Multiple sequence alignment - TraesCS6B01G273400

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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 TraesCS6B01G273400 chr6B 100.000 3240 0 0 1 3240 493355069 493351830 0.000000e+00 5984.0
1 TraesCS6B01G273400 chr6B 80.305 853 151 14 2392 3240 26233786 26234625 2.120000e-176 628.0
2 TraesCS6B01G273400 chr6B 83.799 179 21 7 2912 3086 23688170 23687996 2.590000e-36 163.0
3 TraesCS6B01G273400 chr6A 90.165 2430 118 42 1 2371 468476003 468473636 0.000000e+00 3051.0
4 TraesCS6B01G273400 chr6A 91.525 59 4 1 408 465 468475583 468475525 2.680000e-11 80.5
5 TraesCS6B01G273400 chr6D 94.809 1907 78 9 481 2372 329082838 329080938 0.000000e+00 2953.0
6 TraesCS6B01G273400 chr6D 94.635 466 19 2 1 465 329083283 329082823 0.000000e+00 717.0
7 TraesCS6B01G273400 chr5D 86.337 849 108 7 2393 3238 211996283 211995440 0.000000e+00 918.0
8 TraesCS6B01G273400 chr2D 85.967 848 114 4 2392 3238 53172395 53173238 0.000000e+00 902.0
9 TraesCS6B01G273400 chr4D 85.207 845 112 5 2392 3235 77033048 77033880 0.000000e+00 856.0
10 TraesCS6B01G273400 chr3A 82.385 738 109 18 2392 3123 749364492 749365214 9.870000e-175 623.0
11 TraesCS6B01G273400 chr2B 79.104 335 59 9 2912 3240 600724961 600725290 1.510000e-53 220.0


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 TraesCS6B01G273400 chr6B 493351830 493355069 3239 True 5984.00 5984 100.000 1 3240 1 chr6B.!!$R2 3239
1 TraesCS6B01G273400 chr6B 26233786 26234625 839 False 628.00 628 80.305 2392 3240 1 chr6B.!!$F1 848
2 TraesCS6B01G273400 chr6A 468473636 468476003 2367 True 1565.75 3051 90.845 1 2371 2 chr6A.!!$R1 2370
3 TraesCS6B01G273400 chr6D 329080938 329083283 2345 True 1835.00 2953 94.722 1 2372 2 chr6D.!!$R1 2371
4 TraesCS6B01G273400 chr5D 211995440 211996283 843 True 918.00 918 86.337 2393 3238 1 chr5D.!!$R1 845
5 TraesCS6B01G273400 chr2D 53172395 53173238 843 False 902.00 902 85.967 2392 3238 1 chr2D.!!$F1 846
6 TraesCS6B01G273400 chr4D 77033048 77033880 832 False 856.00 856 85.207 2392 3235 1 chr4D.!!$F1 843
7 TraesCS6B01G273400 chr3A 749364492 749365214 722 False 623.00 623 82.385 2392 3123 1 chr3A.!!$F1 731

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
467 508 0.031449 CCGGCCAATCGTTTGTGTTT 59.969 50.0 2.24 0.0 0.00 2.83 F
1130 1177 0.252421 ATGAGAGGAGCACCCAGTCA 60.252 55.0 0.00 0.0 37.41 3.41 F
1943 2037 0.252467 AAGACAGGGGAGGAGGACAG 60.252 60.0 0.00 0.0 0.00 3.51 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2189 2284 0.323360 ACCAATACACAAGCGCCCAT 60.323 50.0 2.29 0.0 0.0 4.00 R
