Multiple sequence alignment - TraesCS2B01G367100

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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 TraesCS2B01G367100 chr2B 100.000 3672 0 0 1 3672 523263198 523266869 0.000000e+00 6782
1 TraesCS2B01G367100 chr2A 91.155 2363 147 27 1 2334 587441609 587443938 0.000000e+00 3149
2 TraesCS2B01G367100 chr2A 89.439 1231 63 25 2386 3567 587444326 587445538 0.000000e+00 1491
3 TraesCS2B01G367100 chr2A 91.429 105 9 0 3566 3670 587445767 587445871 1.060000e-30 145
4 TraesCS2B01G367100 chr2D 88.817 1547 97 24 826 2336 445187089 445188595 0.000000e+00 1829
5 TraesCS2B01G367100 chr2D 89.213 890 45 16 2390 3246 445188814 445189685 0.000000e+00 1064
6 TraesCS2B01G367100 chr2D 88.950 543 29 4 1 540 445186167 445186681 3.090000e-180 641
7 TraesCS2B01G367100 chr2D 89.140 221 15 4 562 782 445186884 445187095 2.170000e-67 267
8 TraesCS2B01G367100 chr2D 90.960 177 14 1 3331 3505 445190155 445190331 1.700000e-58 237
9 TraesCS2B01G367100 chr2D 87.079 178 11 2 3496 3672 445190355 445190521 1.350000e-44 191
10 TraesCS2B01G367100 chr4A 78.756 193 32 6 155 345 137188130 137187945 1.790000e-23 121


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 TraesCS2B01G367100 chr2B 523263198 523266869 3671 False 6782.000000 6782 100.000000 1 3672 1 chr2B.!!$F1 3671
1 TraesCS2B01G367100 chr2A 587441609 587445871 4262 False 1595.000000 3149 90.674333 1 3670 3 chr2A.!!$F1 3669
2 TraesCS2B01G367100 chr2D 445186167 445190521 4354 False 704.833333 1829 89.026500 1 3672 6 chr2D.!!$F1 3671

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
38 39 0.036875 CTCCTCTTCCCGTGCCTTTT 59.963 55.0 0.0 0.0 0.0 2.27 F
1652 1870 0.034089 GGTCTGGTGGAAATGGAGGG 60.034 60.0 0.0 0.0 0.0 4.30 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1686 1904 1.227764 CGTCATCTGGGCCATCAGG 60.228 63.158 6.72 0.00 35.58 3.86 R
3626 5006 0.174845 CTAATTCGCCTGGTCGTCCA 59.825 55.000 0.39 0.39 42.05 4.02 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
38 39 0.036875 CTCCTCTTCCCGTGCCTTTT 59.963 55.000 0.00 0.00 0.00 2.27
65 66 4.124943 CCTCCCGAGTCCTCCCGA 62.125 72.222 0.00 0.00 0.00 5.14
103 105 6.808212 GCTCTGAATCTCTTCTGTAGCATATC 59.192 42.308 0.00 0.00 35.75 1.63
177 180 4.065281 ACCGTTCTTCCTCGCCGG 62.065 66.667 0.00 0.00 44.06 6.13
357 360 0.749454 GCCTGGCTGTCAACCTATGG 60.749 60.000 12.43 0.00 0.00 2.74
367 370 1.903860 TCAACCTATGGGCTGTACGTT 59.096 47.619 0.00 0.00 35.63 3.99
371 374 2.429610 ACCTATGGGCTGTACGTTGTAG 59.570 50.000 0.00 0.00 35.63 2.74
