Multiple sequence alignment - TraesCS3B01G127600

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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 TraesCS3B01G127600 chr3B 100.000 3474 0 0 1 3474 106415486 106418959 0.000000e+00 6416.0
1 TraesCS3B01G127600 chr3D 93.910 2775 106 21 709 3474 64183009 64185729 0.000000e+00 4130.0
2 TraesCS3B01G127600 chr3D 88.072 721 52 22 1 707 64182279 64182979 0.000000e+00 824.0
3 TraesCS3B01G127600 chr3A 91.121 2106 99 30 914 3018 74360028 74362046 0.000000e+00 2772.0
4 TraesCS3B01G127600 chr3A 85.507 345 33 9 370 697 74353628 74353972 9.230000e-91 344.0
5 TraesCS3B01G127600 chr3A 78.400 125 16 9 709 824 74359478 74359600 1.730000e-08 71.3
6 TraesCS3B01G127600 chr5D 82.857 245 38 3 1864 2104 42036157 42036401 2.100000e-52 217.0
7 TraesCS3B01G127600 chr6B 85.246 122 14 3 30 150 141650853 141650735 4.710000e-24 122.0
8 TraesCS3B01G127600 chr6B 79.612 103 15 6 43 141 620169270 620169370 6.220000e-08 69.4
9 TraesCS3B01G127600 chr7A 82.090 134 16 6 411 540 670505672 670505543 1.320000e-19 108.0
10 TraesCS3B01G127600 chr2D 78.788 132 18 7 238 362 325328915 325329043 2.870000e-11 80.5
11 TraesCS3B01G127600 chr2D 90.566 53 5 0 409 461 469374712 469374764 1.730000e-08 71.3
12 TraesCS3B01G127600 chr1D 77.852 149 20 11 372 515 7830226 7830366 2.870000e-11 80.5
13 TraesCS3B01G127600 chr1D 91.379 58 2 2 230 285 400289992 400289936 3.720000e-10 76.8


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 TraesCS3B01G127600 chr3B 106415486 106418959 3473 False 6416.00 6416 100.0000 1 3474 1 chr3B.!!$F1 3473
1 TraesCS3B01G127600 chr3D 64182279 64185729 3450 False 2477.00 4130 90.9910 1 3474 2 chr3D.!!$F1 3473
2 TraesCS3B01G127600 chr3A 74359478 74362046 2568 False 1421.65 2772 84.7605 709 3018 2 chr3A.!!$F2 2309

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
775 833 0.035458 CTCCAAACTCCAGCGGAACT 59.965 55.0 0.0 0.0 0.0 3.01 F
946 1342 0.549902 ATCTCCCACACCATCCACCA 60.550 55.0 0.0 0.0 0.0 4.17 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1764 2160 0.032952 GTTCAGTCCAGTGCGTACCA 59.967 55.0 0.00 0.0 0.00 3.25 R
2917 3314 0.543277 CCCAGACAGCTGAGGCAATA 59.457 55.0 23.35 0.0 45.17 1.90 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
36 40 2.863137 CCCCAATTTGTTGTGTTTGACG 59.137 45.455 0.00 0.00 0.00 4.35
38 42 4.367450 CCCAATTTGTTGTGTTTGACGAT 58.633 39.130 0.00 0.00 0.00 3.73
