTCCTCTTCGATT 60.291 45.455 0.00 0.00 0.00 3.34
920 1102 2.098117 GGCACCATTTCCTCTTCGATTG 59.902 50.000 0.00 0.00 0.00 2.67
921 1103 2.749621 GCACCATTTCCTCTTCGATTGT 59.250 45.455 0.00 0.00 0.00 2.71
922 1104 3.181506 GCACCATTTCCTCTTCGATTGTC 60.182 47.826 0.00 0.00 0.00 3.18
923 1105 4.256920 CACCATTTCCTCTTCGATTGTCT 58.743 43.478 0.00 0.00 0.00 3.41
924 1106 4.331168 CACCATTTCCTCTTCGATTGTCTC 59.669 45.833 0.00 0.00 0.00 3.36
925 1107 4.020218 ACCATTTCCTCTTCGATTGTCTCA 60.020 41.667 0.00 0.00 0.00 3.27
926 1108 4.937620 CCATTTCCTCTTCGATTGTCTCAA 59.062 41.667 0.00 0.00 0.00 3.02
927 1109 5.412594 CCATTTCCTCTTCGATTGTCTCAAA 59.587 40.000 0.00 0.00 0.00 2.69
928 1110 6.072508 CCATTTCCTCTTCGATTGTCTCAAAA 60.073 38.462 0.00 0.00 0.00 2.44
929 1111 6.935741 TTTCCTCTTCGATTGTCTCAAAAA 57.064 33.333 0.00 0.00 0.00 1.94
993 1210 1.451387 GTTGGGCGTCGGAATCCAT 60.451 57.895 0.00 0.00 0.00 3.41
994 1211 1.451207 TTGGGCGTCGGAATCCATG 60.451 57.895 0.00 0.00 0.00 3.66
995 1212 2.591715 GGGCGTCGGAATCCATGG 60.592 66.667 4.97 4.97 0.00 3.66
996 1213 2.189521 GGCGTCGGAATCCATGGT 59.810 61.111 12.58 0.00 0.00 3.55
1116 1334 0.252284 TCTTCTCCTCCACCTCCACC 60.252 60.000 0.00 0.00 0.00 4.61
1117 1335 0.252467 CTTCTCCTCCACCTCCACCT 60.252 60.000 0.00 0.00 0.00 4.00
1118 1336 0.252284 TTCTCCTCCACCTCCACCTC 60.252 60.000 0.00 0.00 0.00 3.85
1119 1337 1.687493 CTCCTCCACCTCCACCTCC 60.687 68.421 0.00 0.00 0.00 4.30
1120 1338 2.122729 CCTCCACCTCCACCTCCA 59.877 66.667 0.00 0.00 0.00 3.86
1121 1339 2.294078 CCTCCACCTCCACCTCCAC 61.294 68.421 0.00 0.00 0.00 4.02
1175 1393 2.481471 GCGCCAACCCTAAGCCATC 61.481 63.158 0.00 0.00 0.00 3.51
1293 1513 6.652062 TGTTAGCTAGGTAAGGTTAACAAAGC 59.348 38.462 14.53 5.18 37.13 3.51
1313 1533 2.860735 GCGAGTAACAGCCATAGTTCTG 59.139 50.000 0.00 0.00 36.45 3.02
1321 1541 2.033049 CAGCCATAGTTCTGCATCTTGC 59.967 50.000 0.00 0.00 45.29 4.01
1331 1555 3.056628 GCATCTTGCGCTAGTGTCT 57.943 52.632 18.20 0.12 31.71 3.41
1332 1556 1.363744 GCATCTTGCGCTAGTGTCTT 58.636 50.000 18.20 0.00 31.71 3.01
1377 1612 1.453155 ACAGGCTAAACAAGATGGCG 58.547 50.000 0.00 0.00 0.00 5.69
1470 1705 3.412386 GACACCTCATGTAAACAAGCCT 58.588 45.455 0.00 0.00 43.56 4.58
1549 1787 5.337578 AGCAAAATAAACAACGGGCATAT 57.662 34.783 0.00 0.00 0.00 1.78
1662 1900 6.515272 TTTTCATGTCTCTCCTTATTTGCC 57.485 37.500 0.00 0.00 0.00 4.52
1667 1905 3.132289 TGTCTCTCCTTATTTGCCCTACG 59.868 47.826 0.00 0.00 0.00 3.51
1702 1942 1.877680 CGCATCCTGACTTCCACAACA 60.878 52.381 0.00 0.00 0.00 3.33
1736 1976 0.250727 GCTGCAGGGTTGAGGTGTTA 60.251 55.000 17.12 0.00 0.00 2.41
1740 1980 1.071699 GCAGGGTTGAGGTGTTACTCA 59.928 52.381 0.00 0.00 45.22 3.41
1749 1989 6.408092 GGTTGAGGTGTTACTCATGATATGGA 60.408 42.308 0.00 0.00 46.07 3.41
1778 2018 6.464222 TGCTTTGTATGCTCTACTAGTGTTT 58.536 36.000 5.39 0.00 0.00 2.83
1790 2030 2.482721 ACTAGTGTTTGCGTGTATTGCC 59.517 45.455 0.00 0.00 0.00 4.52