406 410 2.423185 CCGTGGCATGATTTTCTGCTTA 59.577 45.455 8.63 0.00 38.45 3.09
415 419 5.835113 TGATTTTCTGCTTATTGGGTAGC 57.165 39.130 0.00 0.00 37.89 3.58
503 510 2.161855 CTTCAGCCTGCATTGGTGTTA 58.838 47.619 13.29 4.93 0.00 2.41
523 530 5.350365 TGTTAAAGTGTGATCTCATAACGGC 59.650 40.000 0.02 0.00 0.00 5.68
534 546 1.276705 TCATAACGGCTGGCTGTTGTA 59.723 47.619 24.59 10.31 44.34 2.41
546 583 3.848272 GCTGTTGTATTTGCAGGCTTA 57.152 42.857 0.00 0.00 0.00 3.09
560 748 8.588290 TTTGCAGGCTTAGAATTCCTATAAAA 57.412 30.769 0.65 0.00 0.00 1.52
563 751 9.200817 TGCAGGCTTAGAATTCCTATAAAATTT 57.799 29.630 0.65 0.00 0.00 1.82
585 773 1.635817 TTCAGGTGGGGCTCATAGGC 61.636 60.000 0.00 0.00 40.51 3.93
648 836 5.921962 ATTTTGCTCTACCTGGAAATTCC 57.078 39.130 4.79 4.79 36.96 3.01
674 862 2.819608 TCTTCTGCCCAAAATCCTTTCG 59.180 45.455 0.00 0.00 0.00 3.46
676 864 0.456653 CTGCCCAAAATCCTTTCGCG 60.457 55.000 0.00 0.00 0.00 5.87
678 866 1.583986 CCCAAAATCCTTTCGCGCA 59.416 52.632 8.75 0.00 0.00 6.09
734 922 7.386848 ACAACATACATGCTTAGTTTAGTTCGT 59.613 33.333 0.00 0.00 0.00 3.85
735 923 8.865978 CAACATACATGCTTAGTTTAGTTCGTA 58.134 33.333 0.00 0.00 0.00 3.43
736 924 8.403606 ACATACATGCTTAGTTTAGTTCGTAC 57.596 34.615 0.00 0.00 0.00 3.67
737 925 7.490402 ACATACATGCTTAGTTTAGTTCGTACC 59.510 37.037 0.00 0.00 0.00 3.34
738 926 6.034161 ACATGCTTAGTTTAGTTCGTACCT 57.966 37.500 0.00 0.00 0.00 3.08
739 927 6.098017 ACATGCTTAGTTTAGTTCGTACCTC 58.902 40.000 0.00 0.00 0.00 3.85
740 928 5.972107 TGCTTAGTTTAGTTCGTACCTCT 57.028 39.130 0.00 0.00 0.00 3.69
784 972 5.246203 TGGCCTATTCGTTCTATAGCAAGAT 59.754 40.000 3.32 0.00 0.00 2.40
786 974 6.091441 GGCCTATTCGTTCTATAGCAAGATTG 59.909 42.308 0.00 0.00 0.00 2.67
808 996 4.999311 TGTGACTTCTGGTGAATCATCTTG 59.001 41.667 0.00 0.00 0.00 3.02
890 1078 8.774586 GTTCAATTGATACTGTTCTAGTGTTGT 58.225 33.333 9.40 0.00 40.65 3.32
893 1081 8.873830 CAATTGATACTGTTCTAGTGTTGTAGG 58.126 37.037 0.00 0.00 40.65 3.18
1082 1270 1.246737 GGCCTTGGGAGAACTTGCAG 61.247 60.000 0.00 0.00 0.00 4.41
1209 1397 3.384168 TGGTCCTGTATATGCCTCAAGT 58.616 45.455 0.00 0.00 0.00 3.16
1398 1616 6.011628 TCAGGAATTCCTCTTTGGGAAATAGT 60.012 38.462 24.67 0.00 46.65 2.12
1459 1677 6.189677 TGCTACACACCAAGCATATTTAAC 57.810 37.500 0.00 0.00 43.56 2.01
1477 1695 9.747898 ATATTTAACACATCAAGGTTGTTAGGA 57.252 29.630 0.00 0.00 0.00 2.94
1496 1714 4.091549 AGGAACAATTGCTCATGTGGAAT 58.908 39.130 10.83 8.50 0.00 3.01
1506 1724 3.497640 GCTCATGTGGAATCATCTGCTAC 59.502 47.826 0.00 0.00 0.00 3.58
