Multiple sequence alignment - TraesCS6A01G261800

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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 TraesCS6A01G261800 chr6A 100.000 2640 0 0 1 2640 484910780 484908141 0.000000e+00 4876.0
1 TraesCS6A01G261800 chr6A 81.860 430 62 13 123 540 221352866 221353291 5.410000e-92 348.0
2 TraesCS6A01G261800 chr6A 84.713 157 20 4 2487 2640 196108853 196109008 1.270000e-33 154.0
3 TraesCS6A01G261800 chr6A 97.297 37 1 0 1460 1496 485324497 485324461 2.190000e-06 63.9
4 TraesCS6A01G261800 chr6B 91.970 2391 146 23 120 2492 520105844 520103482 0.000000e+00 3310.0
5 TraesCS6A01G261800 chr6B 97.297 37 1 0 1460 1496 520778145 520778109 2.190000e-06 63.9
6 TraesCS6A01G261800 chr6D 95.523 1653 49 7 557 2198 344354711 344353073 0.000000e+00 2619.0
7 TraesCS6A01G261800 chr6D 89.769 303 31 0 2190 2492 344351574 344351272 3.190000e-104 388.0
8 TraesCS6A01G261800 chr6D 97.297 37 1 0 1460 1496 344915794 344915758 2.190000e-06 63.9
9 TraesCS6A01G261800 chr1D 82.944 428 59 12 123 540 138234572 138234995 8.920000e-100 374.0
10 TraesCS6A01G261800 chr1D 81.352 429 64 13 123 540 138238371 138238794 4.210000e-88 335.0
11 TraesCS6A01G261800 chr7A 82.353 408 60 10 123 522 369727018 369727421 7.000000e-91 344.0
12 TraesCS6A01G261800 chr4A 82.732 388 53 11 144 522 334529085 334529467 1.510000e-87 333.0
13 TraesCS6A01G261800 chr3B 81.075 428 66 11 124 540 340594365 340594788 7.050000e-86 327.0
14 TraesCS6A01G261800 chr3B 85.350 157 19 4 2487 2640 392400749 392400594 2.720000e-35 159.0
15 TraesCS6A01G261800 chr3B 85.621 153 15 6 2487 2635 349755117 349754968 1.270000e-33 154.0
16 TraesCS6A01G261800 chr7D 80.930 430 64 16 123 540 74792619 74792196 9.110000e-85 324.0
17 TraesCS6A01G261800 chr7B 80.886 429 64 15 124 540 24094080 24094502 3.280000e-84 322.0
18 TraesCS6A01G261800 chr1A 95.270 148 7 0 2493 2640 6871652 6871505 4.390000e-58 235.0
19 TraesCS6A01G261800 chr1A 91.716 169 11 2 2472 2640 125152196 125152031 5.680000e-57 231.0
20 TraesCS6A01G261800 chr1B 85.350 157 19 4 2487 2640 103177086 103177241 2.720000e-35 159.0
21 TraesCS6A01G261800 chr3A 85.256 156 20 3 2487 2640 385549396 385549242 9.780000e-35 158.0
22 TraesCS6A01G261800 chr3A 84.076 157 21 4 2487 2640 405338492 405338337 5.890000e-32 148.0
23 TraesCS6A01G261800 chr2B 84.076 157 21 4 2487 2640 228663763 228663918 5.890000e-32 148.0


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 TraesCS6A01G261800 chr6A 484908141 484910780 2639 True 4876.0 4876 100.000 1 2640 1 chr6A.!!$R1 2639
1 TraesCS6A01G261800 chr6B 520103482 520105844 2362 True 3310.0 3310 91.970 120 2492 1 chr6B.!!$R1 2372
2 TraesCS6A01G261800 chr6D 344351272 344354711 3439 True 1503.5 2619 92.646 557 2492 2 chr6D.!!$R2 1935
3 TraesCS6A01G261800 chr1D 138234572 138238794 4222 False 354.5 374 82.148 123 540 2 chr1D.!!$F1 417

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
193 194 0.037697 ACGTCGCACCTTAGCAATCA 60.038 50.0 0.00 0.0 0.00 2.57 F
243 244 0.459585 GCCGAAGCACGATCAACCTA 60.460 55.0 4.96 0.0 45.77 3.08 F
248 249 0.833287 AGCACGATCAACCTAGCCAT 59.167 50.0 0.00 0.0 0.00 4.40 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1376 2121 0.452184 ACGTAGGCTCTGTCATGACG 59.548 55.000 20.54 14.91 35.10 4.35 R
1384 2132 0.525668 CAAGGCGTACGTAGGCTCTG 60.526 60.000 31.98 25.33 44.05 3.35 R
1958 4506 1.065709 TGGGTAGATCGCCTGGTTTTC 60.066 52.381 8.83 0.00 0.00 2.29 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 4.796408 AGGGAGAGGCAGATTCGT 57.204 55.556 0.00 0.00 0.00 3.85
18 19 2.206635 AGGGAGAGGCAGATTCGTG 58.793 57.895 0.00 0.00 0.00 4.35
19 20 0.324738 AGGGAGAGGCAGATTCGTGA 60.325 55.000 0.00 0.00 0.00 4.35
20 21 0.755686 GGGAGAGGCAGATTCGTGAT 59.244 55.000 0.00 0.00 0.00 3.06
21 22 1.964223 GGGAGAGGCAGATTCGTGATA 59.036 52.381 0.00 0.00 0.00 2.15
22 23 2.365617 GGGAGAGGCAGATTCGTGATAA 59.634 50.000 0.00 0.00 0.00 1.75
23 24 3.007398 GGGAGAGGCAGATTCGTGATAAT 59.993 47.826 0.00 0.00 0.00 1.28
24 25 3.993081 GGAGAGGCAGATTCGTGATAATG 59.007 47.826 0.00 0.00 0.00 1.90
25 26 3.993081 GAGAGGCAGATTCGTGATAATGG 59.007 47.826 0.00 0.00 0.00 3.16
26 27 3.643320 AGAGGCAGATTCGTGATAATGGA 59.357 43.478 0.00 0.00 0.00 3.41
27 28 4.285517 AGAGGCAGATTCGTGATAATGGAT 59.714 41.667 0.00 0.00 0.00 3.41
28 29 5.481824 AGAGGCAGATTCGTGATAATGGATA 59.518 40.000 0.00 0.00 0.00 2.59
29 30 5.728471 AGGCAGATTCGTGATAATGGATAG 58.272 41.667 0.00 0.00 0.00 2.08
30 31 5.247110 AGGCAGATTCGTGATAATGGATAGT 59.753 40.000 0.00 0.00 0.00 2.12
31 32 5.934625 GGCAGATTCGTGATAATGGATAGTT 59.065 40.000 0.00 0.00 0.00 2.24
32 33 6.128445 GGCAGATTCGTGATAATGGATAGTTG 60.128 42.308 0.00 0.00 0.00 3.16
