Multiple sequence alignment - TraesCS4B01G290500

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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 TraesCS4B01G290500 chr4B 100.000 2201 0 0 1 2201 575607697 575609897 0.000000e+00 4065
1 TraesCS4B01G290500 chr4D 85.967 1753 113 62 1 1683 460710957 460709268 0.000000e+00 1751
2 TraesCS4B01G290500 chr4D 88.641 537 22 17 1674 2201 460709231 460708725 3.100000e-173 617
3 TraesCS4B01G290500 chr4D 96.721 61 2 0 2141 2201 460707958 460707898 3.870000e-18 102
4 TraesCS4B01G290500 chr4A 83.644 697 65 20 99 773 7598297 7598966 5.200000e-171 610
5 TraesCS4B01G290500 chr4A 80.552 905 67 45 1350 2200 7599538 7600387 1.450000e-166 595
6 TraesCS4B01G290500 chr4A 88.075 478 25 21 810 1262 7598960 7599430 2.490000e-149 538
7 TraesCS4B01G290500 chr4A 90.625 96 8 1 1 95 7597824 7597919 2.290000e-25 126


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 TraesCS4B01G290500 chr4B 575607697 575609897 2200 False 4065.000000 4065 100.000 1 2201 1 chr4B.!!$F1 2200
1 TraesCS4B01G290500 chr4D 460707898 460710957 3059 True 823.333333 1751 90.443 1 2201 3 chr4D.!!$R1 2200
2 TraesCS4B01G290500 chr4A 7597824 7600387 2563 False 467.250000 610 85.724 1 2200 4 chr4A.!!$F1 2199

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
859 1293 0.108615 CACCTCACAGTCCGTCCATC 60.109 60.0 0.0 0.0 0.0 3.51 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2152 2752 1.226323 GGACGTGATCTCCGTGACG 60.226 63.158 14.29 0.0 38.92 4.35 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
42 43 0.319405 GTACGTACCACAGGCAAGGT 59.681 55.000 15.00 1.29 41.89 3.50
51 52 3.322466 AGGCAAGGTCCCTCCACG 61.322 66.667 0.00 0.00 39.02 4.94
95 474 5.393135 CGGTCTGCTTTGATTAGTCAGTCTA 60.393 44.000 0.00 0.00 35.39 2.59
96 475 5.808030 GGTCTGCTTTGATTAGTCAGTCTAC 59.192 44.000 0.00 0.00 35.39 2.59
97 476 6.350612 GGTCTGCTTTGATTAGTCAGTCTACT 60.351 42.308 0.00 0.00 35.39 2.57
100 479 7.177568 TCTGCTTTGATTAGTCAGTCTACTCTT 59.822 37.037 0.00 0.00 35.39 2.85
130 509 3.370633 GGTAGAGAAATTCCACAGGACCC 60.371 52.174 0.00 0.00 0.00 4.46
168 547 3.982052 TCTTGTTTGTTCCCCTAACCCTA 59.018 43.478 0.00 0.00 37.27 3.53
169 548 4.416179 TCTTGTTTGTTCCCCTAACCCTAA 59.584 41.667 0.00 0.00 37.27 2.69
