Multiple sequence alignment - TraesCS1A01G054300

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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 TraesCS1A01G054300 chr1A 100.000 5466 0 0 699 6164 35931662 35937127 0.000000e+00 10094
1 TraesCS1A01G054300 chr1A 100.000 517 0 0 1 517 35930964 35931480 0.000000e+00 955
2 TraesCS1A01G054300 chr1A 99.296 142 0 1 4899 5040 35935796 35935936 7.930000e-64 255
3 TraesCS1A01G054300 chr1A 99.296 142 0 1 4833 4973 35935862 35936003 7.930000e-64 255
4 TraesCS1A01G054300 chr1A 98.684 76 0 1 4965 5040 35935796 35935870 3.880000e-27 134
5 TraesCS1A01G054300 chr1A 98.684 76 0 1 4833 4907 35935928 35936003 3.880000e-27 134
6 TraesCS1A01G054300 chr1A 91.892 74 6 0 3446 3519 35934373 35934446 3.040000e-18 104
7 TraesCS1A01G054300 chr1A 91.892 74 6 0 3410 3483 35934409 35934482 3.040000e-18 104
8 TraesCS1A01G054300 chr1D 97.335 5479 104 18 699 6164 36533251 36538700 0.000000e+00 9271
9 TraesCS1A01G054300 chr1D 85.983 478 34 22 2 466 36532447 36532904 1.200000e-131 481
10 TraesCS1A01G054300 chr1D 96.377 138 2 1 4833 4970 36537433 36537567 2.240000e-54 224
11 TraesCS1A01G054300 chr1D 92.254 142 4 3 4899 5040 36537370 36537504 1.750000e-45 195
12 TraesCS1A01G054300 chr1D 100.000 72 0 0 4833 4904 36537496 36537567 3.880000e-27 134
13 TraesCS1A01G054300 chr1D 84.444 135 18 3 1 135 314013540 314013671 5.010000e-26 130
14 TraesCS1A01G054300 chr1D 85.714 126 14 4 2 127 450454966 450454845 5.010000e-26 130
15 TraesCS1A01G054300 chr1D 91.892 74 6 0 3446 3519 36535947 36536020 3.040000e-18 104
16 TraesCS1A01G054300 chr1B 95.517 4350 116 32 699 5040 56310363 56314641 0.000000e+00 6879
17 TraesCS1A01G054300 chr1B 96.825 693 14 4 4833 5524 56314507 56315192 0.000000e+00 1151
18 TraesCS1A01G054300 chr1B 93.731 335 9 8 5833 6164 56315342 56315667 5.550000e-135 492
19 TraesCS1A01G054300 chr1B 84.653 404 35 20 52 441 56309493 56309883 1.620000e-100 377
20 TraesCS1A01G054300 chr1B 95.775 142 2 3 4833 4973 56314570 56314708 6.220000e-55 226
21 TraesCS1A01G054300 chr1B 93.706 143 2 3 4898 5040 56314443 56314578 2.250000e-49 207
22 TraesCS1A01G054300 chr1B 93.284 134 7 2 5714 5846 56315186 56315318 4.870000e-46 196
23 TraesCS1A01G054300 chr1B 97.368 76 1 1 4833 4907 56314633 56314708 1.800000e-25 128
24 TraesCS1A01G054300 chr2D 93.058 605 17 6 5224 5826 90783997 90783416 0.000000e+00 861
25 TraesCS1A01G054300 chr2D 94.649 299 10 5 5869 6164 90783425 90783130 5.630000e-125 459