33 34 6.619446 GCAGATTCGTGATAATGGATAGTTGC 60.619 42.308 0.00 0.00 0.00 4.17
34 35 5.934625 AGATTCGTGATAATGGATAGTTGCC 59.065 40.000 0.00 0.00 0.00 4.52
35 36 4.955811 TCGTGATAATGGATAGTTGCCT 57.044 40.909 0.00 0.00 0.00 4.75
36 37 4.883083 TCGTGATAATGGATAGTTGCCTC 58.117 43.478 0.00 0.00 0.00 4.70
37 38 4.343814 TCGTGATAATGGATAGTTGCCTCA 59.656 41.667 0.00 0.00 0.00 3.86
38 39 5.056480 CGTGATAATGGATAGTTGCCTCAA 58.944 41.667 0.00 0.00 0.00 3.02
39 40 5.527214 CGTGATAATGGATAGTTGCCTCAAA 59.473 40.000 0.00 0.00 0.00 2.69
40 41 6.038161 CGTGATAATGGATAGTTGCCTCAAAA 59.962 38.462 0.00 0.00 0.00 2.44
41 42 7.420800 GTGATAATGGATAGTTGCCTCAAAAG 58.579 38.462 0.00 0.00 0.00 2.27
42 43 7.067494 GTGATAATGGATAGTTGCCTCAAAAGT 59.933 37.037 0.00 0.00 0.00 2.66
43 44 7.615365 TGATAATGGATAGTTGCCTCAAAAGTT 59.385 33.333 0.00 0.00 0.00 2.66
44 45 9.120538 GATAATGGATAGTTGCCTCAAAAGTTA 57.879 33.333 0.00 0.00 0.00 2.24
45 46 7.396540 AATGGATAGTTGCCTCAAAAGTTAG 57.603 36.000 0.00 0.00 0.00 2.34
46 47 5.253330 TGGATAGTTGCCTCAAAAGTTAGG 58.747 41.667 0.00 0.00 35.86 2.69
69 70 7.662897 AGGCTTTTCTCTCTTTATATAGACCG 58.337 38.462 0.00 0.00 0.00 4.79
70 71 6.869388 GGCTTTTCTCTCTTTATATAGACCGG 59.131 42.308 0.00 0.00 0.00 5.28
71 72 7.255871 GGCTTTTCTCTCTTTATATAGACCGGA 60.256 40.741 9.46 0.00 0.00 5.14
72 73 8.142551 GCTTTTCTCTCTTTATATAGACCGGAA 58.857 37.037 9.46 0.00 0.00 4.30
73 74 9.465985 CTTTTCTCTCTTTATATAGACCGGAAC 57.534 37.037 9.46 0.99 0.00 3.62
87 88 2.087344 GGAACGATGTTTCTCGGCC 58.913 57.895 0.00 0.00 42.88 6.13
88 89 0.391263 GGAACGATGTTTCTCGGCCT 60.391 55.000 0.00 0.00 42.88 5.19
89 90 1.439679 GAACGATGTTTCTCGGCCTT 58.560 50.000 0.00 0.00 42.88 4.35
90 91 1.804748 GAACGATGTTTCTCGGCCTTT 59.195 47.619 0.00 0.00 42.88 3.11
91 92 1.439679 ACGATGTTTCTCGGCCTTTC 58.560 50.000 0.00 0.00 42.88 2.62
92 93 0.370273 CGATGTTTCTCGGCCTTTCG 59.630 55.000 0.00 0.00 35.03 3.46
93 94 1.722011 GATGTTTCTCGGCCTTTCGA 58.278 50.000 0.00 0.00 37.60 3.71
94 95 2.280628 GATGTTTCTCGGCCTTTCGAT 58.719 47.619 0.00 0.00 38.55 3.59
95 96 1.722011 TGTTTCTCGGCCTTTCGATC 58.278 50.000 0.00 0.00 38.55 3.69
96 97 1.001520 TGTTTCTCGGCCTTTCGATCA 59.998 47.619 0.00 0.00 38.55 2.92
97 98 2.073816 GTTTCTCGGCCTTTCGATCAA 58.926 47.619 0.00 0.00 38.55 2.57
98 99 2.678336 GTTTCTCGGCCTTTCGATCAAT 59.322 45.455 0.00 0.00 38.55 2.57
99 100 3.812156 TTCTCGGCCTTTCGATCAATA 57.188 42.857 0.00 0.00 38.55 1.90
100 101 3.093717 TCTCGGCCTTTCGATCAATAC 57.906 47.619 0.00 0.00 38.55 1.89
101 102 2.135933 CTCGGCCTTTCGATCAATACC 58.864 52.381 0.00 0.00 38.55 2.73
102 103 1.760613 TCGGCCTTTCGATCAATACCT 59.239 47.619 0.00 0.00 33.92 3.08
103 104 2.135933 CGGCCTTTCGATCAATACCTC 58.864 52.381 0.00 0.00 0.00 3.85
104 105 2.224066 CGGCCTTTCGATCAATACCTCT 60.224 50.000 0.00 0.00 0.00 3.69
105 106 3.741388 CGGCCTTTCGATCAATACCTCTT 60.741 47.826 0.00 0.00 0.00 2.85
106 107 4.200092 GGCCTTTCGATCAATACCTCTTT 58.800 43.478 0.00 0.00 0.00 2.52
107 108 4.273724 GGCCTTTCGATCAATACCTCTTTC 59.726 45.833 0.00 0.00 0.00 2.62
108 109 4.025647 GCCTTTCGATCAATACCTCTTTCG 60.026 45.833 0.00 0.00 0.00 3.46
109 110 5.109903 CCTTTCGATCAATACCTCTTTCGT 58.890 41.667 0.00 0.00 0.00 3.85
110 111 5.581085 CCTTTCGATCAATACCTCTTTCGTT 59.419 40.000 0.00 0.00 0.00 3.85
111 112 6.237861 CCTTTCGATCAATACCTCTTTCGTTC 60.238 42.308 0.00 0.00 0.00 3.95
112 113 5.319140 TCGATCAATACCTCTTTCGTTCA 57.681 39.130 0.00 0.00 0.00 3.18
113 114 5.340803 TCGATCAATACCTCTTTCGTTCAG 58.659 41.667 0.00 0.00 0.00 3.02
114 115 4.504461 CGATCAATACCTCTTTCGTTCAGG 59.496 45.833 0.00 0.00 0.00 3.86
115 116 4.202245 TCAATACCTCTTTCGTTCAGGG 57.798 45.455 0.00 0.00 0.00 4.45
116 117 3.055385 TCAATACCTCTTTCGTTCAGGGG 60.055 47.826 0.00 0.00 37.99 4.79
117 118 0.611714 TACCTCTTTCGTTCAGGGGC 59.388 55.000 0.00 0.00 34.85 5.80
118 119 1.128188 ACCTCTTTCGTTCAGGGGCT 61.128 55.000 0.00 0.00 34.85 5.19
127 128 3.101437 TCGTTCAGGGGCTTAACTATCA 58.899 45.455 0.00 0.00 0.00 2.15
149 150 6.991938 TCATTTTGGGTGAAGTAGATTTTGG 58.008 36.000 0.00 0.00 0.00 3.28
193 194 0.037697 ACGTCGCACCTTAGCAATCA 60.038 50.000 0.00 0.00 0.00 2.57
209 210 4.584325 AGCAATCAGTAAAGCAACTCCAAA 59.416 37.500 0.00 0.00 0.00 3.28
243 244 0.459585 GCCGAAGCACGATCAACCTA 60.460 55.000 4.96 0.00 45.77 3.08
244 245 1.560923 CCGAAGCACGATCAACCTAG 58.439 55.000 4.96 0.00 45.77 3.02
248 249 0.833287 AGCACGATCAACCTAGCCAT 59.167 50.000 0.00 0.00 0.00 4.40
262 263 4.971924 ACCTAGCCATGAAGGTCTAATTCT 59.028 41.667 8.15 0.00 42.60 2.40
280 281 1.601903 TCTTGCACGCAAACGAAGAAT 59.398 42.857 5.87 0.00 43.93 2.40
287 290 3.599514 CACGCAAACGAAGAATAAGCAAG 59.400 43.478 0.00 0.00 43.93 4.01
