Multiple sequence alignment - TraesCS5D01G175400

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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 TraesCS5D01G175400 chr5D 100.000 2357 0 0 1 2357 275172375 275170019 0.000000e+00 4353
1 TraesCS5D01G175400 chr5D 91.667 84 7 0 474 557 275171860 275171777 1.480000e-22 117
2 TraesCS5D01G175400 chr5D 91.667 84 7 0 516 599 275171902 275171819 1.480000e-22 117
3 TraesCS5D01G175400 chr1D 96.943 1341 38 3 628 1966 60171816 60170477 0.000000e+00 2246
4 TraesCS5D01G175400 chr1D 96.266 1339 44 4 627 1964 205134698 205133365 0.000000e+00 2191
5 TraesCS5D01G175400 chr1D 96.051 1342 48 4 628 1966 247505758 247504419 0.000000e+00 2180
6 TraesCS5D01G175400 chr2D 96.866 1340 41 1 628 1966 73126872 73125533 0.000000e+00 2241
7 TraesCS5D01G175400 chr2D 96.269 1340 46 4 629 1966 621748803 621750140 0.000000e+00 2194
8 TraesCS5D01G175400 chr2D 85.484 124 11 2 2241 2357 572792703 572792826 3.180000e-24 122
9 TraesCS5D01G175400 chr3D 96.498 1342 46 1 625 1965 584701395 584700054 0.000000e+00 2217
10 TraesCS5D01G175400 chr7D 96.269 1340 47 3 627 1965 497560906 497562243 0.000000e+00 2194
11 TraesCS5D01G175400 chr6D 95.973 1341 50 2 628 1967 142136692 142135355 0.000000e+00 2174
12 TraesCS5D01G175400 chr6D 95.899 1341 52 3 627 1966 28035043 28033705 0.000000e+00 2169
13 TraesCS5D01G175400 chr5B 92.639 557 37 4 1 555 309886533 309885979 0.000000e+00 798
14 TraesCS5D01G175400 chr5B 90.686 408 15 13 1972 2357 309885961 309885555 2.680000e-144 521
15 TraesCS5D01G175400 chr5B 87.903 124 12 3 508 631 309886066 309885946 2.440000e-30 143
16 TraesCS5D01G175400 chr5A 86.220 537 67 7 24 557 364193486 364192954 2.030000e-160 575
17 TraesCS5D01G175400 chr5A 85.608 403 31 9 1972 2357 364192937 364192545 4.720000e-107 398
18 TraesCS5D01G175400 chr2A 85.484 124 10 3 2240 2355 711981206 711981329 3.180000e-24 122


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 TraesCS5D01G175400 chr5D 275170019 275172375 2356 True 1529.000000 4353 94.444667 1 2357 3 chr5D.!!$R1 2356
1 TraesCS5D01G175400 chr1D 60170477 60171816 1339 True 2246.000000 2246 96.943000 628 1966 1 chr1D.!!$R1 1338
2 TraesCS5D01G175400 chr1D 205133365 205134698 1333 True 2191.000000 2191 96.266000 627 1964 1 chr1D.!!$R2 1337
3 TraesCS5D01G175400 chr1D 247504419 247505758 1339 True 2180.000000 2180 96.051000 628 1966 1 chr1D.!!$R3 1338
