Multiple sequence alignment - TraesCS6A01G262500

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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 TraesCS6A01G262500 chr6A 100.000 3095 0 0 1 3095 485751250 485754344 0.000000e+00 5716.0
1 TraesCS6A01G262500 chr6B 90.268 3134 186 45 13 3095 521059482 521062547 0.000000e+00 3988.0
2 TraesCS6A01G262500 chr6B 88.771 472 43 4 2482 2947 521062661 521063128 1.250000e-158 569.0
3 TraesCS6A01G262500 chr6B 90.789 76 7 0 2655 2730 521111269 521111344 5.460000e-18 102.0
4 TraesCS6A01G262500 chr6D 92.674 2648 104 30 13 2629 345301331 345303919 0.000000e+00 3733.0
5 TraesCS6A01G262500 chr6D 88.814 295 27 4 2805 3095 345304323 345304615 1.060000e-94 357.0
6 TraesCS6A01G262500 chr6D 83.099 71 12 0 1479 1549 109276172 109276242 7.160000e-07 65.8
7 TraesCS6A01G262500 chr7D 98.052 308 6 0 1796 2103 456396841 456397148 1.260000e-148 536.0
8 TraesCS6A01G262500 chr7D 95.413 327 9 1 1423 1749 456396199 456396519 1.650000e-142 516.0
9 TraesCS6A01G262500 chr2B 78.470 706 106 34 1349 2016 671593435 671592738 1.330000e-113 420.0
10 TraesCS6A01G262500 chr2D 77.870 723 114 33 1349 2033 562082119 562081405 1.030000e-109 407.0
11 TraesCS6A01G262500 chr2A 77.935 707 108 34 1349 2016 702783653 702782956 6.220000e-107 398.0
12 TraesCS6A01G262500 chr5D 91.667 240 14 1 1544 1783 402723293 402723526 8.280000e-86 327.0
13 TraesCS6A01G262500 chr3B 77.820 266 55 4 2819 3083 17961648 17961386 8.880000e-36 161.0
14 TraesCS6A01G262500 chr7B 94.805 77 4 0 1708 1784 458795748 458795824 1.510000e-23 121.0


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 TraesCS6A01G262500 chr6A 485751250 485754344 3094 False 5716.0 5716 100.0000 1 3095 1 chr6A.!!$F1 3094
1 TraesCS6A01G262500 chr6B 521059482 521063128 3646 False 2278.5 3988 89.5195 13 3095 2 chr6B.!!$F2 3082
2 TraesCS6A01G262500 chr6D 345301331 345304615 3284 False 2045.0 3733 90.7440 13 3095 2 chr6D.!!$F2 3082
3 TraesCS6A01G262500 chr7D 456396199 456397148 949 False 526.0 536 96.7325 1423 2103 2 chr7D.!!$F1 680
4 TraesCS6A01G262500 chr2B 671592738 671593435 697 True 420.0 420 78.4700 1349 2016 1 chr2B.!!$R1 667
5 TraesCS6A01G262500 chr2D 562081405 562082119 714 True 407.0 407 77.8700 1349 2033 1 chr2D.!!$R1 684
6 TraesCS6A01G262500 chr2A 702782956 702783653 697 True 398.0 398 77.9350 1349 2016 1 chr2A.!!$R1 667

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
