Multiple sequence alignment - TraesCS2D01G094800

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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 TraesCS2D01G094800 chr2D 100.000 2594 0 0 1 2594 46824955 46827548 0.000000e+00 4791
1 TraesCS2D01G094800 chr2B 84.652 2756 168 95 1 2591 74203150 74205815 0.000000e+00 2510
2 TraesCS2D01G094800 chr2A 87.621 1866 128 47 789 2594 50133141 50134963 0.000000e+00 2071
3 TraesCS2D01G094800 chr2A 85.981 535 30 22 1 518 50132439 50132945 4.920000e-147 531
4 TraesCS2D01G094800 chr2A 94.366 142 7 1 601 742 50132994 50133134 1.560000e-52 217
5 TraesCS2D01G094800 chr7D 79.087 263 33 15 1310 1558 605168645 605168899 7.430000e-36 161


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 TraesCS2D01G094800 chr2D 46824955 46827548 2593 False 4791.000000 4791 100.000000 1 2594 1 chr2D.!!$F1 2593
1 TraesCS2D01G094800 chr2B 74203150 74205815 2665 False 2510.000000 2510 84.652000 1 2591 1 chr2B.!!$F1 2590
2 TraesCS2D01G094800 chr2A 50132439 50134963 2524 False 939.666667 2071 89.322667 1 2594 3 chr2A.!!$F1 2593

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
966 1077 0.040958 CGCAACAACAGAGCCAACTC 60.041 55.0 0.0 0.0 43.82 3.01 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1831 1971 1.276421 CACACACCCAAACCAAAACCA 59.724 47.619 0.0 0.0 0.0 3.67 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
26 27 6.099341 CCATTTGATTTACCTACTTTGCACC 58.901 40.000 0.00 0.00 0.00 5.01
93 99 4.885325 AGCTTTTCGTTCCTTTTGACCTTA 59.115 37.500 0.00 0.00 0.00 2.69
103 109 7.064253 CGTTCCTTTTGACCTTATTACACTAGG 59.936 40.741 0.00 0.00 35.14 3.02
141 147 0.955905 TACCTTTTGGCGGAAAGTGC 59.044 50.000 10.87 0.00 45.59 4.40
192 198 2.104144 CGTTCACTGGCGTACGTATAC 58.896 52.381 17.90 5.84 0.00 1.47
201 223 1.831343 CGTACGTATACACCAGCACC 58.169 55.000 7.22 0.00 0.00 5.01
210 232 0.970640 ACACCAGCACCGTATGTACA 59.029 50.000 0.00 0.00 0.00 2.90
211 233 1.067142 ACACCAGCACCGTATGTACAG 60.067 52.381 0.33 0.00 0.00 2.74
219 241 2.613595 CACCGTATGTACAGCGTAGGTA 59.386 50.000 17.47 0.00 35.08 3.08
221 243 2.031682 CCGTATGTACAGCGTAGGTACC 60.032 54.545 17.47 2.73 40.24 3.34
238 260 0.756294 ACCGCATGATGGGACGATAA 59.244 50.000 11.37 0.00 31.21 1.75
239 261 1.140052 ACCGCATGATGGGACGATAAA 59.860 47.619 11.37 0.00 31.21 1.40
471 525 2.046988 TCCCTCGCTCACGTACGA 60.047 61.111 24.41 0.00 41.18 3.43
527 587 1.801309 CGGCAAAACCCCATCAACGT 61.801 55.000 0.00 0.00 33.26 3.99
528 588 1.249407 GGCAAAACCCCATCAACGTA 58.751 50.000 0.00 0.00 0.00 3.57
