Multiple sequence alignment - TraesCS7D01G155300

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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 TraesCS7D01G155300 chr7D 100.000 3746 0 0 1 3746 103213042 103209297 0.000000e+00 6918.0
1 TraesCS7D01G155300 chr7D 92.669 1896 112 10 897 2789 103333383 103331512 0.000000e+00 2706.0
2 TraesCS7D01G155300 chr7D 81.940 299 40 8 2747 3034 102981849 102981554 1.340000e-59 241.0
3 TraesCS7D01G155300 chr7D 100.000 34 0 0 2998 3031 103209975 103209942 3.120000e-06 63.9
4 TraesCS7D01G155300 chr7D 100.000 34 0 0 3068 3101 103210045 103210012 3.120000e-06 63.9
5 TraesCS7D01G155300 chr7A 93.757 2851 132 10 102 2947 107918638 107915829 0.000000e+00 4237.0
6 TraesCS7D01G155300 chr7A 82.445 769 65 31 2986 3741 107912520 107911809 3.200000e-170 608.0
7 TraesCS7D01G155300 chr7B 94.020 2341 82 27 631 2929 61629256 61626932 0.000000e+00 3494.0
8 TraesCS7D01G155300 chr7B 91.985 1909 133 9 897 2794 61747324 61745425 0.000000e+00 2660.0
9 TraesCS7D01G155300 chr7B 79.842 253 32 12 3017 3258 61613439 61613195 2.310000e-37 167.0
10 TraesCS7D01G155300 chr2D 98.148 108 2 0 1 108 467438906 467439013 4.940000e-44 189.0
11 TraesCS7D01G155300 chr5A 97.248 109 3 0 1 109 403042976 403042868 6.390000e-43 185.0
12 TraesCS7D01G155300 chr5A 96.429 112 4 0 1 112 579208589 579208700 6.390000e-43 185.0
13 TraesCS7D01G155300 chr6A 96.396 111 4 0 1 111 279348218 279348108 2.300000e-42 183.0
14 TraesCS7D01G155300 chr4D 96.396 111 4 0 1 111 191325838 191325728 2.300000e-42 183.0
15 TraesCS7D01G155300 chr4D 95.614 114 4 1 1 113 411971662 411971775 8.270000e-42 182.0
16 TraesCS7D01G155300 chr4A 94.828 116 6 0 1 116 486653130 486653015 8.270000e-42 182.0
17 TraesCS7D01G155300 chr4A 94.068 118 6 1 1 117 186378155 186378272 1.070000e-40 178.0
18 TraesCS7D01G155300 chr1B 94.828 116 6 0 1 116 322054511 322054396 8.270000e-42 182.0
19 TraesCS7D01G155300 chr2A 79.389 262 36 14 1919 2175 100627863 100627615 6.430000e-38 169.0


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 TraesCS7D01G155300 chr7D 103209297 103213042 3745 True 2348.6 6918 100.000 1 3746 3 chr7D.!!$R3 3745
1 TraesCS7D01G155300 chr7D 103331512 103333383 1871 True 2706.0 2706 92.669 897 2789 1 chr7D.!!$R2 1892
2 TraesCS7D01G155300 chr7A 107911809 107918638 6829 True 2422.5 4237 88.101 102 3741 2 chr7A.!!$R1 3639
3 TraesCS7D01G155300 chr7B 61626932 61629256 2324 True 3494.0 3494 94.020 631 2929 1 chr7B.!!$R2 2298
4 TraesCS7D01G155300 chr7B 61745425 61747324 1899 True 2660.0 2660 91.985 897 2794 1 chr7B.!!$R3 1897

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
50 51 0.034089 ATGGGCTCCCGGAAAAGAAG 60.034 55.0 0.73 0.0 39.42 2.85 F
116 117 0.035152 CTATCACACCAGCCTTGCCA 60.035 55.0 0.00 0.0 0.00 4.92 F
486 487 0.107993 TTTCTCTGCCATCAGCTCCG 60.108 55.0 0.00 0.0 44.23 4.63 F
846 848 0.319813 GCAAACAGACAACCATGCCC 60.320 55.0 0.00 0.0 0.00 5.36 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1437 1459 2.887360 GCGTACAGCCCGGTCTTA 59.113 61.111 0.00 0.00 40.81 2.10 R
1467 1489 3.984732 GCCAGGAAGTTGGGCCCT 61.985 66.667 25.70 0.66 41.90 5.19 R
2151 2180 1.379309 GCACTCTCGGAGGACCTCT 60.379 63.158 20.97 0.00 33.35 3.69 R
2807 2878 1.110442 CAAGCCCACTTGTGACCAAA 58.890 50.000 1.89 0.00 46.84 3.28 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
19 20 2.177394 TGAGCACGCTTAACATTGGA 57.823 45.000 0.00 0.00 0.00 3.53
20 21 2.076100 TGAGCACGCTTAACATTGGAG 58.924 47.619 0.00 0.00 0.00 3.86
21 22 2.076863 GAGCACGCTTAACATTGGAGT 58.923 47.619 0.00 0.00 0.00 3.85
22 23 2.484264 GAGCACGCTTAACATTGGAGTT 59.516 45.455 0.00 0.00 35.55 3.01
23 24 2.484264 AGCACGCTTAACATTGGAGTTC 59.516 45.455 0.00 0.00 33.07 3.01
24 25 2.484264 GCACGCTTAACATTGGAGTTCT 59.516 45.455 0.00 0.00 33.07 3.01
25 26 3.058224 GCACGCTTAACATTGGAGTTCTT 60.058 43.478 0.00 0.00 33.07 2.52
26 27 4.556699 GCACGCTTAACATTGGAGTTCTTT 60.557 41.667 0.00 0.00 33.07 2.52
27 28 5.147162 CACGCTTAACATTGGAGTTCTTTC 58.853 41.667 0.00 0.00 33.07 2.62
