Multiple sequence alignment - TraesCS6D01G210100

Loading Multiple Alignment...

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 TraesCS6D01G210100 chr6D 100.000 4490 0 0 1 4490 296755290 296750801 0.000000e+00 8292.0
1 TraesCS6D01G210100 chr6D 82.258 992 145 25 2321 3301 296825207 296824236 0.000000e+00 828.0
2 TraesCS6D01G210100 chr6D 81.818 418 56 14 3740 4145 89261554 89261145 2.590000e-87 333.0
3 TraesCS6D01G210100 chr6D 74.130 920 185 35 1017 1907 296826558 296825663 9.310000e-87 331.0
4 TraesCS6D01G210100 chr6D 77.113 485 93 14 3936 4410 298063191 298063667 9.580000e-67 265.0
5 TraesCS6D01G210100 chr6A 93.442 4498 184 44 35 4490 423525370 423520942 0.000000e+00 6569.0
6 TraesCS6D01G210100 chr6A 82.442 991 151 19 2321 3301 423534238 423533261 0.000000e+00 845.0
7 TraesCS6D01G210100 chr6A 79.525 674 113 18 3740 4394 448021323 448020656 1.470000e-124 457.0
8 TraesCS6D01G210100 chr6A 86.567 134 18 0 4261 4394 448020349 448020216 1.010000e-31 148.0
9 TraesCS6D01G210100 chr6B 95.001 3401 121 26 627 3997 460274077 460277458 0.000000e+00 5293.0
10 TraesCS6D01G210100 chr6B 88.748 711 59 15 3778 4473 460279449 460280153 0.000000e+00 850.0
11 TraesCS6D01G210100 chr6B 82.268 829 110 22 2321 3133 460209120 460209927 0.000000e+00 682.0
12 TraesCS6D01G210100 chr6B 90.440 523 25 3 1 517 460273534 460274037 0.000000e+00 665.0
13 TraesCS6D01G210100 chr6B 100.000 32 0 0 592 623 460274053 460274084 4.850000e-05 60.2
14 TraesCS6D01G210100 chr5B 77.905 964 167 30 2364 3301 115418576 115419519 3.920000e-155 558.0
15 TraesCS6D01G210100 chr5B 82.243 107 15 4 2974 3078 79804907 79804803 6.190000e-14 89.8
16 TraesCS6D01G210100 chr4B 76.409 763 149 25 3743 4482 271926603 271927357 2.530000e-102 383.0
17 TraesCS6D01G210100 chr4B 73.220 295 65 12 2805 3089 495584559 495584269 1.330000e-15 95.3
18 TraesCS6D01G210100 chr5D 83.178 107 14 4 2974 3078 72902418 72902314 1.330000e-15 95.3
19 TraesCS6D01G210100 chr4D 79.661 118 22 2 2974 3090 401077133 401077017 2.880000e-12 84.2
20 TraesCS6D01G210100 chr3A 94.118 51 3 0 3688 3738 709156631 709156681 1.340000e-10 78.7
21 TraesCS6D01G210100 chr3B 84.416 77 8 4 4308 4382 45630661 45630735 6.230000e-09 73.1
22 TraesCS6D01G210100 chr3B 84.211 76 10 2 4308 4382 407946588 407946662 6.230000e-09 73.1
23 TraesCS6D01G210100 chr2B 82.895 76 11 2 4308 4382 130575476 130575550 2.900000e-07 67.6