330 334 8.476447 TGGATATTGCAATTTAAGATGAAAGCA 58.524 29.630 18.75 0.00 0.00 3.91
360 364 7.004086 TGATGAAAGTTTAGGGTTCTGTGAAT 58.996 34.615 0.00 0.00 0.00 2.57
387 391 3.222603 GGTCTGGTCTTTGGACACAAAT 58.777 45.455 0.00 0.00 44.91 2.32
396 400 5.007332 GTCTTTGGACACAAATGAAGTACGT 59.993 40.000 0.00 0.00 44.91 3.57
397 401 6.201425 GTCTTTGGACACAAATGAAGTACGTA 59.799 38.462 0.00 0.00 44.91 3.57
398 402 6.932400 TCTTTGGACACAAATGAAGTACGTAT 59.068 34.615 0.00 0.00 44.91 3.06
399 403 7.442969 TCTTTGGACACAAATGAAGTACGTATT 59.557 33.333 0.00 0.00 44.91 1.89
400 404 7.499321 TTGGACACAAATGAAGTACGTATTT 57.501 32.000 2.61 2.61 32.66 1.40
401 405 8.604640 TTGGACACAAATGAAGTACGTATTTA 57.395 30.769 3.03 0.00 32.66 1.40
402 406 8.020861 TGGACACAAATGAAGTACGTATTTAC 57.979 34.615 3.03 0.00 0.00 2.01
403 407 7.656542 TGGACACAAATGAAGTACGTATTTACA 59.343 33.333 3.03 4.71 0.00 2.41
404 408 8.166706 GGACACAAATGAAGTACGTATTTACAG 58.833 37.037 3.03 0.00 0.00 2.74
405 409 8.597662 ACACAAATGAAGTACGTATTTACAGT 57.402 30.769 3.03 1.28 0.00 3.55
406 410 9.048446 ACACAAATGAAGTACGTATTTACAGTT 57.952 29.630 3.03 6.70 0.00 3.16
451 457 3.356290 AGCCCAAAGAAAATGCTACGAT 58.644 40.909 0.00 0.00 0.00 3.73
523 530 1.051556 TCCCAAGGCACCAAAAACCC 61.052 55.000 0.00 0.00 0.00 4.11
524 531 1.053835 CCCAAGGCACCAAAAACCCT 61.054 55.000 0.00 0.00 0.00 4.34
551 898 3.247648 CCGTACAAGGCCTATTTTCATCG 59.752 47.826 5.16 3.46 0.00 3.84
595 964 2.727544 GGCAAAGCGCACCTTCAA 59.272 55.556 11.47 0.00 45.17 2.69
601 970 2.543777 AAGCGCACCTTCAAGTTCTA 57.456 45.000 11.47 0.00 0.00 2.10
604 973 1.727335 GCGCACCTTCAAGTTCTAGTC 59.273 52.381 0.30 0.00 0.00 2.59
799 1544 1.671845 ACAAACACGTGCGTGGTAATT 59.328 42.857 25.28 13.34 46.49 1.40
810 1555 4.209288 GTGCGTGGTAATTGCAGATACTAG 59.791 45.833 9.87 0.00 39.67 2.57
898 1643 3.242673 CGTGTATCGAGTGGTTCTCCTAC 60.243 52.174 0.00 0.00 42.86 3.18
905 1650 3.118334 CGAGTGGTTCTCCTACTCCTAGA 60.118 52.174 0.00 0.00 39.84 2.43
906 1651 4.625805 CGAGTGGTTCTCCTACTCCTAGAA 60.626 50.000 0.00 0.00 39.84 2.10
907 1652 5.262804 GAGTGGTTCTCCTACTCCTAGAAA 58.737 45.833 0.00 0.00 36.65 2.52
908 1653 5.018149 AGTGGTTCTCCTACTCCTAGAAAC 58.982 45.833 0.00 0.00 37.44 2.78
909 1654 4.771054 GTGGTTCTCCTACTCCTAGAAACA 59.229 45.833 0.00 0.00 42.96 2.83
910 1655 5.422650 GTGGTTCTCCTACTCCTAGAAACAT 59.577 44.000 5.44 0.00 45.75 2.71
911 1656 6.606395 GTGGTTCTCCTACTCCTAGAAACATA 59.394 42.308 5.44 0.00 45.75 2.29
1366 2111 4.579869 ACATCTTCATGTACAGGTCAACC 58.420 43.478 7.49 0.00 41.81 3.77
1376 2121 3.712881 GGTCAACCACGCTCGCAC 61.713 66.667 0.00 0.00 35.64 5.34
1384 2132 2.805353 ACGCTCGCACGTCATGAC 60.805 61.111 16.21 16.21 44.43 3.06
1388 2136 1.409227 GCTCGCACGTCATGACAGAG 61.409 60.000 24.93 23.50 0.00 3.35
1389 2137 1.409227 CTCGCACGTCATGACAGAGC 61.409 60.000 24.93 22.53 0.00 4.09
1392 2140 0.173481 GCACGTCATGACAGAGCCTA 59.827 55.000 24.93 0.00 0.00 3.93
1785 2533 3.304057 GGAATGGTACTACCGCGTACTAC 60.304 52.174 4.92 0.00 42.58 2.73
1786 2534 2.691409 TGGTACTACCGCGTACTACT 57.309 50.000 4.92 0.00 42.58 2.57
1787 2535 3.812156 TGGTACTACCGCGTACTACTA 57.188 47.619 4.92 0.00 42.58 1.82
1993 4542 6.239317 CGATCTACCCATTTCATTAGGACAGA 60.239 42.308 0.00 0.00 0.00 3.41
2098 4648 3.555586 CCAGCAAAAATGCTAGCCAAACT 60.556 43.478 13.29 0.00 44.30 2.66
2113 4663 3.217626 CCAAACTTGCTCAAGGTCTTCT 58.782 45.455 13.48 0.00 42.53 2.85
2214 6279 9.558396 TTTGAAAGAAATAGCATTCCAAACAAT 57.442 25.926 0.00 0.00 0.00 2.71
2241 6306 6.924913 TTTCATGTCCCACCAATCATTAAA 57.075 33.333 0.00 0.00 0.00 1.52
2243 6308 5.825532 TCATGTCCCACCAATCATTAAAGA 58.174 37.500 0.00 0.00 0.00 2.52
2248 6313 6.657541 TGTCCCACCAATCATTAAAGAAGTAC 59.342 38.462 0.00 0.00 0.00 2.73
2252 6317 8.531146 CCCACCAATCATTAAAGAAGTACAAAT 58.469 33.333 0.00 0.00 0.00 2.32
2266 6331 5.401531 AGTACAAATGTATGTGTCGTCCT 57.598 39.130 0.00 0.00 34.75 3.85
2305 6370 5.280945 CCAAGTTGAAACAATACACCACAG 58.719 41.667 3.87 0.00 0.00 3.66
2309 6374 2.235016 GAAACAATACACCACAGGCCA 58.765 47.619 5.01 0.00 0.00 5.36
2313 6378 2.364002 ACAATACACCACAGGCCAAAAC 59.636 45.455 5.01 0.00 0.00 2.43
2345 6410 2.553268 GCGCGCCAGATGCTTATC 59.447 61.111 23.24 0.00 38.05 1.75
2365 6430 0.250858 TGTCTCGTAACCGGTCAGGA 60.251 55.000 8.04 2.96 45.00 3.86
2368 6433 1.542915 TCTCGTAACCGGTCAGGAAAG 59.457 52.381 8.04 1.12 45.00 2.62
2381 6446 3.006217 GTCAGGAAAGGCTTGCAAATCTT 59.994 43.478 7.69 4.36 0.00 2.40
2387 6452 1.267806 AGGCTTGCAAATCTTGTCGTG 59.732 47.619 0.00 0.00 0.00 4.35
2398 6463 6.197468 GCAAATCTTGTCGTGAGTCTATCTAC 59.803 42.308 0.00 0.00 0.00 2.59
2431 6496 2.036992 CGATCTGCCATAAGAGCCTTCT 59.963 50.000 0.00 0.00 34.29 2.85
2470 6535 4.883006 ACATGAAATTATTGCATTTGGGCC 59.117 37.500 0.00 0.00 0.00 5.80