1801 2041 5.773575 TGCGTGTATTGCCTTTTATTTCAA 58.226 33.333 0.00 0.00 0.00 2.69
1804 2044 6.364976 GCGTGTATTGCCTTTTATTTCAAGTT 59.635 34.615 0.00 0.00 0.00 2.66
1805 2045 7.095816 GCGTGTATTGCCTTTTATTTCAAGTTT 60.096 33.333 0.00 0.00 0.00 2.66
1877 2117 5.415701 GTGCATGAGATTAACCAAGGAAGAA 59.584 40.000 0.00 0.00 0.00 2.52
2018 2259 5.206299 CACTCTCGACGTCTTTCATATACC 58.794 45.833 14.70 0.00 0.00 2.73
2085 2327 7.346208 TGTCTGATGTTTAGTGTTTACGATG 57.654 36.000 0.00 0.00 0.00 3.84
2088 2330 8.371053 GTCTGATGTTTAGTGTTTACGATGTAC 58.629 37.037 0.00 0.00 0.00 2.90
2093 2335 6.360414 TGTTTAGTGTTTACGATGTACAGTCG 59.640 38.462 19.41 19.41 44.26 4.18
2094 2336 3.240069 AGTGTTTACGATGTACAGTCGC 58.760 45.455 20.36 9.97 42.56 5.19
2096 2338 1.580704 GTTTACGATGTACAGTCGCGG 59.419 52.381 20.36 0.00 42.56 6.46
2101 2357 2.613595 ACGATGTACAGTCGCGGTATTA 59.386 45.455 20.36 0.00 42.56 0.98
2113 2369 4.043750 TCGCGGTATTAACTGGTTTATCG 58.956 43.478 6.13 0.00 32.14 2.92
2137 2393 1.734465 CTTGAACTCATCTTGGGTCGC 59.266 52.381 0.00 0.00 25.77 5.19
2139 2395 0.744771 GAACTCATCTTGGGTCGCCC 60.745 60.000 7.87 7.87 45.71 6.13
2159 2415 4.398319 CCCACTTGTTGAAGTTGGATACT 58.602 43.478 0.00 0.00 44.47 2.12
2170 2426 9.994432 GTTGAAGTTGGATACTAATTTGATCTG 57.006 33.333 0.00 0.00 35.54 2.90
2190 2446 7.712639 TGATCTGAATCAACTATTTAGCCAGTC 59.287 37.037 0.00 0.00 38.97 3.51
2192 2458 7.044181 TCTGAATCAACTATTTAGCCAGTCAG 58.956 38.462 0.00 0.00 32.53 3.51
2224 2490 7.761409 TGTACTTATTGAAATCCAATGCTGAC 58.239 34.615 0.00 0.00 44.67 3.51
2241 2507 7.741027 ATGCTGACTGGATCACTTATATTTG 57.259 36.000 0.00 0.00 32.37 2.32
2245 2511 6.280643 TGACTGGATCACTTATATTTGGTCG 58.719 40.000 0.00 0.00 29.99 4.79
2251 2518 7.777910 TGGATCACTTATATTTGGTCGGATTTT 59.222 33.333 0.00 0.00 0.00 1.82
2252 2519 8.290325 GGATCACTTATATTTGGTCGGATTTTC 58.710 37.037 0.00 0.00 0.00 2.29
2253 2520 8.746052 ATCACTTATATTTGGTCGGATTTTCA 57.254 30.769 0.00 0.00 0.00 2.69
2254 2521 8.208718 TCACTTATATTTGGTCGGATTTTCAG 57.791 34.615 0.00 0.00 0.00 3.02
2255 2522 7.827236 TCACTTATATTTGGTCGGATTTTCAGT 59.173 33.333 0.00 0.00 0.00 3.41
2257 2524 9.326413 ACTTATATTTGGTCGGATTTTCAGTAG 57.674 33.333 0.00 0.00 0.00 2.57
2258 2525 9.326413 CTTATATTTGGTCGGATTTTCAGTAGT 57.674 33.333 0.00 0.00 0.00 2.73
2259 2526 5.880054 ATTTGGTCGGATTTTCAGTAGTG 57.120 39.130 0.00 0.00 0.00 2.74
2260 2527 4.345859 TTGGTCGGATTTTCAGTAGTGT 57.654 40.909 0.00 0.00 0.00 3.55
2288 2555 0.606401 ATTGTTCACTGGCCTGACCG 60.606 55.000 17.64 4.48 43.94 4.79
2305 2572 5.765182 CCTGACCGAATATAGGCAAAAGATT 59.235 40.000 0.00 0.00 0.00 2.40
2319 2586 7.099120 AGGCAAAAGATTTGAATGGTGTATTC 58.901 34.615 6.99 0.00 44.45 1.75
2334 2601 6.774673 TGGTGTATTCCTGAGTTAATTGTGA 58.225 36.000 0.00 0.00 0.00 3.58
2361 2628 7.118723 TCATAGACTTGTTTGGCATCCTTATT 58.881 34.615 0.00 0.00 0.00 1.40
2381 2648 2.683968 TGATGCCGAGTTAACTGACAC 58.316 47.619 14.14 0.00 0.00 3.67