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 TraesCS6D01G210100 chr6D 296750801 296755290 4489 True 8292.00 8292 100.00000 1 4490 1 chr6D.!!$R2 4489
1 TraesCS6D01G210100 chr6D 296824236 296826558 2322 True 579.50 828 78.19400 1017 3301 2 chr6D.!!$R3 2284
2 TraesCS6D01G210100 chr6A 423520942 423525370 4428 True 6569.00 6569 93.44200 35 4490 1 chr6A.!!$R1 4455
3 TraesCS6D01G210100 chr6A 423533261 423534238 977 True 845.00 845 82.44200 2321 3301 1 chr6A.!!$R2 980
4 TraesCS6D01G210100 chr6A 448020216 448021323 1107 True 302.50 457 83.04600 3740 4394 2 chr6A.!!$R3 654
5 TraesCS6D01G210100 chr6B 460273534 460280153 6619 False 1717.05 5293 93.54725 1 4473 4 chr6B.!!$F2 4472
6 TraesCS6D01G210100 chr6B 460209120 460209927 807 False 682.00 682 82.26800 2321 3133 1 chr6B.!!$F1 812
7 TraesCS6D01G210100 chr5B 115418576 115419519 943 False 558.00 558 77.90500 2364 3301 1 chr5B.!!$F1 937
8 TraesCS6D01G210100 chr4B 271926603 271927357 754 False 383.00 383 76.40900 3743 4482 1 chr4B.!!$F1 739

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
548 554 0.033699 AGTAGTACTCCCACGGTCCC 60.034 60.0 0.0 0.0 0.0 4.46 F
1937 1983 0.106469 GGCATCTTCCCTTCCCTTCC 60.106 60.0 0.0 0.0 0.0 3.46 F
1955 2001 0.533032 CCGTTGGTTGGTTGGTTGTT 59.467 50.0 0.0 0.0 0.0 2.83 F
3195 3349 0.325296 TAGACCCCCAGATCAAGCGT 60.325 55.0 0.0 0.0 0.0 5.07 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2254 2316 0.252103 ACCAGTAGGGATGGACGTGT 60.252 55.000 0.00 0.0 40.51 4.49 R
2893 3038 0.035439 ACCTTGGCCGTGTAATCCTG 60.035 55.000 0.00 0.0 0.00 3.86 R
3367 3521 1.153978 GCGACGGTGATCCACGTAA 60.154 57.895 11.13 0.0 44.24 3.18 R
4058 6454 1.333177 AGGCATCGTATGACCTCTCC 58.667 55.000 0.00 0.0 39.88 3.71 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
68 69 4.865365 ACTGACTATTTTACTGAAGCGAGC 59.135 41.667 0.00 0.00 0.00 5.03
91 92 2.675348 GCCGAGTCAATTGAGAAGGAAG 59.325 50.000 20.78 5.23 0.00 3.46
92 93 3.617531 GCCGAGTCAATTGAGAAGGAAGA 60.618 47.826 20.78 0.00 0.00 2.87
100 101 7.555554 AGTCAATTGAGAAGGAAGACATAATGG 59.444 37.037 8.80 0.00 0.00 3.16
367 368 1.488705 ATTTGTCCCGTGCTCCAGGA 61.489 55.000 0.00 0.00 0.00 3.86
423 424 3.483808 TGTGTCTGCATCCACTTACAA 57.516 42.857 14.68 0.00 32.76 2.41
429 430 6.000840 TGTCTGCATCCACTTACAAATAACA 58.999 36.000 0.00 0.00 0.00 2.41
446 447 2.607750 AGGGCACATCTGTCGGGT 60.608 61.111 0.00 0.00 0.00 5.28
449 450 2.690778 GGCACATCTGTCGGGTTGC 61.691 63.158 0.00 0.00 0.00 4.17
451 452 1.003355 CACATCTGTCGGGTTGCCT 60.003 57.895 0.00 0.00 0.00 4.75