2492 6557 5.236263 GCCCAACTTTGTAGTTCCAAAATTG 59.764 40.000 0.00 0.00 42.67 2.32
2507 6572 5.682943 CAAAATTGGAAGTACTTCACGGA 57.317 39.130 31.30 16.79 41.20 4.69
2508 6573 5.689819 CAAAATTGGAAGTACTTCACGGAG 58.310 41.667 31.30 14.20 41.20 4.63
2509 6574 3.611766 ATTGGAAGTACTTCACGGAGG 57.388 47.619 31.30 0.00 41.20 4.30
2510 6575 2.297698 TGGAAGTACTTCACGGAGGA 57.702 50.000 31.30 7.99 41.20 3.71
2511 6576 2.816411 TGGAAGTACTTCACGGAGGAT 58.184 47.619 31.30 0.00 41.20 3.24
2512 6577 3.972133 TGGAAGTACTTCACGGAGGATA 58.028 45.455 31.30 7.91 41.20 2.59
2513 6578 3.698040 TGGAAGTACTTCACGGAGGATAC 59.302 47.826 31.30 14.06 41.20 2.24
2514 6579 3.698040 GGAAGTACTTCACGGAGGATACA 59.302 47.826 31.30 0.00 41.20 2.29
2515 6580 4.341520 GGAAGTACTTCACGGAGGATACAT 59.658 45.833 31.30 0.00 41.20 2.29
2516 6581 5.507650 GGAAGTACTTCACGGAGGATACATC 60.508 48.000 31.30 9.78 41.20 3.06
2517 6582 3.564644 AGTACTTCACGGAGGATACATCG 59.435 47.826 0.00 0.00 39.57 3.84
2518 6583 1.067212 ACTTCACGGAGGATACATCGC 59.933 52.381 0.00 0.00 37.69 4.58
2519 6584 1.338337 CTTCACGGAGGATACATCGCT 59.662 52.381 0.00 0.00 37.69 4.93
2520 6585 0.668535 TCACGGAGGATACATCGCTG 59.331 55.000 0.00 0.00 37.69 5.18
2521 6586 0.668535 CACGGAGGATACATCGCTGA 59.331 55.000 0.00 0.00 37.69 4.26
2522 6587 1.067060 CACGGAGGATACATCGCTGAA 59.933 52.381 0.00 0.00 37.69 3.02
2523 6588 1.067212 ACGGAGGATACATCGCTGAAC 59.933 52.381 0.00 0.00 37.69 3.18
2524 6589 1.772182 GGAGGATACATCGCTGAACG 58.228 55.000 0.00 0.00 41.69 3.95
2534 6599 3.952811 GCTGAACGACACTGGGAC 58.047 61.111 0.00 0.00 0.00 4.46
2535 6600 2.022129 GCTGAACGACACTGGGACG 61.022 63.158 0.00 0.00 0.00 4.79
2536 6601 1.658114 CTGAACGACACTGGGACGA 59.342 57.895 9.03 0.00 0.00 4.20
2537 6602 0.243907 CTGAACGACACTGGGACGAT 59.756 55.000 9.03 0.00 0.00 3.73
2538 6603 0.038618 TGAACGACACTGGGACGATG 60.039 55.000 9.03 0.00 0.00 3.84
2539 6604 0.736325 GAACGACACTGGGACGATGG 60.736 60.000 9.03 0.00 0.00 3.51
2540 6605 2.509336 CGACACTGGGACGATGGC 60.509 66.667 0.00 0.00 0.00 4.40
2541 6606 2.982130 GACACTGGGACGATGGCT 59.018 61.111 0.00 0.00 0.00 4.75
2542 6607 1.663379 CGACACTGGGACGATGGCTA 61.663 60.000 0.00 0.00 0.00 3.93
2543 6608 0.535335 GACACTGGGACGATGGCTAA 59.465 55.000 0.00 0.00 0.00 3.09
2544 6609 1.139058 GACACTGGGACGATGGCTAAT 59.861 52.381 0.00 0.00 0.00 1.73
2545 6610 1.139058 ACACTGGGACGATGGCTAATC 59.861 52.381 0.00 0.00 0.00 1.75
2546 6611 0.759346 ACTGGGACGATGGCTAATCC 59.241 55.000 0.00 0.00 30.80 3.01
2559 6624 2.629051 GCTAATCCAGCCGTTAGTTGT 58.371 47.619 0.00 0.00 45.23 3.32
2560 6625 3.007635 GCTAATCCAGCCGTTAGTTGTT 58.992 45.455 0.00 0.00 45.23 2.83
2561 6626 3.181510 GCTAATCCAGCCGTTAGTTGTTG 60.182 47.826 0.00 0.00 45.23 3.33
2562 6627 2.561478 ATCCAGCCGTTAGTTGTTGT 57.439 45.000 0.00 0.00 0.00 3.32
2563 6628 2.335316 TCCAGCCGTTAGTTGTTGTT 57.665 45.000 0.00 0.00 0.00 2.83
2564 6629 2.645802 TCCAGCCGTTAGTTGTTGTTT 58.354 42.857 0.00 0.00 0.00 2.83
2565 6630 2.614983 TCCAGCCGTTAGTTGTTGTTTC 59.385 45.455 0.00 0.00 0.00 2.78
2566 6631 2.356382 CCAGCCGTTAGTTGTTGTTTCA 59.644 45.455 0.00 0.00 0.00 2.69
2567 6632 3.359654 CAGCCGTTAGTTGTTGTTTCAC 58.640 45.455 0.00 0.00 0.00 3.18
2568 6633 3.011119 AGCCGTTAGTTGTTGTTTCACA 58.989 40.909 0.00 0.00 0.00 3.58
2569 6634 3.103007 GCCGTTAGTTGTTGTTTCACAC 58.897 45.455 0.00 0.00 0.00 3.82
2570 6635 3.181504 GCCGTTAGTTGTTGTTTCACACT 60.182 43.478 0.00 0.00 0.00 3.55
2571 6636 4.673320 GCCGTTAGTTGTTGTTTCACACTT 60.673 41.667 0.00 0.00 0.00 3.16
2572 6637 4.791163 CCGTTAGTTGTTGTTTCACACTTG 59.209 41.667 0.00 0.00 0.00 3.16
2573 6638 4.262045 CGTTAGTTGTTGTTTCACACTTGC 59.738 41.667 0.00 0.00 0.00 4.01
2574 6639 3.230743 AGTTGTTGTTTCACACTTGCC 57.769 42.857 0.00 0.00 0.00 4.52
2575 6640 2.825532 AGTTGTTGTTTCACACTTGCCT 59.174 40.909 0.00 0.00 0.00 4.75
2584 6649 1.915489 TCACACTTGCCTATGGATGGT 59.085 47.619 0.00 0.00 0.00 3.55
2590 6655 1.886422 TGCCTATGGATGGTGTGGTA 58.114 50.000 0.00 0.00 0.00 3.25
2595 6660 3.648067 CCTATGGATGGTGTGGTAGACAT 59.352 47.826 0.00 0.00 36.78 3.06
2596 6661 3.565764 ATGGATGGTGTGGTAGACATG 57.434 47.619 0.00 0.00 36.78 3.21
2597 6662 2.265367 TGGATGGTGTGGTAGACATGT 58.735 47.619 0.00 0.00 36.78 3.21
2598 6663 2.236146 TGGATGGTGTGGTAGACATGTC 59.764 50.000 18.47 18.47 36.78 3.06
2599 6664 2.540515 GATGGTGTGGTAGACATGTCG 58.459 52.381 19.85 0.00 36.78 4.35
2600 6665 1.334160 TGGTGTGGTAGACATGTCGT 58.666 50.000 19.85 11.00 36.78 4.34
2602 6667 1.068474 GTGTGGTAGACATGTCGTGC 58.932 55.000 19.85 13.29 36.78 5.34
2603 6668 0.676736 TGTGGTAGACATGTCGTGCA 59.323 50.000 19.85 12.56 34.09 4.57
2604 6669 1.275010 TGTGGTAGACATGTCGTGCAT 59.725 47.619 19.85 5.01 38.60 3.96