170 549 4.376225 TGTTTGTTCCCCTAACCCTAAG 57.624 45.455 0.00 0.00 37.27 2.18
171 550 3.087031 GTTTGTTCCCCTAACCCTAAGC 58.913 50.000 0.00 0.00 37.27 3.09
172 551 1.292085 TGTTCCCCTAACCCTAAGCC 58.708 55.000 0.00 0.00 37.27 4.35
173 552 1.203518 TGTTCCCCTAACCCTAAGCCT 60.204 52.381 0.00 0.00 37.27 4.58
174 553 2.046166 TGTTCCCCTAACCCTAAGCCTA 59.954 50.000 0.00 0.00 37.27 3.93
191 570 4.749976 AGCCTAGAAGAGATCGTTTCAAC 58.250 43.478 12.69 2.32 0.00 3.18
260 651 0.677731 ATGCCCATGTCACGGAACAG 60.678 55.000 0.00 0.00 31.50 3.16
262 653 1.298859 GCCCATGTCACGGAACAGAC 61.299 60.000 0.00 0.00 34.27 3.51
313 707 3.009301 CGACCGCTCGGAAACTATAAT 57.991 47.619 15.95 0.00 38.96 1.28
314 708 2.978489 CGACCGCTCGGAAACTATAATC 59.022 50.000 15.95 0.00 38.96 1.75
315 709 3.315418 GACCGCTCGGAAACTATAATCC 58.685 50.000 15.95 0.00 38.96 3.01
316 710 2.696707 ACCGCTCGGAAACTATAATCCA 59.303 45.455 15.95 0.00 38.96 3.41
318 712 4.124238 CCGCTCGGAAACTATAATCCAAA 58.876 43.478 1.35 0.00 37.50 3.28
322 716 5.433526 CTCGGAAACTATAATCCAAACCCA 58.566 41.667 0.00 0.00 35.34 4.51
326 731 5.299531 GGAAACTATAATCCAAACCCAGCTC 59.700 44.000 0.00 0.00 35.71 4.09
327 732 4.073293 ACTATAATCCAAACCCAGCTCG 57.927 45.455 0.00 0.00 0.00 5.03
336 741 3.443681 CCAAACCCAGCTCGTAATCAAAT 59.556 43.478 0.00 0.00 0.00 2.32
342 747 6.047231 ACCCAGCTCGTAATCAAATTAGTAC 58.953 40.000 0.00 0.00 0.00 2.73
368 773 2.340453 CTTGGCTTGCTTGCACACGT 62.340 55.000 0.00 0.00 34.04 4.49
437 842 6.561737 TCCACATATTTAACTGTTTTCGCA 57.438 33.333 0.00 0.00 0.00 5.10
448 853 5.248870 ACTGTTTTCGCATCTGAAAAACT 57.751 34.783 13.50 0.00 46.19 2.66
561 967 2.047179 GAGTCCCCCACGTCAAGC 60.047 66.667 0.00 0.00 0.00 4.01
568 974 2.029073 CCACGTCAAGCGGACTGT 59.971 61.111 9.40 6.61 44.68 3.55
577 983 1.177256 AAGCGGACTGTCACGTACCT 61.177 55.000 10.38 1.72 0.00 3.08
715 1123 4.547367 CACCGAATCGCCCTCCCC 62.547 72.222 0.00 0.00 0.00 4.81
765 1184 2.551912 CGCTCCACCAACCACCAAC 61.552 63.158 0.00 0.00 0.00 3.77
832 1266 3.393970 CAAGAGGAGCTCCCCGCA 61.394 66.667 29.54 0.00 42.61 5.69
850 1284 1.692749 ACCACCACCACCTCACAGT 60.693 57.895 0.00 0.00 0.00 3.55
852 1286 1.071471 CACCACCACCTCACAGTCC 59.929 63.158 0.00 0.00 0.00 3.85
859 1293 0.108615 CACCTCACAGTCCGTCCATC 60.109 60.000 0.00 0.00 0.00 3.51
