Multiple sequence alignment - TraesCS6D01G060300

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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 TraesCS6D01G060300 chr6D 100.000 2300 0 0 1 2300 28268392 28270691 0.000000e+00 4248.0
1 TraesCS6D01G060300 chr6D 83.694 509 55 16 861 1348 28028629 28028128 2.690000e-124 455.0
2 TraesCS6D01G060300 chr6D 90.688 247 19 1 2058 2300 27998675 27998429 2.200000e-85 326.0
3 TraesCS6D01G060300 chr6D 82.869 251 23 8 2053 2299 28005782 28005548 8.330000e-50 207.0
4 TraesCS6D01G060300 chr6D 94.444 72 4 0 5 76 455577280 455577209 6.720000e-21 111.0
5 TraesCS6D01G060300 chr6D 97.561 41 1 0 2002 2042 27998705 27998665 1.140000e-08 71.3
6 TraesCS6D01G060300 chr6B 88.906 658 50 17 661 1300 52060262 52059610 0.000000e+00 789.0
7 TraesCS6D01G060300 chr6B 87.926 646 54 16 670 1300 52151762 52152398 0.000000e+00 739.0
8 TraesCS6D01G060300 chr6B 86.924 673 55 13 672 1337 52155602 52156248 0.000000e+00 725.0
9 TraesCS6D01G060300 chr6B 91.374 313 21 4 1055 1366 51962009 51961702 7.600000e-115 424.0
10 TraesCS6D01G060300 chr6B 84.142 309 38 4 2002 2299 52167625 52167933 2.890000e-74 289.0
11 TraesCS6D01G060300 chr6B 89.252 214 13 4 2002 2205 51961013 51960800 2.270000e-65 259.0
12 TraesCS6D01G060300 chr6B 85.771 253 25 9 1454 1705 51964509 51964267 8.150000e-65 257.0
13 TraesCS6D01G060300 chr6B 88.532 218 15 4 2002 2209 51930477 51930260 2.930000e-64 255.0
14 TraesCS6D01G060300 chr6B 85.398 226 16 7 730 943 52024591 52024371 3.850000e-53 219.0
15 TraesCS6D01G060300 chr6B 87.730 163 17 1 1454 1613 52205004 52205166 1.080000e-43 187.0
16 TraesCS6D01G060300 chr6B 85.890 163 13 5 1454 1612 52156264 52156420 5.080000e-37 165.0
17 TraesCS6D01G060300 chr6B 91.597 119 5 2 696 814 51962130 51962017 2.370000e-35 159.0
18 TraesCS6D01G060300 chr6B 85.315 143 20 1 75 216 52061431 52061289 1.840000e-31 147.0
19 TraesCS6D01G060300 chr6B 92.308 78 6 0 1536 1613 51961591 51961514 6.720000e-21 111.0
20 TraesCS6D01G060300 chr6B 95.588 68 3 0 1383 1450 152796935 152797002 2.420000e-20 110.0
21 TraesCS6D01G060300 chr6B 90.789 76 7 0 976 1051 52019336 52019261 4.040000e-18 102.0
22 TraesCS6D01G060300 chr6A 86.022 744 83 15 583 1310 29808679 29809417 0.000000e+00 778.0
23 TraesCS6D01G060300 chr6A 86.873 518 52 12 795 1300 29693143 29692630 1.190000e-157 566.0
24 TraesCS6D01G060300 chr6A 82.659 519 53 23 853 1337 29795622 29796137 2.110000e-115 425.0
25 TraesCS6D01G060300 chr6A 89.947 189 19 0 1631 1819 29796426 29796614 6.350000e-61 244.0
26 TraesCS6D01G060300 chr6A 87.195 164 11 7 1454 1613 29796153 29796310 6.530000e-41 178.0
27 TraesCS6D01G060300 chrUn 87.087 333 37 3 972 1300 71734362 71734692 2.790000e-99 372.0
28 TraesCS6D01G060300 chrUn 88.532 218 15 4 2002 2209 233563770 233563987 2.930000e-64 255.0
29 TraesCS6D01G060300 chrUn 92.593 81 4 2 1383 1462 87981747 87981826 5.190000e-22 115.0
30 TraesCS6D01G060300 chr2D 94.737 76 3 1 1 75 323750456 323750381 1.440000e-22 117.0
31 TraesCS6D01G060300 chr1B 91.765 85 5 2 1383 1466 625574892 625574975 1.440000e-22 117.0
32 TraesCS6D01G060300 chr1B 91.566 83 5 2 1383 1464 308586739 308586658 1.870000e-21 113.0
33 TraesCS6D01G060300 chr5B 91.667 84 5 2 1383 1465 703263481 703263399 5.190000e-22 115.0
34 TraesCS6D01G060300 chr5B 95.588 68 3 0 1383 1450 19358942 19359009 2.420000e-20 110.0
35 TraesCS6D01G060300 chr2B 93.590 78 3 2 1383 1459 792481613 792481537 5.190000e-22 115.0
36 TraesCS6D01G060300 chr2B 89.130 92 4 5 1383 1469 627266535 627266445 2.420000e-20 110.0
37 TraesCS6D01G060300 chr7D 93.421 76 5 0 2 77 51790776 51790851 1.870000e-21 113.0
38 TraesCS6D01G060300 chr7D 94.366 71 4 0 5 75 5303240 5303170 2.420000e-20 110.0
39 TraesCS6D01G060300 chr3A 91.566 83 6 1 2 84 210579232 210579313 1.870000e-21 113.0
40 TraesCS6D01G060300 chr7B 89.130 92 4 5 1383 1469 86512245 86512155 2.420000e-20 110.0
41 TraesCS6D01G060300 chr3D 92.208 77 6 0 1 77 604232051 604231975 2.420000e-20 110.0
42 TraesCS6D01G060300 chr1D 94.366 71 4 0 2 72 303200053 303200123 2.420000e-20 110.0
43 TraesCS6D01G060300 chr4D 94.286 70 4 0 5 74 269076783 269076714 8.690000e-20 108.0
44 TraesCS6D01G060300 chr1A 93.151 73 5 0 2 74 20159142 20159214 8.690000e-20 108.0
45 TraesCS6D01G060300 chr1A 94.643 56 3 0 730 785 576897564 576897509 1.130000e-13 87.9


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS6D01G060300 chr6D 28268392 28270691 2299 False 4248.000000 4248 100.000000 1 2300 1 chr6D.!!$F1 2299
1 TraesCS6D01G060300 chr6D 28028128 28028629 501 True 455.000000 455 83.694000 861 1348 1 chr6D.!!$R2 487
2 TraesCS6D01G060300 chr6B 52151762 52156420 4658 False 543.000000 739 86.913333 670 1612 3 chr6B.!!$F4 942
3 TraesCS6D01G060300 chr6B 52059610 52061431 1821 True 468.000000 789 87.110500 75 1300 2 chr6B.!!$R5 1225
4 TraesCS6D01G060300 chr6B 51960800 51964509 3709 True 242.000000 424 90.060400 696 2205 5 chr6B.!!$R4 1509
5 TraesCS6D01G060300 chr6A 29808679 29809417 738 False 778.000000 778 86.022000 583 1310 1 chr6A.!!$F1 727