40 41 0.104462 ATGGCCCCAGCAGGTCTATA 60.104 55.0 0.00 0.00 42.56 1.31 F
569 590 0.453282 CAAGGCTGAAACATCACGCG 60.453 55.0 3.53 3.53 0.00 6.01 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1368 1426 2.824041 GCCGACGCCATGGTGAAT 60.824 61.111 31.66 10.49 0.00 2.57 R
2228 2615 0.320374 ACGGAAGCTTCGATCCAACA 59.680 50.000 19.91 0.00 35.34 3.33 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
39 40 1.386485 ATGGCCCCAGCAGGTCTAT 60.386 57.895 0.00 0.00 42.56 1.98
40 41 0.104462 ATGGCCCCAGCAGGTCTATA 60.104 55.000 0.00 0.00 42.56 1.31
139 140 4.283678 CAGAGTCGATCGAATTGGTAGTC 58.716 47.826 21.31 8.36 0.00 2.59
140 141 3.002451 AGAGTCGATCGAATTGGTAGTCG 59.998 47.826 21.31 0.00 42.78 4.18
141 142 2.681848 AGTCGATCGAATTGGTAGTCGT 59.318 45.455 21.31 0.00 42.12 4.34
196 197 1.205893 ACTCCAGCTTGATCTTCCGAC 59.794 52.381 0.00 0.00 0.00 4.79
260 261 3.118454 CGAATTGGCCGTGTCGCT 61.118 61.111 8.58 0.00 0.00 4.93
263 264 1.573829 GAATTGGCCGTGTCGCTTCA 61.574 55.000 0.00 0.00 0.00 3.02
302 303 0.608640 TCTCCCGGAAGAGCAAAGAC 59.391 55.000 0.73 0.00 33.66 3.01
313 314 2.310052 AGAGCAAAGACTGGGCCTATTT 59.690 45.455 4.53 0.00 0.00 1.40
314 315 3.523564 AGAGCAAAGACTGGGCCTATTTA 59.476 43.478 4.53 0.00 0.00 1.40
317 318 3.891049 CAAAGACTGGGCCTATTTAGCT 58.109 45.455 4.53 0.00 0.00 3.32
318 319 4.273318 CAAAGACTGGGCCTATTTAGCTT 58.727 43.478 4.53 0.00 0.00 3.74
358 359 0.532115 CTAATTGTGCAAGCCCCACC 59.468 55.000 0.00 0.00 32.30 4.61
361 362 4.601794 TGTGCAAGCCCCACCCAG 62.602 66.667 0.00 0.00 32.30 4.45
363 364 3.506743 TGCAAGCCCCACCCAGAA 61.507 61.111 0.00 0.00 0.00 3.02
364 365 2.037847 GCAAGCCCCACCCAGAAT 59.962 61.111 0.00 0.00 0.00 2.40
365 366 2.054453 GCAAGCCCCACCCAGAATC 61.054 63.158 0.00 0.00 0.00 2.52
373 376 1.019278 CCACCCAGAATCGTTGGACG 61.019 60.000 0.00 0.00 44.19 4.79
406 409 2.107950 TCGAAGCAAATCGGATGGTT 57.892 45.000 6.72 0.00 42.92 3.67
412 415 1.726248 GCAAATCGGATGGTTTTGTGC 59.274 47.619 0.00 0.00 37.55 4.57
425 428 3.493699 GGTTTTGTGCCTTCCCTTTTACC 60.494 47.826 0.00 0.00 0.00 2.85
443 446 0.890683 CCTCTGGCCATGGACAAAAC 59.109 55.000 23.71 0.00 29.81 2.43
444 447 1.619654 CTCTGGCCATGGACAAAACA 58.380 50.000 23.71 4.83 29.81 2.83
445 448 1.962807 CTCTGGCCATGGACAAAACAA 59.037 47.619 23.71 3.94 29.81 2.83
446 449 2.364970 CTCTGGCCATGGACAAAACAAA 59.635 45.455 23.71 2.07 29.81 2.83
447 450 2.768527 TCTGGCCATGGACAAAACAAAA 59.231 40.909 23.71 0.00 29.81 2.44