4 TraesCS5D01G175400 chr2D 73125533 73126872 1339 True 2241.000000 2241 96.866000 628 1966 1 chr2D.!!$R1 1338
5 TraesCS5D01G175400 chr2D 621748803 621750140 1337 False 2194.000000 2194 96.269000 629 1966 1 chr2D.!!$F2 1337
6 TraesCS5D01G175400 chr3D 584700054 584701395 1341 True 2217.000000 2217 96.498000 625 1965 1 chr3D.!!$R1 1340
7 TraesCS5D01G175400 chr7D 497560906 497562243 1337 False 2194.000000 2194 96.269000 627 1965 1 chr7D.!!$F1 1338
8 TraesCS5D01G175400 chr6D 142135355 142136692 1337 True 2174.000000 2174 95.973000 628 1967 1 chr6D.!!$R2 1339
9 TraesCS5D01G175400 chr6D 28033705 28035043 1338 True 2169.000000 2169 95.899000 627 1966 1 chr6D.!!$R1 1339
10 TraesCS5D01G175400 chr5B 309885555 309886533 978 True 487.333333 798 90.409333 1 2357 3 chr5B.!!$R1 2356
11 TraesCS5D01G175400 chr5A 364192545 364193486 941 True 486.500000 575 85.914000 24 2357 2 chr5A.!!$R1 2333

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
206 208 0.034059 GGGTAGCATGATGGTCGAGG 59.966 60.0 0.0 0.0 0.0 4.63 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1462 1467 0.460284 GGCTCTTTCATCTTCGCGGA 60.46 55.0 6.13 0.0 0.0 5.54 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
19 20 2.718073 CCCGAACTCCCACCCGTAG 61.718 68.421 0.00 0.00 0.00 3.51
61 62 3.181451 TGATGAGGGCTCAATACATGTCC 60.181 47.826 0.00 0.00 43.58 4.02
64 65 2.171448 GAGGGCTCAATACATGTCCAGT 59.829 50.000 0.00 0.00 0.00 4.00
195 197 1.141053 GGACAAGGATTCGGGTAGCAT 59.859 52.381 0.00 0.00 0.00 3.79
206 208 0.034059 GGGTAGCATGATGGTCGAGG 59.966 60.000 0.00 0.00 0.00 4.63
213 215 0.911769 ATGATGGTCGAGGAAAGCCA 59.088 50.000 0.00 0.00 36.29 4.75
225 227 0.964358 GAAAGCCAGCCATCAGTGCT 60.964 55.000 0.00 0.00 40.41 4.40
228 230 0.549950 AGCCAGCCATCAGTGCTAAT 59.450 50.000 0.00 0.00 36.81 1.73
268 270 2.747686 GGTTTGAGTGGCGAGGGA 59.252 61.111 0.00 0.00 0.00 4.20
269 271 1.376037 GGTTTGAGTGGCGAGGGAG 60.376 63.158 0.00 0.00 0.00 4.30
305 307 1.225704 CCATCTCCTGTGCTTCCCC 59.774 63.158 0.00 0.00 0.00 4.81
326 329 4.424430 CGTGTAGCCGCGTGCAAC 62.424 66.667 19.30 13.41 44.83 4.17
356 359 2.513753 TGTGGAAACATGCGAATTCCT 58.486 42.857 16.45 0.00 46.14 3.36
360 363 2.749621 GGAAACATGCGAATTCCTCTGT 59.250 45.455 11.06 0.00 39.60 3.41
364 367 1.938577 CATGCGAATTCCTCTGTCAGG 59.061 52.381 0.00 0.00 45.15 3.86
367 370 0.462759 CGAATTCCTCTGTCAGGCCC 60.463 60.000 0.00 0.00 43.08 5.80