529 589 1.068125 GGCAAAACCCCATCAACGTAC 60.068 52.381 0.00 0.00 0.00 3.67
530 590 1.400500 GCAAAACCCCATCAACGTACG 60.400 52.381 15.01 15.01 0.00 3.67
531 591 0.876399 AAAACCCCATCAACGTACGC 59.124 50.000 16.72 0.00 0.00 4.42
532 592 0.956902 AAACCCCATCAACGTACGCC 60.957 55.000 16.72 0.00 0.00 5.68
539 599 0.174162 ATCAACGTACGCCCCAGTAC 59.826 55.000 16.72 0.00 42.48 2.73
543 603 4.860261 GTACGCCCCAGTACGCCG 62.860 72.222 0.00 0.00 37.77 6.46
554 633 1.996898 CAGTACGCCGCAGAACAATTA 59.003 47.619 0.00 0.00 0.00 1.40
572 651 6.961576 ACAATTAAAACGAAACGAGATGGAA 58.038 32.000 0.00 0.00 0.00 3.53
576 655 3.471495 AACGAAACGAGATGGAAATGC 57.529 42.857 0.00 0.00 0.00 3.56
577 656 1.393539 ACGAAACGAGATGGAAATGCG 59.606 47.619 0.00 0.00 0.00 4.73
640 733 0.732538 GTCGTTTACGTACGTGGGGG 60.733 60.000 30.25 16.44 42.01 5.40
679 772 1.137086 CGTGGATTAGTCTGGTGGAGG 59.863 57.143 0.00 0.00 0.00 4.30
731 824 1.879380 CCATGCGAGGACAAGAAAACA 59.121 47.619 0.00 0.00 0.00 2.83
732 825 2.293122 CCATGCGAGGACAAGAAAACAA 59.707 45.455 0.00 0.00 0.00 2.83
733 826 3.300009 CATGCGAGGACAAGAAAACAAC 58.700 45.455 0.00 0.00 0.00 3.32
734 827 2.360844 TGCGAGGACAAGAAAACAACA 58.639 42.857 0.00 0.00 0.00 3.33
735 828 2.750166 TGCGAGGACAAGAAAACAACAA 59.250 40.909 0.00 0.00 0.00 2.83
776 869 5.566429 GCAGAGTACATCCATCCAGTGATAG 60.566 48.000 0.00 0.00 0.00 2.08
778 871 6.436847 CAGAGTACATCCATCCAGTGATAGAT 59.563 42.308 0.00 0.00 30.62 1.98
780 873 8.173412 AGAGTACATCCATCCAGTGATAGATAA 58.827 37.037 0.00 0.00 29.64 1.75
781 874 8.727100 AGTACATCCATCCAGTGATAGATAAA 57.273 34.615 0.00 0.00 29.64 1.40
783 876 9.778741 GTACATCCATCCAGTGATAGATAAAAA 57.221 33.333 0.00 0.00 29.64 1.94
784 877 8.682936 ACATCCATCCAGTGATAGATAAAAAC 57.317 34.615 0.00 0.00 29.64 2.43
785 878 7.721399 ACATCCATCCAGTGATAGATAAAAACC 59.279 37.037 0.00 0.00 29.64 3.27
786 879 7.206789 TCCATCCAGTGATAGATAAAAACCA 57.793 36.000 0.00 0.00 0.00 3.67
787 880 7.054124 TCCATCCAGTGATAGATAAAAACCAC 58.946 38.462 0.00 0.00 0.00 4.16
788 881 6.263168 CCATCCAGTGATAGATAAAAACCACC 59.737 42.308 0.00 0.00 0.00 4.61
812 905 2.617762 GAATCTTGCTCGCTCGCG 59.382 61.111 0.00 0.00 41.35 5.87
832 925 1.153686 GTTAACTCCGTCCCTCGCC 60.154 63.158 0.00 0.00 38.35 5.54
833 926 1.304713 TTAACTCCGTCCCTCGCCT 60.305 57.895 0.00 0.00 38.35 5.52
909 1002 3.190849 CCCTGCATGTGACTCGCG 61.191 66.667 0.00 0.00 0.00 5.87
912 1005 1.291184 CCTGCATGTGACTCGCGAAA 61.291 55.000 11.33 0.00 0.00 3.46
925 1018 3.776656 CGAAACCGTCGTCCATCC 58.223 61.111 0.00 0.00 45.09 3.51