860 1294 1.258445 ACCTCACAGTCCGTCCATCC 61.258 60.000 0.00 0.00 0.00 3.51
881 1315 0.963962 TCCGTCCATATAACCCTCGC 59.036 55.000 0.00 0.00 0.00 5.03
891 1325 1.941377 TAACCCTCGCCTTCTTGGTA 58.059 50.000 0.00 0.00 38.35 3.25
892 1326 0.323957 AACCCTCGCCTTCTTGGTAC 59.676 55.000 0.00 0.00 38.35 3.34
894 1328 1.153628 CCTCGCCTTCTTGGTACCG 60.154 63.158 7.57 0.00 38.35 4.02
911 1345 4.933064 GGCTGCTCGATCGACCGG 62.933 72.222 15.15 14.38 0.00 5.28
912 1346 4.933064 GCTGCTCGATCGACCGGG 62.933 72.222 15.15 0.00 0.00 5.73
1102 1552 3.785859 TGGAGGCCATGGAGACGC 61.786 66.667 18.40 6.31 0.00 5.19
1234 1695 1.202627 GGCAAGCAGATCGATCCTTCT 60.203 52.381 21.66 12.92 0.00 2.85
1235 1696 2.134346 GCAAGCAGATCGATCCTTCTC 58.866 52.381 21.66 8.96 0.00 2.87
1236 1697 2.753296 CAAGCAGATCGATCCTTCTCC 58.247 52.381 21.66 4.41 0.00 3.71
1283 1745 1.452108 GCTACACCATGGACAGGGC 60.452 63.158 21.47 11.80 35.25 5.19
1285 1747 1.540118 TACACCATGGACAGGGCCA 60.540 57.895 21.47 0.00 43.23 5.36
1394 1898 7.602644 TGTTCTCGTTTTGAGTAGCATTTAGAT 59.397 33.333 0.00 0.00 45.46 1.98
1398 1902 8.420374 TCGTTTTGAGTAGCATTTAGATAAGG 57.580 34.615 0.00 0.00 0.00 2.69
1421 1925 3.703001 ATGGGTAATAATCTCTGCCCG 57.297 47.619 0.00 0.00 38.93 6.13
1481 1985 3.140325 ACAGTGTTCTTATGTGGTGGG 57.860 47.619 0.00 0.00 0.00 4.61
1517 2021 5.514279 CAGTCCATGAGAAAGTTTGTTGTC 58.486 41.667 0.00 0.00 0.00 3.18
1539 2043 8.593492 TGTCATCTGTACATAAATCATACTGC 57.407 34.615 0.00 0.00 0.00 4.40
1540 2044 8.424133 TGTCATCTGTACATAAATCATACTGCT 58.576 33.333 0.00 0.00 0.00 4.24
1580 2084 5.883661 AGTTTGTGTGTTCTTGAGATGTTG 58.116 37.500 0.00 0.00 0.00 3.33
1585 2089 4.686091 GTGTGTTCTTGAGATGTTGATCGA 59.314 41.667 0.00 0.00 33.34 3.59
1586 2090 5.177511 GTGTGTTCTTGAGATGTTGATCGAA 59.822 40.000 0.00 0.00 33.34 3.71
1587 2091 5.177511 TGTGTTCTTGAGATGTTGATCGAAC 59.822 40.000 0.00 0.00 33.34 3.95
1588 2092 5.406780 GTGTTCTTGAGATGTTGATCGAACT 59.593 40.000 0.00 0.00 35.37 3.01
1589 2093 5.406477 TGTTCTTGAGATGTTGATCGAACTG 59.594 40.000 0.00 0.00 35.37 3.16
1591 2095 5.541845 TCTTGAGATGTTGATCGAACTGTT 58.458 37.500 0.00 0.00 35.37 3.16
1610 2126 7.264373 ACTGTTTTGAGTTGTAATGGAAGAG 57.736 36.000 0.00 0.00 0.00 2.85
1635 2151 3.131396 GACTTGTTGATTCGGTCAGTGT 58.869 45.455 0.00 0.00 38.29 3.55