472 475 3.496711 CGTCAGCGCTCTCTCTCT 58.503 61.111 7.13 0.00 0.00 3.10
569 590 0.453282 CAAGGCTGAAACATCACGCG 60.453 55.000 3.53 3.53 0.00 6.01
577 598 0.726827 AAACATCACGCGGCAGTATG 59.273 50.000 12.47 8.84 40.87 2.39
582 603 0.735978 TCACGCGGCAGTATGTGAAG 60.736 55.000 12.47 0.00 38.32 3.02
623 644 1.153369 ATCTCCACACGGCCGATTG 60.153 57.895 35.90 26.20 0.00 2.67
677 698 3.441163 TCGCATAATACGGACAACTGAC 58.559 45.455 0.00 0.00 0.00 3.51
737 758 6.449698 AGCATAGTCAATCAAAAACACAAGG 58.550 36.000 0.00 0.00 0.00 3.61
763 784 4.248859 AGATGGTGAGATGAACGACAAAG 58.751 43.478 0.00 0.00 0.00 2.77
765 786 2.076863 GGTGAGATGAACGACAAAGGG 58.923 52.381 0.00 0.00 0.00 3.95
978 1014 1.014564 GCCTTAAACACGCGCTCTCT 61.015 55.000 5.73 0.00 0.00 3.10
979 1015 0.992802 CCTTAAACACGCGCTCTCTC 59.007 55.000 5.73 0.00 0.00 3.20
987 1023 3.456365 GCGCTCTCTCCTCCTGCA 61.456 66.667 0.00 0.00 0.00 4.41
1374 1432 1.480219 CGTCGCTTCCGCTATTCACC 61.480 60.000 0.00 0.00 0.00 4.02
1413 1471 4.120755 CTGCCCAAGAGCTCCCCC 62.121 72.222 10.93 0.00 0.00 5.40
2137 2518 1.004595 GCCCGTCTGTAATTTCGGAC 58.995 55.000 12.68 12.68 44.86 4.79
2212 2593 2.938956 AAATAGAATCGGCCCCAGAG 57.061 50.000 0.00 0.00 0.00 3.35
2213 2594 0.398318 AATAGAATCGGCCCCAGAGC 59.602 55.000 0.00 0.00 0.00 4.09
2226 2613 0.759959 CCAGAGCCAGATGATGAGCT 59.240 55.000 0.00 0.00 37.91 4.09
2227 2614 1.141254 CCAGAGCCAGATGATGAGCTT 59.859 52.381 0.00 0.00 36.10 3.74
2228 2615 2.421670 CCAGAGCCAGATGATGAGCTTT 60.422 50.000 0.00 0.00 36.10 3.51
2229 2616 2.614520 CAGAGCCAGATGATGAGCTTTG 59.385 50.000 0.00 0.00 36.10 2.77
2281 2671 1.494628 CGTCGTCGTCTTCCTCGAA 59.505 57.895 0.00 0.00 39.01 3.71
2294 2684 0.103208 CCTCGAACCATTCTCCTCCG 59.897 60.000 0.00 0.00 0.00 4.63
2340 2730 0.249784 CGATGGAGCTCAGATGGTGG 60.250 60.000 17.19 0.00 0.00 4.61
2435 2826 0.104120 CAACTATGCGGATCCACGGA 59.896 55.000 13.41 0.00 38.89 4.69
2484 2875 2.103042 GTGCTCAGTCCGTGGATGC 61.103 63.158 0.00 0.00 0.00 3.91
2545 2936 6.312672 TGATCATTTCTCGTTTCTGCGAATTA 59.687 34.615 0.00 0.00 40.57 1.40
2556 2947 0.753867 TGCGAATTATACGGCTCCCA 59.246 50.000 0.00 0.00 0.00 4.37
2594 2985 3.489738 CGAATCAAAGTGGATGCATTCCC 60.490 47.826 1.51 0.00 44.77 3.97
2598 2989 3.513225 GTGGATGCATTCCCACCG 58.487 61.111 21.56 0.00 45.30 4.94
2599 2990 2.120909 GTGGATGCATTCCCACCGG 61.121 63.158 21.56 0.00 45.30 5.28
2640 3031 3.554324 CGGTGTGGTAATCATACTTTCCG 59.446 47.826 0.00 0.00 37.59 4.30