2386 2653 4.827692 TGCCGAGTTAACTGACACATATT 58.172 39.130 14.14 0.00 0.00 1.28
2387 2654 4.629634 TGCCGAGTTAACTGACACATATTG 59.370 41.667 14.14 0.00 0.00 1.90
2389 2656 5.523916 GCCGAGTTAACTGACACATATTGAT 59.476 40.000 14.14 0.00 0.00 2.57
2390 2657 6.700081 GCCGAGTTAACTGACACATATTGATA 59.300 38.462 14.14 0.00 0.00 2.15
2391 2658 7.385205 GCCGAGTTAACTGACACATATTGATAT 59.615 37.037 14.14 0.00 0.00 1.63
2392 2659 9.908152 CCGAGTTAACTGACACATATTGATATA 57.092 33.333 14.14 0.00 0.00 0.86
2423 2690 7.876896 TTTGCTTTTAAACGTTTCAGTTTCT 57.123 28.000 18.42 0.00 42.63 2.52
2424 2691 7.876896 TTGCTTTTAAACGTTTCAGTTTCTT 57.123 28.000 18.42 0.00 42.63 2.52
2486 2753 9.541143 GTTTCTAGAATGAAAAATTCCAACCAA 57.459 29.630 5.89 0.00 37.63 3.67
2505 2772 4.141287 CCAAATGTAGTTGAGGTGAACCA 58.859 43.478 1.62 0.00 38.89 3.67
2523 2802 5.353123 TGAACCACTGAACGAAATAATAGGC 59.647 40.000 0.00 0.00 0.00 3.93
2562 2841 2.965831 AGCTCTATGGCGAAGGTTATGA 59.034 45.455 0.00 0.00 37.29 2.15
2574 2853 6.128117 GGCGAAGGTTATGAGTCATTTTTGTA 60.128 38.462 11.68 0.00 0.00 2.41
2678 2957 5.324739 AGTTAATCGAACAGTTTGTCACG 57.675 39.130 0.15 0.00 40.86 4.35
2702 2981 1.739067 AGAAACGTAGGCCAGCATTC 58.261 50.000 5.01 2.70 0.00 2.67
2707 2986 1.137086 ACGTAGGCCAGCATTCAGTAG 59.863 52.381 5.01 0.00 0.00 2.57
2737 3025 3.013921 TGGTTTCATTAAGATGCGGACC 58.986 45.455 0.00 0.00 33.53 4.46
2778 3066 2.032894 CGTTTCATGCTGTTCGTTCTGT 60.033 45.455 0.00 0.00 0.00 3.41
2779 3067 3.546020 CGTTTCATGCTGTTCGTTCTGTT 60.546 43.478 0.00 0.00 0.00 3.16
2780 3068 3.607422 TTCATGCTGTTCGTTCTGTTG 57.393 42.857 0.00 0.00 0.00 3.33
2860 3148 3.151912 AGTTTGGCTCTGCTTTCATCT 57.848 42.857 0.00 0.00 0.00 2.90
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 0.321653 ATCTGTTCAACCAGCCCGTC 60.322 55.000 0.00 0.00 32.32 4.79
1 2 0.110486 AATCTGTTCAACCAGCCCGT 59.890 50.000 0.00 0.00 32.32 5.28
3 4 4.220602 ACATTTAATCTGTTCAACCAGCCC 59.779 41.667 0.00 0.00 32.32 5.19
4 5 5.048083 TCACATTTAATCTGTTCAACCAGCC 60.048 40.000 0.00 0.00 32.32 4.85
5 6 5.858581 GTCACATTTAATCTGTTCAACCAGC 59.141 40.000 0.00 0.00 32.32 4.85
6 7 6.073276 TCGTCACATTTAATCTGTTCAACCAG 60.073 38.462 0.00 0.00 0.00 4.00
7 8 5.760743 TCGTCACATTTAATCTGTTCAACCA 59.239 36.000 0.00 0.00 0.00 3.67
8 9 6.073222 ACTCGTCACATTTAATCTGTTCAACC 60.073 38.462 0.00 0.00 0.00 3.77
9 10 6.792250 CACTCGTCACATTTAATCTGTTCAAC 59.208 38.462 0.00 0.00 0.00 3.18
10 11 6.565811 GCACTCGTCACATTTAATCTGTTCAA 60.566 38.462 0.00 0.00 0.00 2.69
11 12 5.107104 GCACTCGTCACATTTAATCTGTTCA 60.107 40.000 0.00 0.00 0.00 3.18
12 13 5.316770 GCACTCGTCACATTTAATCTGTTC 58.683 41.667 0.00 0.00 0.00 3.18
13 14 4.154195 GGCACTCGTCACATTTAATCTGTT 59.846 41.667 0.00 0.00 0.00 3.16
14 15 3.684788 GGCACTCGTCACATTTAATCTGT 59.315 43.478 0.00 0.00 0.00 3.41
15 16 3.684305 TGGCACTCGTCACATTTAATCTG 59.316 43.478 0.00 0.00 0.00 2.90
16 17 3.937814 TGGCACTCGTCACATTTAATCT 58.062 40.909 0.00 0.00 0.00 2.40
