Multiple sequence alignment - TraesCS7D01G364300

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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 TraesCS7D01G364300 chr7D 100.000 3326 0 0 1 3326 469523410 469526735 0.000000e+00 6143.0
1 TraesCS7D01G364300 chr7B 95.552 2608 80 10 719 3326 493228791 493231362 0.000000e+00 4141.0
2 TraesCS7D01G364300 chr7B 88.619 536 44 12 207 727 493227125 493227658 1.300000e-178 636.0
3 TraesCS7D01G364300 chr7B 84.112 107 16 1 305 411 364629556 364629661 5.870000e-18 102.0
4 TraesCS7D01G364300 chr7A 93.316 1975 84 23 754 2697 529454391 529452434 0.000000e+00 2872.0
5 TraesCS7D01G364300 chr7A 86.014 143 12 6 2603 2744 529452434 529452299 2.670000e-31 147.0
6 TraesCS7D01G364300 chr2D 100.000 206 0 0 1 206 430018957 430019162 6.730000e-102 381.0
7 TraesCS7D01G364300 chr2D 86.364 66 9 0 1028 1093 409280316 409280381 4.600000e-09 73.1
8 TraesCS7D01G364300 chr5A 98.058 206 2 2 1 206 546820647 546820850 1.130000e-94 357.0
9 TraesCS7D01G364300 chr5A 96.970 33 0 1 299 331 485590409 485590440 2.000000e-03 54.7
10 TraesCS7D01G364300 chr3A 97.087 206 5 1 1 206 15812628 15812424 2.460000e-91 346.0
11 TraesCS7D01G364300 chr2B 96.117 206 8 0 1 206 703665466 703665261 1.480000e-88 337.0
12 TraesCS7D01G364300 chr2B 100.000 38 0 0 1056 1093 484494954 484494917 1.660000e-08 71.3
13 TraesCS7D01G364300 chr2B 82.716 81 9 4 303 380 86216053 86216131 2.140000e-07 67.6
14 TraesCS7D01G364300 chr2A 96.117 206 7 1 1 206 729399889 729400093 5.320000e-88 335.0
15 TraesCS7D01G364300 chr6B 87.745 204 22 3 4 206 388407682 388407481 5.550000e-58 235.0
16 TraesCS7D01G364300 chr3D 90.000 140 12 2 73 211 61678535 61678673 2.640000e-41 180.0
17 TraesCS7D01G364300 chr3D 91.538 130 9 2 73 201 517752100 517752228 9.480000e-41 178.0
18 TraesCS7D01G364300 chr4D 89.706 136 12 2 73 207 18477689 18477555 4.410000e-39 172.0
19 TraesCS7D01G364300 chr4D 92.000 50 2 2 299 348 98943385 98943338 5.950000e-08 69.4
20 TraesCS7D01G364300 chr3B 78.613 173 30 6 319 486 59687939 59688109 1.260000e-19 108.0
21 TraesCS7D01G364300 chr3B 78.613 173 30 6 319 486 59699587 59699757 1.260000e-19 108.0
22 TraesCS7D01G364300 chr6D 79.231 130 21 5 299 426 359350900 359351025 5.910000e-13 86.1


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 TraesCS7D01G364300 chr7D 469523410 469526735 3325 False 6143.0 6143 100.0000 1 3326 1 chr7D.!!$F1 3325
1 TraesCS7D01G364300 chr7B 493227125 493231362 4237 False 2388.5 4141 92.0855 207 3326 2 chr7B.!!$F2 3119
2 TraesCS7D01G364300 chr7A 529452299 529454391 2092 True 1509.5 2872 89.6650 754 2744 2 chr7A.!!$R1 1990

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
399 402 0.037605 ACGGTGACTTCGTCAATCCC 60.038 55.0 0.00 0.0 44.49 3.85 F
1380 2558 0.252881 TCACTCCTTGGAGCAGGGAT 60.253 55.0 15.93 0.0 38.90 3.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1678 2856 1.816537 GCAGTGCTGGTCGAGGATA 59.183 57.895 8.18 0.0 0.00 2.59 R
3271 4548 1.179174 ACAAAAGCGCTTTCTCCCCC 61.179 55.000 33.69 0.0 31.45 5.40 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
22 23 3.289797 TTTGGTCAAACAGGTGCCA 57.710 47.368 0.00 0.00 0.00 4.92
23 24 1.561643 TTTGGTCAAACAGGTGCCAA 58.438 45.000 0.00 0.00 34.78 4.52
24 25 1.110442 TTGGTCAAACAGGTGCCAAG 58.890 50.000 0.00 0.00 32.97 3.61
25 26 0.754957 TGGTCAAACAGGTGCCAAGG 60.755 55.000 0.00 0.00 0.00 3.61
26 27 1.463553 GGTCAAACAGGTGCCAAGGG 61.464 60.000 0.00 0.00 0.00 3.95
27 28 1.152567 TCAAACAGGTGCCAAGGGG 60.153 57.895 0.00 0.00 37.18 4.79
28 29 1.457455 CAAACAGGTGCCAAGGGGT 60.457 57.895 0.00 0.00 36.17 4.95
29 30 0.178975 CAAACAGGTGCCAAGGGGTA 60.179 55.000 0.00 0.00 36.17 3.69
30 31 0.112412 AAACAGGTGCCAAGGGGTAG 59.888 55.000 0.00 0.00 36.17 3.18
31 32 1.065997 AACAGGTGCCAAGGGGTAGT 61.066 55.000 0.00 0.00 36.17 2.73
32 33 1.065997 ACAGGTGCCAAGGGGTAGTT 61.066 55.000 0.00 0.00 36.17 2.24
