Multiple sequence alignment - TraesCS5B01G308100

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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 TraesCS5B01G308100 chr5B 100.000 2474 0 0 1 2474 491078047 491075574 0.000000e+00 4569.0
1 TraesCS5B01G308100 chr5B 100.000 30 0 0 495 524 491077489 491077460 3.440000e-04 56.5
2 TraesCS5B01G308100 chr5B 100.000 30 0 0 559 588 491077553 491077524 3.440000e-04 56.5
3 TraesCS5B01G308100 chr5A 94.292 911 33 10 597 1497 520445803 520444902 0.000000e+00 1376.0
4 TraesCS5B01G308100 chr5A 91.886 456 24 7 5 451 520446333 520445882 2.090000e-175 625.0
5 TraesCS5B01G308100 chr5A 87.685 203 23 1 39 239 520464722 520464520 4.110000e-58 235.0
6 TraesCS5B01G308100 chr5A 91.398 93 8 0 359 451 520464481 520464389 7.180000e-26 128.0
7 TraesCS5B01G308100 chr5A 88.462 52 4 1 947 998 520448852 520448803 7.390000e-06 62.1
8 TraesCS5B01G308100 chr6D 88.827 895 92 7 1586 2474 435965250 435966142 0.000000e+00 1092.0
9 TraesCS5B01G308100 chr7D 88.475 885 91 9 1596 2474 232504423 232503544 0.000000e+00 1059.0
10 TraesCS5B01G308100 chr7D 89.011 819 81 8 1660 2474 532024483 532023670 0.000000e+00 1005.0
11 TraesCS5B01G308100 chr5D 88.176 888 90 10 1596 2474 3769027 3768146 0.000000e+00 1044.0
12 TraesCS5B01G308100 chr5D 92.751 676 39 3 937 1610 409292210 409291543 0.000000e+00 968.0
13 TraesCS5B01G308100 chr5D 88.136 295 22 7 588 881 409295485 409295203 3.050000e-89 339.0
14 TraesCS5B01G308100 chr5D 87.685 203 23 1 39 239 409295942 409295740 4.110000e-58 235.0
15 TraesCS5B01G308100 chr5D 93.548 93 6 0 359 451 409295701 409295609 3.320000e-29 139.0
16 TraesCS5B01G308100 chr1A 87.429 883 103 8 1598 2474 504427061 504426181 0.000000e+00 1009.0
17 TraesCS5B01G308100 chr7B 88.984 817 84 5 1662 2474 203288394 203287580 0.000000e+00 1005.0
18 TraesCS5B01G308100 chr2D 87.316 883 102 7 1598 2474 38479955 38479077 0.000000e+00 1002.0
19 TraesCS5B01G308100 chr7A 86.986 876 107 5 1605 2474 704391796 704390922 0.000000e+00 979.0
20 TraesCS5B01G308100 chr4D 86.942 873 100 11 1608 2473 480520753 480521618 0.000000e+00 968.0


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 TraesCS5B01G308100 chr5B 491075574 491078047 2473 True 1560.666667 4569 100.000000 1 2474 3 chr5B.!!$R1 2473
1 TraesCS5B01G308100 chr5A 520444902 520448852 3950 True 687.700000 1376 91.546667 5 1497 3 chr5A.!!$R1 1492
2 TraesCS5B01G308100 chr6D 435965250 435966142 892 False 1092.000000 1092 88.827000 1586 2474 1 chr6D.!!$F1 888
3 TraesCS5B01G308100 chr7D 232503544 232504423 879 True 1059.000000 1059 88.475000 1596 2474 1 chr7D.!!$R1 878
4 TraesCS5B01G308100 chr7D 532023670 532024483 813 True 1005.000000 1005 89.011000 1660 2474 1 chr7D.!!$R2 814
