Multiple sequence alignment - TraesCS2B01G456100

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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 TraesCS2B01G456100 chr2B 100.000 3417 0 0 1 3417 650788626 650792042 0.000000e+00 6311.0
1 TraesCS2B01G456100 chr2B 97.500 40 0 1 2818 2856 198737406 198737445 2.200000e-07 67.6
2 TraesCS2B01G456100 chr2D 91.646 2825 131 31 1 2791 544780223 544782976 0.000000e+00 3812.0
3 TraesCS2B01G456100 chr2D 94.671 563 22 3 2858 3417 544782975 544783532 0.000000e+00 867.0
4 TraesCS2B01G456100 chr2A 91.233 2635 121 34 771 3358 688973611 688971040 0.000000e+00 3485.0
5 TraesCS2B01G456100 chr2A 85.748 428 17 14 301 727 688974008 688973624 2.450000e-111 412.0
6 TraesCS2B01G456100 chr2A 86.970 330 13 8 1 302 688974418 688974091 9.080000e-91 344.0
7 TraesCS2B01G456100 chr1D 85.294 68 10 0 2788 2855 467001275 467001208 1.700000e-08 71.3
8 TraesCS2B01G456100 chr1D 100.000 35 0 0 2817 2851 338936225 338936191 7.910000e-07 65.8
9 TraesCS2B01G456100 chr4D 100.000 36 0 0 2817 2852 60123214 60123179 2.200000e-07 67.6
10 TraesCS2B01G456100 chr3D 100.000 35 0 0 2818 2852 445808521 445808487 7.910000e-07 65.8
11 TraesCS2B01G456100 chr1A 100.000 35 0 0 2818 2852 558981503 558981469 7.910000e-07 65.8
12 TraesCS2B01G456100 chr6A 97.222 36 1 0 2817 2852 158906559 158906594 1.020000e-05 62.1
13 TraesCS2B01G456100 chr3B 97.143 35 1 0 2818 2852 739517238 739517272 3.680000e-05 60.2


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 TraesCS2B01G456100 chr2B 650788626 650792042 3416 False 6311.000000 6311 100.000000 1 3417 1 chr2B.!!$F2 3416
1 TraesCS2B01G456100 chr2D 544780223 544783532 3309 False 2339.500000 3812 93.158500 1 3417 2 chr2D.!!$F1 3416
2 TraesCS2B01G456100 chr2A 688971040 688974418 3378 True 1413.666667 3485 87.983667 1 3358 3 chr2A.!!$R1 3357

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
440 555 0.609131 ATTTGGTCGAGGCACAAGGG 60.609 55.0 0.0 0.0 0.0 3.95 F
1772 1889 0.249398 GAGGGCAGCGAAGAGGTAAA 59.751 55.0 0.0 0.0 0.0 2.01 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2084 2228 0.319297 ACTTGTACAACGCGTCCTCC 60.319 55.0 14.44 1.63 0.0 4.30 R
3069 3239 0.108992 TGGATGAGGTTCGTGTACGC 60.109 55.0 0.00 0.00 39.6 4.42 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 3.067684 ACCCAACGATTTCCTACCTTG 57.932 47.619 0.00 0.00 0.00 3.61