33 34 0.112412 CAGGTGCCAAGGGGTAGTTT 59.888 55.000 0.00 0.00 36.17 2.66
34 35 0.112412 AGGTGCCAAGGGGTAGTTTG 59.888 55.000 0.00 0.00 36.17 2.93
35 36 0.898326 GGTGCCAAGGGGTAGTTTGG 60.898 60.000 0.00 0.00 45.28 3.28
37 38 4.434483 CCAAGGGGTAGTTTGGCC 57.566 61.111 0.00 0.00 37.61 5.36
38 39 1.462928 CCAAGGGGTAGTTTGGCCA 59.537 57.895 0.00 0.00 37.61 5.36
39 40 0.898326 CCAAGGGGTAGTTTGGCCAC 60.898 60.000 3.88 0.00 37.61 5.01
40 41 0.112412 CAAGGGGTAGTTTGGCCACT 59.888 55.000 3.88 2.09 40.90 4.00
41 42 0.112412 AAGGGGTAGTTTGGCCACTG 59.888 55.000 3.88 0.00 38.75 3.66
42 43 1.065997 AGGGGTAGTTTGGCCACTGT 61.066 55.000 3.88 0.00 37.09 3.55
43 44 0.178973 GGGGTAGTTTGGCCACTGTT 60.179 55.000 3.88 0.00 0.00 3.16
44 45 1.699730 GGGTAGTTTGGCCACTGTTT 58.300 50.000 3.88 0.00 0.00 2.83
45 46 2.036387 GGGTAGTTTGGCCACTGTTTT 58.964 47.619 3.88 0.00 0.00 2.43
46 47 2.432874 GGGTAGTTTGGCCACTGTTTTT 59.567 45.455 3.88 0.00 0.00 1.94
47 48 3.637694 GGGTAGTTTGGCCACTGTTTTTA 59.362 43.478 3.88 0.00 0.00 1.52
48 49 4.261867 GGGTAGTTTGGCCACTGTTTTTAG 60.262 45.833 3.88 0.00 0.00 1.85
49 50 4.261867 GGTAGTTTGGCCACTGTTTTTAGG 60.262 45.833 3.88 0.00 0.00 2.69
50 51 2.102420 AGTTTGGCCACTGTTTTTAGGC 59.898 45.455 3.88 0.00 46.28 3.93
60 61 8.352752 GCCACTGTTTTTAGGCATATAATTTC 57.647 34.615 0.00 0.00 46.26 2.17
61 62 7.978975 GCCACTGTTTTTAGGCATATAATTTCA 59.021 33.333 0.00 0.00 46.26 2.69
62 63 9.301153 CCACTGTTTTTAGGCATATAATTTCAC 57.699 33.333 0.00 0.00 0.00 3.18
91 92 9.118300 ACAATTTAAATGATTGTTTTTGAGGCA 57.882 25.926 0.39 0.00 43.23 4.75
92 93 9.947669 CAATTTAAATGATTGTTTTTGAGGCAA 57.052 25.926 0.39 0.00 31.47 4.52
104 105 6.993786 TTTTTGAGGCAAAAAGGGTAAAAG 57.006 33.333 12.50 0.00 44.78 2.27
105 106 5.941555 TTTGAGGCAAAAAGGGTAAAAGA 57.058 34.783 0.00 0.00 29.89 2.52
106 107 6.493189 TTTGAGGCAAAAAGGGTAAAAGAT 57.507 33.333 0.00 0.00 29.89 2.40
107 108 5.722021 TGAGGCAAAAAGGGTAAAAGATC 57.278 39.130 0.00 0.00 0.00 2.75
108 109 5.144100 TGAGGCAAAAAGGGTAAAAGATCA 58.856 37.500 0.00 0.00 0.00 2.92
109 110 5.600484 TGAGGCAAAAAGGGTAAAAGATCAA 59.400 36.000 0.00 0.00 0.00 2.57
110 111 6.098982 TGAGGCAAAAAGGGTAAAAGATCAAA 59.901 34.615 0.00 0.00 0.00 2.69
111 112 6.524734 AGGCAAAAAGGGTAAAAGATCAAAG 58.475 36.000 0.00 0.00 0.00 2.77
112 113 6.099701 AGGCAAAAAGGGTAAAAGATCAAAGT 59.900 34.615 0.00 0.00 0.00 2.66
113 114 6.423905 GGCAAAAAGGGTAAAAGATCAAAGTC 59.576 38.462 0.00 0.00 0.00 3.01
114 115 6.423905 GCAAAAAGGGTAAAAGATCAAAGTCC 59.576 38.462 0.00 0.00 0.00 3.85
115 116 7.496747 CAAAAAGGGTAAAAGATCAAAGTCCA 58.503 34.615 0.00 0.00 0.00 4.02
116 117 7.669089 AAAAGGGTAAAAGATCAAAGTCCAA 57.331 32.000 0.00 0.00 0.00 3.53
117 118 7.669089 AAAGGGTAAAAGATCAAAGTCCAAA 57.331 32.000 0.00 0.00 0.00 3.28
118 119 6.650427 AGGGTAAAAGATCAAAGTCCAAAC 57.350 37.500 0.00 0.00 0.00 2.93
119 120 6.373759 AGGGTAAAAGATCAAAGTCCAAACT 58.626 36.000 0.00 0.00 37.32 2.66
120 121 7.523415 AGGGTAAAAGATCAAAGTCCAAACTA 58.477 34.615 0.00 0.00 33.48 2.24
121 122 8.002459 AGGGTAAAAGATCAAAGTCCAAACTAA 58.998 33.333 0.00 0.00 33.48 2.24
122 123 8.297426 GGGTAAAAGATCAAAGTCCAAACTAAG 58.703 37.037 0.00 0.00 33.48 2.18
123 124 8.847196 GGTAAAAGATCAAAGTCCAAACTAAGT 58.153 33.333 0.00 0.00 33.48 2.24
126 127 7.881775 AAGATCAAAGTCCAAACTAAGTTGT 57.118 32.000 0.00 0.00 33.48 3.32
127 128 7.264373 AGATCAAAGTCCAAACTAAGTTGTG 57.736 36.000 0.00 0.00 33.48 3.33
128 129 5.828299 TCAAAGTCCAAACTAAGTTGTGG 57.172 39.130 0.00 0.00 33.48 4.17
129 130 4.097286 TCAAAGTCCAAACTAAGTTGTGGC 59.903 41.667 0.00 0.00 33.48 5.01
130 131 3.290948 AGTCCAAACTAAGTTGTGGCA 57.709 42.857 0.00 0.00 32.59 4.92
131 132 3.626930 AGTCCAAACTAAGTTGTGGCAA 58.373 40.909 0.00 0.00 32.59 4.52
132 133 4.020543 AGTCCAAACTAAGTTGTGGCAAA 58.979 39.130 0.00 0.00 32.59 3.68
133 134 4.464597 AGTCCAAACTAAGTTGTGGCAAAA 59.535 37.500 0.00 0.00 32.59 2.44
134 135 5.046950 AGTCCAAACTAAGTTGTGGCAAAAA 60.047 36.000 0.00 0.00 32.59 1.94