2190 2285 0.538516 AACCAATACACAAGCGCCCA 60.539 50.0 2.29 0.0 0.0 5.36 R
3076 3177 0.988145 TCCTCCCTGGGGCAGTTATG 60.988 60.0 14.00 0.0 36.2 1.90 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
72 73 1.238439 TCAAAGCGAGAAAAGCAGGG 58.762 50.000 0.00 0.00 37.01 4.45
134 135 0.893727 GACATCGGGGTGGCAGTTTT 60.894 55.000 0.00 0.00 0.00 2.43
184 185 1.691196 CACTCAAGCAAGGAAACCCA 58.309 50.000 0.00 0.00 0.00 4.51
185 186 2.031120 CACTCAAGCAAGGAAACCCAA 58.969 47.619 0.00 0.00 0.00 4.12
186 187 2.629617 CACTCAAGCAAGGAAACCCAAT 59.370 45.455 0.00 0.00 0.00 3.16
187 188 2.893489 ACTCAAGCAAGGAAACCCAATC 59.107 45.455 0.00 0.00 0.00 2.67
188 189 2.232208 CTCAAGCAAGGAAACCCAATCC 59.768 50.000 0.00 0.00 37.22 3.01
233 234 3.857038 GGGCCGGTGAGCGGATAA 61.857 66.667 28.78 0.00 0.00 1.75
234 235 2.188469 GGCCGGTGAGCGGATAAA 59.812 61.111 28.78 0.00 0.00 1.40
277 278 2.371306 GTCGGGCTCTCTTTCTAGACT 58.629 52.381 0.00 0.00 0.00 3.24
292 293 0.391927 AGACTCCTCTCGTCGTCCTG 60.392 60.000 0.00 0.00 36.53 3.86
302 303 1.005037 GTCGTCCTGGTCATGTGCA 60.005 57.895 0.00 0.00 0.00 4.57
345 346 0.463620 TTGCCAACTTGCAACCCTTC 59.536 50.000 0.00 0.00 45.77 3.46
351 352 4.306600 CCAACTTGCAACCCTTCATTTAC 58.693 43.478 0.00 0.00 0.00 2.01
356 357 5.830991 ACTTGCAACCCTTCATTTACTAACA 59.169 36.000 0.00 0.00 0.00 2.41
391 392 3.543665 ACTCTTATCTTCGTCCGCTACT 58.456 45.455 0.00 0.00 0.00 2.57
450 491 5.216648 CACACAACCACTTAAATAAACCCG 58.783 41.667 0.00 0.00 0.00 5.28
451 492 4.278919 ACACAACCACTTAAATAAACCCGG 59.721 41.667 0.00 0.00 0.00 5.73
452 493 3.256383 ACAACCACTTAAATAAACCCGGC 59.744 43.478 0.00 0.00 0.00 6.13
453 494 2.449464 ACCACTTAAATAAACCCGGCC 58.551 47.619 0.00 0.00 0.00 6.13
454 495 2.225066 ACCACTTAAATAAACCCGGCCA 60.225 45.455 2.24 0.00 0.00 5.36
455 496 2.826725 CCACTTAAATAAACCCGGCCAA 59.173 45.455 2.24 0.00 0.00 4.52
456 497 3.449377 CCACTTAAATAAACCCGGCCAAT 59.551 43.478 2.24 0.00 0.00 3.16
457 498 4.440940 CCACTTAAATAAACCCGGCCAATC 60.441 45.833 2.24 0.00 0.00 2.67
458 499 3.379057 ACTTAAATAAACCCGGCCAATCG 59.621 43.478 2.24 0.00 0.00 3.34
459 500 1.842052 AAATAAACCCGGCCAATCGT 58.158 45.000 2.24 0.00 0.00 3.73
460 501 1.842052 AATAAACCCGGCCAATCGTT 58.158 45.000 2.24 0.00 0.00 3.85
461 502 1.842052 ATAAACCCGGCCAATCGTTT 58.158 45.000 2.24 7.59 33.29 3.60
462 503 0.882474 TAAACCCGGCCAATCGTTTG 59.118 50.000 2.24 0.00 31.29 2.93
463 504 1.110518 AAACCCGGCCAATCGTTTGT 61.111 50.000 2.24 0.00 0.00 2.83
464 505 1.801309 AACCCGGCCAATCGTTTGTG 61.801 55.000 2.24 0.00 0.00 3.33