28 29 4.215613 ACGCTTAACATTGGAGTTCTTTCC 59.784 41.667 0.00 0.00 37.77 3.13
29 30 4.669197 CGCTTAACATTGGAGTTCTTTCCG 60.669 45.833 0.00 0.00 40.27 4.30
30 31 4.454504 GCTTAACATTGGAGTTCTTTCCGA 59.545 41.667 0.00 0.00 40.27 4.55
31 32 5.048991 GCTTAACATTGGAGTTCTTTCCGAA 60.049 40.000 0.00 0.00 40.27 4.30
32 33 6.349363 GCTTAACATTGGAGTTCTTTCCGAAT 60.349 38.462 0.00 0.00 40.27 3.34
33 34 5.376854 AACATTGGAGTTCTTTCCGAATG 57.623 39.130 11.89 11.89 40.27 2.67
34 35 3.758554 ACATTGGAGTTCTTTCCGAATGG 59.241 43.478 15.20 0.00 40.27 3.16
35 36 2.489938 TGGAGTTCTTTCCGAATGGG 57.510 50.000 0.00 0.00 40.27 4.00
36 37 1.095600 GGAGTTCTTTCCGAATGGGC 58.904 55.000 0.00 0.00 33.45 5.36
37 38 1.340114 GGAGTTCTTTCCGAATGGGCT 60.340 52.381 0.00 0.00 33.45 5.19
38 39 2.010497 GAGTTCTTTCCGAATGGGCTC 58.990 52.381 0.00 0.00 33.45 4.70
39 40 1.095600 GTTCTTTCCGAATGGGCTCC 58.904 55.000 0.00 0.00 33.45 4.70
40 41 0.034477 TTCTTTCCGAATGGGCTCCC 60.034 55.000 0.00 0.00 35.24 4.30
41 42 1.819632 CTTTCCGAATGGGCTCCCG 60.820 63.158 0.00 0.00 39.42 5.14
42 43 3.338275 TTTCCGAATGGGCTCCCGG 62.338 63.158 0.00 0.00 43.02 5.73
44 45 3.792736 CCGAATGGGCTCCCGGAA 61.793 66.667 0.73 0.00 44.29 4.30
45 46 2.270850 CGAATGGGCTCCCGGAAA 59.729 61.111 0.73 0.00 39.42 3.13
46 47 1.377987 CGAATGGGCTCCCGGAAAA 60.378 57.895 0.73 0.00 39.42 2.29
47 48 1.376609 CGAATGGGCTCCCGGAAAAG 61.377 60.000 0.73 0.00 39.42 2.27
48 49 0.034477 GAATGGGCTCCCGGAAAAGA 60.034 55.000 0.73 0.00 39.42 2.52
49 50 0.407918 AATGGGCTCCCGGAAAAGAA 59.592 50.000 0.73 0.00 39.42 2.52
50 51 0.034089 ATGGGCTCCCGGAAAAGAAG 60.034 55.000 0.73 0.00 39.42 2.85
51 52 1.378646 GGGCTCCCGGAAAAGAAGG 60.379 63.158 0.73 0.00 0.00 3.46
52 53 1.683441 GGCTCCCGGAAAAGAAGGA 59.317 57.895 0.73 0.00 0.00 3.36
53 54 0.037734 GGCTCCCGGAAAAGAAGGAA 59.962 55.000 0.73 0.00 0.00 3.36
54 55 1.341089 GGCTCCCGGAAAAGAAGGAAT 60.341 52.381 0.73 0.00 0.00 3.01
55 56 2.447443 GCTCCCGGAAAAGAAGGAATT 58.553 47.619 0.73 0.00 0.00 2.17
56 57 2.423892 GCTCCCGGAAAAGAAGGAATTC 59.576 50.000 0.73 0.00 0.00 2.17
57 58 3.017442 CTCCCGGAAAAGAAGGAATTCC 58.983 50.000 17.31 17.31 39.38 3.01
92 93 8.582657 TGAGTAGTCTATCATCCCTAATTAGC 57.417 38.462 6.99 0.00 0.00 3.09
93 94 7.616150 TGAGTAGTCTATCATCCCTAATTAGCC 59.384 40.741 6.99 0.00 0.00 3.93
94 95 7.479579 AGTAGTCTATCATCCCTAATTAGCCA 58.520 38.462 6.99 0.00 0.00 4.75
95 96 6.865834 AGTCTATCATCCCTAATTAGCCAG 57.134 41.667 6.99 0.00 0.00 4.85
96 97 5.723887 AGTCTATCATCCCTAATTAGCCAGG 59.276 44.000 6.99 3.63 0.00 4.45
97 98 3.728385 ATCATCCCTAATTAGCCAGGC 57.272 47.619 1.84 1.84 0.00 4.85
98 99 2.706350 TCATCCCTAATTAGCCAGGCT 58.294 47.619 20.63 20.63 43.41 4.58
99 100 3.869310 TCATCCCTAATTAGCCAGGCTA 58.131 45.455 18.06 18.06 40.44 3.93
100 101 4.438913 TCATCCCTAATTAGCCAGGCTAT 58.561 43.478 22.49 10.86 41.01 2.97
101 102 4.471386 TCATCCCTAATTAGCCAGGCTATC 59.529 45.833 22.49 0.00 41.01 2.08
102 103 3.869310 TCCCTAATTAGCCAGGCTATCA 58.131 45.455 22.49 8.75 41.01 2.15
103 104 3.583086 TCCCTAATTAGCCAGGCTATCAC 59.417 47.826 22.49 0.00 41.01 3.06
104 105 3.327757 CCCTAATTAGCCAGGCTATCACA 59.672 47.826 22.49 7.55 41.01 3.58
105 106 4.319177 CCTAATTAGCCAGGCTATCACAC 58.681 47.826 22.49 0.00 41.01 3.82
106 107 2.938956 ATTAGCCAGGCTATCACACC 57.061 50.000 22.49 0.00 41.01 4.16
107 108 1.578897 TTAGCCAGGCTATCACACCA 58.421 50.000 22.49 2.04 41.01 4.17
108 109 1.123077 TAGCCAGGCTATCACACCAG 58.877 55.000 18.06 0.00 40.44 4.00
109 110 1.821332 GCCAGGCTATCACACCAGC 60.821 63.158 3.29 0.00 37.05 4.85
116 117 0.035152 CTATCACACCAGCCTTGCCA 60.035 55.000 0.00 0.00 0.00 4.92
125 126 0.239347 CAGCCTTGCCAAAAGACTCG 59.761 55.000 0.00 0.00 0.00 4.18
127 128 0.238553 GCCTTGCCAAAAGACTCGAC 59.761 55.000 0.00 0.00 0.00 4.20
131 132 0.934496 TGCCAAAAGACTCGACGTTG 59.066 50.000 0.00 0.00 0.00 4.10
132 133 1.214367 GCCAAAAGACTCGACGTTGA 58.786 50.000 5.16 5.16 0.00 3.18
139 140 1.957562 ACTCGACGTTGAGTCTGGG 59.042 57.895 29.14 9.06 45.97 4.45
148 149 0.687354 TTGAGTCTGGGGTCTTGCTC 59.313 55.000 0.00 0.00 0.00 4.26
