Multiple sequence alignment - TraesCS7A01G288400

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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 TraesCS7A01G288400 chr7A 100.000 2557 0 0 1 2557 347154583 347152027 0.000000e+00 4723
1 TraesCS7A01G288400 chr7A 93.871 979 47 5 1589 2557 734513889 734514864 0.000000e+00 1463
2 TraesCS7A01G288400 chr7A 93.564 637 40 1 1 636 347191659 347191023 0.000000e+00 948
3 TraesCS7A01G288400 chr7A 90.424 637 52 9 1 634 567213961 567214591 0.000000e+00 830
4 TraesCS7A01G288400 chr7A 90.141 639 54 9 1 636 567215191 567215823 0.000000e+00 822
5 TraesCS7A01G288400 chr7A 87.969 640 67 8 1 636 478976053 478976686 0.000000e+00 747
6 TraesCS7A01G288400 chr7A 94.150 359 19 2 671 1028 734513542 734513899 1.730000e-151 545
7 TraesCS7A01G288400 chr7A 77.294 436 74 18 1177 1601 284776435 284776856 1.530000e-57 233
8 TraesCS7A01G288400 chr7A 91.781 146 12 0 1026 1171 206577049 206576904 1.200000e-48 204
9 TraesCS7A01G288400 chr6D 95.394 977 36 4 1589 2557 168684375 168685350 0.000000e+00 1546
10 TraesCS7A01G288400 chr6D 95.822 359 15 0 668 1026 168684025 168684383 4.740000e-162 580
11 TraesCS7A01G288400 chr3D 94.780 977 43 4 1589 2557 267029812 267028836 0.000000e+00 1515
12 TraesCS7A01G288400 chr3D 95.787 356 15 0 671 1026 267030159 267029804 2.210000e-160 575
13 TraesCS7A01G288400 chr1A 93.973 979 46 6 1589 2557 44283018 44283993 0.000000e+00 1469
14 TraesCS7A01G288400 chr1A 93.769 979 48 6 1589 2557 44344885 44345860 0.000000e+00 1458
15 TraesCS7A01G288400 chr1A 92.857 434 29 2 1169 1601 387226841 387227273 1.670000e-176 628
16 TraesCS7A01G288400 chr1A 94.444 360 17 3 671 1028 44344537 44344895 3.720000e-153 551
17 TraesCS7A01G288400 chr1A 94.167 360 18 3 671 1028 44282670 44283028 1.730000e-151 545
18 TraesCS7A01G288400 chr1A 94.167 360 18 3 671 1028 44295592 44295950 1.730000e-151 545
19 TraesCS7A01G288400 chr1A 94.017 351 19 2 1589 1937 44295940 44296290 4.840000e-147 531
20 TraesCS7A01G288400 chr1A 96.029 277 10 1 2282 2557 44296970 44297246 1.400000e-122 449
21 TraesCS7A01G288400 chr1A 93.103 145 9 1 1025 1168 387224517 387224661 7.170000e-51 211
22 TraesCS7A01G288400 chr3B 93.525 973 43 7 1595 2557 686109808 686110770 0.000000e+00 1430
23 TraesCS7A01G288400 chr3B 91.589 428 36 0 1169 1596 487854462 487854889 2.190000e-165 592
24 TraesCS7A01G288400 chr3B 93.036 359 22 2 671 1028 686109455 686109811 2.920000e-144 521
25 TraesCS7A01G288400 chr7B 92.449 980 60 6 1589 2557 13031866 13032842 0.000000e+00 1387
26 TraesCS7A01G288400 chr7B 93.872 359 21 1 671 1028 13031518 13031876 8.050000e-150 540
