Multiple sequence alignment - TraesCS2A01G094400

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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 TraesCS2A01G094400 chr2A 100.000 2315 0 0 1 2315 48220991 48223305 0.000000e+00 4276
1 TraesCS2A01G094400 chr2A 85.994 357 37 10 1680 2027 48248116 48248468 1.010000e-98 370
2 TraesCS2A01G094400 chr2A 86.544 327 35 5 1341 1663 48247922 48248243 3.660000e-93 351
3 TraesCS2A01G094400 chr2A 88.701 177 14 4 1986 2162 48350052 48349882 6.480000e-51 211
4 TraesCS2A01G094400 chr2A 92.233 103 6 1 2198 2298 48349418 48349316 6.670000e-31 145
5 TraesCS2A01G094400 chr2A 95.122 82 2 1 2236 2315 48248570 48248651 6.710000e-26 128
6 TraesCS2A01G094400 chr6A 97.604 1127 27 0 216 1342 511536589 511537715 0.000000e+00 1932
7 TraesCS2A01G094400 chr6A 97.604 1127 25 1 216 1342 97342454 97341330 0.000000e+00 1930
8 TraesCS2A01G094400 chr6A 96.717 1127 27 5 216 1342 543212897 543214013 0.000000e+00 1868
9 TraesCS2A01G094400 chr6A 98.605 215 3 0 1 215 502123321 502123107 4.670000e-102 381
10 TraesCS2A01G094400 chr4A 96.814 1130 31 3 216 1342 494000603 494001730 0.000000e+00 1882
11 TraesCS2A01G094400 chr4A 98.165 218 3 1 1 218 579332587 579332803 1.680000e-101 379
12 TraesCS2A01G094400 chr5B 92.145 1133 83 1 216 1342 281243017 281244149 0.000000e+00 1594
13 TraesCS2A01G094400 chr2B 89.805 1128 114 1 216 1342 751293790 751292663 0.000000e+00 1445
14 TraesCS2A01G094400 chr2B 91.536 319 23 3 1344 1662 519694919 519695233 9.820000e-119 436
15 TraesCS2A01G094400 chr2B 87.850 107 11 1 2199 2303 519697780 519697886 8.680000e-25 124
16 TraesCS2A01G094400 chr2B 90.217 92 7 1 2209 2298 71246848 71246757 4.040000e-23 119
17 TraesCS2A01G094400 chr1B 89.628 1128 116 1 216 1342 533811793 533812920 0.000000e+00 1434
18 TraesCS2A01G094400 chr1B 88.594 1131 125 2 216 1342 510814457 510813327 0.000000e+00 1371
19 TraesCS2A01G094400 chr7B 89.165 1126 121 1 216 1340 74304062 74302937 0.000000e+00 1402
20 TraesCS2A01G094400 chr2D 91.536 319 25 1 1341 1659 44368474 44368790 2.730000e-119 438
21 TraesCS2A01G094400 chr2D 80.670 388 51 20 1666 2047 44368655 44369024 1.750000e-71 279
22 TraesCS2A01G094400 chr2D 94.068 118 4 2 2200 2315 44369085 44369201 2.360000e-40 176
23 TraesCS2A01G094400 chr7A 99.070 215 2 0 1 215 56218003 56217789 1.000000e-103 387
24 TraesCS2A01G094400 chr7A 98.174 219 4 0 1 219 494116791 494116573 1.300000e-102 383
25 TraesCS2A01G094400 chr3A 99.070 215 2 0 1 215 619634754 619634968 1.000000e-103 387
26 TraesCS2A01G094400 chr3A 98.174 219 4 0 1 219 443756076 443756294 1.300000e-102 383
27 TraesCS2A01G094400 chr1A 98.611 216 3 0 1 216 112878202 112878417 1.300000e-102 383
28 TraesCS2A01G094400 chr1A 98.605 215 3 0 1 215 320161086 320161300 4.670000e-102 381
29 TraesCS2A01G094400 chr5A 97.727 220 4 1 1 220 699217250 699217032 6.040000e-101 377


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 TraesCS2A01G094400 chr2A 48220991 48223305 2314 False 4276.000000 4276 100.000 1 2315 1 chr2A.!!$F1 2314
1 TraesCS2A01G094400 chr2A 48247922 48248651 729 False 283.000000 370 89.220 1341 2315 3 chr2A.!!$F2 974
2 TraesCS2A01G094400 chr6A 511536589 511537715 1126 False 1932.000000 1932 97.604 216 1342 1 chr6A.!!$F1 1126
3 TraesCS2A01G094400 chr6A 97341330 97342454 1124 True 1930.000000 1930 97.604 216 1342 1 chr6A.!!$R1 1126
4 TraesCS2A01G094400 chr6A 543212897 543214013 1116 False 1868.000000 1868 96.717 216 1342 1 chr6A.!!$F2 1126
5 TraesCS2A01G094400 chr4A 494000603 494001730 1127 False 1882.000000 1882 96.814 216 1342 1 chr4A.!!$F1 1126
6 TraesCS2A01G094400 chr5B 281243017 281244149 1132 False 1594.000000 1594 92.145 216 1342 1 chr5B.!!$F1 1126
7 TraesCS2A01G094400 chr2B 751292663 751293790 1127 True 1445.000000 1445 89.805 216 1342 1 chr2B.!!$R2 1126
8 TraesCS2A01G094400 chr2B 519694919 519697886 2967 False 280.000000 436 89.693 1344 2303 2 chr2B.!!$F1 959
9 TraesCS2A01G094400 chr1B 533811793 533812920 1127 False 1434.000000 1434 89.628 216 1342 1 chr1B.!!$F1 1126
10 TraesCS2A01G094400 chr1B 510813327 510814457 1130 True 1371.000000 1371 88.594 216 1342 1 chr1B.!!$R1 1126
11 TraesCS2A01G094400 chr7B 74302937 74304062 1125 True 1402.000000 1402 89.165 216 1340 1 chr7B.!!$R1 1124
12 TraesCS2A01G094400 chr2D 44368474 44369201 727 False 297.666667 438 88.758 1341 2315 3 chr2D.!!$F1 974

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
144 145 0.026803 GCAATCCGATCACTCGTTGC 59.973 55.0 7.32 7.32 44.33 4.17 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2015 4290 1.001406 CCTCAACCGCTCAACTCTCTT 59.999 52.381 0.0 0.0 0.0 2.85 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 2.970324 TGTTGAACGCGGAGGTGC 60.970 61.111 12.47 0.00 0.00 5.01
18 19 3.723348 GTTGAACGCGGAGGTGCC 61.723 66.667 12.47 0.00 0.00 5.01
36 37 3.818787 GTCCGTTCGGCGCTAGGA 61.819 66.667 7.64 7.54 39.71 2.94
37 38 2.831742 TCCGTTCGGCGCTAGGAT 60.832 61.111 7.64 0.00 39.71 3.24
38 39 2.354773 CCGTTCGGCGCTAGGATC 60.355 66.667 7.64 1.16 39.71 3.36
