Multiple sequence alignment - TraesCS6D01G191600

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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 TraesCS6D01G191600 chr6D 100.000 4691 0 0 1 4691 264443316 264448006 0.000000e+00 8663
1 TraesCS6D01G191600 chr6A 95.698 3928 123 26 423 4327 373114606 373118510 0.000000e+00 6276
2 TraesCS6D01G191600 chr6A 92.235 425 29 4 4265 4688 373118480 373118901 2.420000e-167 599
3 TraesCS6D01G191600 chr6A 93.377 302 14 4 78 378 373114195 373114491 4.310000e-120 442
4 TraesCS6D01G191600 chr6A 92.500 80 6 0 5 84 373082661 373082740 1.070000e-21 115
5 TraesCS6D01G191600 chr6A 91.250 80 6 1 364 442 373114511 373114590 1.780000e-19 108
6 TraesCS6D01G191600 chr6B 97.125 2748 54 13 1950 4688 408241900 408244631 0.000000e+00 4614
7 TraesCS6D01G191600 chr6B 94.702 1510 57 15 423 1916 408240403 408241905 0.000000e+00 2324
8 TraesCS6D01G191600 chr6B 88.182 440 29 9 6 442 408239930 408240349 1.950000e-138 503


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 TraesCS6D01G191600 chr6D 264443316 264448006 4690 False 8663.000000 8663 100.000000 1 4691 1 chr6D.!!$F1 4690
1 TraesCS6D01G191600 chr6A 373114195 373118901 4706 False 1856.250000 6276 93.140000 78 4688 4 chr6A.!!$F2 4610
2 TraesCS6D01G191600 chr6B 408239930 408244631 4701 False 2480.333333 4614 93.336333 6 4688 3 chr6B.!!$F1 4682

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
830 955 0.471211 TCCACCACTCGTTCCTTCCT 60.471 55.000 0.0 0.0 0.00 3.36 F
1296 1423 0.674581 TGTCAGAGATGGCAAAGGCG 60.675 55.000 0.0 0.0 42.47 5.52 F
1937 2074 0.610174 TGATGGAGTGCCTGTGAGTC 59.390 55.000 0.0 0.0 34.31 3.36 F
2984 3137 1.449246 CCGCTTTCCCTCTCAGCAG 60.449 63.158 0.0 0.0 32.71 4.24 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1802 1933 1.324383 TCTGTAGACGGCAACTGTGA 58.676 50.000 0.00 0.00 0.0 3.58 R
2883 3036 1.382522 CTGGATTTGGTGCGCTGTAT 58.617 50.000 9.73 0.00 0.0 2.29 R
3462 3615 2.357517 AAGACCACAGAAGCGGCG 60.358 61.111 0.51 0.51 0.0 6.46 R
4411 4602 2.775911 TGATCAGCCTTTCAGACCAG 57.224 50.000 0.00 0.00 0.0 4.00 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 5.451937 GGCCCCTCAATAAAAAGAATACTGC 60.452 44.000 0.00 0.00 0.00 4.40
122 123 4.805231 TATGACACCGGCGCCGTG 62.805 66.667 43.12 37.97 37.81 4.94
140 141 3.069586 CCGTGGCTGATAGTATGAAGGAA 59.930 47.826 0.00 0.00 0.00 3.36
180 182 2.771943 TGGACGCCAATAATTCCTCTCT 59.228 45.455 0.00 0.00 0.00 3.10
181 183 3.181465 TGGACGCCAATAATTCCTCTCTC 60.181 47.826 0.00 0.00 0.00 3.20
182 184 3.181465 GGACGCCAATAATTCCTCTCTCA 60.181 47.826 0.00 0.00 0.00 3.27