5 TraesCS5B01G308100 chr5D 3768146 3769027 881 True 1044.000000 1044 88.176000 1596 2474 1 chr5D.!!$R1 878
6 TraesCS5B01G308100 chr5D 409291543 409295942 4399 True 420.250000 968 90.530000 39 1610 4 chr5D.!!$R2 1571
7 TraesCS5B01G308100 chr1A 504426181 504427061 880 True 1009.000000 1009 87.429000 1598 2474 1 chr1A.!!$R1 876
8 TraesCS5B01G308100 chr7B 203287580 203288394 814 True 1005.000000 1005 88.984000 1662 2474 1 chr7B.!!$R1 812
9 TraesCS5B01G308100 chr2D 38479077 38479955 878 True 1002.000000 1002 87.316000 1598 2474 1 chr2D.!!$R1 876
10 TraesCS5B01G308100 chr7A 704390922 704391796 874 True 979.000000 979 86.986000 1605 2474 1 chr7A.!!$R1 869
11 TraesCS5B01G308100 chr4D 480520753 480521618 865 False 968.000000 968 86.942000 1608 2473 1 chr4D.!!$F1 865

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
917 6433 0.168128 AACACCGCGTACGTACTACC 59.832 55.0 22.55 10.3 37.7 3.18 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2220 7749 0.24445 CAAATGCACAAGCGATGGGT 59.756 50.0 0.0 0.0 46.23 4.51 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
29 2545 2.674380 CTGGTGTTGGCTCCCAGC 60.674 66.667 0.00 0.00 39.36 4.85
30 2546 3.177884 TGGTGTTGGCTCCCAGCT 61.178 61.111 0.00 0.00 41.99 4.24
31 2547 2.674380 GGTGTTGGCTCCCAGCTG 60.674 66.667 6.78 6.78 41.99 4.24
94 2610 1.792301 CACCGCTCTCTGCATGTTG 59.208 57.895 0.00 0.00 43.06 3.33
170 2686 2.356135 GATTCTGCCTACTCCGCAAAA 58.644 47.619 0.00 0.00 35.40 2.44
194 2710 0.247460 CATGTCCTCTTCTCACGGCA 59.753 55.000 0.00 0.00 0.00 5.69
229 2747 2.431057 TCTAGGAGAAAACGAGGGATGC 59.569 50.000 0.00 0.00 0.00 3.91
241 2759 0.902984 AGGGATGCCGTCAGTACACA 60.903 55.000 0.00 0.00 0.00 3.72
267 2795 9.953697 AAGTCGATTATAGAATAGTGAAGTGTC 57.046 33.333 0.00 0.00 0.00 3.67
283 2811 7.334421 AGTGAAGTGTCGCTGATTTATTACAAT 59.666 33.333 0.00 0.00 43.12 2.71
326 2861 9.490379 ACTGAATTAGCGATACTTATTTTAGGG 57.510 33.333 0.00 0.00 27.94 3.53
328 2863 6.963049 ATTAGCGATACTTATTTTAGGGCG 57.037 37.500 0.00 0.00 0.00 6.13
340 2875 1.563924 TTAGGGCGAAGGAAGTAGCA 58.436 50.000 0.00 0.00 0.00 3.49
347 2882 3.804873 GGCGAAGGAAGTAGCAAGAATAG 59.195 47.826 0.00 0.00 0.00 1.73
475 3040 1.334992 CGCGTCTTAGTGTCCGTGTG 61.335 60.000 0.00 0.00 0.00 3.82
477 3042 1.866880 GCGTCTTAGTGTCCGTGTGTT 60.867 52.381 0.00 0.00 0.00 3.32
478 3043 2.466846 CGTCTTAGTGTCCGTGTGTTT 58.533 47.619 0.00 0.00 0.00 2.83
484 3049 5.243507 TCTTAGTGTCCGTGTGTTTACCATA 59.756 40.000 0.00 0.00 0.00 2.74
485 3050 3.921677 AGTGTCCGTGTGTTTACCATAG 58.078 45.455 0.00 0.00 0.00 2.23
488 3053 3.827876 TGTCCGTGTGTTTACCATAGAGA 59.172 43.478 0.00 0.00 0.00 3.10
489 3054 4.464951 TGTCCGTGTGTTTACCATAGAGAT 59.535 41.667 0.00 0.00 0.00 2.75
491 3056 6.183360 TGTCCGTGTGTTTACCATAGAGATAG 60.183 42.308 0.00 0.00 0.00 2.08
