Multiple sequence alignment - TraesCS2B01G506100

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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 TraesCS2B01G506100 chr2B 100.000 3191 0 0 1 3191 701483059 701486249 0.000000e+00 5893.0
1 TraesCS2B01G506100 chr2B 88.266 946 83 11 1351 2284 701197478 701198407 0.000000e+00 1107.0
2 TraesCS2B01G506100 chr2B 95.922 515 18 3 2314 2827 701198400 701198912 0.000000e+00 832.0
3 TraesCS2B01G506100 chr2B 86.508 504 54 9 7 507 701185784 701186276 2.800000e-150 542.0
4 TraesCS2B01G506100 chr2B 76.019 1030 218 18 1127 2146 711161529 711162539 1.020000e-139 507.0
5 TraesCS2B01G506100 chr2B 91.765 340 26 2 2852 3191 701198906 701199243 3.730000e-129 472.0
6 TraesCS2B01G506100 chr2B 82.342 521 37 17 560 1050 701196129 701196624 4.960000e-108 401.0
7 TraesCS2B01G506100 chr2D 91.397 3034 172 51 169 3191 582488245 582491200 0.000000e+00 4074.0
8 TraesCS2B01G506100 chr2D 83.574 554 73 9 5 556 582185504 582186041 1.320000e-138 503.0
9 TraesCS2B01G506100 chr2D 97.143 70 2 0 59 128 582487745 582487814 5.590000e-23 119.0
10 TraesCS2B01G506100 chr5D 90.735 626 46 7 2567 3191 375873367 375873981 0.000000e+00 824.0
11 TraesCS2B01G506100 chr6B 78.978 1037 199 14 982 2012 16544004 16542981 0.000000e+00 689.0
12 TraesCS2B01G506100 chr6B 77.165 1143 224 24 1037 2168 16429040 16430156 5.810000e-177 630.0
13 TraesCS2B01G506100 chr6B 76.520 1184 228 42 999 2166 90939342 90940491 4.550000e-168 601.0
14 TraesCS2B01G506100 chr6B 80.833 120 20 3 1586 1704 49281480 49281597 1.220000e-14 91.6
15 TraesCS2B01G506100 chr6A 76.408 1119 238 19 1037 2150 9364639 9365736 5.930000e-162 580.0
16 TraesCS2B01G506100 chr6A 75.796 1194 251 28 999 2181 34303892 34302726 1.280000e-158 569.0
17 TraesCS2B01G506100 chr6A 75.732 1195 250 29 999 2181 34414596 34413430 5.980000e-157 564.0
18 TraesCS2B01G506100 chr6A 76.311 1106 227 30 1087 2178 15940025 15938941 2.780000e-155 558.0
19 TraesCS2B01G506100 chr6A 76.789 1034 207 27 1127 2145 30560450 30559435 1.670000e-152 549.0
20 TraesCS2B01G506100 chr1B 76.779 1068 218 21 1127 2181 630644866 630645916 3.570000e-159 571.0
21 TraesCS2B01G506100 chr6D 75.460 1251 252 45 950 2178 15358373 15357156 2.780000e-155 558.0
22 TraesCS2B01G506100 chr6D 75.797 1066 223 28 1130 2178 8578807 8577760 1.020000e-139 507.0
23 TraesCS2B01G506100 chr6D 78.962 713 133 13 982 1685 9056850 9057554 1.340000e-128 470.0
24 TraesCS2B01G506100 chr6D 77.250 589 126 8 1582 2166 8915622 8916206 3.940000e-89 339.0
25 TraesCS2B01G506100 chr1A 76.128 1064 224 24 1098 2149 589248412 589247367 6.060000e-147 531.0
26 TraesCS2B01G506100 chr1D 74.845 966 198 28 1061 2016 491589702 491588772 2.310000e-106 396.0


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 TraesCS2B01G506100 chr2B 701483059 701486249 3190 False 5893.0 5893 100.00000 1 3191 1 chr2B.!!$F2 3190