1652 1870 0.034089 GGTCTGGTGGAAATGGAGGG 60.034 60.000 0.00 0.00 0.00 4.30
1779 1997 6.183360 TGTTGCTTTTGTACTCACGGTAATTT 60.183 34.615 0.00 0.00 31.56 1.82
1795 2013 5.801947 CGGTAATTTCATTGCTCCTTTCTTG 59.198 40.000 0.00 0.00 0.00 3.02
1812 2030 6.151648 CCTTTCTTGCTTATCATTGTCCTTCA 59.848 38.462 0.00 0.00 0.00 3.02
1907 2127 8.828029 CTAGTTAAGCTAGCATTTTGTTTAGC 57.172 34.615 18.83 6.91 40.51 3.09
1923 2143 5.339990 TGTTTAGCTTCAGTGCAAACTTTC 58.660 37.500 0.00 0.00 36.22 2.62
2017 2237 2.642807 CCCCTTTCTCCTTGTGGACTTA 59.357 50.000 0.00 0.00 37.46 2.24
2207 2430 7.384387 GGAGTTGTGGACTAACTTACAAGTAAG 59.616 40.741 16.27 16.27 42.33 2.34
2238 2461 5.796424 TTTTACCTTCGTACCAGAGAAGT 57.204 39.130 7.26 0.67 41.51 3.01
2274 2497 7.391148 AATGTTAGTTGATTGGTGTACCATC 57.609 36.000 4.31 5.72 46.97 3.51
2282 2505 5.242434 TGATTGGTGTACCATCAGTAACAC 58.758 41.667 4.31 0.00 46.97 3.32
2302 2525 1.261619 CGTGCTCTGTTTTCTGGTGAC 59.738 52.381 0.00 0.00 0.00 3.67
2312 2535 4.761739 TGTTTTCTGGTGACCATCTTCATC 59.238 41.667 4.03 0.00 30.82 2.92
2313 2536 2.967599 TCTGGTGACCATCTTCATCG 57.032 50.000 4.03 0.00 30.82 3.84
2377 3037 0.875059 CCAAAGACAAGACTTCCGCC 59.125 55.000 0.00 0.00 0.00 6.13
2384 3044 0.811281 CAAGACTTCCGCCCAAATCC 59.189 55.000 0.00 0.00 0.00 3.01
2388 3080 1.893137 GACTTCCGCCCAAATCCTTTT 59.107 47.619 0.00 0.00 0.00 2.27
2401 3093 7.223584 CCCAAATCCTTTTTATTCTTGTTGGT 58.776 34.615 0.00 0.00 31.81 3.67
2515 3212 3.384168 TGCAAGGGACTACACCAGATAT 58.616 45.455 0.00 0.00 38.49 1.63
2516 3213 3.134623 TGCAAGGGACTACACCAGATATG 59.865 47.826 0.00 0.00 38.49 1.78
2679 3393 2.762535 TCATCTCGGTGACCTTTTCC 57.237 50.000 0.00 0.00 0.00 3.13
2718 3432 3.245586 ACATGCCCAGGAATCTTAAACCA 60.246 43.478 0.00 0.00 0.00 3.67
2746 3460 1.000717 CCACGGTTGCCTTCGAATTTT 60.001 47.619 0.00 0.00 0.00 1.82
2801 3515 7.088589 AGTTTATGCCAGTGCTAAGTAAATG 57.911 36.000 0.00 0.00 38.71 2.32
2833 3547 1.532868 ACGATCAGCTGTTGTTTCTGC 59.467 47.619 14.67 0.00 0.00 4.26
2864 3578 4.920340 CGATTATTGCCTAGCAGTACTGAG 59.080 45.833 27.08 15.13 40.61 3.35
2882 3596 9.926158 AGTACTGAGATTCATTCATATGATGTC 57.074 33.333 6.17 0.00 40.37 3.06
2886 3600 9.436957 CTGAGATTCATTCATATGATGTCATGA 57.563 33.333 6.17 9.72 40.37 3.07
2895 3609 7.299246 TCATATGATGTCATGATGTCTCTGT 57.701 36.000 0.00 0.00 37.15 3.41
2896 3610 7.376615 TCATATGATGTCATGATGTCTCTGTC 58.623 38.462 0.00 0.00 37.15 3.51
2897 3611 5.873146 ATGATGTCATGATGTCTCTGTCT 57.127 39.130 0.00 0.00 34.83 3.41
2924 3643 0.250513 CTACAGAACAGGAGGGGCAC 59.749 60.000 0.00 0.00 0.00 5.01