465 506 2.265182 CCCGGCCAATCGTTTGTGT 61.265 57.895 2.24 0.00 0.00 3.72
466 507 1.657556 CCGGCCAATCGTTTGTGTT 59.342 52.632 2.24 0.00 0.00 3.32
467 508 0.031449 CCGGCCAATCGTTTGTGTTT 59.969 50.000 2.24 0.00 0.00 2.83
468 509 1.537135 CCGGCCAATCGTTTGTGTTTT 60.537 47.619 2.24 0.00 0.00 2.43
469 510 2.197577 CGGCCAATCGTTTGTGTTTTT 58.802 42.857 2.24 0.00 0.00 1.94
579 623 2.433239 TCTCCCTAAAGTATTGCCGGAC 59.567 50.000 5.05 0.00 0.00 4.79
643 687 4.500116 GACGCCACGGAGAGAGGC 62.500 72.222 0.00 0.00 44.89 4.70
857 901 2.354656 GACACGCTGTCACTCGCA 60.355 61.111 11.62 0.00 46.22 5.10
911 958 0.523546 CACGTACAGCGCTACAGAGG 60.524 60.000 10.99 0.00 46.11 3.69
1057 1104 8.237811 AGAACCAATACTTGATCTGTTGTTTT 57.762 30.769 0.00 0.00 0.00 2.43
1075 1122 3.329929 TTTCTTTAGCTCCCGGAAGAC 57.670 47.619 0.73 0.00 0.00 3.01
1130 1177 0.252421 ATGAGAGGAGCACCCAGTCA 60.252 55.000 0.00 0.00 37.41 3.41
1169 1216 2.574018 CGAGCAGGTGGAGGTGACA 61.574 63.158 0.00 0.00 0.00 3.58
1230 1277 0.539518 GGAGGAGGACAAGGAGAAGC 59.460 60.000 0.00 0.00 0.00 3.86
1283 1333 2.943978 CGTGGAAGAGCCCGAGGTT 61.944 63.158 0.00 0.00 33.75 3.50
1385 1435 5.933790 TCGGTAAGTGCAAACATGATTTAC 58.066 37.500 0.00 0.00 0.00 2.01
1433 1494 0.746063 ATATGGCATGGTTGTTGCGG 59.254 50.000 10.98 0.00 41.07 5.69
1435 1496 1.876497 ATGGCATGGTTGTTGCGGTC 61.876 55.000 0.00 0.00 41.07 4.79
1461 1522 2.188524 CCTCGTGATTGATCGTCTGTG 58.811 52.381 0.00 0.00 0.00 3.66
1506 1567 0.895530 AGGTGATCGATGACAACGGT 59.104 50.000 16.93 0.00 0.00 4.83
1552 1613 1.203237 AGGGTCTCAAGGAGAAGCTCA 60.203 52.381 0.00 0.00 40.59 4.26
1887 1981 1.486211 CGAAGGAGAAGAAGGGCCTA 58.514 55.000 6.41 0.00 0.00 3.93
1943 2037 0.252467 AAGACAGGGGAGGAGGACAG 60.252 60.000 0.00 0.00 0.00 3.51
2098 2193 3.146847 GGGTTGATCGTCTTTGAAGGTT 58.853 45.455 0.00 0.00 0.00 3.50
2132 2227 0.439985 CGTTCAGTGACGGATGCTTG 59.560 55.000 0.00 0.00 39.27 4.01
2195 2290 9.281075 GTTAAGTTTGTTTACTTATTATGGGCG 57.719 33.333 0.00 0.00 39.60 6.13
2210 2305 1.271434 TGGGCGCTTGTGTATTGGTTA 60.271 47.619 7.64 0.00 0.00 2.85
2211 2306 2.021457 GGGCGCTTGTGTATTGGTTAT 58.979 47.619 7.64 0.00 0.00 1.89
2289 2384 8.708742 TGCATTTTGTGAAGATATATAGCGTAC 58.291 33.333 0.00 0.00 0.00 3.67
2449 2549 2.372264 CCAATGATGGGACTGAAGTGG 58.628 52.381 0.00 0.00 43.51 4.00
2452 2552 3.914426 ATGATGGGACTGAAGTGGTAC 57.086 47.619 0.00 0.00 0.00 3.34
2456 2556 2.684943 TGGGACTGAAGTGGTACTCAA 58.315 47.619 0.00 0.00 0.00 3.02
2471 2571 1.633945 ACTCAACCCCACCCAAGATAC 59.366 52.381 0.00 0.00 0.00 2.24