6 TraesCS6D01G060300 chr6A 29692630 29693143 513 True 566.000000 566 86.873000 795 1300 1 chr6A.!!$R1 505
7 TraesCS6D01G060300 chr6A 29795622 29796614 992 False 282.333333 425 86.600333 853 1819 3 chr6A.!!$F2 966

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
67 68 0.034186 CACCTAGGAGCCATTGCCAA 60.034 55.0 17.98 0.0 38.69 4.52 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1852 7589 0.744771 GCGAGGGGGAATCAGTGTTC 60.745 60.0 0.0 0.0 0.0 3.18 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
41 42 9.311916 CCAAAATATGTATTTACACAATGGGTG 57.688 33.333 0.00 0.00 42.71 4.61
42 43 8.816144 CAAAATATGTATTTACACAATGGGTGC 58.184 33.333 0.00 0.00 41.74 5.01
59 60 3.239861 GCATATGCACCTAGGAGCC 57.760 57.895 25.94 8.49 41.59 4.70
60 61 0.397941 GCATATGCACCTAGGAGCCA 59.602 55.000 25.94 15.42 41.59 4.75
61 62 1.004044 GCATATGCACCTAGGAGCCAT 59.996 52.381 25.94 20.24 41.59 4.40
63 64 2.936919 TATGCACCTAGGAGCCATTG 57.063 50.000 25.94 9.40 0.00 2.82
64 65 0.466922 ATGCACCTAGGAGCCATTGC 60.467 55.000 25.94 18.71 37.95 3.56
65 66 1.825622 GCACCTAGGAGCCATTGCC 60.826 63.158 19.57 0.00 38.69 4.52
66 67 1.609239 CACCTAGGAGCCATTGCCA 59.391 57.895 17.98 0.00 38.69 4.92
67 68 0.034186 CACCTAGGAGCCATTGCCAA 60.034 55.000 17.98 0.00 38.69 4.52
69 70 1.288932 ACCTAGGAGCCATTGCCAATT 59.711 47.619 17.98 0.00 38.69 2.32
70 71 2.292455 ACCTAGGAGCCATTGCCAATTT 60.292 45.455 17.98 0.00 38.69 1.82
71 72 2.363359 CCTAGGAGCCATTGCCAATTTC 59.637 50.000 1.05 0.00 38.69 2.17
72 73 1.197812 AGGAGCCATTGCCAATTTCC 58.802 50.000 4.85 4.85 38.69 3.13
73 74 0.179103 GGAGCCATTGCCAATTTCCG 60.179 55.000 0.00 0.00 38.69 4.30
111 112 0.536724 CAAGCCACCCCATTTTAGGC 59.463 55.000 0.00 0.00 45.54 3.93
113 114 2.201927 GCCACCCCATTTTAGGCTG 58.798 57.895 0.00 0.00 42.01 4.85
114 115 1.960040 GCCACCCCATTTTAGGCTGC 61.960 60.000 0.00 0.00 42.01 5.25
116 117 1.064017 CCACCCCATTTTAGGCTGCTA 60.064 52.381 0.00 0.00 0.00 3.49
120 121 3.980698 ACCCCATTTTAGGCTGCTATCTA 59.019 43.478 0.00 0.00 0.00 1.98
131 132 3.309954 GGCTGCTATCTAGTTTTTCACCG 59.690 47.826 0.00 0.00 0.00 4.94
139 140 3.644738 TCTAGTTTTTCACCGGTCTTCCT 59.355 43.478 2.59 0.00 0.00 3.36
140 141 2.572290 AGTTTTTCACCGGTCTTCCTG 58.428 47.619 2.59 0.00 0.00 3.86
149 150 2.701951 ACCGGTCTTCCTGTCAGTTTTA 59.298 45.455 0.00 0.00 0.00 1.52
150 151 3.326880 ACCGGTCTTCCTGTCAGTTTTAT 59.673 43.478 0.00 0.00 0.00 1.40
155 156 6.371389 GGTCTTCCTGTCAGTTTTATTTTCG 58.629 40.000 0.00 0.00 0.00 3.46
156 157 6.371389 GTCTTCCTGTCAGTTTTATTTTCGG 58.629 40.000 0.00 0.00 0.00 4.30
166 168 9.458374 GTCAGTTTTATTTTCGGAGAAAATGAA 57.542 29.630 23.24 19.69 45.90 2.57
177 179 6.812998 TCGGAGAAAATGAATTAGTATCGGT 58.187 36.000 0.00 0.00 0.00 4.69
180 182 6.990349 GGAGAAAATGAATTAGTATCGGTGGA 59.010 38.462 0.00 0.00 0.00 4.02
222 224 9.787435 AGACCTGTGTATATTTAAAACTGTTCA 57.213 29.630 0.00 0.00 0.00 3.18
240 242 9.829507 AACTGTTCATATTTTTCACAAAATCCA 57.170 25.926 0.00 0.00 41.00 3.41
433 440 4.304939 ACAAAAACCCGAACAAACGAAAA 58.695 34.783 0.00 0.00 35.09 2.29
484 492 4.097286 TCACTGGAAAACCGAAAGAAAAGG 59.903 41.667 0.00 0.00 0.00 3.11
489 497 5.047235 TGGAAAACCGAAAGAAAAGGAACAA 60.047 36.000 0.00 0.00 0.00 2.83
501 509 2.851263 AGGAACAACTACATTGGCGA 57.149 45.000 0.00 0.00 43.20 5.54
502 510 2.423577 AGGAACAACTACATTGGCGAC 58.576 47.619 0.00 0.00 43.20 5.19
507 1171 3.262420 ACAACTACATTGGCGACTCATC 58.738 45.455 0.00 0.00 43.20 2.92
510 1174 4.308899 ACTACATTGGCGACTCATCTAC 57.691 45.455 0.00 0.00 0.00 2.59
518 1182 3.380637 TGGCGACTCATCTACTTAGGAAC 59.619 47.826 0.00 0.00 0.00 3.62
522 1186 4.515944 CGACTCATCTACTTAGGAACGGAT 59.484 45.833 0.00 0.00 0.00 4.18
529 1193 5.374921 TCTACTTAGGAACGGATGGAGTAG 58.625 45.833 0.00 0.00 37.51 2.57
530 1194 2.694109 ACTTAGGAACGGATGGAGTAGC 59.306 50.000 0.00 0.00 0.00 3.58
534 1198 1.066430 GGAACGGATGGAGTAGCACAA 60.066 52.381 0.00 0.00 0.00 3.33
536 1200 2.386661 ACGGATGGAGTAGCACAAAG 57.613 50.000 0.00 0.00 0.00 2.77
537 1201 1.009829 CGGATGGAGTAGCACAAAGC 58.990 55.000 0.00 0.00 46.19 3.51
547 1211 2.568090 CACAAAGCCGCATCACCC 59.432 61.111 0.00 0.00 0.00 4.61
548 1212 2.676471 ACAAAGCCGCATCACCCC 60.676 61.111 0.00 0.00 0.00 4.95
549 1213 3.814268 CAAAGCCGCATCACCCCG 61.814 66.667 0.00 0.00 0.00 5.73
550 1214 4.028490 AAAGCCGCATCACCCCGA 62.028 61.111 0.00 0.00 0.00 5.14
551 1215 4.778143 AAGCCGCATCACCCCGAC 62.778 66.667 0.00 0.00 0.00 4.79
554 1218 4.444838 CCGCATCACCCCGACGAA 62.445 66.667 0.00 0.00 0.00 3.85
557 1221 0.528901 CGCATCACCCCGACGAATTA 60.529 55.000 0.00 0.00 0.00 1.40
566 1230 2.454055 CCCGACGAATTAACGTACTCC 58.546 52.381 0.00 0.00 46.52 3.85
567 1231 2.454055 CCGACGAATTAACGTACTCCC 58.546 52.381 0.00 0.00 46.52 4.30
568 1232 2.098117 CCGACGAATTAACGTACTCCCT 59.902 50.000 0.00 0.00 46.52 4.20
572 1236 5.138125 ACGAATTAACGTACTCCCTTCAA 57.862 39.130 0.00 0.00 44.72 2.69
573 1237 5.727434 ACGAATTAACGTACTCCCTTCAAT 58.273 37.500 0.00 0.00 44.72 2.57
574 1238 6.168389 ACGAATTAACGTACTCCCTTCAATT 58.832 36.000 0.00 0.00 44.72 2.32