541 547 8.375493 ACAAGAATAATTGAGTAGTACTCCCA 57.625 34.615 24.32 13.42 44.44 4.37
548 554 0.033699 AGTAGTACTCCCACGGTCCC 60.034 60.000 0.00 0.00 0.00 4.46
560 566 3.431766 CCCACGGTCCCTTAATGTAAGAG 60.432 52.174 0.00 0.00 38.02 2.85
562 568 2.169978 ACGGTCCCTTAATGTAAGAGGC 59.830 50.000 0.00 0.00 38.02 4.70
570 576 5.402398 CCTTAATGTAAGAGGCTTTTGCAC 58.598 41.667 10.59 0.00 41.95 4.57
574 580 9.378977 CTTAATGTAAGAGGCTTTTGCACGGAA 62.379 40.741 10.59 5.12 41.95 4.30
581 587 1.197036 GCTTTTGCACGGAAGGAGTAC 59.803 52.381 0.00 0.00 46.58 2.73
582 588 2.489971 CTTTTGCACGGAAGGAGTACA 58.510 47.619 0.00 0.00 0.00 2.90
583 589 1.873698 TTTGCACGGAAGGAGTACAC 58.126 50.000 0.00 0.00 0.00 2.90
584 590 0.319211 TTGCACGGAAGGAGTACACG 60.319 55.000 0.00 0.00 0.00 4.49
585 591 1.288127 GCACGGAAGGAGTACACGT 59.712 57.895 0.00 0.00 38.43 4.49
586 592 0.523072 GCACGGAAGGAGTACACGTA 59.477 55.000 0.00 0.00 35.85 3.57
587 593 1.730446 GCACGGAAGGAGTACACGTAC 60.730 57.143 0.00 0.00 35.85 3.67
589 595 3.002791 CACGGAAGGAGTACACGTACTA 58.997 50.000 9.78 0.00 45.63 1.82
590 596 3.003480 ACGGAAGGAGTACACGTACTAC 58.997 50.000 11.04 11.04 45.63 2.73
671 677 1.002366 CTCATGCTGAACGCTGGTAC 58.998 55.000 0.00 0.00 40.11 3.34
710 716 1.228124 CCTTTTCGGCACCCACTCA 60.228 57.895 0.00 0.00 0.00 3.41
712 718 0.523072 CTTTTCGGCACCCACTCATG 59.477 55.000 0.00 0.00 0.00 3.07
713 719 0.179004 TTTTCGGCACCCACTCATGT 60.179 50.000 0.00 0.00 0.00 3.21
714 720 0.687920 TTTCGGCACCCACTCATGTA 59.312 50.000 0.00 0.00 0.00 2.29
715 721 0.687920 TTCGGCACCCACTCATGTAA 59.312 50.000 0.00 0.00 0.00 2.41
776 782 0.606604 ACATCCGACTAAACACGCCT 59.393 50.000 0.00 0.00 0.00 5.52
887 897 2.912690 TCGTGTCAAACCACACCATA 57.087 45.000 0.00 0.00 43.34 2.74
888 898 3.410631 TCGTGTCAAACCACACCATAT 57.589 42.857 0.00 0.00 43.34 1.78
890 900 2.161410 CGTGTCAAACCACACCATATGG 59.839 50.000 20.68 20.68 43.34 2.74
891 901 2.491693 GTGTCAAACCACACCATATGGG 59.508 50.000 25.55 16.20 40.84 4.00
947 975 1.566298 AATCACTCCCCTCAGGCCAC 61.566 60.000 5.01 0.00 34.51 5.01
965 993 2.757077 CCTATCCCATTCCCGGCC 59.243 66.667 0.00 0.00 0.00 6.13
1030 1058 2.815211 TGCTGATCGCCGTTCTGC 60.815 61.111 16.94 16.94 38.22 4.26
1031 1059 2.510238 GCTGATCGCCGTTCTGCT 60.510 61.111 16.63 0.00 35.78 4.24
1038 1066 0.248498 TCGCCGTTCTGCTATCTTCG 60.248 55.000 0.00 0.00 0.00 3.79
1039 1067 1.812214 CGCCGTTCTGCTATCTTCGC 61.812 60.000 0.00 0.00 0.00 4.70