1637 2153 2.900716 TGTTGATTCGGTCAGTGTCA 57.099 45.000 0.00 0.00 38.29 3.58
1638 2154 3.401033 TGTTGATTCGGTCAGTGTCAT 57.599 42.857 0.00 0.00 38.29 3.06
1639 2155 4.529109 TGTTGATTCGGTCAGTGTCATA 57.471 40.909 0.00 0.00 38.29 2.15
1643 2159 4.936891 TGATTCGGTCAGTGTCATATCTG 58.063 43.478 0.00 0.00 31.80 2.90
1650 2166 5.533482 GGTCAGTGTCATATCTGTGTATCC 58.467 45.833 0.00 0.00 33.89 2.59
1656 2172 5.573282 GTGTCATATCTGTGTATCCGTATGC 59.427 44.000 0.00 0.00 0.00 3.14
1667 2183 0.107897 TCCGTATGCGCAAATCAGGT 60.108 50.000 17.11 0.00 36.67 4.00
1669 2185 1.268032 CCGTATGCGCAAATCAGGTTC 60.268 52.381 17.11 0.00 36.67 3.62
1670 2186 1.268032 CGTATGCGCAAATCAGGTTCC 60.268 52.381 17.11 0.00 0.00 3.62
1672 2188 2.202479 GCGCAAATCAGGTTCCGC 60.202 61.111 0.30 0.00 34.75 5.54
1683 2199 2.293122 TCAGGTTCCGCAATTTCTGTTG 59.707 45.455 0.00 0.00 0.00 3.33
1684 2200 1.613437 AGGTTCCGCAATTTCTGTTGG 59.387 47.619 0.00 0.00 0.00 3.77
1685 2201 1.611491 GGTTCCGCAATTTCTGTTGGA 59.389 47.619 0.00 0.00 32.02 3.53
1686 2202 2.351738 GGTTCCGCAATTTCTGTTGGAG 60.352 50.000 0.00 0.00 34.47 3.86
1687 2203 2.270352 TCCGCAATTTCTGTTGGAGT 57.730 45.000 0.00 0.00 30.83 3.85
1688 2204 1.879380 TCCGCAATTTCTGTTGGAGTG 59.121 47.619 0.00 0.00 30.83 3.51
1691 2207 2.662791 CGCAATTTCTGTTGGAGTGACG 60.663 50.000 0.00 0.00 0.00 4.35
1692 2208 2.548057 GCAATTTCTGTTGGAGTGACGA 59.452 45.455 0.00 0.00 0.00 4.20
1693 2209 3.189287 GCAATTTCTGTTGGAGTGACGAT 59.811 43.478 0.00 0.00 0.00 3.73
1695 2211 3.744238 TTTCTGTTGGAGTGACGATGA 57.256 42.857 0.00 0.00 0.00 2.92
1696 2212 3.961480 TTCTGTTGGAGTGACGATGAT 57.039 42.857 0.00 0.00 0.00 2.45
1698 2214 2.825532 TCTGTTGGAGTGACGATGATGA 59.174 45.455 0.00 0.00 0.00 2.92
1716 2275 2.607499 TGAAATGCCAACAACTCCCAT 58.393 42.857 0.00 0.00 0.00 4.00
1717 2276 2.562298 TGAAATGCCAACAACTCCCATC 59.438 45.455 0.00 0.00 0.00 3.51
1718 2277 2.307496 AATGCCAACAACTCCCATCA 57.693 45.000 0.00 0.00 0.00 3.07
1723 2282 2.562298 GCCAACAACTCCCATCATCAAA 59.438 45.455 0.00 0.00 0.00 2.69
1799 2365 1.139989 TTTCTTTCTCGAGCGCACTG 58.860 50.000 11.47 0.00 0.00 3.66
1809 2375 2.094700 TCGAGCGCACTGAGAATTTAGT 60.095 45.455 11.47 0.00 0.00 2.24
1810 2376 2.028523 CGAGCGCACTGAGAATTTAGTG 59.971 50.000 11.47 11.77 45.40 2.74