576 1240 6.311935 CGAATTAACGTACTCCCTTCAATTCA 59.688 38.462 0.00 0.00 33.03 2.57
578 1242 9.321562 GAATTAACGTACTCCCTTCAATTCATA 57.678 33.333 0.00 0.00 33.46 2.15
580 1244 9.847224 ATTAACGTACTCCCTTCAATTCATATT 57.153 29.630 0.00 0.00 0.00 1.28
622 1288 5.330233 TCTAGTACAACTGATGTGAGGGAA 58.670 41.667 0.34 0.00 43.77 3.97
623 1289 5.958380 TCTAGTACAACTGATGTGAGGGAAT 59.042 40.000 0.34 0.00 43.77 3.01
657 1330 6.662865 TTTTATTGACAGGGATCTTTGCAA 57.337 33.333 0.00 0.00 0.00 4.08
690 1365 6.161381 ACTAATAATTACTACGCCCGGAATG 58.839 40.000 0.73 0.00 0.00 2.67
709 2394 4.451150 GAGCCCATCGTCCACGCA 62.451 66.667 0.00 0.00 39.60 5.24
791 2476 3.671008 TTCCAAACTCGCTTACTGCTA 57.329 42.857 0.00 0.00 40.11 3.49
820 2505 1.782023 CGTCGCGTTTCCGAAATCAAG 60.782 52.381 5.77 0.00 39.17 3.02
824 2511 2.096417 CGCGTTTCCGAAATCAAGAACT 60.096 45.455 0.00 0.00 35.63 3.01
922 2624 3.457012 TCATCATCAGGACATCACCACAT 59.543 43.478 0.00 0.00 0.00 3.21
953 2672 6.101332 CCATCATCAAACCATTAACACCTTG 58.899 40.000 0.00 0.00 0.00 3.61
985 2712 0.459585 ATAGCTACGCAACACCCACG 60.460 55.000 0.00 0.00 0.00 4.94
1074 2825 0.175989 GCGACGGAGGGAAGAAGATT 59.824 55.000 0.00 0.00 0.00 2.40
1077 2828 3.669354 CGGAGGGAAGAAGATTCCG 57.331 57.895 0.79 0.00 43.90 4.30
1119 2870 2.444895 GTGGGCGAGGAGGGAGAT 60.445 66.667 0.00 0.00 0.00 2.75
1172 2923 3.136123 CAAGGAGCCGTGCATGGG 61.136 66.667 26.22 14.43 0.00 4.00
1312 6877 4.995536 AGCCACGTAGGATAGGTATTAGT 58.004 43.478 8.04 0.00 37.63 2.24
1364 6932 1.362717 CGCGTACCGGGAGAATCAT 59.637 57.895 6.32 0.00 42.31 2.45
1365 6933 0.594602 CGCGTACCGGGAGAATCATA 59.405 55.000 6.32 0.00 42.31 2.15
1366 6934 1.665161 CGCGTACCGGGAGAATCATAC 60.665 57.143 6.32 0.00 42.31 2.39
1367 6935 1.612463 GCGTACCGGGAGAATCATACT 59.388 52.381 6.32 0.00 36.25 2.12
1368 6936 2.816087 GCGTACCGGGAGAATCATACTA 59.184 50.000 6.32 0.00 36.25 1.82
1369 6937 3.365767 GCGTACCGGGAGAATCATACTAC 60.366 52.174 6.32 0.00 36.25 2.73
1370 6938 4.070716 CGTACCGGGAGAATCATACTACT 58.929 47.826 6.32 0.00 36.25 2.57
1371 6939 4.153835 CGTACCGGGAGAATCATACTACTC 59.846 50.000 6.32 0.00 36.25 2.59
1372 6940 4.456662 ACCGGGAGAATCATACTACTCT 57.543 45.455 6.32 0.00 36.25 3.24
1373 6941 4.400120 ACCGGGAGAATCATACTACTCTC 58.600 47.826 6.32 0.00 36.25 3.20
1374 6942 4.105057 ACCGGGAGAATCATACTACTCTCT 59.895 45.833 6.32 0.00 36.25 3.10
1375 6943 4.698304 CCGGGAGAATCATACTACTCTCTC 59.302 50.000 0.00 0.00 36.25 3.20
1376 6944 5.309638 CGGGAGAATCATACTACTCTCTCA 58.690 45.833 0.00 0.00 35.50 3.27
1377 6945 5.943416 CGGGAGAATCATACTACTCTCTCAT 59.057 44.000 0.00 0.00 35.50 2.90
1378 6946 6.432783 CGGGAGAATCATACTACTCTCTCATT 59.567 42.308 0.00 0.00 35.50 2.57
1379 6947 7.608376 CGGGAGAATCATACTACTCTCTCATTA 59.392 40.741 0.00 0.00 35.50 1.90
1380 6948 8.956426 GGGAGAATCATACTACTCTCTCATTAG 58.044 40.741 0.00 0.00 35.78 1.73
1381 6949 9.515226 GGAGAATCATACTACTCTCTCATTAGT 57.485 37.037 0.00 0.00 36.25 2.24
1422 6990 8.772250 AGTTCCAGATACATCTCTTTTTATCCA 58.228 33.333 0.00 0.00 34.22 3.41
1423 6991 9.566432 GTTCCAGATACATCTCTTTTTATCCAT 57.434 33.333 0.00 0.00 34.22 3.41
1436 7004 9.918630 CTCTTTTTATCCATTTTGATGACAAGT 57.081 29.630 0.00 0.00 37.32 3.16
1443 7011 8.915871 ATCCATTTTGATGACAAGTATTTTCG 57.084 30.769 0.00 0.00 37.32 3.46
1444 7012 7.312154 TCCATTTTGATGACAAGTATTTTCGG 58.688 34.615 0.00 0.00 37.32 4.30
1445 7013 7.175816 TCCATTTTGATGACAAGTATTTTCGGA 59.824 33.333 0.00 0.00 37.32 4.55
1446 7014 7.273381 CCATTTTGATGACAAGTATTTTCGGAC 59.727 37.037 0.00 0.00 37.32 4.79
1447 7015 5.524511 TTGATGACAAGTATTTTCGGACG 57.475 39.130 0.00 0.00 0.00 4.79
1448 7016 3.930229 TGATGACAAGTATTTTCGGACGG 59.070 43.478 0.00 0.00 0.00 4.79
1449 7017 3.663995 TGACAAGTATTTTCGGACGGA 57.336 42.857 0.00 0.00 0.00 4.69
1450 7018 4.196626 TGACAAGTATTTTCGGACGGAT 57.803 40.909 0.00 0.00 0.00 4.18
1451 7019 3.930229 TGACAAGTATTTTCGGACGGATG 59.070 43.478 0.00 0.00 0.00 3.51
1452 7020 3.267483 ACAAGTATTTTCGGACGGATGG 58.733 45.455 0.00 0.00 0.00 3.51
1463 7031 2.159014 CGGACGGATGGTAGATTGGAAA 60.159 50.000 0.00 0.00 0.00 3.13
1521 7093 7.919313 AATGCGCATGTTTTCTAGATTTATG 57.081 32.000 26.09 0.00 0.00 1.90
1542 7114 5.201713 TGTAGTCAGAGAAGGAACAGTTG 57.798 43.478 0.00 0.00 0.00 3.16
1556 7158 3.781079 ACAGTTGGTGTTGATTGTGTG 57.219 42.857 0.00 0.00 34.94 3.82
1557 7159 2.159254 ACAGTTGGTGTTGATTGTGTGC 60.159 45.455 0.00 0.00 34.94 4.57
1584 7186 5.545335 TCCATATAACTCATGGACAGCAGAT 59.455 40.000 0.00 0.00 45.57 2.90
1585 7187 6.043590 TCCATATAACTCATGGACAGCAGATT 59.956 38.462 0.00 0.00 45.57 2.40
1621 7225 4.728534 GCGAGGAGCTTCTACTATGTATG 58.271 47.826 0.00 0.00 44.04 2.39
1625 7229 6.651643 CGAGGAGCTTCTACTATGTATGTACT 59.348 42.308 0.00 0.00 0.00 2.73
1626 7230 7.818446 CGAGGAGCTTCTACTATGTATGTACTA 59.182 40.741 0.00 0.00 0.00 1.82
1653 7367 0.927537 GTTTTGCTTGCGTTGAACCC 59.072 50.000 0.00 0.00 0.00 4.11
1671 7385 9.087424 GTTGAACCCTCTTTTCATTTATATTGC 57.913 33.333 0.00 0.00 33.03 3.56
1688 7402 3.698029 TTGCTTGCTTGACTTGAGAAC 57.302 42.857 0.00 0.00 0.00 3.01
1689 7403 2.642427 TGCTTGCTTGACTTGAGAACA 58.358 42.857 0.00 0.00 0.00 3.18