492 3057 6.039047 GTCCGTGTGTTTACCATAGAGATAGA 59.961 42.308 0.00 0.00 0.00 1.98
493 3058 6.262496 TCCGTGTGTTTACCATAGAGATAGAG 59.738 42.308 0.00 0.00 0.00 2.43
494 3059 6.439599 CGTGTGTTTACCATAGAGATAGAGG 58.560 44.000 0.00 0.00 0.00 3.69
495 3060 6.039493 CGTGTGTTTACCATAGAGATAGAGGT 59.961 42.308 0.00 0.00 36.40 3.85
496 3061 7.228108 CGTGTGTTTACCATAGAGATAGAGGTA 59.772 40.741 0.00 0.00 33.91 3.08
497 3062 8.351461 GTGTGTTTACCATAGAGATAGAGGTAC 58.649 40.741 0.00 0.00 34.77 3.34
532 3097 3.607542 GCAAAACCTGCGTACGTATTGTT 60.608 43.478 17.90 15.05 42.37 2.83
534 3099 3.799137 AACCTGCGTACGTATTGTTTG 57.201 42.857 17.90 0.00 0.00 2.93
535 3100 2.758009 ACCTGCGTACGTATTGTTTGT 58.242 42.857 17.90 0.61 0.00 2.83
537 3102 2.093152 CCTGCGTACGTATTGTTTGTCC 59.907 50.000 17.90 0.00 0.00 4.02
538 3103 2.991190 CTGCGTACGTATTGTTTGTCCT 59.009 45.455 17.90 0.00 0.00 3.85
539 3104 2.988493 TGCGTACGTATTGTTTGTCCTC 59.012 45.455 17.90 0.00 0.00 3.71
540 3105 3.248266 GCGTACGTATTGTTTGTCCTCT 58.752 45.455 17.90 0.00 0.00 3.69
541 3106 3.676646 GCGTACGTATTGTTTGTCCTCTT 59.323 43.478 17.90 0.00 0.00 2.85
542 3107 4.201561 GCGTACGTATTGTTTGTCCTCTTC 60.202 45.833 17.90 0.00 0.00 2.87
543 3108 5.159209 CGTACGTATTGTTTGTCCTCTTCT 58.841 41.667 7.22 0.00 0.00 2.85
544 3109 5.632347 CGTACGTATTGTTTGTCCTCTTCTT 59.368 40.000 7.22 0.00 0.00 2.52
546 3111 5.855045 ACGTATTGTTTGTCCTCTTCTTCT 58.145 37.500 0.00 0.00 0.00 2.85
547 3112 6.289064 ACGTATTGTTTGTCCTCTTCTTCTT 58.711 36.000 0.00 0.00 0.00 2.52
548 3113 6.766467 ACGTATTGTTTGTCCTCTTCTTCTTT 59.234 34.615 0.00 0.00 0.00 2.52
549 3114 7.929785 ACGTATTGTTTGTCCTCTTCTTCTTTA 59.070 33.333 0.00 0.00 0.00 1.85
550 3115 8.936864 CGTATTGTTTGTCCTCTTCTTCTTTAT 58.063 33.333 0.00 0.00 0.00 1.40
555 3120 9.063615 TGTTTGTCCTCTTCTTCTTTATTAACC 57.936 33.333 0.00 0.00 0.00 2.85
556 3121 9.286170 GTTTGTCCTCTTCTTCTTTATTAACCT 57.714 33.333 0.00 0.00 0.00 3.50
557 3122 9.862149 TTTGTCCTCTTCTTCTTTATTAACCTT 57.138 29.630 0.00 0.00 0.00 3.50
558 3123 8.848474 TGTCCTCTTCTTCTTTATTAACCTTG 57.152 34.615 0.00 0.00 0.00 3.61
559 3124 8.437575 TGTCCTCTTCTTCTTTATTAACCTTGT 58.562 33.333 0.00 0.00 0.00 3.16
561 3126 9.939802 TCCTCTTCTTCTTTATTAACCTTGTAC 57.060 33.333 0.00 0.00 0.00 2.90
562 3127 9.945904 CCTCTTCTTCTTTATTAACCTTGTACT 57.054 33.333 0.00 0.00 0.00 2.73
564 3129 9.939802 TCTTCTTCTTTATTAACCTTGTACTCC 57.060 33.333 0.00 0.00 0.00 3.85
566 3131 9.720769 TTCTTCTTTATTAACCTTGTACTCCAG 57.279 33.333 0.00 0.00 0.00 3.86
567 3132 8.877195 TCTTCTTTATTAACCTTGTACTCCAGT 58.123 33.333 0.00 0.00 0.00 4.00
568 3133 9.503399 CTTCTTTATTAACCTTGTACTCCAGTT 57.497 33.333 0.00 0.00 0.00 3.16
571 3136 9.939802 CTTTATTAACCTTGTACTCCAGTTAGT 57.060 33.333 0.00 0.00 0.00 2.24