963 1074 2.721231 GCGCAACAACAGAGCCAA 59.279 55.556 0.30 0.00 0.00 4.52
965 1076 2.024918 CGCAACAACAGAGCCAACT 58.975 52.632 0.00 0.00 0.00 3.16
966 1077 0.040958 CGCAACAACAGAGCCAACTC 60.041 55.000 0.00 0.00 43.82 3.01
976 1087 0.175531 GAGCCAACTCTCCTCTCAGC 59.824 60.000 0.00 0.00 40.03 4.26
977 1088 0.252193 AGCCAACTCTCCTCTCAGCT 60.252 55.000 0.00 0.00 0.00 4.24
978 1089 0.175531 GCCAACTCTCCTCTCAGCTC 59.824 60.000 0.00 0.00 0.00 4.09
979 1090 0.455410 CCAACTCTCCTCTCAGCTCG 59.545 60.000 0.00 0.00 0.00 5.03
980 1091 0.179140 CAACTCTCCTCTCAGCTCGC 60.179 60.000 0.00 0.00 0.00 5.03
981 1092 1.653094 AACTCTCCTCTCAGCTCGCG 61.653 60.000 0.00 0.00 0.00 5.87
1373 1498 2.820037 GCCTGCTCTAACACGGCC 60.820 66.667 0.00 0.00 34.75 6.13
1380 1505 2.047655 CTAACACGGCCCGCTTCA 60.048 61.111 1.23 0.00 0.00 3.02
1421 1546 4.314440 GACCTCGGCACAGGCACA 62.314 66.667 0.00 0.00 43.71 4.57
1423 1548 4.007644 CCTCGGCACAGGCACAGA 62.008 66.667 0.00 0.00 43.71 3.41
1444 1572 2.994995 TGGCGAGGAAGGCGAAGA 60.995 61.111 0.00 0.00 39.82 2.87
1640 1776 3.774599 GATCCCCCGCGAATTGCCT 62.775 63.158 8.23 0.00 42.08 4.75
1775 1911 2.511373 CCGCGTGCATGCTAGGAA 60.511 61.111 27.33 0.00 0.00 3.36
1827 1967 6.678663 CGTTCATTTGTAGATTCTTGTTAGCG 59.321 38.462 0.00 0.00 0.00 4.26
1828 1968 7.519002 GTTCATTTGTAGATTCTTGTTAGCGT 58.481 34.615 0.00 0.00 0.00 5.07
1829 1969 7.667043 TCATTTGTAGATTCTTGTTAGCGTT 57.333 32.000 0.00 0.00 0.00 4.84
1830 1970 8.094798 TCATTTGTAGATTCTTGTTAGCGTTT 57.905 30.769 0.00 0.00 0.00 3.60
1831 1971 8.564574 TCATTTGTAGATTCTTGTTAGCGTTTT 58.435 29.630 0.00 0.00 0.00 2.43
1832 1972 8.629986 CATTTGTAGATTCTTGTTAGCGTTTTG 58.370 33.333 0.00 0.00 0.00 2.44
1846 1986 2.701107 CGTTTTGGTTTTGGTTTGGGT 58.299 42.857 0.00 0.00 0.00 4.51
1878 2018 5.205565 GCTAAGCTAAATCCGTAAATGCAC 58.794 41.667 0.00 0.00 0.00 4.57
1890 2030 4.026475 CCGTAAATGCACGAGAGAGATTTC 60.026 45.833 0.00 0.00 44.69 2.17
1897 2037 3.119459 GCACGAGAGAGATTTCCAGTACA 60.119 47.826 0.00 0.00 0.00 2.90
1903 2044 7.038659 CGAGAGAGATTTCCAGTACAATCTTT 58.961 38.462 7.40 2.97 39.41 2.52
1911 2052 3.830178 TCCAGTACAATCTTTCGGAGTGA 59.170 43.478 0.00 0.00 41.94 3.41
1934 2075 1.151668 GTTCTCATCAGCAAGCACGT 58.848 50.000 0.00 0.00 0.00 4.49
1936 2077 1.996292 TCTCATCAGCAAGCACGTAC 58.004 50.000 0.00 0.00 0.00 3.67
1937 2078 0.642291 CTCATCAGCAAGCACGTACG 59.358 55.000 15.01 15.01 0.00 3.67
2040 2197 2.866156 TCTTGTCAGAAGAACAAGTGCG 59.134 45.455 13.82 0.00 40.98 5.34
2052 2211 7.602644 AGAAGAACAAGTGCGATGTTAAATCTA 59.397 33.333 2.09 0.00 40.90 1.98