2474 2574 1.287739 CAACCCCACCCAAGATACCAT 59.712 52.381 0.00 0.00 0.00 3.55
2482 2582 4.526262 CCACCCAAGATACCATTGAACAAA 59.474 41.667 0.00 0.00 0.00 2.83
2485 2585 5.779771 ACCCAAGATACCATTGAACAAATGT 59.220 36.000 0.00 0.00 43.66 2.71
2490 2590 7.537596 AGATACCATTGAACAAATGTTGGAA 57.462 32.000 3.05 0.00 43.66 3.53
2491 2591 7.605449 AGATACCATTGAACAAATGTTGGAAG 58.395 34.615 3.05 0.00 43.66 3.46
2499 2599 5.811613 TGAACAAATGTTGGAAGCTCAAAAG 59.188 36.000 3.05 0.00 38.56 2.27
2506 2606 3.228188 TGGAAGCTCAAAAGGACACAT 57.772 42.857 0.00 0.00 0.00 3.21
2508 2608 3.149196 GGAAGCTCAAAAGGACACATCA 58.851 45.455 0.00 0.00 0.00 3.07
2511 2611 5.451798 GGAAGCTCAAAAGGACACATCAAAA 60.452 40.000 0.00 0.00 0.00 2.44
2531 2631 2.677968 AAATGGGGGCCAGTGCAAGT 62.678 55.000 4.39 0.00 36.75 3.16
2532 2632 3.892104 ATGGGGGCCAGTGCAAGTG 62.892 63.158 4.39 0.00 36.75 3.16
2568 2668 3.519510 CCAGAGTTGATGTAGGAGGGAAA 59.480 47.826 0.00 0.00 0.00 3.13
2613 2713 4.904241 ACAAGAAGAAGATCCAGAACCTG 58.096 43.478 0.00 0.00 0.00 4.00
2635 2735 4.712337 TGGAGAAGGAGAAGGACACTTATC 59.288 45.833 0.00 0.00 42.71 1.75
2652 2752 8.596781 ACACTTATCAAGGTACTCTACTCAAT 57.403 34.615 0.00 0.00 38.49 2.57
2744 2844 9.167311 AGATGTAGTTGAGTTAAATAAAGCTGG 57.833 33.333 0.00 0.00 0.00 4.85
2745 2845 8.863872 ATGTAGTTGAGTTAAATAAAGCTGGT 57.136 30.769 0.00 0.00 0.00 4.00
2775 2875 7.897864 AGCTAAGAAAAGTAAGCACTCTAAGA 58.102 34.615 0.00 0.00 37.44 2.10
2816 2916 6.608539 AGAGCTGACATTCATATAGATGCT 57.391 37.500 0.00 0.00 32.62 3.79
2821 2921 7.549842 AGCTGACATTCATATAGATGCTTCATC 59.450 37.037 2.07 0.00 40.80 2.92
2844 2945 4.258543 TGGTTTAGATAAGAAAGTGGCCG 58.741 43.478 0.00 0.00 0.00 6.13
2851 2952 3.365265 GAAAGTGGCCGGCACCAG 61.365 66.667 30.85 0.00 41.46 4.00
2882 2983 2.093235 CCCAAATCAGACTGGAGAGACC 60.093 54.545 1.81 0.00 34.35 3.85
2898 2999 6.823689 TGGAGAGACCAATATAGCTTCAAAAC 59.176 38.462 0.00 0.00 46.75 2.43
2908 3009 8.623903 CAATATAGCTTCAAAACTGCCTGATAA 58.376 33.333 0.00 0.00 0.00 1.75
2940 3041 5.791336 TCTTACAGACTCTTCACACACAT 57.209 39.130 0.00 0.00 0.00 3.21
2952 3053 2.969262 TCACACACATCTGAAGGGTGTA 59.031 45.455 19.18 6.96 43.41 2.90
3076 3177 2.422093 CCTCTTCTGGAACATTAGGGGC 60.422 54.545 0.00 0.00 38.20 5.80
3100 3201 2.037367 GCCCCAGGGAGGAAAACC 59.963 66.667 7.25 0.00 41.22 3.27
3134 3235 4.072839 GGTACTTAGCAAGACCAAAGCTT 58.927 43.478 0.00 0.00 39.68 3.74
3148 3249 8.507524 AGACCAAAGCTTGTATTATTACCTTC 57.492 34.615 0.00 0.00 0.00 3.46
3229 3330 0.752054 ATTTTGTGTGGCACCACCTG 59.248 50.000 16.26 0.00 45.63 4.00