99 101 4.086227 GCGTCGATACTGTTTCAACTATCG 60.086 45.833 12.06 12.06 39.19 2.92
105 107 2.806244 ACTGTTTCAACTATCGTGTGGC 59.194 45.455 0.00 0.00 0.00 5.01
177 179 1.376037 CGTCAACTGCCTCCCCTTC 60.376 63.158 0.00 0.00 0.00 3.46
235 238 4.771054 ACCTTTCGGTTCAGATACAGTAGT 59.229 41.667 0.00 0.00 42.13 2.73
254 279 1.132643 GTACTCTGTGACGTGCTAGGG 59.867 57.143 0.00 0.00 0.00 3.53
296 321 5.011329 ACCTCACAGAAAAACCGATACTACA 59.989 40.000 0.00 0.00 0.00 2.74
306 419 8.868635 AAAAACCGATACTACATACTAGCTTC 57.131 34.615 0.00 0.00 0.00 3.86
397 512 8.001292 TCATCCTTTTTCCTTCTTCTTCTTCTT 58.999 33.333 0.00 0.00 0.00 2.52
398 513 8.637099 CATCCTTTTTCCTTCTTCTTCTTCTTT 58.363 33.333 0.00 0.00 0.00 2.52
399 514 8.226819 TCCTTTTTCCTTCTTCTTCTTCTTTC 57.773 34.615 0.00 0.00 0.00 2.62
440 555 0.609131 ATTTGGTCGAGGCACAAGGG 60.609 55.000 0.00 0.00 0.00 3.95
443 558 2.283529 GGTCGAGGCACAAGGGAGA 61.284 63.158 0.00 0.00 0.00 3.71
566 682 9.944376 ATGTTCTCATGTACAGTACTAAATGTT 57.056 29.630 12.07 0.00 32.51 2.71
599 715 8.548877 TCTGCCTAAGAAATTTCTGTTATAGGT 58.451 33.333 28.47 14.26 36.83 3.08
628 744 4.035102 GAGGGAGGGCCACCACAC 62.035 72.222 22.04 8.28 40.13 3.82
725 842 8.395633 ACGTTTTTCAGTTATTAGTCATATGGC 58.604 33.333 0.00 0.00 0.00 4.40
726 843 7.855904 CGTTTTTCAGTTATTAGTCATATGGCC 59.144 37.037 3.04 0.00 0.00 5.36
727 844 8.682710 GTTTTTCAGTTATTAGTCATATGGCCA 58.317 33.333 8.56 8.56 0.00 5.36
728 845 7.801716 TTTCAGTTATTAGTCATATGGCCAC 57.198 36.000 8.16 0.00 0.00 5.01
729 846 6.493189 TCAGTTATTAGTCATATGGCCACA 57.507 37.500 8.16 0.00 0.00 4.17
730 847 6.894682 TCAGTTATTAGTCATATGGCCACAA 58.105 36.000 8.16 0.00 0.00 3.33
731 848 6.765989 TCAGTTATTAGTCATATGGCCACAAC 59.234 38.462 8.16 3.77 0.00 3.32
732 849 6.542005 CAGTTATTAGTCATATGGCCACAACA 59.458 38.462 8.16 0.00 0.00 3.33
733 850 7.229306 CAGTTATTAGTCATATGGCCACAACAT 59.771 37.037 8.16 0.00 0.00 2.71
734 851 7.229306 AGTTATTAGTCATATGGCCACAACATG 59.771 37.037 8.16 9.89 0.00 3.21
749 866 2.032071 ATGCCCCCTATTACGCGC 59.968 61.111 5.73 0.00 0.00 6.86
750 867 3.876589 ATGCCCCCTATTACGCGCG 62.877 63.158 30.96 30.96 0.00 6.86
753 870 4.295119 CCCCTATTACGCGCGCCT 62.295 66.667 32.58 17.53 0.00 5.52
848 965 3.713003 TGACAGTGTCATGGAGTAGGAT 58.287 45.455 22.06 0.00 37.67 3.24