17 18 4.678509 TTGGCACTCGTCACATTTAATC 57.321 40.909 0.00 0.00 0.00 1.75
18 19 4.142403 CCATTGGCACTCGTCACATTTAAT 60.142 41.667 0.00 0.00 0.00 1.40
19 20 3.190327 CCATTGGCACTCGTCACATTTAA 59.810 43.478 0.00 0.00 0.00 1.52
20 21 2.746904 CCATTGGCACTCGTCACATTTA 59.253 45.455 0.00 0.00 0.00 1.40
21 22 1.541147 CCATTGGCACTCGTCACATTT 59.459 47.619 0.00 0.00 0.00 2.32
22 23 1.167851 CCATTGGCACTCGTCACATT 58.832 50.000 0.00 0.00 0.00 2.71
23 24 2.858622 CCATTGGCACTCGTCACAT 58.141 52.632 0.00 0.00 0.00 3.21
24 25 4.377370 CCATTGGCACTCGTCACA 57.623 55.556 0.00 0.00 0.00 3.58
34 35 1.430632 CTGACATGACGCCATTGGC 59.569 57.895 18.10 18.10 46.75 4.52
35 36 1.307355 TGCTGACATGACGCCATTGG 61.307 55.000 0.00 0.00 0.00 3.16
36 37 0.179181 GTGCTGACATGACGCCATTG 60.179 55.000 0.00 0.00 0.00 2.82
37 38 0.321919 AGTGCTGACATGACGCCATT 60.322 50.000 0.00 0.00 0.00 3.16
38 39 0.536724 TAGTGCTGACATGACGCCAT 59.463 50.000 0.00 0.00 0.00 4.40
39 40 0.389817 GTAGTGCTGACATGACGCCA 60.390 55.000 0.00 0.00 0.00 5.69
40 41 1.413767 CGTAGTGCTGACATGACGCC 61.414 60.000 0.00 0.00 32.37 5.68
41 42 0.732880 ACGTAGTGCTGACATGACGC 60.733 55.000 0.00 2.28 42.51 5.19
42 43 3.401577 ACGTAGTGCTGACATGACG 57.598 52.632 0.00 0.00 42.51 4.35
89 90 1.214305 ATACACCCAGGCCACCATGT 61.214 55.000 5.01 6.75 0.00 3.21
102 103 2.228822 CTCAAGGGCAAACACATACACC 59.771 50.000 0.00 0.00 0.00 4.16
110 111 1.064017 ACCAAGACTCAAGGGCAAACA 60.064 47.619 0.00 0.00 0.00 2.83
113 114 1.064017 ACAACCAAGACTCAAGGGCAA 60.064 47.619 0.00 0.00 0.00 4.52
120 121 1.134521 AGACGCAACAACCAAGACTCA 60.135 47.619 0.00 0.00 0.00 3.41
125 126 2.184448 CAACAAGACGCAACAACCAAG 58.816 47.619 0.00 0.00 0.00 3.61
128 129 0.248866 CCCAACAAGACGCAACAACC 60.249 55.000 0.00 0.00 0.00 3.77
134 135 0.678366 ACACAACCCAACAAGACGCA 60.678 50.000 0.00 0.00 0.00 5.24
135 136 0.454196 AACACAACCCAACAAGACGC 59.546 50.000 0.00 0.00 0.00 5.19
141 142 1.555533 GGGGAAAAACACAACCCAACA 59.444 47.619 0.00 0.00 43.67 3.33
143 144 2.255770 AGGGGAAAAACACAACCCAA 57.744 45.000 0.00 0.00 43.96 4.12
145 146 2.912771 CAAAGGGGAAAAACACAACCC 58.087 47.619 0.00 0.00 41.80 4.11
151 152 1.036707 CGAGGCAAAGGGGAAAAACA 58.963 50.000 0.00 0.00 0.00 2.83
156 157 0.106419 AACAACGAGGCAAAGGGGAA 60.106 50.000 0.00 0.00 0.00 3.97
157 158 0.821711 CAACAACGAGGCAAAGGGGA 60.822 55.000 0.00 0.00 0.00 4.81
203 204 8.252624 AGTAGGAGAAAAGAAGTACAAAGTCT 57.747 34.615 0.00 0.00 0.00 3.24
257 259 7.900352 GTCTAATGCGAATAAGACAAGAGTTTG 59.100 37.037 0.00 0.00 38.56 2.93
334 336 9.106070 ACGTATGAGAGTTAGTTTCAAAAAGTT 57.894 29.630 0.00 0.00 0.00 2.66
357 360 2.186903 GATGTCGCCATGGGACGT 59.813 61.111 21.30 21.30 46.31 4.34
359 362 2.588877 CCGATGTCGCCATGGGAC 60.589 66.667 20.48 20.48 46.75 4.46
369 372 0.935366 GTCGAGGCGATTCCGATGTC 60.935 60.000 0.00 0.00 38.42 3.06
372 375 1.721664 TTCGTCGAGGCGATTCCGAT 61.722 55.000 0.00 0.00 40.76 4.18
385 388 1.072348 GTGTCTTCGTGTTGTTCGTCG 60.072 52.381 0.00 0.00 0.00 5.12