39 40 2.722487 CGTTCGGCGCTAGGATCT 59.278 61.111 7.64 0.00 0.00 2.75
40 41 1.065928 CGTTCGGCGCTAGGATCTT 59.934 57.895 7.64 0.00 0.00 2.40
41 42 0.935366 CGTTCGGCGCTAGGATCTTC 60.935 60.000 7.64 0.00 0.00 2.87
42 43 0.935366 GTTCGGCGCTAGGATCTTCG 60.935 60.000 7.64 0.00 0.00 3.79
43 44 2.049985 CGGCGCTAGGATCTTCGG 60.050 66.667 7.64 0.00 0.00 4.30
44 45 2.846652 CGGCGCTAGGATCTTCGGT 61.847 63.158 7.64 0.00 0.00 4.69
45 46 1.300233 GGCGCTAGGATCTTCGGTG 60.300 63.158 7.64 0.00 0.00 4.94
46 47 1.734137 GCGCTAGGATCTTCGGTGA 59.266 57.895 0.00 0.00 0.00 4.02
47 48 0.315568 GCGCTAGGATCTTCGGTGAT 59.684 55.000 0.00 0.00 0.00 3.06
48 49 1.540267 GCGCTAGGATCTTCGGTGATA 59.460 52.381 0.00 0.00 0.00 2.15
49 50 2.164624 GCGCTAGGATCTTCGGTGATAT 59.835 50.000 0.00 0.00 0.00 1.63
50 51 3.763902 CGCTAGGATCTTCGGTGATATG 58.236 50.000 0.00 0.00 0.00 1.78
51 52 3.428180 CGCTAGGATCTTCGGTGATATGG 60.428 52.174 0.00 0.00 0.00 2.74
52 53 3.764434 GCTAGGATCTTCGGTGATATGGA 59.236 47.826 0.00 0.00 0.00 3.41
53 54 4.404073 GCTAGGATCTTCGGTGATATGGAT 59.596 45.833 0.00 0.00 0.00 3.41
54 55 5.451242 GCTAGGATCTTCGGTGATATGGATC 60.451 48.000 0.00 0.00 0.00 3.36
55 56 4.420206 AGGATCTTCGGTGATATGGATCA 58.580 43.478 0.00 0.00 39.88 2.92
65 66 4.744136 TGATATGGATCACGTCGAGTAC 57.256 45.455 0.00 0.00 37.15 2.73
73 74 3.185155 CGTCGAGTACGCCTTCCT 58.815 61.111 0.00 0.00 46.10 3.36
74 75 1.062206 CGTCGAGTACGCCTTCCTC 59.938 63.158 0.00 0.00 46.10 3.71
75 76 1.642037 CGTCGAGTACGCCTTCCTCA 61.642 60.000 0.00 0.00 46.10 3.86
76 77 0.739561 GTCGAGTACGCCTTCCTCAT 59.260 55.000 0.00 0.00 39.58 2.90
77 78 1.022735 TCGAGTACGCCTTCCTCATC 58.977 55.000 0.00 0.00 39.58 2.92
78 79 0.030908 CGAGTACGCCTTCCTCATCC 59.969 60.000 0.00 0.00 0.00 3.51
79 80 0.389757 GAGTACGCCTTCCTCATCCC 59.610 60.000 0.00 0.00 0.00 3.85
80 81 1.049289 AGTACGCCTTCCTCATCCCC 61.049 60.000 0.00 0.00 0.00 4.81
81 82 2.131709 TACGCCTTCCTCATCCCCG 61.132 63.158 0.00 0.00 0.00 5.73
82 83 2.866523 TACGCCTTCCTCATCCCCGT 62.867 60.000 0.00 0.00 0.00 5.28
83 84 2.998949 GCCTTCCTCATCCCCGTT 59.001 61.111 0.00 0.00 0.00 4.44
84 85 1.153147 GCCTTCCTCATCCCCGTTC 60.153 63.158 0.00 0.00 0.00 3.95
85 86 1.627297 GCCTTCCTCATCCCCGTTCT 61.627 60.000 0.00 0.00 0.00 3.01
86 87 0.912486 CCTTCCTCATCCCCGTTCTT 59.088 55.000 0.00 0.00 0.00 2.52
87 88 1.282157 CCTTCCTCATCCCCGTTCTTT 59.718 52.381 0.00 0.00 0.00 2.52
88 89 2.359900 CTTCCTCATCCCCGTTCTTTG 58.640 52.381 0.00 0.00 0.00 2.77
89 90 1.651737 TCCTCATCCCCGTTCTTTGA 58.348 50.000 0.00 0.00 0.00 2.69
90 91 1.982226 TCCTCATCCCCGTTCTTTGAA 59.018 47.619 0.00 0.00 0.00 2.69
91 92 2.084546 CCTCATCCCCGTTCTTTGAAC 58.915 52.381 0.77 0.77 0.00 3.18
92 93 1.732259 CTCATCCCCGTTCTTTGAACG 59.268 52.381 21.32 21.32 42.74 3.95
93 94 0.168128 CATCCCCGTTCTTTGAACGC 59.832 55.000 22.42 0.00 41.85 4.84
94 95 0.036306 ATCCCCGTTCTTTGAACGCT 59.964 50.000 22.42 7.97 41.85 5.07
95 96 0.179040 TCCCCGTTCTTTGAACGCTT 60.179 50.000 22.42 0.00 41.85 4.68
96 97 0.237498 CCCCGTTCTTTGAACGCTTC 59.763 55.000 22.42 0.00 41.85 3.86
97 98 0.237498 CCCGTTCTTTGAACGCTTCC 59.763 55.000 22.42 0.00 41.85 3.46
98 99 0.110823 CCGTTCTTTGAACGCTTCCG 60.111 55.000 22.42 8.82 41.85 4.30
99 100 0.721483 CGTTCTTTGAACGCTTCCGC 60.721 55.000 17.66 0.00 36.82 5.54
109 110 2.278596 GCTTCCGCGCGTGATCTA 60.279 61.111 29.95 9.69 0.00 1.98
110 111 2.577785 GCTTCCGCGCGTGATCTAC 61.578 63.158 29.95 7.34 0.00 2.59
111 112 1.226575 CTTCCGCGCGTGATCTACA 60.227 57.895 29.95 8.99 0.00 2.74
112 113 0.800683 CTTCCGCGCGTGATCTACAA 60.801 55.000 29.95 8.30 0.00 2.41
113 114 0.388778 TTCCGCGCGTGATCTACAAA 60.389 50.000 29.95 5.81 0.00 2.83
114 115 0.800683 TCCGCGCGTGATCTACAAAG 60.801 55.000 29.95 8.57 0.00 2.77
115 116 1.631072 CGCGCGTGATCTACAAAGG 59.369 57.895 24.19 0.00 0.00 3.11
116 117 1.076533 CGCGCGTGATCTACAAAGGT 61.077 55.000 24.19 0.00 0.00 3.50
117 118 1.796253 CGCGCGTGATCTACAAAGGTA 60.796 52.381 24.19 0.00 0.00 3.08
118 119 2.470821 GCGCGTGATCTACAAAGGTAT 58.529 47.619 8.43 0.00 0.00 2.73
119 120 2.218759 GCGCGTGATCTACAAAGGTATG 59.781 50.000 8.43 0.00 0.00 2.39
120 121 3.444916 CGCGTGATCTACAAAGGTATGT 58.555 45.455 0.00 0.00 37.32 2.29
121 122 4.603985 CGCGTGATCTACAAAGGTATGTA 58.396 43.478 0.00 0.00 34.75 2.29
132 133 5.989168 TACAAAGGTATGTAGATGCAATCCG 59.011 40.000 0.00 0.00 38.24 4.18
133 134 6.183360 TACAAAGGTATGTAGATGCAATCCGA 60.183 38.462 0.00 0.00 38.24 4.55
134 135 7.472804 TACAAAGGTATGTAGATGCAATCCGAT 60.473 37.037 0.00 0.00 38.24 4.18
141 142 1.858091 GATGCAATCCGATCACTCGT 58.142 50.000 0.00 0.00 43.49 4.18
142 143 2.205074 GATGCAATCCGATCACTCGTT 58.795 47.619 0.00 0.00 43.49 3.85
143 144 1.358877 TGCAATCCGATCACTCGTTG 58.641 50.000 0.00 0.00 43.49 4.10
144 145 0.026803 GCAATCCGATCACTCGTTGC 59.973 55.000 7.32 7.32 44.33 4.17
145 146 1.645034 CAATCCGATCACTCGTTGCT 58.355 50.000 0.00 0.00 43.49 3.91
146 147 2.809446 CAATCCGATCACTCGTTGCTA 58.191 47.619 0.00 0.00 43.49 3.49
147 148 2.783828 ATCCGATCACTCGTTGCTAG 57.216 50.000 0.00 0.00 43.49 3.42
148 149 1.746470 TCCGATCACTCGTTGCTAGA 58.254 50.000 0.00 0.00 43.49 2.43