1 TraesCS2B01G506100 chr2B 701196129 701199243 3114 False 703.0 1107 89.57375 560 3191 4 chr2B.!!$F4 2631
2 TraesCS2B01G506100 chr2B 711161529 711162539 1010 False 507.0 507 76.01900 1127 2146 1 chr2B.!!$F3 1019
3 TraesCS2B01G506100 chr2D 582487745 582491200 3455 False 2096.5 4074 94.27000 59 3191 2 chr2D.!!$F2 3132
4 TraesCS2B01G506100 chr2D 582185504 582186041 537 False 503.0 503 83.57400 5 556 1 chr2D.!!$F1 551
5 TraesCS2B01G506100 chr5D 375873367 375873981 614 False 824.0 824 90.73500 2567 3191 1 chr5D.!!$F1 624
6 TraesCS2B01G506100 chr6B 16542981 16544004 1023 True 689.0 689 78.97800 982 2012 1 chr6B.!!$R1 1030
7 TraesCS2B01G506100 chr6B 16429040 16430156 1116 False 630.0 630 77.16500 1037 2168 1 chr6B.!!$F1 1131
8 TraesCS2B01G506100 chr6B 90939342 90940491 1149 False 601.0 601 76.52000 999 2166 1 chr6B.!!$F3 1167
9 TraesCS2B01G506100 chr6A 9364639 9365736 1097 False 580.0 580 76.40800 1037 2150 1 chr6A.!!$F1 1113
10 TraesCS2B01G506100 chr6A 34302726 34303892 1166 True 569.0 569 75.79600 999 2181 1 chr6A.!!$R3 1182
11 TraesCS2B01G506100 chr6A 34413430 34414596 1166 True 564.0 564 75.73200 999 2181 1 chr6A.!!$R4 1182
12 TraesCS2B01G506100 chr6A 15938941 15940025 1084 True 558.0 558 76.31100 1087 2178 1 chr6A.!!$R1 1091
13 TraesCS2B01G506100 chr6A 30559435 30560450 1015 True 549.0 549 76.78900 1127 2145 1 chr6A.!!$R2 1018
14 TraesCS2B01G506100 chr1B 630644866 630645916 1050 False 571.0 571 76.77900 1127 2181 1 chr1B.!!$F1 1054
15 TraesCS2B01G506100 chr6D 15357156 15358373 1217 True 558.0 558 75.46000 950 2178 1 chr6D.!!$R2 1228
16 TraesCS2B01G506100 chr6D 8577760 8578807 1047 True 507.0 507 75.79700 1130 2178 1 chr6D.!!$R1 1048
17 TraesCS2B01G506100 chr6D 9056850 9057554 704 False 470.0 470 78.96200 982 1685 1 chr6D.!!$F2 703
18 TraesCS2B01G506100 chr6D 8915622 8916206 584 False 339.0 339 77.25000 1582 2166 1 chr6D.!!$F1 584
19 TraesCS2B01G506100 chr1A 589247367 589248412 1045 True 531.0 531 76.12800 1098 2149 1 chr1A.!!$R1 1051
20 TraesCS2B01G506100 chr1D 491588772 491589702 930 True 396.0 396 74.84500 1061 2016 1 chr1D.!!$R1 955

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
476 890 0.320374 ATGTGAGGCGAAAAGGACGA 59.680 50.0 0.0 0.0 0.0 4.20 F
530 944 0.757935 GCAGGGATACGTACAGGGGA 60.758 60.0 0.0 0.0 37.6 4.81 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1494 2576 0.967887 CCTTGAGAGCGTGGAGGAGA 60.968 60.0 0.0 0.0 0.00 3.71 R
2371 3590 2.034104 TCTCTGCTGAATGATGGCAC 57.966 50.0 0.0 0.0 32.33 5.01 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
43 44 1.182667 TAGTAGTGTCACAGGCGCAT 58.817 50.000 10.83 0.00 0.00 4.73
102 103 8.047310 TGGAAGGAGAATATAAGAAACTTGACC 58.953 37.037 0.00 0.00 0.00 4.02