166 167 3.410541 TCCACCGGGGATTTGGAG 58.589 61.111 4.41 0.00 42.15 3.86
172 173 2.603580 GGGGATTTGGAGGAGCCC 59.396 66.667 0.00 0.00 38.08 5.19
175 176 2.193248 GATTTGGAGGAGCCCCGG 59.807 66.667 0.00 0.00 37.58 5.73
201 202 3.254024 ATTCTCCCACCTTGCGCGT 62.254 57.895 8.43 0.00 0.00 6.01
202 203 2.748058 ATTCTCCCACCTTGCGCGTT 62.748 55.000 8.43 0.00 0.00 4.84
224 225 1.674057 GTAGATGCCGATCCCCCTG 59.326 63.158 0.00 0.00 0.00 4.45
225 226 2.217038 TAGATGCCGATCCCCCTGC 61.217 63.158 0.00 0.00 0.00 4.85
238 239 2.745698 CCTGCTGCAGTCTCCACA 59.254 61.111 26.41 2.24 0.00 4.17
301 302 2.579738 GCCGTCCTCCTCTGGTTC 59.420 66.667 0.00 0.00 0.00 3.62
314 315 1.178276 CTGGTTCGTAGCTCCTGACT 58.822 55.000 0.00 0.00 0.00 3.41
317 318 1.467713 GGTTCGTAGCTCCTGACTTCG 60.468 57.143 0.00 0.00 0.00 3.79
320 321 0.524392 CGTAGCTCCTGACTTCGCAG 60.524 60.000 0.00 0.00 35.66 5.18
330 331 2.437180 CTTCGCAGATGCAGGGCA 60.437 61.111 5.55 0.00 44.86 5.36
367 368 1.453928 CTTTTGGATCGCCTCCCCC 60.454 63.158 1.92 0.00 44.23 5.40
368 369 3.338275 TTTTGGATCGCCTCCCCCG 62.338 63.158 1.92 0.00 44.23 5.73
394 395 2.258013 CGCGGAAGGTTTGGCTTGA 61.258 57.895 0.00 0.00 0.00 3.02
396 397 0.171231 GCGGAAGGTTTGGCTTGATC 59.829 55.000 0.00 0.00 0.00 2.92
398 399 1.614317 CGGAAGGTTTGGCTTGATCCT 60.614 52.381 0.00 0.00 0.00 3.24
402 403 3.243359 AGGTTTGGCTTGATCCTTTGA 57.757 42.857 0.00 0.00 0.00 2.69
410 411 2.352960 GCTTGATCCTTTGAAGTAGCCG 59.647 50.000 0.00 0.00 0.00 5.52
461 462 2.029649 CGAAACCCTAGTCGTCTTTCCA 60.030 50.000 0.00 0.00 32.61 3.53
462 463 3.586892 GAAACCCTAGTCGTCTTTCCAG 58.413 50.000 0.00 0.00 0.00 3.86
466 467 2.299297 CCCTAGTCGTCTTTCCAGTTGT 59.701 50.000 0.00 0.00 0.00 3.32
472 473 4.571176 AGTCGTCTTTCCAGTTGTTTTCTC 59.429 41.667 0.00 0.00 0.00 2.87
473 474 4.571176 GTCGTCTTTCCAGTTGTTTTCTCT 59.429 41.667 0.00 0.00 0.00 3.10
485 486 1.742268 GTTTTCTCTGCCATCAGCTCC 59.258 52.381 0.00 0.00 44.23 4.70
486 487 0.107993 TTTCTCTGCCATCAGCTCCG 60.108 55.000 0.00 0.00 44.23 4.63
512 513 0.818040 GCGGAACAGAAACACCACCT 60.818 55.000 0.00 0.00 0.00 4.00
527 528 1.523758 CACCTGTTTGTGTCTAGGGC 58.476 55.000 0.00 0.00 34.60 5.19
530 531 1.072331 CCTGTTTGTGTCTAGGGCTGT 59.928 52.381 0.00 0.00 0.00 4.40
559 560 0.976073 TCCCTAGCCACCACTGTAGC 60.976 60.000 0.00 0.00 0.00 3.58
561 562 1.264749 CCTAGCCACCACTGTAGCCA 61.265 60.000 0.00 0.00 28.30 4.75
610 611 1.645034 CTAGCACAGGTGGACAATCG 58.355 55.000 1.10 0.00 0.00 3.34
626 627 3.957535 CGCCATGCAATCGCCTCC 61.958 66.667 0.00 0.00 37.32 4.30
630 631 1.033746 CCATGCAATCGCCTCCTGTT 61.034 55.000 0.00 0.00 37.32 3.16
668 669 3.637273 GGTGGACCCTCGTGCCTT 61.637 66.667 0.00 0.00 0.00 4.35
701 702 5.134202 ACTTTATTAGTTTGTGGCTTGCC 57.866 39.130 4.43 4.43 31.29 4.52
705 706 2.489938 TAGTTTGTGGCTTGCCCTAG 57.510 50.000 9.35 0.00 0.00 3.02
717 718 4.215109 GCTTGCCCTAGGGAATTTATTCA 58.785 43.478 33.21 14.16 38.53 2.57
846 848 0.319813 GCAAACAGACAACCATGCCC 60.320 55.000 0.00 0.00 0.00 5.36
966 968 2.749076 GACCAGTGCAGCAACATCATAA 59.251 45.455 0.00 0.00 0.00 1.90
970 972 2.813754 AGTGCAGCAACATCATAACGTT 59.186 40.909 5.88 5.88 0.00 3.99
1016 1019 1.132834 GCGCATGGACACAATCATCAA 59.867 47.619 0.30 0.00 0.00 2.57
1296 1318 3.735029 GACGTGCTCGACCTCGGT 61.735 66.667 16.04 0.00 40.62 4.69
1437 1459 2.356535 GGTGAAGCAGATCCTGTCCAAT 60.357 50.000 0.00 0.00 33.43 3.16
1467 1489 3.571216 TACGCCAAGCCCAACCCA 61.571 61.111 0.00 0.00 0.00 4.51
1765 1787 0.840722 GGAGGGGAAGGAGGTGTTCA 60.841 60.000 0.00 0.00 0.00 3.18
1850 1872 1.880941 GAGTACCTCCCCACCAAGAT 58.119 55.000 0.00 0.00 0.00 2.40
2812 2883 9.077885 ACAAAATAAGTACATGAGTGATTTGGT 57.922 29.630 0.00 0.00 0.00 3.67
2813 2884 9.559958 CAAAATAAGTACATGAGTGATTTGGTC 57.440 33.333 0.00 0.00 0.00 4.02
2814 2885 8.862325 AAATAAGTACATGAGTGATTTGGTCA 57.138 30.769 0.00 0.00 0.00 4.02
2823 2894 1.327303 TGATTTGGTCACAAGTGGGC 58.673 50.000 0.00 0.00 37.97 5.36
2824 2895 1.133513 TGATTTGGTCACAAGTGGGCT 60.134 47.619 0.00 0.00 37.97 5.19