27 TraesCS7A01G288400 chr4A 91.523 637 47 5 1 636 120310862 120311492 0.000000e+00 870
28 TraesCS7A01G288400 chr4A 90.709 635 52 4 3 636 120214960 120215588 0.000000e+00 839
29 TraesCS7A01G288400 chr4A 90.953 619 51 5 21 637 317158473 317157858 0.000000e+00 828
30 TraesCS7A01G288400 chr4A 91.385 592 46 5 51 640 276184899 276184311 0.000000e+00 806
31 TraesCS7A01G288400 chr4A 89.399 632 51 15 17 642 313710884 313710263 0.000000e+00 782
32 TraesCS7A01G288400 chr4A 89.406 623 57 7 19 639 527819034 527818419 0.000000e+00 776
33 TraesCS7A01G288400 chr4A 92.694 438 31 1 1169 1605 324712500 324712937 4.640000e-177 630
34 TraesCS7A01G288400 chr4A 91.827 416 30 3 1182 1596 551273773 551273361 6.130000e-161 577
35 TraesCS7A01G288400 chr4A 91.156 294 26 0 1169 1462 706562479 706562772 1.430000e-107 399
36 TraesCS7A01G288400 chr4A 92.517 147 9 2 1023 1168 324708894 324709039 2.580000e-50 209
37 TraesCS7A01G288400 chr4A 93.007 143 9 1 1455 1596 706562962 706563104 9.270000e-50 207
38 TraesCS7A01G288400 chr4A 91.667 144 11 1 1028 1170 706560150 706560293 5.580000e-47 198
39 TraesCS7A01G288400 chr3A 90.794 630 52 6 9 637 384326737 384326113 0.000000e+00 837
40 TraesCS7A01G288400 chr3A 90.851 623 50 7 17 636 336716467 336715849 0.000000e+00 828
41 TraesCS7A01G288400 chr3A 89.839 620 51 9 22 636 296962100 296962712 0.000000e+00 785
42 TraesCS7A01G288400 chr3A 88.308 650 68 8 3 650 283028874 283029517 0.000000e+00 773
43 TraesCS7A01G288400 chr3A 88.942 624 59 6 22 642 629308778 629308162 0.000000e+00 761
44 TraesCS7A01G288400 chr2A 90.630 619 51 7 21 636 154154563 154153949 0.000000e+00 815
45 TraesCS7A01G288400 chr2A 89.241 632 61 7 19 646 287591169 287590541 0.000000e+00 784
46 TraesCS7A01G288400 chr5A 88.585 622 62 9 27 643 203954427 203955044 0.000000e+00 747
47 TraesCS7A01G288400 chr2B 88.939 443 39 6 1030 1467 20033826 20034263 2.890000e-149 538
48 TraesCS7A01G288400 chrUn 96.029 277 10 1 2282 2557 465096965 465096689 1.400000e-122 449
49 TraesCS7A01G288400 chr1B 84.756 328 26 10 1169 1495 666992884 666993188 8.890000e-80 307
50 TraesCS7A01G288400 chr1B 93.103 145 10 0 1028 1172 23819108 23818964 1.990000e-51 213
51 TraesCS7A01G288400 chr1B 91.447 152 12 1 1022 1172 666990542 666990693 9.270000e-50 207
52 TraesCS7A01G288400 chr5D 93.960 149 8 1 1025 1172 498379781 498379633 9.210000e-55 224
53 TraesCS7A01G288400 chr5B 93.056 144 10 0 1028 1171 701468085 701467942 7.170000e-51 211


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 TraesCS7A01G288400 chr7A 347152027 347154583 2556 True 4723.000000 4723 100.000000 1 2557 1 chr7A.!!$R2 2556