2613 6678 2.871182 ATGTCGTGCATGTATCGTCT 57.129 45.000 5.68 0.00 36.26 4.18
2614 6679 1.908065 TGTCGTGCATGTATCGTCTG 58.092 50.000 5.68 0.00 0.00 3.51
2615 6680 1.470890 TGTCGTGCATGTATCGTCTGA 59.529 47.619 5.68 0.00 0.00 3.27
2616 6681 2.099098 TGTCGTGCATGTATCGTCTGAT 59.901 45.455 5.68 0.00 38.67 2.90
2618 6683 2.357637 TCGTGCATGTATCGTCTGATGA 59.642 45.455 5.68 1.43 35.99 2.92
2619 6684 3.115554 CGTGCATGTATCGTCTGATGAA 58.884 45.455 3.31 0.00 35.99 2.57
2620 6685 3.737774 CGTGCATGTATCGTCTGATGAAT 59.262 43.478 3.31 0.00 35.99 2.57
2623 6688 4.746611 TGCATGTATCGTCTGATGAATGTC 59.253 41.667 3.31 1.90 35.99 3.06
2624 6689 4.143452 GCATGTATCGTCTGATGAATGTCG 60.143 45.833 3.31 0.00 35.99 4.35
2625 6690 4.632538 TGTATCGTCTGATGAATGTCGT 57.367 40.909 3.31 0.00 35.99 4.34
2626 6691 4.598062 TGTATCGTCTGATGAATGTCGTC 58.402 43.478 3.31 0.00 35.99 4.20
2628 6693 1.816224 TCGTCTGATGAATGTCGTCCA 59.184 47.619 0.00 0.00 31.51 4.02
2629 6694 2.427095 TCGTCTGATGAATGTCGTCCAT 59.573 45.455 0.00 0.00 31.51 3.41
2630 6695 2.537214 CGTCTGATGAATGTCGTCCATG 59.463 50.000 0.00 0.00 32.82 3.66
2632 6697 4.682787 GTCTGATGAATGTCGTCCATGTA 58.317 43.478 0.00 0.00 32.82 2.29
2633 6698 4.742167 GTCTGATGAATGTCGTCCATGTAG 59.258 45.833 0.00 0.00 32.82 2.74
2634 6699 3.457234 TGATGAATGTCGTCCATGTAGC 58.543 45.455 0.00 0.00 32.82 3.58
2635 6700 1.921243 TGAATGTCGTCCATGTAGCG 58.079 50.000 0.00 0.00 32.82 4.26
2636 6701 1.209128 GAATGTCGTCCATGTAGCGG 58.791 55.000 0.00 0.00 32.82 5.52
2637 6702 0.535335 AATGTCGTCCATGTAGCGGT 59.465 50.000 0.00 0.00 32.82 5.68
2638 6703 0.179111 ATGTCGTCCATGTAGCGGTG 60.179 55.000 0.00 0.00 30.69 4.94
2639 6704 2.165301 GTCGTCCATGTAGCGGTGC 61.165 63.158 0.00 0.00 0.00 5.01
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 0.324738 TCACGAATCTGCCTCTCCCT 60.325 55.000 0.00 0.00 0.00 4.20
1 2 0.755686 ATCACGAATCTGCCTCTCCC 59.244 55.000 0.00 0.00 0.00 4.30
2 3 3.735237 TTATCACGAATCTGCCTCTCC 57.265 47.619 0.00 0.00 0.00 3.71
3 4 3.993081 CCATTATCACGAATCTGCCTCTC 59.007 47.826 0.00 0.00 0.00 3.20
4 5 3.643320 TCCATTATCACGAATCTGCCTCT 59.357 43.478 0.00 0.00 0.00 3.69
5 6 3.995199 TCCATTATCACGAATCTGCCTC 58.005 45.455 0.00 0.00 0.00 4.70
6 7 4.630644 ATCCATTATCACGAATCTGCCT 57.369 40.909 0.00 0.00 0.00 4.75
7 8 5.482908 ACTATCCATTATCACGAATCTGCC 58.517 41.667 0.00 0.00 0.00 4.85
8 9 6.619446 GCAACTATCCATTATCACGAATCTGC 60.619 42.308 0.00 0.00 0.00 4.26
9 10 6.128445 GGCAACTATCCATTATCACGAATCTG 60.128 42.308 0.00 0.00 0.00 2.90
10 11 5.934625 GGCAACTATCCATTATCACGAATCT 59.065 40.000 0.00 0.00 0.00 2.40
11 12 6.170675 GGCAACTATCCATTATCACGAATC 57.829 41.667 0.00 0.00 0.00 2.52
43 44 8.794553 CGGTCTATATAAAGAGAGAAAAGCCTA 58.205 37.037 0.00 0.00 0.00 3.93
44 45 7.256012 CCGGTCTATATAAAGAGAGAAAAGCCT 60.256 40.741 0.00 0.00 0.00 4.58
45 46 6.869388 CCGGTCTATATAAAGAGAGAAAAGCC 59.131 42.308 0.00 0.00 0.00 4.35
46 47 7.659186 TCCGGTCTATATAAAGAGAGAAAAGC 58.341 38.462 0.00 0.00 0.00 3.51
47 48 9.465985 GTTCCGGTCTATATAAAGAGAGAAAAG 57.534 37.037 0.00 0.00 0.00 2.27
48 49 8.133627 CGTTCCGGTCTATATAAAGAGAGAAAA 58.866 37.037 0.00 0.00 0.00 2.29
49 50 7.500227 TCGTTCCGGTCTATATAAAGAGAGAAA 59.500 37.037 0.00 0.00 0.00 2.52
50 51 6.994496 TCGTTCCGGTCTATATAAAGAGAGAA 59.006 38.462 0.00 0.00 0.00 2.87
51 52 6.528321 TCGTTCCGGTCTATATAAAGAGAGA 58.472 40.000 0.00 0.00 0.00 3.10
52 53 6.798315 TCGTTCCGGTCTATATAAAGAGAG 57.202 41.667 0.00 0.00 0.00 3.20
53 54 6.713903 ACATCGTTCCGGTCTATATAAAGAGA 59.286 38.462 0.00 0.00 0.00 3.10
54 55 6.910995 ACATCGTTCCGGTCTATATAAAGAG 58.089 40.000 0.00 0.00 0.00 2.85
55 56 6.889301 ACATCGTTCCGGTCTATATAAAGA 57.111 37.500 0.00 0.00 0.00 2.52
56 57 7.866393 AGAAACATCGTTCCGGTCTATATAAAG 59.134 37.037 0.00 0.00 0.00 1.85
57 58 7.719483 AGAAACATCGTTCCGGTCTATATAAA 58.281 34.615 0.00 0.00 0.00 1.40
58 59 7.281040 AGAAACATCGTTCCGGTCTATATAA 57.719 36.000 0.00 0.00 0.00 0.98
59 60 6.347969 CGAGAAACATCGTTCCGGTCTATATA 60.348 42.308 0.00 0.00 37.91 0.86
60 61 5.562307 CGAGAAACATCGTTCCGGTCTATAT 60.562 44.000 0.00 0.00 37.91 0.86
61 62 4.260907 CGAGAAACATCGTTCCGGTCTATA 60.261 45.833 0.00 0.00 37.91 1.31
62 63 3.488721 CGAGAAACATCGTTCCGGTCTAT 60.489 47.826 0.00 0.00 37.91 1.98
63 64 2.159476 CGAGAAACATCGTTCCGGTCTA 60.159 50.000 0.00 0.00 37.91 2.59
64 65 1.402456 CGAGAAACATCGTTCCGGTCT 60.402 52.381 0.00 0.00 37.91 3.85
65 66 0.989890 CGAGAAACATCGTTCCGGTC 59.010 55.000 0.00 0.00 37.91 4.79
66 67 0.389426 CCGAGAAACATCGTTCCGGT 60.389 55.000 0.00 0.00 41.12 5.28
67 68 1.693083 GCCGAGAAACATCGTTCCGG 61.693 60.000 0.00 0.00 41.12 5.14
68 69 1.693083 GGCCGAGAAACATCGTTCCG 61.693 60.000 0.00 0.00 41.12 4.30