183 185 4.442706 GACGCCAATAATTCCTCTCTCAA 58.557 43.478 0.00 0.00 0.00 3.02
193 195 1.004394 TCCTCTCTCAACAGCCGTCTA 59.996 52.381 0.00 0.00 0.00 2.59
229 231 2.029380 GTGGTTACATTTTCCCTGTGGC 60.029 50.000 0.00 0.00 0.00 5.01
273 276 6.376248 ACCATCCCATCTGCTATAACAAAAT 58.624 36.000 0.00 0.00 0.00 1.82
303 306 4.021807 AGCAAATCACAATCACAATGCAGA 60.022 37.500 0.00 0.00 35.11 4.26
309 312 5.646606 TCACAATCACAATGCAGATTCATG 58.353 37.500 0.00 0.00 32.43 3.07
362 365 0.687354 ACGAATCTTGGACCACAGCT 59.313 50.000 0.00 0.00 0.00 4.24
365 368 1.808945 GAATCTTGGACCACAGCTGTG 59.191 52.381 35.15 35.15 45.23 3.66
374 377 1.361271 CACAGCTGTGGTTGCAAGG 59.639 57.895 34.65 9.69 42.10 3.61
435 473 7.385205 ACACTCTGTTACATTGTCATCAGTAAC 59.615 37.037 0.00 0.00 43.91 2.50
455 566 5.590530 AACAATTATGGCGCAGGAAATTA 57.409 34.783 10.83 0.00 0.00 1.40
457 568 5.772521 ACAATTATGGCGCAGGAAATTATC 58.227 37.500 10.83 0.00 0.00 1.75
467 582 5.175856 GCGCAGGAAATTATCTAGTGTGTAG 59.824 44.000 0.30 0.00 0.00 2.74
483 598 7.068692 AGTGTGTAGTAACAAAAACAGTGAC 57.931 36.000 0.00 0.00 37.36 3.67
486 601 7.269724 GTGTGTAGTAACAAAAACAGTGACAAC 59.730 37.037 0.00 0.00 37.36 3.32
522 640 1.487976 GCATGATGTCCTGAGAGGGAA 59.512 52.381 0.00 0.00 37.10 3.97
552 670 3.928992 CCAGTTACTCTACACAGTGCATG 59.071 47.826 0.00 0.00 0.00 4.06
580 698 3.004734 AGACATGAAACGGCAAAAGGAAG 59.995 43.478 0.00 0.00 0.00 3.46
583 701 1.953686 TGAAACGGCAAAAGGAAGAGG 59.046 47.619 0.00 0.00 0.00 3.69
585 703 2.358322 AACGGCAAAAGGAAGAGGAA 57.642 45.000 0.00 0.00 0.00 3.36
586 704 1.897560 ACGGCAAAAGGAAGAGGAAG 58.102 50.000 0.00 0.00 0.00 3.46
589 707 2.884639 CGGCAAAAGGAAGAGGAAGAAA 59.115 45.455 0.00 0.00 0.00 2.52
590 708 3.507622 CGGCAAAAGGAAGAGGAAGAAAT 59.492 43.478 0.00 0.00 0.00 2.17
591 709 4.700213 CGGCAAAAGGAAGAGGAAGAAATA 59.300 41.667 0.00 0.00 0.00 1.40
592 710 5.358160 CGGCAAAAGGAAGAGGAAGAAATAT 59.642 40.000 0.00 0.00 0.00 1.28
593 711 6.458888 CGGCAAAAGGAAGAGGAAGAAATATC 60.459 42.308 0.00 0.00 0.00 1.63
596 714 7.972832 GCAAAAGGAAGAGGAAGAAATATCTTG 59.027 37.037 0.00 0.00 45.91 3.02
704 829 9.171877 GTATTTGGATCTTGAGAAGAAACAGAT 57.828 33.333 0.00 0.00 41.63 2.90
726 851 0.686112 GAGGGAGGTCCAGTCCAGAG 60.686 65.000 0.00 0.00 38.24 3.35
742 867 3.201487 TCCAGAGATCCATGCAACAGAAT 59.799 43.478 0.00 0.00 0.00 2.40
760 885 1.442769 ATACAAACAGTCCAGCAGCG 58.557 50.000 0.00 0.00 0.00 5.18
830 955 0.471211 TCCACCACTCGTTCCTTCCT 60.471 55.000 0.00 0.00 0.00 3.36
842 967 1.553706 TCCTTCCTACCACTCGTTCC 58.446 55.000 0.00 0.00 0.00 3.62
843 968 1.076677 TCCTTCCTACCACTCGTTCCT 59.923 52.381 0.00 0.00 0.00 3.36