2825 2896 1.963515 GATTTGGTCACAAGTGGGCTT 59.036 47.619 0.00 0.00 37.97 4.35
2860 2931 3.259374 TGGTTTTGGTTTTTGAGCTGTGA 59.741 39.130 0.00 0.00 0.00 3.58
2876 2947 3.616379 GCTGTGAGCTTGTATCTTCACTC 59.384 47.826 5.25 0.00 38.45 3.51
2905 2976 3.373439 CCTCTAGCATTTGTGAGCAGAAC 59.627 47.826 0.00 0.00 0.00 3.01
2907 2978 3.748048 TCTAGCATTTGTGAGCAGAACAC 59.252 43.478 0.00 0.00 38.55 3.32
2963 3077 5.250774 AGGTTTATCCTCACTCCAGCTAAAA 59.749 40.000 0.00 0.00 44.42 1.52
2976 3090 7.010460 CACTCCAGCTAAAAAGAAAAAGGTTTG 59.990 37.037 0.00 0.00 0.00 2.93
3039 6380 5.357032 CCAGGATTAAACTAATCACCCACAC 59.643 44.000 8.30 0.00 44.92 3.82
3048 6389 7.448748 AACTAATCACCCACACTGATTAAAC 57.551 36.000 0.00 0.00 39.18 2.01
3076 6417 9.451002 AATCATGCAGATCTAAGATCATAAAGG 57.549 33.333 0.00 0.00 35.39 3.11
3077 6418 7.971201 TCATGCAGATCTAAGATCATAAAGGT 58.029 34.615 0.00 0.00 0.00 3.50
3079 6420 9.064706 CATGCAGATCTAAGATCATAAAGGTTT 57.935 33.333 0.00 0.00 0.00 3.27
3081 6422 9.547753 TGCAGATCTAAGATCATAAAGGTTTAC 57.452 33.333 0.00 0.00 0.00 2.01
3082 6423 8.994170 GCAGATCTAAGATCATAAAGGTTTACC 58.006 37.037 0.00 0.00 0.00 2.85
3085 6426 8.910351 ATCTAAGATCATAAAGGTTTACCAGC 57.090 34.615 1.13 0.00 38.89 4.85
3086 6427 7.280356 TCTAAGATCATAAAGGTTTACCAGCC 58.720 38.462 1.13 0.00 38.89 4.85
3087 6428 5.450818 AGATCATAAAGGTTTACCAGCCA 57.549 39.130 1.13 0.00 38.89 4.75
3088 6429 5.440610 AGATCATAAAGGTTTACCAGCCAG 58.559 41.667 1.13 0.00 38.89 4.85
3089 6430 3.963129 TCATAAAGGTTTACCAGCCAGG 58.037 45.455 1.13 0.00 45.67 4.45
3090 6431 3.589735 TCATAAAGGTTTACCAGCCAGGA 59.410 43.478 1.13 0.00 41.22 3.86
3103 6444 9.930158 TTTACCAGCCAGGATTAAACTAATTAT 57.070 29.630 0.00 0.00 41.22 1.28
3105 6446 8.919777 ACCAGCCAGGATTAAACTAATTATAC 57.080 34.615 0.00 0.00 41.22 1.47
3106 6447 8.499406 ACCAGCCAGGATTAAACTAATTATACA 58.501 33.333 0.00 0.00 41.22 2.29
3107 6448 9.349713 CCAGCCAGGATTAAACTAATTATACAA 57.650 33.333 0.00 0.00 41.22 2.41
3129 6470 0.887387 GTTTTAGCCACCGTCAGCCA 60.887 55.000 0.00 0.00 0.00 4.75
3145 6486 0.813821 GCCAAGAGGGATTTCACAGC 59.186 55.000 0.00 0.00 40.01 4.40
3159 6500 2.060980 ACAGCGACCCCTCCATCTC 61.061 63.158 0.00 0.00 0.00 2.75
3160 6501 2.060383 CAGCGACCCCTCCATCTCA 61.060 63.158 0.00 0.00 0.00 3.27
3190 6531 2.237393 TTGTTTGCACAAATCCTGCC 57.763 45.000 0.00 0.00 40.10 4.85
3205 6546 2.356278 GCCACAGGATCCTTGCCA 59.644 61.111 13.00 0.00 0.00 4.92
3218 6564 0.109132 CTTGCCAGATTCGCAAACCC 60.109 55.000 0.00 0.00 45.11 4.11
3230 6576 1.394227 CGCAAACCCGTTCGCTATAAA 59.606 47.619 0.00 0.00 0.00 1.40
3231 6577 2.031191 CGCAAACCCGTTCGCTATAAAT 59.969 45.455 0.00 0.00 0.00 1.40
3240 6586 3.242155 CGTTCGCTATAAATGAAACGCCA 60.242 43.478 0.00 0.00 0.00 5.69
3279 6625 3.107601 AGTACTAGAGCAAGCCCATTGA 58.892 45.455 0.00 0.00 41.83 2.57
3286 6632 1.176527 GCAAGCCCATTGACTAGCAA 58.823 50.000 2.73 2.73 41.83 3.91
3291 6637 1.164411 CCCATTGACTAGCAACGCAA 58.836 50.000 2.35 0.00 39.78 4.85
3301 6647 4.038080 CAACGCAACCCTTCGCCC 62.038 66.667 0.00 0.00 0.00 6.13
3310 6656 1.376812 CCCTTCGCCCAGGTGTTAC 60.377 63.158 0.00 0.00 30.96 2.50
3315 6661 0.542467 TCGCCCAGGTGTTACAGGTA 60.542 55.000 0.00 0.00 0.00 3.08
3316 6662 0.322322 CGCCCAGGTGTTACAGGTAA 59.678 55.000 0.00 0.00 0.00 2.85
3538 6887 8.455598 TTTTTATTTACAAAGATGGCGCTTAC 57.544 30.769 7.64 0.00 0.00 2.34
3539 6888 6.745159 TTATTTACAAAGATGGCGCTTACA 57.255 33.333 7.64 0.00 0.00 2.41
3540 6889 5.637006 ATTTACAAAGATGGCGCTTACAA 57.363 34.783 7.64 0.00 0.00 2.41
3550 6899 4.159377 TGGCGCTTACAATTTTGAAGAG 57.841 40.909 7.64 0.89 0.00 2.85
3554 6903 4.795278 GCGCTTACAATTTTGAAGAGATGG 59.205 41.667 0.00 0.00 0.00 3.51
3555 6904 4.795278 CGCTTACAATTTTGAAGAGATGGC 59.205 41.667 0.00 0.00 0.00 4.40
3556 6905 5.619757 CGCTTACAATTTTGAAGAGATGGCA 60.620 40.000 0.00 0.00 0.00 4.92
3617 6967 8.880878 AGTTGGCATTTTAAATTTTTACGAGT 57.119 26.923 0.00 0.00 0.00 4.18
3618 6968 9.320352 AGTTGGCATTTTAAATTTTTACGAGTT 57.680 25.926 0.00 0.00 0.00 3.01
3620 6970 8.077836 TGGCATTTTAAATTTTTACGAGTTGG 57.922 30.769 0.00 0.00 0.00 3.77