1715 7429 5.265350 TCATCAGAGATTCAGAGCTCTTG 57.735 43.478 15.27 8.31 46.02 3.02
1720 7438 4.034626 CAGAGATTCAGAGCTCTTGCATTG 59.965 45.833 15.27 2.33 46.02 2.82
1736 7454 3.953612 TGCATTGATTAGGTAAGGCTTGG 59.046 43.478 10.69 0.00 34.93 3.61
1742 7460 0.966875 TAGGTAAGGCTTGGCGTCGA 60.967 55.000 10.69 0.00 0.00 4.20
1745 7463 1.153449 TAAGGCTTGGCGTCGATGG 60.153 57.895 10.69 0.00 0.00 3.51
1784 7505 7.804843 ATTCAGAGCTCTTATTTCAGAATGG 57.195 36.000 15.27 0.00 36.16 3.16
1792 7513 4.949856 TCTTATTTCAGAATGGCCAAGGTC 59.050 41.667 10.96 8.06 36.16 3.85
1819 7556 1.301716 GGCGTCAGAGACAAGGCAA 60.302 57.895 0.00 0.00 32.09 4.52
1821 7558 1.160137 GCGTCAGAGACAAGGCAATT 58.840 50.000 0.00 0.00 32.09 2.32
1823 7560 1.466167 CGTCAGAGACAAGGCAATTGG 59.534 52.381 7.72 0.00 43.68 3.16
1836 7573 3.070015 AGGCAATTGGTTTTCAGGTTCAG 59.930 43.478 7.72 0.00 0.00 3.02
1839 7576 4.202151 GCAATTGGTTTTCAGGTTCAGTCT 60.202 41.667 7.72 0.00 0.00 3.24
1852 7589 3.933332 GGTTCAGTCTTTCGGGTATTCAG 59.067 47.826 0.00 0.00 0.00 3.02
1863 7600 4.755411 TCGGGTATTCAGAACACTGATTC 58.245 43.478 0.00 0.00 39.85 2.52
1866 7603 4.200092 GGTATTCAGAACACTGATTCCCC 58.800 47.826 0.00 0.00 39.85 4.81
1870 7607 0.905357 AGAACACTGATTCCCCCTCG 59.095 55.000 0.00 0.00 0.00 4.63
1872 7609 1.488705 AACACTGATTCCCCCTCGCA 61.489 55.000 0.00 0.00 0.00 5.10
1873 7610 1.299648 CACTGATTCCCCCTCGCAA 59.700 57.895 0.00 0.00 0.00 4.85
1875 7612 1.452108 CTGATTCCCCCTCGCAACC 60.452 63.158 0.00 0.00 0.00 3.77
1877 7614 3.716204 GATTCCCCCTCGCAACCCC 62.716 68.421 0.00 0.00 0.00 4.95
1906 7644 4.662961 TGCGCTCCCACACGACAG 62.663 66.667 9.73 0.00 0.00 3.51
1924 7662 0.678048 AGAAACCCTCAATCGGCAGC 60.678 55.000 0.00 0.00 0.00 5.25
2092 7903 3.006133 TGCCCCGTGATGCTGGTA 61.006 61.111 0.00 0.00 0.00 3.25
2151 7971 4.265556 CCTAGATTCGTGCAAAGTAAGTCG 59.734 45.833 0.00 0.00 0.00 4.18
2169 7989 2.032620 TCGCCTGATCCCTAGTTTCTC 58.967 52.381 0.00 0.00 0.00 2.87
2197 8017 4.518970 TGTAGCAAACTGAAATTCCACCTC 59.481 41.667 0.00 0.00 0.00 3.85
2205 8025 4.952335 ACTGAAATTCCACCTCATTGGATC 59.048 41.667 0.00 0.00 45.42 3.36
2206 8026 4.933134 TGAAATTCCACCTCATTGGATCA 58.067 39.130 0.00 0.00 45.42 2.92
2207 8027 5.521696 TGAAATTCCACCTCATTGGATCAT 58.478 37.500 0.00 0.00 45.42 2.45
2208 8028 5.959594 TGAAATTCCACCTCATTGGATCATT 59.040 36.000 0.00 0.00 45.42 2.57
2209 8029 6.097270 TGAAATTCCACCTCATTGGATCATTC 59.903 38.462 0.00 0.21 45.42 2.67
2210 8030 4.589647 TTCCACCTCATTGGATCATTCA 57.410 40.909 0.00 0.00 45.42 2.57
2211 8031 4.160642 TCCACCTCATTGGATCATTCAG 57.839 45.455 0.00 0.00 41.00 3.02
2212 8032 3.117776 TCCACCTCATTGGATCATTCAGG 60.118 47.826 0.00 0.00 41.00 3.86
2213 8033 3.220110 CACCTCATTGGATCATTCAGGG 58.780 50.000 0.00 0.00 39.71 4.45
2214 8034 3.117776 CACCTCATTGGATCATTCAGGGA 60.118 47.826 0.00 0.00 39.71 4.20
2215 8035 3.137913 ACCTCATTGGATCATTCAGGGAG 59.862 47.826 0.00 0.00 39.71 4.30
2216 8036 3.147629 CTCATTGGATCATTCAGGGAGC 58.852 50.000 0.00 0.00 0.00 4.70
2217 8037 2.781757 TCATTGGATCATTCAGGGAGCT 59.218 45.455 0.00 0.00 0.00 4.09
2218 8038 3.147629 CATTGGATCATTCAGGGAGCTC 58.852 50.000 4.71 4.71 0.00 4.09
2219 8039 2.187239 TGGATCATTCAGGGAGCTCT 57.813 50.000 14.64 0.00 0.00 4.09
2220 8040 2.485659 TGGATCATTCAGGGAGCTCTT 58.514 47.619 14.64 0.00 0.00 2.85
2221 8041 2.437281 TGGATCATTCAGGGAGCTCTTC 59.563 50.000 14.64 6.59 0.00 2.87
2222 8042 2.437281 GGATCATTCAGGGAGCTCTTCA 59.563 50.000 14.64 0.00 0.00 3.02
2223 8043 3.494749 GGATCATTCAGGGAGCTCTTCAG 60.495 52.174 14.64 3.82 0.00 3.02
2224 8044 2.544721 TCATTCAGGGAGCTCTTCAGT 58.455 47.619 14.64 0.00 0.00 3.41
2225 8045 2.499289 TCATTCAGGGAGCTCTTCAGTC 59.501 50.000 14.64 0.00 0.00 3.51
2226 8046 2.015456 TTCAGGGAGCTCTTCAGTCA 57.985 50.000 14.64 0.00 0.00 3.41
2227 8047 2.244486 TCAGGGAGCTCTTCAGTCAT 57.756 50.000 14.64 0.00 0.00 3.06
2228 8048 3.388552 TCAGGGAGCTCTTCAGTCATA 57.611 47.619 14.64 0.00 0.00 2.15
2229 8049 3.921104 TCAGGGAGCTCTTCAGTCATAT 58.079 45.455 14.64 0.00 0.00 1.78
2230 8050 5.066913 TCAGGGAGCTCTTCAGTCATATA 57.933 43.478 14.64 0.00 0.00 0.86
2231 8051 5.458595 TCAGGGAGCTCTTCAGTCATATAA 58.541 41.667 14.64 0.00 0.00 0.98
2232 8052 5.303078 TCAGGGAGCTCTTCAGTCATATAAC 59.697 44.000 14.64 0.00 0.00 1.89
2233 8053 5.304101 CAGGGAGCTCTTCAGTCATATAACT 59.696 44.000 14.64 0.00 0.00 2.24
2234 8054 5.902431 AGGGAGCTCTTCAGTCATATAACTT 59.098 40.000 14.64 0.00 0.00 2.66
2235 8055 6.041523 AGGGAGCTCTTCAGTCATATAACTTC 59.958 42.308 14.64 0.00 0.00 3.01
2236 8056 6.220201 GGAGCTCTTCAGTCATATAACTTCC 58.780 44.000 14.64 0.00 0.00 3.46
2237 8057 6.168270 AGCTCTTCAGTCATATAACTTCCC 57.832 41.667 0.00 0.00 0.00 3.97
2238 8058 5.071115 AGCTCTTCAGTCATATAACTTCCCC 59.929 44.000 0.00 0.00 0.00 4.81
2239 8059 5.071115 GCTCTTCAGTCATATAACTTCCCCT 59.929 44.000 0.00 0.00 0.00 4.79
2240 8060 6.485830 TCTTCAGTCATATAACTTCCCCTG 57.514 41.667 0.00 0.00 0.00 4.45
2241 8061 6.202331 TCTTCAGTCATATAACTTCCCCTGA 58.798 40.000 0.00 0.00 0.00 3.86
2242 8062 6.846505 TCTTCAGTCATATAACTTCCCCTGAT 59.153 38.462 0.00 0.00 0.00 2.90