149 150 2.298610 TCCGATCACTCGTTGCTAGAT 58.701 47.619 0.00 0.00 43.49 1.98
150 151 2.033424 TCCGATCACTCGTTGCTAGATG 59.967 50.000 0.00 0.00 43.49 2.90
151 152 2.033424 CCGATCACTCGTTGCTAGATGA 59.967 50.000 0.00 0.00 43.49 2.92
152 153 3.489229 CCGATCACTCGTTGCTAGATGAA 60.489 47.826 0.00 0.00 43.49 2.57
153 154 3.483922 CGATCACTCGTTGCTAGATGAAC 59.516 47.826 0.00 0.00 40.07 3.18
154 155 4.677584 GATCACTCGTTGCTAGATGAACT 58.322 43.478 0.00 0.00 0.00 3.01
155 156 4.098055 TCACTCGTTGCTAGATGAACTC 57.902 45.455 0.00 0.00 0.00 3.01
156 157 3.119459 TCACTCGTTGCTAGATGAACTCC 60.119 47.826 0.00 0.00 0.00 3.85
157 158 3.093057 ACTCGTTGCTAGATGAACTCCT 58.907 45.455 0.00 0.00 0.00 3.69
158 159 4.096532 CACTCGTTGCTAGATGAACTCCTA 59.903 45.833 0.00 0.00 0.00 2.94
159 160 4.336993 ACTCGTTGCTAGATGAACTCCTAG 59.663 45.833 0.00 0.00 36.38 3.02
160 161 4.524053 TCGTTGCTAGATGAACTCCTAGA 58.476 43.478 0.00 0.00 35.55 2.43
161 162 5.133941 TCGTTGCTAGATGAACTCCTAGAT 58.866 41.667 0.00 0.00 35.55 1.98
162 163 5.009110 TCGTTGCTAGATGAACTCCTAGATG 59.991 44.000 0.00 0.00 35.55 2.90
163 164 5.537188 GTTGCTAGATGAACTCCTAGATGG 58.463 45.833 0.00 0.00 35.55 3.51
164 165 5.066913 TGCTAGATGAACTCCTAGATGGA 57.933 43.478 0.00 0.00 43.86 3.41
165 166 5.649265 TGCTAGATGAACTCCTAGATGGAT 58.351 41.667 0.00 0.00 45.16 3.41
166 167 5.714333 TGCTAGATGAACTCCTAGATGGATC 59.286 44.000 0.00 0.00 45.16 3.36
167 168 5.951747 GCTAGATGAACTCCTAGATGGATCT 59.048 44.000 0.00 0.00 45.16 2.75
168 169 6.437162 GCTAGATGAACTCCTAGATGGATCTT 59.563 42.308 0.00 0.00 45.16 2.40
169 170 6.669125 AGATGAACTCCTAGATGGATCTTG 57.331 41.667 0.00 0.00 45.16 3.02
170 171 5.543405 AGATGAACTCCTAGATGGATCTTGG 59.457 44.000 10.01 10.01 46.71 3.61
171 172 4.624913 TGAACTCCTAGATGGATCTTGGT 58.375 43.478 14.39 0.00 45.88 3.67
172 173 4.406972 TGAACTCCTAGATGGATCTTGGTG 59.593 45.833 14.39 14.19 45.88 4.17
173 174 4.271807 ACTCCTAGATGGATCTTGGTGA 57.728 45.455 19.47 3.44 45.88 4.02
174 175 4.624913 ACTCCTAGATGGATCTTGGTGAA 58.375 43.478 19.47 2.89 45.88 3.18
175 176 5.032846 ACTCCTAGATGGATCTTGGTGAAA 58.967 41.667 19.47 2.62 45.88 2.69
176 177 5.104735 ACTCCTAGATGGATCTTGGTGAAAC 60.105 44.000 19.47 0.00 45.88 2.78
201 202 7.227992 CGTAGGAAAAATTTTGTTTTCTGCA 57.772 32.000 3.73 0.00 43.83 4.41
202 203 7.680062 CGTAGGAAAAATTTTGTTTTCTGCAA 58.320 30.769 3.73 0.00 43.83 4.08
203 204 7.634432 CGTAGGAAAAATTTTGTTTTCTGCAAC 59.366 33.333 3.73 0.00 43.83 4.17
204 205 6.541969 AGGAAAAATTTTGTTTTCTGCAACG 58.458 32.000 3.73 0.00 43.83 4.10
205 206 6.148645 AGGAAAAATTTTGTTTTCTGCAACGT 59.851 30.769 3.73 0.00 43.83 3.99
206 207 6.799441 GGAAAAATTTTGTTTTCTGCAACGTT 59.201 30.769 3.73 0.00 43.83 3.99
207 208 7.007009 GGAAAAATTTTGTTTTCTGCAACGTTC 59.993 33.333 3.73 0.00 43.83 3.95
208 209 5.463499 AATTTTGTTTTCTGCAACGTTCC 57.537 34.783 0.00 0.00 0.00 3.62
209 210 2.570442 TTGTTTTCTGCAACGTTCCC 57.430 45.000 0.00 0.00 0.00 3.97
210 211 0.741915 TGTTTTCTGCAACGTTCCCC 59.258 50.000 0.00 0.00 0.00 4.81
211 212 0.741915 GTTTTCTGCAACGTTCCCCA 59.258 50.000 0.00 0.00 0.00 4.96
212 213 1.135333 GTTTTCTGCAACGTTCCCCAA 59.865 47.619 0.00 0.00 0.00 4.12
213 214 0.741915 TTTCTGCAACGTTCCCCAAC 59.258 50.000 0.00 0.00 0.00 3.77
214 215 0.394488 TTCTGCAACGTTCCCCAACA 60.394 50.000 0.00 0.00 32.14 3.33
323 324 3.917300 ACTACATCTGGAAGTCTAGGGG 58.083 50.000 0.00 0.00 33.76 4.79
381 382 2.494530 GGGGACTTTGGCAACGCAA 61.495 57.895 0.00 0.00 42.51 4.85
415 416 1.069159 ACAGACATCTGACGACACGAC 60.069 52.381 15.76 0.00 46.59 4.34
419 420 1.067974 ACATCTGACGACACGACCAAA 59.932 47.619 0.00 0.00 0.00 3.28
723 729 9.268268 CTTGACAGTTACTACAAGTCCATTAAA 57.732 33.333 17.05 0.00 36.16 1.52
945 957 3.423539 GGATATGTCCTAATGGCTGCA 57.576 47.619 0.50 0.00 41.60 4.41
972 984 6.319658 ACCGTTTCATCTTCTATTGCAATGAT 59.680 34.615 22.27 12.59 0.00 2.45
1202 1218 4.003648 AGACTTCAAAATAGAGTTGCCGG 58.996 43.478 0.00 0.00 0.00 6.13
1204 1220 4.142038 ACTTCAAAATAGAGTTGCCGGTT 58.858 39.130 1.90 0.00 0.00 4.44
1364 1381 5.404946 ACATGTGCTGAGCATTTTATCAAC 58.595 37.500 11.58 0.00 41.91 3.18
1556 1573 7.531280 AGATCTTTGTTTGTCACTATCATCG 57.469 36.000 0.00 0.00 0.00 3.84
1690 1711 9.553418 AAAATGTAAAATGTCTTTGTTTGTTGC 57.447 25.926 0.00 0.00 0.00 4.17
1691 1712 6.654793 TGTAAAATGTCTTTGTTTGTTGCC 57.345 33.333 0.00 0.00 0.00 4.52
1692 1713 6.166279 TGTAAAATGTCTTTGTTTGTTGCCA 58.834 32.000 0.00 0.00 0.00 4.92
1693 1714 6.820656 TGTAAAATGTCTTTGTTTGTTGCCAT 59.179 30.769 0.00 0.00 0.00 4.40
1694 1715 7.981789 TGTAAAATGTCTTTGTTTGTTGCCATA 59.018 29.630 0.00 0.00 0.00 2.74
1695 1716 7.856145 AAAATGTCTTTGTTTGTTGCCATAA 57.144 28.000 0.00 0.00 0.00 1.90
1696 1717 8.449251 AAAATGTCTTTGTTTGTTGCCATAAT 57.551 26.923 0.00 0.00 0.00 1.28
1697 1718 7.656707 AATGTCTTTGTTTGTTGCCATAATC 57.343 32.000 0.00 0.00 0.00 1.75
1698 1719 6.154203 TGTCTTTGTTTGTTGCCATAATCA 57.846 33.333 0.00 0.00 0.00 2.57
1699 1720 6.757237 TGTCTTTGTTTGTTGCCATAATCAT 58.243 32.000 0.00 0.00 0.00 2.45
1700 1721 7.215789 TGTCTTTGTTTGTTGCCATAATCATT 58.784 30.769 0.00 0.00 0.00 2.57