575 3140 5.402997 ACCTTGTACTCCAGTTAGTAAGC 57.597 43.478 0.00 0.00 33.85 3.09
576 3141 4.836736 ACCTTGTACTCCAGTTAGTAAGCA 59.163 41.667 0.00 0.00 33.85 3.91
577 3142 5.306160 ACCTTGTACTCCAGTTAGTAAGCAA 59.694 40.000 0.00 0.00 33.85 3.91
578 3143 6.183361 ACCTTGTACTCCAGTTAGTAAGCAAA 60.183 38.462 0.00 0.00 33.85 3.68
579 3144 6.708949 CCTTGTACTCCAGTTAGTAAGCAAAA 59.291 38.462 0.00 0.00 33.85 2.44
580 3145 7.307811 CCTTGTACTCCAGTTAGTAAGCAAAAC 60.308 40.741 0.00 0.00 33.85 2.43
581 3146 5.993441 TGTACTCCAGTTAGTAAGCAAAACC 59.007 40.000 0.00 0.00 33.85 3.27
582 3147 5.306114 ACTCCAGTTAGTAAGCAAAACCT 57.694 39.130 0.00 0.00 0.00 3.50
583 3148 5.063880 ACTCCAGTTAGTAAGCAAAACCTG 58.936 41.667 0.00 0.00 0.00 4.00
594 3159 3.619233 GCAAAACCTGCGTAAGAAAGA 57.381 42.857 0.00 0.00 42.37 2.52
595 3160 3.555518 GCAAAACCTGCGTAAGAAAGAG 58.444 45.455 0.00 0.00 42.37 2.85
641 3206 3.123620 GCTGGCGCAGAGGACTTG 61.124 66.667 10.83 0.00 32.44 3.16
719 3284 1.309950 CGATCTTCCTCCGCTGTCTA 58.690 55.000 0.00 0.00 0.00 2.59
737 3302 4.247380 CGGCTGGCCATCTCCTCC 62.247 72.222 5.51 0.00 35.37 4.30
778 3343 9.756461 GATTTCTTGTCTATCGTTTTTCTTACC 57.244 33.333 0.00 0.00 0.00 2.85
779 3344 7.662604 TTCTTGTCTATCGTTTTTCTTACCC 57.337 36.000 0.00 0.00 0.00 3.69
780 3345 6.168389 TCTTGTCTATCGTTTTTCTTACCCC 58.832 40.000 0.00 0.00 0.00 4.95
781 3346 4.497300 TGTCTATCGTTTTTCTTACCCCG 58.503 43.478 0.00 0.00 0.00 5.73
782 3347 3.308053 GTCTATCGTTTTTCTTACCCCGC 59.692 47.826 0.00 0.00 0.00 6.13
841 3406 3.208747 TGAGACTTGGAAGGTTTGGAC 57.791 47.619 0.00 0.00 0.00 4.02
883 3448 4.998672 TCGGATCGGATGTTTTTGTTACTT 59.001 37.500 0.00 0.00 0.00 2.24
885 3450 5.793457 CGGATCGGATGTTTTTGTTACTTTC 59.207 40.000 0.00 0.00 0.00 2.62
888 3453 8.508875 GGATCGGATGTTTTTGTTACTTTCTAA 58.491 33.333 0.00 0.00 0.00 2.10
904 6420 6.899114 ACTTTCTAATCTAAAAGCAACACCG 58.101 36.000 0.00 0.00 36.21 4.94
911 6427 1.430707 AAAAGCAACACCGCGTACGT 61.431 50.000 17.90 0.00 37.70 3.57
917 6433 0.168128 AACACCGCGTACGTACTACC 59.832 55.000 22.55 10.30 37.70 3.18
933 6449 5.050499 CGTACTACCACGTAACATAGAGAGG 60.050 48.000 0.00 0.00 37.16 3.69
943 6459 1.902432 ATAGAGAGGCCCGCCGTAC 60.902 63.158 0.00 0.00 41.95 3.67
1143 6659 0.111832 ACGACTACCTGGTGTCCTCA 59.888 55.000 10.23 0.00 0.00 3.86
1426 6942 0.654683 CGAGCTCAACTGCTATTGCC 59.345 55.000 15.40 0.00 44.17 4.52
1429 6945 2.354199 GAGCTCAACTGCTATTGCCTTC 59.646 50.000 9.40 0.00 44.17 3.46
1465 6981 4.690122 ACGAATAGACTGGTTTTATCCCG 58.310 43.478 0.00 0.00 0.00 5.14
1504 7020 8.239681 TGTACTCGTTTTATGAAATCAGTGAG 57.760 34.615 0.00 0.00 0.00 3.51
1505 7021 8.085909 TGTACTCGTTTTATGAAATCAGTGAGA 58.914 33.333 0.00 0.00 0.00 3.27
1510 7026 9.430623 TCGTTTTATGAAATCAGTGAGATTACA 57.569 29.630 0.00 0.00 46.09 2.41