368 371 0.462759 GAATTCCTCTGTCAGGCCCG 60.463 60.000 0.00 0.00 43.08 6.13
369 372 0.909610 AATTCCTCTGTCAGGCCCGA 60.910 55.000 0.00 0.00 43.08 5.14
388 391 2.993899 CGAGATGCTTTAAGAACCGTGT 59.006 45.455 0.00 0.00 0.00 4.49
415 418 1.728971 CGAATTCGATGCATCCTAGCC 59.271 52.381 23.29 6.99 43.02 3.93
423 426 1.176527 TGCATCCTAGCCAAGCAAAC 58.823 50.000 0.00 0.00 31.42 2.93
459 462 2.947938 CTTAGGGCCTGCATGGGACG 62.948 65.000 18.53 0.00 34.56 4.79
471 474 2.336341 TGGGACGAATGCCAACAAC 58.664 52.632 0.00 0.00 44.66 3.32
478 481 2.102252 ACGAATGCCAACAACCAAACAT 59.898 40.909 0.00 0.00 0.00 2.71
536 539 8.934023 ATCAAAACAAATCCTAGTACTTTCCA 57.066 30.769 0.00 0.00 0.00 3.53
537 540 8.754991 TCAAAACAAATCCTAGTACTTTCCAA 57.245 30.769 0.00 0.00 0.00 3.53
538 541 9.191479 TCAAAACAAATCCTAGTACTTTCCAAA 57.809 29.630 0.00 0.00 0.00 3.28
539 542 9.981114 CAAAACAAATCCTAGTACTTTCCAAAT 57.019 29.630 0.00 0.00 0.00 2.32
541 544 7.939784 ACAAATCCTAGTACTTTCCAAATCC 57.060 36.000 0.00 0.00 0.00 3.01
542 545 7.466804 ACAAATCCTAGTACTTTCCAAATCCA 58.533 34.615 0.00 0.00 0.00 3.41
543 546 7.947890 ACAAATCCTAGTACTTTCCAAATCCAA 59.052 33.333 0.00 0.00 0.00 3.53
544 547 8.462016 CAAATCCTAGTACTTTCCAAATCCAAG 58.538 37.037 0.00 0.00 0.00 3.61
545 548 6.945636 TCCTAGTACTTTCCAAATCCAAGA 57.054 37.500 0.00 0.00 0.00 3.02
546 549 7.510675 TCCTAGTACTTTCCAAATCCAAGAT 57.489 36.000 0.00 0.00 0.00 2.40
547 550 7.928873 TCCTAGTACTTTCCAAATCCAAGATT 58.071 34.615 0.00 0.00 0.00 2.40
548 551 8.047310 TCCTAGTACTTTCCAAATCCAAGATTC 58.953 37.037 0.00 0.00 0.00 2.52
549 552 7.829211 CCTAGTACTTTCCAAATCCAAGATTCA 59.171 37.037 0.00 0.00 0.00 2.57
550 553 9.231297 CTAGTACTTTCCAAATCCAAGATTCAA 57.769 33.333 0.00 0.00 0.00 2.69
551 554 7.886338 AGTACTTTCCAAATCCAAGATTCAAC 58.114 34.615 0.00 0.00 0.00 3.18
552 555 6.983906 ACTTTCCAAATCCAAGATTCAACT 57.016 33.333 0.00 0.00 0.00 3.16
553 556 9.010029 GTACTTTCCAAATCCAAGATTCAACTA 57.990 33.333 0.00 0.00 0.00 2.24
554 557 8.655935 ACTTTCCAAATCCAAGATTCAACTAT 57.344 30.769 0.00 0.00 0.00 2.12
555 558 8.743714 ACTTTCCAAATCCAAGATTCAACTATC 58.256 33.333 0.00 0.00 0.00 2.08
556 559 6.925610 TCCAAATCCAAGATTCAACTATCG 57.074 37.500 0.00 0.00 0.00 2.92
557 560 6.649155 TCCAAATCCAAGATTCAACTATCGA 58.351 36.000 0.00 0.00 0.00 3.59
558 561 7.109501 TCCAAATCCAAGATTCAACTATCGAA 58.890 34.615 0.00 0.00 0.00 3.71
559 562 7.609918 TCCAAATCCAAGATTCAACTATCGAAA 59.390 33.333 0.00 0.00 0.00 3.46