158 159 7.568199 AATCAATTACTATGTAACCAGTGGC 57.432 36.000 9.78 0.00 0.00 5.01
159 160 6.056090 TCAATTACTATGTAACCAGTGGCA 57.944 37.500 9.78 0.00 0.00 4.92
160 161 6.477253 TCAATTACTATGTAACCAGTGGCAA 58.523 36.000 9.78 0.00 0.00 4.52
161 162 6.943146 TCAATTACTATGTAACCAGTGGCAAA 59.057 34.615 9.78 0.00 0.00 3.68
162 163 7.613801 TCAATTACTATGTAACCAGTGGCAAAT 59.386 33.333 9.78 0.28 0.00 2.32
163 164 7.954666 ATTACTATGTAACCAGTGGCAAATT 57.045 32.000 9.78 0.00 0.00 1.82
164 165 5.643379 ACTATGTAACCAGTGGCAAATTG 57.357 39.130 9.78 1.90 0.00 2.32
165 166 5.076873 ACTATGTAACCAGTGGCAAATTGT 58.923 37.500 9.78 2.55 0.00 2.71
166 167 4.519540 ATGTAACCAGTGGCAAATTGTC 57.480 40.909 9.78 0.00 0.00 3.18
167 168 3.291584 TGTAACCAGTGGCAAATTGTCA 58.708 40.909 9.78 0.00 0.00 3.58
168 169 3.701542 TGTAACCAGTGGCAAATTGTCAA 59.298 39.130 9.78 0.00 31.67 3.18
169 170 3.902881 AACCAGTGGCAAATTGTCAAA 57.097 38.095 9.78 0.00 31.67 2.69
170 171 3.457610 ACCAGTGGCAAATTGTCAAAG 57.542 42.857 9.78 0.00 31.67 2.77
171 172 3.030291 ACCAGTGGCAAATTGTCAAAGA 58.970 40.909 9.78 0.00 31.67 2.52
172 173 3.068590 ACCAGTGGCAAATTGTCAAAGAG 59.931 43.478 9.78 0.00 31.67 2.85
173 174 3.054878 CAGTGGCAAATTGTCAAAGAGC 58.945 45.455 0.31 0.00 31.67 4.09
174 175 2.694628 AGTGGCAAATTGTCAAAGAGCA 59.305 40.909 0.31 0.00 31.67 4.26
175 176 3.132646 AGTGGCAAATTGTCAAAGAGCAA 59.867 39.130 0.31 0.00 31.67 3.91
176 177 3.870419 GTGGCAAATTGTCAAAGAGCAAA 59.130 39.130 0.31 0.00 31.67 3.68
177 178 4.025480 GTGGCAAATTGTCAAAGAGCAAAG 60.025 41.667 0.31 0.00 31.67 2.77
178 179 4.122046 GGCAAATTGTCAAAGAGCAAAGT 58.878 39.130 0.00 0.00 0.00 2.66
179 180 5.163468 TGGCAAATTGTCAAAGAGCAAAGTA 60.163 36.000 0.00 0.00 0.00 2.24
180 181 5.752955 GGCAAATTGTCAAAGAGCAAAGTAA 59.247 36.000 0.00 0.00 0.00 2.24
181 182 6.257630 GGCAAATTGTCAAAGAGCAAAGTAAA 59.742 34.615 0.00 0.00 0.00 2.01
182 183 7.119360 GCAAATTGTCAAAGAGCAAAGTAAAC 58.881 34.615 0.00 0.00 0.00 2.01
183 184 7.010460 GCAAATTGTCAAAGAGCAAAGTAAACT 59.990 33.333 0.00 0.00 0.00 2.66
184 185 7.992180 AATTGTCAAAGAGCAAAGTAAACTG 57.008 32.000 0.00 0.00 0.00 3.16
185 186 6.509418 TTGTCAAAGAGCAAAGTAAACTGT 57.491 33.333 0.00 0.00 0.00 3.55
186 187 5.879237 TGTCAAAGAGCAAAGTAAACTGTG 58.121 37.500 0.00 0.00 34.31 3.66
187 188 5.163663 TGTCAAAGAGCAAAGTAAACTGTGG 60.164 40.000 2.57 0.00 31.81 4.17
188 189 3.990318 AAGAGCAAAGTAAACTGTGGC 57.010 42.857 2.57 0.00 31.81 5.01
189 190 2.930950 AGAGCAAAGTAAACTGTGGCA 58.069 42.857 2.57 0.00 31.81 4.92
190 191 3.287222 AGAGCAAAGTAAACTGTGGCAA 58.713 40.909 2.57 0.00 31.81 4.52
191 192 3.699038 AGAGCAAAGTAAACTGTGGCAAA 59.301 39.130 2.57 0.00 31.81 3.68
192 193 4.159506 AGAGCAAAGTAAACTGTGGCAAAA 59.840 37.500 2.57 0.00 31.81 2.44
193 194 4.826556 AGCAAAGTAAACTGTGGCAAAAA 58.173 34.783 2.57 0.00 31.81 1.94
250 251 3.551635 AGGATACCTCAGATGGGTAGG 57.448 52.381 0.00 0.00 41.81 3.18
291 292 6.127897 CCAATCCACTGATCAAGTTTTAGACC 60.128 42.308 0.00 0.00 36.83 3.85
300 301 3.330701 TCAAGTTTTAGACCTGGCCTCAT 59.669 43.478 3.32 0.00 0.00 2.90
306 309 6.603599 AGTTTTAGACCTGGCCTCATATTTTC 59.396 38.462 3.32 0.00 0.00 2.29
329 332 8.718102 TTCTAGATTTATTTCAGTCTTTCCGG 57.282 34.615 0.00 0.00 0.00 5.14
330 333 5.819825 AGATTTATTTCAGTCTTTCCGGC 57.180 39.130 0.00 0.00 0.00 6.13
331 334 4.332819 AGATTTATTTCAGTCTTTCCGGCG 59.667 41.667 0.00 0.00 0.00 6.46
337 340 1.156736 CAGTCTTTCCGGCGATGTTT 58.843 50.000 9.30 0.00 0.00 2.83
341 344 3.621715 AGTCTTTCCGGCGATGTTTATTC 59.378 43.478 9.30 0.00 0.00 1.75
381 384 9.978044 ATTCCTATCGACTATAAAGGTGTTTAC 57.022 33.333 0.00 0.00 30.79 2.01
389 392 6.762333 ACTATAAAGGTGTTTACGGTGACTT 58.238 36.000 0.00 0.00 30.79 3.01
391 394 2.144482 AGGTGTTTACGGTGACTTCG 57.856 50.000 0.00 0.00 0.00 3.79
393 396 1.788886 GGTGTTTACGGTGACTTCGTC 59.211 52.381 0.00 0.00 41.38 4.20
398 401 2.642139 TACGGTGACTTCGTCAATCC 57.358 50.000 0.00 0.00 44.49 3.01