1701 1722 7.714377 TGTCTTTGTTTGTTGCCATAATCATTT 59.286 29.630 0.00 0.00 0.00 2.32
1702 1723 8.558700 GTCTTTGTTTGTTGCCATAATCATTTT 58.441 29.630 0.00 0.00 0.00 1.82
1703 1724 9.118300 TCTTTGTTTGTTGCCATAATCATTTTT 57.882 25.926 0.00 0.00 0.00 1.94
1873 1895 0.893727 CAAAGCTACTTGGGCCGGTT 60.894 55.000 1.90 0.00 0.00 4.44
1883 1906 0.322997 TGGGCCGGTTCATTAGTTGG 60.323 55.000 1.90 0.00 0.00 3.77
1889 1912 1.379527 GGTTCATTAGTTGGGAGGCG 58.620 55.000 0.00 0.00 0.00 5.52
1962 3058 2.659897 GCTGCAGGATACGCGAGG 60.660 66.667 15.93 0.00 46.39 4.63
1969 3081 2.219458 CAGGATACGCGAGGAGTCTTA 58.781 52.381 15.93 0.00 46.39 2.10
1984 3096 2.009774 GTCTTATTGCCGCACATGTCT 58.990 47.619 0.00 0.00 0.00 3.41
1992 3104 1.423845 CGCACATGTCTAAACGCCC 59.576 57.895 0.00 0.00 0.00 6.13
2015 4290 1.839747 ACGCCCACCACTAGGAACA 60.840 57.895 0.00 0.00 38.69 3.18
2036 4311 0.603569 GAGAGTTGAGCGGTTGAGGA 59.396 55.000 0.00 0.00 0.00 3.71
2042 4317 2.616842 GTTGAGCGGTTGAGGAAAAAGA 59.383 45.455 0.00 0.00 0.00 2.52
2047 4322 2.846193 CGGTTGAGGAAAAAGACAGGA 58.154 47.619 0.00 0.00 0.00 3.86
2057 4353 4.334481 GGAAAAAGACAGGAAGACACGAAA 59.666 41.667 0.00 0.00 0.00 3.46
2058 4354 5.163693 GGAAAAAGACAGGAAGACACGAAAA 60.164 40.000 0.00 0.00 0.00 2.29
2061 4357 2.103263 AGACAGGAAGACACGAAAAGCT 59.897 45.455 0.00 0.00 0.00 3.74
2062 4358 3.321111 AGACAGGAAGACACGAAAAGCTA 59.679 43.478 0.00 0.00 0.00 3.32
2066 4362 3.003480 GGAAGACACGAAAAGCTAGCAT 58.997 45.455 18.83 0.65 0.00 3.79
2067 4363 3.181516 GGAAGACACGAAAAGCTAGCATG 60.182 47.826 18.83 7.45 0.00 4.06
2068 4364 3.319137 AGACACGAAAAGCTAGCATGA 57.681 42.857 18.83 0.00 0.00 3.07
2070 4366 4.256920 AGACACGAAAAGCTAGCATGATT 58.743 39.130 18.83 5.76 0.00 2.57
2071 4367 4.093998 AGACACGAAAAGCTAGCATGATTG 59.906 41.667 18.83 8.92 0.00 2.67
2073 4369 3.127548 CACGAAAAGCTAGCATGATTGGT 59.872 43.478 18.83 10.06 37.36 3.67
2075 4371 4.218417 ACGAAAAGCTAGCATGATTGGTTT 59.782 37.500 18.83 15.07 34.79 3.27
2076 4372 4.795278 CGAAAAGCTAGCATGATTGGTTTC 59.205 41.667 19.67 13.21 34.79 2.78
2078 4374 3.370840 AGCTAGCATGATTGGTTTCCA 57.629 42.857 18.83 0.00 34.79 3.53
2110 4406 5.562307 GCATTGCCAAACATTTGTAATTGCA 60.562 36.000 0.00 0.00 36.45 4.08
2111 4407 6.436261 CATTGCCAAACATTTGTAATTGCAA 58.564 32.000 15.51 15.51 41.20 4.08
2112 4408 5.670149 TGCCAAACATTTGTAATTGCAAG 57.330 34.783 4.94 1.94 36.45 4.01
2114 4410 5.236047 TGCCAAACATTTGTAATTGCAAGAC 59.764 36.000 4.94 6.30 36.45 3.01
2115 4411 5.466393 GCCAAACATTTGTAATTGCAAGACT 59.534 36.000 4.94 0.00 36.45 3.24
2116 4412 6.018016 GCCAAACATTTGTAATTGCAAGACTT 60.018 34.615 4.94 0.00 36.45 3.01
2118 4414 7.011295 CCAAACATTTGTAATTGCAAGACTTGT 59.989 33.333 16.39 9.00 36.45 3.16
2119 4415 7.698836 AACATTTGTAATTGCAAGACTTGTC 57.301 32.000 16.39 9.39 0.00 3.18
2120 4416 6.804677 ACATTTGTAATTGCAAGACTTGTCA 58.195 32.000 16.39 11.70 0.00 3.58
2121 4417 7.264221 ACATTTGTAATTGCAAGACTTGTCAA 58.736 30.769 20.03 20.03 33.54 3.18
2122 4418 7.763528 ACATTTGTAATTGCAAGACTTGTCAAA 59.236 29.630 20.99 17.85 33.05 2.69
2123 4419 8.767085 CATTTGTAATTGCAAGACTTGTCAAAT 58.233 29.630 20.99 17.24 33.05 2.32
2124 4420 9.979578 ATTTGTAATTGCAAGACTTGTCAAATA 57.020 25.926 20.99 16.52 32.55 1.40
2125 4421 9.979578 TTTGTAATTGCAAGACTTGTCAAATAT 57.020 25.926 20.99 15.17 33.05 1.28
2126 4422 9.979578 TTGTAATTGCAAGACTTGTCAAATATT 57.020 25.926 20.99 15.69 33.05 1.28
2129 4425 8.693542 AATTGCAAGACTTGTCAAATATTAGC 57.306 30.769 20.99 4.58 33.05 3.09
2130 4426 6.816134 TGCAAGACTTGTCAAATATTAGCA 57.184 33.333 16.39 1.05 0.00 3.49
2131 4427 7.213216 TGCAAGACTTGTCAAATATTAGCAA 57.787 32.000 16.39 0.00 0.00 3.91
2132 4428 7.083858 TGCAAGACTTGTCAAATATTAGCAAC 58.916 34.615 16.39 0.00 0.00 4.17
2133 4429 7.040478 TGCAAGACTTGTCAAATATTAGCAACT 60.040 33.333 16.39 0.00 0.00 3.16
2134 4430 7.809806 GCAAGACTTGTCAAATATTAGCAACTT 59.190 33.333 16.39 0.00 0.00 2.66
2135 4431 9.121517 CAAGACTTGTCAAATATTAGCAACTTG 57.878 33.333 7.05 0.00 0.00 3.16
2136 4432 8.621532 AGACTTGTCAAATATTAGCAACTTGA 57.378 30.769 3.49 0.00 0.00 3.02
2137 4433 9.236006 AGACTTGTCAAATATTAGCAACTTGAT 57.764 29.630 3.49 0.00 0.00 2.57
2142 4438 8.394877 TGTCAAATATTAGCAACTTGATAACCG 58.605 33.333 1.61 0.00 30.49 4.44
2143 4439 8.609176 GTCAAATATTAGCAACTTGATAACCGA 58.391 33.333 1.61 0.00 30.49 4.69
2144 4440 9.337396 TCAAATATTAGCAACTTGATAACCGAT 57.663 29.630 1.61 0.00 30.49 4.18
2145 4441 9.599322 CAAATATTAGCAACTTGATAACCGATC 57.401 33.333 1.61 0.00 30.49 3.69
2146 4442 8.902540 AATATTAGCAACTTGATAACCGATCA 57.097 30.769 1.61 0.00 43.11 2.92
2165 4461 9.998106 ACCGATCAATTAGTAGCTAATATTTGT 57.002 29.630 24.07 16.38 35.85 2.83
2174 4470 9.982651 TTAGTAGCTAATATTTGTCATGGTCTC 57.017 33.333 1.08 0.00 0.00 3.36
2175 4471 8.023021 AGTAGCTAATATTTGTCATGGTCTCA 57.977 34.615 0.00 0.00 0.00 3.27
2176 4472 8.486210 AGTAGCTAATATTTGTCATGGTCTCAA 58.514 33.333 0.00 0.00 0.00 3.02
2177 4473 9.109393 GTAGCTAATATTTGTCATGGTCTCAAA 57.891 33.333 0.00 1.24 35.92 2.69
2178 4474 8.757982 AGCTAATATTTGTCATGGTCTCAAAT 57.242 30.769 16.48 16.48 42.11 2.32