416 419 3.294214 CGGGGACTTTAGGTCTAGCTTA 58.706 50.000 0.00 0.00 43.97 3.09
419 422 0.104487 GCGGGGACTTTAGGTCTAGC 59.896 60.000 0.00 0.00 43.97 3.42
436 439 3.041940 GGACCGTGGAGTTGTGCG 61.042 66.667 0.00 0.00 0.00 5.34
438 441 2.357034 CGGGACCGTGGAGTTGTG 60.357 66.667 1.86 0.00 34.35 3.33
448 451 4.752879 ATGGAACGCACGGGACCG 62.753 66.667 9.56 9.56 46.03 4.79
450 453 2.396157 GGAATGGAACGCACGGGAC 61.396 63.158 0.00 0.00 0.00 4.46
468 471 0.719465 CTCCAACGTCCGATTTTCCG 59.281 55.000 0.00 0.00 0.00 4.30
483 486 1.872237 CGCTGTTTTTCCTCGTCTCCA 60.872 52.381 0.00 0.00 0.00 3.86
498 501 2.031919 TGCCGATTGTTCCGCTGT 59.968 55.556 0.00 0.00 0.00 4.40
499 502 2.753966 CCTGCCGATTGTTCCGCTG 61.754 63.158 0.00 0.00 0.00 5.18
500 503 2.436646 CCTGCCGATTGTTCCGCT 60.437 61.111 0.00 0.00 0.00 5.52
501 504 3.508840 CCCTGCCGATTGTTCCGC 61.509 66.667 0.00 0.00 0.00 5.54
502 505 1.369091 CTTCCCTGCCGATTGTTCCG 61.369 60.000 0.00 0.00 0.00 4.30
504 507 0.804989 CACTTCCCTGCCGATTGTTC 59.195 55.000 0.00 0.00 0.00 3.18
506 509 1.002134 CCACTTCCCTGCCGATTGT 60.002 57.895 0.00 0.00 0.00 2.71
507 510 1.750399 CCCACTTCCCTGCCGATTG 60.750 63.158 0.00 0.00 0.00 2.67
508 511 2.677228 CCCACTTCCCTGCCGATT 59.323 61.111 0.00 0.00 0.00 3.34
509 512 4.115199 GCCCACTTCCCTGCCGAT 62.115 66.667 0.00 0.00 0.00 4.18
511 514 3.868200 AAAGCCCACTTCCCTGCCG 62.868 63.158 0.00 0.00 34.05 5.69
512 515 2.118294 AAAGCCCACTTCCCTGCC 59.882 61.111 0.00 0.00 34.05 4.85
513 516 1.531602 ACAAAGCCCACTTCCCTGC 60.532 57.895 0.00 0.00 34.05 4.85
514 517 0.468029 ACACAAAGCCCACTTCCCTG 60.468 55.000 0.00 0.00 34.05 4.45
559 562 6.126449 GGAATTCCATAGGAGTACCTTTCCTT 60.126 42.308 20.04 0.00 40.13 3.36
561 564 5.132144 TGGAATTCCATAGGAGTACCTTTCC 59.868 44.000 23.63 0.00 41.90 3.13
562 565 6.248569 TGGAATTCCATAGGAGTACCTTTC 57.751 41.667 23.63 0.00 41.90 2.62
677 680 9.638239 GGAATCATTTCTACAGCATTTGTTTAA 57.362 29.630 0.00 0.00 41.29 1.52
678 681 9.023962 AGGAATCATTTCTACAGCATTTGTTTA 57.976 29.630 0.00 0.00 41.29 2.01
679 682 7.899973 AGGAATCATTTCTACAGCATTTGTTT 58.100 30.769 0.00 0.00 41.29 2.83
680 683 7.472334 AGGAATCATTTCTACAGCATTTGTT 57.528 32.000 0.00 0.00 41.29 2.83
681 684 8.579850 TTAGGAATCATTTCTACAGCATTTGT 57.420 30.769 0.00 0.00 43.96 2.83
682 685 8.133627 CCTTAGGAATCATTTCTACAGCATTTG 58.866 37.037 0.00 0.00 32.16 2.32
683 686 8.055181 TCCTTAGGAATCATTTCTACAGCATTT 58.945 33.333 0.00 0.00 32.16 2.32
684 687 7.577303 TCCTTAGGAATCATTTCTACAGCATT 58.423 34.615 0.00 0.00 32.16 3.56
685 688 7.141758 TCCTTAGGAATCATTTCTACAGCAT 57.858 36.000 0.00 0.00 32.16 3.79
686 689 6.560003 TCCTTAGGAATCATTTCTACAGCA 57.440 37.500 0.00 0.00 32.16 4.41
761 938 9.138596 GGAGAAGACTATATTCCTTACAGTTCT 57.861 37.037 0.00 0.00 0.00 3.01
762 939 8.361889 GGGAGAAGACTATATTCCTTACAGTTC 58.638 40.741 0.00 0.00 0.00 3.01
763 940 8.068733 AGGGAGAAGACTATATTCCTTACAGTT 58.931 37.037 0.00 0.00 0.00 3.16