399 402 0.037605 ACGGTGACTTCGTCAATCCC 60.038 55.000 0.00 0.00 44.49 3.85
408 411 3.753272 ACTTCGTCAATCCCAAGATGTTG 59.247 43.478 0.00 0.00 31.29 3.33
415 418 0.327924 TCCCAAGATGTTGTGCCGAT 59.672 50.000 1.49 0.00 30.95 4.18
417 420 1.133025 CCCAAGATGTTGTGCCGATTC 59.867 52.381 1.49 0.00 30.95 2.52
419 422 2.159476 CCAAGATGTTGTGCCGATTCAG 60.159 50.000 1.49 0.00 30.95 3.02
420 423 2.479566 AGATGTTGTGCCGATTCAGT 57.520 45.000 0.00 0.00 0.00 3.41
425 428 3.521560 TGTTGTGCCGATTCAGTATCTC 58.478 45.455 0.00 0.00 0.00 2.75
435 438 4.619973 GATTCAGTATCTCAGAGTGCTGG 58.380 47.826 13.94 0.00 42.53 4.85
494 497 9.627123 AAGTTTATGTGTGTGTATATAGGCATT 57.373 29.630 0.00 0.00 0.00 3.56
495 498 9.056005 AGTTTATGTGTGTGTATATAGGCATTG 57.944 33.333 0.00 0.00 0.00 2.82
496 499 8.836413 GTTTATGTGTGTGTATATAGGCATTGT 58.164 33.333 0.00 0.00 0.00 2.71
498 501 7.962964 ATGTGTGTGTATATAGGCATTGTAC 57.037 36.000 0.00 0.00 0.00 2.90
502 505 9.537192 GTGTGTGTATATAGGCATTGTACTTTA 57.463 33.333 0.00 0.00 0.00 1.85
503 506 9.537192 TGTGTGTATATAGGCATTGTACTTTAC 57.463 33.333 0.00 0.00 0.00 2.01
504 507 9.760077 GTGTGTATATAGGCATTGTACTTTACT 57.240 33.333 0.00 0.00 0.00 2.24
546 560 1.008538 GCACTGCACCACGGAAAAG 60.009 57.895 0.00 0.00 0.00 2.27
548 562 2.193536 ACTGCACCACGGAAAAGGC 61.194 57.895 0.00 0.00 0.00 4.35
553 567 1.247567 CACCACGGAAAAGGCAGATT 58.752 50.000 0.00 0.00 0.00 2.40
573 587 7.164826 GCAGATTGTCGTTTCAACATATTGATC 59.835 37.037 0.00 0.00 44.36 2.92
574 588 7.641411 CAGATTGTCGTTTCAACATATTGATCC 59.359 37.037 0.00 0.00 44.36 3.36
576 590 4.932799 TGTCGTTTCAACATATTGATCCGT 59.067 37.500 5.73 0.00 44.36 4.69
578 592 5.732647 GTCGTTTCAACATATTGATCCGTTG 59.267 40.000 5.73 0.00 44.36 4.10
592 606 1.201181 TCCGTTGTATGCCATGTTTGC 59.799 47.619 0.00 0.00 0.00 3.68
727 741 9.886132 TCAAATAAAAGAGACCTAAGGTGTATC 57.114 33.333 0.00 0.00 35.25 2.24
769 1924 2.750166 TCTCTTGTACGAGGAAGCTCAG 59.250 50.000 10.33 0.00 0.00 3.35
896 2064 5.351740 GTCCTTAGTCCGATTCTCCTTTTTG 59.648 44.000 0.00 0.00 0.00 2.44
996 2174 0.610232 CCTTCACCTCCAGCCCAAAG 60.610 60.000 0.00 0.00 0.00 2.77
1033 2211 4.649705 TCTCCCGCCTCAACCCCA 62.650 66.667 0.00 0.00 0.00 4.96
1100 2278 1.292546 CCCCTCTCCTTTCTCCTACCT 59.707 57.143 0.00 0.00 0.00 3.08
1380 2558 0.252881 TCACTCCTTGGAGCAGGGAT 60.253 55.000 15.93 0.00 38.90 3.85
1455 2633 3.948719 TCTTCCGCGGGCAAACCT 61.949 61.111 27.83 0.00 36.97 3.50
1500 2678 2.529632 GCCTTCAACCCCAAAGAGAAT 58.470 47.619 0.00 0.00 0.00 2.40
1678 2856 2.438763 CAGGAAGAGGAGATTCATGGCT 59.561 50.000 0.00 0.00 35.41 4.75
2199 3377 2.811317 CTCGTGGCGCACTTCTCC 60.811 66.667 10.83 0.00 31.34 3.71
2396 3574 9.452065 CTATCAATCAATCTTTCTTGCATTCTG 57.548 33.333 0.00 0.00 0.00 3.02
2477 3655 4.272504 CCATGTGTTCTACAAAGTGTCGTT 59.727 41.667 0.00 0.00 43.77 3.85
2534 3718 7.148355 AGAACTAGTAGTAGCAGAAGTGTTC 57.852 40.000 2.50 0.00 0.00 3.18
2576 3760 1.447945 TGTTGTATGACATGCCGGTG 58.552 50.000 1.90 0.00 0.00 4.94
2577 3761 1.271108 TGTTGTATGACATGCCGGTGT 60.271 47.619 1.90 0.00 34.39 4.16
2578 3762 1.130373 GTTGTATGACATGCCGGTGTG 59.870 52.381 1.90 4.85 31.16 3.82
2579 3763 1.024046 TGTATGACATGCCGGTGTGC 61.024 55.000 1.90 0.00 31.16 4.57
2774 4051 8.839310 ACAGAAGAAGAATCAATTATATCCGG 57.161 34.615 0.00 0.00 0.00 5.14
2808 4085 8.031277 GCTTCAGAACCAAAATATTCAGTTGAT 58.969 33.333 0.79 0.00 0.00 2.57
2809 4086 9.918630 CTTCAGAACCAAAATATTCAGTTGATT 57.081 29.630 0.79 0.00 0.00 2.57
2849 4126 1.216710 CCGTGACAGCCTCTTCTCC 59.783 63.158 0.00 0.00 0.00 3.71
2850 4127 1.254284 CCGTGACAGCCTCTTCTCCT 61.254 60.000 0.00 0.00 0.00 3.69
2851 4128 0.605589 CGTGACAGCCTCTTCTCCTT 59.394 55.000 0.00 0.00 0.00 3.36
2858 4135 5.707298 TGACAGCCTCTTCTCCTTAAATTTG 59.293 40.000 0.00 0.00 0.00 2.32
2918 4195 4.946160 TGGGGGAGAATACATTTCTGTT 57.054 40.909 0.00 0.00 36.79 3.16
2925 4202 5.293569 GGAGAATACATTTCTGTTGGGTACG 59.706 44.000 0.00 0.00 36.79 3.67