2179 4475 9.851686 AGCTAATATTTGTCATGGTCTCAAATA 57.148 29.630 18.42 18.42 43.36 1.40
2184 4480 7.722949 ATTTGTCATGGTCTCAAATATTGGT 57.277 32.000 13.16 0.00 39.13 3.67
2185 4481 8.821686 ATTTGTCATGGTCTCAAATATTGGTA 57.178 30.769 13.16 0.00 39.13 3.25
2186 4482 8.821686 TTTGTCATGGTCTCAAATATTGGTAT 57.178 30.769 0.00 0.00 0.00 2.73
2187 4483 8.821686 TTGTCATGGTCTCAAATATTGGTATT 57.178 30.769 0.00 0.00 31.89 1.89
2188 4484 8.450578 TGTCATGGTCTCAAATATTGGTATTC 57.549 34.615 0.00 0.00 30.28 1.75
2189 4485 7.502226 TGTCATGGTCTCAAATATTGGTATTCC 59.498 37.037 0.00 0.00 30.28 3.01
2190 4486 6.710295 TCATGGTCTCAAATATTGGTATTCCG 59.290 38.462 0.00 0.00 36.30 4.30
2191 4487 4.819630 TGGTCTCAAATATTGGTATTCCGC 59.180 41.667 0.00 0.00 36.30 5.54
2192 4488 4.819630 GGTCTCAAATATTGGTATTCCGCA 59.180 41.667 0.00 0.00 36.30 5.69
2193 4489 5.473504 GGTCTCAAATATTGGTATTCCGCAT 59.526 40.000 0.00 0.00 36.30 4.73
2194 4490 6.016276 GGTCTCAAATATTGGTATTCCGCATT 60.016 38.462 0.00 0.00 36.30 3.56
2195 4491 6.857964 GTCTCAAATATTGGTATTCCGCATTG 59.142 38.462 0.00 0.00 36.30 2.82
2196 4492 6.016360 TCTCAAATATTGGTATTCCGCATTGG 60.016 38.462 0.00 0.00 40.09 3.16
2234 4530 4.641645 TGCCAAGCACCGGACTGG 62.642 66.667 9.46 10.03 46.41 4.00
2258 4556 4.215613 GCTTTCACCGTCCAAATCTTTAGT 59.784 41.667 0.00 0.00 0.00 2.24
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 2.970324 GCACCTCCGCGTTCAACA 60.970 61.111 4.92 0.00 0.00 3.33
1 2 3.723348 GGCACCTCCGCGTTCAAC 61.723 66.667 4.92 0.00 0.00 3.18
19 20 3.135056 ATCCTAGCGCCGAACGGAC 62.135 63.158 17.63 7.92 43.93 4.79
20 21 2.831742 ATCCTAGCGCCGAACGGA 60.832 61.111 17.63 3.21 43.93 4.69
21 22 2.351336 AAGATCCTAGCGCCGAACGG 62.351 60.000 2.29 9.00 43.93 4.44
23 24 0.935366 CGAAGATCCTAGCGCCGAAC 60.935 60.000 2.29 0.00 0.00 3.95
24 25 1.359117 CGAAGATCCTAGCGCCGAA 59.641 57.895 2.29 0.00 0.00 4.30
25 26 2.552819 CCGAAGATCCTAGCGCCGA 61.553 63.158 2.29 0.00 0.00 5.54
26 27 2.049985 CCGAAGATCCTAGCGCCG 60.050 66.667 2.29 0.00 0.00 6.46
27 28 1.300233 CACCGAAGATCCTAGCGCC 60.300 63.158 2.29 0.00 0.00 6.53
28 29 0.315568 ATCACCGAAGATCCTAGCGC 59.684 55.000 0.00 0.00 0.00 5.92
29 30 3.428180 CCATATCACCGAAGATCCTAGCG 60.428 52.174 0.00 0.00 0.00 4.26
30 31 3.764434 TCCATATCACCGAAGATCCTAGC 59.236 47.826 0.00 0.00 0.00 3.42
31 32 5.654209 TGATCCATATCACCGAAGATCCTAG 59.346 44.000 0.00 0.00 37.20 3.02
32 33 5.580022 TGATCCATATCACCGAAGATCCTA 58.420 41.667 0.00 0.00 37.20 2.94
33 34 4.420206 TGATCCATATCACCGAAGATCCT 58.580 43.478 0.00 0.00 37.20 3.24
34 35 4.808414 TGATCCATATCACCGAAGATCC 57.192 45.455 0.00 0.00 37.20 3.36
43 44 4.897828 CGTACTCGACGTGATCCATATCAC 60.898 50.000 3.58 8.18 46.81 3.06
44 45 3.185797 CGTACTCGACGTGATCCATATCA 59.814 47.826 3.58 0.00 46.86 2.15
45 46 3.734031 CGTACTCGACGTGATCCATATC 58.266 50.000 3.58 0.00 46.86 1.63
46 47 3.808116 CGTACTCGACGTGATCCATAT 57.192 47.619 3.58 0.00 46.86 1.78
57 58 0.739561 ATGAGGAAGGCGTACTCGAC 59.260 55.000 8.17 0.00 46.75 4.20
58 59 1.022735 GATGAGGAAGGCGTACTCGA 58.977 55.000 8.17 0.00 39.71 4.04
59 60 0.030908 GGATGAGGAAGGCGTACTCG 59.969 60.000 8.17 0.00 40.37 4.18
60 61 0.389757 GGGATGAGGAAGGCGTACTC 59.610 60.000 5.64 5.64 0.00 2.59
61 62 1.049289 GGGGATGAGGAAGGCGTACT 61.049 60.000 0.00 0.00 0.00 2.73
62 63 1.446366 GGGGATGAGGAAGGCGTAC 59.554 63.158 0.00 0.00 0.00 3.67
63 64 2.131709 CGGGGATGAGGAAGGCGTA 61.132 63.158 0.00 0.00 0.00 4.42
64 65 3.470888 CGGGGATGAGGAAGGCGT 61.471 66.667 0.00 0.00 0.00 5.68
65 66 2.925162 GAACGGGGATGAGGAAGGCG 62.925 65.000 0.00 0.00 0.00 5.52
66 67 1.153147 GAACGGGGATGAGGAAGGC 60.153 63.158 0.00 0.00 0.00 4.35
67 68 0.912486 AAGAACGGGGATGAGGAAGG 59.088 55.000 0.00 0.00 0.00 3.46
68 69 2.027192 TCAAAGAACGGGGATGAGGAAG 60.027 50.000 0.00 0.00 0.00 3.46
69 70 1.982226 TCAAAGAACGGGGATGAGGAA 59.018 47.619 0.00 0.00 0.00 3.36
70 71 1.651737 TCAAAGAACGGGGATGAGGA 58.348 50.000 0.00 0.00 0.00 3.71
71 72 2.084546 GTTCAAAGAACGGGGATGAGG 58.915 52.381 0.00 0.00 0.00 3.86
72 73 1.732259 CGTTCAAAGAACGGGGATGAG 59.268 52.381 20.89 0.00 39.73 2.90
73 74 1.803334 CGTTCAAAGAACGGGGATGA 58.197 50.000 20.89 0.00 39.73 2.92
74 75 0.168128 GCGTTCAAAGAACGGGGATG 59.832 55.000 27.01 5.43 43.25 3.51
75 76 0.036306 AGCGTTCAAAGAACGGGGAT 59.964 50.000 27.01 2.09 43.25 3.85
76 77 0.179040 AAGCGTTCAAAGAACGGGGA 60.179 50.000 27.01 0.00 43.25 4.81
77 78 0.237498 GAAGCGTTCAAAGAACGGGG 59.763 55.000 27.01 6.65 43.25 5.73
78 79 0.237498 GGAAGCGTTCAAAGAACGGG 59.763 55.000 27.01 7.26 43.25 5.28
79 80 0.110823 CGGAAGCGTTCAAAGAACGG 60.111 55.000 27.01 13.38 43.25 4.44
80 81 3.345087 CGGAAGCGTTCAAAGAACG 57.655 52.632 23.41 23.41 45.56 3.95
93 94 0.800683 TTGTAGATCACGCGCGGAAG 60.801 55.000 35.22 22.76 0.00 3.46
94 95 0.388778 TTTGTAGATCACGCGCGGAA 60.389 50.000 35.22 21.85 0.00 4.30
95 96 0.800683 CTTTGTAGATCACGCGCGGA 60.801 55.000 35.22 26.95 0.00 5.54
96 97 1.631072 CTTTGTAGATCACGCGCGG 59.369 57.895 35.22 22.52 0.00 6.46
97 98 1.076533 ACCTTTGTAGATCACGCGCG 61.077 55.000 30.96 30.96 0.00 6.86
98 99 1.917273 TACCTTTGTAGATCACGCGC 58.083 50.000 5.73 0.00 0.00 6.86