1042 1070 1.812214 CGTTCTGCTATCTTCGCCGC 61.812 60.000 0.00 0.00 0.00 6.53
1043 1071 1.588932 TTCTGCTATCTTCGCCGCG 60.589 57.895 6.39 6.39 0.00 6.46
1431 1465 2.050895 CTCGCCTACATCCGCTCG 60.051 66.667 0.00 0.00 0.00 5.03
1461 1507 2.954868 GCCGACCGCTACATGACG 60.955 66.667 0.00 0.00 0.00 4.35
1906 1952 0.732880 CGACGGCTGTCAAGGTACTG 60.733 60.000 24.91 2.60 45.80 2.74
1937 1983 0.106469 GGCATCTTCCCTTCCCTTCC 60.106 60.000 0.00 0.00 0.00 3.46
1955 2001 0.533032 CCGTTGGTTGGTTGGTTGTT 59.467 50.000 0.00 0.00 0.00 2.83
1956 2002 1.066787 CCGTTGGTTGGTTGGTTGTTT 60.067 47.619 0.00 0.00 0.00 2.83
1957 2003 2.263945 CGTTGGTTGGTTGGTTGTTTC 58.736 47.619 0.00 0.00 0.00 2.78
1959 2005 1.938585 TGGTTGGTTGGTTGTTTCCA 58.061 45.000 0.00 0.00 35.49 3.53
1982 2033 1.738099 ACTGCGACGAGTTCATGGC 60.738 57.895 0.00 0.00 0.00 4.40
2171 2228 3.857093 GCGAGAAAGACAAGTCTCAGATC 59.143 47.826 2.78 1.09 40.32 2.75
2254 2316 3.909995 CCAATAGGGGTACCATCATCTCA 59.090 47.826 15.35 0.00 40.34 3.27
2264 2326 2.159043 ACCATCATCTCACACGTCCATC 60.159 50.000 0.00 0.00 0.00 3.51
2266 2328 0.824109 TCATCTCACACGTCCATCCC 59.176 55.000 0.00 0.00 0.00 3.85
2430 2556 3.453070 GATGAGGTCGAGGCAGGGC 62.453 68.421 0.00 0.00 0.00 5.19
2431 2557 3.991924 ATGAGGTCGAGGCAGGGCT 62.992 63.158 0.00 0.00 0.00 5.19
2865 3010 3.550431 CCCATCCTCCACGGCGAT 61.550 66.667 16.62 0.00 0.00 4.58
2893 3038 1.202268 CGTCCAACATACTCCTCGACC 60.202 57.143 0.00 0.00 0.00 4.79
3195 3349 0.325296 TAGACCCCCAGATCAAGCGT 60.325 55.000 0.00 0.00 0.00 5.07
3567 3721 3.057596 TCTCCCGATTGATGCAAACAAAC 60.058 43.478 12.36 9.53 30.45 2.93
3738 3894 9.813446 AAATAGTTAAGTATCCGGTGAAGTAAG 57.187 33.333 0.00 0.00 0.00 2.34
3756 3912 8.581578 TGAAGTAAGGTAACATCCCAAAATTTC 58.418 33.333 0.00 0.00 41.41 2.17
3760 3916 9.549078 GTAAGGTAACATCCCAAAATTTCAAAA 57.451 29.630 0.00 0.00 41.41 2.44
3770 3926 8.976986 TCCCAAAATTTCAAAACATGTTTTTG 57.023 26.923 29.42 22.47 40.45 2.44
3878 4044 9.661954 AGTCCATCTCTCCATATAGAAACTTTA 57.338 33.333 0.00 0.00 0.00 1.85
3912 4084 7.450903 TGTGGGTTTTGAAAGTTTTCCTTAAA 58.549 30.769 2.41 0.00 36.36 1.52
4002 6392 9.522804 TTGTTGTAATGGTATTTTCAAACACTC 57.477 29.630 0.00 0.00 0.00 3.51
4070 6466 5.355350 CCACAGAATTTTGGAGAGGTCATAC 59.645 44.000 0.57 0.00 34.46 2.39
4146 6542 4.358851 TGAGCACAACTTTCATTTTTCGG 58.641 39.130 0.00 0.00 0.00 4.30
4181 6577 0.035439 AGCATTGGACTACAACCCCG 60.035 55.000 0.00 0.00 42.94 5.73
4230 6627 8.167392 TGAAAAATTTCCACCTCATAGTCCTTA 58.833 33.333 3.60 0.00 36.36 2.69