3238 3339 2.113774 CACCACCTGCCTGCTGAA 59.886 61.111 0.00 0.00 0.00 3.02
3239 3340 1.970114 CACCACCTGCCTGCTGAAG 60.970 63.158 0.00 0.00 0.00 3.02
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
72 73 2.636412 GGCTGGCCGTTCTTTTCCC 61.636 63.158 0.00 0.00 0.00 3.97
134 135 0.750850 GCGGGGTAAGCAGACAGATA 59.249 55.000 0.00 0.00 34.19 1.98
146 147 3.010314 ATTTGGTCCGGCGGGGTA 61.010 61.111 27.98 9.57 37.00 3.69
184 185 0.394352 CTAGCAAAGCGGGTGGGATT 60.394 55.000 0.00 0.00 0.00 3.01
185 186 1.224592 CTAGCAAAGCGGGTGGGAT 59.775 57.895 0.00 0.00 0.00 3.85
186 187 2.668632 CTAGCAAAGCGGGTGGGA 59.331 61.111 0.00 0.00 0.00 4.37
187 188 2.438434 CCTAGCAAAGCGGGTGGG 60.438 66.667 0.00 0.00 0.00 4.61
188 189 1.303317 AACCTAGCAAAGCGGGTGG 60.303 57.895 9.58 2.07 38.80 4.61
233 234 0.179040 ACATGTGGGGTCGAAACGTT 60.179 50.000 0.00 0.00 0.00 3.99
234 235 0.601841 GACATGTGGGGTCGAAACGT 60.602 55.000 1.15 0.00 0.00 3.99
277 278 1.376942 GACCAGGACGACGAGAGGA 60.377 63.158 0.00 0.00 0.00 3.71
302 303 1.215647 GCACGTCGGGAGAGTGATT 59.784 57.895 0.00 0.00 41.26 2.57
345 346 6.904498 TCGTGGTGGATTTTGTTAGTAAATG 58.096 36.000 0.00 0.00 0.00 2.32
351 352 4.755123 AGAGTTCGTGGTGGATTTTGTTAG 59.245 41.667 0.00 0.00 0.00 2.34
356 357 5.805728 AGATAAGAGTTCGTGGTGGATTTT 58.194 37.500 0.00 0.00 0.00 1.82
391 392 3.765381 TCTTTTGGATGCTCAATCACCA 58.235 40.909 0.00 0.00 36.98 4.17
469 510 5.379732 AACGATTGGCCGATTCTTAAAAA 57.620 34.783 7.01 0.00 0.00 1.94
470 511 5.157781 CAAACGATTGGCCGATTCTTAAAA 58.842 37.500 7.01 0.00 32.69 1.52
471 512 4.216687 ACAAACGATTGGCCGATTCTTAAA 59.783 37.500 7.01 0.00 41.01 1.52
472 513 3.754323 ACAAACGATTGGCCGATTCTTAA 59.246 39.130 7.01 0.00 41.01 1.85
473 514 3.126171 CACAAACGATTGGCCGATTCTTA 59.874 43.478 7.01 0.00 41.01 2.10
474 515 2.095263 CACAAACGATTGGCCGATTCTT 60.095 45.455 7.01 0.00 41.01 2.52
475 516 1.468520 CACAAACGATTGGCCGATTCT 59.531 47.619 7.01 0.00 41.01 2.40
476 517 1.467374 CCACAAACGATTGGCCGATTC 60.467 52.381 7.01 0.00 41.01 2.52
477 518 0.525761 CCACAAACGATTGGCCGATT 59.474 50.000 7.01 0.00 41.01 3.34
478 519 0.322098 TCCACAAACGATTGGCCGAT 60.322 50.000 4.69 4.69 41.01 4.18
479 520 1.071642 TCCACAAACGATTGGCCGA 59.928 52.632 10.36 0.00 41.01 5.54
755 799 2.028484 GTCAGTCCAACGTGGCGA 59.972 61.111 0.00 0.00 37.47 5.54
817 861 1.282817 CGGAAATAATGGCGTGACGA 58.717 50.000 10.10 0.00 0.00 4.20
986 1033 2.046292 TGTGACTGATGAAGGTGTCCA 58.954 47.619 0.00 0.00 0.00 4.02
1057 1104 1.192428 GGTCTTCCGGGAGCTAAAGA 58.808 55.000 4.24 0.10 0.00 2.52