99 100 3.444916 ACATACCTTTGTAGATCACGCG 58.555 45.455 3.53 3.53 0.00 6.01
107 108 6.146184 CGGATTGCATCTACATACCTTTGTAG 59.854 42.308 5.47 5.47 46.85 2.74
108 109 5.989168 CGGATTGCATCTACATACCTTTGTA 59.011 40.000 0.00 0.00 0.00 2.41
109 110 4.816385 CGGATTGCATCTACATACCTTTGT 59.184 41.667 0.00 0.00 0.00 2.83
110 111 5.056480 TCGGATTGCATCTACATACCTTTG 58.944 41.667 0.00 0.00 0.00 2.77
111 112 5.290493 TCGGATTGCATCTACATACCTTT 57.710 39.130 0.00 0.00 0.00 3.11
112 113 4.955811 TCGGATTGCATCTACATACCTT 57.044 40.909 0.00 0.00 0.00 3.50
113 114 4.528206 TGATCGGATTGCATCTACATACCT 59.472 41.667 0.00 0.00 0.00 3.08
114 115 4.627467 GTGATCGGATTGCATCTACATACC 59.373 45.833 0.00 0.00 0.00 2.73
115 116 5.473931 AGTGATCGGATTGCATCTACATAC 58.526 41.667 0.00 0.00 0.00 2.39
116 117 5.619981 CGAGTGATCGGATTGCATCTACATA 60.620 44.000 0.00 0.00 0.00 2.29
117 118 4.564041 GAGTGATCGGATTGCATCTACAT 58.436 43.478 0.00 0.00 0.00 2.29
118 119 3.550842 CGAGTGATCGGATTGCATCTACA 60.551 47.826 0.00 0.00 0.00 2.74
119 120 2.983136 CGAGTGATCGGATTGCATCTAC 59.017 50.000 0.00 0.00 0.00 2.59
120 121 2.623416 ACGAGTGATCGGATTGCATCTA 59.377 45.455 2.46 0.00 37.45 1.98
121 122 1.410517 ACGAGTGATCGGATTGCATCT 59.589 47.619 2.46 0.00 37.45 2.90
122 123 1.858091 ACGAGTGATCGGATTGCATC 58.142 50.000 2.46 0.00 37.45 3.91
123 124 1.935873 CAACGAGTGATCGGATTGCAT 59.064 47.619 2.46 0.00 37.45 3.96
124 125 1.358877 CAACGAGTGATCGGATTGCA 58.641 50.000 2.46 0.00 37.45 4.08
125 126 0.026803 GCAACGAGTGATCGGATTGC 59.973 55.000 9.27 9.27 37.72 3.56
126 127 1.645034 AGCAACGAGTGATCGGATTG 58.355 50.000 2.46 0.33 37.45 2.67
127 128 2.688446 TCTAGCAACGAGTGATCGGATT 59.312 45.455 2.46 0.00 37.45 3.01
128 129 2.298610 TCTAGCAACGAGTGATCGGAT 58.701 47.619 2.46 0.00 37.45 4.18
129 130 1.746470 TCTAGCAACGAGTGATCGGA 58.254 50.000 2.46 0.00 37.45 4.55
130 131 2.033424 TCATCTAGCAACGAGTGATCGG 59.967 50.000 2.46 0.00 37.45 4.18
131 132 3.340337 TCATCTAGCAACGAGTGATCG 57.660 47.619 0.00 0.00 39.31 3.69
132 133 4.677584 AGTTCATCTAGCAACGAGTGATC 58.322 43.478 0.00 0.00 0.00 2.92
133 134 4.440802 GGAGTTCATCTAGCAACGAGTGAT 60.441 45.833 0.00 0.00 0.00 3.06
134 135 3.119459 GGAGTTCATCTAGCAACGAGTGA 60.119 47.826 0.00 0.00 0.00 3.41
135 136 3.119316 AGGAGTTCATCTAGCAACGAGTG 60.119 47.826 0.00 0.00 0.00 3.51
136 137 3.093057 AGGAGTTCATCTAGCAACGAGT 58.907 45.455 0.00 0.00 0.00 4.18
137 138 3.791973 AGGAGTTCATCTAGCAACGAG 57.208 47.619 0.00 0.00 0.00 4.18
138 139 4.524053 TCTAGGAGTTCATCTAGCAACGA 58.476 43.478 0.00 0.00 34.52 3.85
139 140 4.902443 TCTAGGAGTTCATCTAGCAACG 57.098 45.455 0.00 0.00 34.52 4.10
140 141 5.303078 TCCATCTAGGAGTTCATCTAGCAAC 59.697 44.000 0.00 0.00 43.07 4.17
141 142 5.458595 TCCATCTAGGAGTTCATCTAGCAA 58.541 41.667 0.00 0.00 43.07 3.91
142 143 5.066913 TCCATCTAGGAGTTCATCTAGCA 57.933 43.478 0.00 0.00 43.07 3.49
151 152 9.431633 GGTTTCACCAAGATCCATCTAGGAGTT 62.432 44.444 0.00 0.00 44.03 3.01
152 153 8.047452 GGTTTCACCAAGATCCATCTAGGAGT 62.047 46.154 0.00 0.00 44.03 3.85
153 154 5.686124 GGTTTCACCAAGATCCATCTAGGAG 60.686 48.000 0.00 0.00 44.03 3.69
154 155 4.164221 GGTTTCACCAAGATCCATCTAGGA 59.836 45.833 0.00 0.00 44.58 2.94
155 156 4.455606 GGTTTCACCAAGATCCATCTAGG 58.544 47.826 0.00 0.00 38.42 3.02
156 157 4.122776 CGGTTTCACCAAGATCCATCTAG 58.877 47.826 0.00 0.00 38.47 2.43
157 158 3.517901 ACGGTTTCACCAAGATCCATCTA 59.482 43.478 0.00 0.00 38.47 1.98
158 159 2.305927 ACGGTTTCACCAAGATCCATCT 59.694 45.455 0.00 0.00 38.47 2.90
159 160 2.711542 ACGGTTTCACCAAGATCCATC 58.288 47.619 0.00 0.00 38.47 3.51
160 161 2.879103 ACGGTTTCACCAAGATCCAT 57.121 45.000 0.00 0.00 38.47 3.41
161 162 2.027561 CCTACGGTTTCACCAAGATCCA 60.028 50.000 0.00 0.00 38.47 3.41
162 163 2.235402 TCCTACGGTTTCACCAAGATCC 59.765 50.000 0.00 0.00 38.47 3.36
163 164 3.604875 TCCTACGGTTTCACCAAGATC 57.395 47.619 0.00 0.00 38.47 2.75
164 165 4.360951 TTTCCTACGGTTTCACCAAGAT 57.639 40.909 0.00 0.00 38.47 2.40
165 166 3.842007 TTTCCTACGGTTTCACCAAGA 57.158 42.857 0.00 0.00 38.47 3.02
166 167 4.904253 TTTTTCCTACGGTTTCACCAAG 57.096 40.909 0.00 0.00 38.47 3.61
167 168 5.855740 AATTTTTCCTACGGTTTCACCAA 57.144 34.783 0.00 0.00 38.47 3.67
168 169 5.855740 AAATTTTTCCTACGGTTTCACCA 57.144 34.783 0.00 0.00 38.47 4.17
169 170 6.044046 ACAAAATTTTTCCTACGGTTTCACC 58.956 36.000 0.00 0.00 34.05 4.02
170 171 7.528481 AACAAAATTTTTCCTACGGTTTCAC 57.472 32.000 0.00 0.00 0.00 3.18
171 172 8.549338 AAAACAAAATTTTTCCTACGGTTTCA 57.451 26.923 0.00 0.00 0.00 2.69
172 173 8.875803 AGAAAACAAAATTTTTCCTACGGTTTC 58.124 29.630 14.64 14.64 43.67 2.78
173 174 8.661257 CAGAAAACAAAATTTTTCCTACGGTTT 58.339 29.630 0.00 4.33 43.67 3.27
174 175 7.201574 GCAGAAAACAAAATTTTTCCTACGGTT 60.202 33.333 0.00 0.00 43.67 4.44
175 176 6.256975 GCAGAAAACAAAATTTTTCCTACGGT 59.743 34.615 0.00 0.00 43.67 4.83
176 177 6.256757 TGCAGAAAACAAAATTTTTCCTACGG 59.743 34.615 0.00 0.00 43.67 4.02
177 178 7.227992 TGCAGAAAACAAAATTTTTCCTACG 57.772 32.000 0.00 0.00 43.67 3.51
178 179 7.634432 CGTTGCAGAAAACAAAATTTTTCCTAC 59.366 33.333 0.00 0.00 43.67 3.18