42 46 6.473778 CCAATTTGTTGTGTTTGACGATTACA 59.526 34.615 0.00 0.00 0.00 2.41
88 92 5.749596 TTTCGGTATATGCCAGAAACATG 57.250 39.130 18.46 0.00 31.44 3.21
99 103 4.642437 TGCCAGAAACATGTTTTCTACACA 59.358 37.500 24.02 14.69 40.19 3.72
107 111 9.744468 GAAACATGTTTTCTACACATTTAACCT 57.256 29.630 24.02 0.00 40.19 3.50
194 199 7.418840 TGTTCAATTTGTTTATGCATGTTCC 57.581 32.000 10.16 0.00 0.00 3.62
195 200 6.988580 TGTTCAATTTGTTTATGCATGTTCCA 59.011 30.769 10.16 0.00 0.00 3.53
199 204 7.331440 TCAATTTGTTTATGCATGTTCCACATC 59.669 33.333 10.16 0.00 36.53 3.06
202 208 6.343716 TGTTTATGCATGTTCCACATCTTT 57.656 33.333 10.16 0.00 36.53 2.52
577 592 7.511809 AAAGAAAGCAAAGAACGAGAAAAAG 57.488 32.000 0.00 0.00 0.00 2.27
578 593 5.582550 AGAAAGCAAAGAACGAGAAAAAGG 58.417 37.500 0.00 0.00 0.00 3.11
579 594 5.357032 AGAAAGCAAAGAACGAGAAAAAGGA 59.643 36.000 0.00 0.00 0.00 3.36
580 595 4.553756 AGCAAAGAACGAGAAAAAGGAC 57.446 40.909 0.00 0.00 0.00 3.85
581 596 3.945285 AGCAAAGAACGAGAAAAAGGACA 59.055 39.130 0.00 0.00 0.00 4.02
582 597 4.035675 AGCAAAGAACGAGAAAAAGGACAG 59.964 41.667 0.00 0.00 0.00 3.51
583 598 4.789802 GCAAAGAACGAGAAAAAGGACAGG 60.790 45.833 0.00 0.00 0.00 4.00
584 599 4.417426 AAGAACGAGAAAAAGGACAGGA 57.583 40.909 0.00 0.00 0.00 3.86
585 600 4.417426 AGAACGAGAAAAAGGACAGGAA 57.583 40.909 0.00 0.00 0.00 3.36
586 601 4.777463 AGAACGAGAAAAAGGACAGGAAA 58.223 39.130 0.00 0.00 0.00 3.13
587 602 5.190677 AGAACGAGAAAAAGGACAGGAAAA 58.809 37.500 0.00 0.00 0.00 2.29
588 603 5.650703 AGAACGAGAAAAAGGACAGGAAAAA 59.349 36.000 0.00 0.00 0.00 1.94
603 618 4.251246 AAAAACGAGGCAGTGGCA 57.749 50.000 20.04 0.00 43.71 4.92
755 813 2.815647 GCTCGGTGGCTTCTTCCG 60.816 66.667 0.00 0.00 44.76 4.30
768 826 0.321671 TCTTCCGCTCCAAACTCCAG 59.678 55.000 0.00 0.00 0.00 3.86
769 827 1.301677 CTTCCGCTCCAAACTCCAGC 61.302 60.000 0.00 0.00 0.00 4.85
772 830 2.347490 GCTCCAAACTCCAGCGGA 59.653 61.111 0.00 0.00 0.00 5.54
773 831 1.302511 GCTCCAAACTCCAGCGGAA 60.303 57.895 0.00 0.00 0.00 4.30
774 832 1.578206 GCTCCAAACTCCAGCGGAAC 61.578 60.000 0.00 0.00 0.00 3.62
775 833 0.035458 CTCCAAACTCCAGCGGAACT 59.965 55.000 0.00 0.00 0.00 3.01
805 863 3.121496 CCGCAAAAATTTCGAAAACGGAG 60.121 43.478 15.66 6.66 40.49 4.63
848 917 3.202706 GCGCCTCCACCCGATTTC 61.203 66.667 0.00 0.00 0.00 2.17
849 918 2.513897 CGCCTCCACCCGATTTCC 60.514 66.667 0.00 0.00 0.00 3.13