850 967 4.889995 TGACAGTGTCATGGAGTAGGATAG 59.110 45.833 22.06 0.00 37.67 2.08
932 1049 0.798776 CAGTTGAATCGTGGCCTGAC 59.201 55.000 3.32 0.00 0.00 3.51
985 1102 6.111382 TGATTTTCAGTCTCAGGTGATCATC 58.889 40.000 0.00 0.00 0.00 2.92
992 1109 6.489700 TCAGTCTCAGGTGATCATCTCTAATC 59.510 42.308 5.21 0.00 0.00 1.75
1017 1134 1.285667 AGCATGGATGAACACATGGGA 59.714 47.619 0.00 0.00 43.50 4.37
1185 1302 3.255397 AGCCACAGGGAAGCAGCT 61.255 61.111 0.00 0.00 35.59 4.24
1188 1305 1.073722 CCACAGGGAAGCAGCTTCA 59.926 57.895 31.68 0.00 41.77 3.02
1271 1388 1.664321 GGAAGCAGCAATCCAGCAGG 61.664 60.000 11.44 0.00 35.71 4.85
1475 1592 1.413767 CGGTCATCAGCGGTTTCGAG 61.414 60.000 0.00 0.00 39.95 4.04
1515 1632 3.066208 TCCAGGATAAGGAAGGCAGAT 57.934 47.619 0.00 0.00 30.71 2.90
1526 1643 1.399791 GAAGGCAGATGAAGGCGAAAG 59.600 52.381 0.00 0.00 36.55 2.62
1547 1664 1.682684 CAGGAGGTAGTCGCAGGGT 60.683 63.158 0.00 0.00 0.00 4.34
1593 1710 2.440247 GGTGCCAGGGGGAATTCG 60.440 66.667 0.00 0.00 35.59 3.34
1595 1712 2.612430 TGCCAGGGGGAATTCGGA 60.612 61.111 0.00 0.00 35.59 4.55
1666 1783 2.350863 AGGGTTCATCTCTGGGTTCT 57.649 50.000 0.00 0.00 0.00 3.01
1671 1788 0.250234 TCATCTCTGGGTTCTTGGCG 59.750 55.000 0.00 0.00 0.00 5.69
1746 1863 4.016706 AGCGGGTACTGGCGCTTT 62.017 61.111 7.64 0.00 43.64 3.51
1772 1889 0.249398 GAGGGCAGCGAAGAGGTAAA 59.751 55.000 0.00 0.00 0.00 2.01
1773 1890 0.690762 AGGGCAGCGAAGAGGTAAAA 59.309 50.000 0.00 0.00 0.00 1.52
1774 1891 1.282157 AGGGCAGCGAAGAGGTAAAAT 59.718 47.619 0.00 0.00 0.00 1.82
1775 1892 1.401905 GGGCAGCGAAGAGGTAAAATG 59.598 52.381 0.00 0.00 0.00 2.32
1776 1893 2.084546 GGCAGCGAAGAGGTAAAATGT 58.915 47.619 0.00 0.00 0.00 2.71
1778 1895 2.742053 GCAGCGAAGAGGTAAAATGTCA 59.258 45.455 0.00 0.00 0.00 3.58
1779 1896 3.424962 GCAGCGAAGAGGTAAAATGTCAC 60.425 47.826 0.00 0.00 0.00 3.67
1780 1897 3.745975 CAGCGAAGAGGTAAAATGTCACA 59.254 43.478 0.00 0.00 0.00 3.58
1795 1912 2.159099 TGTCACAACTCTGTCACTCACC 60.159 50.000 0.00 0.00 31.64 4.02
1796 1913 2.107366 TCACAACTCTGTCACTCACCA 58.893 47.619 0.00 0.00 31.64 4.17
1822 1946 5.085920 TCATGATCATCCCAAAAACTTGGT 58.914 37.500 4.86 0.00 40.46 3.67
1826 1950 4.664150 TCATCCCAAAAACTTGGTGAAC 57.336 40.909 3.35 0.00 40.46 3.18