26 TraesCS1A01G054300 chr7B 94.949 198 5 3 4466 4662 159181692 159181885 7.760000e-79 305
27 TraesCS1A01G054300 chr7B 99.020 102 1 0 4325 4426 159181591 159181692 3.790000e-42 183
28 TraesCS1A01G054300 chr7B 86.667 135 15 3 1 135 437669570 437669701 4.980000e-31 147
29 TraesCS1A01G054300 chr5B 85.294 136 15 5 1 135 133598223 133598092 1.080000e-27 135
30 TraesCS1A01G054300 chr5B 87.255 102 13 0 1011 1112 465051173 465051072 3.900000e-22 117
31 TraesCS1A01G054300 chr5A 84.028 144 15 7 1 144 275094988 275094853 1.390000e-26 132
32 TraesCS1A01G054300 chr5A 84.559 136 15 5 1 135 130540661 130540531 5.010000e-26 130
33 TraesCS1A01G054300 chr5A 81.169 154 23 6 1 153 567954556 567954704 1.090000e-22 119
34 TraesCS1A01G054300 chr5D 82.759 145 17 7 1 144 211983831 211983694 8.390000e-24 122
35 TraesCS1A01G054300 chr3B 83.212 137 18 5 1 135 828747294 828747427 3.020000e-23 121


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 TraesCS1A01G054300 chr1A 35930964 35937127 6163 False 1504.375000 10094 97.468000 1 6164 8 chr1A.!!$F1 6163
1 TraesCS1A01G054300 chr1D 36532447 36538700 6253 False 1734.833333 9271 93.973500 2 6164 6 chr1D.!!$F2 6162
2 TraesCS1A01G054300 chr1B 56309493 56315667 6174 False 1207.000000 6879 93.857375 52 6164 8 chr1B.!!$F1 6112
3 TraesCS1A01G054300 chr2D 90783130 90783997 867 True 660.000000 861 93.853500 5224 6164 2 chr2D.!!$R1 940

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
280 294 0.313987 CGCAAAACCAGAACCCCTTC 59.686 55.0 0.00 0.00 0.00 3.46 F
1209 1619 0.917333 AGGAGGAGGAGGACGACTCT 60.917 60.0 10.70 0.00 45.83 3.24 F
1883 2293 0.248866 CGGTTGGGTGTGTCAAAAGC 60.249 55.0 0.00 0.00 0.00 3.51 F
3165 3575 0.395311 CAAGCCTGGATGAGCATGGT 60.395 55.0 0.00 0.00 0.00 3.55 F
4098 4508 0.621862 AGGACCTTAGGGCCCAGAAG 60.622 60.0 27.56 25.12 35.63 2.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1883 2293 0.902531 AATGTACTCCTCACCCACGG 59.097 55.000 0.00 0.00 0.00 4.94 R
3165 3575 0.104855 GACCAGATGGCGCATACTCA 59.895 55.000 10.83 0.00 39.32 3.41 R
3747 4157 1.065418 CGAACTAAATCCTGCAGGGGT 60.065 52.381 32.23 18.59 35.41 4.95 R
5035 5508 1.272592 TGGGGCTCTTGATGAATTGCA 60.273 47.619 0.00 0.00 0.00 4.08 R
5997 6509 0.451783 CCGCTTCATACCCTGCAAAC 59.548 55.000 0.00 0.00 0.00 2.93 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
26 27 7.067008 CCCTTCCGTTCACAAATATAAGATGTT 59.933 37.037 0.00 0.00 0.00 2.71
68 69 7.400599 AACTACATACGGACTGAAATGAGTA 57.599 36.000 7.93 0.00 0.00 2.59