1 TraesCS7A01G288400 chr7A 734513542 734514864 1322 False 1004.000000 1463 94.010500 671 2557 2 chr7A.!!$F4 1886
2 TraesCS7A01G288400 chr7A 347191023 347191659 636 True 948.000000 948 93.564000 1 636 1 chr7A.!!$R3 635
3 TraesCS7A01G288400 chr7A 567213961 567215823 1862 False 826.000000 830 90.282500 1 636 2 chr7A.!!$F3 635
4 TraesCS7A01G288400 chr7A 478976053 478976686 633 False 747.000000 747 87.969000 1 636 1 chr7A.!!$F2 635
5 TraesCS7A01G288400 chr6D 168684025 168685350 1325 False 1063.000000 1546 95.608000 668 2557 2 chr6D.!!$F1 1889
6 TraesCS7A01G288400 chr3D 267028836 267030159 1323 True 1045.000000 1515 95.283500 671 2557 2 chr3D.!!$R1 1886
7 TraesCS7A01G288400 chr1A 44282670 44283993 1323 False 1007.000000 1469 94.070000 671 2557 2 chr1A.!!$F1 1886
8 TraesCS7A01G288400 chr1A 44344537 44345860 1323 False 1004.500000 1458 94.106500 671 2557 2 chr1A.!!$F3 1886
9 TraesCS7A01G288400 chr1A 44295592 44297246 1654 False 508.333333 545 94.737667 671 2557 3 chr1A.!!$F2 1886
10 TraesCS7A01G288400 chr1A 387224517 387227273 2756 False 419.500000 628 92.980000 1025 1601 2 chr1A.!!$F4 576
11 TraesCS7A01G288400 chr3B 686109455 686110770 1315 False 975.500000 1430 93.280500 671 2557 2 chr3B.!!$F2 1886
12 TraesCS7A01G288400 chr7B 13031518 13032842 1324 False 963.500000 1387 93.160500 671 2557 2 chr7B.!!$F1 1886
13 TraesCS7A01G288400 chr4A 120310862 120311492 630 False 870.000000 870 91.523000 1 636 1 chr4A.!!$F2 635
14 TraesCS7A01G288400 chr4A 120214960 120215588 628 False 839.000000 839 90.709000 3 636 1 chr4A.!!$F1 633
15 TraesCS7A01G288400 chr4A 317157858 317158473 615 True 828.000000 828 90.953000 21 637 1 chr4A.!!$R3 616
16 TraesCS7A01G288400 chr4A 276184311 276184899 588 True 806.000000 806 91.385000 51 640 1 chr4A.!!$R1 589
17 TraesCS7A01G288400 chr4A 313710263 313710884 621 True 782.000000 782 89.399000 17 642 1 chr4A.!!$R2 625
18 TraesCS7A01G288400 chr4A 527818419 527819034 615 True 776.000000 776 89.406000 19 639 1 chr4A.!!$R4 620
19 TraesCS7A01G288400 chr4A 324708894 324712937 4043 False 419.500000 630 92.605500 1023 1605 2 chr4A.!!$F3 582
20 TraesCS7A01G288400 chr4A 706560150 706563104 2954 False 268.000000 399 91.943333 1028 1596 3 chr4A.!!$F4 568
21 TraesCS7A01G288400 chr3A 384326113 384326737 624 True 837.000000 837 90.794000 9 637 1 chr3A.!!$R2 628
22 TraesCS7A01G288400 chr3A 336715849 336716467 618 True 828.000000 828 90.851000 17 636 1 chr3A.!!$R1 619
23 TraesCS7A01G288400 chr3A 296962100 296962712 612 False 785.000000 785 89.839000 22 636 1 chr3A.!!$F2 614