2058 2217 6.834959 AGTGCGATGTTAAATCTATGACAG 57.165 37.500 0.00 0.00 0.00 3.51
2063 2222 6.257849 GCGATGTTAAATCTATGACAGGTTCA 59.742 38.462 0.00 0.00 39.11 3.18
2065 2224 6.961359 TGTTAAATCTATGACAGGTTCACG 57.039 37.500 0.00 0.00 36.92 4.35
2072 2231 5.410924 TCTATGACAGGTTCACGAGATTTG 58.589 41.667 0.00 0.00 36.92 2.32
2241 2407 2.753043 GAGGCAGGCACACATGGG 60.753 66.667 0.00 0.00 0.00 4.00
2297 2490 5.163447 TGTCTGAGTGCAGTAAACTTGTACT 60.163 40.000 0.00 0.00 42.84 2.73
2370 2563 3.188786 CTGGGCTACGCGACAAGC 61.189 66.667 15.93 18.31 43.95 4.01
2477 2681 2.121321 CCCCTGGGGCCTATCCAT 60.121 66.667 21.20 0.00 35.35 3.41
2504 2708 2.034687 GCCAGTGCTGTGGATGGT 59.965 61.111 8.93 0.00 40.44 3.55
2555 2759 1.771746 ATGGACGGCCCTGATCCAT 60.772 57.895 3.83 16.22 46.03 3.41
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
22 23 0.179156 CTCATGTTTGGCGATGGTGC 60.179 55.000 0.00 0.00 0.00 5.01
115 121 3.706600 TCCGCCAAAAGGTAATACAGT 57.293 42.857 0.00 0.00 0.00 3.55
116 122 4.457949 ACTTTCCGCCAAAAGGTAATACAG 59.542 41.667 9.54 0.00 39.96 2.74
117 123 4.216687 CACTTTCCGCCAAAAGGTAATACA 59.783 41.667 9.54 0.00 39.96 2.29
118 124 4.729595 CACTTTCCGCCAAAAGGTAATAC 58.270 43.478 9.54 0.00 39.96 1.89
119 125 3.191791 GCACTTTCCGCCAAAAGGTAATA 59.808 43.478 9.54 0.00 39.96 0.98
120 126 2.029380 GCACTTTCCGCCAAAAGGTAAT 60.029 45.455 9.54 0.00 39.96 1.89
121 127 1.338655 GCACTTTCCGCCAAAAGGTAA 59.661 47.619 9.54 0.00 39.96 2.85
141 147 4.437390 GCAGAGAGAGAGAGAGAAAAGTCG 60.437 50.000 0.00 0.00 0.00 4.18
149 155 1.016627 CACCGCAGAGAGAGAGAGAG 58.983 60.000 0.00 0.00 0.00 3.20
153 159 2.003658 GCTCCACCGCAGAGAGAGAG 62.004 65.000 0.00 0.00 32.86 3.20
192 198 1.640428 CTGTACATACGGTGCTGGTG 58.360 55.000 0.00 0.00 32.71 4.17
201 223 2.348872 CGGTACCTACGCTGTACATACG 60.349 54.545 10.90 14.77 40.24 3.06
219 241 0.756294 TTATCGTCCCATCATGCGGT 59.244 50.000 0.00 0.00 0.00 5.68
221 243 2.483876 ACTTTATCGTCCCATCATGCG 58.516 47.619 0.00 0.00 0.00 4.73
238 260 2.025510 ACCTACTACCTCCGCTGTACTT 60.026 50.000 0.00 0.00 0.00 2.24
239 261 1.563410 ACCTACTACCTCCGCTGTACT 59.437 52.381 0.00 0.00 0.00 2.73
268 290 3.121030 CCTGCGGTGCTGTGCTAC 61.121 66.667 0.00 0.00 0.00 3.58
280 302 3.818787 GCACATTCTGCCCCTGCG 61.819 66.667 0.00 0.00 40.42 5.18
498 558 1.282875 GTTTTGCCGTGGTGCTCTC 59.717 57.895 0.00 0.00 0.00 3.20
499 559 2.193536 GGTTTTGCCGTGGTGCTCT 61.194 57.895 0.00 0.00 0.00 4.09
531 591 4.077184 TTCTGCGGCGTACTGGGG 62.077 66.667 9.37 0.00 0.00 4.96