560 563 7.698130 CCAAATCCAAGATTCAACTATCGAAAC 59.302 37.037 0.00 0.00 0.00 2.78
561 564 7.921786 AATCCAAGATTCAACTATCGAAACA 57.078 32.000 0.00 0.00 0.00 2.83
562 565 7.921786 ATCCAAGATTCAACTATCGAAACAA 57.078 32.000 0.00 0.00 0.00 2.83
563 566 7.737972 TCCAAGATTCAACTATCGAAACAAA 57.262 32.000 0.00 0.00 0.00 2.83
564 567 8.335532 TCCAAGATTCAACTATCGAAACAAAT 57.664 30.769 0.00 0.00 0.00 2.32
565 568 8.450964 TCCAAGATTCAACTATCGAAACAAATC 58.549 33.333 0.00 0.00 0.00 2.17
566 569 7.698130 CCAAGATTCAACTATCGAAACAAATCC 59.302 37.037 0.00 0.00 0.00 3.01
567 570 8.454106 CAAGATTCAACTATCGAAACAAATCCT 58.546 33.333 0.00 0.00 0.00 3.24
568 571 9.667107 AAGATTCAACTATCGAAACAAATCCTA 57.333 29.630 0.00 0.00 0.00 2.94
569 572 9.319143 AGATTCAACTATCGAAACAAATCCTAG 57.681 33.333 0.00 0.00 0.00 3.02
570 573 9.099454 GATTCAACTATCGAAACAAATCCTAGT 57.901 33.333 0.00 0.00 0.00 2.57
574 577 9.367444 CAACTATCGAAACAAATCCTAGTACTT 57.633 33.333 0.00 0.00 0.00 2.24
582 585 9.841880 GAAACAAATCCTAGTACTTTCCAAATC 57.158 33.333 0.00 0.00 0.00 2.17
597 600 8.743714 ACTTTCCAAATCCAAGATTCAACTATC 58.256 33.333 0.00 0.00 0.00 2.08
608 611 7.148239 CCAAGATTCAACTATCGCTACCTTTTT 60.148 37.037 0.00 0.00 0.00 1.94
797 801 0.540365 CCCCTTGATGCAGTGGTGTT 60.540 55.000 0.00 0.00 0.00 3.32
817 821 4.161565 TGTTGAATGTCCGAGCCTAATACT 59.838 41.667 0.00 0.00 0.00 2.12
922 926 4.385405 GCACTCACCGAGGCTGCT 62.385 66.667 0.00 0.00 31.69 4.24
925 929 4.079850 CTCACCGAGGCTGCTGCT 62.080 66.667 15.64 1.41 39.59 4.24
1050 1054 3.089217 TCCATCCAGCCGCATCCA 61.089 61.111 0.00 0.00 0.00 3.41
1157 1161 4.479993 ATCGCCACTGCTGGAGCC 62.480 66.667 0.00 0.00 40.55 4.70
1162 1166 2.745698 CACTGCTGGAGCCACTCA 59.254 61.111 0.00 0.00 41.18 3.41
1280 1284 4.379813 CCAATCCAGACTGAATTTTGGACG 60.380 45.833 3.32 0.00 42.12 4.79
1395 1400 0.812549 AACACGCCGACCAAAGTTTT 59.187 45.000 0.00 0.00 0.00 2.43
1424 1429 1.024271 CCATCCTATGCCACCAAACG 58.976 55.000 0.00 0.00 0.00 3.60
1462 1467 1.506262 GCACGCCACGATCCAAAAT 59.494 52.632 0.00 0.00 0.00 1.82
1643 1702 2.123468 TCCGATCTGGATCCGGCA 60.123 61.111 16.48 5.46 43.74 5.69
2008 2070 1.271102 TCCTATTTTTGCCGGTTGTGC 59.729 47.619 1.90 0.00 0.00 4.57
2079 2144 6.182627 TGGAACTTAGATACTCGGTTCACTA 58.817 40.000 0.00 0.00 38.27 2.74
2126 2200 1.678123 GGCCGGGTACTCCTCTTTTTC 60.678 57.143 2.18 0.00 0.00 2.29
2129 2206 3.335579 CCGGGTACTCCTCTTTTTCAAG 58.664 50.000 0.00 0.00 0.00 3.02