1828 1952 4.099266 TCATCCCAAAAACTTGGTGAACTG 59.901 41.667 3.35 0.00 40.46 3.16
1831 1955 5.017490 TCCCAAAAACTTGGTGAACTGTAA 58.983 37.500 3.35 0.00 40.46 2.41
1850 1975 7.581476 ACTGTAAAAACAATGTATCTGAACCG 58.419 34.615 0.00 0.00 0.00 4.44
1859 1984 7.748847 ACAATGTATCTGAACCGTGAAATTAC 58.251 34.615 0.00 0.00 0.00 1.89
1956 2096 3.071602 ACGAGGTATGATCCCATCCAAAG 59.928 47.826 0.00 0.00 34.31 2.77
1966 2106 5.252863 TGATCCCATCCAAAGTTTCCTCTTA 59.747 40.000 0.00 0.00 0.00 2.10
1969 2109 5.074515 TCCCATCCAAAGTTTCCTCTTAGTT 59.925 40.000 0.00 0.00 0.00 2.24
2084 2228 2.613506 GGTGAACACCGGGCTTTCG 61.614 63.158 6.32 0.00 42.29 3.46
2257 2401 2.562738 AGGATTCGTGTGTGATCTGACA 59.437 45.455 0.00 0.00 0.00 3.58
2342 2486 4.103357 GTGTAAGCACTACTACCACATCG 58.897 47.826 0.00 0.00 42.13 3.84
2559 2711 4.407621 TGTCTTCCTTCAGTTCACAAGGTA 59.592 41.667 0.00 0.00 40.28 3.08
2565 2717 3.469008 TCAGTTCACAAGGTACAGTGG 57.531 47.619 11.01 0.00 37.26 4.00
2599 2751 6.200878 AGGGAACAGGAAATAAACTCTTGA 57.799 37.500 0.00 0.00 0.00 3.02
2687 2839 8.574251 TTATTTGTGATGTATATACATGCCCC 57.426 34.615 28.82 16.49 46.20 5.80
2759 2913 5.445142 CGAGCATCTGTATTTGTCAACTCAC 60.445 44.000 0.00 0.00 0.00 3.51
2769 2923 3.443099 TGTCAACTCACACAGTCAGAG 57.557 47.619 0.00 0.00 32.30 3.35
2802 2956 7.611213 AAAGACAAATACTCCATCCGTAAAG 57.389 36.000 0.00 0.00 0.00 1.85
2803 2957 6.295719 AGACAAATACTCCATCCGTAAAGT 57.704 37.500 0.00 0.00 0.00 2.66
2821 2989 9.839589 CCGTAAAGTAATATAAAAGCGTTAGTG 57.160 33.333 0.00 0.00 0.00 2.74
2900 3069 2.434702 ACCCCGGTCTGATCTTATGTTC 59.565 50.000 0.00 0.00 0.00 3.18
2942 3111 1.340568 GATAGGCACGAACCCTAGGAC 59.659 57.143 11.48 0.19 38.29 3.85
3018 3187 3.026630 ACATTATCCTATCCACGCACG 57.973 47.619 0.00 0.00 0.00 5.34
3021 3190 0.966179 TATCCTATCCACGCACGCAT 59.034 50.000 0.00 0.00 0.00 4.73
3069 3239 5.529581 AAAATGTGTAAAGTGGTTGGAGG 57.470 39.130 0.00 0.00 0.00 4.30
3077 3247 2.025418 GTGGTTGGAGGCGTACACG 61.025 63.158 0.00 0.00 43.27 4.49
3094 3264 2.099263 ACACGAACCTCATCCATACGAG 59.901 50.000 0.00 0.00 0.00 4.18
3113 3283 0.387750 GTACAGACGTTGACGGGGAC 60.388 60.000 8.52 0.68 44.95 4.46
3131 3301 3.365164 GGGACGATATCTACTTGCGAGAC 60.365 52.174 8.31 0.00 0.00 3.36
3152 3324 1.850345 ACCTTTGTGTTCCCTTCTCCA 59.150 47.619 0.00 0.00 0.00 3.86