4246 6643 5.960704 AGTCCTTACAACCAAACCCTTAAT 58.039 37.500 0.00 0.00 0.00 1.40
4258 6655 5.066505 CCAAACCCTTAATTCCAGAAGATCG 59.933 44.000 0.00 0.00 0.00 3.69
4463 6860 5.049060 CACCCTAACATTTTGTCGAACATCA 60.049 40.000 0.00 0.00 0.00 3.07
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
10 11 1.202582 TCAGTTAGTCGCAAGGAGAGC 59.797 52.381 0.00 0.00 38.47 4.09
13 14 4.096532 TGATAGTCAGTTAGTCGCAAGGAG 59.903 45.833 0.00 0.00 38.47 3.69
15 16 4.371855 TGATAGTCAGTTAGTCGCAAGG 57.628 45.455 0.00 0.00 38.47 3.61
68 69 2.005451 CCTTCTCAATTGACTCGGCAG 58.995 52.381 3.38 0.00 0.00 4.85
91 92 4.712476 AGTCTGAATCCAGCCATTATGTC 58.288 43.478 0.00 0.00 40.20 3.06
92 93 4.785346 AGTCTGAATCCAGCCATTATGT 57.215 40.909 0.00 0.00 40.20 2.29
100 101 7.433425 GCATGTTTAAATTAGTCTGAATCCAGC 59.567 37.037 0.00 0.00 40.20 4.85
236 237 0.098728 CCAAATCGGTCACGCAATCC 59.901 55.000 0.00 0.00 40.69 3.01
423 424 2.632377 CGACAGATGTGCCCTGTTATT 58.368 47.619 0.00 0.00 44.14 1.40
429 430 2.224159 AACCCGACAGATGTGCCCT 61.224 57.895 0.00 0.00 0.00 5.19
446 447 0.693622 TTCATAACGGGACCAGGCAA 59.306 50.000 0.00 0.00 0.00 4.52
517 523 7.435488 CGTGGGAGTACTACTCAATTATTCTTG 59.565 40.741 16.49 0.00 46.79 3.02
518 524 7.417570 CCGTGGGAGTACTACTCAATTATTCTT 60.418 40.741 16.49 0.00 46.79 2.52
530 536 0.033699 AGGGACCGTGGGAGTACTAC 60.034 60.000 0.00 0.00 0.00 2.73
533 539 1.560505 TTAAGGGACCGTGGGAGTAC 58.439 55.000 0.00 0.00 0.00 2.73
541 547 2.169978 GCCTCTTACATTAAGGGACCGT 59.830 50.000 0.00 0.00 38.58 4.83
548 554 5.088739 CGTGCAAAAGCCTCTTACATTAAG 58.911 41.667 0.00 0.00 37.13 1.85
560 566 1.172812 ACTCCTTCCGTGCAAAAGCC 61.173 55.000 0.00 0.00 0.00 4.35
562 568 2.223377 GTGTACTCCTTCCGTGCAAAAG 59.777 50.000 0.00 0.00 0.00 2.27
570 576 2.352960 GGTAGTACGTGTACTCCTTCCG 59.647 54.545 15.50 0.00 44.58 4.30
574 580 1.279271 ACCGGTAGTACGTGTACTCCT 59.721 52.381 15.50 0.00 44.58 3.69
581 587 3.498927 AGATGAAACCGGTAGTACGTG 57.501 47.619 8.00 0.00 0.00 4.49
582 588 3.256631 ACAAGATGAAACCGGTAGTACGT 59.743 43.478 8.00 0.62 0.00 3.57
583 589 3.841643 ACAAGATGAAACCGGTAGTACG 58.158 45.455 8.00 0.00 0.00 3.67
584 590 4.813027 TGACAAGATGAAACCGGTAGTAC 58.187 43.478 8.00 0.00 0.00 2.73
585 591 4.768448 TCTGACAAGATGAAACCGGTAGTA 59.232 41.667 8.00 0.00 0.00 1.82
586 592 3.576982 TCTGACAAGATGAAACCGGTAGT 59.423 43.478 8.00 0.00 0.00 2.73
587 593 4.188247 TCTGACAAGATGAAACCGGTAG 57.812 45.455 8.00 0.00 0.00 3.18