2643 3034 3.520317 TGTGGTAATCATACTTTCCGGGT 59.480 43.478 0.00 0.00 32.36 5.28
2644 3035 4.715792 TGTGGTAATCATACTTTCCGGGTA 59.284 41.667 0.00 0.00 32.36 3.69
2645 3036 5.189342 TGTGGTAATCATACTTTCCGGGTAA 59.811 40.000 0.00 0.00 32.36 2.85
2693 3221 2.666022 GCATTTTTGTTACCGTGGCATC 59.334 45.455 0.00 0.00 0.00 3.91
2748 3276 0.958091 CCTAGGCATCTCTGACCGAG 59.042 60.000 0.00 0.00 41.30 4.63
2760 3288 4.116238 CTCTGACCGAGCTCCTAAAATTC 58.884 47.826 8.47 0.00 31.99 2.17
2776 3304 2.393271 ATTCTGTCCCTCAAAGCTCG 57.607 50.000 0.00 0.00 0.00 5.03
2785 3313 2.158986 CCCTCAAAGCTCGACTCATCAT 60.159 50.000 0.00 0.00 0.00 2.45
2786 3314 2.864946 CCTCAAAGCTCGACTCATCATG 59.135 50.000 0.00 0.00 0.00 3.07
2849 3468 4.858935 TCTCTGAACAAAATTCTTTGCCG 58.141 39.130 0.00 0.00 44.96 5.69
2850 3469 3.976169 TCTGAACAAAATTCTTTGCCGG 58.024 40.909 0.00 0.00 44.96 6.13
2885 3504 5.999205 TTGGTTTGCATACTCCATTTCAT 57.001 34.783 7.25 0.00 0.00 2.57
2888 3507 7.473735 TGGTTTGCATACTCCATTTCATTTA 57.526 32.000 7.25 0.00 0.00 1.40
2889 3508 7.319646 TGGTTTGCATACTCCATTTCATTTAC 58.680 34.615 7.25 0.00 0.00 2.01
2890 3509 7.039434 TGGTTTGCATACTCCATTTCATTTACA 60.039 33.333 7.25 0.00 0.00 2.41
2900 3523 5.632764 TCCATTTCATTTACACATTTGCACG 59.367 36.000 0.00 0.00 0.00 5.34
2903 3526 4.171663 TCATTTACACATTTGCACGCAT 57.828 36.364 0.00 0.00 0.00 4.73
2908 3531 7.970614 TCATTTACACATTTGCACGCATATTAA 59.029 29.630 0.00 0.00 0.00 1.40
2913 3536 3.666883 TTTGCACGCATATTAAGTCCG 57.333 42.857 0.00 0.00 0.00 4.79
2951 3574 5.811613 AGGTTCACACAATTCAACAACATTG 59.188 36.000 0.00 0.00 36.59 2.82
2955 3578 5.063186 TCACACAATTCAACAACATTGCAAC 59.937 36.000 0.00 0.00 34.26 4.17
2956 3579 5.063691 CACACAATTCAACAACATTGCAACT 59.936 36.000 0.00 0.00 34.26 3.16
2961 3584 8.389603 ACAATTCAACAACATTGCAACTTTTAG 58.610 29.630 0.00 0.00 34.26 1.85
3009 3632 4.960469 AGGGTTCGAATGGAGTATTAGTCA 59.040 41.667 0.00 0.00 0.00 3.41
3011 3634 5.290386 GGTTCGAATGGAGTATTAGTCAGG 58.710 45.833 0.00 0.00 0.00 3.86
3015 3638 7.689446 TCGAATGGAGTATTAGTCAGGATAG 57.311 40.000 1.13 0.00 0.00 2.08
3059 3682 0.729116 CAAGTGCTATGAAGTGCCCG 59.271 55.000 0.00 0.00 0.00 6.13
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
1 2 4.437239 CATGGGCATCTAATCTACCGATC 58.563 47.826 0.00 0.00 0.00 3.69
2 3 3.198635 CCATGGGCATCTAATCTACCGAT 59.801 47.826 2.85 0.00 0.00 4.18
3 4 2.567169 CCATGGGCATCTAATCTACCGA 59.433 50.000 2.85 0.00 0.00 4.69