2977 3699 6.597262 TGTAACGTAACATCATTGCTATGG 57.403 37.500 8.30 0.00 32.40 2.74
2981 3703 3.362986 CGTAACATCATTGCTATGGTCGC 60.363 47.826 8.30 0.00 32.40 5.19
2994 3716 1.141019 GGTCGCCTGCTCGTCAATA 59.859 57.895 0.00 0.00 0.00 1.90
3001 3723 0.108186 CTGCTCGTCAATAGGGTGCA 60.108 55.000 0.00 0.00 0.00 4.57
3123 3849 8.023128 CCTTCTATAAAGAATGTTGTGGTGTTG 58.977 37.037 0.00 0.00 40.92 3.33
3142 3868 2.407090 TGTCAGTGTGATTTGCTCTCG 58.593 47.619 0.00 0.00 0.00 4.04
3167 3893 1.202348 GGCCATGGTAGTTCAGTTTGC 59.798 52.381 14.67 0.00 0.00 3.68
3182 3908 4.019321 TCAGTTTGCCTAGCCTATTTGAGT 60.019 41.667 0.00 0.00 0.00 3.41
3215 3941 4.336280 AGACTTGCAAGATAACCTTTCCC 58.664 43.478 32.50 6.53 31.42 3.97
3238 3964 6.373779 CCTTTGTTGCTGTCTTTATGTACTG 58.626 40.000 0.00 0.00 0.00 2.74
3246 3972 7.535997 TGCTGTCTTTATGTACTGTACTACTG 58.464 38.462 17.98 10.95 0.00 2.74
3259 3985 9.828852 GTACTGTACTACTGTATATCAGAATGC 57.171 37.037 10.64 0.00 46.27 3.56
3306 4333 5.320549 ACAAGTCAAATGAATCATGGAGC 57.679 39.130 0.00 0.00 0.00 4.70
3329 4443 9.547753 GAGCACTCCATAAACTGAATAAGATTA 57.452 33.333 0.00 0.00 0.00 1.75
3374 4488 2.656069 GCGGGTCTGAAGGGTGCTA 61.656 63.158 0.00 0.00 0.00 3.49
3483 4597 2.249844 ACTTGACTAACCCGGTTGTG 57.750 50.000 13.43 8.15 0.00 3.33
3498 4647 3.364465 CGGTTGTGCACGTCATTCAAATA 60.364 43.478 13.13 0.00 0.00 1.40
3517 4666 8.034313 TCAAATACTAATAGATTGGAGGCAGT 57.966 34.615 0.00 0.00 0.00 4.40
3523 4672 2.674796 AGATTGGAGGCAGTAACGAC 57.325 50.000 0.00 0.00 0.00 4.34
3547 4697 0.455410 TGCACTTTGGCTTGTGTCAC 59.545 50.000 0.00 0.00 36.63 3.67
3567 4717 0.950836 TCAAACTGCCCACGAATGTG 59.049 50.000 0.00 0.00 46.00 3.21
3591 4971 2.104281 AGACAAAGGCTCTTAACACCGT 59.896 45.455 0.00 0.00 0.00 4.83
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
38 39 0.116541 ACTCGGGAGGGAGAGGAAAA 59.883 55.000 0.00 0.00 38.72 2.29
103 105 1.078848 GTCAGCTGTAGCCTGTGGG 60.079 63.158 14.67 0.00 43.38 4.61
177 180 2.022129 CAGCAGGAACACGACGTCC 61.022 63.158 10.58 0.00 0.00 4.79
349 352 1.626825 ACAACGTACAGCCCATAGGTT 59.373 47.619 0.00 0.00 32.35 3.50
357 360 0.036671 AAGCCCTACAACGTACAGCC 60.037 55.000 0.00 0.00 0.00 4.85
367 370 2.350738 GGCAAAGCAAAGCCCTACA 58.649 52.632 2.23 0.00 45.18 2.74
406 410 7.399245 AATTAAAATGTACGTGCTACCCAAT 57.601 32.000 4.97 0.00 0.00 3.16
415 419 9.849166 AATCCTGGTAAAATTAAAATGTACGTG 57.151 29.630 0.00 0.00 0.00 4.49
503 510 3.935203 CAGCCGTTATGAGATCACACTTT 59.065 43.478 0.00 0.00 0.00 2.66