2211 2288 1.273048 TCACAATGGCCAAATCTGCAC 59.727 47.619 10.96 0.00 0.00 4.57
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
61 62 2.810274 CCATCTTCACCAAGTCACACTG 59.190 50.000 0.00 0.00 0.00 3.66
64 65 3.855255 TTCCATCTTCACCAAGTCACA 57.145 42.857 0.00 0.00 0.00 3.58
195 197 0.250234 CTGGCTTTCCTCGACCATCA 59.750 55.000 0.00 0.00 0.00 3.07
206 208 0.964358 AGCACTGATGGCTGGCTTTC 60.964 55.000 2.00 0.37 40.80 2.62
213 215 2.422519 CCCTTCATTAGCACTGATGGCT 60.423 50.000 2.95 0.00 45.18 4.75
225 227 4.352595 TCTTCTTTCACCACCCCTTCATTA 59.647 41.667 0.00 0.00 0.00 1.90
228 230 2.106511 CTCTTCTTTCACCACCCCTTCA 59.893 50.000 0.00 0.00 0.00 3.02
268 270 1.141053 GGGATGCTTCGGTCATAACCT 59.859 52.381 0.00 0.00 44.04 3.50
269 271 1.134220 TGGGATGCTTCGGTCATAACC 60.134 52.381 0.00 0.00 42.66 2.85
326 329 0.880441 TGTTTCCACATGGTGCATCG 59.120 50.000 0.00 0.00 36.34 3.84
335 338 3.091545 AGGAATTCGCATGTTTCCACAT 58.908 40.909 16.11 0.00 45.18 3.21
356 359 2.725312 GCATCTCGGGCCTGACAGA 61.725 63.158 11.27 8.23 0.00 3.41
360 363 0.908910 TTAAAGCATCTCGGGCCTGA 59.091 50.000 15.16 15.16 0.00 3.86
364 367 1.671328 GGTTCTTAAAGCATCTCGGGC 59.329 52.381 0.00 0.00 33.03 6.13
367 370 2.993899 ACACGGTTCTTAAAGCATCTCG 59.006 45.455 0.00 0.00 33.03 4.04
368 371 3.994392 TCACACGGTTCTTAAAGCATCTC 59.006 43.478 0.00 0.00 33.03 2.75
369 372 3.746492 GTCACACGGTTCTTAAAGCATCT 59.254 43.478 0.00 0.00 33.03 2.90
388 391 0.036858 TGCATCGAATTCGTGGGTCA 60.037 50.000 25.93 14.96 40.80 4.02
396 399 2.771089 TGGCTAGGATGCATCGAATTC 58.229 47.619 20.15 10.18 34.04 2.17
401 404 0.533531 TGCTTGGCTAGGATGCATCG 60.534 55.000 20.15 8.09 34.04 3.84
415 418 1.741993 CAAACGAGTCGGTTTGCTTG 58.258 50.000 14.37 0.00 46.95 4.01
423 426 0.673644 AAGGATGCCAAACGAGTCGG 60.674 55.000 18.30 0.00 0.00 4.79
459 462 4.869861 GGATATGTTTGGTTGTTGGCATTC 59.130 41.667 0.00 0.00 0.00 2.67
471 474 9.799106 ATTTAGATAGAACCAGGATATGTTTGG 57.201 33.333 0.00 0.00 37.98 3.28
529 532 6.983906 AGTTGAATCTTGGATTTGGAAAGT 57.016 33.333 0.00 0.00 0.00 2.66
530 533 7.912250 CGATAGTTGAATCTTGGATTTGGAAAG 59.088 37.037 0.00 0.00 0.00 2.62
531 534 7.609918 TCGATAGTTGAATCTTGGATTTGGAAA 59.390 33.333 0.00 0.00 37.40 3.13
532 535 7.109501 TCGATAGTTGAATCTTGGATTTGGAA 58.890 34.615 0.00 0.00 37.40 3.53
533 536 6.649155 TCGATAGTTGAATCTTGGATTTGGA 58.351 36.000 0.00 0.00 37.40 3.53
534 537 6.925610 TCGATAGTTGAATCTTGGATTTGG 57.074 37.500 0.00 0.00 37.40 3.28