135 136 5.129634 TCACAAGTGCTAGTGGAAAATCAA 58.870 37.500 0.00 0.00 36.43 2.57
140 141 6.759497 AGTGCTAGTGGAAAATCAATTACC 57.241 37.500 0.00 0.00 0.00 2.85
145 146 7.552687 TGCTAGTGGAAAATCAATTACCTACTG 59.447 37.037 0.00 0.00 0.00 2.74
191 604 5.434352 TGTCCATACACTTATCTACTCGC 57.566 43.478 0.00 0.00 0.00 5.03
194 607 6.087522 GTCCATACACTTATCTACTCGCATC 58.912 44.000 0.00 0.00 0.00 3.91
265 678 6.153680 GTCAGATAAGTGAGGAAGAGGAAGAA 59.846 42.308 0.00 0.00 0.00 2.52
275 688 1.926108 AGAGGAAGAACACTAGGCGT 58.074 50.000 0.00 0.00 0.00 5.68
336 749 7.178274 ACAATCTGTGGGTTCATTGCTAATTTA 59.822 33.333 0.00 0.00 0.00 1.40
339 752 8.450578 TCTGTGGGTTCATTGCTAATTTATAG 57.549 34.615 0.00 0.00 0.00 1.31
415 829 5.997843 AGTTATGGTATCAACTAACCCCAC 58.002 41.667 0.00 0.00 33.29 4.61
416 830 5.489637 AGTTATGGTATCAACTAACCCCACA 59.510 40.000 0.00 0.00 33.29 4.17
417 831 4.938575 ATGGTATCAACTAACCCCACAA 57.061 40.909 0.00 0.00 34.69 3.33
418 832 4.023726 TGGTATCAACTAACCCCACAAC 57.976 45.455 0.00 0.00 34.69 3.32
419 833 3.653836 TGGTATCAACTAACCCCACAACT 59.346 43.478 0.00 0.00 34.69 3.16
421 835 4.457949 GGTATCAACTAACCCCACAACTTG 59.542 45.833 0.00 0.00 0.00 3.16
423 837 2.028130 CAACTAACCCCACAACTTGCA 58.972 47.619 0.00 0.00 0.00 4.08
424 838 2.627699 CAACTAACCCCACAACTTGCAT 59.372 45.455 0.00 0.00 0.00 3.96
425 839 3.799432 ACTAACCCCACAACTTGCATA 57.201 42.857 0.00 0.00 0.00 3.14
426 840 4.316025 ACTAACCCCACAACTTGCATAT 57.684 40.909 0.00 0.00 0.00 1.78
436 850 5.050091 CCACAACTTGCATATAGAATCGTCC 60.050 44.000 0.00 0.00 0.00 4.79
437 851 5.050091 CACAACTTGCATATAGAATCGTCCC 60.050 44.000 0.00 0.00 0.00 4.46
440 854 3.319137 TGCATATAGAATCGTCCCTGC 57.681 47.619 0.00 0.00 0.00 4.85
445 859 1.496060 TAGAATCGTCCCTGCCACAT 58.504 50.000 0.00 0.00 0.00 3.21
448 862 2.037772 AGAATCGTCCCTGCCACATATC 59.962 50.000 0.00 0.00 0.00 1.63
450 864 1.199615 TCGTCCCTGCCACATATCAA 58.800 50.000 0.00 0.00 0.00 2.57
454 868 3.620488 GTCCCTGCCACATATCAAAGAA 58.380 45.455 0.00 0.00 0.00 2.52
458 872 6.491403 GTCCCTGCCACATATCAAAGAAATAT 59.509 38.462 0.00 0.00 0.00 1.28
467 881 6.992123 ACATATCAAAGAAATATGTGAGGCGA 59.008 34.615 7.72 0.00 44.61 5.54
470 884 6.567687 TCAAAGAAATATGTGAGGCGAAAA 57.432 33.333 0.00 0.00 0.00 2.29
471 885 6.611381 TCAAAGAAATATGTGAGGCGAAAAG 58.389 36.000 0.00 0.00 0.00 2.27
472 886 5.567138 AAGAAATATGTGAGGCGAAAAGG 57.433 39.130 0.00 0.00 0.00 3.11
476 890 0.320374 ATGTGAGGCGAAAAGGACGA 59.680 50.000 0.00 0.00 0.00 4.20
478 892 1.546923 TGTGAGGCGAAAAGGACGATA 59.453 47.619 0.00 0.00 0.00 2.92
487 901 6.015688 AGGCGAAAAGGACGATAATAGACATA 60.016 38.462 0.00 0.00 0.00 2.29
489 903 7.148787 GGCGAAAAGGACGATAATAGACATAAG 60.149 40.741 0.00 0.00 0.00 1.73
519 933 2.330216 GGCTTAGAAGAGGCAGGGATA 58.670 52.381 0.00 0.00 41.49 2.59
521 935 2.288518 GCTTAGAAGAGGCAGGGATACG 60.289 54.545 0.00 0.00 37.60 3.06