2945 4222 6.071784 GGTACGTTTTATTTGGATGGAAACCT 60.072 38.462 0.00 0.00 0.00 3.50
3040 4317 7.750229 TTGAAACTTTGATAGAGCTGTTCAT 57.250 32.000 0.00 0.00 0.00 2.57
3158 4435 0.984230 AGGCTTCGTCTTCCCATTCA 59.016 50.000 0.00 0.00 0.00 2.57
3159 4436 1.561542 AGGCTTCGTCTTCCCATTCAT 59.438 47.619 0.00 0.00 0.00 2.57
3179 4456 8.663025 CATTCATAATCCGATTTAGAGTCATGG 58.337 37.037 0.00 0.00 0.00 3.66
3184 4461 4.129380 TCCGATTTAGAGTCATGGCAATG 58.871 43.478 0.00 0.00 34.88 2.82
3194 4471 2.019249 TCATGGCAATGTCTAGCAAGC 58.981 47.619 0.00 0.00 35.15 4.01
3220 4497 0.603065 GCCAAACAATTCGCTTCCCT 59.397 50.000 0.00 0.00 0.00 4.20
3256 4533 9.507280 CGAGTTCAAAATTTACTAATGCATGAT 57.493 29.630 0.00 0.00 0.00 2.45
3304 4581 3.536570 GCTTTTGTTGTTTTGGGGCTTA 58.463 40.909 0.00 0.00 0.00 3.09
3306 4583 4.508662 CTTTTGTTGTTTTGGGGCTTACA 58.491 39.130 0.00 0.00 0.00 2.41
3312 4589 6.831976 TGTTGTTTTGGGGCTTACATTTATT 58.168 32.000 0.00 0.00 0.00 1.40
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
4 5 1.480137 CTTGGCACCTGTTTGACCAAA 59.520 47.619 0.00 0.00 39.76 3.28
5 6 1.110442 CTTGGCACCTGTTTGACCAA 58.890 50.000 0.00 0.00 38.04 3.67
6 7 0.754957 CCTTGGCACCTGTTTGACCA 60.755 55.000 0.00 0.00 0.00 4.02
7 8 1.463553 CCCTTGGCACCTGTTTGACC 61.464 60.000 0.00 0.00 0.00 4.02
8 9 1.463553 CCCCTTGGCACCTGTTTGAC 61.464 60.000 0.00 0.00 0.00 3.18
9 10 1.152567 CCCCTTGGCACCTGTTTGA 60.153 57.895 0.00 0.00 0.00 2.69
10 11 0.178975 TACCCCTTGGCACCTGTTTG 60.179 55.000 0.00 0.00 33.59 2.93
11 12 0.112412 CTACCCCTTGGCACCTGTTT 59.888 55.000 0.00 0.00 33.59 2.83
12 13 1.065997 ACTACCCCTTGGCACCTGTT 61.066 55.000 0.00 0.00 33.59 3.16
13 14 1.065997 AACTACCCCTTGGCACCTGT 61.066 55.000 0.00 0.00 33.59 4.00
14 15 0.112412 AAACTACCCCTTGGCACCTG 59.888 55.000 0.00 0.00 33.59 4.00
15 16 0.112412 CAAACTACCCCTTGGCACCT 59.888 55.000 0.00 0.00 33.59 4.00
16 17 0.898326 CCAAACTACCCCTTGGCACC 60.898 60.000 0.00 0.00 35.97 5.01
17 18 2.653557 CCAAACTACCCCTTGGCAC 58.346 57.895 0.00 0.00 35.97 5.01
20 21 0.898326 GTGGCCAAACTACCCCTTGG 60.898 60.000 7.24 0.00 44.23 3.61
21 22 0.112412 AGTGGCCAAACTACCCCTTG 59.888 55.000 7.24 0.00 0.00 3.61
22 23 0.112412 CAGTGGCCAAACTACCCCTT 59.888 55.000 7.24 0.00 0.00 3.95
23 24 1.065997 ACAGTGGCCAAACTACCCCT 61.066 55.000 7.24 0.00 0.00 4.79
24 25 0.178973 AACAGTGGCCAAACTACCCC 60.179 55.000 7.24 0.00 0.00 4.95
25 26 1.699730 AAACAGTGGCCAAACTACCC 58.300 50.000 7.24 0.00 0.00 3.69
26 27 3.812156 AAAAACAGTGGCCAAACTACC 57.188 42.857 7.24 0.00 0.00 3.18
27 28 4.794981 GCCTAAAAACAGTGGCCAAACTAC 60.795 45.833 7.24 0.00 39.49 2.73
28 29 3.319689 GCCTAAAAACAGTGGCCAAACTA 59.680 43.478 7.24 0.00 39.49 2.24
29 30 2.102420 GCCTAAAAACAGTGGCCAAACT 59.898 45.455 7.24 0.00 39.49 2.66
30 31 2.159028 TGCCTAAAAACAGTGGCCAAAC 60.159 45.455 7.24 0.00 44.32 2.93
31 32 2.111384 TGCCTAAAAACAGTGGCCAAA 58.889 42.857 7.24 0.00 44.32 3.28
32 33 1.781786 TGCCTAAAAACAGTGGCCAA 58.218 45.000 7.24 0.00 44.32 4.52
33 34 2.008242 ATGCCTAAAAACAGTGGCCA 57.992 45.000 0.00 0.00 44.32 5.36
34 35 5.845391 TTATATGCCTAAAAACAGTGGCC 57.155 39.130 0.00 0.00 44.32 5.36
35 36 7.978975 TGAAATTATATGCCTAAAAACAGTGGC 59.021 33.333 0.00 0.00 45.10 5.01
36 37 9.301153 GTGAAATTATATGCCTAAAAACAGTGG 57.699 33.333 0.00 0.00 0.00 4.00
65 66 9.118300 TGCCTCAAAAACAATCATTTAAATTGT 57.882 25.926 0.00 0.00 46.53 2.71
66 67 9.947669 TTGCCTCAAAAACAATCATTTAAATTG 57.052 25.926 0.00 0.00 39.50 2.32
71 72 8.619546 CCTTTTTGCCTCAAAAACAATCATTTA 58.380 29.630 11.93 0.00 44.78 1.40
72 73 7.416551 CCCTTTTTGCCTCAAAAACAATCATTT 60.417 33.333 11.93 0.00 44.78 2.32
73 74 6.039605 CCCTTTTTGCCTCAAAAACAATCATT 59.960 34.615 11.93 0.00 44.78 2.57
74 75 5.532032 CCCTTTTTGCCTCAAAAACAATCAT 59.468 36.000 11.93 0.00 44.78 2.45
75 76 4.880696 CCCTTTTTGCCTCAAAAACAATCA 59.119 37.500 11.93 0.00 44.78 2.57