523 530 1.403249 GCCTGCAAATACAACAGCCAG 60.403 52.381 0.00 0.00 0.00 4.85
534 546 8.766994 TTTATAGGAATTCTAAGCCTGCAAAT 57.233 30.769 5.23 0.00 33.28 2.32
560 748 3.756082 TGAGCCCCACCTGAAATAAAT 57.244 42.857 0.00 0.00 0.00 1.40
563 751 2.711009 CCTATGAGCCCCACCTGAAATA 59.289 50.000 0.00 0.00 0.00 1.40
585 773 6.013553 AGGATTATGATGGAGATCAGGTGAAG 60.014 42.308 0.00 0.00 42.01 3.02
648 836 5.219343 AGGATTTTGGGCAGAAGAAAAAG 57.781 39.130 0.00 0.00 0.00 2.27
674 862 1.151668 ACAATGAACTGAGTCTGCGC 58.848 50.000 0.00 0.00 0.00 6.09
676 864 3.304928 CCCAAACAATGAACTGAGTCTGC 60.305 47.826 0.00 0.00 0.00 4.26
678 866 4.437682 TCCCAAACAATGAACTGAGTCT 57.562 40.909 0.00 0.00 0.00 3.24
734 922 4.041691 GCAATCCCCTAATGCTAAGAGGTA 59.958 45.833 0.00 0.00 37.12 3.08
735 923 3.181439 GCAATCCCCTAATGCTAAGAGGT 60.181 47.826 0.00 0.00 37.12 3.85
736 924 3.416156 GCAATCCCCTAATGCTAAGAGG 58.584 50.000 0.00 0.00 37.12 3.69
737 925 3.070018 CGCAATCCCCTAATGCTAAGAG 58.930 50.000 0.00 0.00 37.92 2.85
738 926 2.810400 GCGCAATCCCCTAATGCTAAGA 60.810 50.000 0.30 0.00 37.92 2.10
739 927 1.537202 GCGCAATCCCCTAATGCTAAG 59.463 52.381 0.30 0.00 37.92 2.18
740 928 1.142870 AGCGCAATCCCCTAATGCTAA 59.857 47.619 11.47 0.00 37.92 3.09
784 972 5.233083 AGATGATTCACCAGAAGTCACAA 57.767 39.130 0.00 0.00 37.14 3.33
786 974 5.240891 TCAAGATGATTCACCAGAAGTCAC 58.759 41.667 0.00 0.00 37.14 3.67
808 996 4.183865 TGCATAACATGTAGTCAGTGCTC 58.816 43.478 0.00 0.00 34.68 4.26
884 1072 5.708230 TCAAATATCCACAACCCTACAACAC 59.292 40.000 0.00 0.00 0.00 3.32
890 1078 6.969043 AGAATGTCAAATATCCACAACCCTA 58.031 36.000 0.00 0.00 0.00 3.53
893 1081 7.396540 AGAAGAATGTCAAATATCCACAACC 57.603 36.000 0.00 0.00 0.00 3.77
936 1124 8.539117 AATCTGGAGGTTAAAAATAGGAATGG 57.461 34.615 0.00 0.00 0.00 3.16
1065 1253 2.276732 TTCTGCAAGTTCTCCCAAGG 57.723 50.000 0.00 0.00 33.76 3.61
1082 1270 7.856145 ACAGAATGATGTTGAGGAAGTATTC 57.144 36.000 0.00 0.00 41.99 1.75
1323 1541 5.885449 AGAAAATTCCATTGTCCCAAACA 57.115 34.783 0.00 0.00 35.59 2.83
1398 1616 3.009253 ACACCCCATTTTACACCGTATCA 59.991 43.478 0.00 0.00 0.00 2.15
1459 1677 5.766150 TTGTTCCTAACAACCTTGATGTG 57.234 39.130 1.21 0.00 45.79 3.21
1477 1695 5.421056 AGATGATTCCACATGAGCAATTGTT 59.579 36.000 7.40 0.00 0.00 2.83
1496 1714 5.491070 AGCAACAGTAAATGTAGCAGATGA 58.509 37.500 0.00 0.00 43.00 2.92
1506 1724 6.074142 GGCTGAAAAGAAAGCAACAGTAAATG 60.074 38.462 0.00 0.00 41.36 2.32
1652 1870 5.106673 GCTGCCTCCATAACGGTTATTATTC 60.107 44.000 10.59 1.50 35.57 1.75
1686 1904 1.227764 CGTCATCTGGGCCATCAGG 60.228 63.158 6.72 0.00 35.58 3.86