72 73 5.575606 ACATACGGACTGAAATGAGTAAACG 59.424 40.000 7.93 0.00 0.00 3.60
160 168 3.969287 TGAACAGAGTGAGCAGCTTAT 57.031 42.857 0.00 0.00 0.00 1.73
163 171 6.715347 TGAACAGAGTGAGCAGCTTATATA 57.285 37.500 0.00 0.00 0.00 0.86
164 172 7.295322 TGAACAGAGTGAGCAGCTTATATAT 57.705 36.000 0.00 0.00 0.00 0.86
165 173 8.409358 TGAACAGAGTGAGCAGCTTATATATA 57.591 34.615 0.00 0.00 0.00 0.86
166 174 9.029368 TGAACAGAGTGAGCAGCTTATATATAT 57.971 33.333 0.00 0.00 0.00 0.86
169 177 9.467796 ACAGAGTGAGCAGCTTATATATATACA 57.532 33.333 0.00 0.00 0.00 2.29
234 244 3.554337 GGAGCGAAGAGTGAAGTTAACCA 60.554 47.826 0.88 0.00 0.00 3.67
279 293 1.744320 GCGCAAAACCAGAACCCCTT 61.744 55.000 0.30 0.00 0.00 3.95
280 294 0.313987 CGCAAAACCAGAACCCCTTC 59.686 55.000 0.00 0.00 0.00 3.46
281 295 1.704641 GCAAAACCAGAACCCCTTCT 58.295 50.000 0.00 0.00 37.19 2.85
282 296 1.613925 GCAAAACCAGAACCCCTTCTC 59.386 52.381 0.00 0.00 34.20 2.87
283 297 1.880027 CAAAACCAGAACCCCTTCTCG 59.120 52.381 0.00 0.00 34.20 4.04
285 299 2.125766 AACCAGAACCCCTTCTCGCC 62.126 60.000 0.00 0.00 34.20 5.54
286 300 2.592993 CCAGAACCCCTTCTCGCCA 61.593 63.158 0.00 0.00 34.20 5.69
287 301 1.376037 CAGAACCCCTTCTCGCCAC 60.376 63.158 0.00 0.00 34.20 5.01
288 302 1.536662 AGAACCCCTTCTCGCCACT 60.537 57.895 0.00 0.00 30.11 4.00
411 425 1.694525 CTCCCCCTTCCCCTTCCTC 60.695 68.421 0.00 0.00 0.00 3.71
466 482 3.249973 GACCGGACACTTTTGCGCC 62.250 63.158 9.46 0.00 0.00 6.53
467 483 4.038080 CCGGACACTTTTGCGCCC 62.038 66.667 4.18 0.00 0.00 6.13
468 484 4.383602 CGGACACTTTTGCGCCCG 62.384 66.667 4.18 3.58 0.00 6.13
469 485 4.038080 GGACACTTTTGCGCCCGG 62.038 66.667 4.18 0.00 0.00 5.73
470 486 4.700365 GACACTTTTGCGCCCGGC 62.700 66.667 4.18 0.00 43.96 6.13
498 882 4.295119 CCTCCGTAATCCCGCCCG 62.295 72.222 0.00 0.00 0.00 6.13
841 1235 1.480137 CTGCTCTCTCCGGTGAGATTT 59.520 52.381 30.74 0.00 46.33 2.17
842 1236 1.478510 TGCTCTCTCCGGTGAGATTTC 59.521 52.381 30.74 22.84 46.33 2.17
843 1237 1.202475 GCTCTCTCCGGTGAGATTTCC 60.202 57.143 30.74 17.88 46.33 3.13
844 1238 2.383855 CTCTCTCCGGTGAGATTTCCT 58.616 52.381 30.74 0.00 46.33 3.36
845 1239 2.100584 CTCTCTCCGGTGAGATTTCCTG 59.899 54.545 30.74 17.35 46.33 3.86
846 1240 1.827969 CTCTCCGGTGAGATTTCCTGT 59.172 52.381 25.93 0.00 46.33 4.00
847 1241 2.234908 CTCTCCGGTGAGATTTCCTGTT 59.765 50.000 25.93 0.00 46.33 3.16
848 1242 2.233922 TCTCCGGTGAGATTTCCTGTTC 59.766 50.000 0.00 0.00 42.73 3.18
1131 1541 2.427245 CGAGGCGGATGGGTTCTCT 61.427 63.158 0.00 0.00 0.00 3.10