76 77 4.881273 ACCCTTTTTGCCTCAAAAACAATC 59.119 37.500 11.93 0.00 44.78 2.67
77 78 4.854173 ACCCTTTTTGCCTCAAAAACAAT 58.146 34.783 11.93 0.77 44.78 2.71
78 79 4.293662 ACCCTTTTTGCCTCAAAAACAA 57.706 36.364 11.93 0.00 44.78 2.83
79 80 3.990959 ACCCTTTTTGCCTCAAAAACA 57.009 38.095 11.93 0.00 44.78 2.83
80 81 6.596106 TCTTTTACCCTTTTTGCCTCAAAAAC 59.404 34.615 11.93 0.00 44.78 2.43
81 82 6.712276 TCTTTTACCCTTTTTGCCTCAAAAA 58.288 32.000 14.35 14.35 46.57 1.94
82 83 6.301169 TCTTTTACCCTTTTTGCCTCAAAA 57.699 33.333 1.05 1.05 40.85 2.44
83 84 5.941555 TCTTTTACCCTTTTTGCCTCAAA 57.058 34.783 0.00 0.00 0.00 2.69
84 85 5.600484 TGATCTTTTACCCTTTTTGCCTCAA 59.400 36.000 0.00 0.00 0.00 3.02
85 86 5.144100 TGATCTTTTACCCTTTTTGCCTCA 58.856 37.500 0.00 0.00 0.00 3.86
86 87 5.722021 TGATCTTTTACCCTTTTTGCCTC 57.278 39.130 0.00 0.00 0.00 4.70
87 88 6.099701 ACTTTGATCTTTTACCCTTTTTGCCT 59.900 34.615 0.00 0.00 0.00 4.75
88 89 6.288294 ACTTTGATCTTTTACCCTTTTTGCC 58.712 36.000 0.00 0.00 0.00 4.52
89 90 6.423905 GGACTTTGATCTTTTACCCTTTTTGC 59.576 38.462 0.00 0.00 0.00 3.68
90 91 7.496747 TGGACTTTGATCTTTTACCCTTTTTG 58.503 34.615 0.00 0.00 0.00 2.44
91 92 7.669089 TGGACTTTGATCTTTTACCCTTTTT 57.331 32.000 0.00 0.00 0.00 1.94
92 93 7.669089 TTGGACTTTGATCTTTTACCCTTTT 57.331 32.000 0.00 0.00 0.00 2.27
93 94 7.344612 AGTTTGGACTTTGATCTTTTACCCTTT 59.655 33.333 0.00 0.00 29.87 3.11
94 95 6.839134 AGTTTGGACTTTGATCTTTTACCCTT 59.161 34.615 0.00 0.00 29.87 3.95
95 96 6.373759 AGTTTGGACTTTGATCTTTTACCCT 58.626 36.000 0.00 0.00 29.87 4.34
96 97 6.650427 AGTTTGGACTTTGATCTTTTACCC 57.350 37.500 0.00 0.00 29.87 3.69
97 98 8.847196 ACTTAGTTTGGACTTTGATCTTTTACC 58.153 33.333 0.00 0.00 37.33 2.85
100 101 8.749354 ACAACTTAGTTTGGACTTTGATCTTTT 58.251 29.630 0.00 0.00 37.33 2.27
101 102 8.190784 CACAACTTAGTTTGGACTTTGATCTTT 58.809 33.333 0.00 0.00 37.33 2.52
102 103 7.201821 CCACAACTTAGTTTGGACTTTGATCTT 60.202 37.037 16.02 0.00 37.33 2.40
103 104 6.263168 CCACAACTTAGTTTGGACTTTGATCT 59.737 38.462 16.02 0.00 37.33 2.75
104 105 6.438763 CCACAACTTAGTTTGGACTTTGATC 58.561 40.000 16.02 0.00 37.33 2.92
105 106 5.221244 GCCACAACTTAGTTTGGACTTTGAT 60.221 40.000 21.61 0.00 37.33 2.57
106 107 4.097286 GCCACAACTTAGTTTGGACTTTGA 59.903 41.667 21.61 0.00 37.33 2.69
107 108 4.142271 TGCCACAACTTAGTTTGGACTTTG 60.142 41.667 21.61 3.48 37.33 2.77
108 109 4.020543 TGCCACAACTTAGTTTGGACTTT 58.979 39.130 21.61 0.00 37.33 2.66
109 110 3.626930 TGCCACAACTTAGTTTGGACTT 58.373 40.909 21.61 0.00 37.33 3.01
110 111 3.290948 TGCCACAACTTAGTTTGGACT 57.709 42.857 21.61 0.00 39.97 3.85
111 112 4.379339 TTTGCCACAACTTAGTTTGGAC 57.621 40.909 21.61 15.56 30.83 4.02
112 113 5.407407 TTTTTGCCACAACTTAGTTTGGA 57.593 34.783 21.61 10.16 30.83 3.53
132 133 8.466798 GCCACTGGTTACATAGTAATTGATTTT 58.533 33.333 0.00 0.00 0.00 1.82
133 134 7.613801 TGCCACTGGTTACATAGTAATTGATTT 59.386 33.333 0.00 0.00 0.00 2.17
134 135 7.116075 TGCCACTGGTTACATAGTAATTGATT 58.884 34.615 0.00 0.00 0.00 2.57
135 136 6.658849 TGCCACTGGTTACATAGTAATTGAT 58.341 36.000 0.00 0.00 0.00 2.57
136 137 6.056090 TGCCACTGGTTACATAGTAATTGA 57.944 37.500 0.00 0.00 0.00 2.57
137 138 6.751514 TTGCCACTGGTTACATAGTAATTG 57.248 37.500 0.00 0.00 0.00 2.32
138 139 7.954666 ATTTGCCACTGGTTACATAGTAATT 57.045 32.000 0.00 0.00 0.00 1.40
139 140 7.396055 ACAATTTGCCACTGGTTACATAGTAAT 59.604 33.333 0.00 0.00 0.00 1.89
140 141 6.717540 ACAATTTGCCACTGGTTACATAGTAA 59.282 34.615 0.00 0.00 0.00 2.24
141 142 6.242396 ACAATTTGCCACTGGTTACATAGTA 58.758 36.000 0.00 0.00 0.00 1.82
142 143 5.076873 ACAATTTGCCACTGGTTACATAGT 58.923 37.500 0.00 0.00 0.00 2.12
143 144 5.182950 TGACAATTTGCCACTGGTTACATAG 59.817 40.000 0.00 0.00 0.00 2.23
144 145 5.073428 TGACAATTTGCCACTGGTTACATA 58.927 37.500 0.00 0.00 0.00 2.29
145 146 3.894427 TGACAATTTGCCACTGGTTACAT 59.106 39.130 0.00 0.00 0.00 2.29
146 147 3.291584 TGACAATTTGCCACTGGTTACA 58.708 40.909 0.00 0.00 0.00 2.41