69 70 0.391263 AGGCCGAGAAACATCGTTCC 60.391 55.000 0.00 0.00 41.12 3.62
70 71 1.439679 AAGGCCGAGAAACATCGTTC 58.560 50.000 0.00 0.00 41.12 3.95
71 72 1.804748 GAAAGGCCGAGAAACATCGTT 59.195 47.619 0.00 0.00 41.12 3.85
72 73 1.439679 GAAAGGCCGAGAAACATCGT 58.560 50.000 0.00 0.00 41.12 3.73
73 74 0.370273 CGAAAGGCCGAGAAACATCG 59.630 55.000 0.00 0.00 42.36 3.84
74 75 1.722011 TCGAAAGGCCGAGAAACATC 58.278 50.000 0.00 0.00 34.19 3.06
75 76 2.280628 GATCGAAAGGCCGAGAAACAT 58.719 47.619 0.00 0.00 42.21 2.71
76 77 1.001520 TGATCGAAAGGCCGAGAAACA 59.998 47.619 0.00 0.00 42.21 2.83
77 78 1.722011 TGATCGAAAGGCCGAGAAAC 58.278 50.000 0.00 0.00 42.21 2.78
78 79 2.465860 TTGATCGAAAGGCCGAGAAA 57.534 45.000 0.00 0.00 42.21 2.52
79 80 2.691409 ATTGATCGAAAGGCCGAGAA 57.309 45.000 0.00 0.00 42.21 2.87
80 81 2.223971 GGTATTGATCGAAAGGCCGAGA 60.224 50.000 0.00 0.00 42.21 4.04
81 82 2.135933 GGTATTGATCGAAAGGCCGAG 58.864 52.381 0.00 0.00 42.21 4.63
82 83 1.760613 AGGTATTGATCGAAAGGCCGA 59.239 47.619 0.00 0.00 43.16 5.54
83 84 2.135933 GAGGTATTGATCGAAAGGCCG 58.864 52.381 0.00 0.00 0.00 6.13
84 85 3.477210 AGAGGTATTGATCGAAAGGCC 57.523 47.619 0.00 0.00 0.00 5.19
85 86 4.025647 CGAAAGAGGTATTGATCGAAAGGC 60.026 45.833 0.00 0.00 32.38 4.35
86 87 5.109903 ACGAAAGAGGTATTGATCGAAAGG 58.890 41.667 0.00 0.00 34.62 3.11
87 88 6.310467 TGAACGAAAGAGGTATTGATCGAAAG 59.690 38.462 0.00 0.00 34.62 2.62
88 89 6.160684 TGAACGAAAGAGGTATTGATCGAAA 58.839 36.000 0.00 0.00 34.62 3.46
89 90 5.716094 TGAACGAAAGAGGTATTGATCGAA 58.284 37.500 0.00 0.00 34.62 3.71
90 91 5.319140 TGAACGAAAGAGGTATTGATCGA 57.681 39.130 0.00 0.00 34.62 3.59
91 92 4.504461 CCTGAACGAAAGAGGTATTGATCG 59.496 45.833 0.00 0.00 36.45 3.69
92 93 4.811557 CCCTGAACGAAAGAGGTATTGATC 59.188 45.833 0.00 0.00 0.00 2.92
93 94 4.384208 CCCCTGAACGAAAGAGGTATTGAT 60.384 45.833 0.00 0.00 0.00 2.57
94 95 3.055385 CCCCTGAACGAAAGAGGTATTGA 60.055 47.826 0.00 0.00 0.00 2.57
95 96 3.270877 CCCCTGAACGAAAGAGGTATTG 58.729 50.000 0.00 0.00 0.00 1.90
96 97 2.355818 GCCCCTGAACGAAAGAGGTATT 60.356 50.000 0.00 0.00 0.00 1.89
97 98 1.209747 GCCCCTGAACGAAAGAGGTAT 59.790 52.381 0.00 0.00 0.00 2.73
98 99 0.611714 GCCCCTGAACGAAAGAGGTA 59.388 55.000 0.00 0.00 0.00 3.08
99 100 1.128188 AGCCCCTGAACGAAAGAGGT 61.128 55.000 0.00 0.00 0.00 3.85
100 101 0.036875 AAGCCCCTGAACGAAAGAGG 59.963 55.000 0.00 0.00 0.00 3.69
101 102 2.742589 GTTAAGCCCCTGAACGAAAGAG 59.257 50.000 0.00 0.00 0.00 2.85
102 103 2.370849 AGTTAAGCCCCTGAACGAAAGA 59.629 45.455 0.00 0.00 0.00 2.52
103 104 2.779506 AGTTAAGCCCCTGAACGAAAG 58.220 47.619 0.00 0.00 0.00 2.62
104 105 2.943036 AGTTAAGCCCCTGAACGAAA 57.057 45.000 0.00 0.00 0.00 3.46
105 106 3.516300 TGATAGTTAAGCCCCTGAACGAA 59.484 43.478 0.00 0.00 0.00 3.85
106 107 3.101437 TGATAGTTAAGCCCCTGAACGA 58.899 45.455 0.00 0.00 0.00 3.85
107 108 3.536956 TGATAGTTAAGCCCCTGAACG 57.463 47.619 0.00 0.00 0.00 3.95
108 109 6.405842 CCAAAATGATAGTTAAGCCCCTGAAC 60.406 42.308 0.00 0.00 0.00 3.18
109 110 5.656416 CCAAAATGATAGTTAAGCCCCTGAA 59.344 40.000 0.00 0.00 0.00 3.02
110 111 5.200483 CCAAAATGATAGTTAAGCCCCTGA 58.800 41.667 0.00 0.00 0.00 3.86
111 112 4.342092 CCCAAAATGATAGTTAAGCCCCTG 59.658 45.833 0.00 0.00 0.00 4.45
112 113 4.016572 ACCCAAAATGATAGTTAAGCCCCT 60.017 41.667 0.00 0.00 0.00 4.79
113 114 4.099419 CACCCAAAATGATAGTTAAGCCCC 59.901 45.833 0.00 0.00 0.00 5.80
114 115 4.953579 TCACCCAAAATGATAGTTAAGCCC 59.046 41.667 0.00 0.00 0.00 5.19
115 116 6.152831 ACTTCACCCAAAATGATAGTTAAGCC 59.847 38.462 0.00 0.00 0.00 4.35
116 117 7.158099 ACTTCACCCAAAATGATAGTTAAGC 57.842 36.000 0.00 0.00 0.00 3.09
117 118 9.667107 TCTACTTCACCCAAAATGATAGTTAAG 57.333 33.333 0.00 0.00 0.00 1.85
127 128 5.566627 CGCCAAAATCTACTTCACCCAAAAT 60.567 40.000 0.00 0.00 0.00 1.82
144 145 2.459060 TTGTAGTCGGATCGCCAAAA 57.541 45.000 0.00 0.00 0.00 2.44
149 150 0.638746 CACGTTTGTAGTCGGATCGC 59.361 55.000 0.00 0.00 0.00 4.58
181 182 5.316987 AGTTGCTTTACTGATTGCTAAGGT 58.683 37.500 0.00 0.00 0.00 3.50
193 194 7.286775 TCAATAACCTTTTGGAGTTGCTTTACT 59.713 33.333 0.00 0.00 44.07 2.24
228 229 0.613260 TGGCTAGGTTGATCGTGCTT 59.387 50.000 0.00 0.00 0.00 3.91
243 244 3.950395 GCAAGAATTAGACCTTCATGGCT 59.050 43.478 0.00 0.00 40.22 4.75
244 245 3.696051 TGCAAGAATTAGACCTTCATGGC 59.304 43.478 0.00 0.00 40.22 4.40
248 249 2.742053 GCGTGCAAGAATTAGACCTTCA 59.258 45.455 2.99 0.00 0.00 3.02
262 263 3.550561 CTTATTCTTCGTTTGCGTGCAA 58.449 40.909 2.58 2.58 39.49 4.08
280 281 7.148188 CCAGATTGCAATCTTAGTTCTTGCTTA 60.148 37.037 34.17 0.00 42.96 3.09
330 334 9.533831 ACAGAACCCTAAACTTTCATCAATAAT 57.466 29.630 0.00 0.00 0.00 1.28
347 351 2.443255 ACCAAGACATTCACAGAACCCT 59.557 45.455 0.00 0.00 0.00 4.34