1857 2424 3.070576 GGGGGAACATGCCAGCAC 61.071 66.667 0.00 0.00 0.00 4.40
1868 2435 4.785453 CCAGCACTTCCCGGCCTC 62.785 72.222 0.00 0.00 0.00 4.70
1900 2467 1.655885 GGTTTGCGGCGTTAGGTTT 59.344 52.632 9.37 0.00 0.00 3.27
2055 2643 2.964925 GCACGCTCCGTTCACACA 60.965 61.111 0.00 0.00 38.32 3.72
2100 2700 4.147449 TCACATCCGGCCAGCTCG 62.147 66.667 2.24 0.00 0.00 5.03
2152 2752 0.947180 TTGTAACAAGCTCCGACGGC 60.947 55.000 9.66 0.00 0.00 5.68
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
42 43 0.546747 ATTGGGTTCTCGTGGAGGGA 60.547 55.000 0.00 0.00 0.00 4.20
51 52 4.519350 ACCGAGAAAAAGAATTGGGTTCTC 59.481 41.667 0.00 0.00 46.39 2.87
95 474 1.717077 TCTCTACCTGACCCCAAGAGT 59.283 52.381 0.00 0.00 36.06 3.24
96 475 2.534042 TCTCTACCTGACCCCAAGAG 57.466 55.000 0.00 0.00 35.97 2.85
97 476 3.269592 TTTCTCTACCTGACCCCAAGA 57.730 47.619 0.00 0.00 0.00 3.02
100 479 2.844348 GGAATTTCTCTACCTGACCCCA 59.156 50.000 0.00 0.00 0.00 4.96
130 509 4.111375 ACAAGATAGTAACCACTCAGCG 57.889 45.455 0.00 0.00 36.14 5.18
168 547 5.172205 GTTGAAACGATCTCTTCTAGGCTT 58.828 41.667 0.00 0.00 0.00 4.35
169 548 4.382147 GGTTGAAACGATCTCTTCTAGGCT 60.382 45.833 0.00 0.00 0.00 4.58
170 549 3.866327 GGTTGAAACGATCTCTTCTAGGC 59.134 47.826 0.00 0.00 0.00 3.93
171 550 5.331876 AGGTTGAAACGATCTCTTCTAGG 57.668 43.478 0.00 0.00 0.00 3.02
172 551 5.808030 GGAAGGTTGAAACGATCTCTTCTAG 59.192 44.000 0.00 0.00 34.18 2.43
173 552 5.480772 AGGAAGGTTGAAACGATCTCTTCTA 59.519 40.000 0.00 0.00 34.18 2.10
174 553 4.284746 AGGAAGGTTGAAACGATCTCTTCT 59.715 41.667 0.00 0.00 34.18 2.85
245 628 1.148310 GTGTCTGTTCCGTGACATGG 58.852 55.000 7.44 7.44 43.75 3.66
260 651 1.410004 TCCCGTGATCCCTATGTGTC 58.590 55.000 0.00 0.00 0.00 3.67
262 653 1.694150 ACATCCCGTGATCCCTATGTG 59.306 52.381 0.00 0.00 0.00 3.21
303 696 5.007724 CGAGCTGGGTTTGGATTATAGTTTC 59.992 44.000 0.00 0.00 0.00 2.78
310 704 3.985019 TTACGAGCTGGGTTTGGATTA 57.015 42.857 0.00 0.00 0.00 1.75
313 707 1.626321 TGATTACGAGCTGGGTTTGGA 59.374 47.619 0.00 0.00 0.00 3.53
314 708 2.107950 TGATTACGAGCTGGGTTTGG 57.892 50.000 0.00 0.00 0.00 3.28
315 709 4.701956 ATTTGATTACGAGCTGGGTTTG 57.298 40.909 0.00 0.00 0.00 2.93
316 710 5.944007 ACTAATTTGATTACGAGCTGGGTTT 59.056 36.000 0.00 0.00 0.00 3.27