850 919 2.674754 GCCTCCACCCGATTTCCA 59.325 61.111 0.00 0.00 0.00 3.53
851 920 1.001393 GCCTCCACCCGATTTCCAA 60.001 57.895 0.00 0.00 0.00 3.53
852 921 0.610785 GCCTCCACCCGATTTCCAAA 60.611 55.000 0.00 0.00 0.00 3.28
880 949 1.215647 CAGTTTCCCTCCCGTCTCG 59.784 63.158 0.00 0.00 0.00 4.04
928 1324 1.202348 CGAACGCCTCTCATCTCACAT 60.202 52.381 0.00 0.00 0.00 3.21
946 1342 0.549902 ATCTCCCACACCATCCACCA 60.550 55.000 0.00 0.00 0.00 4.17
948 1344 2.361610 CCCACACCATCCACCAGC 60.362 66.667 0.00 0.00 0.00 4.85
950 1346 2.361610 CACACCATCCACCAGCCC 60.362 66.667 0.00 0.00 0.00 5.19
951 1347 3.661648 ACACCATCCACCAGCCCC 61.662 66.667 0.00 0.00 0.00 5.80
952 1348 4.447342 CACCATCCACCAGCCCCC 62.447 72.222 0.00 0.00 0.00 5.40
955 1351 3.492353 CATCCACCAGCCCCCGAT 61.492 66.667 0.00 0.00 0.00 4.18
956 1352 2.696125 ATCCACCAGCCCCCGATT 60.696 61.111 0.00 0.00 0.00 3.34
957 1353 2.757124 ATCCACCAGCCCCCGATTC 61.757 63.158 0.00 0.00 0.00 2.52
958 1354 3.727258 CCACCAGCCCCCGATTCA 61.727 66.667 0.00 0.00 0.00 2.57
959 1355 2.597340 CACCAGCCCCCGATTCAT 59.403 61.111 0.00 0.00 0.00 2.57
960 1356 1.526917 CACCAGCCCCCGATTCATC 60.527 63.158 0.00 0.00 0.00 2.92
1233 1629 4.552365 ATCGGCCGCATGGTCCAG 62.552 66.667 23.51 0.00 36.06 3.86
1604 2000 1.741770 GCTCCGTGTTCTTGGCGAT 60.742 57.895 0.00 0.00 0.00 4.58
1710 2106 2.612221 CGAGGTCCAGGGTTTCAACTAC 60.612 54.545 0.00 0.00 0.00 2.73
1749 2145 3.423154 CGCCTCAAACGCCTCACC 61.423 66.667 0.00 0.00 0.00 4.02
1764 2160 3.490348 CCTCACCATTTCCAAGAACACT 58.510 45.455 0.00 0.00 0.00 3.55
1836 2233 7.375230 TCAAACTTTCAATTCGTTTCATTCG 57.625 32.000 0.00 0.00 0.00 3.34
2022 2419 1.523758 GTGGAGTTCTGCGGTGATTT 58.476 50.000 0.00 0.00 0.00 2.17
2168 2565 2.509052 TGTGCGTCATATCCTACTGC 57.491 50.000 0.00 0.00 0.00 4.40
2170 2567 2.034685 TGTGCGTCATATCCTACTGCTC 59.965 50.000 0.00 0.00 0.00 4.26
2177 2574 6.162079 CGTCATATCCTACTGCTCATCAATT 58.838 40.000 0.00 0.00 0.00 2.32
2278 2675 8.187930 CTGATATCTTCATTGGAGGAGGTCCTA 61.188 44.444 3.98 0.00 39.18 2.94
2350 2747 1.132977 TCCCTTGTCAGGTACAGTCCA 60.133 52.381 0.00 0.00 39.87 4.02
2360 2757 3.605749 TACAGTCCAAGGCTGCGGC 62.606 63.158 9.72 9.72 37.47 6.53
2483 2880 1.202940 GGATTGAATAGGAGGGGTGCC 60.203 57.143 0.00 0.00 0.00 5.01
2520 2917 1.733402 TTTGGCTCTTGTGGGTTGCG 61.733 55.000 0.00 0.00 0.00 4.85
2543 2940 3.068873 ACTGAACCGATGAGGCTCTTATC 59.931 47.826 16.72 10.19 46.52 1.75