2243 8063 7.348274 TCTTCAGTCATATAACTTCCCCTGATT 59.652 37.037 0.00 0.00 0.00 2.57
2244 8064 8.561536 TTCAGTCATATAACTTCCCCTGATTA 57.438 34.615 0.00 0.00 0.00 1.75
2245 8065 8.195165 TCAGTCATATAACTTCCCCTGATTAG 57.805 38.462 0.00 0.00 0.00 1.73
2246 8066 8.010697 TCAGTCATATAACTTCCCCTGATTAGA 58.989 37.037 0.00 0.00 0.00 2.10
2247 8067 8.091449 CAGTCATATAACTTCCCCTGATTAGAC 58.909 40.741 0.00 0.00 0.00 2.59
2248 8068 7.039644 AGTCATATAACTTCCCCTGATTAGACG 60.040 40.741 0.00 0.00 0.00 4.18
2249 8069 7.008332 TCATATAACTTCCCCTGATTAGACGA 58.992 38.462 0.00 0.00 0.00 4.20
2250 8070 7.674348 TCATATAACTTCCCCTGATTAGACGAT 59.326 37.037 0.00 0.00 0.00 3.73
2251 8071 6.749036 ATAACTTCCCCTGATTAGACGATT 57.251 37.500 0.00 0.00 0.00 3.34
2252 8072 4.674281 ACTTCCCCTGATTAGACGATTC 57.326 45.455 0.00 0.00 0.00 2.52
2253 8073 3.388350 ACTTCCCCTGATTAGACGATTCC 59.612 47.826 0.00 0.00 0.00 3.01
2254 8074 3.330126 TCCCCTGATTAGACGATTCCT 57.670 47.619 0.00 0.00 0.00 3.36
2255 8075 2.965831 TCCCCTGATTAGACGATTCCTG 59.034 50.000 0.00 0.00 0.00 3.86
2256 8076 2.548920 CCCCTGATTAGACGATTCCTGC 60.549 54.545 0.00 0.00 0.00 4.85
2257 8077 2.366916 CCCTGATTAGACGATTCCTGCT 59.633 50.000 0.00 0.00 0.00 4.24
2258 8078 3.574396 CCCTGATTAGACGATTCCTGCTA 59.426 47.826 0.00 0.00 0.00 3.49
2259 8079 4.039245 CCCTGATTAGACGATTCCTGCTAA 59.961 45.833 0.00 0.00 0.00 3.09
2260 8080 5.279708 CCCTGATTAGACGATTCCTGCTAAT 60.280 44.000 0.00 0.00 36.54 1.73
2261 8081 5.636965 CCTGATTAGACGATTCCTGCTAATG 59.363 44.000 0.00 0.00 34.63 1.90
2262 8082 5.541845 TGATTAGACGATTCCTGCTAATGG 58.458 41.667 0.00 0.00 34.63 3.16
2263 8083 5.304357 TGATTAGACGATTCCTGCTAATGGA 59.696 40.000 0.00 0.00 34.63 3.41
2264 8084 5.808366 TTAGACGATTCCTGCTAATGGAT 57.192 39.130 0.00 0.00 33.09 3.41
2265 8085 6.911250 TTAGACGATTCCTGCTAATGGATA 57.089 37.500 0.00 0.00 33.09 2.59
2266 8086 5.140747 AGACGATTCCTGCTAATGGATAC 57.859 43.478 0.00 0.00 33.09 2.24
2284 8104 7.959658 TGGATACACTTGGAAATCATCAATT 57.040 32.000 0.00 0.00 46.17 2.32
2285 8105 8.365060 TGGATACACTTGGAAATCATCAATTT 57.635 30.769 0.00 0.00 46.17 1.82
2286 8106 9.473007 TGGATACACTTGGAAATCATCAATTTA 57.527 29.630 0.00 0.00 46.17 1.40
2287 8107 9.736023 GGATACACTTGGAAATCATCAATTTAC 57.264 33.333 0.00 0.00 37.70 2.01
2288 8108 9.438291 GATACACTTGGAAATCATCAATTTACG 57.562 33.333 0.00 0.00 40.59 3.18
2289 8109 6.092748 ACACTTGGAAATCATCAATTTACGC 58.907 36.000 0.00 0.00 40.59 4.42
2290 8110 6.092092 CACTTGGAAATCATCAATTTACGCA 58.908 36.000 0.00 0.00 40.59 5.24
2291 8111 6.753279 CACTTGGAAATCATCAATTTACGCAT 59.247 34.615 0.00 0.00 40.59 4.73
2292 8112 7.914871 CACTTGGAAATCATCAATTTACGCATA 59.085 33.333 0.00 0.00 40.59 3.14
2293 8113 8.632679 ACTTGGAAATCATCAATTTACGCATAT 58.367 29.630 0.00 0.00 40.59 1.78
2294 8114 9.121517 CTTGGAAATCATCAATTTACGCATATC 57.878 33.333 0.00 0.00 40.59 1.63
2295 8115 7.297391 TGGAAATCATCAATTTACGCATATCG 58.703 34.615 0.00 0.00 40.59 2.92
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
14 15 9.261035 ACCCATTGTGTAAATACATATTTTGGA 57.739 29.630 10.23 0.00 38.63 3.53
15 16 9.311916 CACCCATTGTGTAAATACATATTTTGG 57.688 33.333 2.34 3.63 40.26 3.28
41 42 0.397941 TGGCTCCTAGGTGCATATGC 59.602 55.000 31.19 21.09 42.50 3.14
42 43 3.079578 CAATGGCTCCTAGGTGCATATG 58.920 50.000 31.19 22.47 36.47 1.78
44 45 1.202806 GCAATGGCTCCTAGGTGCATA 60.203 52.381 31.19 21.70 36.47 3.14
45 46 0.466922 GCAATGGCTCCTAGGTGCAT 60.467 55.000 31.19 21.04 36.47 3.96
46 47 1.077501 GCAATGGCTCCTAGGTGCA 60.078 57.895 31.19 19.96 36.47 4.57
47 48 1.825622 GGCAATGGCTCCTAGGTGC 60.826 63.158 24.68 24.68 40.87 5.01
48 49 0.034186 TTGGCAATGGCTCCTAGGTG 60.034 55.000 9.08 7.68 40.87 4.00
49 50 0.929244 ATTGGCAATGGCTCCTAGGT 59.071 50.000 12.82 0.00 40.87 3.08
50 51 2.077687 AATTGGCAATGGCTCCTAGG 57.922 50.000 14.47 0.82 40.87 3.02
51 52 2.363359 GGAAATTGGCAATGGCTCCTAG 59.637 50.000 14.47 0.00 40.87 3.02
52 53 2.387757 GGAAATTGGCAATGGCTCCTA 58.612 47.619 14.47 0.00 40.87 2.94
53 54 1.197812 GGAAATTGGCAATGGCTCCT 58.802 50.000 14.47 0.00 40.87 3.69
54 55 0.179103 CGGAAATTGGCAATGGCTCC 60.179 55.000 14.47 17.49 40.87 4.70
55 56 0.807275 GCGGAAATTGGCAATGGCTC 60.807 55.000 14.47 10.59 40.87 4.70
56 57 1.218854 GCGGAAATTGGCAATGGCT 59.781 52.632 14.47 1.24 40.87 4.75
57 58 0.673022 TTGCGGAAATTGGCAATGGC 60.673 50.000 14.47 14.73 43.63 4.40
58 59 1.361793 CTTGCGGAAATTGGCAATGG 58.638 50.000 14.47 5.09 46.87 3.16
59 60 0.722848 GCTTGCGGAAATTGGCAATG 59.277 50.000 14.47 2.00 46.87 2.82
60 61 0.321021 TGCTTGCGGAAATTGGCAAT 59.679 45.000 6.96 6.96 46.87 3.56
61 62 0.599728 GTGCTTGCGGAAATTGGCAA 60.600 50.000 0.68 0.68 46.06 4.52
63 64 1.737735 GGTGCTTGCGGAAATTGGC 60.738 57.895 0.00 0.00 0.00 4.52
64 65 1.079888 GGGTGCTTGCGGAAATTGG 60.080 57.895 0.00 0.00 0.00 3.16
65 66 1.444212 CGGGTGCTTGCGGAAATTG 60.444 57.895 0.00 0.00 0.00 2.32
66 67 1.901464 ACGGGTGCTTGCGGAAATT 60.901 52.632 0.00 0.00 0.00 1.82
67 68 2.282180 ACGGGTGCTTGCGGAAAT 60.282 55.556 0.00 0.00 0.00 2.17
111 112 4.504858 ACCGGTGAAAAACTAGATAGCAG 58.495 43.478 6.12 0.00 0.00 4.24