524 938 2.308690 AGAAGAGGCAGGGATACGTAC 58.691 52.381 0.00 0.00 37.60 3.67
529 943 1.746517 GCAGGGATACGTACAGGGG 59.253 63.158 0.00 0.00 37.60 4.79
530 944 0.757935 GCAGGGATACGTACAGGGGA 60.758 60.000 0.00 0.00 37.60 4.81
532 946 2.112998 CAGGGATACGTACAGGGGAAA 58.887 52.381 0.00 0.00 37.60 3.13
533 947 2.704065 CAGGGATACGTACAGGGGAAAT 59.296 50.000 0.00 0.00 37.60 2.17
535 949 2.701951 GGGATACGTACAGGGGAAATGA 59.298 50.000 0.00 0.00 37.60 2.57
536 950 3.244112 GGGATACGTACAGGGGAAATGAG 60.244 52.174 0.00 0.00 37.60 2.90
537 951 3.640029 GGATACGTACAGGGGAAATGAGA 59.360 47.826 0.00 0.00 0.00 3.27
538 952 4.262079 GGATACGTACAGGGGAAATGAGAG 60.262 50.000 0.00 0.00 0.00 3.20
539 953 2.816411 ACGTACAGGGGAAATGAGAGA 58.184 47.619 0.00 0.00 0.00 3.10
540 954 2.761208 ACGTACAGGGGAAATGAGAGAG 59.239 50.000 0.00 0.00 0.00 3.20
541 955 3.024547 CGTACAGGGGAAATGAGAGAGA 58.975 50.000 0.00 0.00 0.00 3.10
542 956 3.067461 CGTACAGGGGAAATGAGAGAGAG 59.933 52.174 0.00 0.00 0.00 3.20
543 957 3.481559 ACAGGGGAAATGAGAGAGAGA 57.518 47.619 0.00 0.00 0.00 3.10
544 958 3.796111 ACAGGGGAAATGAGAGAGAGAA 58.204 45.455 0.00 0.00 0.00 2.87
545 959 4.171234 ACAGGGGAAATGAGAGAGAGAAA 58.829 43.478 0.00 0.00 0.00 2.52
546 960 4.224818 ACAGGGGAAATGAGAGAGAGAAAG 59.775 45.833 0.00 0.00 0.00 2.62
547 961 4.469227 CAGGGGAAATGAGAGAGAGAAAGA 59.531 45.833 0.00 0.00 0.00 2.52
548 962 4.716287 AGGGGAAATGAGAGAGAGAAAGAG 59.284 45.833 0.00 0.00 0.00 2.85
549 963 4.714308 GGGGAAATGAGAGAGAGAAAGAGA 59.286 45.833 0.00 0.00 0.00 3.10
550 964 5.163416 GGGGAAATGAGAGAGAGAAAGAGAG 60.163 48.000 0.00 0.00 0.00 3.20
551 965 5.656416 GGGAAATGAGAGAGAGAAAGAGAGA 59.344 44.000 0.00 0.00 0.00 3.10
552 966 6.183360 GGGAAATGAGAGAGAGAAAGAGAGAG 60.183 46.154 0.00 0.00 0.00 3.20
553 967 6.603201 GGAAATGAGAGAGAGAAAGAGAGAGA 59.397 42.308 0.00 0.00 0.00 3.10
554 968 7.201767 GGAAATGAGAGAGAGAAAGAGAGAGAG 60.202 44.444 0.00 0.00 0.00 3.20
555 969 6.566079 ATGAGAGAGAGAAAGAGAGAGAGA 57.434 41.667 0.00 0.00 0.00 3.10
556 970 5.982356 TGAGAGAGAGAAAGAGAGAGAGAG 58.018 45.833 0.00 0.00 0.00 3.20
557 971 5.721480 TGAGAGAGAGAAAGAGAGAGAGAGA 59.279 44.000 0.00 0.00 0.00 3.10
558 972 6.127225 TGAGAGAGAGAAAGAGAGAGAGAGAG 60.127 46.154 0.00 0.00 0.00 3.20
566 980 4.271807 AGAGAGAGAGAGAGGAGAGAGA 57.728 50.000 0.00 0.00 0.00 3.10
588 1002 6.952743 AGAAGAAAGCGCTACATATGATTTG 58.047 36.000 12.05 0.00 0.00 2.32
589 1003 6.763135 AGAAGAAAGCGCTACATATGATTTGA 59.237 34.615 12.05 0.00 0.00 2.69
590 1004 7.443575 AGAAGAAAGCGCTACATATGATTTGAT 59.556 33.333 12.05 0.00 0.00 2.57
595 1009 7.919313 AGCGCTACATATGATTTGATTTTTG 57.081 32.000 8.99 0.00 0.00 2.44
599 1013 8.745837 CGCTACATATGATTTGATTTTTGGAAC 58.254 33.333 10.38 0.00 0.00 3.62
600 1014 9.807649 GCTACATATGATTTGATTTTTGGAACT 57.192 29.630 10.38 0.00 0.00 3.01