2545 2942 0.315568 ACCGATGAGGCTCTTATCGC 59.684 55.000 24.12 4.70 44.71 4.58
2572 2969 5.526846 GCTACTATTGAGCTCAATTCTGCTT 59.473 40.000 39.03 21.46 43.48 3.91
2642 3039 2.923121 TCAGCATGCTTAGGGTGATTC 58.077 47.619 19.98 0.00 36.68 2.52
2705 3102 7.882791 TCTGTATTGCTCCTTGTTTTATGAGAA 59.117 33.333 0.00 0.00 0.00 2.87
2755 3152 4.682860 CCTGCAACAGCAACTTATTTTCAG 59.317 41.667 0.00 0.00 37.91 3.02
2777 3174 5.025453 AGCCCTTGTGTATTTGATTCCATT 58.975 37.500 0.00 0.00 0.00 3.16
2778 3175 5.127682 AGCCCTTGTGTATTTGATTCCATTC 59.872 40.000 0.00 0.00 0.00 2.67
2779 3176 5.105392 GCCCTTGTGTATTTGATTCCATTCA 60.105 40.000 0.00 0.00 0.00 2.57
2780 3177 6.574073 GCCCTTGTGTATTTGATTCCATTCAA 60.574 38.462 0.00 0.00 33.89 2.69
2781 3178 7.558604 CCCTTGTGTATTTGATTCCATTCAAT 58.441 34.615 0.00 0.00 35.64 2.57
2782 3179 8.042515 CCCTTGTGTATTTGATTCCATTCAATT 58.957 33.333 0.00 0.00 35.64 2.32
2880 3277 5.995565 TGAATGGGATATACCTAGAACCG 57.004 43.478 5.33 0.00 38.98 4.44
2897 3294 4.825085 AGAACCGCCAATAGTTTCTGAAAA 59.175 37.500 4.09 0.00 0.00 2.29
2907 3304 7.255942 CCAATAGTTTCTGAAAAACCACCTGAT 60.256 37.037 4.09 0.00 0.00 2.90
2917 3314 6.605594 TGAAAAACCACCTGATTTCTGTAGTT 59.394 34.615 0.00 0.00 33.90 2.24
2918 3315 7.776030 TGAAAAACCACCTGATTTCTGTAGTTA 59.224 33.333 0.00 0.00 33.90 2.24
2968 3368 6.119536 CACCCTAGTTGATATGCTTGGTTAA 58.880 40.000 0.00 0.00 0.00 2.01
3042 3442 5.651387 TGGTTTGTGTTTTCATGAAGACA 57.349 34.783 23.77 23.77 33.72 3.41
3077 3477 6.218108 ACCAAAACCCATGTTACGTAAAAA 57.782 33.333 10.11 1.79 33.30 1.94
3161 3561 8.821894 GTGATCTCCTGTATTATTTCAAGTGAC 58.178 37.037 0.00 0.00 0.00 3.67
3246 3646 9.877178 ATAGTTTATATTCACTAGCCAGTATGC 57.123 33.333 0.00 0.00 32.21 3.14
3288 3688 6.072728 AGCTCAGATCTGTAGATACGATTCAC 60.073 42.308 21.92 2.89 34.37 3.18
3297 3697 2.621998 AGATACGATTCACGGTAGGTGG 59.378 50.000 0.00 0.00 46.96 4.61
3404 3804 3.814005 GCAATTCAATCTTGCATCCCT 57.186 42.857 3.32 0.00 46.44 4.20
3405 3805 3.454375 GCAATTCAATCTTGCATCCCTG 58.546 45.455 3.32 0.00 46.44 4.45
3406 3806 3.118884 GCAATTCAATCTTGCATCCCTGT 60.119 43.478 3.32 0.00 46.44 4.00
3407 3807 4.622220 GCAATTCAATCTTGCATCCCTGTT 60.622 41.667 3.32 0.00 46.44 3.16
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
16 20 3.775202 TCGTCAAACACAACAAATTGGG 58.225 40.909 0.00 0.00 45.51 4.12