147 148 4.314740 TTGACAATTTGCCACTGGTTAC 57.685 40.909 0.00 0.00 0.00 2.50
148 149 4.646945 TCTTTGACAATTTGCCACTGGTTA 59.353 37.500 0.00 0.00 0.00 2.85
149 150 3.450457 TCTTTGACAATTTGCCACTGGTT 59.550 39.130 0.00 0.00 0.00 3.67
150 151 3.030291 TCTTTGACAATTTGCCACTGGT 58.970 40.909 0.00 0.00 0.00 4.00
151 152 3.645884 CTCTTTGACAATTTGCCACTGG 58.354 45.455 0.00 0.00 0.00 4.00
152 153 3.054878 GCTCTTTGACAATTTGCCACTG 58.945 45.455 0.00 0.00 0.00 3.66
153 154 2.694628 TGCTCTTTGACAATTTGCCACT 59.305 40.909 0.00 0.00 0.00 4.00
154 155 3.096489 TGCTCTTTGACAATTTGCCAC 57.904 42.857 0.00 0.00 0.00 5.01
155 156 3.815856 TTGCTCTTTGACAATTTGCCA 57.184 38.095 0.00 0.00 0.00 4.92
156 157 4.122046 ACTTTGCTCTTTGACAATTTGCC 58.878 39.130 0.00 0.00 0.00 4.52
157 158 6.826893 TTACTTTGCTCTTTGACAATTTGC 57.173 33.333 0.00 0.00 0.00 3.68
158 159 8.323140 CAGTTTACTTTGCTCTTTGACAATTTG 58.677 33.333 0.00 0.00 0.00 2.32
159 160 8.034804 ACAGTTTACTTTGCTCTTTGACAATTT 58.965 29.630 0.00 0.00 0.00 1.82
160 161 7.489113 CACAGTTTACTTTGCTCTTTGACAATT 59.511 33.333 0.00 0.00 0.00 2.32
161 162 6.974622 CACAGTTTACTTTGCTCTTTGACAAT 59.025 34.615 0.00 0.00 0.00 2.71
162 163 6.321717 CACAGTTTACTTTGCTCTTTGACAA 58.678 36.000 0.00 0.00 0.00 3.18
163 164 5.163663 CCACAGTTTACTTTGCTCTTTGACA 60.164 40.000 0.00 0.00 0.00 3.58
164 165 5.273944 CCACAGTTTACTTTGCTCTTTGAC 58.726 41.667 0.00 0.00 0.00 3.18
165 166 4.202010 GCCACAGTTTACTTTGCTCTTTGA 60.202 41.667 0.00 0.00 0.00 2.69
166 167 4.044426 GCCACAGTTTACTTTGCTCTTTG 58.956 43.478 0.00 0.00 0.00 2.77
167 168 3.699038 TGCCACAGTTTACTTTGCTCTTT 59.301 39.130 0.00 0.00 0.00 2.52
168 169 3.287222 TGCCACAGTTTACTTTGCTCTT 58.713 40.909 0.00 0.00 0.00 2.85
169 170 2.930950 TGCCACAGTTTACTTTGCTCT 58.069 42.857 0.00 0.00 0.00 4.09
170 171 3.708563 TTGCCACAGTTTACTTTGCTC 57.291 42.857 0.00 0.00 0.00 4.26
171 172 4.464069 TTTTGCCACAGTTTACTTTGCT 57.536 36.364 0.00 0.00 0.00 3.91
194 195 9.603921 CAACTTCATATTTTAGGGCAATTTGAT 57.396 29.630 0.00 0.00 0.00 2.57
195 196 8.592809 ACAACTTCATATTTTAGGGCAATTTGA 58.407 29.630 0.00 0.00 0.00 2.69
196 197 8.658609 CACAACTTCATATTTTAGGGCAATTTG 58.341 33.333 0.00 0.00 0.00 2.32
197 198 7.334171 GCACAACTTCATATTTTAGGGCAATTT 59.666 33.333 0.00 0.00 0.00 1.82
198 199 6.818142 GCACAACTTCATATTTTAGGGCAATT 59.182 34.615 0.00 0.00 0.00 2.32
199 200 6.340522 GCACAACTTCATATTTTAGGGCAAT 58.659 36.000 0.00 0.00 0.00 3.56
200 201 5.621104 CGCACAACTTCATATTTTAGGGCAA 60.621 40.000 0.00 0.00 0.00 4.52
201 202 4.142491 CGCACAACTTCATATTTTAGGGCA 60.142 41.667 0.00 0.00 0.00 5.36
202 203 4.095782 TCGCACAACTTCATATTTTAGGGC 59.904 41.667 0.00 0.00 0.00 5.19
203 204 5.811399 TCGCACAACTTCATATTTTAGGG 57.189 39.130 0.00 0.00 0.00 3.53
204 205 6.842163 AGTTCGCACAACTTCATATTTTAGG 58.158 36.000 0.00 0.00 0.00 2.69
205 206 9.478019 CTTAGTTCGCACAACTTCATATTTTAG 57.522 33.333 3.49 0.00 0.00 1.85
275 276 3.330701 AGGCCAGGTCTAAAACTTGATCA 59.669 43.478 5.01 0.00 37.13 2.92
277 278 3.330701 TGAGGCCAGGTCTAAAACTTGAT 59.669 43.478 5.01 0.00 37.13 2.57
306 309 6.292381 CGCCGGAAAGACTGAAATAAATCTAG 60.292 42.308 5.05 0.00 0.00 2.43
329 332 2.030457 CCTCACACGGAATAAACATCGC 59.970 50.000 0.00 0.00 0.00 4.58
330 333 3.517602 TCCTCACACGGAATAAACATCG 58.482 45.455 0.00 0.00 0.00 3.84
331 334 3.871594 CCTCCTCACACGGAATAAACATC 59.128 47.826 0.00 0.00 31.44 3.06
337 340 1.496060 ATGCCTCCTCACACGGAATA 58.504 50.000 0.00 0.00 31.44 1.75
341 344 1.450312 GGAATGCCTCCTCACACGG 60.450 63.158 0.00 0.00 41.61 4.94
361 364 6.038356 CACCGTAAACACCTTTATAGTCGAT 58.962 40.000 0.00 0.00 0.00 3.59
369 372 4.050553 CGAAGTCACCGTAAACACCTTTA 58.949 43.478 0.00 0.00 0.00 1.85
370 373 2.867975 CGAAGTCACCGTAAACACCTTT 59.132 45.455 0.00 0.00 0.00 3.11
389 392 3.073678 CACAACATCTTGGGATTGACGA 58.926 45.455 0.00 0.00 31.66 4.20
391 394 2.094545 GGCACAACATCTTGGGATTGAC 60.095 50.000 0.00 0.00 31.66 3.18