1523 7039 8.999431 TCAGTGAGATTACAAACCTATTTTGAC 58.001 33.333 3.81 0.00 46.76 3.18
1528 7044 9.573133 GAGATTACAAACCTATTTTGACCAATG 57.427 33.333 3.81 0.00 46.76 2.82
1534 7050 5.405935 ACCTATTTTGACCAATGAAAGGC 57.594 39.130 0.00 0.00 0.00 4.35
1538 7054 7.400052 ACCTATTTTGACCAATGAAAGGCTTAT 59.600 33.333 0.00 0.00 0.00 1.73
1568 7084 7.920160 TGTCTACATCTTGTTATGCAAATGA 57.080 32.000 0.00 0.00 36.53 2.57
1620 7138 2.851195 CCAATTCTAACCGATCCCCTG 58.149 52.381 0.00 0.00 0.00 4.45
1648 7166 8.919777 AGTTAATGAAGTAAAAGGCTTAGTGT 57.080 30.769 0.00 0.00 0.00 3.55
1702 7221 4.412528 CCTAGCCAATCCCCTAAACTTAGT 59.587 45.833 0.00 0.00 0.00 2.24
1754 7275 1.115467 TGGCCACCGAAACACATTTT 58.885 45.000 0.00 0.00 0.00 1.82
1755 7277 1.067821 TGGCCACCGAAACACATTTTC 59.932 47.619 0.00 0.00 0.00 2.29
1784 7307 9.554724 GCTTCTTTATTTCATTCAACGACATTA 57.445 29.630 0.00 0.00 0.00 1.90
1900 7423 6.043411 CCATAACTGCTCTAACTAGTTGGAC 58.957 44.000 16.90 13.87 36.22 4.02
1931 7458 4.264253 TCTCGATGCCTTCATTGTTGATT 58.736 39.130 0.00 0.00 35.89 2.57
2002 7529 1.482593 AGTAGACATTGCTTCCCCTCG 59.517 52.381 0.00 0.00 0.00 4.63
2013 7541 3.517901 TGCTTCCCCTCGAATTTCTTCTA 59.482 43.478 0.00 0.00 0.00 2.10
2110 7638 8.367911 TGCTATCAATAGACCGATGTATTCTTT 58.632 33.333 1.15 0.00 32.05 2.52
2133 7661 4.223556 TCCCAATACCAAAACGAGCATA 57.776 40.909 0.00 0.00 0.00 3.14
2151 7679 5.545588 AGCATACATCATCCTACACACATC 58.454 41.667 0.00 0.00 0.00 3.06
2220 7749 8.715191 AAAACTGAATCAAAACAAGCACATAA 57.285 26.923 0.00 0.00 0.00 1.90
2228 7757 1.094785 ACAAGCACATAACCCATCGC 58.905 50.000 0.00 0.00 0.00 4.58
2259 7788 2.649312 TGAAGAACACCCATCCAGGATT 59.351 45.455 0.00 0.00 41.22 3.01
2309 7842 1.284982 ACGTGTGCAGTCTCGCATTC 61.285 55.000 0.00 0.00 45.26 2.67
2397 7930 1.852067 ATTTGCCAGCGAACCGACAC 61.852 55.000 0.00 0.00 0.00 3.67
2464 7997 2.757077 CAGAGGCTTTTCCGGGGT 59.243 61.111 0.00 0.00 40.77 4.95
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
8 9 3.368571 GGAGCCAACACCAGCTGC 61.369 66.667 8.66 0.00 40.11 5.25
170 2686 1.203523 GTGAGAAGAGGACATGCGACT 59.796 52.381 0.00 0.00 0.00 4.18
205 2721 1.469423 CCCTCGTTTTCTCCTAGACGC 60.469 57.143 0.00 0.00 35.63 5.19
211 2727 0.253327 GGCATCCCTCGTTTTCTCCT 59.747 55.000 0.00 0.00 0.00 3.69
229 2747 2.631418 ATCGACTTGTGTACTGACGG 57.369 50.000 0.00 0.00 0.00 4.79
241 2759 9.953697 GACACTTCACTATTCTATAATCGACTT 57.046 33.333 0.00 0.00 0.00 3.01
326 2861 4.504826 GTCTATTCTTGCTACTTCCTTCGC 59.495 45.833 0.00 0.00 0.00 4.70
328 2863 7.100409 ACTTGTCTATTCTTGCTACTTCCTTC 58.900 38.462 0.00 0.00 0.00 3.46
340 2875 9.363763 CGCATATGATATGACTTGTCTATTCTT 57.636 33.333 16.22 0.00 0.00 2.52
347 2882 5.220043 GCGTACGCATATGATATGACTTGTC 60.220 44.000 33.90 0.00 41.49 3.18