17 21 5.964887 AATCGTCAAACACAACAAATTGG 57.035 34.783 0.00 0.00 40.42 3.16
19 23 8.641499 AATGTAATCGTCAAACACAACAAATT 57.359 26.923 0.00 0.00 0.00 1.82
48 52 5.998981 ACCGAAAATGTACAATGTGTAGGAA 59.001 36.000 0.00 0.00 32.84 3.36
49 53 5.553123 ACCGAAAATGTACAATGTGTAGGA 58.447 37.500 0.00 0.00 32.84 2.94
50 54 5.873179 ACCGAAAATGTACAATGTGTAGG 57.127 39.130 0.00 0.70 32.84 3.18
52 56 8.552865 GCATATACCGAAAATGTACAATGTGTA 58.447 33.333 0.00 0.00 0.00 2.90
57 61 6.995686 TCTGGCATATACCGAAAATGTACAAT 59.004 34.615 0.00 0.00 0.00 2.71
58 62 6.350103 TCTGGCATATACCGAAAATGTACAA 58.650 36.000 0.00 0.00 0.00 2.41
59 63 5.919755 TCTGGCATATACCGAAAATGTACA 58.080 37.500 0.00 0.00 0.00 2.90
60 64 6.854496 TTCTGGCATATACCGAAAATGTAC 57.146 37.500 0.00 0.00 0.00 2.90
172 177 6.988580 TGTGGAACATGCATAAACAAATTGAA 59.011 30.769 0.00 0.00 45.67 2.69
191 196 7.552459 TCTGATGTATACGAAAAGATGTGGAA 58.448 34.615 0.00 0.00 0.00 3.53
202 208 8.887036 ACAGCAAATATTCTGATGTATACGAA 57.113 30.769 15.25 0.00 41.39 3.85
255 262 7.451501 TGTGTATGAAAGAAAATGCTGATCA 57.548 32.000 0.00 0.00 0.00 2.92
382 391 8.035394 ACGATATACAATGTGTCTGAAGAAAGT 58.965 33.333 0.00 0.00 0.00 2.66
550 565 8.973835 TTTTCTCGTTCTTTGCTTTCTTTTTA 57.026 26.923 0.00 0.00 0.00 1.52
559 574 3.945285 TGTCCTTTTTCTCGTTCTTTGCT 59.055 39.130 0.00 0.00 0.00 3.91
565 580 5.494632 TTTTCCTGTCCTTTTTCTCGTTC 57.505 39.130 0.00 0.00 0.00 3.95
586 601 0.598065 GATGCCACTGCCTCGTTTTT 59.402 50.000 0.00 0.00 36.33 1.94
587 602 0.537143 TGATGCCACTGCCTCGTTTT 60.537 50.000 0.00 0.00 35.15 2.43
588 603 1.073025 TGATGCCACTGCCTCGTTT 59.927 52.632 0.00 0.00 35.15 3.60
589 604 1.672356 GTGATGCCACTGCCTCGTT 60.672 57.895 0.00 0.00 40.10 3.85
590 605 2.046892 GTGATGCCACTGCCTCGT 60.047 61.111 0.00 0.00 40.10 4.18
591 606 3.190849 CGTGATGCCACTGCCTCG 61.191 66.667 0.00 0.00 41.06 4.63
592 607 3.503363 GCGTGATGCCACTGCCTC 61.503 66.667 0.00 0.00 41.06 4.70
755 813 1.302511 TTCCGCTGGAGTTTGGAGC 60.303 57.895 0.00 0.00 31.21 4.70
846 915 5.221823 GGGAAACTGGAATTGGAATTTGGAA 60.222 40.000 0.00 0.00 0.00 3.53
847 916 4.285775 GGGAAACTGGAATTGGAATTTGGA 59.714 41.667 0.00 0.00 0.00 3.53
848 917 4.286808 AGGGAAACTGGAATTGGAATTTGG 59.713 41.667 0.00 0.00 0.00 3.28
849 918 5.482006 GAGGGAAACTGGAATTGGAATTTG 58.518 41.667 0.00 0.00 0.00 2.32
850 919 4.532126 GGAGGGAAACTGGAATTGGAATTT 59.468 41.667 0.00 0.00 0.00 1.82
851 920 4.096681 GGAGGGAAACTGGAATTGGAATT 58.903 43.478 0.00 0.00 0.00 2.17