535 538 8.236586 TGTTTCGATAGTTGAATCTTGGATTTG 58.763 33.333 0.00 0.00 37.40 2.32
536 539 8.335532 TGTTTCGATAGTTGAATCTTGGATTT 57.664 30.769 0.00 0.00 37.40 2.17
537 540 7.921786 TGTTTCGATAGTTGAATCTTGGATT 57.078 32.000 0.00 0.00 37.40 3.01
538 541 7.921786 TTGTTTCGATAGTTGAATCTTGGAT 57.078 32.000 0.00 0.00 37.40 3.41
539 542 7.737972 TTTGTTTCGATAGTTGAATCTTGGA 57.262 32.000 0.00 0.00 37.40 3.53
540 543 7.698130 GGATTTGTTTCGATAGTTGAATCTTGG 59.302 37.037 0.00 0.00 37.40 3.61
541 544 8.454106 AGGATTTGTTTCGATAGTTGAATCTTG 58.546 33.333 0.00 0.00 37.40 3.02
542 545 8.567285 AGGATTTGTTTCGATAGTTGAATCTT 57.433 30.769 0.00 0.00 37.40 2.40
543 546 9.319143 CTAGGATTTGTTTCGATAGTTGAATCT 57.681 33.333 0.00 0.00 37.40 2.40
544 547 9.099454 ACTAGGATTTGTTTCGATAGTTGAATC 57.901 33.333 0.00 0.00 37.40 2.52
546 549 9.362539 GTACTAGGATTTGTTTCGATAGTTGAA 57.637 33.333 0.00 0.00 37.40 2.69
547 550 8.746530 AGTACTAGGATTTGTTTCGATAGTTGA 58.253 33.333 0.00 0.00 37.40 3.18
548 551 8.928270 AGTACTAGGATTTGTTTCGATAGTTG 57.072 34.615 0.00 0.00 37.40 3.16
549 552 9.939802 AAAGTACTAGGATTTGTTTCGATAGTT 57.060 29.630 0.00 0.00 37.40 2.24
550 553 9.583765 GAAAGTACTAGGATTTGTTTCGATAGT 57.416 33.333 0.00 0.00 37.40 2.12
551 554 9.032420 GGAAAGTACTAGGATTTGTTTCGATAG 57.968 37.037 0.00 0.00 0.00 2.08
552 555 8.533657 TGGAAAGTACTAGGATTTGTTTCGATA 58.466 33.333 0.00 0.00 0.00 2.92
553 556 7.391620 TGGAAAGTACTAGGATTTGTTTCGAT 58.608 34.615 0.00 0.00 0.00 3.59
554 557 6.761312 TGGAAAGTACTAGGATTTGTTTCGA 58.239 36.000 0.00 0.00 0.00 3.71
555 558 7.429636 TTGGAAAGTACTAGGATTTGTTTCG 57.570 36.000 0.00 0.00 0.00 3.46
556 559 9.841880 GATTTGGAAAGTACTAGGATTTGTTTC 57.158 33.333 0.00 0.00 0.00 2.78
557 560 8.803235 GGATTTGGAAAGTACTAGGATTTGTTT 58.197 33.333 0.00 0.00 0.00 2.83
558 561 7.947890 TGGATTTGGAAAGTACTAGGATTTGTT 59.052 33.333 0.00 0.00 0.00 2.83
559 562 7.466804 TGGATTTGGAAAGTACTAGGATTTGT 58.533 34.615 0.00 0.00 0.00 2.83
560 563 7.938140 TGGATTTGGAAAGTACTAGGATTTG 57.062 36.000 0.00 0.00 0.00 2.32
561 564 8.390921 TCTTGGATTTGGAAAGTACTAGGATTT 58.609 33.333 0.00 0.00 0.00 2.17
562 565 7.928873 TCTTGGATTTGGAAAGTACTAGGATT 58.071 34.615 0.00 0.00 0.00 3.01
563 566 7.510675 TCTTGGATTTGGAAAGTACTAGGAT 57.489 36.000 0.00 0.00 0.00 3.24
564 567 6.945636 TCTTGGATTTGGAAAGTACTAGGA 57.054 37.500 0.00 0.00 0.00 2.94
565 568 7.829211 TGAATCTTGGATTTGGAAAGTACTAGG 59.171 37.037 0.00 0.00 0.00 3.02