1035 1162 1.892474 CCTTTCTTTTCCATTGCCCGA 59.108 47.619 0.00 0.00 0.00 5.14
1125 1252 2.440147 CCCACCATTCACTGCCCA 59.560 61.111 0.00 0.00 0.00 5.36
1213 1340 1.610102 CCACACTCTCCTCCTTTGCAG 60.610 57.143 0.00 0.00 0.00 4.41
1231 1358 3.356639 GACGCTGACGATGGCTCCA 62.357 63.158 0.00 0.00 43.93 3.86
1242 1369 0.957395 ATGGCTCCAGTGCAAACTCG 60.957 55.000 0.00 0.00 34.04 4.18
1296 1423 0.674581 TGTCAGAGATGGCAAAGGCG 60.675 55.000 0.00 0.00 42.47 5.52
1431 1558 1.133976 GTGCTGGCATATCTGACCCTT 60.134 52.381 0.00 0.00 0.00 3.95
1432 1559 1.141657 TGCTGGCATATCTGACCCTTC 59.858 52.381 0.00 0.00 0.00 3.46
1722 1849 6.069673 AGGTAACATTCCATCACAGATAACCA 60.070 38.462 0.00 0.00 41.41 3.67
1775 1902 2.355115 GCGGTCCCTTGGTTCCAT 59.645 61.111 0.00 0.00 0.00 3.41
1818 1949 2.433868 TTCTCACAGTTGCCGTCTAC 57.566 50.000 0.00 0.00 0.00 2.59
1820 1953 1.269723 TCTCACAGTTGCCGTCTACAG 59.730 52.381 0.00 0.00 0.00 2.74
1825 1958 3.059597 CACAGTTGCCGTCTACAGAAAAG 60.060 47.826 0.00 0.00 0.00 2.27
1929 2066 2.158842 AGATGCTAGTTGATGGAGTGCC 60.159 50.000 0.00 0.00 0.00 5.01
1930 2067 1.279496 TGCTAGTTGATGGAGTGCCT 58.721 50.000 0.00 0.00 34.31 4.75
1931 2068 1.065926 TGCTAGTTGATGGAGTGCCTG 60.066 52.381 0.00 0.00 34.31 4.85
1937 2074 0.610174 TGATGGAGTGCCTGTGAGTC 59.390 55.000 0.00 0.00 34.31 3.36
1940 2077 2.009681 TGGAGTGCCTGTGAGTCTTA 57.990 50.000 0.00 0.00 34.31 2.10
1990 2127 5.191722 AGGGAGCCTGATTACATAAGAAACA 59.808 40.000 0.00 0.00 29.57 2.83
2102 2239 9.300681 TGTGGAAATCAGAAAACTTTGATCTAT 57.699 29.630 0.00 0.00 33.09 1.98
2259 2402 4.993705 ATAGGGGAACTGAACAGACAAA 57.006 40.909 8.87 0.00 0.00 2.83
2264 2407 4.885325 GGGGAACTGAACAGACAAAGTTAA 59.115 41.667 8.87 0.00 33.14 2.01
2265 2408 5.535030 GGGGAACTGAACAGACAAAGTTAAT 59.465 40.000 8.87 0.00 33.14 1.40
2266 2409 6.713450 GGGGAACTGAACAGACAAAGTTAATA 59.287 38.462 8.87 0.00 33.14 0.98
2267 2410 7.393515 GGGGAACTGAACAGACAAAGTTAATAT 59.606 37.037 8.87 0.00 33.14 1.28
2268 2411 9.444600 GGGAACTGAACAGACAAAGTTAATATA 57.555 33.333 8.87 0.00 33.14 0.86
2367 2519 8.668510 ACAGAGTGTTGATATTGATACAATCC 57.331 34.615 0.00 0.00 36.56 3.01
2778 2931 6.095300 TGAGAAAACAAGACATCTTTGCAAGA 59.905 34.615 0.00 0.00 42.69 3.02
2871 3024 8.788325 ACACTATTTCTACTAACCATGTTTCC 57.212 34.615 0.00 0.00 0.00 3.13
2883 3036 3.071892 ACCATGTTTCCCTTCAGTTCGTA 59.928 43.478 0.00 0.00 0.00 3.43
2916 3069 2.133359 ATCCAGGTCAAGCTGCAGCA 62.133 55.000 38.24 17.55 45.16 4.41
2984 3137 1.449246 CCGCTTTCCCTCTCAGCAG 60.449 63.158 0.00 0.00 32.71 4.24
3108 3261 5.555017 TCAGAAGCAGAAAAGATAGCAACT 58.445 37.500 0.00 0.00 0.00 3.16