3163 3335 6.149640 GTGTTCCCTTCTCCACTCTTTATTTC 59.850 42.308 0.00 0.00 0.00 2.17
3166 3338 5.247564 TCCCTTCTCCACTCTTTATTTCGAA 59.752 40.000 0.00 0.00 0.00 3.71
3180 3352 6.721571 TTATTTCGAAGTTCCTGTCATGTC 57.278 37.500 0.00 0.00 0.00 3.06
3224 3396 3.682377 CACACGATATATATGCGGGCAAA 59.318 43.478 13.38 0.00 30.18 3.68
3225 3397 4.332543 CACACGATATATATGCGGGCAAAT 59.667 41.667 13.38 0.00 30.18 2.32
3226 3398 4.332543 ACACGATATATATGCGGGCAAATG 59.667 41.667 13.38 7.41 30.18 2.32
3227 3399 3.876914 ACGATATATATGCGGGCAAATGG 59.123 43.478 0.00 0.00 0.00 3.16
3228 3400 3.250762 CGATATATATGCGGGCAAATGGG 59.749 47.826 0.00 0.00 0.00 4.00
3340 3512 1.100510 TTAGACAGCAGCCGACGTAT 58.899 50.000 0.00 0.00 0.00 3.06
3409 3581 9.577222 TCCTTGAAATGCAGAATAATATGATCA 57.423 29.630 0.00 0.00 0.00 2.92
3410 3582 9.841880 CCTTGAAATGCAGAATAATATGATCAG 57.158 33.333 0.09 0.00 0.00 2.90
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
59 61 4.506255 CCGGCCTTGGTCCATCCC 62.506 72.222 0.00 0.00 34.77 3.85
177 179 1.520787 CCTTTCGGGAATCGGACGG 60.521 63.158 0.00 0.00 39.77 4.79
198 200 2.299297 CGAAAGGTGTACTGGTTCTCCT 59.701 50.000 0.00 0.00 34.23 3.69
235 238 1.271762 ACCCTAGCACGTCACAGAGTA 60.272 52.381 0.00 0.00 0.00 2.59
254 279 3.805207 AGGTCAAATCGCTAATACCCAC 58.195 45.455 0.00 0.00 0.00 4.61
296 321 9.482627 CTTTTTATCCTGAATCGAAGCTAGTAT 57.517 33.333 0.00 0.00 0.00 2.12
306 419 7.268586 TCTCCTTCTCTTTTTATCCTGAATCG 58.731 38.462 0.00 0.00 0.00 3.34
397 512 7.722795 TGAAGATGTTAACAGTTCATTCGAA 57.277 32.000 23.00 0.00 31.62 3.71
398 513 7.905604 ATGAAGATGTTAACAGTTCATTCGA 57.094 32.000 27.71 13.77 38.93 3.71
399 514 8.843733 CAAATGAAGATGTTAACAGTTCATTCG 58.156 33.333 34.60 28.27 44.30 3.34
440 555 2.424956 CCTAAGGCAAGCAAACCATCTC 59.575 50.000 0.00 0.00 0.00 2.75
443 558 1.203174 ACCCTAAGGCAAGCAAACCAT 60.203 47.619 0.00 0.00 36.11 3.55
563 679 5.906113 TTTCTTAGGCAGACAAACAAACA 57.094 34.783 0.00 0.00 0.00 2.83
564 680 7.706607 AGAAATTTCTTAGGCAGACAAACAAAC 59.293 33.333 15.11 0.00 32.55 2.93
565 681 7.706179 CAGAAATTTCTTAGGCAGACAAACAAA 59.294 33.333 18.16 0.00 34.74 2.83
566 682 7.147915 ACAGAAATTTCTTAGGCAGACAAACAA 60.148 33.333 18.16 0.00 34.74 2.83
599 715 0.191064 CCTCCCTCCATGTAGGCCTA 59.809 60.000 8.91 8.91 37.29 3.93
627 743 0.470766 TTTCAGTTAGGTGTGGCCGT 59.529 50.000 0.00 0.00 43.70 5.68