1132 1542 1.443828 GAGGCGGATGGGTTCTCTC 59.556 63.158 0.00 0.00 0.00 3.20
1209 1619 0.917333 AGGAGGAGGAGGACGACTCT 60.917 60.000 10.70 0.00 45.83 3.24
1322 1732 2.124403 GCTCTACGACCTCCCCGA 60.124 66.667 0.00 0.00 0.00 5.14
1530 1940 2.370445 CCTCTGCGACCCCAGGATT 61.370 63.158 0.00 0.00 33.64 3.01
1833 2243 1.615384 GCTCTCAACAAGGCTGGGAAT 60.615 52.381 0.00 0.00 0.00 3.01
1883 2293 0.248866 CGGTTGGGTGTGTCAAAAGC 60.249 55.000 0.00 0.00 0.00 3.51
1909 2319 1.486726 GTGAGGAGTACATTGGAGGGG 59.513 57.143 0.00 0.00 0.00 4.79
1928 2338 1.375140 CTGGTCGTGATGCTGCAGT 60.375 57.895 16.64 0.00 0.00 4.40
1936 2346 1.818785 GATGCTGCAGTGGCTCTCC 60.819 63.158 16.64 0.00 41.91 3.71
2000 2410 2.106938 CGCGCATAGAGGGAAGCA 59.893 61.111 8.75 0.00 0.00 3.91
2229 2639 5.587844 AGTTACCTTAGCAGCATCATTTGAG 59.412 40.000 0.00 0.00 0.00 3.02
2460 2870 9.856162 AAGGTTAAGTCCTACAAAAGTATTGAA 57.144 29.630 0.00 0.00 36.74 2.69
2775 3185 3.575506 TGCCCCTACTGCAGATTTG 57.424 52.632 23.35 5.91 34.05 2.32
2901 3311 2.856000 AGACCCCCAGCAGCAAGT 60.856 61.111 0.00 0.00 0.00 3.16
3165 3575 0.395311 CAAGCCTGGATGAGCATGGT 60.395 55.000 0.00 0.00 0.00 3.55
3747 4157 4.582656 CCCAACATACTTGAAACACAGGAA 59.417 41.667 0.00 0.00 0.00 3.36
4098 4508 0.621862 AGGACCTTAGGGCCCAGAAG 60.622 60.000 27.56 25.12 35.63 2.85
4674 5084 1.707427 GAGGATGATGGCACCCCTAAT 59.293 52.381 0.00 0.00 32.50 1.73
4882 5292 2.168106 AGACCTTCAGTAGATGCAGCAG 59.832 50.000 4.07 0.00 0.00 4.24
4883 5293 1.297664 CCTTCAGTAGATGCAGCAGC 58.702 55.000 4.07 1.15 42.57 5.25
4944 5417 2.762887 CTCCAGACCTTCAGTAGATGCA 59.237 50.000 0.00 0.00 0.00 3.96
4945 5418 2.762887 TCCAGACCTTCAGTAGATGCAG 59.237 50.000 0.00 0.00 0.00 4.41
4946 5419 2.548875 CAGACCTTCAGTAGATGCAGC 58.451 52.381 0.00 0.00 0.00 5.25
5035 5508 1.000396 GCAAGGGGGACAGCTGATT 60.000 57.895 23.35 0.00 0.00 2.57
5139 5612 2.903135 AGACAGAGAGGGGTCAAAAGAG 59.097 50.000 0.00 0.00 36.50 2.85
5156 5629 1.637553 AGAGTTCATGGATGCAACCCT 59.362 47.619 10.94 0.00 0.00 4.34
5398 5871 3.926527 GCTTGCCTTTATACCAAAACTGC 59.073 43.478 0.00 0.00 0.00 4.40
5431 5904 5.989477 AGTTGTAATATACTGCTTCAGCCA 58.011 37.500 0.00 0.00 41.18 4.75
5625 6099 2.563179 GTGAAAGCTGTGACCTAGGAGA 59.437 50.000 17.98 0.00 0.00 3.71
5647 6121 7.175119 GGAGAAGTTTGCAGTTATCTACCTTTT 59.825 37.037 0.00 0.00 0.00 2.27
5648 6122 8.465273 AGAAGTTTGCAGTTATCTACCTTTTT 57.535 30.769 0.00 0.00 0.00 1.94
5754 6230 1.882912 CCTCAGGCATAGCGCATTTA 58.117 50.000 11.47 0.00 45.17 1.40