682 1099 7.772332 AATATCTCTGTGTCAAATCCGTTAC 57.228 36.000 0.00 0.00 0.00 2.50
744 1161 5.637006 TGGGTTTCTGATAAAACGAATGG 57.363 39.130 0.00 0.00 39.52 3.16
793 1237 8.705134 CAAAATTCACGGGTTAAAATTTCTACC 58.295 33.333 11.42 11.42 31.86 3.18
903 1347 3.640498 TGTGACAAAATTGCCAATCTGGA 59.360 39.130 0.00 0.00 40.96 3.86
977 1421 1.204704 GGAAATTTCTCCCCTTTGCCG 59.795 52.381 17.42 0.00 0.00 5.69
1091 1548 3.710722 CCACCGCTGCCTCCTCTT 61.711 66.667 0.00 0.00 0.00 2.85
1123 1630 3.564218 GCTCCCGCATCTCCCCAT 61.564 66.667 0.00 0.00 35.78 4.00
1494 2576 1.407258 CTCTTCGGCTCCTTCGAGAAT 59.593 52.381 0.00 0.00 38.52 2.40
1721 2812 1.208052 TGGCTCTCGGATTTTCAGAGG 59.792 52.381 5.11 0.00 38.86 3.69
1795 2887 2.978489 GAGTACTTGAGGAACACGTTCG 59.022 50.000 0.00 0.00 40.37 3.95
1839 2931 3.445096 GCATTGCTGTGTCTAAATTCCCT 59.555 43.478 0.16 0.00 0.00 4.20
1933 3025 1.001293 CGGCCTATATTGCTCAGCAGA 59.999 52.381 0.00 0.00 40.61 4.26
1959 3051 6.970043 CAGTAATGCTCAGTTACAGTCTAGAC 59.030 42.308 15.41 15.41 35.11 2.59
2046 3263 5.227152 GTCCCGAAATGCAGTACAATTTTT 58.773 37.500 0.00 0.00 0.00 1.94
2371 3590 2.118313 TCTGAGCCATGACATGTTGG 57.882 50.000 14.26 11.61 36.03 3.77
2461 3680 0.318275 GCGCCGGTTTTGTTTCATCA 60.318 50.000 1.90 0.00 0.00 3.07
2793 4013 4.024809 GTGTAGGTTTGCTTGAGTTCACTC 60.025 45.833 0.00 0.00 43.15 3.51
2862 4082 5.270083 TCAGTTTTTAGTCATGTTTGTGCG 58.730 37.500 0.00 0.00 0.00 5.34
3012 4232 0.250727 GAGGTGGCTAGGTTTGTGCA 60.251 55.000 0.00 0.00 0.00 4.57
3086 4306 7.619050 ACAGACTAAATCATGATCAACTGACT 58.381 34.615 22.57 11.04 0.00 3.41
3132 4352 8.037382 ACACTGATCATTAATTGTGAGAACTG 57.963 34.615 15.19 0.00 0.00 3.16
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 9.301153 CTAACAGAAAGCAATGTTTTTACTGTT 57.699 29.630 22.66 22.66 44.37 3.16
1 2 8.466798 ACTAACAGAAAGCAATGTTTTTACTGT 58.533 29.630 9.81 9.81 40.09 3.55
2 3 8.856490 ACTAACAGAAAGCAATGTTTTTACTG 57.144 30.769 8.82 8.82 40.09 2.74
4 5 9.946165 ACTACTAACAGAAAGCAATGTTTTTAC 57.054 29.630 0.00 0.00 40.09 2.01
5 6 9.944663 CACTACTAACAGAAAGCAATGTTTTTA 57.055 29.630 0.00 0.00 40.09 1.52
6 7 8.466798 ACACTACTAACAGAAAGCAATGTTTTT 58.533 29.630 0.00 0.00 40.09 1.94
7 8 7.996385 ACACTACTAACAGAAAGCAATGTTTT 58.004 30.769 0.00 0.00 40.09 2.43
8 9 7.282224 TGACACTACTAACAGAAAGCAATGTTT 59.718 33.333 0.00 0.00 40.09 2.83
9 10 6.765989 TGACACTACTAACAGAAAGCAATGTT 59.234 34.615 0.00 0.00 42.15 2.71
10 11 6.202954 GTGACACTACTAACAGAAAGCAATGT 59.797 38.462 0.00 0.00 0.00 2.71
11 12 6.202762 TGTGACACTACTAACAGAAAGCAATG 59.797 38.462 7.20 0.00 0.00 2.82
12 13 6.288294 TGTGACACTACTAACAGAAAGCAAT 58.712 36.000 7.20 0.00 0.00 3.56
13 14 5.666462 TGTGACACTACTAACAGAAAGCAA 58.334 37.500 7.20 0.00 0.00 3.91
14 15 5.270893 TGTGACACTACTAACAGAAAGCA 57.729 39.130 7.20 0.00 0.00 3.91