4 5 2.977914 CCATGGGCATCTAATCTACCG 58.022 52.381 2.85 0.00 0.00 4.02
39 40 4.461781 GCCGGCCTGTATATTTCTCTACTA 59.538 45.833 18.11 0.00 0.00 1.82
40 41 3.258622 GCCGGCCTGTATATTTCTCTACT 59.741 47.826 18.11 0.00 0.00 2.57
106 107 0.807275 TCGACTCTGCCATGAATGCG 60.807 55.000 0.00 0.00 0.00 4.73
139 140 4.215965 CGTATTTTGGTGGAAGAACAACG 58.784 43.478 0.00 0.00 0.00 4.10
140 141 5.177725 ACGTATTTTGGTGGAAGAACAAC 57.822 39.130 0.00 0.00 0.00 3.32
141 142 5.125739 ACAACGTATTTTGGTGGAAGAACAA 59.874 36.000 0.00 0.00 0.00 2.83
257 258 1.369625 AGCCCTTTTCGTATGAAGCG 58.630 50.000 0.00 0.00 35.06 4.68
260 261 4.585879 AGCTAAAGCCCTTTTCGTATGAA 58.414 39.130 0.00 0.00 43.38 2.57
263 264 4.844884 AGAAGCTAAAGCCCTTTTCGTAT 58.155 39.130 0.00 0.00 43.38 3.06
295 296 2.359214 GCTAAATAGGCCCAGTCTTTGC 59.641 50.000 0.00 0.00 0.00 3.68
323 324 6.142139 CACAATTAGCTTTGATTGACACGAA 58.858 36.000 18.35 0.00 36.87 3.85
365 366 4.084888 GGCCGCTTTCGTCCAACG 62.085 66.667 0.00 0.00 44.19 4.10
373 376 0.179163 CTTCGATTTGGGCCGCTTTC 60.179 55.000 0.00 0.00 0.00 2.62
406 409 3.117284 AGAGGTAAAAGGGAAGGCACAAA 60.117 43.478 0.00 0.00 0.00 2.83
412 415 1.341089 GGCCAGAGGTAAAAGGGAAGG 60.341 57.143 0.00 0.00 0.00 3.46
425 428 1.619654 TGTTTTGTCCATGGCCAGAG 58.380 50.000 13.05 6.25 0.00 3.35
443 446 3.737172 CTGACGCCCGCCCTTTTG 61.737 66.667 0.00 0.00 0.00 2.44
461 464 2.315925 ACAGAGAGAGAGAGAGAGCG 57.684 55.000 0.00 0.00 0.00 5.03
462 465 3.758554 ACAAACAGAGAGAGAGAGAGAGC 59.241 47.826 0.00 0.00 0.00 4.09
463 466 4.396166 GGACAAACAGAGAGAGAGAGAGAG 59.604 50.000 0.00 0.00 0.00 3.20
464 467 4.331968 GGACAAACAGAGAGAGAGAGAGA 58.668 47.826 0.00 0.00 0.00 3.10
465 468 3.443681 GGGACAAACAGAGAGAGAGAGAG 59.556 52.174 0.00 0.00 0.00 3.20
466 469 3.426615 GGGACAAACAGAGAGAGAGAGA 58.573 50.000 0.00 0.00 0.00 3.10
467 470 2.163412 CGGGACAAACAGAGAGAGAGAG 59.837 54.545 0.00 0.00 0.00 3.20
468 471 2.163509 CGGGACAAACAGAGAGAGAGA 58.836 52.381 0.00 0.00 0.00 3.10
469 472 1.889829 ACGGGACAAACAGAGAGAGAG 59.110 52.381 0.00 0.00 0.00 3.20
470 473 1.887198 GACGGGACAAACAGAGAGAGA 59.113 52.381 0.00 0.00 0.00 3.10
471 474 1.613925 TGACGGGACAAACAGAGAGAG 59.386 52.381 0.00 0.00 0.00 3.20
472 475 1.340248 GTGACGGGACAAACAGAGAGA 59.660 52.381 0.00 0.00 0.00 3.10
569 590 6.480320 ACTTAATTCGATCTTCACATACTGCC 59.520 38.462 0.00 0.00 0.00 4.85
577 598 9.099454 ACAAATCCTACTTAATTCGATCTTCAC 57.901 33.333 0.00 0.00 0.00 3.18