5755 6231 1.532868 CCTCAGGCATAGCGCATTTAC 59.467 52.381 11.47 0.00 45.17 2.01
5758 6234 1.532868 CAGGCATAGCGCATTTACCTC 59.467 52.381 11.47 0.00 45.17 3.85
5760 6236 1.593196 GCATAGCGCATTTACCTCCA 58.407 50.000 11.47 0.00 41.79 3.86
5761 6237 1.532868 GCATAGCGCATTTACCTCCAG 59.467 52.381 11.47 0.00 41.79 3.86
5997 6509 6.094603 CCATACTGAGGATCTCTTGTTTTTGG 59.905 42.308 0.00 0.00 34.92 3.28
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
2 3 9.840427 AAAACATCTTATATTTGTGAACGGAAG 57.160 29.630 0.00 0.00 0.00 3.46
44 45 6.282199 ACTCATTTCAGTCCGTATGTAGTT 57.718 37.500 0.00 0.00 0.00 2.24
49 50 5.803461 TCGTTTACTCATTTCAGTCCGTATG 59.197 40.000 0.00 0.00 0.00 2.39
130 137 9.645059 GCTGCTCACTCTGTTCATAAATATATA 57.355 33.333 0.00 0.00 0.00 0.86
131 138 8.373981 AGCTGCTCACTCTGTTCATAAATATAT 58.626 33.333 0.00 0.00 0.00 0.86
132 139 7.730084 AGCTGCTCACTCTGTTCATAAATATA 58.270 34.615 0.00 0.00 0.00 0.86
133 140 6.590068 AGCTGCTCACTCTGTTCATAAATAT 58.410 36.000 0.00 0.00 0.00 1.28
135 142 4.841422 AGCTGCTCACTCTGTTCATAAAT 58.159 39.130 0.00 0.00 0.00 1.40
136 143 4.277515 AGCTGCTCACTCTGTTCATAAA 57.722 40.909 0.00 0.00 0.00 1.40
165 173 9.712305 CCGTGGATTTTTCTCTATCTAATGTAT 57.288 33.333 0.00 0.00 0.00 2.29
166 174 8.148351 CCCGTGGATTTTTCTCTATCTAATGTA 58.852 37.037 0.00 0.00 0.00 2.29
167 175 6.992715 CCCGTGGATTTTTCTCTATCTAATGT 59.007 38.462 0.00 0.00 0.00 2.71
168 176 7.217200 TCCCGTGGATTTTTCTCTATCTAATG 58.783 38.462 0.00 0.00 0.00 1.90
169 177 7.374975 TCCCGTGGATTTTTCTCTATCTAAT 57.625 36.000 0.00 0.00 0.00 1.73
170 178 6.801718 TCCCGTGGATTTTTCTCTATCTAA 57.198 37.500 0.00 0.00 0.00 2.10
171 179 6.996180 ATCCCGTGGATTTTTCTCTATCTA 57.004 37.500 0.05 0.00 39.79 1.98
172 180 5.896073 ATCCCGTGGATTTTTCTCTATCT 57.104 39.130 0.05 0.00 39.79 1.98
173 181 7.386851 TGATATCCCGTGGATTTTTCTCTATC 58.613 38.462 10.21 6.11 39.79 2.08
174 182 7.316393 TGATATCCCGTGGATTTTTCTCTAT 57.684 36.000 10.21 0.00 39.79 1.98
175 183 6.740944 TGATATCCCGTGGATTTTTCTCTA 57.259 37.500 10.21 0.00 39.79 2.43
176 184 5.630415 TGATATCCCGTGGATTTTTCTCT 57.370 39.130 10.21 0.00 39.79 3.10
177 185 6.486657 TCATTGATATCCCGTGGATTTTTCTC 59.513 38.462 10.21 3.03 39.79 2.87
234 244 0.981183 TAACTGGGATTGCGGAGTGT 59.019 50.000 0.00 0.00 0.00 3.55
471 487 4.517934 TACGGAGGAGGCGAGGGG 62.518 72.222 0.00 0.00 0.00 4.79
472 488 1.807495 GATTACGGAGGAGGCGAGGG 61.807 65.000 0.00 0.00 0.00 4.30
473 489 1.660917 GATTACGGAGGAGGCGAGG 59.339 63.158 0.00 0.00 0.00 4.63
474 490 1.660917 GGATTACGGAGGAGGCGAG 59.339 63.158 0.00 0.00 0.00 5.03