3628 6978 9.922305 TTAAATTTTTACGAGTTGGCATTTTTG 57.078 25.926 0.00 0.00 0.00 2.44
3629 6979 7.546778 AATTTTTACGAGTTGGCATTTTTGT 57.453 28.000 0.00 0.00 0.00 2.83
3645 6995 8.632679 GGCATTTTTGTAATATCAAGAGATGGA 58.367 33.333 0.00 0.00 35.67 3.41
3688 7038 8.876275 TGGCATTATTCAATTTTAAGAGATGC 57.124 30.769 0.00 0.00 0.00 3.91
3691 7041 9.485206 GCATTATTCAATTTTAAGAGATGCCAT 57.515 29.630 0.00 0.00 0.00 4.40
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
2 3 2.185004 ACTCCAATGTTAAGCGTGCT 57.815 45.000 0.00 0.00 0.00 4.40
3 4 2.484264 AGAACTCCAATGTTAAGCGTGC 59.516 45.455 0.00 0.00 0.00 5.34
6 7 4.669197 CGGAAAGAACTCCAATGTTAAGCG 60.669 45.833 0.00 0.00 34.91 4.68
7 8 4.454504 TCGGAAAGAACTCCAATGTTAAGC 59.545 41.667 0.00 0.00 34.91 3.09
8 9 6.554334 TTCGGAAAGAACTCCAATGTTAAG 57.446 37.500 0.00 0.00 34.91 1.85
9 10 6.072175 CCATTCGGAAAGAACTCCAATGTTAA 60.072 38.462 0.00 0.00 42.39 2.01
10 11 5.414454 CCATTCGGAAAGAACTCCAATGTTA 59.586 40.000 0.00 0.00 42.39 2.41
11 12 4.218417 CCATTCGGAAAGAACTCCAATGTT 59.782 41.667 0.00 0.00 42.39 2.71
12 13 3.758554 CCATTCGGAAAGAACTCCAATGT 59.241 43.478 0.00 0.00 42.39 2.71
13 14 3.129287 CCCATTCGGAAAGAACTCCAATG 59.871 47.826 0.00 0.00 42.39 2.82
14 15 3.356290 CCCATTCGGAAAGAACTCCAAT 58.644 45.455 0.00 0.00 42.39 3.16
15 16 2.790433 CCCATTCGGAAAGAACTCCAA 58.210 47.619 0.00 0.00 42.39 3.53
16 17 1.613255 GCCCATTCGGAAAGAACTCCA 60.613 52.381 0.00 0.00 42.39 3.86
17 18 1.095600 GCCCATTCGGAAAGAACTCC 58.904 55.000 0.00 0.00 42.39 3.85
18 19 2.010497 GAGCCCATTCGGAAAGAACTC 58.990 52.381 0.00 0.00 42.39 3.01
19 20 1.340114 GGAGCCCATTCGGAAAGAACT 60.340 52.381 0.00 0.00 42.39 3.01
20 21 1.095600 GGAGCCCATTCGGAAAGAAC 58.904 55.000 0.00 0.00 42.39 3.01
21 22 0.034477 GGGAGCCCATTCGGAAAGAA 60.034 55.000 0.00 0.00 43.93 2.52
22 23 1.607612 GGGAGCCCATTCGGAAAGA 59.392 57.895 0.00 0.00 35.81 2.52
23 24 1.819632 CGGGAGCCCATTCGGAAAG 60.820 63.158 6.34 0.00 35.37 2.62
24 25 2.270850 CGGGAGCCCATTCGGAAA 59.729 61.111 6.34 0.00 35.37 3.13
25 26 3.792736 CCGGGAGCCCATTCGGAA 61.793 66.667 6.34 0.00 44.69 4.30
27 28 2.830186 TTTTCCGGGAGCCCATTCGG 62.830 60.000 0.00 1.00 43.42 4.30
28 29 1.376609 CTTTTCCGGGAGCCCATTCG 61.377 60.000 0.00 0.00 35.37 3.34
29 30 0.034477 TCTTTTCCGGGAGCCCATTC 60.034 55.000 0.00 0.00 35.37 2.67
30 31 0.407918 TTCTTTTCCGGGAGCCCATT 59.592 50.000 0.00 0.00 35.37 3.16
31 32 0.034089 CTTCTTTTCCGGGAGCCCAT 60.034 55.000 0.00 0.00 35.37 4.00
32 33 1.378762 CTTCTTTTCCGGGAGCCCA 59.621 57.895 0.00 0.00 35.37 5.36
33 34 1.378646 CCTTCTTTTCCGGGAGCCC 60.379 63.158 0.00 0.00 0.00 5.19
34 35 0.037734 TTCCTTCTTTTCCGGGAGCC 59.962 55.000 0.00 0.00 0.00 4.70
35 36 2.130272 ATTCCTTCTTTTCCGGGAGC 57.870 50.000 0.00 0.00 0.00 4.70
36 37 3.017442 GGAATTCCTTCTTTTCCGGGAG 58.983 50.000 17.73 0.00 30.41 4.30
37 38 2.647802 AGGAATTCCTTCTTTTCCGGGA 59.352 45.455 21.89 0.00 46.09 5.14
38 39 3.087370 AGGAATTCCTTCTTTTCCGGG 57.913 47.619 21.89 0.00 46.09 5.73
66 67 9.196139 GCTAATTAGGGATGATAGACTACTCAT 57.804 37.037 14.28 6.96 34.86 2.90
67 68 7.616150 GGCTAATTAGGGATGATAGACTACTCA 59.384 40.741 14.28 0.00 0.00 3.41
68 69 7.616150 TGGCTAATTAGGGATGATAGACTACTC 59.384 40.741 14.28 0.00 0.00 2.59
69 70 7.479579 TGGCTAATTAGGGATGATAGACTACT 58.520 38.462 14.28 0.00 0.00 2.57
70 71 7.147811 CCTGGCTAATTAGGGATGATAGACTAC 60.148 44.444 14.28 0.00 0.00 2.73
71 72 6.897966 CCTGGCTAATTAGGGATGATAGACTA 59.102 42.308 14.28 0.00 0.00 2.59
72 73 5.723887 CCTGGCTAATTAGGGATGATAGACT 59.276 44.000 14.28 0.00 0.00 3.24
73 74 5.627968 GCCTGGCTAATTAGGGATGATAGAC 60.628 48.000 12.43 0.00 34.58 2.59
74 75 4.471386 GCCTGGCTAATTAGGGATGATAGA 59.529 45.833 12.43 0.00 34.58 1.98
75 76 4.472833 AGCCTGGCTAATTAGGGATGATAG 59.527 45.833 21.98 0.00 36.99 2.08
76 77 4.438913 AGCCTGGCTAATTAGGGATGATA 58.561 43.478 21.98 0.00 36.99 2.15
77 78 3.263724 AGCCTGGCTAATTAGGGATGAT 58.736 45.455 21.98 0.00 36.99 2.45
78 79 2.706350 AGCCTGGCTAATTAGGGATGA 58.294 47.619 21.98 0.00 36.99 2.92
79 80 4.225942 TGATAGCCTGGCTAATTAGGGATG 59.774 45.833 30.46 0.00 44.62 3.51