422 2957 2.946762 GCACAGGACGCAGAAACC 59.053 61.111 0.00 0.00 0.00 3.27
451 2986 2.095059 ACGGACACTAAGACGCGTTATT 60.095 45.455 15.53 14.57 0.00 1.40
452 2987 1.470098 ACGGACACTAAGACGCGTTAT 59.530 47.619 15.53 8.23 0.00 1.89
475 3040 7.943447 TGGAGTACCTCTATCTCTATGGTAAAC 59.057 40.741 0.00 0.00 35.39 2.01
477 3042 7.295196 ACTGGAGTACCTCTATCTCTATGGTAA 59.705 40.741 0.00 0.00 35.39 2.85
478 3043 6.793482 ACTGGAGTACCTCTATCTCTATGGTA 59.207 42.308 0.00 0.00 37.04 3.25
484 3049 6.835029 ACTAACTGGAGTACCTCTATCTCT 57.165 41.667 0.00 0.00 37.04 3.10
485 3050 7.173735 GCTTACTAACTGGAGTACCTCTATCTC 59.826 44.444 0.00 0.00 37.04 2.75
488 3053 6.670617 TGCTTACTAACTGGAGTACCTCTAT 58.329 40.000 0.00 0.00 37.04 1.98
489 3054 6.070951 TGCTTACTAACTGGAGTACCTCTA 57.929 41.667 0.00 0.00 37.04 2.43
491 3056 5.656213 TTGCTTACTAACTGGAGTACCTC 57.344 43.478 0.00 0.00 37.04 3.85
492 3057 6.228995 GTTTTGCTTACTAACTGGAGTACCT 58.771 40.000 0.00 0.00 37.04 3.08
493 3058 5.410746 GGTTTTGCTTACTAACTGGAGTACC 59.589 44.000 0.00 0.00 31.58 3.34
494 3059 6.147328 CAGGTTTTGCTTACTAACTGGAGTAC 59.853 42.308 0.00 0.00 31.58 2.73
495 3060 6.228258 CAGGTTTTGCTTACTAACTGGAGTA 58.772 40.000 0.00 0.00 0.00 2.59
496 3061 5.063880 CAGGTTTTGCTTACTAACTGGAGT 58.936 41.667 0.00 0.00 0.00 3.85
497 3062 5.613358 CAGGTTTTGCTTACTAACTGGAG 57.387 43.478 0.00 0.00 0.00 3.86
524 3089 6.787085 AAGAAGAAGAGGACAAACAATACG 57.213 37.500 0.00 0.00 0.00 3.06
532 3097 9.284968 CAAGGTTAATAAAGAAGAAGAGGACAA 57.715 33.333 0.00 0.00 0.00 3.18
534 3099 8.850007 ACAAGGTTAATAAAGAAGAAGAGGAC 57.150 34.615 0.00 0.00 0.00 3.85
535 3100 9.939802 GTACAAGGTTAATAAAGAAGAAGAGGA 57.060 33.333 0.00 0.00 0.00 3.71
538 3103 9.939802 GGAGTACAAGGTTAATAAAGAAGAAGA 57.060 33.333 0.00 0.00 0.00 2.87
539 3104 9.720769 TGGAGTACAAGGTTAATAAAGAAGAAG 57.279 33.333 0.00 0.00 0.00 2.85
540 3105 9.720769 CTGGAGTACAAGGTTAATAAAGAAGAA 57.279 33.333 0.00 0.00 0.00 2.52
541 3106 8.877195 ACTGGAGTACAAGGTTAATAAAGAAGA 58.123 33.333 0.00 0.00 0.00 2.87
542 3107 9.503399 AACTGGAGTACAAGGTTAATAAAGAAG 57.497 33.333 0.00 0.00 0.00 2.85
549 3114 8.039538 GCTTACTAACTGGAGTACAAGGTTAAT 58.960 37.037 0.00 0.00 31.58 1.40
550 3115 7.015487 TGCTTACTAACTGGAGTACAAGGTTAA 59.985 37.037 0.00 0.00 31.58 2.01
551 3116 6.494491 TGCTTACTAACTGGAGTACAAGGTTA 59.506 38.462 0.00 0.00 31.58 2.85
554 3119 5.401531 TGCTTACTAACTGGAGTACAAGG 57.598 43.478 0.00 0.00 31.58 3.61
555 3120 7.307811 GGTTTTGCTTACTAACTGGAGTACAAG 60.308 40.741 0.00 0.00 31.58 3.16
556 3121 6.484308 GGTTTTGCTTACTAACTGGAGTACAA 59.516 38.462 0.00 0.00 31.58 2.41
557 3122 5.993441 GGTTTTGCTTACTAACTGGAGTACA 59.007 40.000 0.00 0.00 31.58 2.90
558 3123 6.147328 CAGGTTTTGCTTACTAACTGGAGTAC 59.853 42.308 0.00 0.00 31.58 2.73