3147 3300 1.608590 CAGCAAGGTGGATTTGACGTT 59.391 47.619 0.00 0.00 0.00 3.99
3180 3333 4.080695 AGAGGAGCTCAATTGCAGATTGTA 60.081 41.667 17.19 7.18 32.06 2.41
3704 3857 5.822519 ACTTTATGTGAGTGCTTTGTGAGAA 59.177 36.000 0.00 0.00 0.00 2.87
3736 3889 2.435059 GAGAGGTCCAGCCGTTGC 60.435 66.667 0.00 0.00 43.70 4.17
3809 3962 1.415672 TTCCGGGAGTTTCCAGCAGT 61.416 55.000 0.00 0.00 38.64 4.40
3811 3964 1.672356 CGGGAGTTTCCAGCAGTGG 60.672 63.158 0.00 0.00 46.63 4.00
3879 4032 7.118723 ACAAAGCACATGATTAGGATAAAGGA 58.881 34.615 0.00 0.00 0.00 3.36
4411 4602 8.613060 TGGTTTATTATCATCTCAGATCTTGC 57.387 34.615 0.00 0.00 0.00 4.01
4561 4752 8.807118 TCTTGAGTATATCAATGGGTATGACTC 58.193 37.037 0.00 0.00 46.71 3.36
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 2.891191 TCTTTTTATTGAGGGGCCGT 57.109 45.000 0.00 0.00 0.00 5.68
1 2 4.887655 AGTATTCTTTTTATTGAGGGGCCG 59.112 41.667 0.00 0.00 0.00 6.13
2 3 5.451937 GCAGTATTCTTTTTATTGAGGGGCC 60.452 44.000 0.00 0.00 0.00 5.80
3 4 5.127031 TGCAGTATTCTTTTTATTGAGGGGC 59.873 40.000 0.00 0.00 0.00 5.80
4 5 6.603201 TCTGCAGTATTCTTTTTATTGAGGGG 59.397 38.462 14.67 0.00 0.00 4.79
122 123 3.326297 AGGCTTCCTTCATACTATCAGCC 59.674 47.826 0.00 0.00 45.08 4.85
130 131 1.757699 AGTCGGAGGCTTCCTTCATAC 59.242 52.381 13.69 3.56 45.33 2.39
152 153 2.325583 TTATTGGCGTCCATGTCTCC 57.674 50.000 0.00 0.00 31.53 3.71
180 182 0.803117 CGAGTCTAGACGGCTGTTGA 59.197 55.000 17.07 0.00 36.20 3.18
181 183 0.803117 TCGAGTCTAGACGGCTGTTG 59.197 55.000 17.07 3.80 36.20 3.33
182 184 1.088306 CTCGAGTCTAGACGGCTGTT 58.912 55.000 17.07 0.00 36.20 3.16
183 185 1.370587 GCTCGAGTCTAGACGGCTGT 61.371 60.000 17.07 0.00 36.20 4.40
193 195 0.753262 ACCACTTTGTGCTCGAGTCT 59.247 50.000 15.13 0.00 31.34 3.24
273 276 3.808726 GTGATTGTGATTTGCTTTTGCCA 59.191 39.130 0.00 0.00 46.87 4.92
303 306 4.397103 CAGTCTTGTGGTATGTGCATGAAT 59.603 41.667 0.00 0.00 0.00 2.57
309 312 1.726791 CGTCAGTCTTGTGGTATGTGC 59.273 52.381 0.00 0.00 0.00 4.57
362 365 0.324738 TGTTTCCCCTTGCAACCACA 60.325 50.000 0.00 0.00 0.00 4.17
365 368 2.028476 GGTATTGTTTCCCCTTGCAACC 60.028 50.000 0.00 0.00 0.00 3.77
366 369 2.630580 TGGTATTGTTTCCCCTTGCAAC 59.369 45.455 0.00 0.00 0.00 4.17
374 377 4.580580 GGACATCTCATGGTATTGTTTCCC 59.419 45.833 0.00 0.00 33.60 3.97
435 473 6.017400 AGATAATTTCCTGCGCCATAATTG 57.983 37.500 4.18 0.00 0.00 2.32
455 566 9.042008 CACTGTTTTTGTTACTACACACTAGAT 57.958 33.333 0.00 0.00 32.98 1.98
457 568 8.325997 GTCACTGTTTTTGTTACTACACACTAG 58.674 37.037 0.00 0.00 32.98 2.57