588 594 4.039973 ACTTCTGACAAGATGAAACCGGTA 59.960 41.667 8.00 0.00 33.02 4.02
589 595 3.181454 ACTTCTGACAAGATGAAACCGGT 60.181 43.478 0.00 0.00 33.02 5.28
590 596 3.403038 ACTTCTGACAAGATGAAACCGG 58.597 45.455 0.00 0.00 33.02 5.28
623 629 5.472320 TTCGACGTTTGAACAGAATTTGA 57.528 34.783 0.00 0.00 0.00 2.69
624 630 5.171337 CCTTTCGACGTTTGAACAGAATTTG 59.829 40.000 3.93 0.00 0.00 2.32
625 631 5.065474 TCCTTTCGACGTTTGAACAGAATTT 59.935 36.000 3.93 0.00 0.00 1.82
626 632 4.573201 TCCTTTCGACGTTTGAACAGAATT 59.427 37.500 3.93 0.00 0.00 2.17
627 633 4.025145 GTCCTTTCGACGTTTGAACAGAAT 60.025 41.667 3.93 0.00 0.00 2.40
628 634 3.307782 GTCCTTTCGACGTTTGAACAGAA 59.692 43.478 3.93 0.00 0.00 3.02
629 635 2.861935 GTCCTTTCGACGTTTGAACAGA 59.138 45.455 3.93 2.27 0.00 3.41
630 636 2.605818 TGTCCTTTCGACGTTTGAACAG 59.394 45.455 3.93 5.60 45.23 3.16
631 637 2.349275 GTGTCCTTTCGACGTTTGAACA 59.651 45.455 3.93 0.00 45.23 3.18
632 638 2.606272 AGTGTCCTTTCGACGTTTGAAC 59.394 45.455 3.93 0.00 45.23 3.18
633 639 2.861935 GAGTGTCCTTTCGACGTTTGAA 59.138 45.455 0.00 0.00 45.23 2.69
671 677 4.214545 AGGATCGATTGCTCTACTACTTCG 59.785 45.833 0.00 0.00 0.00 3.79
710 716 4.158394 CAGGCCAAAGCAACATACTTACAT 59.842 41.667 5.01 0.00 42.56 2.29
712 718 3.756434 TCAGGCCAAAGCAACATACTTAC 59.244 43.478 5.01 0.00 42.56 2.34
713 719 4.027674 TCAGGCCAAAGCAACATACTTA 57.972 40.909 5.01 0.00 42.56 2.24
714 720 2.875296 TCAGGCCAAAGCAACATACTT 58.125 42.857 5.01 0.00 42.56 2.24
715 721 2.584835 TCAGGCCAAAGCAACATACT 57.415 45.000 5.01 0.00 42.56 2.12
887 897 5.127031 CGAGGTTTAAATGAATGAACCCCAT 59.873 40.000 0.00 0.00 41.90 4.00
888 898 4.461081 CGAGGTTTAAATGAATGAACCCCA 59.539 41.667 0.00 0.00 41.90 4.96
890 900 5.890424 TCGAGGTTTAAATGAATGAACCC 57.110 39.130 0.00 0.00 41.90 4.11
947 975 2.757077 GCCGGGAATGGGATAGGG 59.243 66.667 2.18 0.00 0.00 3.53
1026 1054 2.026157 CGCGGCGAAGATAGCAGA 59.974 61.111 19.16 0.00 36.08 4.26
1906 1952 2.547855 GGAAGATGCCAACCAAACCAAC 60.548 50.000 0.00 0.00 0.00 3.77
1937 1983 2.263945 GAAACAACCAACCAACCAACG 58.736 47.619 0.00 0.00 0.00 4.10
1955 2001 0.389817 CTCGTCGCAGTGGAATGGAA 60.390 55.000 0.00 0.00 0.00 3.53
1956 2002 1.215382 CTCGTCGCAGTGGAATGGA 59.785 57.895 0.00 0.00 0.00 3.41
1957 2003 0.670546 AACTCGTCGCAGTGGAATGG 60.671 55.000 0.00 0.00 0.00 3.16
1959 2005 0.317160 TGAACTCGTCGCAGTGGAAT 59.683 50.000 0.00 0.00 0.00 3.01
1982 2033 2.640989 CCGGGCATGCATGAATCG 59.359 61.111 30.64 25.12 0.00 3.34