559 3124 6.228258 CAGGTTTTGCTTACTAACTGGAGTA 58.772 40.000 0.00 0.00 0.00 2.59
561 3126 5.613358 CAGGTTTTGCTTACTAACTGGAG 57.387 43.478 0.00 0.00 0.00 3.86
575 3140 4.750098 TCTCTCTTTCTTACGCAGGTTTTG 59.250 41.667 0.00 0.00 0.00 2.44
576 3141 4.957296 TCTCTCTTTCTTACGCAGGTTTT 58.043 39.130 0.00 0.00 0.00 2.43
577 3142 4.281182 TCTCTCTCTTTCTTACGCAGGTTT 59.719 41.667 0.00 0.00 0.00 3.27
578 3143 3.827302 TCTCTCTCTTTCTTACGCAGGTT 59.173 43.478 0.00 0.00 0.00 3.50
579 3144 3.422796 TCTCTCTCTTTCTTACGCAGGT 58.577 45.455 0.00 0.00 0.00 4.00
580 3145 3.692101 TCTCTCTCTCTTTCTTACGCAGG 59.308 47.826 0.00 0.00 0.00 4.85
581 3146 4.634004 TCTCTCTCTCTCTTTCTTACGCAG 59.366 45.833 0.00 0.00 0.00 5.18
582 3147 4.580868 TCTCTCTCTCTCTTTCTTACGCA 58.419 43.478 0.00 0.00 0.00 5.24
583 3148 5.554822 TTCTCTCTCTCTCTTTCTTACGC 57.445 43.478 0.00 0.00 0.00 4.42
584 3149 5.569413 GCTTCTCTCTCTCTCTTTCTTACG 58.431 45.833 0.00 0.00 0.00 3.18
585 3150 5.569413 CGCTTCTCTCTCTCTCTTTCTTAC 58.431 45.833 0.00 0.00 0.00 2.34
586 3151 4.095782 GCGCTTCTCTCTCTCTCTTTCTTA 59.904 45.833 0.00 0.00 0.00 2.10
587 3152 3.119495 GCGCTTCTCTCTCTCTCTTTCTT 60.119 47.826 0.00 0.00 0.00 2.52
588 3153 2.423538 GCGCTTCTCTCTCTCTCTTTCT 59.576 50.000 0.00 0.00 0.00 2.52
589 3154 2.163412 TGCGCTTCTCTCTCTCTCTTTC 59.837 50.000 9.73 0.00 0.00 2.62
590 3155 2.094752 GTGCGCTTCTCTCTCTCTCTTT 60.095 50.000 9.73 0.00 0.00 2.52
591 3156 1.472480 GTGCGCTTCTCTCTCTCTCTT 59.528 52.381 9.73 0.00 0.00 2.85
592 3157 1.094785 GTGCGCTTCTCTCTCTCTCT 58.905 55.000 9.73 0.00 0.00 3.10
593 3158 0.808125 TGTGCGCTTCTCTCTCTCTC 59.192 55.000 9.73 0.00 0.00 3.20
594 3159 1.252175 TTGTGCGCTTCTCTCTCTCT 58.748 50.000 9.73 0.00 0.00 3.10
595 3160 1.724082 GTTTGTGCGCTTCTCTCTCTC 59.276 52.381 9.73 0.00 0.00 3.20
719 3284 3.474570 GAGGAGATGGCCAGCCGT 61.475 66.667 19.48 10.92 39.42 5.68
737 3302 0.596082 AAATCAACCGCCGGAAAGTG 59.404 50.000 11.71 2.04 0.00 3.16
841 3406 2.527100 GAGTCACGGTCGAATTAGGTG 58.473 52.381 0.00 0.00 0.00 4.00
883 3448 4.142988 CGCGGTGTTGCTTTTAGATTAGAA 60.143 41.667 0.00 0.00 0.00 2.10
885 3450 3.124636 ACGCGGTGTTGCTTTTAGATTAG 59.875 43.478 12.47 0.00 0.00 1.73
888 3453 1.519408 ACGCGGTGTTGCTTTTAGAT 58.481 45.000 12.47 0.00 0.00 1.98
890 3455 1.461237 CGTACGCGGTGTTGCTTTTAG 60.461 52.381 12.47 0.00 0.00 1.85
911 6427 4.818546 GCCTCTCTATGTTACGTGGTAGTA 59.181 45.833 0.00 0.00 0.00 1.82
917 6433 1.269102 CGGGCCTCTCTATGTTACGTG 60.269 57.143 0.84 0.00 0.00 4.49
923 6439 2.635787 TACGGCGGGCCTCTCTATGT 62.636 60.000 13.24 0.00 0.00 2.29
924 6440 1.901948 TACGGCGGGCCTCTCTATG 60.902 63.158 13.24 0.00 0.00 2.23
926 6442 2.517875 GTACGGCGGGCCTCTCTA 60.518 66.667 13.24 0.00 0.00 2.43
943 6459 0.187361 AGGAAGGAGGAGGAGATCGG 59.813 60.000 0.00 0.00 0.00 4.18