782 959 3.054655 CGGTTCTAAATTCCCAGGGAGAA 60.055 47.826 8.67 5.62 31.21 2.87
796 973 4.895668 TTAAGGCCTCTTTCGGTTCTAA 57.104 40.909 5.23 0.00 34.59 2.10
830 1007 1.308069 GCCACCACGTCATCAGCAAT 61.308 55.000 0.00 0.00 0.00 3.56
894 1076 0.706433 AGAGGAAATGGTGCCATGGT 59.294 50.000 14.67 0.00 36.68 3.55
895 1077 1.753073 GAAGAGGAAATGGTGCCATGG 59.247 52.381 7.63 7.63 36.68 3.66
896 1078 1.402968 CGAAGAGGAAATGGTGCCATG 59.597 52.381 4.26 0.00 36.68 3.66
897 1079 1.281867 TCGAAGAGGAAATGGTGCCAT 59.718 47.619 0.00 0.00 38.46 4.40
898 1080 0.690192 TCGAAGAGGAAATGGTGCCA 59.310 50.000 0.00 0.00 0.00 4.92
899 1081 2.044123 ATCGAAGAGGAAATGGTGCC 57.956 50.000 0.00 0.00 43.63 5.01
900 1082 2.749621 ACAATCGAAGAGGAAATGGTGC 59.250 45.455 0.00 0.00 43.63 5.01
901 1083 4.256920 AGACAATCGAAGAGGAAATGGTG 58.743 43.478 0.00 0.00 43.63 4.17
902 1084 4.020218 TGAGACAATCGAAGAGGAAATGGT 60.020 41.667 0.00 0.00 43.63 3.55
940 1122 0.801067 GTTGGTCCGGATCGAAGACG 60.801 60.000 7.81 0.00 42.51 4.18
941 1123 0.531200 AGTTGGTCCGGATCGAAGAC 59.469 55.000 7.81 4.75 42.51 3.01
942 1124 0.815734 GAGTTGGTCCGGATCGAAGA 59.184 55.000 7.81 0.00 45.75 2.87
943 1125 0.179108 GGAGTTGGTCCGGATCGAAG 60.179 60.000 7.81 0.00 34.84 3.79
944 1126 1.895238 GGAGTTGGTCCGGATCGAA 59.105 57.895 7.81 0.82 34.84 3.71
945 1127 3.612251 GGAGTTGGTCCGGATCGA 58.388 61.111 7.81 2.94 34.84 3.59
995 1212 3.757248 ATTCCTCGCGCCATCCCAC 62.757 63.158 0.00 0.00 0.00 4.61
996 1213 3.042733 AATTCCTCGCGCCATCCCA 62.043 57.895 0.00 0.00 0.00 4.37
1033 1251 4.457496 CACCTGCTCCGCCATCGT 62.457 66.667 0.00 0.00 0.00 3.73
1035 1253 1.817099 CTTCACCTGCTCCGCCATC 60.817 63.158 0.00 0.00 0.00 3.51
1086 1304 1.884926 GGAGAAGAAGGATGCGGCG 60.885 63.158 0.51 0.51 0.00 6.46
1116 1334 2.650116 CGTGGAGGTGGAGGTGGAG 61.650 68.421 0.00 0.00 0.00 3.86
1117 1335 2.603473 CGTGGAGGTGGAGGTGGA 60.603 66.667 0.00 0.00 0.00 4.02
1118 1336 3.706373 CCGTGGAGGTGGAGGTGG 61.706 72.222 0.00 0.00 34.51 4.61
1119 1337 4.394712 GCCGTGGAGGTGGAGGTG 62.395 72.222 0.00 0.00 43.70 4.00
1175 1393 0.875059 GGCTTGTGAGAAGAAACGGG 59.125 55.000 0.00 0.00 0.00 5.28
1293 1513 2.860735 GCAGAACTATGGCTGTTACTCG 59.139 50.000 0.00 0.00 34.66 4.18
1313 1533 1.325943 GAAGACACTAGCGCAAGATGC 59.674 52.381 11.47 0.00 40.69 3.91
1321 1541 1.398390 GCAATTGGGAAGACACTAGCG 59.602 52.381 7.72 0.00 0.00 4.26
1330 1554 3.822735 TGAGAACAGAAGCAATTGGGAAG 59.177 43.478 7.72 0.00 0.00 3.46
1331 1555 3.822735 CTGAGAACAGAAGCAATTGGGAA 59.177 43.478 7.72 0.00 46.03 3.97
1332 1556 3.415212 CTGAGAACAGAAGCAATTGGGA 58.585 45.455 7.72 0.00 46.03 4.37
1354 1589 4.096382 CGCCATCTTGTTTAGCCTGTAATT 59.904 41.667 0.00 0.00 0.00 1.40
1377 1612 4.741676 CAGCAGTCAATGAAAAGTGAAACC 59.258 41.667 0.00 0.00 37.80 3.27
1470 1705 4.311606 TCGCACTAAACACTAGCAATCAA 58.688 39.130 0.00 0.00 0.00 2.57
1667 1905 5.008613 TCAGGATGCGAGCAATAATTTAACC 59.991 40.000 0.57 0.00 34.76 2.85