582 603 9.482627 AGATCACAAATCCTACTTAATTCGATC 57.517 33.333 0.00 0.00 0.00 3.69
616 637 0.529992 CCGTTCCTACTCCAATCGGC 60.530 60.000 0.00 0.00 0.00 5.54
623 644 1.067071 CAGGTCAACCGTTCCTACTCC 60.067 57.143 0.00 0.00 42.08 3.85
677 698 1.135603 CAATTGCACAGGTGGATCGTG 60.136 52.381 1.10 0.00 37.85 4.35
737 758 3.619038 GTCGTTCATCTCACCATCTTTCC 59.381 47.826 0.00 0.00 0.00 3.13
763 784 0.537371 CACAGTTTCTCCACCCACCC 60.537 60.000 0.00 0.00 0.00 4.61
765 786 2.222027 CTTCACAGTTTCTCCACCCAC 58.778 52.381 0.00 0.00 0.00 4.61
978 1014 3.157252 GGCGGAGATGCAGGAGGA 61.157 66.667 0.00 0.00 36.28 3.71
979 1015 4.247380 GGGCGGAGATGCAGGAGG 62.247 72.222 0.00 0.00 36.28 4.30
1368 1426 2.824041 GCCGACGCCATGGTGAAT 60.824 61.111 31.66 10.49 0.00 2.57
2112 2493 4.260620 CCGAAATTACAGACGGGCTAATTG 60.261 45.833 0.00 0.00 41.41 2.32
2113 2494 3.875134 CCGAAATTACAGACGGGCTAATT 59.125 43.478 0.00 0.00 41.41 1.40
2114 2495 3.133362 TCCGAAATTACAGACGGGCTAAT 59.867 43.478 0.00 0.00 44.57 1.73
2115 2496 2.496871 TCCGAAATTACAGACGGGCTAA 59.503 45.455 0.00 0.00 44.57 3.09
2116 2497 2.101783 TCCGAAATTACAGACGGGCTA 58.898 47.619 0.00 0.00 44.57 3.93
2117 2498 0.899720 TCCGAAATTACAGACGGGCT 59.100 50.000 0.00 0.00 44.57 5.19
2183 2564 5.467735 GGGCCGATTCTATTTTTACGTACAT 59.532 40.000 0.00 0.00 0.00 2.29
2212 2593 2.159282 CCAACAAAGCTCATCATCTGGC 60.159 50.000 0.00 0.00 0.00 4.85
2213 2594 3.349927 TCCAACAAAGCTCATCATCTGG 58.650 45.455 0.00 0.00 0.00 3.86
2226 2613 1.804151 CGGAAGCTTCGATCCAACAAA 59.196 47.619 19.91 0.00 35.34 2.83
2227 2614 1.270625 ACGGAAGCTTCGATCCAACAA 60.271 47.619 19.91 0.00 35.34 2.83
2228 2615 0.320374 ACGGAAGCTTCGATCCAACA 59.680 50.000 19.91 0.00 35.34 3.33
2229 2616 1.128692 CAACGGAAGCTTCGATCCAAC 59.871 52.381 19.91 3.61 35.34 3.77
2270 2660 2.498078 AGGAGAATGGTTCGAGGAAGAC 59.502 50.000 0.00 0.00 34.02 3.01
2271 2661 2.761208 GAGGAGAATGGTTCGAGGAAGA 59.239 50.000 0.00 0.00 34.02 2.87
2272 2662 2.159028 GGAGGAGAATGGTTCGAGGAAG 60.159 54.545 0.00 0.00 34.02 3.46
2294 2684 2.266376 GACCGGAGCGCCAAAATTCC 62.266 60.000 9.46 1.60 0.00 3.01
2502 2893 1.975680 TCACAGACCCTGACCTAAACC 59.024 52.381 0.45 0.00 35.18 3.27
2545 2936 2.421529 GGATCAACTTTGGGAGCCGTAT 60.422 50.000 0.00 0.00 28.87 3.06
2556 2947 6.588719 TTGATTCGATTTGGGATCAACTTT 57.411 33.333 4.27 0.00 31.78 2.66
2594 2985 2.898729 ATAAGCAGTGATCTCCGGTG 57.101 50.000 0.00 0.00 0.00 4.94
2598 2989 4.038162 ACCGTTCTATAAGCAGTGATCTCC 59.962 45.833 0.00 0.00 0.00 3.71