360 364 2.123589 TCCAAAGACCAGACCAAGACA 58.876 47.619 0.00 0.00 0.00 3.41
387 391 9.911138 TTGTCATAACTGTAAATACGTACTTCA 57.089 29.630 0.00 0.00 0.00 3.02
407 411 8.088365 GGCTTTGTTAGGATTAAAGTTTGTCAT 58.912 33.333 0.00 0.00 34.69 3.06
409 413 6.866770 GGGCTTTGTTAGGATTAAAGTTTGTC 59.133 38.462 0.00 0.00 34.69 3.18
410 414 6.325286 TGGGCTTTGTTAGGATTAAAGTTTGT 59.675 34.615 0.00 0.00 34.69 2.83
424 430 5.289083 AGCATTTTCTTTGGGCTTTGTTA 57.711 34.783 0.00 0.00 0.00 2.41
431 437 3.782889 ATCGTAGCATTTTCTTTGGGC 57.217 42.857 0.00 0.00 0.00 5.36
799 1544 5.163612 GCATATGGATCGTCTAGTATCTGCA 60.164 44.000 4.56 0.00 0.00 4.41
810 1555 1.344438 TGTCCTGGCATATGGATCGTC 59.656 52.381 4.56 0.00 34.58 4.20
1245 1990 3.822636 AAGGTCACGGACGAGGGGT 62.823 63.158 0.00 0.00 32.65 4.95
1366 2111 2.804931 TCATGACGTGCGAGCGTG 60.805 61.111 9.30 2.34 45.79 5.34
1376 2121 0.452184 ACGTAGGCTCTGTCATGACG 59.548 55.000 20.54 14.91 35.10 4.35
1384 2132 0.525668 CAAGGCGTACGTAGGCTCTG 60.526 60.000 31.98 25.33 44.05 3.35
1388 2136 1.447314 AAGCAAGGCGTACGTAGGC 60.447 57.895 27.57 27.57 36.43 3.93
1389 2137 1.693083 GCAAGCAAGGCGTACGTAGG 61.693 60.000 17.90 10.86 0.00 3.18
1392 2140 1.440938 TTTGCAAGCAAGGCGTACGT 61.441 50.000 17.90 0.00 37.24 3.57
1785 2533 5.971202 GCCCGTGATTCAAAAATGTGTATAG 59.029 40.000 0.00 0.00 0.00 1.31
1786 2534 5.163602 GGCCCGTGATTCAAAAATGTGTATA 60.164 40.000 0.00 0.00 0.00 1.47
1787 2535 4.381505 GGCCCGTGATTCAAAAATGTGTAT 60.382 41.667 0.00 0.00 0.00 2.29
1958 4506 1.065709 TGGGTAGATCGCCTGGTTTTC 60.066 52.381 8.83 0.00 0.00 2.29
1963 4511 1.140852 TGAAATGGGTAGATCGCCTGG 59.859 52.381 8.83 0.00 0.00 4.45
2024 4573 4.963276 TTTTCCGCCATTTCTCATGTAG 57.037 40.909 0.00 0.00 0.00 2.74
2065 4614 3.439857 TTTTTGCTGGAGATGTAGCCT 57.560 42.857 0.00 0.00 39.15 4.58
2089 4639 2.106511 AGACCTTGAGCAAGTTTGGCTA 59.893 45.455 9.18 0.00 42.78 3.93
2098 4648 2.880890 GCTCAAAGAAGACCTTGAGCAA 59.119 45.455 24.54 0.00 45.16 3.91
2113 4663 2.627945 ACAACTCGTCACAAGCTCAAA 58.372 42.857 0.00 0.00 0.00 2.69
2214 6279 7.493499 AATGATTGGTGGGACATGAAAATTA 57.507 32.000 0.00 0.00 44.52 1.40
2241 6306 5.867716 GGACGACACATACATTTGTACTTCT 59.132 40.000 0.00 0.00 32.72 2.85
2243 6308 5.790593 AGGACGACACATACATTTGTACTT 58.209 37.500 0.00 0.00 32.72 2.24
2248 6313 6.423905 CCCTTATAGGACGACACATACATTTG 59.576 42.308 0.00 0.00 37.67 2.32
2252 6317 4.795469 TCCCTTATAGGACGACACATACA 58.205 43.478 0.00 0.00 37.67 2.29
2258 6323 5.803795 GCTCTCTATCCCTTATAGGACGACA 60.804 48.000 0.00 0.00 39.24 4.35
2266 6331 6.382087 TCAACTTGGCTCTCTATCCCTTATA 58.618 40.000 0.00 0.00 0.00 0.98
2305 6370 4.260172 CGTGAATGTTTTTCTGTTTTGGCC 60.260 41.667 0.00 0.00 0.00 5.36
2309 6374 3.000177 GCGCGTGAATGTTTTTCTGTTTT 60.000 39.130 8.43 0.00 0.00 2.43
2313 6378 0.697010 CGCGCGTGAATGTTTTTCTG 59.303 50.000 24.19 0.00 0.00 3.02
2342 6407 2.941064 CTGACCGGTTACGAGACAGATA 59.059 50.000 9.42 0.00 44.60 1.98
2345 6410 0.170561 CCTGACCGGTTACGAGACAG 59.829 60.000 9.42 9.55 44.60 3.51
2365 6430 2.362077 ACGACAAGATTTGCAAGCCTTT 59.638 40.909 11.27 5.49 0.00 3.11
2368 6433 1.266718 TCACGACAAGATTTGCAAGCC 59.733 47.619 0.00 0.00 0.00 4.35
2381 6446 3.531934 TCCGTAGATAGACTCACGACA 57.468 47.619 0.00 0.00 36.53 4.35
2387 6452 3.612955 GCTTGCCATCCGTAGATAGACTC 60.613 52.174 0.00 0.00 0.00 3.36
2398 6463 2.109799 AGATCGGCTTGCCATCCG 59.890 61.111 12.45 0.00 46.52 4.18
2431 6496 2.106338 TCATGTGGCTTCTTCTTCACCA 59.894 45.455 0.00 0.00 0.00 4.17
2492 6557 3.698040 TGTATCCTCCGTGAAGTACTTCC 59.302 47.826 28.43 19.49 38.77 3.46
2493 6558 4.978083 TGTATCCTCCGTGAAGTACTTC 57.022 45.455 25.73 25.73 39.91 3.01
2494 6559 4.036498 CGATGTATCCTCCGTGAAGTACTT 59.964 45.833 8.13 8.13 0.00 2.24
2495 6560 3.564644 CGATGTATCCTCCGTGAAGTACT 59.435 47.826 0.00 0.00 0.00 2.73
2496 6561 3.852572 GCGATGTATCCTCCGTGAAGTAC 60.853 52.174 0.00 0.00 0.00 2.73
2497 6562 2.292569 GCGATGTATCCTCCGTGAAGTA 59.707 50.000 0.00 0.00 0.00 2.24
2498 6563 1.067212 GCGATGTATCCTCCGTGAAGT 59.933 52.381 0.00 0.00 0.00 3.01
2499 6564 1.338337 AGCGATGTATCCTCCGTGAAG 59.662 52.381 0.00 0.00 0.00 3.02
2500 6565 1.067060 CAGCGATGTATCCTCCGTGAA 59.933 52.381 0.00 0.00 0.00 3.18
2501 6566 0.668535 CAGCGATGTATCCTCCGTGA 59.331 55.000 0.00 0.00 0.00 4.35
2502 6567 0.668535 TCAGCGATGTATCCTCCGTG 59.331 55.000 0.00 0.00 0.00 4.94
2503 6568 1.067212 GTTCAGCGATGTATCCTCCGT 59.933 52.381 0.00 0.00 0.00 4.69
2504 6569 1.772182 GTTCAGCGATGTATCCTCCG 58.228 55.000 0.00 0.00 0.00 4.63
2505 6570 1.337071 TCGTTCAGCGATGTATCCTCC 59.663 52.381 0.00 0.00 45.68 4.30
2506 6571 2.776312 TCGTTCAGCGATGTATCCTC 57.224 50.000 0.00 0.00 45.68 3.71
2516 6581 2.022129 GTCCCAGTGTCGTTCAGCG 61.022 63.158 0.00 0.00 43.01 5.18