24 TraesCS7A01G288400 chr3A 283028874 283029517 643 False 773.000000 773 88.308000 3 650 1 chr3A.!!$F1 647
25 TraesCS7A01G288400 chr3A 629308162 629308778 616 True 761.000000 761 88.942000 22 642 1 chr3A.!!$R3 620
26 TraesCS7A01G288400 chr2A 154153949 154154563 614 True 815.000000 815 90.630000 21 636 1 chr2A.!!$R1 615
27 TraesCS7A01G288400 chr2A 287590541 287591169 628 True 784.000000 784 89.241000 19 646 1 chr2A.!!$R2 627
28 TraesCS7A01G288400 chr5A 203954427 203955044 617 False 747.000000 747 88.585000 27 643 1 chr5A.!!$F1 616
29 TraesCS7A01G288400 chr1B 666990542 666993188 2646 False 257.000000 307 88.101500 1022 1495 2 chr1B.!!$F1 473

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
154 161 0.038435 TTTTCGCCCACACGATCGTA 60.038 50.0 22.26 0.0 42.54 3.43 F
659 1902 0.534652 GGCATCATGGTGAGCTCTCC 60.535 60.0 24.90 24.9 0.00 3.71 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1059 2303 0.114560 CGAGGGGGATTAGAGCCCTA 59.885 60.0 0.78 0.0 45.3 3.53 R
1764 6743 2.293519 TGTATGTTGATGGAGAGGGGGA 60.294 50.0 0.00 0.0 0.0 4.81 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
154 161 0.038435 TTTTCGCCCACACGATCGTA 60.038 50.000 22.26 0.00 42.54 3.43
356 1594 2.614057 GCAAATCTCGTTCCATTCCGAT 59.386 45.455 0.00 0.00 31.90 4.18
545 1786 6.794636 ACAAAAATGCAAAACGAAGACAAAAC 59.205 30.769 0.00 0.00 0.00 2.43
627 1870 1.961793 TATGGCAAGTTACATCCGGC 58.038 50.000 0.00 0.00 0.00 6.13
644 1887 3.487202 CGTGTTACAGCGCGGCAT 61.487 61.111 8.83 0.00 38.54 4.40
645 1888 2.399611 GTGTTACAGCGCGGCATC 59.600 61.111 8.83 0.00 0.00 3.91
646 1889 2.047750 TGTTACAGCGCGGCATCA 60.048 55.556 8.83 0.00 0.00 3.07
647 1890 1.449423 TGTTACAGCGCGGCATCAT 60.449 52.632 8.83 0.00 0.00 2.45
648 1891 1.010797 GTTACAGCGCGGCATCATG 60.011 57.895 8.83 0.00 0.00 3.07
649 1892 2.179547 TTACAGCGCGGCATCATGG 61.180 57.895 8.83 0.00 0.00 3.66
650 1893 2.867793 TTACAGCGCGGCATCATGGT 62.868 55.000 8.83 0.00 0.00 3.55
651 1894 4.246206 CAGCGCGGCATCATGGTG 62.246 66.667 8.83 0.10 0.00 4.17
652 1895 4.471908 AGCGCGGCATCATGGTGA 62.472 61.111 11.02 0.00 0.00 4.02
653 1896 3.945434 GCGCGGCATCATGGTGAG 61.945 66.667 11.02 3.68 0.00 3.51
654 1897 3.945434 CGCGGCATCATGGTGAGC 61.945 66.667 11.02 13.17 0.00 4.26
655 1898 2.515523 GCGGCATCATGGTGAGCT 60.516 61.111 11.02 0.00 0.00 4.09
656 1899 2.541120 GCGGCATCATGGTGAGCTC 61.541 63.158 11.02 6.82 0.00 4.09
657 1900 1.145598 CGGCATCATGGTGAGCTCT 59.854 57.895 16.19 0.00 0.00 4.09
658 1901 0.879400 CGGCATCATGGTGAGCTCTC 60.879 60.000 16.19 11.58 0.00 3.20
659 1902 0.534652 GGCATCATGGTGAGCTCTCC 60.535 60.000 24.90 24.90 0.00 3.71