2010 2061 2.239402 TGATATCTGCAAGGACAAGGCA 59.761 45.455 3.98 0.00 35.96 4.75
2081 2138 3.511934 AGCTGTATCCTCCGATGGTATTC 59.488 47.826 0.00 0.00 0.00 1.75
2171 2228 3.106986 AATGGCGATCTCCCACCCG 62.107 63.158 0.00 0.00 34.68 5.28
2239 2301 1.480954 ACGTGTGAGATGATGGTACCC 59.519 52.381 10.07 0.00 0.00 3.69
2245 2307 2.477825 GGATGGACGTGTGAGATGATG 58.522 52.381 0.00 0.00 0.00 3.07
2247 2309 0.824109 GGGATGGACGTGTGAGATGA 59.176 55.000 0.00 0.00 0.00 2.92
2248 2310 0.826715 AGGGATGGACGTGTGAGATG 59.173 55.000 0.00 0.00 0.00 2.90
2254 2316 0.252103 ACCAGTAGGGATGGACGTGT 60.252 55.000 0.00 0.00 40.51 4.49
2264 2326 2.436646 CTGCGGCAACCAGTAGGG 60.437 66.667 3.44 0.00 44.81 3.53
2266 2328 1.448540 CTCCTGCGGCAACCAGTAG 60.449 63.158 3.44 0.00 34.28 2.57
2431 2557 2.487265 GGGTGAAGAGCTTGAAGGACAA 60.487 50.000 0.00 0.00 36.97 3.18
2865 3010 3.305813 GGAGTATGTTGGACGTCTTGACA 60.306 47.826 16.46 16.79 0.00 3.58
2893 3038 0.035439 ACCTTGGCCGTGTAATCCTG 60.035 55.000 0.00 0.00 0.00 3.86
3195 3349 1.514553 CACCTCGATGCTCTGCTCA 59.485 57.895 0.00 0.00 0.00 4.26
3367 3521 1.153978 GCGACGGTGATCCACGTAA 60.154 57.895 11.13 0.00 44.24 3.18
3582 3737 4.563993 CGTACAAATGGGGAGTAAAGGTGA 60.564 45.833 0.00 0.00 0.00 4.02
3630 3786 7.655732 GCCAGGTAAAATGTGTCAATACTTTTT 59.344 33.333 0.00 0.00 39.61 1.94
3719 3875 6.663093 TGTTACCTTACTTCACCGGATACTTA 59.337 38.462 9.46 0.00 0.00 2.24
3738 3894 7.793927 TGTTTTGAAATTTTGGGATGTTACC 57.206 32.000 0.00 0.00 0.00 2.85
3850 4008 9.661954 AAGTTTCTATATGGAGAGATGGACTTA 57.338 33.333 0.00 0.00 27.93 2.24
3853 4018 9.921637 CTAAAGTTTCTATATGGAGAGATGGAC 57.078 37.037 0.00 0.00 0.00 4.02
3878 4044 9.679661 AAACTTTCAAAACCCACAATATTTTCT 57.320 25.926 0.00 0.00 0.00 2.52
4038 6428 7.243604 TCTCCAAAATTCTGTGGCATTAAAT 57.756 32.000 0.00 0.00 34.68 1.40
4058 6454 1.333177 AGGCATCGTATGACCTCTCC 58.667 55.000 0.00 0.00 39.88 3.71
4070 6466 5.333645 GCACAAAAGTGATCTATAGGCATCG 60.334 44.000 0.00 0.00 0.00 3.84
4146 6542 4.240096 CAATGCTCAAATTGGACCAGAAC 58.760 43.478 0.00 0.00 34.50 3.01
4230 6627 4.810345 TCTGGAATTAAGGGTTTGGTTGT 58.190 39.130 0.00 0.00 0.00 3.32
4246 6643 3.634397 AATTGAGCCGATCTTCTGGAA 57.366 42.857 0.00 0.00 0.00 3.53
4258 6655 3.518590 CTTCCAAGATGCAAATTGAGCC 58.481 45.455 14.08 0.00 0.00 4.70
4463 6860 2.169769 CCCAATTTTGCCATGAGCTCAT 59.830 45.455 23.75 23.75 44.23 2.90


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

AutoCloner maintained by Alex Coulton.