80 81 4.226168 GTGATAGCCTGGCTAATTAGGGAT 59.774 45.833 30.46 13.90 44.62 3.85
81 82 3.583086 GTGATAGCCTGGCTAATTAGGGA 59.417 47.826 30.46 9.28 44.62 4.20
82 83 3.327757 TGTGATAGCCTGGCTAATTAGGG 59.672 47.826 30.46 8.07 44.62 3.53
83 84 4.319177 GTGTGATAGCCTGGCTAATTAGG 58.681 47.826 30.46 1.00 44.62 2.69
84 85 4.202357 TGGTGTGATAGCCTGGCTAATTAG 60.202 45.833 30.46 8.20 44.62 1.73
85 86 3.714280 TGGTGTGATAGCCTGGCTAATTA 59.286 43.478 30.46 17.17 44.62 1.40
86 87 2.509548 TGGTGTGATAGCCTGGCTAATT 59.490 45.455 30.46 16.62 44.62 1.40
87 88 2.105477 CTGGTGTGATAGCCTGGCTAAT 59.895 50.000 30.46 18.96 44.62 1.73
88 89 1.486310 CTGGTGTGATAGCCTGGCTAA 59.514 52.381 30.46 14.01 44.62 3.09
89 90 1.123077 CTGGTGTGATAGCCTGGCTA 58.877 55.000 29.15 29.15 45.55 3.93
90 91 1.910722 CTGGTGTGATAGCCTGGCT 59.089 57.895 26.52 26.52 43.41 4.75
91 92 1.821332 GCTGGTGTGATAGCCTGGC 60.821 63.158 11.65 11.65 33.89 4.85
92 93 4.547859 GCTGGTGTGATAGCCTGG 57.452 61.111 0.00 0.00 33.89 4.45
96 97 1.379642 GGCAAGGCTGGTGTGATAGC 61.380 60.000 0.00 0.00 39.17 2.97
97 98 0.035152 TGGCAAGGCTGGTGTGATAG 60.035 55.000 0.00 0.00 0.00 2.08
98 99 0.403655 TTGGCAAGGCTGGTGTGATA 59.596 50.000 0.00 0.00 0.00 2.15
99 100 0.469705 TTTGGCAAGGCTGGTGTGAT 60.470 50.000 0.00 0.00 0.00 3.06
100 101 0.685785 TTTTGGCAAGGCTGGTGTGA 60.686 50.000 0.00 0.00 0.00 3.58
101 102 0.249573 CTTTTGGCAAGGCTGGTGTG 60.250 55.000 0.00 0.00 0.00 3.82
102 103 0.396974 TCTTTTGGCAAGGCTGGTGT 60.397 50.000 0.00 0.00 0.00 4.16
103 104 0.032540 GTCTTTTGGCAAGGCTGGTG 59.967 55.000 0.00 0.00 0.00 4.17
104 105 0.106015 AGTCTTTTGGCAAGGCTGGT 60.106 50.000 0.00 0.00 29.85 4.00
105 106 0.600057 GAGTCTTTTGGCAAGGCTGG 59.400 55.000 0.00 0.00 31.42 4.85
106 107 0.239347 CGAGTCTTTTGGCAAGGCTG 59.761 55.000 0.00 0.00 31.42 4.85
107 108 0.108585 TCGAGTCTTTTGGCAAGGCT 59.891 50.000 0.00 0.00 34.44 4.58
108 109 0.238553 GTCGAGTCTTTTGGCAAGGC 59.761 55.000 0.00 0.00 0.00 4.35
109 110 0.512952 CGTCGAGTCTTTTGGCAAGG 59.487 55.000 0.00 0.00 0.00 3.61
125 126 0.680061 AAGACCCCAGACTCAACGTC 59.320 55.000 0.00 0.00 43.17 4.34
127 128 0.951040 GCAAGACCCCAGACTCAACG 60.951 60.000 0.00 0.00 0.00 4.10
131 132 0.534873 GAGAGCAAGACCCCAGACTC 59.465 60.000 0.00 0.00 0.00 3.36
132 133 0.907230 GGAGAGCAAGACCCCAGACT 60.907 60.000 0.00 0.00 0.00 3.24
139 140 2.266055 CCGGTGGAGAGCAAGACC 59.734 66.667 0.00 0.00 0.00 3.85
172 173 1.369321 GGGAGAATCTGCTAGCCGG 59.631 63.158 13.29 0.00 33.73 6.13
175 176 1.127343 AGGTGGGAGAATCTGCTAGC 58.873 55.000 8.10 8.10 31.84 3.42
209 210 3.564218 AGCAGGGGGATCGGCATC 61.564 66.667 0.00 0.00 0.00 3.91
210 211 3.882326 CAGCAGGGGGATCGGCAT 61.882 66.667 0.00 0.00 0.00 4.40
214 215 3.746949 GACTGCAGCAGGGGGATCG 62.747 68.421 26.38 0.00 35.51 3.69
215 216 2.191641 GACTGCAGCAGGGGGATC 59.808 66.667 26.38 10.60 35.51 3.36
224 225 1.736681 GAAGAATGTGGAGACTGCAGC 59.263 52.381 15.27 6.85 0.00 5.25
225 226 3.331478 AGAAGAATGTGGAGACTGCAG 57.669 47.619 13.48 13.48 0.00 4.41
238 239 4.403752 GCTTTGGCCTCCAATAAGAAGAAT 59.596 41.667 3.32 0.00 43.55 2.40
272 273 4.530857 GACGGCGACCCCATCCAG 62.531 72.222 16.62 0.00 0.00 3.86
285 286 0.679002 TACGAACCAGAGGAGGACGG 60.679 60.000 0.00 0.00 36.76 4.79
286 287 0.733729 CTACGAACCAGAGGAGGACG 59.266 60.000 0.00 0.00 37.72 4.79
301 302 0.524392 CTGCGAAGTCAGGAGCTACG 60.524 60.000 0.00 0.00 0.00 3.51
330 331 6.071391 CCAAAAGAAGGTGGCAACTATTACAT 60.071 38.462 4.97 0.00 37.61 2.29
332 333 5.475564 TCCAAAAGAAGGTGGCAACTATTAC 59.524 40.000 4.97 0.00 34.68 1.89
334 335 4.479158 TCCAAAAGAAGGTGGCAACTATT 58.521 39.130 4.97 0.43 34.68 1.73
340 341 1.533625 CGATCCAAAAGAAGGTGGCA 58.466 50.000 0.00 0.00 34.68 4.92
344 345 2.115343 GAGGCGATCCAAAAGAAGGT 57.885 50.000 0.00 0.00 33.74 3.50
375 376 2.983592 AAGCCAAACCTTCCGCGG 60.984 61.111 22.12 22.12 0.00 6.46
381 382 3.575805 TCAAAGGATCAAGCCAAACCTT 58.424 40.909 0.00 0.00 41.83 3.50
382 383 3.243359 TCAAAGGATCAAGCCAAACCT 57.757 42.857 0.00 0.00 0.00 3.50