15 16 4.686554 CCTGTGACACTACTAACAGAAAGC 59.313 45.833 7.20 0.00 42.09 3.51
16 17 4.686554 GCCTGTGACACTACTAACAGAAAG 59.313 45.833 7.20 0.00 42.09 2.62
20 21 2.596452 CGCCTGTGACACTACTAACAG 58.404 52.381 7.20 0.00 39.78 3.16
102 103 3.383620 AGCACTTGTGAGTTGAGAGAG 57.616 47.619 4.79 0.00 32.54 3.20
219 632 5.473846 TGACTAGTCGAGAAAGACATTGTCT 59.526 40.000 17.85 13.61 45.64 3.41
238 651 6.328782 TCCTCTTCCTCACTTATCTGACTA 57.671 41.667 0.00 0.00 0.00 2.59
275 688 2.036958 CACTTATCCGTGGGCATTGA 57.963 50.000 0.00 0.00 0.00 2.57
311 724 5.587388 ATTAGCAATGAACCCACAGATTG 57.413 39.130 0.00 0.00 0.00 2.67
389 803 7.395206 GTGGGGTTAGTTGATACCATAACTTTT 59.605 37.037 0.00 0.00 38.11 2.27
390 804 6.888088 GTGGGGTTAGTTGATACCATAACTTT 59.112 38.462 0.00 0.00 38.11 2.66
396 810 4.291249 AGTTGTGGGGTTAGTTGATACCAT 59.709 41.667 0.00 0.00 36.10 3.55
401 815 2.890945 GCAAGTTGTGGGGTTAGTTGAT 59.109 45.455 4.48 0.00 0.00 2.57
405 819 2.675658 ATGCAAGTTGTGGGGTTAGT 57.324 45.000 4.48 0.00 0.00 2.24
408 822 4.584638 TCTATATGCAAGTTGTGGGGTT 57.415 40.909 4.48 0.00 0.00 4.11
409 823 4.584638 TTCTATATGCAAGTTGTGGGGT 57.415 40.909 4.48 0.00 0.00 4.95
412 826 5.050091 GGACGATTCTATATGCAAGTTGTGG 60.050 44.000 4.48 0.00 0.00 4.17
415 829 5.178252 CAGGGACGATTCTATATGCAAGTTG 59.822 44.000 0.00 0.00 0.00 3.16
416 830 5.300752 CAGGGACGATTCTATATGCAAGTT 58.699 41.667 0.00 0.00 0.00 2.66
417 831 4.800914 GCAGGGACGATTCTATATGCAAGT 60.801 45.833 0.00 0.00 32.79 3.16
418 832 3.681897 GCAGGGACGATTCTATATGCAAG 59.318 47.826 0.00 0.00 32.79 4.01
419 833 3.557054 GGCAGGGACGATTCTATATGCAA 60.557 47.826 0.00 0.00 34.17 4.08
421 835 2.028112 TGGCAGGGACGATTCTATATGC 60.028 50.000 0.00 0.00 0.00 3.14
423 837 3.239449 TGTGGCAGGGACGATTCTATAT 58.761 45.455 0.00 0.00 0.00 0.86
424 838 2.673258 TGTGGCAGGGACGATTCTATA 58.327 47.619 0.00 0.00 0.00 1.31
425 839 1.496060 TGTGGCAGGGACGATTCTAT 58.504 50.000 0.00 0.00 0.00 1.98
426 840 1.496060 ATGTGGCAGGGACGATTCTA 58.504 50.000 0.00 0.00 0.00 2.10
436 850 7.281040 ACATATTTCTTTGATATGTGGCAGG 57.719 36.000 8.49 0.00 44.69 4.85
445 859 7.857734 TTTCGCCTCACATATTTCTTTGATA 57.142 32.000 0.00 0.00 0.00 2.15
448 862 5.801947 CCTTTTCGCCTCACATATTTCTTTG 59.198 40.000 0.00 0.00 0.00 2.77
450 864 5.123979 GTCCTTTTCGCCTCACATATTTCTT 59.876 40.000 0.00 0.00 0.00 2.52
454 868 2.936498 CGTCCTTTTCGCCTCACATATT 59.064 45.455 0.00 0.00 0.00 1.28
458 872 0.320374 ATCGTCCTTTTCGCCTCACA 59.680 50.000 0.00 0.00 0.00 3.58
462 876 4.098960 TGTCTATTATCGTCCTTTTCGCCT 59.901 41.667 0.00 0.00 0.00 5.52
464 878 7.594015 TCTTATGTCTATTATCGTCCTTTTCGC 59.406 37.037 0.00 0.00 0.00 4.70
465 879 9.459640 TTCTTATGTCTATTATCGTCCTTTTCG 57.540 33.333 0.00 0.00 0.00 3.46
487 901 6.770303 GCCTCTTCTAAGCCATCTATTTTCTT 59.230 38.462 0.00 0.00 0.00 2.52