113 114 4.756502 AGACCGGTGAAAAACTAGATAGC 58.243 43.478 14.63 0.00 0.00 2.97
114 115 5.811100 GGAAGACCGGTGAAAAACTAGATAG 59.189 44.000 14.63 0.00 0.00 2.08
116 117 4.286291 AGGAAGACCGGTGAAAAACTAGAT 59.714 41.667 14.63 0.00 41.83 1.98
120 121 2.092592 ACAGGAAGACCGGTGAAAAACT 60.093 45.455 14.63 0.00 42.55 2.66
131 132 6.371389 CGAAAATAAAACTGACAGGAAGACC 58.629 40.000 7.51 0.00 0.00 3.85
139 140 8.625651 TCATTTTCTCCGAAAATAAAACTGACA 58.374 29.630 12.60 0.00 0.00 3.58
140 141 9.458374 TTCATTTTCTCCGAAAATAAAACTGAC 57.542 29.630 12.60 0.00 0.00 3.51
150 151 8.609176 CCGATACTAATTCATTTTCTCCGAAAA 58.391 33.333 4.47 4.47 0.00 2.29
155 156 6.990349 TCCACCGATACTAATTCATTTTCTCC 59.010 38.462 0.00 0.00 0.00 3.71
156 157 8.608844 ATCCACCGATACTAATTCATTTTCTC 57.391 34.615 0.00 0.00 0.00 2.87
214 216 9.829507 TGGATTTTGTGAAAAATATGAACAGTT 57.170 25.926 0.00 0.00 33.47 3.16
443 451 7.209475 TCCAGTGATTCTTTTTCATGGTTTTC 58.791 34.615 0.00 0.00 0.00 2.29
451 459 5.358442 TCGGTTTTCCAGTGATTCTTTTTCA 59.642 36.000 0.00 0.00 40.70 2.69
484 492 3.064207 TGAGTCGCCAATGTAGTTGTTC 58.936 45.455 0.00 0.00 36.01 3.18
489 497 3.954904 AGTAGATGAGTCGCCAATGTAGT 59.045 43.478 0.00 0.00 0.00 2.73
501 509 4.585162 CCATCCGTTCCTAAGTAGATGAGT 59.415 45.833 0.00 0.00 34.40 3.41
502 510 4.827835 TCCATCCGTTCCTAAGTAGATGAG 59.172 45.833 0.00 0.00 34.40 2.90
507 1171 4.023021 GCTACTCCATCCGTTCCTAAGTAG 60.023 50.000 0.00 0.00 38.36 2.57
510 1174 2.693591 TGCTACTCCATCCGTTCCTAAG 59.306 50.000 0.00 0.00 0.00 2.18
518 1182 1.009829 GCTTTGTGCTACTCCATCCG 58.990 55.000 0.00 0.00 38.95 4.18
522 1186 1.671054 GCGGCTTTGTGCTACTCCA 60.671 57.895 0.00 0.00 42.39 3.86
529 1193 2.126346 GGTGATGCGGCTTTGTGC 60.126 61.111 0.00 0.00 41.94 4.57
530 1194 2.568090 GGGTGATGCGGCTTTGTG 59.432 61.111 0.00 0.00 0.00 3.33
534 1198 4.778143 GTCGGGGTGATGCGGCTT 62.778 66.667 0.00 0.00 0.00 4.35
537 1201 3.733344 ATTCGTCGGGGTGATGCGG 62.733 63.158 0.00 0.00 33.35 5.69
538 1202 0.528901 TAATTCGTCGGGGTGATGCG 60.529 55.000 0.00 0.00 33.35 4.73
539 1203 1.329599 GTTAATTCGTCGGGGTGATGC 59.670 52.381 0.00 0.00 33.35 3.91
542 1206 0.602562 ACGTTAATTCGTCGGGGTGA 59.397 50.000 0.00 0.00 40.04 4.02
545 1209 2.454055 GAGTACGTTAATTCGTCGGGG 58.546 52.381 0.00 0.00 43.12 5.73
547 1211 2.098117 AGGGAGTACGTTAATTCGTCGG 59.902 50.000 0.00 0.00 43.12 4.79
548 1212 3.411415 AGGGAGTACGTTAATTCGTCG 57.589 47.619 0.00 0.00 43.12 5.12
549 1213 4.737054 TGAAGGGAGTACGTTAATTCGTC 58.263 43.478 0.00 0.00 43.12 4.20
550 1214 4.789012 TGAAGGGAGTACGTTAATTCGT 57.211 40.909 0.00 0.00 45.97 3.85
551 1215 6.311935 TGAATTGAAGGGAGTACGTTAATTCG 59.688 38.462 0.00 0.00 34.37 3.34
552 1216 7.605410 TGAATTGAAGGGAGTACGTTAATTC 57.395 36.000 0.00 0.00 33.55 2.17
554 1218 9.847224 AATATGAATTGAAGGGAGTACGTTAAT 57.153 29.630 0.00 0.00 0.00 1.40
557 1221 9.847224 ATTAATATGAATTGAAGGGAGTACGTT 57.153 29.630 0.00 0.00 0.00 3.99
600 1266 5.661056 TTCCCTCACATCAGTTGTACTAG 57.339 43.478 0.00 0.00 36.57 2.57
636 1308 6.295236 CCTTTTGCAAAGATCCCTGTCAATAA 60.295 38.462 12.41 0.00 0.00 1.40
657 1330 8.886719 GGCGTAGTAATTATTAGTCAAACCTTT 58.113 33.333 0.00 0.00 0.00 3.11
675 1350 1.315690 CTCTCATTCCGGGCGTAGTA 58.684 55.000 0.00 0.00 0.00 1.82
690 1365 2.105128 CGTGGACGATGGGCTCTC 59.895 66.667 0.00 0.00 43.02 3.20
709 2394 1.301716 GTGGTGATGGTGACTGCGT 60.302 57.895 0.00 0.00 0.00 5.24
791 2476 1.352156 GAAACGCGACGCCAAGATCT 61.352 55.000 15.93 0.00 0.00 2.75
820 2505 5.927115 GGGTTAATCGATCAGGATGTAGTTC 59.073 44.000 0.00 0.00 37.40 3.01
824 2511 4.283467 CCAGGGTTAATCGATCAGGATGTA 59.717 45.833 0.00 0.00 37.40 2.29
922 2624 3.625649 TGGTTTGATGATGGTCGATGA 57.374 42.857 0.00 0.00 0.00 2.92
953 2672 3.801293 CGTAGCTATAGCACGAGAACTC 58.199 50.000 29.60 10.77 43.15 3.01
985 2712 1.214589 CCATTGCTGCTGCTGTTCC 59.785 57.895 17.00 0.00 40.48 3.62
1065 2816 3.431905 GGTACCCCTTCGGAATCTTCTTC 60.432 52.174 0.00 0.00 34.64 2.87
1218 2969 3.551407 GGGATCCTGAGGACGCCC 61.551 72.222 21.41 21.41 40.73 6.13
1241 2992 2.482374 GATGGAACTGCAGTGCGC 59.518 61.111 22.49 13.04 42.89 6.09
1277 3028 1.662044 GTGGCTTTGGTCTTGCTGG 59.338 57.895 0.00 0.00 0.00 4.85
1312 6877 6.416750 CGACGATGTGCAGTAATAATCACTAA 59.583 38.462 0.00 0.00 0.00 2.24
1396 6964 8.772250 TGGATAAAAAGAGATGTATCTGGAACT 58.228 33.333 0.00 0.00 37.25 3.01
1397 6965 8.964476 TGGATAAAAAGAGATGTATCTGGAAC 57.036 34.615 0.00 0.00 37.25 3.62
1410 6978 9.918630 ACTTGTCATCAAAATGGATAAAAAGAG 57.081 29.630 0.00 0.00 33.42 2.85
1418 6986 7.975616 CCGAAAATACTTGTCATCAAAATGGAT 59.024 33.333 0.00 0.00 33.42 3.41
1419 6987 7.175816 TCCGAAAATACTTGTCATCAAAATGGA 59.824 33.333 0.00 0.00 33.42 3.41
1420 6988 7.273381 GTCCGAAAATACTTGTCATCAAAATGG 59.727 37.037 0.00 0.00 33.42 3.16
1421 6989 7.007367 CGTCCGAAAATACTTGTCATCAAAATG 59.993 37.037 0.00 0.00 32.87 2.32
1422 6990 7.021196 CGTCCGAAAATACTTGTCATCAAAAT 58.979 34.615 0.00 0.00 32.87 1.82
1423 6991 6.367421 CGTCCGAAAATACTTGTCATCAAAA 58.633 36.000 0.00 0.00 32.87 2.44
1424 6992 5.106869 CCGTCCGAAAATACTTGTCATCAAA 60.107 40.000 0.00 0.00 32.87 2.69