394 395 0.462047 CGGCGGCTACTTCAAAGGAT 60.462 55.000 7.61 0.00 0.00 3.24
396 397 2.750888 GCGGCGGCTACTTCAAAGG 61.751 63.158 9.78 0.00 35.83 3.11
398 399 2.744709 GGCGGCGGCTACTTCAAA 60.745 61.111 27.22 0.00 39.81 2.69
461 462 2.555757 GCTGATGGCAGAGAAAACAACT 59.444 45.455 0.00 0.00 45.17 3.16
462 463 2.555757 AGCTGATGGCAGAGAAAACAAC 59.444 45.455 0.00 0.00 45.17 3.32
466 467 1.676916 CGGAGCTGATGGCAGAGAAAA 60.677 52.381 0.00 0.00 45.17 2.29
486 487 1.025113 GTTTCTGTTCCGCTAGGGGC 61.025 60.000 20.79 8.62 38.33 5.80
512 513 1.813862 GCACAGCCCTAGACACAAACA 60.814 52.381 0.00 0.00 0.00 2.83
515 516 1.374947 GGCACAGCCCTAGACACAA 59.625 57.895 0.00 0.00 44.06 3.33
516 517 3.068881 GGCACAGCCCTAGACACA 58.931 61.111 0.00 0.00 44.06 3.72
610 611 2.517875 AGGAGGCGATTGCATGGC 60.518 61.111 7.38 0.00 45.35 4.40
626 627 2.746362 CAGGAAAGCTCTAAGGCAACAG 59.254 50.000 0.00 0.00 41.41 3.16
630 631 0.692476 TGCAGGAAAGCTCTAAGGCA 59.308 50.000 0.00 0.00 34.99 4.75
668 669 8.875803 CACAAACTAATAAAGTACCGATTGCTA 58.124 33.333 0.00 0.00 37.50 3.49
732 733 8.037166 GCTCATGGATGATGTGTATAATCTGTA 58.963 37.037 0.00 0.00 36.02 2.74
733 734 6.877855 GCTCATGGATGATGTGTATAATCTGT 59.122 38.462 0.00 0.00 36.02 3.41
734 735 7.104290 AGCTCATGGATGATGTGTATAATCTG 58.896 38.462 0.00 0.00 36.02 2.90
735 736 7.038516 TGAGCTCATGGATGATGTGTATAATCT 60.039 37.037 13.74 0.00 36.02 2.40
736 737 7.101700 TGAGCTCATGGATGATGTGTATAATC 58.898 38.462 13.74 0.00 36.02 1.75
738 739 6.423776 TGAGCTCATGGATGATGTGTATAA 57.576 37.500 13.74 0.00 36.02 0.98
740 741 4.968971 TGAGCTCATGGATGATGTGTAT 57.031 40.909 13.74 0.00 36.02 2.29
769 771 0.936297 CTTGGCAACGTTCTTGCAGC 60.936 55.000 12.42 5.35 46.58 5.25
984 986 0.640262 CCATGCGCGCACGTATATAG 59.360 55.000 39.05 17.39 43.11 1.31
1016 1019 4.262592 GCTCTTGGGAAATGGTTGATTTGT 60.263 41.667 0.00 0.00 34.18 2.83
1437 1459 2.887360 GCGTACAGCCCGGTCTTA 59.113 61.111 0.00 0.00 40.81 2.10
1467 1489 3.984732 GCCAGGAAGTTGGGCCCT 61.985 66.667 25.70 0.66 41.90 5.19
2151 2180 1.379309 GCACTCTCGGAGGACCTCT 60.379 63.158 20.97 0.00 33.35 3.69
2806 2877 1.688197 CAAGCCCACTTGTGACCAAAT 59.312 47.619 1.89 0.00 46.84 2.32
2807 2878 1.110442 CAAGCCCACTTGTGACCAAA 58.890 50.000 1.89 0.00 46.84 3.28
2808 2879 2.805897 CAAGCCCACTTGTGACCAA 58.194 52.632 1.89 0.00 46.84 3.67
2816 2887 5.418840 CCAAAATGATAGTACAAGCCCACTT 59.581 40.000 0.00 0.00 36.19 3.16
2817 2888 4.949856 CCAAAATGATAGTACAAGCCCACT 59.050 41.667 0.00 0.00 0.00 4.00
2818 2889 4.705023 ACCAAAATGATAGTACAAGCCCAC 59.295 41.667 0.00 0.00 0.00 4.61
2819 2890 4.929479 ACCAAAATGATAGTACAAGCCCA 58.071 39.130 0.00 0.00 0.00 5.36
2820 2891 5.914898 AACCAAAATGATAGTACAAGCCC 57.085 39.130 0.00 0.00 0.00 5.19
2821 2892 6.589907 CCAAAACCAAAATGATAGTACAAGCC 59.410 38.462 0.00 0.00 0.00 4.35
2822 2893 7.151976 ACCAAAACCAAAATGATAGTACAAGC 58.848 34.615 0.00 0.00 0.00 4.01
2823 2894 9.541143 AAACCAAAACCAAAATGATAGTACAAG 57.459 29.630 0.00 0.00 0.00 3.16
2824 2895 9.892130 AAAACCAAAACCAAAATGATAGTACAA 57.108 25.926 0.00 0.00 0.00 2.41
2825 2896 9.892130 AAAAACCAAAACCAAAATGATAGTACA 57.108 25.926 0.00 0.00 0.00 2.90
2828 2899 9.108284 CTCAAAAACCAAAACCAAAATGATAGT 57.892 29.630 0.00 0.00 0.00 2.12
2829 2900 8.069574 GCTCAAAAACCAAAACCAAAATGATAG 58.930 33.333 0.00 0.00 0.00 2.08
2834 2905 5.709631 ACAGCTCAAAAACCAAAACCAAAAT 59.290 32.000 0.00 0.00 0.00 1.82
2860 2931 5.009811 GGTATACGGAGTGAAGATACAAGCT 59.990 44.000 0.00 0.00 45.73 3.74
2876 2947 5.196341 TCACAAATGCTAGAGGTATACGG 57.804 43.478 0.00 0.00 0.00 4.02
2907 2978 6.401796 GCAGTACTTATAAAAACACCTCACGG 60.402 42.308 0.00 0.00 0.00 4.94
3012 6353 4.580580 GGGTGATTAGTTTAATCCTGGCTG 59.419 45.833 6.41 0.00 43.00 4.85
3062 6403 7.054124 TGGCTGGTAAACCTTTATGATCTTAG 58.946 38.462 0.02 0.00 36.82 2.18
3071 6412 4.668138 AATCCTGGCTGGTAAACCTTTA 57.332 40.909 10.44 0.00 37.07 1.85
3072 6413 3.542969 AATCCTGGCTGGTAAACCTTT 57.457 42.857 10.44 0.00 37.07 3.11
3073 6414 4.668138 TTAATCCTGGCTGGTAAACCTT 57.332 40.909 10.44 0.00 37.07 3.50
3075 6416 4.341487 AGTTTAATCCTGGCTGGTAAACC 58.659 43.478 22.12 11.77 37.69 3.27