179 180 7.332182 ACGTTGCAGAAAACAAAATTTTTCCTA 59.668 29.630 0.00 0.00 43.67 2.94
180 181 6.148645 ACGTTGCAGAAAACAAAATTTTTCCT 59.851 30.769 0.00 0.00 43.67 3.36
181 182 6.310960 ACGTTGCAGAAAACAAAATTTTTCC 58.689 32.000 0.00 0.00 43.67 3.13
182 183 7.007009 GGAACGTTGCAGAAAACAAAATTTTTC 59.993 33.333 15.52 0.00 43.18 2.29
183 184 6.799441 GGAACGTTGCAGAAAACAAAATTTTT 59.201 30.769 15.52 0.00 0.00 1.94
184 185 6.310960 GGAACGTTGCAGAAAACAAAATTTT 58.689 32.000 15.52 0.00 0.00 1.82
185 186 5.163804 GGGAACGTTGCAGAAAACAAAATTT 60.164 36.000 21.74 0.00 0.00 1.82
186 187 4.331443 GGGAACGTTGCAGAAAACAAAATT 59.669 37.500 21.74 0.00 0.00 1.82
187 188 3.868661 GGGAACGTTGCAGAAAACAAAAT 59.131 39.130 21.74 0.00 0.00 1.82
188 189 3.254892 GGGAACGTTGCAGAAAACAAAA 58.745 40.909 21.74 0.00 0.00 2.44
189 190 2.417515 GGGGAACGTTGCAGAAAACAAA 60.418 45.455 21.74 0.00 0.00 2.83
190 191 1.135333 GGGGAACGTTGCAGAAAACAA 59.865 47.619 21.74 0.00 0.00 2.83
191 192 0.741915 GGGGAACGTTGCAGAAAACA 59.258 50.000 21.74 0.00 0.00 2.83
192 193 0.741915 TGGGGAACGTTGCAGAAAAC 59.258 50.000 21.74 2.56 0.00 2.43
193 194 1.135333 GTTGGGGAACGTTGCAGAAAA 59.865 47.619 21.74 6.84 0.00 2.29
194 195 0.741915 GTTGGGGAACGTTGCAGAAA 59.258 50.000 21.74 9.26 0.00 2.52
195 196 0.394488 TGTTGGGGAACGTTGCAGAA 60.394 50.000 21.74 10.10 0.00 3.02
196 197 1.098712 GTGTTGGGGAACGTTGCAGA 61.099 55.000 21.74 3.97 0.00 4.26
197 198 1.358759 GTGTTGGGGAACGTTGCAG 59.641 57.895 21.74 0.00 0.00 4.41
198 199 0.753479 ATGTGTTGGGGAACGTTGCA 60.753 50.000 21.74 0.00 0.00 4.08
199 200 1.068816 GTATGTGTTGGGGAACGTTGC 60.069 52.381 11.85 11.85 0.00 4.17
200 201 2.222886 TGTATGTGTTGGGGAACGTTG 58.777 47.619 5.00 0.00 0.00 4.10
201 202 2.642154 TGTATGTGTTGGGGAACGTT 57.358 45.000 0.00 0.00 0.00 3.99
202 203 2.500229 CTTGTATGTGTTGGGGAACGT 58.500 47.619 0.00 0.00 0.00 3.99
203 204 1.199097 GCTTGTATGTGTTGGGGAACG 59.801 52.381 0.00 0.00 0.00 3.95
204 205 2.228822 CAGCTTGTATGTGTTGGGGAAC 59.771 50.000 0.00 0.00 0.00 3.62
205 206 2.513753 CAGCTTGTATGTGTTGGGGAA 58.486 47.619 0.00 0.00 0.00 3.97
206 207 1.271871 CCAGCTTGTATGTGTTGGGGA 60.272 52.381 0.00 0.00 32.09 4.81
207 208 1.176527 CCAGCTTGTATGTGTTGGGG 58.823 55.000 0.00 0.00 32.09 4.96
208 209 0.527565 GCCAGCTTGTATGTGTTGGG 59.472 55.000 0.00 0.00 35.51 4.12
209 210 1.538047 AGCCAGCTTGTATGTGTTGG 58.462 50.000 0.00 0.00 37.57 3.77
210 211 3.073678 TGTAGCCAGCTTGTATGTGTTG 58.926 45.455 0.00 0.00 0.00 3.33
211 212 3.417069 TGTAGCCAGCTTGTATGTGTT 57.583 42.857 0.00 0.00 0.00 3.32
212 213 3.634397 ATGTAGCCAGCTTGTATGTGT 57.366 42.857 0.00 0.00 0.00 3.72
213 214 5.299949 TCATATGTAGCCAGCTTGTATGTG 58.700 41.667 1.90 0.00 0.00 3.21
214 215 5.551305 TCATATGTAGCCAGCTTGTATGT 57.449 39.130 1.90 0.00 0.00 2.29
323 324 5.672321 GCGTTGATCTTCATTTTCTGAGGAC 60.672 44.000 0.00 0.00 42.17 3.85
381 382 2.862541 TGTCTGTATGCCTTGCAACTT 58.137 42.857 0.00 0.00 43.62 2.66
415 416 2.297033 CCCCACAAATCTGACAGTTTGG 59.703 50.000 22.87 14.00 39.12 3.28
419 420 1.202927 CCACCCCACAAATCTGACAGT 60.203 52.381 1.59 0.00 0.00 3.55
492 495 0.029834 GGCAGCGCATGTTAATCCAG 59.970 55.000 11.47 0.00 0.00 3.86
493 496 1.713937 CGGCAGCGCATGTTAATCCA 61.714 55.000 11.47 0.00 0.00 3.41
545 548 5.104259 AGTTAACCATTCTCTCCCATCAC 57.896 43.478 0.88 0.00 0.00 3.06
945 957 7.498900 TCATTGCAATAGAAGATGAAACGGTAT 59.501 33.333 12.53 0.00 0.00 2.73
1342 1359 5.404096 TGTTGATAAAATGCTCAGCACATG 58.596 37.500 0.00 0.00 43.04 3.21
1364 1381 9.897744 ATTGTACACACTTTCAGAAATATGTTG 57.102 29.630 9.31 8.29 0.00 3.33
1613 1630 9.830975 AAGTGCACTTAAGAATTTAAAAACCAT 57.169 25.926 30.25 0.00 33.79 3.55
1664 1685 9.553418 GCAACAAACAAAGACATTTTACATTTT 57.447 25.926 0.00 0.00 0.00 1.82
1665 1686 8.180920 GGCAACAAACAAAGACATTTTACATTT 58.819 29.630 0.00 0.00 0.00 2.32
1666 1687 7.693020 GGCAACAAACAAAGACATTTTACATT 58.307 30.769 0.00 0.00 0.00 2.71
1667 1688 7.245419 GGCAACAAACAAAGACATTTTACAT 57.755 32.000 0.00 0.00 0.00 2.29
1668 1689 6.654793 GGCAACAAACAAAGACATTTTACA 57.345 33.333 0.00 0.00 0.00 2.41
1773 1794 9.709495 ACATACATTTCAAAACATAAATGCACT 57.291 25.926 7.50 0.00 43.65 4.40
1873 1895 1.223487 GCCGCCTCCCAACTAATGA 59.777 57.895 0.00 0.00 0.00 2.57
1889 1912 3.267860 CAAGCTCATCTCGCCGCC 61.268 66.667 0.00 0.00 0.00 6.13
1899 1922 2.246739 GCAGCGTGACACAAGCTCA 61.247 57.895 6.37 0.00 45.03 4.26
1930 1953 1.597854 CAGCAACAACAGGAGCCGA 60.598 57.895 0.00 0.00 0.00 5.54
1962 3058 2.009774 ACATGTGCGGCAATAAGACTC 58.990 47.619 3.23 0.00 0.00 3.36
1969 3081 1.130373 CGTTTAGACATGTGCGGCAAT 59.870 47.619 1.15 0.00 0.00 3.56
1992 3104 3.642778 CTAGTGGTGGGCGTGACCG 62.643 68.421 0.00 0.00 40.62 4.79
2005 3117 4.241681 GCTCAACTCTCTTGTTCCTAGTG 58.758 47.826 0.00 0.00 0.00 2.74
2015 4290 1.001406 CCTCAACCGCTCAACTCTCTT 59.999 52.381 0.00 0.00 0.00 2.85
2036 4311 5.676331 GCTTTTCGTGTCTTCCTGTCTTTTT 60.676 40.000 0.00 0.00 0.00 1.94
2042 4317 2.622064 AGCTTTTCGTGTCTTCCTGT 57.378 45.000 0.00 0.00 0.00 4.00
2047 4322 3.664107 TCATGCTAGCTTTTCGTGTCTT 58.336 40.909 17.23 0.00 0.00 3.01