628 744 0.872388 GTTTCAGTTAGGTGTGGCCG 59.128 55.000 0.00 0.00 43.70 6.13
629 745 1.975660 TGTTTCAGTTAGGTGTGGCC 58.024 50.000 0.00 0.00 37.58 5.36
630 746 2.034179 GGTTGTTTCAGTTAGGTGTGGC 59.966 50.000 0.00 0.00 0.00 5.01
631 747 3.283751 TGGTTGTTTCAGTTAGGTGTGG 58.716 45.455 0.00 0.00 0.00 4.17
632 748 4.974368 TTGGTTGTTTCAGTTAGGTGTG 57.026 40.909 0.00 0.00 0.00 3.82
633 749 6.538945 AAATTGGTTGTTTCAGTTAGGTGT 57.461 33.333 0.00 0.00 0.00 4.16
634 750 6.816140 ACAAAATTGGTTGTTTCAGTTAGGTG 59.184 34.615 0.00 0.00 38.60 4.00
725 842 2.306847 GTAATAGGGGGCATGTTGTGG 58.693 52.381 0.00 0.00 0.00 4.17
726 843 1.946768 CGTAATAGGGGGCATGTTGTG 59.053 52.381 0.00 0.00 0.00 3.33
727 844 1.749286 GCGTAATAGGGGGCATGTTGT 60.749 52.381 0.00 0.00 0.00 3.32
728 845 0.951558 GCGTAATAGGGGGCATGTTG 59.048 55.000 0.00 0.00 0.00 3.33
729 846 0.534203 CGCGTAATAGGGGGCATGTT 60.534 55.000 0.00 0.00 0.00 2.71
730 847 1.070786 CGCGTAATAGGGGGCATGT 59.929 57.895 0.00 0.00 0.00 3.21
731 848 2.325082 GCGCGTAATAGGGGGCATG 61.325 63.158 8.43 0.00 41.25 4.06
732 849 2.032071 GCGCGTAATAGGGGGCAT 59.968 61.111 8.43 0.00 41.25 4.40
733 850 4.595538 CGCGCGTAATAGGGGGCA 62.596 66.667 24.19 0.00 41.63 5.36
739 856 0.937699 TTAGCAGGCGCGCGTAATAG 60.938 55.000 32.35 15.06 45.49 1.73
749 866 0.810648 TGCCAAAGATTTAGCAGGCG 59.189 50.000 0.00 0.00 44.83 5.52
750 867 2.573941 CTGCCAAAGATTTAGCAGGC 57.426 50.000 15.25 7.43 45.16 4.85
753 870 3.861886 GCAAAGCTGCCAAAGATTTAGCA 60.862 43.478 0.00 0.00 42.56 3.49
848 965 8.547481 TCTGAACATATAGGAATGGTGAACTA 57.453 34.615 0.00 0.00 0.00 2.24
850 967 8.682936 ATTCTGAACATATAGGAATGGTGAAC 57.317 34.615 0.00 0.00 0.00 3.18
985 1102 8.288208 GTGTTCATCCATGCTAATTGATTAGAG 58.712 37.037 13.51 4.00 41.72 2.43
992 1109 5.286438 CCATGTGTTCATCCATGCTAATTG 58.714 41.667 0.00 0.00 37.67 2.32
1185 1302 0.892358 CTTCCTTGGCTGCTGCTGAA 60.892 55.000 15.64 11.50 39.59 3.02
1188 1305 2.675772 GCTTCCTTGGCTGCTGCT 60.676 61.111 15.64 0.00 39.59 4.24
1271 1388 2.818274 CGGTTTCGCTACAGGGCC 60.818 66.667 0.00 0.00 0.00 5.80
1341 1458 4.021925 ACCCTGTCCTTGAGGCGC 62.022 66.667 0.00 0.00 34.44 6.53
1494 1611 2.845659 TCTGCCTTCCTTATCCTGGAA 58.154 47.619 0.00 0.00 40.85 3.53
1498 1615 3.393941 CCTTCATCTGCCTTCCTTATCCT 59.606 47.826 0.00 0.00 0.00 3.24