1702 1942 4.317488 CCTGCAGCAACCAACATAAAATT 58.683 39.130 8.66 0.00 0.00 1.82
1736 1976 6.435277 ACAAAGCAAGTTTCCATATCATGAGT 59.565 34.615 0.09 0.00 0.00 3.41
1740 1980 7.069085 AGCATACAAAGCAAGTTTCCATATCAT 59.931 33.333 0.00 0.00 0.00 2.45
1749 1989 7.118390 CACTAGTAGAGCATACAAAGCAAGTTT 59.882 37.037 3.59 0.00 0.00 2.66
1778 2018 5.378292 TGAAATAAAAGGCAATACACGCA 57.622 34.783 0.00 0.00 0.00 5.24
1877 2117 4.644685 TGCTTACTTTTCTTGTGCTTCCTT 59.355 37.500 0.00 0.00 0.00 3.36
1947 2187 7.752695 AGAGCACTTTACATGTAAATTACAGC 58.247 34.615 26.87 23.21 42.77 4.40
1955 2195 8.896320 TTAAACTGAGAGCACTTTACATGTAA 57.104 30.769 14.35 14.35 0.00 2.41
1963 2203 9.726438 ACATTAGTATTAAACTGAGAGCACTTT 57.274 29.630 0.00 0.00 39.39 2.66
1988 2229 6.082338 TGAAAGACGTCGAGAGTGTAAATAC 58.918 40.000 10.46 0.00 0.00 1.89
1996 2237 4.880120 TGGTATATGAAAGACGTCGAGAGT 59.120 41.667 10.46 0.49 0.00 3.24
2003 2244 9.099454 GAAGAGAAAATGGTATATGAAAGACGT 57.901 33.333 0.00 0.00 0.00 4.34
2081 2323 2.115348 AATACCGCGACTGTACATCG 57.885 50.000 8.23 17.76 42.55 3.84
2085 2327 3.111098 CCAGTTAATACCGCGACTGTAC 58.889 50.000 18.41 6.02 38.21 2.90
2088 2330 2.288961 ACCAGTTAATACCGCGACTG 57.711 50.000 8.23 12.31 39.29 3.51
2093 2335 5.723492 AACGATAAACCAGTTAATACCGC 57.277 39.130 0.00 0.00 0.00 5.68
2094 2336 7.992180 AGTAACGATAAACCAGTTAATACCG 57.008 36.000 0.00 0.00 32.94 4.02
2101 2357 6.987992 TGAGTTCAAGTAACGATAAACCAGTT 59.012 34.615 0.00 0.00 43.29 3.16
2113 2369 4.389077 CGACCCAAGATGAGTTCAAGTAAC 59.611 45.833 0.00 0.00 38.46 2.50
2139 2395 9.398170 CAAATTAGTATCCAACTTCAACAAGTG 57.602 33.333 0.00 0.00 42.45 3.16
2170 2426 5.819901 AGCTGACTGGCTAAATAGTTGATTC 59.180 40.000 0.00 0.00 41.16 2.52
2190 2446 9.764363 TGGATTTCAATAAGTACATAGTAGCTG 57.236 33.333 0.00 0.00 0.00 4.24
2219 2485 6.058183 ACCAAATATAAGTGATCCAGTCAGC 58.942 40.000 0.00 0.00 37.56 4.26
2224 2490 5.853936 TCCGACCAAATATAAGTGATCCAG 58.146 41.667 0.00 0.00 0.00 3.86
2241 2507 4.566987 AGAACACTACTGAAAATCCGACC 58.433 43.478 0.00 0.00 0.00 4.79
2255 2522 8.726988 GCCAGTGAACAATAAATTAGAACACTA 58.273 33.333 0.00 0.00 34.95 2.74
2257 2524 6.806739 GGCCAGTGAACAATAAATTAGAACAC 59.193 38.462 0.00 0.00 0.00 3.32
2258 2525 6.719370 AGGCCAGTGAACAATAAATTAGAACA 59.281 34.615 5.01 0.00 0.00 3.18
2259 2526 7.029563 CAGGCCAGTGAACAATAAATTAGAAC 58.970 38.462 5.01 0.00 0.00 3.01
2260 2527 6.945435 TCAGGCCAGTGAACAATAAATTAGAA 59.055 34.615 5.01 0.00 0.00 2.10
2288 2555 9.252962 CACCATTCAAATCTTTTGCCTATATTC 57.747 33.333 0.00 0.00 0.00 1.75
2302 2569 7.396540 AACTCAGGAATACACCATTCAAATC 57.603 36.000 0.00 0.00 44.27 2.17
2305 2572 8.739039 CAATTAACTCAGGAATACACCATTCAA 58.261 33.333 0.00 0.00 44.27 2.69
2319 2586 8.954950 AGTCTATGAATCACAATTAACTCAGG 57.045 34.615 0.00 0.00 0.00 3.86
2334 2601 5.513233 AGGATGCCAAACAAGTCTATGAAT 58.487 37.500 0.00 0.00 0.00 2.57
2361 2628 2.036604 TGTGTCAGTTAACTCGGCATCA 59.963 45.455 4.77 7.67 0.00 3.07