566 569 8.792830 TGAATCTTGGATTTGGAAAGTACTAG 57.207 34.615 0.00 0.00 0.00 2.57
567 570 9.010029 GTTGAATCTTGGATTTGGAAAGTACTA 57.990 33.333 0.00 0.00 0.00 1.82
568 571 7.725844 AGTTGAATCTTGGATTTGGAAAGTACT 59.274 33.333 0.00 0.00 0.00 2.73
569 572 7.886338 AGTTGAATCTTGGATTTGGAAAGTAC 58.114 34.615 0.00 0.00 0.00 2.73
570 573 9.753674 ATAGTTGAATCTTGGATTTGGAAAGTA 57.246 29.630 0.00 0.00 0.00 2.24
574 577 6.183360 GCGATAGTTGAATCTTGGATTTGGAA 60.183 38.462 0.00 0.00 39.35 3.53
582 585 4.950050 AGGTAGCGATAGTTGAATCTTGG 58.050 43.478 0.00 0.00 39.35 3.61
711 714 9.804758 GCTTACTGATGTACTACTTTGTAAGAT 57.195 33.333 19.43 0.00 38.36 2.40
712 715 8.248945 GGCTTACTGATGTACTACTTTGTAAGA 58.751 37.037 19.43 0.00 38.36 2.10
797 801 6.127281 TGTTTAGTATTAGGCTCGGACATTCA 60.127 38.462 0.00 0.00 0.00 2.57
817 821 3.438781 GGATTTGGTGCGATGTCTGTTTA 59.561 43.478 0.00 0.00 0.00 2.01
922 926 1.841302 ATCGGTGGAAGAAGGCAGCA 61.841 55.000 0.00 0.00 0.00 4.41
925 929 1.198094 TGGATCGGTGGAAGAAGGCA 61.198 55.000 0.00 0.00 0.00 4.75
1050 1054 2.819667 GCAGCTGCATATCGACGAT 58.180 52.632 33.36 15.74 41.59 3.73
1157 1161 1.222936 GGATGGTGGGCTCTGAGTG 59.777 63.158 6.53 0.00 0.00 3.51
1162 1166 1.380302 GTTGTGGATGGTGGGCTCT 59.620 57.895 0.00 0.00 0.00 4.09
1280 1284 3.306595 GAACCCCTCCCGGACGAAC 62.307 68.421 0.73 0.00 0.00 3.95
1447 1452 1.351707 CGGATTTTGGATCGTGGCG 59.648 57.895 0.00 0.00 0.00 5.69
1458 1463 3.181506 GCTCTTTCATCTTCGCGGATTTT 60.182 43.478 6.13 0.00 0.00 1.82
1462 1467 0.460284 GGCTCTTTCATCTTCGCGGA 60.460 55.000 6.13 0.00 0.00 5.54
1719 1779 3.467226 GGGTCTCCCATCGGCGAA 61.467 66.667 15.93 0.00 44.65 4.70
1967 2029 2.027745 ACAACATGCCTACAGACAGAGG 60.028 50.000 0.00 0.00 35.78 3.69
1968 2030 3.257393 GACAACATGCCTACAGACAGAG 58.743 50.000 0.00 0.00 0.00 3.35
1969 2031 2.028112 GGACAACATGCCTACAGACAGA 60.028 50.000 0.00 0.00 0.00 3.41
1970 2032 2.027745 AGGACAACATGCCTACAGACAG 60.028 50.000 0.00 0.00 31.31 3.51
1974 2036 6.324819 CAAAAATAGGACAACATGCCTACAG 58.675 40.000 0.00 0.00 39.43 2.74
2079 2144 7.902387 TGCATTGCACACAAACATTTATTAT 57.098 28.000 7.38 0.00 39.77 1.28
2140 2217 6.961576 ACGTATCTAGTGCTAGTTGAATCTC 58.038 40.000 6.18 0.00 34.84 2.75
2152 2229 9.422196 CAAAGCTTTTATTTACGTATCTAGTGC 57.578 33.333 9.53 0.00 0.00 4.40
2211 2288 3.820467 TGTTCTGTCTTGCCTTGGTATTG 59.180 43.478 0.00 0.00 0.00 1.90


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

AutoCloner maintained by Alex Coulton.