475 491 1.831286 GGGATTACGGAGGAGGCGA 60.831 63.158 0.00 0.00 0.00 5.54
476 492 2.735237 GGGATTACGGAGGAGGCG 59.265 66.667 0.00 0.00 0.00 5.52
477 493 2.735237 CGGGATTACGGAGGAGGC 59.265 66.667 0.00 0.00 0.00 4.70
478 494 2.735237 GCGGGATTACGGAGGAGG 59.265 66.667 0.00 0.00 0.00 4.30
479 495 2.735237 GGCGGGATTACGGAGGAG 59.265 66.667 0.00 0.00 0.00 3.69
480 496 2.841044 GGGCGGGATTACGGAGGA 60.841 66.667 0.00 0.00 0.00 3.71
481 497 4.295119 CGGGCGGGATTACGGAGG 62.295 72.222 0.00 0.00 0.00 4.30
820 1213 2.049185 TCTCACCGGAGAGAGCAGC 61.049 63.158 25.49 0.00 45.12 5.25
841 1235 0.793617 AGGGGAGAGGAAGAACAGGA 59.206 55.000 0.00 0.00 0.00 3.86
842 1236 1.662686 AAGGGGAGAGGAAGAACAGG 58.337 55.000 0.00 0.00 0.00 4.00
843 1237 2.026729 GGAAAGGGGAGAGGAAGAACAG 60.027 54.545 0.00 0.00 0.00 3.16
844 1238 1.985895 GGAAAGGGGAGAGGAAGAACA 59.014 52.381 0.00 0.00 0.00 3.18
845 1239 1.066071 CGGAAAGGGGAGAGGAAGAAC 60.066 57.143 0.00 0.00 0.00 3.01
846 1240 1.276622 CGGAAAGGGGAGAGGAAGAA 58.723 55.000 0.00 0.00 0.00 2.52
847 1241 0.116541 ACGGAAAGGGGAGAGGAAGA 59.883 55.000 0.00 0.00 0.00 2.87
848 1242 0.984995 AACGGAAAGGGGAGAGGAAG 59.015 55.000 0.00 0.00 0.00 3.46
919 1318 2.427753 CTAGCCCCCGAATCCAGC 59.572 66.667 0.00 0.00 0.00 4.85
920 1319 2.520536 CCCTAGCCCCCGAATCCAG 61.521 68.421 0.00 0.00 0.00 3.86
1101 1511 2.766400 CGCCTCGGACTCCTCAGAC 61.766 68.421 0.00 0.00 0.00 3.51
1131 1541 2.786495 GCGATTCTGCTCCTCGGGA 61.786 63.158 0.00 0.00 33.17 5.14
1132 1542 2.279784 GCGATTCTGCTCCTCGGG 60.280 66.667 0.00 0.00 33.17 5.14
1135 1545 2.964389 GCCGCGATTCTGCTCCTC 60.964 66.667 8.23 0.00 0.00 3.71
1158 1568 1.457455 CTCCTGCTCCTCCTCCTCC 60.457 68.421 0.00 0.00 0.00 4.30
1165 1575 3.535962 CTCCGCCTCCTGCTCCTC 61.536 72.222 0.00 0.00 38.05 3.71
1168 1578 3.535962 CTCCTCCGCCTCCTGCTC 61.536 72.222 0.00 0.00 38.05 4.26
1179 1589 1.457455 CTCCTCCTCTGCCTCCTCC 60.457 68.421 0.00 0.00 0.00 4.30
1209 1619 1.685765 CTCGTCAGACCCCATCCCA 60.686 63.158 0.00 0.00 0.00 4.37
1585 1995 1.732259 CGAATTGTGGTACCTCTGCAC 59.268 52.381 14.36 2.67 0.00 4.57
1743 2153 3.282021 GCTCTCTGAGTCAGTCTCTGAT 58.718 50.000 19.53 0.00 45.41 2.90
1814 2224 2.503895 ATTCCCAGCCTTGTTGAGAG 57.496 50.000 0.00 0.00 0.00 3.20
1833 2243 3.075432 CCTTGGACCTTTCCTTCCCTAAA 59.925 47.826 0.00 0.00 43.31 1.85
1883 2293 0.902531 AATGTACTCCTCACCCACGG 59.097 55.000 0.00 0.00 0.00 4.94
1909 2319 2.743538 TGCAGCATCACGACCAGC 60.744 61.111 0.00 0.00 0.00 4.85