1547 1664 2.363795 CGGTGTCCCTCCTAGGCA 60.364 66.667 2.96 0.00 32.73 4.75
1593 1710 0.748005 CAACCATCACCGGGTCATCC 60.748 60.000 6.32 0.00 37.77 3.51
1595 1712 1.302949 CCAACCATCACCGGGTCAT 59.697 57.895 6.32 0.00 37.77 3.06
1602 1719 3.443045 CGCTGCCCAACCATCACC 61.443 66.667 0.00 0.00 0.00 4.02
1666 1783 0.974010 CTACCCCTGTACCTCGCCAA 60.974 60.000 0.00 0.00 0.00 4.52
1671 1788 1.287146 TGGAGACTACCCCTGTACCTC 59.713 57.143 0.00 0.00 0.00 3.85
1772 1889 4.122776 GTGAGTGACAGAGTTGTGACATT 58.877 43.478 0.52 0.00 42.95 2.71
1773 1890 3.493350 GGTGAGTGACAGAGTTGTGACAT 60.493 47.826 0.52 0.00 42.95 3.06
1774 1891 2.159099 GGTGAGTGACAGAGTTGTGACA 60.159 50.000 0.52 0.00 42.95 3.58
1775 1892 2.159099 TGGTGAGTGACAGAGTTGTGAC 60.159 50.000 0.00 0.00 41.12 3.67
1776 1893 2.107366 TGGTGAGTGACAGAGTTGTGA 58.893 47.619 0.00 0.00 37.76 3.58
1778 1895 1.831106 TGTGGTGAGTGACAGAGTTGT 59.169 47.619 0.00 0.00 41.18 3.32
1779 1896 2.602257 TGTGGTGAGTGACAGAGTTG 57.398 50.000 0.00 0.00 0.00 3.16
1780 1897 2.700371 TGATGTGGTGAGTGACAGAGTT 59.300 45.455 0.00 0.00 0.00 3.01
1795 1912 6.216801 AGTTTTTGGGATGATCATGATGTG 57.783 37.500 14.30 0.00 0.00 3.21
1796 1913 6.636705 CAAGTTTTTGGGATGATCATGATGT 58.363 36.000 14.30 0.89 0.00 3.06
1822 1946 9.944663 GTTCAGATACATTGTTTTTACAGTTCA 57.055 29.630 0.00 0.00 0.00 3.18
1826 1950 7.533900 CACGGTTCAGATACATTGTTTTTACAG 59.466 37.037 0.00 0.00 0.00 2.74
1828 1952 7.577979 TCACGGTTCAGATACATTGTTTTTAC 58.422 34.615 0.00 0.00 0.00 2.01
1831 1955 6.627395 TTCACGGTTCAGATACATTGTTTT 57.373 33.333 0.00 0.00 0.00 2.43
1923 2048 1.686587 CATACCTCGTAGGACATGCCA 59.313 52.381 7.76 0.00 37.67 4.92
1956 2096 5.222631 CCAAATGTGCAACTAAGAGGAAAC 58.777 41.667 0.00 0.00 38.04 2.78
1966 2106 1.340088 TGCATCCCAAATGTGCAACT 58.660 45.000 0.00 0.00 44.99 3.16
2084 2228 0.319297 ACTTGTACAACGCGTCCTCC 60.319 55.000 14.44 1.63 0.00 4.30
2222 2366 8.194769 ACACACGAATCCTGAAAATTTAGTTTT 58.805 29.630 0.00 0.00 42.56 2.43
2257 2401 7.015098 TCCTGGAAACAAAATTACATCACATGT 59.985 33.333 0.00 0.00 43.59 3.21
2296 2440 2.606519 TTCCCCACCTCCTCACCG 60.607 66.667 0.00 0.00 0.00 4.94
2529 2681 5.586643 GTGAACTGAAGGAAGACAAGAAGTT 59.413 40.000 0.00 0.00 0.00 2.66
2559 2711 3.976015 TCCCTTTTTCTTTGTCCACTGT 58.024 40.909 0.00 0.00 0.00 3.55