949 6465 1.076632 GAGCGAGGAAGGAGGAGGA 60.077 63.158 0.00 0.00 0.00 3.71
1032 6548 2.716217 GGGTCCTTCCAGAAGTTGATG 58.284 52.381 6.65 0.00 36.72 3.07
1181 6697 3.812019 CGTCCCTGTCGTCCCTCG 61.812 72.222 0.00 0.00 41.41 4.63
1426 6942 1.202371 TCGTAAGCTATGGCCGTGAAG 60.202 52.381 8.05 0.00 39.73 3.02
1429 6945 1.865865 ATTCGTAAGCTATGGCCGTG 58.134 50.000 8.05 0.00 39.73 4.94
1443 6959 4.442472 CCGGGATAAAACCAGTCTATTCGT 60.442 45.833 0.00 0.00 0.00 3.85
1504 7020 9.921637 TTCATTGGTCAAAATAGGTTTGTAATC 57.078 29.630 0.00 0.00 45.83 1.75
1510 7026 6.043127 AGCCTTTCATTGGTCAAAATAGGTTT 59.957 34.615 0.00 0.00 0.00 3.27
1512 7028 5.086621 AGCCTTTCATTGGTCAAAATAGGT 58.913 37.500 0.00 0.00 0.00 3.08
1523 7039 7.775120 AGACAAACATATAAGCCTTTCATTGG 58.225 34.615 0.00 0.00 0.00 3.16
1528 7044 9.331282 AGATGTAGACAAACATATAAGCCTTTC 57.669 33.333 0.00 0.00 40.17 2.62
1538 7054 8.785329 TGCATAACAAGATGTAGACAAACATA 57.215 30.769 0.00 0.00 40.17 2.29
1568 7084 5.975988 AGTATAATGGAGTTCACACCCAT 57.024 39.130 0.00 0.00 42.08 4.00
1665 7184 1.675116 GGCTAGGTCCGGTCAAAACTC 60.675 57.143 0.00 0.00 0.00 3.01
1728 7249 1.482593 TGTTTCGGTGGCCAAAATTGT 59.517 42.857 7.24 0.00 0.00 2.71
1754 7275 7.803189 GTCGTTGAATGAAATAAAGAAGCAAGA 59.197 33.333 0.00 0.00 0.00 3.02
1755 7277 7.591057 TGTCGTTGAATGAAATAAAGAAGCAAG 59.409 33.333 0.00 0.00 0.00 4.01
1825 7348 8.661352 AATTGTGGTTCTTATTTTCTTTGGTG 57.339 30.769 0.00 0.00 0.00 4.17
1873 7396 7.038587 TCCAACTAGTTAGAGCAGTTATGGAAA 60.039 37.037 8.04 0.00 31.46 3.13
1900 7423 7.601886 ACAATGAAGGCATCGAGAAGATATTAG 59.398 37.037 0.00 0.00 37.52 1.73
1931 7458 1.809547 TGCAAAATCGAGAATCCGCAA 59.190 42.857 0.00 0.00 0.00 4.85
2097 7625 6.320164 TGGTATTGGGAAAAAGAATACATCGG 59.680 38.462 0.00 0.00 35.24 4.18
2110 7638 3.223435 TGCTCGTTTTGGTATTGGGAAA 58.777 40.909 0.00 0.00 0.00 3.13
2133 7661 4.342092 TCATCGATGTGTGTAGGATGATGT 59.658 41.667 24.09 0.00 38.74 3.06
2151 7679 2.735663 GGTAGCTCATTGATGCTCATCG 59.264 50.000 12.05 0.00 40.63 3.84
2185 7713 5.371115 TTGATTCAGTTTTTCACCGGATC 57.629 39.130 9.46 0.00 0.00 3.36
2200 7728 5.069648 TGGGTTATGTGCTTGTTTTGATTCA 59.930 36.000 0.00 0.00 0.00 2.57
2220 7749 0.244450 CAAATGCACAAGCGATGGGT 59.756 50.000 0.00 0.00 46.23 4.51
2228 7757 3.181477 TGGGTGTTCTTCAAATGCACAAG 60.181 43.478 0.00 0.00 0.00 3.16
2259 7788 1.892474 GCCAAGTTTCTACCATGCCAA 59.108 47.619 0.00 0.00 0.00 4.52
2309 7842 1.858091 CTTGCAGCTACCGGTCATAG 58.142 55.000 12.40 3.87 0.00 2.23
2330 7863 1.737735 CTCGCGCATCAGTTCACCA 60.738 57.895 8.75 0.00 0.00 4.17
2397 7930 1.364171 CCACTCTAATCGCTCCCGG 59.636 63.158 0.00 0.00 34.56 5.73


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

AutoCloner maintained by Alex Coulton.