1075 1122 0.652592 CGATCGGTGCAGCTAAAAGG 59.347 55.000 14.92 0.00 0.00 3.11
1230 1277 2.985456 GGTGACCAGCTCCTCCTG 59.015 66.667 0.00 0.00 0.00 3.86
1283 1333 1.005569 TCCTCGTGCTCCTCCTTCTTA 59.994 52.381 0.00 0.00 0.00 2.10
1404 1458 2.297033 ACCATGCCATATCCGAATTTGC 59.703 45.455 0.00 0.00 0.00 3.68
1405 1459 4.202141 ACAACCATGCCATATCCGAATTTG 60.202 41.667 0.00 0.00 0.00 2.32
1411 1472 1.269206 GCAACAACCATGCCATATCCG 60.269 52.381 0.00 0.00 37.85 4.18
1435 1496 2.188524 CGATCAATCACGAGGTCAGTG 58.811 52.381 0.00 0.00 40.71 3.66
1449 1510 2.820197 ACTAGACTGCACAGACGATCAA 59.180 45.455 4.31 0.00 0.00 2.57
1461 1522 2.085320 TCTTCCTCGTCACTAGACTGC 58.915 52.381 0.00 0.00 42.73 4.40
1506 1567 4.420206 TCTTCTTCCTCTTGATCACCTCA 58.580 43.478 0.00 0.00 0.00 3.86
1552 1613 4.416738 GCCGGGCAGCTTCTCCTT 62.417 66.667 15.62 0.00 0.00 3.36
1665 1735 0.594602 TCACGTCACCGTCGATCTTT 59.405 50.000 0.00 0.00 46.28 2.52
1887 1981 0.994247 TGTCCATGATCTTGCCCAGT 59.006 50.000 3.07 0.00 0.00 4.00
2003 2097 1.676635 AATCGAGGTCCGGTCACGA 60.677 57.895 17.88 17.88 44.60 4.35
2126 2221 4.081752 TGAACCAAACTGAAACACAAGCAT 60.082 37.500 0.00 0.00 0.00 3.79
2132 2227 4.394920 TGACTCTGAACCAAACTGAAACAC 59.605 41.667 0.00 0.00 0.00 3.32
2188 2283 1.065053 ACCAATACACAAGCGCCCATA 60.065 47.619 2.29 0.00 0.00 2.74
2189 2284 0.323360 ACCAATACACAAGCGCCCAT 60.323 50.000 2.29 0.00 0.00 4.00
2190 2285 0.538516 AACCAATACACAAGCGCCCA 60.539 50.000 2.29 0.00 0.00 5.36
2195 2290 4.864247 CCAGCAAATAACCAATACACAAGC 59.136 41.667 0.00 0.00 0.00 4.01
2311 2409 8.995220 ACACGTACAACACAACAATATATTTCT 58.005 29.630 0.00 0.00 0.00 2.52
2412 2512 7.883833 CCATCATTGGTGATCTCTTCATTATCT 59.116 37.037 0.00 0.00 43.14 1.98
2417 2517 4.414514 TCCCATCATTGGTGATCTCTTCAT 59.585 41.667 0.00 0.00 43.14 2.57
2449 2549 1.061546 TCTTGGGTGGGGTTGAGTAC 58.938 55.000 0.00 0.00 0.00 2.73
2452 2552 1.064685 GGTATCTTGGGTGGGGTTGAG 60.065 57.143 0.00 0.00 0.00 3.02
2456 2556 1.287739 CAATGGTATCTTGGGTGGGGT 59.712 52.381 0.00 0.00 0.00 4.95
2462 2562 6.284891 ACATTTGTTCAATGGTATCTTGGG 57.715 37.500 0.00 0.00 46.06 4.12
2471 2571 4.634199 AGCTTCCAACATTTGTTCAATGG 58.366 39.130 0.00 0.00 46.06 3.16
2474 2574 4.998671 TGAGCTTCCAACATTTGTTCAA 57.001 36.364 0.00 0.00 35.83 2.69
2482 2582 3.319122 GTGTCCTTTTGAGCTTCCAACAT 59.681 43.478 0.00 0.00 0.00 2.71
2485 2585 3.011566 TGTGTCCTTTTGAGCTTCCAA 57.988 42.857 0.00 0.00 0.00 3.53
2490 2590 5.596836 TTTTTGATGTGTCCTTTTGAGCT 57.403 34.783 0.00 0.00 0.00 4.09
2511 2611 1.461075 TTGCACTGGCCCCCATTTT 60.461 52.632 0.00 0.00 40.13 1.82