3076 6417 7.640597 ATTAGTTTAATCCTGGCTGGTAAAC 57.359 36.000 19.98 19.98 37.45 2.01
3077 6418 9.930158 ATAATTAGTTTAATCCTGGCTGGTAAA 57.070 29.630 10.44 6.26 37.07 2.01
3080 6421 8.499406 TGTATAATTAGTTTAATCCTGGCTGGT 58.501 33.333 10.44 0.00 37.07 4.00
3081 6422 8.918202 TGTATAATTAGTTTAATCCTGGCTGG 57.082 34.615 3.65 3.65 37.10 4.85
3103 6444 3.140623 GACGGTGGCTAAAACCTTTGTA 58.859 45.455 0.00 0.00 35.39 2.41
3105 6446 1.950909 TGACGGTGGCTAAAACCTTTG 59.049 47.619 0.00 0.00 35.39 2.77
3106 6447 2.227194 CTGACGGTGGCTAAAACCTTT 58.773 47.619 0.00 0.00 35.39 3.11
3107 6448 1.892209 CTGACGGTGGCTAAAACCTT 58.108 50.000 0.00 0.00 35.39 3.50
3108 6449 0.605589 GCTGACGGTGGCTAAAACCT 60.606 55.000 0.00 0.00 35.39 3.50
3109 6450 1.583495 GGCTGACGGTGGCTAAAACC 61.583 60.000 0.00 0.00 0.00 3.27
3129 6470 1.339151 GGTCGCTGTGAAATCCCTCTT 60.339 52.381 0.00 0.00 0.00 2.85
3145 6486 2.435693 GGGTGAGATGGAGGGGTCG 61.436 68.421 0.00 0.00 0.00 4.79
3159 6500 2.730928 GTGCAAACAAAATCGATGGGTG 59.269 45.455 0.00 0.00 0.00 4.61
3160 6501 2.363680 TGTGCAAACAAAATCGATGGGT 59.636 40.909 0.00 0.00 0.00 4.51
3190 6531 2.295885 GAATCTGGCAAGGATCCTGTG 58.704 52.381 17.02 16.13 0.00 3.66
3205 6546 1.908066 GCGAACGGGTTTGCGAATCT 61.908 55.000 7.94 0.00 39.83 2.40
3218 6564 3.242155 TGGCGTTTCATTTATAGCGAACG 60.242 43.478 0.00 0.00 0.00 3.95
3230 6576 0.960364 ATGGTTCGCTGGCGTTTCAT 60.960 50.000 14.55 12.50 40.74 2.57
3231 6577 0.320858 TATGGTTCGCTGGCGTTTCA 60.321 50.000 14.55 10.98 40.74 2.69
3240 6586 8.857098 TCTAGTACTTTGAATATATGGTTCGCT 58.143 33.333 0.00 0.00 0.00 4.93
3279 6625 0.949105 CGAAGGGTTGCGTTGCTAGT 60.949 55.000 0.00 0.00 0.00 2.57
3291 6637 1.844289 TAACACCTGGGCGAAGGGT 60.844 57.895 9.41 2.45 42.11 4.34
3513 6862 8.082852 TGTAAGCGCCATCTTTGTAAATAAAAA 58.917 29.630 2.29 0.00 0.00 1.94
3516 6865 6.745159 TGTAAGCGCCATCTTTGTAAATAA 57.255 33.333 2.29 0.00 0.00 1.40
3517 6866 6.745159 TTGTAAGCGCCATCTTTGTAAATA 57.255 33.333 2.29 0.00 0.00 1.40
3518 6867 5.637006 TTGTAAGCGCCATCTTTGTAAAT 57.363 34.783 2.29 0.00 0.00 1.40
3519 6868 5.637006 ATTGTAAGCGCCATCTTTGTAAA 57.363 34.783 2.29 0.00 0.00 2.01
3520 6869 5.637006 AATTGTAAGCGCCATCTTTGTAA 57.363 34.783 2.29 0.00 0.00 2.41
3521 6870 5.637006 AAATTGTAAGCGCCATCTTTGTA 57.363 34.783 2.29 0.00 0.00 2.41
3522 6871 4.519540 AAATTGTAAGCGCCATCTTTGT 57.480 36.364 2.29 0.00 0.00 2.83
3523 6872 4.922692 TCAAAATTGTAAGCGCCATCTTTG 59.077 37.500 2.29 8.19 0.00 2.77
3524 6873 5.132897 TCAAAATTGTAAGCGCCATCTTT 57.867 34.783 2.29 0.00 0.00 2.52
3525 6874 4.782019 TCAAAATTGTAAGCGCCATCTT 57.218 36.364 2.29 0.00 0.00 2.40
3526 6875 4.458989 TCTTCAAAATTGTAAGCGCCATCT 59.541 37.500 2.29 0.00 0.00 2.90
3527 6876 4.732784 TCTTCAAAATTGTAAGCGCCATC 58.267 39.130 2.29 0.00 0.00 3.51
3528 6877 4.458989 TCTCTTCAAAATTGTAAGCGCCAT 59.541 37.500 2.29 0.00 0.00 4.40
3529 6878 3.818210 TCTCTTCAAAATTGTAAGCGCCA 59.182 39.130 2.29 0.00 0.00 5.69
3530 6879 4.419522 TCTCTTCAAAATTGTAAGCGCC 57.580 40.909 2.29 0.00 0.00 6.53
3531 6880 4.795278 CCATCTCTTCAAAATTGTAAGCGC 59.205 41.667 0.00 0.00 0.00 5.92
3532 6881 4.795278 GCCATCTCTTCAAAATTGTAAGCG 59.205 41.667 0.00 0.00 0.00 4.68
3533 6882 5.713025 TGCCATCTCTTCAAAATTGTAAGC 58.287 37.500 0.00 0.00 0.00 3.09
3534 6883 8.767478 AAATGCCATCTCTTCAAAATTGTAAG 57.233 30.769 0.00 0.00 0.00 2.34
3535 6884 9.558396 AAAAATGCCATCTCTTCAAAATTGTAA 57.442 25.926 0.00 0.00 0.00 2.41
3590 6940 9.191995 CTCGTAAAAATTTAAAATGCCAACTCT 57.808 29.630 0.00 0.00 0.00 3.24
3604 6954 7.980062 ACAAAAATGCCAACTCGTAAAAATTT 58.020 26.923 0.00 0.00 0.00 1.82
3613 6963 7.967854 TCTTGATATTACAAAAATGCCAACTCG 59.032 33.333 0.00 0.00 0.00 4.18
3617 6967 9.806203 CATCTCTTGATATTACAAAAATGCCAA 57.194 29.630 0.00 0.00 0.00 4.52
3618 6968 8.415553 CCATCTCTTGATATTACAAAAATGCCA 58.584 33.333 0.00 0.00 0.00 4.92
3665 7015 8.876275 TGGCATCTCTTAAAATTGAATAATGC 57.124 30.769 0.00 0.00 0.00 3.56


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

AutoCloner maintained by Alex Coulton.