660 1903 0.879400 GCATCATGGTGAGCTCTCCG 60.879 60.000 25.58 14.89 32.43 4.63
661 1904 0.879400 CATCATGGTGAGCTCTCCGC 60.879 60.000 25.58 7.56 39.57 5.54
714 1957 4.753107 GTGTTCTTGTTTAGATTGGGACGA 59.247 41.667 0.00 0.00 31.54 4.20
824 2068 1.066645 GTACCCGACCGGTTCAAAGAT 60.067 52.381 9.42 0.00 45.36 2.40
831 2075 4.049186 CGACCGGTTCAAAGATATTCGAT 58.951 43.478 9.42 0.00 0.00 3.59
832 2076 4.148348 CGACCGGTTCAAAGATATTCGATC 59.852 45.833 9.42 0.00 0.00 3.69
892 2136 3.648009 CTCATATCTCTTCCCGTTGCTC 58.352 50.000 0.00 0.00 0.00 4.26
928 2172 3.804036 TGTTGGTGAGAAGTTGTACCTG 58.196 45.455 0.00 0.00 34.32 4.00
943 2187 6.944290 AGTTGTACCTGGGGTTCTTAAATTAC 59.056 38.462 0.00 0.00 37.09 1.89
951 2195 4.399934 GGGGTTCTTAAATTACGGCATTCA 59.600 41.667 0.00 0.00 0.00 2.57
1058 2302 3.933861 AGTTTCAAGGGCCGATTATCT 57.066 42.857 0.00 0.00 0.00 1.98
1059 2303 4.236527 AGTTTCAAGGGCCGATTATCTT 57.763 40.909 0.00 0.00 0.00 2.40
1102 2346 3.592865 GGGATTTCTATGGACTCTCCCT 58.407 50.000 10.82 0.00 38.25 4.20
1109 2353 0.618968 ATGGACTCTCCCTCACCACC 60.619 60.000 0.00 0.00 35.03 4.61
1175 5954 2.360844 TCACGTCCAGAAAAAGTTGCA 58.639 42.857 0.00 0.00 0.00 4.08
1180 5959 2.354821 GTCCAGAAAAAGTTGCAGTCGT 59.645 45.455 0.00 0.00 0.00 4.34
1277 6056 0.758685 CTGGAGGGGAGCTTCGATCT 60.759 60.000 0.00 0.00 0.00 2.75
1287 6066 0.737715 GCTTCGATCTTGAGCACCGT 60.738 55.000 1.19 0.00 0.00 4.83
1319 6098 4.814294 GGGCATCGCTTCGGTCGT 62.814 66.667 0.00 0.00 0.00 4.34
1421 6200 0.781278 TGGGGGTTTCCTTTCCGATT 59.219 50.000 0.00 0.00 35.33 3.34
1479 6456 4.075793 TCGGGCAGGGCTACCTCT 62.076 66.667 0.00 0.00 46.95 3.69
1529 6506 4.974438 TCCCGGGGCCAACTCAGT 62.974 66.667 23.50 0.00 0.00 3.41
1558 6535 3.018193 TGGCCCGGGGAAATAGCA 61.018 61.111 25.28 0.00 0.00 3.49
1588 6566 1.047801 GGGGTCACTTGCAACCAAAT 58.952 50.000 7.57 0.00 37.28 2.32
1608 6586 6.403878 CAAATGAGGCCTGAAAGATGAATTT 58.596 36.000 12.00 0.00 34.07 1.82
1617 6595 6.183360 GCCTGAAAGATGAATTTTTACTTGCG 60.183 38.462 0.00 0.00 34.07 4.85
1654 6633 4.406648 TGAGCAACAAAGAGAACAGAGA 57.593 40.909 0.00 0.00 0.00 3.10
1764 6743 4.500545 CGCTGCTGGAGTTCTTCAGTATAT 60.501 45.833 9.50 0.00 33.81 0.86
1882 6861 4.627900 TGCATTCATTATTTTGTGCAGCTG 59.372 37.500 10.11 10.11 37.63 4.24
2096 7077 7.341805 AGTGAGATATGCAAGTTCCTTACAAT 58.658 34.615 0.00 0.00 0.00 2.71
2111 7092 9.918630 GTTCCTTACAATGACAGTTTACTACTA 57.081 33.333 0.00 0.00 34.56 1.82
2184 7165 5.814705 CCTATAGGCTTGTGAAGTTGAAGAG 59.185 44.000 5.67 0.00 0.00 2.85
2273 7261 8.901748 CACAAGTACTTAAACAAACACATATGC 58.098 33.333 8.04 0.00 0.00 3.14
2362 7682 6.877611 AACATGAAGTTCGGTTTACATCTT 57.122 33.333 0.00 0.00 34.74 2.40