467 582 7.380065 TGTTCTTGTTGTCACTGTTTTTGTTAC 59.620 33.333 0.00 0.00 0.00 2.50
483 598 7.697352 TCATGCATTTTTACTGTTCTTGTTG 57.303 32.000 0.00 0.00 0.00 3.33
486 601 7.062605 GGACATCATGCATTTTTACTGTTCTTG 59.937 37.037 0.00 0.00 0.00 3.02
522 640 6.776603 ACTGTGTAGAGTAACTGGAACTAGTT 59.223 38.462 8.13 8.13 43.03 2.24
532 650 4.280929 TGTCATGCACTGTGTAGAGTAACT 59.719 41.667 9.86 0.00 0.00 2.24
552 670 1.601903 TGCCGTTTCATGTCTTGTGTC 59.398 47.619 0.00 0.00 0.00 3.67
559 677 3.004315 TCTTCCTTTTGCCGTTTCATGTC 59.996 43.478 0.00 0.00 0.00 3.06
580 698 9.513727 GATTTTGAAGCAAGATATTTCTTCCTC 57.486 33.333 9.48 0.00 40.28 3.71
583 701 9.643693 TTGGATTTTGAAGCAAGATATTTCTTC 57.356 29.630 5.64 5.64 40.28 2.87
585 703 8.810041 AGTTGGATTTTGAAGCAAGATATTTCT 58.190 29.630 0.00 0.00 0.00 2.52
586 704 8.992835 AGTTGGATTTTGAAGCAAGATATTTC 57.007 30.769 0.00 0.00 0.00 2.17
589 707 7.068716 GGGTAGTTGGATTTTGAAGCAAGATAT 59.931 37.037 0.00 0.00 0.00 1.63
590 708 6.377146 GGGTAGTTGGATTTTGAAGCAAGATA 59.623 38.462 0.00 0.00 0.00 1.98
591 709 5.185828 GGGTAGTTGGATTTTGAAGCAAGAT 59.814 40.000 0.00 0.00 0.00 2.40
592 710 4.522789 GGGTAGTTGGATTTTGAAGCAAGA 59.477 41.667 0.00 0.00 0.00 3.02
593 711 4.524328 AGGGTAGTTGGATTTTGAAGCAAG 59.476 41.667 0.00 0.00 0.00 4.01
596 714 5.944007 TCTTAGGGTAGTTGGATTTTGAAGC 59.056 40.000 0.00 0.00 0.00 3.86
597 715 7.883311 TCTTCTTAGGGTAGTTGGATTTTGAAG 59.117 37.037 0.00 0.00 0.00 3.02
598 716 7.751646 TCTTCTTAGGGTAGTTGGATTTTGAA 58.248 34.615 0.00 0.00 0.00 2.69
599 717 7.324388 TCTTCTTAGGGTAGTTGGATTTTGA 57.676 36.000 0.00 0.00 0.00 2.69
600 718 7.415653 GCATCTTCTTAGGGTAGTTGGATTTTG 60.416 40.741 0.00 0.00 0.00 2.44
704 829 1.229529 GGACTGGACCTCCCTCCAA 60.230 63.158 0.00 0.00 39.97 3.53
726 851 5.953183 TGTTTGTATTCTGTTGCATGGATC 58.047 37.500 0.00 0.00 0.00 3.36
742 867 1.227999 GCGCTGCTGGACTGTTTGTA 61.228 55.000 0.00 0.00 0.00 2.41
760 885 1.103398 ATAATCTGGGGTTGCAGCGC 61.103 55.000 9.21 9.21 0.00 5.92
767 892 3.244911 CGCCTAATCCATAATCTGGGGTT 60.245 47.826 0.00 0.00 45.98 4.11
830 955 1.263356 CTGGGAAGGAACGAGTGGTA 58.737 55.000 0.00 0.00 0.00 3.25
985 1112 0.035630 GACATGGAGTGGCAGAAGCT 60.036 55.000 0.00 0.00 41.70 3.74
1110 1237 0.540365 ACCTTGGGCAGTGAATGGTG 60.540 55.000 0.00 0.00 0.00 4.17
1213 1340 2.583593 GGAGCCATCGTCAGCGTC 60.584 66.667 0.00 0.00 39.49 5.19
1231 1358 0.674895 GAGGCATCCGAGTTTGCACT 60.675 55.000 0.00 0.00 40.66 4.40
1296 1423 3.315191 CCATCCGTGGTGAAATATGGAAC 59.685 47.826 0.00 0.00 40.83 3.62
1431 1558 3.106827 TGCCATGTAGAATCCTGACAGA 58.893 45.455 3.32 0.00 0.00 3.41
1432 1559 3.548745 TGCCATGTAGAATCCTGACAG 57.451 47.619 0.00 0.00 0.00 3.51