1779 1997 5.255687 TGATAAGCAAGAAAGGAGCAATGA 58.744 37.500 0.00 0.00 0.00 2.57
1795 2013 6.932356 TCAGAATGAAGGACAATGATAAGC 57.068 37.500 0.00 0.00 45.97 3.09
1885 2104 7.807907 TGAAGCTAAACAAAATGCTAGCTTAAC 59.192 33.333 17.23 12.60 45.03 2.01
1906 2126 3.427161 ACAGAAAGTTTGCACTGAAGC 57.573 42.857 9.18 0.00 31.60 3.86
1907 2127 4.737054 ACAACAGAAAGTTTGCACTGAAG 58.263 39.130 9.18 4.59 38.74 3.02
1945 2165 9.640952 AGCCATAATGTATTTGTACCATTAACT 57.359 29.630 5.85 2.94 0.00 2.24
1986 2206 3.296854 AGGAGAAAGGGGTGTTCAAAAC 58.703 45.455 0.00 0.00 0.00 2.43
2017 2237 1.885049 TTATCCCTTCTGAGCTGGCT 58.115 50.000 0.00 0.00 0.00 4.75
2096 2318 0.948678 GCAAAAGCGGGAACTACACA 59.051 50.000 0.00 0.00 0.00 3.72
2139 2361 3.636300 AGAAATACAAAACAGCTGCCACA 59.364 39.130 15.27 0.00 0.00 4.17
2207 2430 9.374838 TCTGGTACGAAGGTAAAATTTATCTTC 57.625 33.333 22.39 22.39 0.00 2.87
2219 2442 5.183904 GGTAAACTTCTCTGGTACGAAGGTA 59.816 44.000 11.41 3.04 40.63 3.08
2220 2443 4.021632 GGTAAACTTCTCTGGTACGAAGGT 60.022 45.833 11.41 3.71 40.63 3.50
2230 2453 6.702329 ACATTCCTACTGGTAAACTTCTCTG 58.298 40.000 0.00 0.00 34.23 3.35
2238 2461 9.226606 CAATCAACTAACATTCCTACTGGTAAA 57.773 33.333 0.00 0.00 34.23 2.01
2274 2497 3.555956 AGAAAACAGAGCACGTGTTACTG 59.444 43.478 24.99 24.99 37.13 2.74
2282 2505 1.261619 GTCACCAGAAAACAGAGCACG 59.738 52.381 0.00 0.00 0.00 5.34
2313 2536 9.319143 CCCATATATATTTAGAACAGCACTAGC 57.681 37.037 0.00 0.00 42.56 3.42
2377 3037 8.558700 CAACCAACAAGAATAAAAAGGATTTGG 58.441 33.333 0.00 0.00 39.02 3.28
2384 3044 9.971744 CTTTTCACAACCAACAAGAATAAAAAG 57.028 29.630 0.00 0.00 0.00 2.27
2388 3080 7.262048 GTCCTTTTCACAACCAACAAGAATAA 58.738 34.615 0.00 0.00 0.00 1.40
2401 3093 0.631753 TGTGGGGGTCCTTTTCACAA 59.368 50.000 0.00 0.00 35.72 3.33
2515 3212 0.750249 TTCTCTTGCCAGTGACGACA 59.250 50.000 0.00 0.00 0.00 4.35
2516 3213 1.140816 GTTCTCTTGCCAGTGACGAC 58.859 55.000 0.00 0.00 0.00 4.34
2679 3393 4.680237 TGGACGCAGGTTGCCTCG 62.680 66.667 0.00 0.00 41.12 4.63
2718 3432 0.255890 AGGCAACCGTGGAATGCTAT 59.744 50.000 16.68 7.30 39.94 2.97
2801 3515 1.828832 CTGATCGTCTAGTTGCGTCC 58.171 55.000 0.00 0.00 0.00 4.79
2846 3560 4.406972 TGAATCTCAGTACTGCTAGGCAAT 59.593 41.667 18.45 0.00 38.41 3.56
2848 3562 3.365472 TGAATCTCAGTACTGCTAGGCA 58.635 45.455 18.45 10.20 36.92 4.75
2855 3569 9.708092 ACATCATATGAATGAATCTCAGTACTG 57.292 33.333 17.17 17.17 45.12 2.74
2856 3570 9.926158 GACATCATATGAATGAATCTCAGTACT 57.074 33.333 9.99 0.00 45.12 2.73