2367 7687 5.860182 TGAAGTTCGGTTTACATCTTAGTCG 59.140 40.000 0.00 0.00 0.00 4.18
2397 7717 7.397476 TCAGAGGAAGAATAAAGCTACTTCTGA 59.603 37.037 0.00 0.00 38.78 3.27
2431 7751 4.529377 AGCAGATGGACATTGGTTTTTCAT 59.471 37.500 0.00 0.00 0.00 2.57
2435 7755 6.707161 CAGATGGACATTGGTTTTTCATTTGT 59.293 34.615 0.00 0.00 0.00 2.83
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
154 161 2.039480 CCATGTCCTCCATCATCGGATT 59.961 50.000 0.00 0.00 33.56 3.01
305 1543 2.657297 GGTACACCACCGGTAGACA 58.343 57.895 6.87 0.00 37.63 3.41
356 1594 4.580868 TCATGAGCGGGTGTTAAACATTA 58.419 39.130 0.00 0.00 0.00 1.90
545 1786 2.089201 GATTTCCTTACGTGGTTGGGG 58.911 52.381 0.00 0.00 0.00 4.96
598 1841 8.466798 GGATGTAACTTGCCATATTTGTAACTT 58.533 33.333 0.00 0.00 0.00 2.66
627 1870 3.420222 GATGCCGCGCTGTAACACG 62.420 63.158 5.56 0.00 0.00 4.49
643 1886 1.445095 GCGGAGAGCTCACCATGAT 59.555 57.895 26.94 0.00 44.04 2.45
644 1887 2.895680 GCGGAGAGCTCACCATGA 59.104 61.111 26.94 0.00 44.04 3.07
656 1899 2.397413 ATAATCGGGGCCAAGCGGAG 62.397 60.000 4.39 0.00 0.00 4.63
657 1900 1.990160 AATAATCGGGGCCAAGCGGA 61.990 55.000 4.39 0.00 0.00 5.54
658 1901 1.515521 GAATAATCGGGGCCAAGCGG 61.516 60.000 4.39 0.00 0.00 5.52
659 1902 0.535102 AGAATAATCGGGGCCAAGCG 60.535 55.000 4.39 0.00 0.00 4.68
660 1903 1.692411 AAGAATAATCGGGGCCAAGC 58.308 50.000 4.39 0.00 0.00 4.01
661 1904 2.623416 GGAAAGAATAATCGGGGCCAAG 59.377 50.000 4.39 0.00 0.00 3.61
662 1905 2.661718 GGAAAGAATAATCGGGGCCAA 58.338 47.619 4.39 0.00 0.00 4.52
663 1906 1.133606 GGGAAAGAATAATCGGGGCCA 60.134 52.381 4.39 0.00 0.00 5.36
664 1907 1.133606 TGGGAAAGAATAATCGGGGCC 60.134 52.381 0.00 0.00 0.00 5.80
665 1908 2.358322 TGGGAAAGAATAATCGGGGC 57.642 50.000 0.00 0.00 0.00 5.80
666 1909 3.181434 TGGATGGGAAAGAATAATCGGGG 60.181 47.826 0.00 0.00 0.00 5.73
667 1910 4.098914 TGGATGGGAAAGAATAATCGGG 57.901 45.455 0.00 0.00 0.00 5.14
668 1911 5.536161 ACAATGGATGGGAAAGAATAATCGG 59.464 40.000 0.00 0.00 0.00 4.18
669 1912 6.039717 ACACAATGGATGGGAAAGAATAATCG 59.960 38.462 0.00 0.00 35.35 3.34
824 2068 9.166173 CTCATTATTATTGCTTGGGATCGAATA 57.834 33.333 0.00 0.00 0.00 1.75
831 2075 9.866655 AATACTTCTCATTATTATTGCTTGGGA 57.133 29.630 0.00 0.00 0.00 4.37
860 2104 6.127479 GGGAAGAGATATGAGCAACGAGATAT 60.127 42.308 0.00 0.00 0.00 1.63
861 2105 5.184096 GGGAAGAGATATGAGCAACGAGATA 59.816 44.000 0.00 0.00 0.00 1.98
892 2136 1.406887 CCAACAATGAGGGGAGTACCG 60.407 57.143 0.00 0.00 41.60 4.02
928 2172 4.399934 TGAATGCCGTAATTTAAGAACCCC 59.600 41.667 0.00 0.00 0.00 4.95
943 2187 1.876156 GGATTAAGCTCCTGAATGCCG 59.124 52.381 0.00 0.00 32.18 5.69