1425 6993 4.390603 CCGTCCGAAAATACTTGTCATCAA 59.609 41.667 0.00 0.00 0.00 2.57
1426 6994 3.930229 CCGTCCGAAAATACTTGTCATCA 59.070 43.478 0.00 0.00 0.00 3.07
1427 6995 4.178540 TCCGTCCGAAAATACTTGTCATC 58.821 43.478 0.00 0.00 0.00 2.92
1428 6996 4.196626 TCCGTCCGAAAATACTTGTCAT 57.803 40.909 0.00 0.00 0.00 3.06
1429 6997 3.663995 TCCGTCCGAAAATACTTGTCA 57.336 42.857 0.00 0.00 0.00 3.58
1430 6998 3.308866 CCATCCGTCCGAAAATACTTGTC 59.691 47.826 0.00 0.00 0.00 3.18
1431 6999 3.267483 CCATCCGTCCGAAAATACTTGT 58.733 45.455 0.00 0.00 0.00 3.16
1432 7000 3.267483 ACCATCCGTCCGAAAATACTTG 58.733 45.455 0.00 0.00 0.00 3.16
1433 7001 3.622166 ACCATCCGTCCGAAAATACTT 57.378 42.857 0.00 0.00 0.00 2.24
1434 7002 3.956199 TCTACCATCCGTCCGAAAATACT 59.044 43.478 0.00 0.00 0.00 2.12
1435 7003 4.311816 TCTACCATCCGTCCGAAAATAC 57.688 45.455 0.00 0.00 0.00 1.89
1436 7004 5.294356 CAATCTACCATCCGTCCGAAAATA 58.706 41.667 0.00 0.00 0.00 1.40
1437 7005 4.127171 CAATCTACCATCCGTCCGAAAAT 58.873 43.478 0.00 0.00 0.00 1.82
1438 7006 3.527533 CAATCTACCATCCGTCCGAAAA 58.472 45.455 0.00 0.00 0.00 2.29
1439 7007 2.159014 CCAATCTACCATCCGTCCGAAA 60.159 50.000 0.00 0.00 0.00 3.46
1440 7008 1.411246 CCAATCTACCATCCGTCCGAA 59.589 52.381 0.00 0.00 0.00 4.30
1441 7009 1.037493 CCAATCTACCATCCGTCCGA 58.963 55.000 0.00 0.00 0.00 4.55
1442 7010 1.037493 TCCAATCTACCATCCGTCCG 58.963 55.000 0.00 0.00 0.00 4.79
1443 7011 3.553828 TTTCCAATCTACCATCCGTCC 57.446 47.619 0.00 0.00 0.00 4.79
1444 7012 3.877508 CCTTTTCCAATCTACCATCCGTC 59.122 47.826 0.00 0.00 0.00 4.79
1445 7013 3.371595 CCCTTTTCCAATCTACCATCCGT 60.372 47.826 0.00 0.00 0.00 4.69
1446 7014 3.118038 TCCCTTTTCCAATCTACCATCCG 60.118 47.826 0.00 0.00 0.00 4.18
1447 7015 4.519906 TCCCTTTTCCAATCTACCATCC 57.480 45.455 0.00 0.00 0.00 3.51
1448 7016 4.279420 GCATCCCTTTTCCAATCTACCATC 59.721 45.833 0.00 0.00 0.00 3.51
1449 7017 4.218312 GCATCCCTTTTCCAATCTACCAT 58.782 43.478 0.00 0.00 0.00 3.55
1450 7018 3.627237 GGCATCCCTTTTCCAATCTACCA 60.627 47.826 0.00 0.00 0.00 3.25
1451 7019 2.959030 GGCATCCCTTTTCCAATCTACC 59.041 50.000 0.00 0.00 0.00 3.18
1452 7020 3.633986 CAGGCATCCCTTTTCCAATCTAC 59.366 47.826 0.00 0.00 40.33 2.59
1463 7031 2.644798 AGTTTGTCTACAGGCATCCCTT 59.355 45.455 0.00 0.00 40.33 3.95
1521 7093 4.039366 ACCAACTGTTCCTTCTCTGACTAC 59.961 45.833 0.00 0.00 0.00 2.73
1542 7114 1.001378 GGACTGCACACAATCAACACC 60.001 52.381 0.00 0.00 0.00 4.16
1619 7223 8.335356 CGCAAGCAAAACAATATACTAGTACAT 58.665 33.333 4.31 0.00 0.00 2.29
1621 7225 7.681903 ACGCAAGCAAAACAATATACTAGTAC 58.318 34.615 4.31 0.00 45.62 2.73
1625 7229 7.135089 TCAACGCAAGCAAAACAATATACTA 57.865 32.000 0.00 0.00 45.62 1.82
1626 7230 6.007936 TCAACGCAAGCAAAACAATATACT 57.992 33.333 0.00 0.00 45.62 2.12
1653 7367 9.577110 TCAAGCAAGCAATATAAATGAAAAGAG 57.423 29.630 0.00 0.00 0.00 2.85
1688 7402 5.421277 AGCTCTGAATCTCTGATGAACTTG 58.579 41.667 0.00 0.00 0.00 3.16
1689 7403 5.422970 AGAGCTCTGAATCTCTGATGAACTT 59.577 40.000 17.42 0.00 38.18 2.66
1715 7429 3.243535 GCCAAGCCTTACCTAATCAATGC 60.244 47.826 0.00 0.00 0.00 3.56
1720 7438 2.210961 GACGCCAAGCCTTACCTAATC 58.789 52.381 0.00 0.00 0.00 1.75
1736 7454 0.992802 GAAGACTGAACCATCGACGC 59.007 55.000 0.00 0.00 0.00 5.19
1742 7460 3.517901 TGAATACCCGAAGACTGAACCAT 59.482 43.478 0.00 0.00 0.00 3.55
1745 7463 4.425520 CTCTGAATACCCGAAGACTGAAC 58.574 47.826 0.00 0.00 0.00 3.18
1784 7505 1.298014 CCCTGTCTCTGACCTTGGC 59.702 63.158 0.00 0.00 0.00 4.52
1819 7556 5.221048 CGAAAGACTGAACCTGAAAACCAAT 60.221 40.000 0.00 0.00 0.00 3.16
1821 7558 3.625764 CGAAAGACTGAACCTGAAAACCA 59.374 43.478 0.00 0.00 0.00 3.67
1823 7560 3.003378 CCCGAAAGACTGAACCTGAAAAC 59.997 47.826 0.00 0.00 0.00 2.43
1836 7573 4.389077 CAGTGTTCTGAATACCCGAAAGAC 59.611 45.833 12.83 0.00 43.76 3.01
1839 7576 4.610605 TCAGTGTTCTGAATACCCGAAA 57.389 40.909 12.83 0.00 46.17 3.46
1852 7589 0.744771 GCGAGGGGGAATCAGTGTTC 60.745 60.000 0.00 0.00 0.00 3.18
1906 7644 1.803289 GCTGCCGATTGAGGGTTTC 59.197 57.895 0.00 0.00 0.00 2.78
2092 7903 2.930562 GTGGTGTCCTCCCCTGCT 60.931 66.667 0.00 0.00 0.00 4.24
2095 7906 2.529389 GTGGTGGTGTCCTCCCCT 60.529 66.667 4.73 0.00 36.43 4.79
2098 7909 2.430367 GTGGTGGTGGTGTCCTCC 59.570 66.667 0.52 0.52 40.40 4.30
2140 7960 2.093447 AGGGATCAGGCGACTTACTTTG 60.093 50.000 0.00 0.00 40.21 2.77
2151 7971 4.163268 AGAAAGAGAAACTAGGGATCAGGC 59.837 45.833 0.00 0.00 0.00 4.85
2169 7989 6.638468 GTGGAATTTCAGTTTGCTACAGAAAG 59.362 38.462 12.74 0.00 42.94 2.62
2197 8017 3.147629 GAGCTCCCTGAATGATCCAATG 58.852 50.000 0.87 0.00 0.00 2.82
2205 8025 2.235650 TGACTGAAGAGCTCCCTGAATG 59.764 50.000 10.93 0.00 0.00 2.67
2206 8026 2.544721 TGACTGAAGAGCTCCCTGAAT 58.455 47.619 10.93 0.00 0.00 2.57
2207 8027 2.015456 TGACTGAAGAGCTCCCTGAA 57.985 50.000 10.93 0.00 0.00 3.02
2208 8028 2.244486 ATGACTGAAGAGCTCCCTGA 57.756 50.000 10.93 0.00 0.00 3.86
2209 8029 5.304101 AGTTATATGACTGAAGAGCTCCCTG 59.696 44.000 10.93 9.37 0.00 4.45
2210 8030 5.463154 AGTTATATGACTGAAGAGCTCCCT 58.537 41.667 10.93 0.00 0.00 4.20