2517 6582 2.022129 CGTCCCAGTGTCGTTCAGC 61.022 63.158 0.00 0.00 0.00 4.26
2518 6583 0.243907 ATCGTCCCAGTGTCGTTCAG 59.756 55.000 0.00 0.00 0.00 3.02
2519 6584 0.038618 CATCGTCCCAGTGTCGTTCA 60.039 55.000 0.00 0.00 0.00 3.18
2520 6585 0.736325 CCATCGTCCCAGTGTCGTTC 60.736 60.000 0.00 0.00 0.00 3.95
2521 6586 1.292223 CCATCGTCCCAGTGTCGTT 59.708 57.895 0.00 0.00 0.00 3.85
2522 6587 2.970639 CCATCGTCCCAGTGTCGT 59.029 61.111 0.00 0.00 0.00 4.34
2523 6588 1.663379 TAGCCATCGTCCCAGTGTCG 61.663 60.000 0.00 0.00 0.00 4.35
2524 6589 0.535335 TTAGCCATCGTCCCAGTGTC 59.465 55.000 0.00 0.00 0.00 3.67
2525 6590 1.139058 GATTAGCCATCGTCCCAGTGT 59.861 52.381 0.00 0.00 0.00 3.55
2526 6591 1.541233 GGATTAGCCATCGTCCCAGTG 60.541 57.143 0.00 0.00 36.34 3.66
2527 6592 0.759346 GGATTAGCCATCGTCCCAGT 59.241 55.000 0.00 0.00 36.34 4.00
2528 6593 0.758734 TGGATTAGCCATCGTCCCAG 59.241 55.000 0.00 0.00 43.33 4.45
2529 6594 2.923619 TGGATTAGCCATCGTCCCA 58.076 52.632 0.00 0.00 43.33 4.37
2540 6605 4.000988 ACAACAACTAACGGCTGGATTAG 58.999 43.478 0.00 0.00 35.03 1.73
2541 6606 4.010667 ACAACAACTAACGGCTGGATTA 57.989 40.909 0.00 0.00 0.00 1.75
2542 6607 2.858745 ACAACAACTAACGGCTGGATT 58.141 42.857 0.00 0.00 0.00 3.01
2543 6608 2.561478 ACAACAACTAACGGCTGGAT 57.439 45.000 0.00 0.00 0.00 3.41
2544 6609 2.335316 AACAACAACTAACGGCTGGA 57.665 45.000 0.00 0.00 0.00 3.86
2545 6610 2.356382 TGAAACAACAACTAACGGCTGG 59.644 45.455 0.00 0.00 0.00 4.85
2546 6611 3.359654 GTGAAACAACAACTAACGGCTG 58.640 45.455 0.00 0.00 36.32 4.85
2547 6612 3.685836 GTGAAACAACAACTAACGGCT 57.314 42.857 0.00 0.00 36.32 5.52
2561 6626 3.129287 CCATCCATAGGCAAGTGTGAAAC 59.871 47.826 0.00 0.00 37.35 2.78
2562 6627 3.245229 ACCATCCATAGGCAAGTGTGAAA 60.245 43.478 0.00 0.00 0.00 2.69
2563 6628 2.308570 ACCATCCATAGGCAAGTGTGAA 59.691 45.455 0.00 0.00 0.00 3.18
2564 6629 1.915489 ACCATCCATAGGCAAGTGTGA 59.085 47.619 0.00 0.00 0.00 3.58
2565 6630 2.019249 CACCATCCATAGGCAAGTGTG 58.981 52.381 0.00 0.00 0.00 3.82
2566 6631 1.635487 ACACCATCCATAGGCAAGTGT 59.365 47.619 0.00 0.00 32.42 3.55
2567 6632 2.019249 CACACCATCCATAGGCAAGTG 58.981 52.381 0.00 0.00 0.00 3.16
2568 6633 1.064463 CCACACCATCCATAGGCAAGT 60.064 52.381 0.00 0.00 0.00 3.16
2569 6634 1.064463 ACCACACCATCCATAGGCAAG 60.064 52.381 0.00 0.00 0.00 4.01
2570 6635 0.998928 ACCACACCATCCATAGGCAA 59.001 50.000 0.00 0.00 0.00 4.52
2571 6636 1.768275 CTACCACACCATCCATAGGCA 59.232 52.381 0.00 0.00 0.00 4.75
2572 6637 2.047061 TCTACCACACCATCCATAGGC 58.953 52.381 0.00 0.00 0.00 3.93
2573 6638 3.038280 TGTCTACCACACCATCCATAGG 58.962 50.000 0.00 0.00 0.00 2.57
2574 6639 4.101585 ACATGTCTACCACACCATCCATAG 59.898 45.833 0.00 0.00 38.04 2.23
2575 6640 4.037222 ACATGTCTACCACACCATCCATA 58.963 43.478 0.00 0.00 38.04 2.74
2584 6649 0.676736 TGCACGACATGTCTACCACA 59.323 50.000 22.95 11.18 40.18 4.17
2595 6660 1.470890 TCAGACGATACATGCACGACA 59.529 47.619 12.34 0.00 0.00 4.35
2596 6661 2.188837 TCAGACGATACATGCACGAC 57.811 50.000 12.34 7.27 0.00 4.34
2597 6662 2.357637 TCATCAGACGATACATGCACGA 59.642 45.455 12.34 0.00 0.00 4.35
2598 6663 2.731217 TCATCAGACGATACATGCACG 58.269 47.619 0.00 0.00 0.00 5.34
2599 6664 4.509230 ACATTCATCAGACGATACATGCAC 59.491 41.667 0.00 0.00 0.00 4.57
2600 6665 4.696455 ACATTCATCAGACGATACATGCA 58.304 39.130 0.00 0.00 0.00 3.96
2602 6667 4.978580 ACGACATTCATCAGACGATACATG 59.021 41.667 0.00 0.00 0.00 3.21
2603 6668 5.188327 ACGACATTCATCAGACGATACAT 57.812 39.130 0.00 0.00 0.00 2.29
2604 6669 4.497507 GGACGACATTCATCAGACGATACA 60.498 45.833 0.00 0.00 0.00 2.29
2605 6670 3.975670 GGACGACATTCATCAGACGATAC 59.024 47.826 0.00 0.00 0.00 2.24
2606 6671 3.630312 TGGACGACATTCATCAGACGATA 59.370 43.478 0.00 0.00 0.00 2.92
2608 6673 1.816224 TGGACGACATTCATCAGACGA 59.184 47.619 0.00 0.00 0.00 4.20
2609 6674 2.278026 TGGACGACATTCATCAGACG 57.722 50.000 0.00 0.00 0.00 4.18
2610 6675 3.525537 ACATGGACGACATTCATCAGAC 58.474 45.455 0.00 0.00 37.84 3.51
2612 6677 3.492383 GCTACATGGACGACATTCATCAG 59.508 47.826 0.00 0.00 37.84 2.90
2613 6678 3.457234 GCTACATGGACGACATTCATCA 58.543 45.455 0.00 0.00 37.84 3.07
2614 6679 2.472861 CGCTACATGGACGACATTCATC 59.527 50.000 0.00 0.00 37.84 2.92
2615 6680 2.473816 CGCTACATGGACGACATTCAT 58.526 47.619 0.00 0.00 37.84 2.57
2616 6681 1.470805 CCGCTACATGGACGACATTCA 60.471 52.381 0.00 0.00 37.84 2.57
2618 6683 0.535335 ACCGCTACATGGACGACATT 59.465 50.000 0.00 0.00 37.84 2.71
2619 6684 0.179111 CACCGCTACATGGACGACAT 60.179 55.000 0.00 0.00 41.57 3.06
2620 6685 1.214325 CACCGCTACATGGACGACA 59.786 57.895 0.00 0.00 0.00 4.35


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

AutoCloner maintained by Alex Coulton.