1928 2338 1.834263 GAGAAAGCTTAGGGAGAGCCA 59.166 52.381 0.00 0.00 41.03 4.75
1936 2346 3.810310 ATCTGGACGAGAAAGCTTAGG 57.190 47.619 0.00 0.00 33.12 2.69
2000 2410 1.476471 GGCCATCTATGCTTCTGTGCT 60.476 52.381 0.00 0.00 0.00 4.40
2229 2639 3.748083 TGCATTCTCAGAATATGGAGGC 58.252 45.455 0.00 0.00 0.00 4.70
2460 2870 2.794103 TGTGCACCATTTATCTGCTGT 58.206 42.857 15.69 0.00 0.00 4.40
2775 3185 2.104170 CTCTGAGTCTGGTAGGGTTCC 58.896 57.143 0.00 0.00 0.00 3.62
2901 3311 2.151202 CCCTTGCGCTTTCTTTCACTA 58.849 47.619 9.73 0.00 0.00 2.74
3165 3575 0.104855 GACCAGATGGCGCATACTCA 59.895 55.000 10.83 0.00 39.32 3.41
3288 3698 1.271926 ACTGGCACCACAATAACCTCC 60.272 52.381 0.00 0.00 0.00 4.30
3747 4157 1.065418 CGAACTAAATCCTGCAGGGGT 60.065 52.381 32.23 18.59 35.41 4.95
4098 4508 3.674997 TGGGCTTATTGTGTTCAGACTC 58.325 45.455 0.00 0.00 0.00 3.36
4128 4538 3.025978 CTGGAAATATGCCCTTGCTTCA 58.974 45.455 0.00 0.00 38.71 3.02
4686 5096 1.742268 GGGTCTGCATCAGCTTTCTTC 59.258 52.381 0.00 0.00 42.74 2.87
4882 5292 4.357279 AGCTGTCCCCCTTGCTGC 62.357 66.667 0.00 0.00 34.19 5.25
4883 5293 2.360852 CAGCTGTCCCCCTTGCTG 60.361 66.667 5.25 0.00 45.15 4.41
4884 5294 1.927527 ATCAGCTGTCCCCCTTGCT 60.928 57.895 14.67 0.00 36.04 3.91
4944 5417 4.357279 GTCCCCCTTGCTGCTGCT 62.357 66.667 17.00 0.00 40.48 4.24
4945 5418 4.666253 TGTCCCCCTTGCTGCTGC 62.666 66.667 8.89 8.89 40.20 5.25
4946 5419 2.360852 CTGTCCCCCTTGCTGCTG 60.361 66.667 0.00 0.00 0.00 4.41
5035 5508 1.272592 TGGGGCTCTTGATGAATTGCA 60.273 47.619 0.00 0.00 0.00 4.08
5139 5612 1.474077 GACAGGGTTGCATCCATGAAC 59.526 52.381 29.79 19.82 41.12 3.18
5156 5629 5.528690 GTCCTGCTAAGCATTATTCATGACA 59.471 40.000 0.00 0.00 38.13 3.58
5398 5871 7.010183 AGCAGTATATTACAACTTGCAGTTACG 59.990 37.037 1.95 0.00 36.03 3.18
5431 5904 9.416794 CAGAAAGTGAGTCGCAGATATATTTAT 57.583 33.333 6.44 0.00 40.67 1.40
5625 6099 6.923508 GCAAAAAGGTAGATAACTGCAAACTT 59.076 34.615 0.00 0.00 0.00 2.66
5647 6121 7.676683 ACTAGAGATATAAGACCTTTGGCAA 57.323 36.000 0.00 0.00 0.00 4.52
5648 6122 7.344612 TGAACTAGAGATATAAGACCTTTGGCA 59.655 37.037 0.00 0.00 0.00 4.92
5754 6230 4.721776 TCTCAACATAATTAGGCTGGAGGT 59.278 41.667 0.00 0.00 0.00 3.85
5755 6231 5.296151 TCTCAACATAATTAGGCTGGAGG 57.704 43.478 0.00 0.76 0.00 4.30
5944 6454 1.341089 GGATGAAGGAACAGGGGGAAC 60.341 57.143 0.00 0.00 0.00 3.62
5997 6509 0.451783 CCGCTTCATACCCTGCAAAC 59.548 55.000 0.00 0.00 0.00 2.93


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

AutoCloner maintained by Alex Coulton.