852 921 3.566553 GGGAGGGAAACTGGAATTGGAAT 60.567 47.826 0.00 0.00 0.00 3.01
898 967 5.873179 TGAGAGGCGTTCGAAATTTAAAT 57.127 34.783 0.00 0.00 0.00 1.40
928 1324 1.151921 TGGTGGATGGTGTGGGAGA 60.152 57.895 0.00 0.00 0.00 3.71
946 1342 3.178611 GGGGATGAATCGGGGGCT 61.179 66.667 0.00 0.00 0.00 5.19
1149 1545 2.413765 CTCCGCGGGAAGTAGAGC 59.586 66.667 27.83 0.00 0.00 4.09
1249 1645 1.268999 GCAGTAGATGACGAGCTCCTG 60.269 57.143 8.47 8.00 32.99 3.86
1403 1799 2.817396 GCAGCTCCTCGAGGTTGC 60.817 66.667 30.52 30.52 38.40 4.17
1749 2145 3.364964 GCGTACCAGTGTTCTTGGAAATG 60.365 47.826 0.00 0.00 0.00 2.32
1764 2160 0.032952 GTTCAGTCCAGTGCGTACCA 59.967 55.000 0.00 0.00 0.00 3.25
1788 2185 2.342650 CGTTGGAAGGCCATGGGTG 61.343 63.158 15.13 0.00 45.46 4.61
1805 2202 4.499040 ACGAATTGAAAGTTTGAAACTGCG 59.501 37.500 11.83 9.16 41.91 5.18
1812 2209 6.416455 CCGAATGAAACGAATTGAAAGTTTGA 59.584 34.615 0.00 0.00 38.09 2.69
1813 2210 6.345723 CCCGAATGAAACGAATTGAAAGTTTG 60.346 38.462 0.00 0.00 38.09 2.93
1814 2211 5.689961 CCCGAATGAAACGAATTGAAAGTTT 59.310 36.000 0.00 0.00 40.32 2.66
1815 2212 5.219633 CCCGAATGAAACGAATTGAAAGTT 58.780 37.500 0.00 0.00 0.00 2.66
1816 2213 4.277423 ACCCGAATGAAACGAATTGAAAGT 59.723 37.500 0.00 0.00 0.00 2.66
1817 2214 4.794169 ACCCGAATGAAACGAATTGAAAG 58.206 39.130 0.00 0.00 0.00 2.62
1818 2215 4.517453 AGACCCGAATGAAACGAATTGAAA 59.483 37.500 0.00 0.00 0.00 2.69
1819 2216 4.069304 AGACCCGAATGAAACGAATTGAA 58.931 39.130 0.00 0.00 0.00 2.69
1820 2217 3.670625 AGACCCGAATGAAACGAATTGA 58.329 40.909 0.00 0.00 0.00 2.57
1821 2218 5.539582 TTAGACCCGAATGAAACGAATTG 57.460 39.130 0.00 0.00 0.00 2.32
1822 2219 5.646360 ACATTAGACCCGAATGAAACGAATT 59.354 36.000 6.76 0.00 37.65 2.17
1836 2233 4.698304 TGAACGGAAATTGACATTAGACCC 59.302 41.667 0.00 0.00 0.00 4.46
2005 2402 0.721718 CGAAATCACCGCAGAACTCC 59.278 55.000 0.00 0.00 0.00 3.85
2022 2419 1.461091 AAACGGCTGGAGAGTGTCGA 61.461 55.000 0.00 0.00 0.00 4.20
2168 2565 5.578005 AGTGAAAGGATGCAATTGATGAG 57.422 39.130 10.34 0.00 0.00 2.90
2170 2567 5.575606 GTGAAGTGAAAGGATGCAATTGATG 59.424 40.000 10.34 0.00 0.00 3.07
2177 2574 0.874390 GCGTGAAGTGAAAGGATGCA 59.126 50.000 0.00 0.00 0.00 3.96
2278 2675 1.672356 GGGTGAGCGCACAGTGATT 60.672 57.895 22.36 0.00 46.96 2.57
2284 2681 1.073025 ATTCAAGGGTGAGCGCACA 59.927 52.632 22.36 6.87 46.96 4.57