318 712 5.099042 ACTAATTTGATTACGAGCTGGGT 57.901 39.130 0.00 0.00 0.00 4.51
322 716 7.701445 ACGTAGTACTAATTTGATTACGAGCT 58.299 34.615 14.10 0.00 41.94 4.09
342 747 1.128692 GCAAGCAAGCCAAGTACGTAG 59.871 52.381 0.00 0.00 0.00 3.51
368 773 1.370810 GGGACCGGGTCGTTTGTAA 59.629 57.895 20.35 0.00 32.65 2.41
437 842 1.168714 GCCGCTCCAGTTTTTCAGAT 58.831 50.000 0.00 0.00 0.00 2.90
543 949 2.261671 CTTGACGTGGGGGACTCG 59.738 66.667 0.00 0.00 0.00 4.18
561 967 0.095935 CGTAGGTACGTGACAGTCCG 59.904 60.000 0.00 9.20 44.13 4.79
832 1266 1.692749 ACTGTGAGGTGGTGGTGGT 60.693 57.895 0.00 0.00 0.00 4.16
850 1284 3.136123 GACGGACGGATGGACGGA 61.136 66.667 0.00 0.00 38.39 4.69
852 1286 1.449726 TATGGACGGACGGATGGACG 61.450 60.000 0.00 0.00 40.31 4.79
859 1293 1.271656 GAGGGTTATATGGACGGACGG 59.728 57.143 0.00 0.00 0.00 4.79
860 1294 1.068748 CGAGGGTTATATGGACGGACG 60.069 57.143 0.00 0.00 0.00 4.79
881 1315 1.745489 GCAGCCGGTACCAAGAAGG 60.745 63.158 13.54 5.51 45.67 3.46
891 1325 4.194720 GTCGATCGAGCAGCCGGT 62.195 66.667 20.09 0.00 0.00 5.28
892 1326 4.933064 GGTCGATCGAGCAGCCGG 62.933 72.222 35.27 0.00 41.72 6.13
894 1328 4.933064 CCGGTCGATCGAGCAGCC 62.933 72.222 37.34 25.16 42.17 4.85
911 1345 3.611293 GCTTCTTGCTTCTTCTTCTTGCC 60.611 47.826 0.00 0.00 38.95 4.52
912 1346 3.004106 TGCTTCTTGCTTCTTCTTCTTGC 59.996 43.478 0.00 0.00 43.37 4.01
914 1348 5.068636 TGATGCTTCTTGCTTCTTCTTCTT 58.931 37.500 0.88 0.00 43.64 2.52
915 1349 4.649692 TGATGCTTCTTGCTTCTTCTTCT 58.350 39.130 0.88 0.00 43.64 2.85
934 1369 0.183492 AGCTCTCGCTCTCTCCTGAT 59.817 55.000 0.00 0.00 45.15 2.90
935 1370 0.833949 TAGCTCTCGCTCTCTCCTGA 59.166 55.000 0.00 0.00 45.15 3.86
1215 1667 2.134346 GAGAAGGATCGATCTGCTTGC 58.866 52.381 23.96 13.02 0.00 4.01
1217 1669 2.676748 AGGAGAAGGATCGATCTGCTT 58.323 47.619 23.96 18.80 40.91 3.91
1234 1695 1.743958 CTACGGCGAGAAGAAGAAGGA 59.256 52.381 16.62 0.00 0.00 3.36
1235 1696 1.202313 CCTACGGCGAGAAGAAGAAGG 60.202 57.143 16.62 1.96 0.00 3.46
1236 1697 1.473278 ACCTACGGCGAGAAGAAGAAG 59.527 52.381 16.62 0.00 0.00 2.85
1310 1772 0.803768 CAAGATCCAGGACGAGCACG 60.804 60.000 0.76 0.76 45.75 5.34
1320 1791 9.941325 ATATGAAGCTAAGTAATCAAGATCCAG 57.059 33.333 0.00 0.00 0.00 3.86
1394 1898 7.231467 GGCAGAGATTATTACCCATTTCCTTA 58.769 38.462 0.00 0.00 0.00 2.69