2599 2990 4.979197 CACCGTTCTATAAGCAGTGATCTC 59.021 45.833 0.00 0.00 0.00 2.75
2645 3036 4.579869 AGACTGACCATGTAGCGATTTTT 58.420 39.130 0.00 0.00 0.00 1.94
2651 3042 2.926200 CAAAGAGACTGACCATGTAGCG 59.074 50.000 0.00 0.00 0.00 4.26
2652 3043 2.675348 GCAAAGAGACTGACCATGTAGC 59.325 50.000 0.00 0.00 0.00 3.58
2655 3046 2.936919 TGCAAAGAGACTGACCATGT 57.063 45.000 0.00 0.00 0.00 3.21
2693 3221 2.217847 ACGATCACACGACAAAGAAACG 59.782 45.455 0.00 0.00 37.03 3.60
2748 3276 4.222124 TGAGGGACAGAATTTTAGGAGC 57.778 45.455 0.00 0.00 0.00 4.70
2760 3288 0.605589 AGTCGAGCTTTGAGGGACAG 59.394 55.000 0.00 0.00 0.00 3.51
2776 3304 4.394300 CCAACTCCTCAAACATGATGAGTC 59.606 45.833 22.65 0.00 40.95 3.36
2785 3313 5.104693 TGACTAGAAACCAACTCCTCAAACA 60.105 40.000 0.00 0.00 0.00 2.83
2786 3314 5.365619 TGACTAGAAACCAACTCCTCAAAC 58.634 41.667 0.00 0.00 0.00 2.93
2832 3451 4.368315 AGAACCGGCAAAGAATTTTGTTC 58.632 39.130 0.00 0.00 44.41 3.18
2849 3468 6.084326 TGCAAACCAAAAGATAGAAGAACC 57.916 37.500 0.00 0.00 0.00 3.62
2850 3469 8.515414 AGTATGCAAACCAAAAGATAGAAGAAC 58.485 33.333 0.00 0.00 0.00 3.01
2885 3504 7.309177 ACTTAATATGCGTGCAAATGTGTAAA 58.691 30.769 0.00 0.00 0.00 2.01
2888 3507 5.309323 ACTTAATATGCGTGCAAATGTGT 57.691 34.783 0.00 0.00 0.00 3.72
2889 3508 4.734854 GGACTTAATATGCGTGCAAATGTG 59.265 41.667 0.00 0.00 0.00 3.21
2890 3509 4.495679 CGGACTTAATATGCGTGCAAATGT 60.496 41.667 0.00 0.00 0.00 2.71
2900 3523 9.783256 AAATTAACAAGTTCGGACTTAATATGC 57.217 29.630 9.25 0.00 44.14 3.14
2908 3531 6.993902 TGAACCTAAATTAACAAGTTCGGACT 59.006 34.615 0.00 0.00 37.11 3.85
2913 3536 9.744468 ATTGTGTGAACCTAAATTAACAAGTTC 57.256 29.630 0.00 0.00 35.35 3.01
2951 3574 9.797473 GTTTGAATTTGAATAGCTAAAAGTTGC 57.203 29.630 0.00 0.00 0.00 4.17
2956 3579 9.255304 GGTGTGTTTGAATTTGAATAGCTAAAA 57.745 29.630 0.00 0.00 0.00 1.52
2961 3584 5.457140 TCGGTGTGTTTGAATTTGAATAGC 58.543 37.500 0.00 0.00 0.00 2.97
2998 3621 6.090483 TGCTTGCTATCCTGACTAATACTC 57.910 41.667 0.00 0.00 0.00 2.59
3009 3632 3.633986 GCTTTTACCATGCTTGCTATCCT 59.366 43.478 0.00 0.00 0.00 3.24
3011 3634 4.142403 TGTGCTTTTACCATGCTTGCTATC 60.142 41.667 0.00 0.00 0.00 2.08
3015 3638 2.061028 GTGTGCTTTTACCATGCTTGC 58.939 47.619 0.00 0.00 0.00 4.01
3059 3682 1.538047 TGATCTTGTTGAGCCCTTGC 58.462 50.000 0.00 0.00 37.95 4.01


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

AutoCloner maintained by Alex Coulton.