2864 3578 9.989869 GACATCATGACATCATATGAATGAATC 57.010 33.333 17.51 14.67 45.12 2.52
2882 3596 6.571605 AGTCAATACAGACAGAGACATCATG 58.428 40.000 0.00 0.00 40.98 3.07
2897 3611 4.466370 CCCTCCTGTTCTGTAGTCAATACA 59.534 45.833 0.00 0.00 42.21 2.29
2924 3643 6.228273 TCAAAGCTGACAAGAATTAACTCG 57.772 37.500 0.00 0.00 0.00 4.18
2977 3699 0.872021 CCTATTGACGAGCAGGCGAC 60.872 60.000 0.00 0.00 34.83 5.19
2981 3703 0.811616 GCACCCTATTGACGAGCAGG 60.812 60.000 0.00 0.00 0.00 4.85
3045 3771 2.218603 ACAGTACTTGGACCTTTTGCG 58.781 47.619 0.00 0.00 0.00 4.85
3048 3774 4.772886 ACTGACAGTACTTGGACCTTTT 57.227 40.909 6.24 0.00 0.00 2.27
3099 3825 8.458573 ACAACACCACAACATTCTTTATAGAA 57.541 30.769 0.00 0.00 44.16 2.10
3142 3868 0.395586 TGAACTACCATGGCCCATGC 60.396 55.000 18.67 4.05 40.20 4.06
3167 3893 5.880332 TGCAGTTAAACTCAAATAGGCTAGG 59.120 40.000 0.00 0.00 0.00 3.02
3215 3941 6.959361 ACAGTACATAAAGACAGCAACAAAG 58.041 36.000 0.00 0.00 0.00 2.77
3238 3964 9.751542 AAACTGCATTCTGATATACAGTAGTAC 57.248 33.333 0.00 0.00 45.86 2.73
3246 3972 5.762218 AGAGCCAAACTGCATTCTGATATAC 59.238 40.000 0.00 0.00 0.00 1.47
3252 3978 2.631418 CAGAGCCAAACTGCATTCTG 57.369 50.000 0.00 0.00 30.37 3.02
3259 3985 2.960170 GCCTGCAGAGCCAAACTG 59.040 61.111 17.39 0.00 38.27 3.16
3329 4443 7.860649 AAATGGCCCATCAAGAATGTATAAT 57.139 32.000 0.00 0.00 33.13 1.28
3330 4444 7.451255 CCTAAATGGCCCATCAAGAATGTATAA 59.549 37.037 0.00 0.00 33.13 0.98
3331 4445 6.947733 CCTAAATGGCCCATCAAGAATGTATA 59.052 38.462 0.00 0.00 33.13 1.47
3374 4488 6.013725 GGGTTATCCTCCTTTCCAAAAACAAT 60.014 38.462 0.00 0.00 0.00 2.71
3404 4518 1.829970 TCGATCGATGCTGAGGCCT 60.830 57.895 15.15 3.86 37.74 5.19
3483 4597 9.586150 CAATCTATTAGTATTTGAATGACGTGC 57.414 33.333 0.00 0.00 0.00 5.34
3498 4647 5.597182 TCGTTACTGCCTCCAATCTATTAGT 59.403 40.000 0.00 0.00 0.00 2.24
3517 4666 1.862201 CCAAAGTGCACTTCGTCGTTA 59.138 47.619 31.20 0.00 34.61 3.18
3523 4672 0.381801 ACAAGCCAAAGTGCACTTCG 59.618 50.000 31.20 21.41 34.61 3.79
3547 4697 1.069022 CACATTCGTGGGCAGTTTGAG 60.069 52.381 0.00 0.00 39.64 3.02
3567 4717 2.226674 GTGTTAAGAGCCTTTGTCTGCC 59.773 50.000 0.00 0.00 0.00 4.85
3591 4971 2.575532 GCATCATTCCTCCGGAAATCA 58.424 47.619 5.23 0.00 45.41 2.57
3603 4983 1.298638 GCTTTCGGCCGCATCATTC 60.299 57.895 23.51 1.26 34.27 2.67
3625 5005 0.609151 TAATTCGCCTGGTCGTCCAA 59.391 50.000 2.32 0.00 43.81 3.53
3626 5006 0.174845 CTAATTCGCCTGGTCGTCCA 59.825 55.000 0.39 0.39 42.05 4.02


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

AutoCloner maintained by Alex Coulton.