951 2195 5.201243 GTTTTACCCATGGATTAAGCTCCT 58.799 41.667 15.22 0.00 36.20 3.69
1038 2282 3.933861 AGATAATCGGCCCTTGAAACT 57.066 42.857 0.00 0.00 0.00 2.66
1058 2302 1.482553 CGAGGGGGATTAGAGCCCTAA 60.483 57.143 0.78 0.00 45.30 2.69
1059 2303 0.114560 CGAGGGGGATTAGAGCCCTA 59.885 60.000 0.78 0.00 45.30 3.53
1089 2333 1.343075 GGTGGTGAGGGAGAGTCCATA 60.343 57.143 0.00 0.00 38.64 2.74
1094 2338 2.283966 CCGGTGGTGAGGGAGAGT 60.284 66.667 0.00 0.00 0.00 3.24
1102 2346 0.252330 TGGTAATCTCCCGGTGGTGA 60.252 55.000 0.00 0.00 38.45 4.02
1109 2353 0.469917 ACTGGCATGGTAATCTCCCG 59.530 55.000 0.00 0.00 0.00 5.14
1180 5959 2.014033 AAAGTTTTGGCCCCCTCCGA 62.014 55.000 0.00 0.00 0.00 4.55
1220 5999 1.305381 CCGTCACCCTCCTCCTTCT 60.305 63.158 0.00 0.00 0.00 2.85
1277 6056 0.970937 CTCCTCCCTACGGTGCTCAA 60.971 60.000 0.00 0.00 0.00 3.02
1287 6066 3.023045 GCCCCTGACCTCCTCCCTA 62.023 68.421 0.00 0.00 0.00 3.53
1334 6113 4.824515 CCCGTCTCCTCCGCCTCT 62.825 72.222 0.00 0.00 0.00 3.69
1354 6133 1.890894 CCGTCGACCAAGATCAGGT 59.109 57.895 10.58 9.38 43.46 4.00
1357 6136 2.180769 CGCCGTCGACCAAGATCA 59.819 61.111 10.58 0.00 38.10 2.92
1402 6181 0.781278 AATCGGAAAGGAAACCCCCA 59.219 50.000 0.00 0.00 34.66 4.96
1421 6200 2.999739 GAAACGCCACGACCCCAGAA 63.000 60.000 0.00 0.00 0.00 3.02
1479 6456 3.871006 GACATTTGGATGCATCTGTACGA 59.129 43.478 25.28 6.59 36.72 3.43
1529 6506 2.683933 GGGCCAGAGAACCTCGGA 60.684 66.667 4.39 0.00 35.36 4.55
1588 6566 6.721208 AGTAAAAATTCATCTTTCAGGCCTCA 59.279 34.615 0.00 0.00 0.00 3.86
1608 6586 4.217550 CCTCTTCAAATTCCCGCAAGTAAA 59.782 41.667 0.00 0.00 0.00 2.01
1617 6595 3.157087 TGCTCAACCTCTTCAAATTCCC 58.843 45.455 0.00 0.00 0.00 3.97
1654 6633 6.181206 AGAGAAAAGCTGACTACCTTCTTT 57.819 37.500 0.00 0.00 0.00 2.52
1764 6743 2.293519 TGTATGTTGATGGAGAGGGGGA 60.294 50.000 0.00 0.00 0.00 4.81
1835 6814 7.526608 CAACAACTGTACCATATTCATTCGTT 58.473 34.615 0.00 0.00 0.00 3.85
1882 6861 5.067805 CCAATGGAGGATTTAAACAGTAGGC 59.932 44.000 0.00 0.00 0.00 3.93
2136 7117 6.206634 GGACTGAAACATGGTGAAAACATCTA 59.793 38.462 0.00 0.00 0.00 1.98
2184 7165 4.701956 ACACCATATTGTAAGCTGTTGC 57.298 40.909 0.00 0.00 40.05 4.17
2362 7682 3.664551 TTCTTCCTCTGATCCCGACTA 57.335 47.619 0.00 0.00 0.00 2.59
2367 7687 5.303259 AGCTTTATTCTTCCTCTGATCCC 57.697 43.478 0.00 0.00 0.00 3.85
2397 7717 2.954318 GTCCATCTGCTAATGCCACAAT 59.046 45.455 0.00 0.00 38.71 2.71
2435 7755 5.129634 TGCTGTATGTTGTCTTTTCCTTGA 58.870 37.500 0.00 0.00 0.00 3.02


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

AutoCloner maintained by Alex Coulton.