1741 1868 2.100749 ACCGCGTCATCTGATTGACATA 59.899 45.455 4.92 0.00 45.08 2.29
1802 1933 1.324383 TCTGTAGACGGCAACTGTGA 58.676 50.000 0.00 0.00 0.00 3.58
1810 1941 2.080286 TCTGCTTTTCTGTAGACGGC 57.920 50.000 0.00 0.00 0.00 5.68
1811 1942 3.914312 TCTTCTGCTTTTCTGTAGACGG 58.086 45.455 0.00 0.00 0.00 4.79
1818 1949 9.545105 AGATATCTTACATCTTCTGCTTTTCTG 57.455 33.333 0.00 0.00 28.01 3.02
1878 2011 7.066284 AGTGCATAGGTTTTTGCTGTTAGATAG 59.934 37.037 0.00 0.00 39.60 2.08
1879 2012 6.884295 AGTGCATAGGTTTTTGCTGTTAGATA 59.116 34.615 0.00 0.00 39.60 1.98
1880 2013 5.711976 AGTGCATAGGTTTTTGCTGTTAGAT 59.288 36.000 0.00 0.00 39.60 1.98
1881 2014 5.070001 AGTGCATAGGTTTTTGCTGTTAGA 58.930 37.500 0.00 0.00 39.60 2.10
1929 2066 4.659088 CATTTGCATGCTAAGACTCACAG 58.341 43.478 20.33 0.00 0.00 3.66
1930 2067 4.690184 CATTTGCATGCTAAGACTCACA 57.310 40.909 20.33 0.00 0.00 3.58
2007 2144 6.602009 GCCTTTCCCTTTGCTAGTTTCTTATA 59.398 38.462 0.00 0.00 0.00 0.98
2008 2145 5.419155 GCCTTTCCCTTTGCTAGTTTCTTAT 59.581 40.000 0.00 0.00 0.00 1.73
2017 2154 2.158534 TCAAGTGCCTTTCCCTTTGCTA 60.159 45.455 0.00 0.00 0.00 3.49
2059 2196 3.157087 CCACATCAACCAGGCTAAAACT 58.843 45.455 0.00 0.00 0.00 2.66
2268 2411 9.740710 ACTAAAATTTTCTTACTCCAGCATAGT 57.259 29.630 6.72 0.00 0.00 2.12
2269 2412 9.994432 CACTAAAATTTTCTTACTCCAGCATAG 57.006 33.333 6.72 0.00 0.00 2.23
2270 2413 8.956426 CCACTAAAATTTTCTTACTCCAGCATA 58.044 33.333 6.72 0.00 0.00 3.14
2346 2498 8.267183 TCACTGGATTGTATCAATATCAACACT 58.733 33.333 0.00 0.00 0.00 3.55
2347 2499 8.437360 TCACTGGATTGTATCAATATCAACAC 57.563 34.615 0.00 0.00 0.00 3.32
2871 3024 1.852895 GCGCTGTATACGAACTGAAGG 59.147 52.381 0.00 0.00 0.00 3.46
2883 3036 1.382522 CTGGATTTGGTGCGCTGTAT 58.617 50.000 9.73 0.00 0.00 2.29
3108 3261 3.686241 GCTGAACATCTGTATTGTCAGCA 59.314 43.478 21.32 0.00 41.96 4.41
3147 3300 2.765807 GCTCCTCTAGGGCCAGCA 60.766 66.667 6.18 0.00 35.66 4.41
3180 3333 2.894763 TGTAGCCAAATACGCCGTAT 57.105 45.000 3.44 3.44 0.00 3.06
3462 3615 2.357517 AAGACCACAGAAGCGGCG 60.358 61.111 0.51 0.51 0.00 6.46
3809 3962 6.040729 TGCTCTGACAAATCTTTTCAATTCCA 59.959 34.615 0.00 0.00 0.00 3.53
3811 3964 7.935338 TTGCTCTGACAAATCTTTTCAATTC 57.065 32.000 0.00 0.00 0.00 2.17
3884 4037 7.556275 GGGAGTCTCAAACATGATTATTTACCA 59.444 37.037 0.00 0.00 0.00 3.25
4149 4305 8.621286 CCGAACTTGCCTTTTACTATTTATCAT 58.379 33.333 0.00 0.00 0.00 2.45
4411 4602 2.775911 TGATCAGCCTTTCAGACCAG 57.224 50.000 0.00 0.00 0.00 4.00


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

AutoCloner maintained by Alex Coulton.