489 903 6.058183 TGCCTCTTCTAAGCCATCTATTTTC 58.942 40.000 0.00 0.00 0.00 2.29
493 907 3.582208 CCTGCCTCTTCTAAGCCATCTAT 59.418 47.826 0.00 0.00 0.00 1.98
497 911 0.842635 CCCTGCCTCTTCTAAGCCAT 59.157 55.000 0.00 0.00 0.00 4.40
503 917 2.750141 ACGTATCCCTGCCTCTTCTA 57.250 50.000 0.00 0.00 0.00 2.10
511 925 0.757935 TCCCCTGTACGTATCCCTGC 60.758 60.000 0.00 0.00 0.00 4.85
514 928 2.701951 TCATTTCCCCTGTACGTATCCC 59.298 50.000 0.00 0.00 0.00 3.85
519 933 2.761208 CTCTCTCATTTCCCCTGTACGT 59.239 50.000 0.00 0.00 0.00 3.57
521 935 4.282496 TCTCTCTCTCATTTCCCCTGTAC 58.718 47.826 0.00 0.00 0.00 2.90
524 938 4.469227 TCTTTCTCTCTCTCATTTCCCCTG 59.531 45.833 0.00 0.00 0.00 4.45
529 943 7.554118 TCTCTCTCTCTTTCTCTCTCTCATTTC 59.446 40.741 0.00 0.00 0.00 2.17
530 944 7.405292 TCTCTCTCTCTTTCTCTCTCTCATTT 58.595 38.462 0.00 0.00 0.00 2.32
532 946 6.385176 TCTCTCTCTCTCTTTCTCTCTCTCAT 59.615 42.308 0.00 0.00 0.00 2.90
533 947 5.721480 TCTCTCTCTCTCTTTCTCTCTCTCA 59.279 44.000 0.00 0.00 0.00 3.27
535 949 5.130145 CCTCTCTCTCTCTCTTTCTCTCTCT 59.870 48.000 0.00 0.00 0.00 3.10
536 950 5.129485 TCCTCTCTCTCTCTCTTTCTCTCTC 59.871 48.000 0.00 0.00 0.00 3.20
537 951 5.032846 TCCTCTCTCTCTCTCTTTCTCTCT 58.967 45.833 0.00 0.00 0.00 3.10
538 952 5.129485 TCTCCTCTCTCTCTCTCTTTCTCTC 59.871 48.000 0.00 0.00 0.00 3.20
539 953 5.032846 TCTCCTCTCTCTCTCTCTTTCTCT 58.967 45.833 0.00 0.00 0.00 3.10
540 954 5.129485 TCTCTCCTCTCTCTCTCTCTTTCTC 59.871 48.000 0.00 0.00 0.00 2.87
541 955 5.032846 TCTCTCCTCTCTCTCTCTCTTTCT 58.967 45.833 0.00 0.00 0.00 2.52
542 956 5.129485 TCTCTCTCCTCTCTCTCTCTCTTTC 59.871 48.000 0.00 0.00 0.00 2.62
543 957 5.032846 TCTCTCTCCTCTCTCTCTCTCTTT 58.967 45.833 0.00 0.00 0.00 2.52
544 958 4.624913 TCTCTCTCCTCTCTCTCTCTCTT 58.375 47.826 0.00 0.00 0.00 2.85
545 959 4.271807 TCTCTCTCCTCTCTCTCTCTCT 57.728 50.000 0.00 0.00 0.00 3.10
546 960 4.651503 TCTTCTCTCTCCTCTCTCTCTCTC 59.348 50.000 0.00 0.00 0.00 3.20
547 961 4.624913 TCTTCTCTCTCCTCTCTCTCTCT 58.375 47.826 0.00 0.00 0.00 3.10
548 962 5.359194 TTCTTCTCTCTCCTCTCTCTCTC 57.641 47.826 0.00 0.00 0.00 3.20
549 963 5.749462 CTTTCTTCTCTCTCCTCTCTCTCT 58.251 45.833 0.00 0.00 0.00 3.10
550 964 4.336713 GCTTTCTTCTCTCTCCTCTCTCTC 59.663 50.000 0.00 0.00 0.00 3.20
551 965 4.273318 GCTTTCTTCTCTCTCCTCTCTCT 58.727 47.826 0.00 0.00 0.00 3.10
552 966 3.065371 CGCTTTCTTCTCTCTCCTCTCTC 59.935 52.174 0.00 0.00 0.00 3.20
553 967 3.016736 CGCTTTCTTCTCTCTCCTCTCT 58.983 50.000 0.00 0.00 0.00 3.10
554 968 2.479560 GCGCTTTCTTCTCTCTCCTCTC 60.480 54.545 0.00 0.00 0.00 3.20
555 969 1.476488 GCGCTTTCTTCTCTCTCCTCT 59.524 52.381 0.00 0.00 0.00 3.69
556 970 1.476488 AGCGCTTTCTTCTCTCTCCTC 59.524 52.381 2.64 0.00 0.00 3.71
557 971 1.555967 AGCGCTTTCTTCTCTCTCCT 58.444 50.000 2.64 0.00 0.00 3.69
558 972 2.164624 TGTAGCGCTTTCTTCTCTCTCC 59.835 50.000 18.68 0.00 0.00 3.71