532 592 2.813908 GTTCTGCGGCGTACTGGG 60.814 66.667 9.37 0.00 0.00 4.45
539 599 1.641878 CGTTTTAATTGTTCTGCGGCG 59.358 47.619 0.51 0.51 0.00 6.46
540 600 2.923643 TCGTTTTAATTGTTCTGCGGC 58.076 42.857 0.00 0.00 0.00 6.53
542 602 4.667061 TCGTTTCGTTTTAATTGTTCTGCG 59.333 37.500 0.00 0.00 0.00 5.18
543 603 5.905181 TCTCGTTTCGTTTTAATTGTTCTGC 59.095 36.000 0.00 0.00 0.00 4.26
544 604 7.059488 CCATCTCGTTTCGTTTTAATTGTTCTG 59.941 37.037 0.00 0.00 0.00 3.02
554 633 4.226761 GCATTTCCATCTCGTTTCGTTTT 58.773 39.130 0.00 0.00 0.00 2.43
592 671 1.299926 GCATGTAGACCGGCCTACG 60.300 63.158 21.16 10.37 41.34 3.51
593 672 0.249489 CTGCATGTAGACCGGCCTAC 60.249 60.000 20.05 20.05 39.46 3.18
594 673 2.028125 GCTGCATGTAGACCGGCCTA 62.028 60.000 15.68 0.00 0.00 3.93
595 674 2.903357 CTGCATGTAGACCGGCCT 59.097 61.111 4.57 0.00 0.00 5.19
596 675 2.897350 GCTGCATGTAGACCGGCC 60.897 66.667 15.68 0.00 0.00 6.13
597 676 3.264897 CGCTGCATGTAGACCGGC 61.265 66.667 15.68 2.95 0.00 6.13
598 677 3.264897 GCGCTGCATGTAGACCGG 61.265 66.667 15.68 0.00 0.00 5.28
599 678 2.349969 TAGGCGCTGCATGTAGACCG 62.350 60.000 15.68 10.46 0.00 4.79
655 748 0.108804 ACCAGACTAATCCACGCACG 60.109 55.000 0.00 0.00 0.00 5.34
731 824 5.006386 TGCTCCCATTTGTTTTGTTTTGTT 58.994 33.333 0.00 0.00 0.00 2.83
732 825 4.583871 TGCTCCCATTTGTTTTGTTTTGT 58.416 34.783 0.00 0.00 0.00 2.83
733 826 4.874966 TCTGCTCCCATTTGTTTTGTTTTG 59.125 37.500 0.00 0.00 0.00 2.44
734 827 5.096443 TCTGCTCCCATTTGTTTTGTTTT 57.904 34.783 0.00 0.00 0.00 2.43
735 828 4.162131 ACTCTGCTCCCATTTGTTTTGTTT 59.838 37.500 0.00 0.00 0.00 2.83
776 869 1.659622 CCGGGCCGGTGGTTTTTATC 61.660 60.000 36.52 0.00 42.73 1.75
778 871 2.282321 CCGGGCCGGTGGTTTTTA 60.282 61.111 36.52 0.00 42.73 1.52
788 881 2.897350 GAGCAAGATTCCGGGCCG 60.897 66.667 21.46 21.46 0.00 6.13
832 925 5.196341 TGCCGGGATATATATAAAGCGAG 57.804 43.478 2.18 0.00 0.00 5.03
833 926 4.500887 GCTGCCGGGATATATATAAAGCGA 60.501 45.833 2.18 0.00 0.00 4.93
871 964 0.990282 CTGGGTGGGATGAGTGGGAT 60.990 60.000 0.00 0.00 0.00 3.85
900 993 2.704193 CGACGGTTTCGCGAGTCAC 61.704 63.158 21.43 14.52 41.87 3.67
909 1002 0.245539 TCTGGATGGACGACGGTTTC 59.754 55.000 0.00 0.00 0.00 2.78
912 1005 3.285371 GTCTGGATGGACGACGGT 58.715 61.111 0.00 0.00 0.00 4.83
963 1074 2.112198 CGCGAGCTGAGAGGAGAGT 61.112 63.158 0.00 0.00 0.00 3.24
1353 1478 3.188786 CGTGTTAGAGCAGGCGCC 61.189 66.667 21.89 21.89 39.83 6.53
1356 1481 2.820037 GGCCGTGTTAGAGCAGGC 60.820 66.667 0.00 0.00 46.51 4.85
1421 1546 3.764466 CCTTCCTCGCCAGCGTCT 61.764 66.667 12.32 0.00 40.74 4.18