2211 8031 5.799827 AGTTATATGACTGAAGAGCTCCC 57.200 43.478 10.93 3.19 0.00 4.30
2212 8032 6.220201 GGAAGTTATATGACTGAAGAGCTCC 58.780 44.000 10.93 0.00 0.00 4.70
2213 8033 6.220201 GGGAAGTTATATGACTGAAGAGCTC 58.780 44.000 5.27 5.27 0.00 4.09
2214 8034 5.071115 GGGGAAGTTATATGACTGAAGAGCT 59.929 44.000 0.16 0.00 0.00 4.09
2215 8035 5.071115 AGGGGAAGTTATATGACTGAAGAGC 59.929 44.000 0.16 0.00 0.00 4.09
2216 8036 6.325028 TCAGGGGAAGTTATATGACTGAAGAG 59.675 42.308 0.16 0.00 31.51 2.85
2217 8037 6.202331 TCAGGGGAAGTTATATGACTGAAGA 58.798 40.000 0.16 0.00 31.51 2.87
2218 8038 6.485830 TCAGGGGAAGTTATATGACTGAAG 57.514 41.667 0.16 0.00 31.51 3.02
2219 8039 7.451731 AATCAGGGGAAGTTATATGACTGAA 57.548 36.000 0.16 0.00 37.29 3.02
2220 8040 8.010697 TCTAATCAGGGGAAGTTATATGACTGA 58.989 37.037 0.16 0.00 38.01 3.41
2221 8041 8.091449 GTCTAATCAGGGGAAGTTATATGACTG 58.909 40.741 0.16 0.00 0.00 3.51
2222 8042 7.039644 CGTCTAATCAGGGGAAGTTATATGACT 60.040 40.741 0.00 0.00 0.00 3.41
2223 8043 7.039923 TCGTCTAATCAGGGGAAGTTATATGAC 60.040 40.741 0.00 0.00 0.00 3.06
2224 8044 7.008332 TCGTCTAATCAGGGGAAGTTATATGA 58.992 38.462 0.00 0.00 0.00 2.15
2225 8045 7.228314 TCGTCTAATCAGGGGAAGTTATATG 57.772 40.000 0.00 0.00 0.00 1.78
2226 8046 8.437274 AATCGTCTAATCAGGGGAAGTTATAT 57.563 34.615 0.00 0.00 0.00 0.86
2227 8047 7.039223 GGAATCGTCTAATCAGGGGAAGTTATA 60.039 40.741 0.00 0.00 0.00 0.98
2228 8048 6.239629 GGAATCGTCTAATCAGGGGAAGTTAT 60.240 42.308 0.00 0.00 0.00 1.89
2229 8049 5.070047 GGAATCGTCTAATCAGGGGAAGTTA 59.930 44.000 0.00 0.00 0.00 2.24
2230 8050 4.141688 GGAATCGTCTAATCAGGGGAAGTT 60.142 45.833 0.00 0.00 0.00 2.66
2231 8051 3.388350 GGAATCGTCTAATCAGGGGAAGT 59.612 47.826 0.00 0.00 0.00 3.01
2232 8052 3.643792 AGGAATCGTCTAATCAGGGGAAG 59.356 47.826 0.00 0.00 0.00 3.46
2233 8053 3.388024 CAGGAATCGTCTAATCAGGGGAA 59.612 47.826 0.00 0.00 0.00 3.97
2234 8054 2.965831 CAGGAATCGTCTAATCAGGGGA 59.034 50.000 0.00 0.00 0.00 4.81
2235 8055 2.548920 GCAGGAATCGTCTAATCAGGGG 60.549 54.545 0.00 0.00 0.00 4.79
2236 8056 2.366916 AGCAGGAATCGTCTAATCAGGG 59.633 50.000 0.00 0.00 0.00 4.45
2237 8057 3.742433 AGCAGGAATCGTCTAATCAGG 57.258 47.619 0.00 0.00 0.00 3.86
2238 8058 5.636965 CCATTAGCAGGAATCGTCTAATCAG 59.363 44.000 0.00 0.00 31.51 2.90
2239 8059 5.304357 TCCATTAGCAGGAATCGTCTAATCA 59.696 40.000 0.00 0.00 31.51 2.57
2240 8060 5.784177 TCCATTAGCAGGAATCGTCTAATC 58.216 41.667 0.00 0.00 31.51 1.75
2241 8061 5.808366 TCCATTAGCAGGAATCGTCTAAT 57.192 39.130 0.00 0.00 33.44 1.73
2242 8062 5.808366 ATCCATTAGCAGGAATCGTCTAA 57.192 39.130 0.00 0.00 38.93 2.10
2243 8063 5.773176 TGTATCCATTAGCAGGAATCGTCTA 59.227 40.000 0.00 0.00 38.93 2.59
2244 8064 4.588951 TGTATCCATTAGCAGGAATCGTCT 59.411 41.667 0.00 0.00 38.93 4.18
2245 8065 4.686554 GTGTATCCATTAGCAGGAATCGTC 59.313 45.833 0.00 0.00 38.93 4.20
2246 8066 4.345257 AGTGTATCCATTAGCAGGAATCGT 59.655 41.667 0.00 0.00 38.93 3.73
2247 8067 4.887748 AGTGTATCCATTAGCAGGAATCG 58.112 43.478 0.00 0.00 38.93 3.34
2248 8068 5.471456 CCAAGTGTATCCATTAGCAGGAATC 59.529 44.000 0.00 0.00 38.93 2.52
2249 8069 5.132648 TCCAAGTGTATCCATTAGCAGGAAT 59.867 40.000 0.00 0.00 38.93 3.01
2250 8070 4.473196 TCCAAGTGTATCCATTAGCAGGAA 59.527 41.667 0.00 0.00 38.93 3.36
2251 8071 4.037222 TCCAAGTGTATCCATTAGCAGGA 58.963 43.478 0.00 0.00 39.97 3.86
2252 8072 4.422073 TCCAAGTGTATCCATTAGCAGG 57.578 45.455 0.00 0.00 0.00 4.85
2253 8073 6.543465 TGATTTCCAAGTGTATCCATTAGCAG 59.457 38.462 0.00 0.00 0.00 4.24
2254 8074 6.422333 TGATTTCCAAGTGTATCCATTAGCA 58.578 36.000 0.00 0.00 0.00 3.49
2255 8075 6.942532 TGATTTCCAAGTGTATCCATTAGC 57.057 37.500 0.00 0.00 0.00 3.09
2256 8076 8.681486 TGATGATTTCCAAGTGTATCCATTAG 57.319 34.615 0.00 0.00 0.00 1.73
2257 8077 9.645128 ATTGATGATTTCCAAGTGTATCCATTA 57.355 29.630 0.00 0.00 0.00 1.90
2258 8078 7.959658 TTGATGATTTCCAAGTGTATCCATT 57.040 32.000 0.00 0.00 0.00 3.16
2259 8079 8.543293 AATTGATGATTTCCAAGTGTATCCAT 57.457 30.769 0.00 0.00 0.00 3.41
2260 8080 7.959658 AATTGATGATTTCCAAGTGTATCCA 57.040 32.000 0.00 0.00 0.00 3.41
2261 8081 9.736023 GTAAATTGATGATTTCCAAGTGTATCC 57.264 33.333 0.00 0.00 38.80 2.59
2262 8082 9.438291 CGTAAATTGATGATTTCCAAGTGTATC 57.562 33.333 0.00 0.00 38.80 2.24
2263 8083 7.915397 GCGTAAATTGATGATTTCCAAGTGTAT 59.085 33.333 0.00 0.00 38.80 2.29
2264 8084 7.094592 TGCGTAAATTGATGATTTCCAAGTGTA 60.095 33.333 0.00 0.00 38.80 2.90
2265 8085 6.092748 GCGTAAATTGATGATTTCCAAGTGT 58.907 36.000 0.00 0.00 38.80 3.55
2266 8086 6.092092 TGCGTAAATTGATGATTTCCAAGTG 58.908 36.000 0.00 0.00 38.80 3.16
2267 8087 6.266168 TGCGTAAATTGATGATTTCCAAGT 57.734 33.333 0.00 0.00 38.80 3.16
2268 8088 9.121517 GATATGCGTAAATTGATGATTTCCAAG 57.878 33.333 0.00 0.00 38.80 3.61
2269 8089 7.802720 CGATATGCGTAAATTGATGATTTCCAA 59.197 33.333 0.00 0.00 38.80 3.53
2270 8090 7.297391 CGATATGCGTAAATTGATGATTTCCA 58.703 34.615 0.00 0.00 38.80 3.53
2271 8091 7.710852 CGATATGCGTAAATTGATGATTTCC 57.289 36.000 0.00 0.00 38.80 3.13


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

AutoCloner maintained by Alex Coulton.