566 980 6.925610 TCAAATCATATGTAGCGCTTTCTT 57.074 33.333 18.68 10.38 0.00 2.52
654 1071 8.964476 ACGGATTTGACACAGAGATATTTATT 57.036 30.769 0.00 0.00 0.00 1.40
661 1078 4.929808 GTGTAACGGATTTGACACAGAGAT 59.070 41.667 0.00 0.00 41.46 2.75
682 1099 3.440173 ACGGCATAAATGGTCTTTCTGTG 59.560 43.478 0.00 0.00 0.00 3.66
685 1102 3.440173 CACACGGCATAAATGGTCTTTCT 59.560 43.478 0.00 0.00 0.00 2.52
733 1150 6.422701 CCATAGTCGATAAGCCATTCGTTTTA 59.577 38.462 0.00 0.00 36.74 1.52
744 1161 6.220930 TGGTTAACATCCATAGTCGATAAGC 58.779 40.000 8.10 0.00 0.00 3.09
823 1267 1.595794 GTCAAGTTCGAGAAAACGCCA 59.404 47.619 0.00 0.00 34.27 5.69
825 1269 3.587403 AAGTCAAGTTCGAGAAAACGC 57.413 42.857 0.00 0.00 34.27 4.84
826 1270 8.461398 CAATAAAAAGTCAAGTTCGAGAAAACG 58.539 33.333 0.00 0.00 34.27 3.60
872 1316 8.498054 TTGGCAATTTTGTCACAAAATTTCTA 57.502 26.923 30.41 23.43 43.36 2.10
874 1318 8.130469 AGATTGGCAATTTTGTCACAAAATTTC 58.870 29.630 30.41 26.47 43.36 2.17
875 1319 7.916450 CAGATTGGCAATTTTGTCACAAAATTT 59.084 29.630 30.41 19.70 43.36 1.82
879 1323 4.815308 CCAGATTGGCAATTTTGTCACAAA 59.185 37.500 14.93 0.00 43.36 2.83
885 1329 2.027837 GGCTCCAGATTGGCAATTTTGT 60.028 45.455 14.93 0.00 37.47 2.83
994 1438 2.359850 GAGGCGGAACATGGTGCA 60.360 61.111 2.25 0.00 0.00 4.57
1494 2576 0.967887 CCTTGAGAGCGTGGAGGAGA 60.968 60.000 0.00 0.00 0.00 3.71
1795 2887 2.040544 CCTCGGCATGTGACCAACC 61.041 63.158 0.00 0.00 0.00 3.77
1839 2931 6.215431 TGTCCTTTGAATTCCTCAGGAGATTA 59.785 38.462 14.66 3.62 34.81 1.75
1877 2969 2.420372 TCGGAGATGAAGAACTCAGACG 59.580 50.000 0.00 0.00 37.52 4.18
1933 3025 5.730296 AGACTGTAACTGAGCATTACTGT 57.270 39.130 7.01 7.01 43.34 3.55
1974 3066 8.638685 TGAGAAACTTTATAACATAGTACCGC 57.361 34.615 0.00 0.00 0.00 5.68
2046 3263 6.695713 CCACGAATAACTTCTCGACATAATGA 59.304 38.462 0.00 0.00 38.43 2.57
2205 3424 4.715527 GGAGAGTAATCCGTGTTACAGT 57.284 45.455 9.10 0.00 37.10 3.55
2371 3590 2.034104 TCTCTGCTGAATGATGGCAC 57.966 50.000 0.00 0.00 32.33 5.01
2565 3784 5.073554 AGGGCAAAGAAATCAAAAGGGAAAT 59.926 36.000 0.00 0.00 0.00 2.17
2663 3882 5.611374 ACATAGTCCCATACATTTTCCGAG 58.389 41.667 0.00 0.00 0.00 4.63
2735 3955 3.819564 ATTGCTTAGTATCAGCGTCCA 57.180 42.857 0.00 0.00 40.45 4.02
2739 3959 6.589830 ACAAGTAATTGCTTAGTATCAGCG 57.410 37.500 8.56 0.00 40.45 5.18
2793 4013 3.438434 GCAAGAAAACTCCTAGCTTCCTG 59.562 47.826 0.00 0.00 0.00 3.86
2847 4067 1.804151 GCTTCCGCACAAACATGACTA 59.196 47.619 0.00 0.00 35.78 2.59
2862 4082 4.372656 CAGCTATACAGGTTACAGCTTCC 58.627 47.826 0.00 0.00 40.50 3.46
3012 4232 5.242069 TCAAAATTCACACGAACACATGT 57.758 34.783 0.00 0.00 32.81 3.21
3110 4330 7.408123 GCTCAGTTCTCACAATTAATGATCAG 58.592 38.462 0.09 0.00 0.00 2.90


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

AutoCloner maintained by Alex Coulton.