2391 2658 9.737427 TGAAACGTTTAAAAGCAAAAGATCATA 57.263 25.926 14.65 0.00 0.00 2.15
2392 2659 8.641499 TGAAACGTTTAAAAGCAAAAGATCAT 57.359 26.923 14.65 0.00 0.00 2.45
2393 2660 7.757624 ACTGAAACGTTTAAAAGCAAAAGATCA 59.242 29.630 14.65 1.45 0.00 2.92
2394 2661 8.115491 ACTGAAACGTTTAAAAGCAAAAGATC 57.885 30.769 14.65 0.00 0.00 2.75
2395 2662 8.474006 AACTGAAACGTTTAAAAGCAAAAGAT 57.526 26.923 14.65 0.00 0.00 2.40
2486 2753 4.102524 TCAGTGGTTCACCTCAACTACATT 59.897 41.667 0.00 0.00 39.55 2.71
2505 2772 3.308866 GTGCGCCTATTATTTCGTTCAGT 59.691 43.478 4.18 0.00 0.00 3.41
2523 2802 2.804527 AGCTCAGTATAATGCATGTGCG 59.195 45.455 0.00 0.00 45.83 5.34
2652 2931 8.641155 CGTGACAAACTGTTCGATTAACTAATA 58.359 33.333 0.00 0.00 38.99 0.98
2653 2932 7.170320 ACGTGACAAACTGTTCGATTAACTAAT 59.830 33.333 5.72 0.00 38.99 1.73
2654 2933 6.476380 ACGTGACAAACTGTTCGATTAACTAA 59.524 34.615 5.72 0.00 38.99 2.24
2655 2934 5.978919 ACGTGACAAACTGTTCGATTAACTA 59.021 36.000 5.72 0.00 38.99 2.24
2656 2935 4.807304 ACGTGACAAACTGTTCGATTAACT 59.193 37.500 5.72 0.00 38.99 2.24
2657 2936 5.074430 ACGTGACAAACTGTTCGATTAAC 57.926 39.130 5.72 0.00 38.67 2.01
2658 2937 8.518151 TTATACGTGACAAACTGTTCGATTAA 57.482 30.769 0.00 1.70 34.23 1.40
2659 2938 8.022550 TCTTATACGTGACAAACTGTTCGATTA 58.977 33.333 0.00 0.00 34.23 1.75
2660 2939 6.864685 TCTTATACGTGACAAACTGTTCGATT 59.135 34.615 0.00 0.00 34.23 3.34
2661 2940 6.384224 TCTTATACGTGACAAACTGTTCGAT 58.616 36.000 0.00 0.00 34.23 3.59
2662 2941 5.761003 TCTTATACGTGACAAACTGTTCGA 58.239 37.500 0.00 0.00 34.23 3.71
2663 2942 6.442487 TTCTTATACGTGACAAACTGTTCG 57.558 37.500 0.00 0.00 35.42 3.95
2664 2943 6.784227 CGTTTCTTATACGTGACAAACTGTTC 59.216 38.462 0.00 0.00 34.47 3.18
2665 2944 6.642917 CGTTTCTTATACGTGACAAACTGTT 58.357 36.000 0.00 0.00 34.47 3.16
2677 2956 2.793232 GCTGGCCTACGTTTCTTATACG 59.207 50.000 3.32 0.00 44.20 3.06
2678 2957 3.788937 TGCTGGCCTACGTTTCTTATAC 58.211 45.455 3.32 0.00 0.00 1.47
2702 2981 4.630894 TGAAACCACAAAACAGCTACTG 57.369 40.909 0.00 0.00 37.52 2.74
2707 2986 6.346838 GCATCTTAATGAAACCACAAAACAGC 60.347 38.462 0.00 0.00 34.61 4.40
2710 2998 5.118510 CCGCATCTTAATGAAACCACAAAAC 59.881 40.000 0.00 0.00 34.61 2.43
2715 3003 3.181500 GGTCCGCATCTTAATGAAACCAC 60.181 47.826 0.00 0.00 34.61 4.16
2737 3025 0.889638 TAGGCCCTCATCGCTAGACG 60.890 60.000 0.00 0.00 45.62 4.18
2778 3066 1.819288 GACTCGAGGACCTGATCACAA 59.181 52.381 18.41 0.00 0.00 3.33
2779 3067 1.464734 GACTCGAGGACCTGATCACA 58.535 55.000 18.41 0.00 0.00 3.58
2780 3068 0.378962 CGACTCGAGGACCTGATCAC 59.621 60.000 18.41 0.00 0.00 3.06
2837 3125 3.441496 TGAAAGCAGAGCCAAACTTTG 57.559 42.857 0.00 0.00 32.70 2.77
2838 3126 3.893813 AGATGAAAGCAGAGCCAAACTTT 59.106 39.130 0.00 0.00 35.15 2.66
2860 3148 2.093288 CCAGCAGCTCTTGGATCAGTTA 60.093 50.000 7.14 0.00 0.00 2.24


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

AutoCloner maintained by Alex Coulton.