2531 2631 4.689612 ACTCTGGTACTTCTTCTTTGCA 57.310 40.909 0.00 0.00 0.00 4.08
2532 2632 5.057149 TCAACTCTGGTACTTCTTCTTTGC 58.943 41.667 0.00 0.00 0.00 3.68
2540 2640 5.163499 CCTCCTACATCAACTCTGGTACTTC 60.163 48.000 0.00 0.00 0.00 3.01
2568 2668 3.264193 TGACAGCTATCTCCAACATGGTT 59.736 43.478 0.00 0.00 39.03 3.67
2613 2713 4.712337 TGATAAGTGTCCTTCTCCTTCTCC 59.288 45.833 0.00 0.00 31.89 3.71
2635 2735 9.930693 AAAAGAGTTATTGAGTAGAGTACCTTG 57.069 33.333 0.00 0.00 0.00 3.61
2652 2752 9.503399 GGGTCAGAGAAATTCTTAAAAGAGTTA 57.497 33.333 0.00 0.00 34.40 2.24
2704 2804 9.344772 CTCAACTACATCTACTTCTACACCTAT 57.655 37.037 0.00 0.00 0.00 2.57
2744 2844 9.240159 GAGTGCTTACTTTTCTTAGCTATCTAC 57.760 37.037 0.00 0.00 34.77 2.59
2745 2845 9.191479 AGAGTGCTTACTTTTCTTAGCTATCTA 57.809 33.333 0.00 0.00 34.77 1.98
2759 2859 5.047660 CACAGGTCTCTTAGAGTGCTTACTT 60.048 44.000 9.25 0.00 0.00 2.24
2816 2916 7.336931 GCCACTTTCTTATCTAAACCAGATGAA 59.663 37.037 0.00 0.00 44.10 2.57
2821 2921 4.332819 CGGCCACTTTCTTATCTAAACCAG 59.667 45.833 2.24 0.00 0.00 4.00
2822 2922 4.258543 CGGCCACTTTCTTATCTAAACCA 58.741 43.478 2.24 0.00 0.00 3.67
2824 2924 3.064958 GCCGGCCACTTTCTTATCTAAAC 59.935 47.826 18.11 0.00 0.00 2.01
2882 2983 6.441093 TCAGGCAGTTTTGAAGCTATATTG 57.559 37.500 0.00 0.00 0.00 1.90
2887 2988 7.466746 AAATTATCAGGCAGTTTTGAAGCTA 57.533 32.000 0.00 0.00 0.00 3.32
2918 3019 5.536538 AGATGTGTGTGAAGAGTCTGTAAGA 59.463 40.000 0.00 0.00 43.69 2.10
2921 3022 4.827284 TCAGATGTGTGTGAAGAGTCTGTA 59.173 41.667 0.00 0.00 34.68 2.74
2931 3032 1.768275 ACACCCTTCAGATGTGTGTGA 59.232 47.619 4.09 0.00 41.40 3.58
2940 3041 3.260884 GTGTCTCCATTACACCCTTCAGA 59.739 47.826 0.00 0.00 41.10 3.27
2952 3053 7.851228 TCTACTTCAATACATGTGTCTCCATT 58.149 34.615 9.11 0.00 0.00 3.16
2967 3068 8.820831 CCAGATCCCACTATAATCTACTTCAAT 58.179 37.037 0.00 0.00 0.00 2.57
2968 3069 8.010697 TCCAGATCCCACTATAATCTACTTCAA 58.989 37.037 0.00 0.00 0.00 2.69
2987 3088 7.761249 CCATATTTTGAAACTTTGGTCCAGATC 59.239 37.037 0.00 0.00 0.00 2.75
2990 3091 6.868339 GTCCATATTTTGAAACTTTGGTCCAG 59.132 38.462 5.07 0.00 0.00 3.86
3076 3177 0.988145 TCCTCCCTGGGGCAGTTATG 60.988 60.000 14.00 0.00 36.20 1.90
3100 3201 3.384789 TGCTAAGTACCTCCACTATGCAG 59.615 47.826 0.00 0.00 34.28 4.41
3115 3216 3.555966 ACAAGCTTTGGTCTTGCTAAGT 58.444 40.909 0.00 0.00 43.40 2.24
3174 3275 9.013229 TGCTAATAGATTTCAAGAAAGCAGAAA 57.987 29.630 12.61 0.00 39.00 2.52


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

AutoCloner maintained by Alex Coulton.