1398 1902 4.455877 CGGGCAGAGATTATTACCCATTTC 59.544 45.833 0.00 0.00 37.16 2.17
1451 1955 9.035607 CCACATAAGAACACTGTATGTATCTTC 57.964 37.037 0.00 0.00 42.31 2.87
1463 1967 2.814097 GCACCCACCACATAAGAACACT 60.814 50.000 0.00 0.00 0.00 3.55
1481 1985 3.558411 GACTGCCTCGCATCGCAC 61.558 66.667 0.00 0.00 38.13 5.34
1490 1994 2.777832 ACTTTCTCATGGACTGCCTC 57.222 50.000 0.00 0.00 34.31 4.70
1494 1998 5.066375 TGACAACAAACTTTCTCATGGACTG 59.934 40.000 0.00 0.00 0.00 3.51
1517 2021 8.013947 GCAAGCAGTATGATTTATGTACAGATG 58.986 37.037 0.33 0.00 46.08 2.90
1537 2041 0.476338 TTCCCAACTGGTAGCAAGCA 59.524 50.000 0.00 0.00 34.77 3.91
1538 2042 1.541588 CTTTCCCAACTGGTAGCAAGC 59.458 52.381 0.00 0.00 34.77 4.01
1539 2043 2.863809 ACTTTCCCAACTGGTAGCAAG 58.136 47.619 0.00 0.00 34.77 4.01
1540 2044 3.306472 AACTTTCCCAACTGGTAGCAA 57.694 42.857 0.00 0.00 34.77 3.91
1580 2084 6.797033 CCATTACAACTCAAAACAGTTCGATC 59.203 38.462 0.00 0.00 34.17 3.69
1585 2089 7.639113 TCTTCCATTACAACTCAAAACAGTT 57.361 32.000 0.00 0.00 37.05 3.16
1586 2090 6.238759 GCTCTTCCATTACAACTCAAAACAGT 60.239 38.462 0.00 0.00 0.00 3.55
1587 2091 6.016777 AGCTCTTCCATTACAACTCAAAACAG 60.017 38.462 0.00 0.00 0.00 3.16
1588 2092 5.827797 AGCTCTTCCATTACAACTCAAAACA 59.172 36.000 0.00 0.00 0.00 2.83
1589 2093 6.319141 AGCTCTTCCATTACAACTCAAAAC 57.681 37.500 0.00 0.00 0.00 2.43
1591 2095 6.017109 GTCAAGCTCTTCCATTACAACTCAAA 60.017 38.462 0.00 0.00 0.00 2.69
1610 2126 2.548057 TGACCGAATCAACAAGTCAAGC 59.452 45.455 0.00 0.00 34.68 4.01
1635 2151 4.674362 GCGCATACGGATACACAGATATGA 60.674 45.833 0.30 0.00 40.57 2.15
1637 2153 3.192633 TGCGCATACGGATACACAGATAT 59.807 43.478 5.66 0.00 40.57 1.63
1638 2154 2.554893 TGCGCATACGGATACACAGATA 59.445 45.455 5.66 0.00 40.57 1.98
1639 2155 1.339929 TGCGCATACGGATACACAGAT 59.660 47.619 5.66 0.00 40.57 2.90
1643 2159 2.542178 TGATTTGCGCATACGGATACAC 59.458 45.455 12.75 0.00 40.25 2.90
1650 2166 1.268032 GGAACCTGATTTGCGCATACG 60.268 52.381 12.75 0.00 44.07 3.06
1656 2172 0.171007 ATTGCGGAACCTGATTTGCG 59.829 50.000 0.00 0.00 42.62 4.85
1667 2183 2.293122 CACTCCAACAGAAATTGCGGAA 59.707 45.455 0.00 0.00 32.82 4.30
1669 2185 1.879380 TCACTCCAACAGAAATTGCGG 59.121 47.619 0.00 0.00 0.00 5.69