393 396 1.135315 CGGCACAACATCTTGGGATTG 60.135 52.381 0.00 0.00 31.66 2.67
398 401 1.811965 TGAATCGGCACAACATCTTGG 59.188 47.619 0.00 0.00 0.00 3.61
399 402 2.485426 ACTGAATCGGCACAACATCTTG 59.515 45.455 0.00 0.00 0.00 3.02
408 411 3.067461 ACTCTGAGATACTGAATCGGCAC 59.933 47.826 12.44 0.00 39.79 5.01
415 418 3.435275 ACCAGCACTCTGAGATACTGAA 58.565 45.455 12.44 0.00 42.95 3.02
417 420 4.203226 TCTACCAGCACTCTGAGATACTG 58.797 47.826 12.44 13.97 42.95 2.74
419 422 5.584253 TTTCTACCAGCACTCTGAGATAC 57.416 43.478 12.44 0.02 42.95 2.24
420 423 6.015856 GCTATTTCTACCAGCACTCTGAGATA 60.016 42.308 12.44 0.00 42.95 1.98
425 428 3.119291 CGCTATTTCTACCAGCACTCTG 58.881 50.000 0.00 0.00 40.02 3.35
435 438 3.865745 AGACATGCACACGCTATTTCTAC 59.134 43.478 0.00 0.00 39.64 2.59
513 516 2.741517 GCAGTGCAACCAAACAACTTTT 59.258 40.909 11.09 0.00 37.80 2.27
546 560 3.559238 ATGTTGAAACGACAATCTGCC 57.441 42.857 0.00 0.00 32.36 4.85
548 562 7.641411 GGATCAATATGTTGAAACGACAATCTG 59.359 37.037 9.08 0.00 46.67 2.90
553 567 4.932799 ACGGATCAATATGTTGAAACGACA 59.067 37.500 26.50 0.00 46.67 4.35
573 587 1.627879 GCAAACATGGCATACAACGG 58.372 50.000 0.00 0.00 0.00 4.44
574 588 1.135831 TCGCAAACATGGCATACAACG 60.136 47.619 0.00 1.10 0.00 4.10
576 590 3.865011 ATTCGCAAACATGGCATACAA 57.135 38.095 0.00 0.00 0.00 2.41
578 592 6.826893 AATTTATTCGCAAACATGGCATAC 57.173 33.333 0.00 0.00 0.00 2.39
715 729 4.985413 TCGTAACAACGATACACCTTAGG 58.015 43.478 0.00 0.00 37.20 2.69
745 1900 3.422796 AGCTTCCTCGTACAAGAGAGAA 58.577 45.455 0.00 0.00 40.57 2.87
749 1904 2.159310 CCTGAGCTTCCTCGTACAAGAG 60.159 54.545 0.00 0.00 41.13 2.85
769 1924 9.326339 CTTAAACAAAGAGAAAATAGCGTAACC 57.674 33.333 0.00 0.00 37.38 2.85
818 1973 7.069331 TGCAAAAGAGTAGGGATTTTCTGAAAA 59.931 33.333 17.04 17.04 34.41 2.29
862 2029 2.496070 CGGACTAAGGACTGGTGAATCA 59.504 50.000 0.00 0.00 0.00 2.57
865 2032 2.297698 TCGGACTAAGGACTGGTGAA 57.702 50.000 0.00 0.00 0.00 3.18
870 2037 3.292460 AGGAGAATCGGACTAAGGACTG 58.708 50.000 0.00 0.00 34.37 3.51
940 2116 4.877773 AGGAGAGCTGAAGGAGAAATAGA 58.122 43.478 0.00 0.00 0.00 1.98
1033 2211 1.049402 GGAAGGTAAGGCGAGGCTAT 58.951 55.000 0.00 0.00 0.00 2.97
1210 2388 3.831883 CATCAATGGAGCGGGGTG 58.168 61.111 0.00 0.00 0.00 4.61
1500 2678 2.737359 GCGAATCATCAGGGACGTGTTA 60.737 50.000 0.00 0.00 0.00 2.41
1678 2856 1.816537 GCAGTGCTGGTCGAGGATA 59.183 57.895 8.18 0.00 0.00 2.59
2396 3574 4.131376 CATGGCATGGACGAGGAC 57.869 61.111 19.80 0.00 0.00 3.85
2477 3655 2.897969 GTGACTGACTAAACCAGGAGGA 59.102 50.000 0.00 0.00 38.69 3.71
2534 3718 1.409427 GGGATTCTAGGACACGGACTG 59.591 57.143 0.00 0.00 0.00 3.51
2774 4051 3.056328 GTTCTGAAGCACGGGGCC 61.056 66.667 0.00 0.00 46.50 5.80
2858 4135 8.668353 TCATGCATAGTAGAAATCTTGAACAAC 58.332 33.333 0.00 0.00 0.00 3.32
2872 4149 7.792374 AAACTACACCAATCATGCATAGTAG 57.208 36.000 0.00 6.14 35.18 2.57
2918 4195 4.919793 TCCATCCAAATAAAACGTACCCA 58.080 39.130 0.00 0.00 0.00 4.51
2953 4230 2.083774 CCGAACTAGGCATTGCTTCAA 58.916 47.619 8.82 0.00 0.00 2.69
2954 4231 1.737838 CCGAACTAGGCATTGCTTCA 58.262 50.000 8.82 0.00 0.00 3.02
3158 4435 6.114187 TGCCATGACTCTAAATCGGATTAT 57.886 37.500 3.22 0.00 0.00 1.28
3159 4436 5.545063 TGCCATGACTCTAAATCGGATTA 57.455 39.130 3.22 0.00 0.00 1.75
3179 4456 2.227388 ACACTTGCTTGCTAGACATTGC 59.773 45.455 10.67 0.46 0.00 3.56
3194 4471 1.522258 GCGAATTGTTTGGCACACTTG 59.478 47.619 5.27 0.00 39.29 3.16
3220 4497 7.929785 AGTAAATTTTGAACTCGAACTGTCCTA 59.070 33.333 0.00 0.00 0.00 2.94
3256 4533 5.592587 TCTCCCCCAAAACTAATCTTCAA 57.407 39.130 0.00 0.00 0.00 2.69
3259 4536 4.772624 GCTTTCTCCCCCAAAACTAATCTT 59.227 41.667 0.00 0.00 0.00 2.40
3261 4538 3.128764 CGCTTTCTCCCCCAAAACTAATC 59.871 47.826 0.00 0.00 0.00 1.75
3271 4548 1.179174 ACAAAAGCGCTTTCTCCCCC 61.179 55.000 33.69 0.00 31.45 5.40


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

AutoCloner maintained by Alex Coulton.