1612 1748 2.612493 CGGGGGATCTTGGGGTTGT 61.612 63.158 0.00 0.00 0.00 3.32
1622 1758 3.287520 GGCAATTCGCGGGGGATC 61.288 66.667 6.13 0.00 43.84 3.36
1773 1909 8.432110 ACTGTTTCTTCTTCTTCTTCTTCTTC 57.568 34.615 0.00 0.00 0.00 2.87
1774 1910 9.541143 CTACTGTTTCTTCTTCTTCTTCTTCTT 57.459 33.333 0.00 0.00 0.00 2.52
1775 1911 7.655732 GCTACTGTTTCTTCTTCTTCTTCTTCT 59.344 37.037 0.00 0.00 0.00 2.85
1827 1967 3.189495 CACACCCAAACCAAAACCAAAAC 59.811 43.478 0.00 0.00 0.00 2.43
1828 1968 3.181443 ACACACCCAAACCAAAACCAAAA 60.181 39.130 0.00 0.00 0.00 2.44
1829 1969 2.372172 ACACACCCAAACCAAAACCAAA 59.628 40.909 0.00 0.00 0.00 3.28
1830 1970 1.978580 ACACACCCAAACCAAAACCAA 59.021 42.857 0.00 0.00 0.00 3.67
1831 1971 1.276421 CACACACCCAAACCAAAACCA 59.724 47.619 0.00 0.00 0.00 3.67
1832 1972 1.276705 ACACACACCCAAACCAAAACC 59.723 47.619 0.00 0.00 0.00 3.27
1846 1986 2.823924 TTTAGCTTAGCGGACACACA 57.176 45.000 0.00 0.00 0.00 3.72
1878 2018 6.142818 AGATTGTACTGGAAATCTCTCTCG 57.857 41.667 1.35 0.00 38.47 4.04
1890 2030 4.188247 TCACTCCGAAAGATTGTACTGG 57.812 45.455 0.00 0.00 0.00 4.00
1897 2037 4.899502 AGAACACATCACTCCGAAAGATT 58.100 39.130 0.00 0.00 0.00 2.40
1903 2044 3.510388 GATGAGAACACATCACTCCGA 57.490 47.619 0.00 0.00 44.00 4.55
1911 2052 2.486982 GTGCTTGCTGATGAGAACACAT 59.513 45.455 0.00 0.00 0.00 3.21
1934 2075 2.642139 AAGAAAACGGCGATCTCGTA 57.358 45.000 16.62 0.00 40.18 3.43
1936 2077 1.724623 TCAAAGAAAACGGCGATCTCG 59.275 47.619 16.62 9.11 43.27 4.04
1937 2078 2.478894 TGTCAAAGAAAACGGCGATCTC 59.521 45.455 16.62 6.32 0.00 2.75
2020 2174 2.866156 TCGCACTTGTTCTTCTGACAAG 59.134 45.455 13.66 13.66 44.43 3.16
2031 2188 7.119116 TGTCATAGATTTAACATCGCACTTGTT 59.881 33.333 2.09 2.09 40.30 2.83
2040 2197 7.491372 TCGTGAACCTGTCATAGATTTAACATC 59.509 37.037 0.00 0.00 38.90 3.06
2052 2211 4.008074 ACAAATCTCGTGAACCTGTCAT 57.992 40.909 0.00 0.00 38.90 3.06
2072 2231 8.182227 CGATTAGGTCAAGGGAAAAGATTAAAC 58.818 37.037 0.00 0.00 0.00 2.01
2160 2323 1.531149 CACATGGGGAATTATCGCGTC 59.469 52.381 5.77 0.00 39.31 5.19
2225 2391 4.371417 CCCCATGTGTGCCTGCCT 62.371 66.667 0.00 0.00 0.00 4.75
2274 2451 5.175856 CAGTACAAGTTTACTGCACTCAGAC 59.824 44.000 10.34 0.00 41.88 3.51
2321 2514 5.165911 TCAACGTATCTCTACATCGAACC 57.834 43.478 0.00 0.00 0.00 3.62
2496 2700 2.359850 TGAGGCGCAACCATCCAC 60.360 61.111 10.83 0.00 43.14 4.02
2500 2704 3.049674 CACGTGAGGCGCAACCAT 61.050 61.111 10.90 0.00 46.11 3.55


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

AutoCloner maintained by Alex Coulton.