2057 4353 3.700538 TGGAAACCAATCATGCTAGCTT 58.299 40.909 17.23 6.81 0.00 3.74
2058 4354 3.370840 TGGAAACCAATCATGCTAGCT 57.629 42.857 17.23 0.00 0.00 3.32
2061 4357 5.999205 ACATTTGGAAACCAATCATGCTA 57.001 34.783 12.32 0.00 43.55 3.49
2062 4358 4.895668 ACATTTGGAAACCAATCATGCT 57.104 36.364 12.32 2.17 43.55 3.79
2086 4382 4.852650 GCAATTACAAATGTTTGGCAATGC 59.147 37.500 0.00 0.00 42.34 3.56
2089 4385 5.819379 TCTTGCAATTACAAATGTTTGGCAA 59.181 32.000 0.00 12.41 42.34 4.52
2090 4386 5.236047 GTCTTGCAATTACAAATGTTTGGCA 59.764 36.000 0.00 6.40 42.34 4.92
2091 4387 5.466393 AGTCTTGCAATTACAAATGTTTGGC 59.534 36.000 0.00 4.14 42.34 4.52
2092 4388 7.011295 ACAAGTCTTGCAATTACAAATGTTTGG 59.989 33.333 12.66 0.00 42.34 3.28
2093 4389 7.908230 ACAAGTCTTGCAATTACAAATGTTTG 58.092 30.769 12.66 4.04 43.62 2.93
2095 4391 7.264221 TGACAAGTCTTGCAATTACAAATGTT 58.736 30.769 12.66 0.00 0.00 2.71
2096 4392 6.804677 TGACAAGTCTTGCAATTACAAATGT 58.195 32.000 12.66 8.40 0.00 2.71
2097 4393 7.697352 TTGACAAGTCTTGCAATTACAAATG 57.303 32.000 12.66 5.50 0.00 2.32
2098 4394 8.891671 ATTTGACAAGTCTTGCAATTACAAAT 57.108 26.923 12.66 15.11 32.14 2.32
2099 4395 9.979578 ATATTTGACAAGTCTTGCAATTACAAA 57.020 25.926 12.66 13.85 30.75 2.83
2103 4399 9.787532 GCTAATATTTGACAAGTCTTGCAATTA 57.212 29.630 12.66 15.63 30.75 1.40
2104 4400 8.306038 TGCTAATATTTGACAAGTCTTGCAATT 58.694 29.630 12.66 14.31 30.75 2.32
2105 4401 7.829725 TGCTAATATTTGACAAGTCTTGCAAT 58.170 30.769 12.66 10.55 30.75 3.56
2106 4402 7.213216 TGCTAATATTTGACAAGTCTTGCAA 57.787 32.000 12.66 13.79 0.00 4.08
2107 4403 6.816134 TGCTAATATTTGACAAGTCTTGCA 57.184 33.333 12.66 8.77 0.00 4.08
2110 4406 9.066892 TCAAGTTGCTAATATTTGACAAGTCTT 57.933 29.630 0.00 3.74 0.00 3.01
2111 4407 8.621532 TCAAGTTGCTAATATTTGACAAGTCT 57.378 30.769 0.00 0.00 0.00 3.24
2116 4412 8.394877 CGGTTATCAAGTTGCTAATATTTGACA 58.605 33.333 2.70 0.00 31.34 3.58
2118 4414 8.725405 TCGGTTATCAAGTTGCTAATATTTGA 57.275 30.769 2.70 0.00 32.90 2.69
2119 4415 9.599322 GATCGGTTATCAAGTTGCTAATATTTG 57.401 33.333 2.70 0.00 34.46 2.32
2120 4416 9.337396 TGATCGGTTATCAAGTTGCTAATATTT 57.663 29.630 2.70 0.00 41.75 1.40
2121 4417 8.902540 TGATCGGTTATCAAGTTGCTAATATT 57.097 30.769 2.70 0.00 41.75 1.28
2139 4435 9.998106 ACAAATATTAGCTACTAATTGATCGGT 57.002 29.630 19.99 1.34 37.72 4.69
2148 4444 9.982651 GAGACCATGACAAATATTAGCTACTAA 57.017 33.333 0.00 0.00 0.00 2.24
2149 4445 9.143155 TGAGACCATGACAAATATTAGCTACTA 57.857 33.333 0.00 0.00 0.00 1.82
2150 4446 8.023021 TGAGACCATGACAAATATTAGCTACT 57.977 34.615 0.00 0.00 0.00 2.57
2151 4447 8.662781 TTGAGACCATGACAAATATTAGCTAC 57.337 34.615 0.00 0.00 0.00 3.58
2152 4448 9.851686 ATTTGAGACCATGACAAATATTAGCTA 57.148 29.630 13.83 0.00 40.74 3.32
2153 4449 8.757982 ATTTGAGACCATGACAAATATTAGCT 57.242 30.769 13.83 0.00 40.74 3.32
2159 4455 8.821686 ACCAATATTTGAGACCATGACAAATA 57.178 30.769 19.03 19.03 44.62 1.40
2160 4456 7.722949 ACCAATATTTGAGACCATGACAAAT 57.277 32.000 17.10 17.10 43.48 2.32
2161 4457 8.821686 ATACCAATATTTGAGACCATGACAAA 57.178 30.769 0.00 2.27 37.79 2.83
2162 4458 8.821686 AATACCAATATTTGAGACCATGACAA 57.178 30.769 0.00 0.00 0.00 3.18
2163 4459 7.502226 GGAATACCAATATTTGAGACCATGACA 59.498 37.037 0.00 0.00 30.77 3.58
2164 4460 7.307989 CGGAATACCAATATTTGAGACCATGAC 60.308 40.741 0.00 0.00 35.59 3.06
2165 4461 6.710295 CGGAATACCAATATTTGAGACCATGA 59.290 38.462 0.00 0.00 35.59 3.07
2166 4462 6.568462 GCGGAATACCAATATTTGAGACCATG 60.568 42.308 0.00 0.00 35.59 3.66
2167 4463 5.473504 GCGGAATACCAATATTTGAGACCAT 59.526 40.000 0.00 0.00 35.59 3.55
2168 4464 4.819630 GCGGAATACCAATATTTGAGACCA 59.180 41.667 0.00 0.00 35.59 4.02
2169 4465 4.819630 TGCGGAATACCAATATTTGAGACC 59.180 41.667 0.00 0.00 35.59 3.85
2170 4466 6.560253 ATGCGGAATACCAATATTTGAGAC 57.440 37.500 0.00 0.00 35.59 3.36
2171 4467 6.016360 CCAATGCGGAATACCAATATTTGAGA 60.016 38.462 0.00 0.00 36.56 3.27
2172 4468 6.016360 TCCAATGCGGAATACCAATATTTGAG 60.016 38.462 0.00 0.00 42.52 3.02
2173 4469 5.830457 TCCAATGCGGAATACCAATATTTGA 59.170 36.000 0.00 0.00 42.52 2.69
2174 4470 6.083098 TCCAATGCGGAATACCAATATTTG 57.917 37.500 0.00 0.00 42.52 2.32
2187 4483 3.743521 CCAAGATAGATTCCAATGCGGA 58.256 45.455 0.00 0.00 44.40 5.54
2188 4484 2.227388 GCCAAGATAGATTCCAATGCGG 59.773 50.000 0.00 0.00 0.00 5.69
2189 4485 3.058432 CAGCCAAGATAGATTCCAATGCG 60.058 47.826 0.00 0.00 0.00 4.73
2190 4486 3.305199 GCAGCCAAGATAGATTCCAATGC 60.305 47.826 0.00 0.00 0.00 3.56
2191 4487 3.255149 GGCAGCCAAGATAGATTCCAATG 59.745 47.826 6.55 0.00 0.00 2.82
2192 4488 3.117398 TGGCAGCCAAGATAGATTCCAAT 60.117 43.478 13.33 0.00 0.00 3.16
2193 4489 2.241941 TGGCAGCCAAGATAGATTCCAA 59.758 45.455 13.33 0.00 0.00 3.53
2194 4490 1.845791 TGGCAGCCAAGATAGATTCCA 59.154 47.619 13.33 0.00 0.00 3.53
2195 4491 2.645838 TGGCAGCCAAGATAGATTCC 57.354 50.000 13.33 0.00 0.00 3.01
2234 4530 1.534729 AGATTTGGACGGTGAAAGCC 58.465 50.000 0.00 0.00 0.00 4.35
2258 4556 4.462834 TGGAGAGAAATAGCGAGTCTTGAA 59.537 41.667 0.00 0.00 0.00 2.69


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

AutoCloner maintained by Alex Coulton.