2360 2757 1.542030 CGAGATCCTAAGGACCATCCG 59.458 57.143 0.00 0.00 42.75 4.18
2483 2880 4.175489 GCACTGAGCCATGCAGCG 62.175 66.667 0.00 0.00 41.65 5.18
2520 2917 0.820871 AGAGCCTCATCGGTTCAGTC 59.179 55.000 0.00 0.00 44.79 3.51
2535 2932 2.682952 TAGTAGCACGCGATAAGAGC 57.317 50.000 15.93 6.71 0.00 4.09
2543 2940 1.124462 GAGCTCAATAGTAGCACGCG 58.876 55.000 9.40 3.53 42.62 6.01
2545 2942 5.046529 AGAATTGAGCTCAATAGTAGCACG 58.953 41.667 35.78 0.00 45.06 5.34
2572 2969 7.066404 TGACAAACAAAACAGCATAACTACTCA 59.934 33.333 0.00 0.00 0.00 3.41
2755 3152 5.105392 TGAATGGAATCAAATACACAAGGGC 60.105 40.000 0.00 0.00 0.00 5.19
2803 3200 7.332678 TGAGATCATCAACACTTTGACATACTG 59.667 37.037 0.00 0.00 44.66 2.74
2804 3201 7.389232 TGAGATCATCAACACTTTGACATACT 58.611 34.615 0.00 0.00 44.66 2.12
2805 3202 7.601073 TGAGATCATCAACACTTTGACATAC 57.399 36.000 0.00 0.00 44.66 2.39
2880 3277 4.988540 GGTGGTTTTTCAGAAACTATTGGC 59.011 41.667 0.00 0.00 0.00 4.52
2897 3294 6.151144 GCAATAACTACAGAAATCAGGTGGTT 59.849 38.462 10.24 10.24 39.20 3.67
2907 3304 4.937620 CAGCTGAGGCAATAACTACAGAAA 59.062 41.667 8.42 0.00 41.70 2.52
2917 3314 0.543277 CCCAGACAGCTGAGGCAATA 59.457 55.000 23.35 0.00 45.17 1.90
2918 3315 1.302285 CCCAGACAGCTGAGGCAAT 59.698 57.895 23.35 0.00 45.17 3.56
2968 3368 3.897239 TGTCCACATCCACTTCAAAAGT 58.103 40.909 0.00 0.00 44.06 2.66
3021 3421 6.959671 TTTGTCTTCATGAAAACACAAACC 57.040 33.333 23.45 0.00 30.70 3.27
3070 3470 8.109843 TCACATTTTGTTAAGCAGTTTTTACG 57.890 30.769 0.00 0.00 0.00 3.18
3161 3561 8.320396 AGTACAGAAGATTGCTATGCATAATG 57.680 34.615 8.00 0.00 38.76 1.90
3166 3566 5.604758 AGAGTACAGAAGATTGCTATGCA 57.395 39.130 0.00 0.00 36.47 3.96
3172 3572 5.121454 CAGTTGGAAGAGTACAGAAGATTGC 59.879 44.000 0.00 0.00 0.00 3.56
3246 3646 5.353400 TCTGAGCTTCATCTAATTGCAACTG 59.647 40.000 0.00 0.00 0.00 3.16
3346 3746 5.864418 AATGCAGCACTCATTTGGATATT 57.136 34.783 0.00 0.00 30.60 1.28
3397 3797 0.895100 TGGTCTTGCAACAGGGATGC 60.895 55.000 0.00 0.00 44.08 3.91
3404 3804 2.161855 GTCCATCATGGTCTTGCAACA 58.838 47.619 2.79 0.00 39.03 3.33
3405 3805 2.161855 TGTCCATCATGGTCTTGCAAC 58.838 47.619 2.79 0.00 39.03 4.17
3406 3806 2.583024 TGTCCATCATGGTCTTGCAA 57.417 45.000 2.79 0.00 39.03 4.08
3407 3807 2.583024 TTGTCCATCATGGTCTTGCA 57.417 45.000 2.79 0.00 39.03 4.08


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

AutoCloner maintained by Alex Coulton.