1670 2186 2.662791 CGTCACTCCAACAGAAATTGCG 60.663 50.000 0.00 0.00 0.00 4.85
1672 2188 4.452114 TCATCGTCACTCCAACAGAAATTG 59.548 41.667 0.00 0.00 0.00 2.32
1683 2199 2.289002 GGCATTTCATCATCGTCACTCC 59.711 50.000 0.00 0.00 0.00 3.85
1684 2200 2.938451 TGGCATTTCATCATCGTCACTC 59.062 45.455 0.00 0.00 0.00 3.51
1685 2201 2.989909 TGGCATTTCATCATCGTCACT 58.010 42.857 0.00 0.00 0.00 3.41
1686 2202 3.119884 TGTTGGCATTTCATCATCGTCAC 60.120 43.478 0.00 0.00 0.00 3.67
1687 2203 3.080319 TGTTGGCATTTCATCATCGTCA 58.920 40.909 0.00 0.00 0.00 4.35
1688 2204 3.763097 TGTTGGCATTTCATCATCGTC 57.237 42.857 0.00 0.00 0.00 4.20
1691 2207 4.427312 GGAGTTGTTGGCATTTCATCATC 58.573 43.478 0.00 0.00 0.00 2.92
1692 2208 3.196254 GGGAGTTGTTGGCATTTCATCAT 59.804 43.478 0.00 0.00 0.00 2.45
1693 2209 2.562298 GGGAGTTGTTGGCATTTCATCA 59.438 45.455 0.00 0.00 0.00 3.07
1695 2211 2.607499 TGGGAGTTGTTGGCATTTCAT 58.393 42.857 0.00 0.00 0.00 2.57
1696 2212 2.079170 TGGGAGTTGTTGGCATTTCA 57.921 45.000 0.00 0.00 0.00 2.69
1698 2214 2.607499 TGATGGGAGTTGTTGGCATTT 58.393 42.857 0.00 0.00 0.00 2.32
1716 2275 6.417635 GCACGAACAGAAAAGAAATTTGATGA 59.582 34.615 0.00 0.00 0.00 2.92
1717 2276 6.575132 GCACGAACAGAAAAGAAATTTGATG 58.425 36.000 0.00 0.00 0.00 3.07
1718 2277 5.399301 CGCACGAACAGAAAAGAAATTTGAT 59.601 36.000 0.00 0.00 0.00 2.57
1723 2282 2.032799 TGCGCACGAACAGAAAAGAAAT 59.967 40.909 5.66 0.00 0.00 2.17
1799 2365 7.481798 CGTTTTGTCTATTGCCACTAAATTCTC 59.518 37.037 0.00 0.00 0.00 2.87
1809 2375 3.410631 TCCTCGTTTTGTCTATTGCCA 57.589 42.857 0.00 0.00 0.00 4.92
1810 2376 4.000988 TCTTCCTCGTTTTGTCTATTGCC 58.999 43.478 0.00 0.00 0.00 4.52
1900 2467 2.281484 GGTTCTGCCAAGTCGCCA 60.281 61.111 0.00 0.00 37.17 5.69
1913 2480 1.588861 GCAGATTAGAGAACGCGGTTC 59.411 52.381 12.47 12.04 42.25 3.62
1967 2534 9.727859 ATTGATTTTGATTTGATTGAACCATCA 57.272 25.926 0.00 0.00 0.00 3.07
1968 2535 9.982291 CATTGATTTTGATTTGATTGAACCATC 57.018 29.630 0.00 0.00 0.00 3.51
1969 2536 9.509956 ACATTGATTTTGATTTGATTGAACCAT 57.490 25.926 0.00 0.00 0.00 3.55
2002 2585 5.577945 GCCGCACAAACTACAACTAGTATTA 59.422 40.000 0.00 0.00 32.46 0.98
2152 2752 1.226323 GGACGTGATCTCCGTGACG 60.226 63.158 14.29 0.00 38.92 4.35


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

AutoCloner maintained by Alex Coulton.