2565 2717 5.592104 TTCCTGTTCCCTTTTTCTTTGTC 57.408 39.130 0.00 0.00 0.00 3.18
2599 2751 6.351286 GCAAGTGAAATTTCCCACCATCTAAT 60.351 38.462 15.48 0.00 34.00 1.73
2811 2965 6.026947 AGAGTGTTTAGATCACTAACGCTT 57.973 37.500 16.59 8.40 44.68 4.68
2852 3020 9.442033 GTTCGTAAACTAAAATAAACAGCACTT 57.558 29.630 0.00 0.00 32.36 3.16
2853 3021 8.614346 TGTTCGTAAACTAAAATAAACAGCACT 58.386 29.630 0.00 0.00 36.30 4.40
2854 3022 8.675888 GTGTTCGTAAACTAAAATAAACAGCAC 58.324 33.333 0.00 0.00 36.30 4.40
2855 3023 7.856894 GGTGTTCGTAAACTAAAATAAACAGCA 59.143 33.333 8.66 0.00 41.19 4.41
2856 3024 7.324375 GGGTGTTCGTAAACTAAAATAAACAGC 59.676 37.037 0.00 0.00 40.96 4.40
2857 3025 7.804600 GGGGTGTTCGTAAACTAAAATAAACAG 59.195 37.037 0.00 0.00 36.30 3.16
2858 3026 7.519649 CGGGGTGTTCGTAAACTAAAATAAACA 60.520 37.037 0.00 0.00 36.30 2.83
2859 3027 6.796552 CGGGGTGTTCGTAAACTAAAATAAAC 59.203 38.462 0.00 0.00 36.30 2.01
2942 3111 1.672356 CTTGCCCACCCGAGTTCAG 60.672 63.158 0.00 0.00 0.00 3.02
3014 3183 1.512734 GCAGCTTGTGTATGCGTGC 60.513 57.895 0.00 0.00 32.61 5.34
3018 3187 3.201290 ACTGATAGCAGCTTGTGTATGC 58.799 45.455 8.16 0.00 46.26 3.14
3021 3190 3.192633 TCGAACTGATAGCAGCTTGTGTA 59.807 43.478 8.16 0.00 46.26 2.90
3069 3239 0.108992 TGGATGAGGTTCGTGTACGC 60.109 55.000 0.00 0.00 39.60 4.42
3077 3247 4.579340 TCTGTACTCGTATGGATGAGGTTC 59.421 45.833 0.00 0.00 42.26 3.62
3094 3264 0.387750 GTCCCCGTCAACGTCTGTAC 60.388 60.000 1.48 0.00 37.74 2.90
3113 3283 3.251245 AGGTGTCTCGCAAGTAGATATCG 59.749 47.826 0.00 0.00 39.48 2.92
3117 3287 3.006967 ACAAAGGTGTCTCGCAAGTAGAT 59.993 43.478 0.00 0.00 29.49 1.98
3152 3324 6.522054 TGACAGGAACTTCGAAATAAAGAGT 58.478 36.000 0.00 0.00 34.60 3.24
3163 3335 3.303881 TCAGACATGACAGGAACTTCG 57.696 47.619 0.00 0.00 34.60 3.79
3180 3352 0.248417 CTGATCCAGTCGCTCGTCAG 60.248 60.000 0.00 0.00 0.00 3.51
3224 3396 3.105928 GCTCCCACCCCATCCCAT 61.106 66.667 0.00 0.00 0.00 4.00
3225 3397 4.692041 TGCTCCCACCCCATCCCA 62.692 66.667 0.00 0.00 0.00 4.37
3226 3398 3.813724 CTGCTCCCACCCCATCCC 61.814 72.222 0.00 0.00 0.00 3.85
3227 3399 2.616458 AACTGCTCCCACCCCATCC 61.616 63.158 0.00 0.00 0.00 3.51
3228 3400 1.379044 CAACTGCTCCCACCCCATC 60.379 63.158 0.00 0.00 0.00 3.51
3340 3512 1.022735 GAGACGTAGGATTCGAGGCA 58.977 55.000 0.00 0.00 0.00 4.75
3392 3564 5.936372 GTCTGCCTGATCATATTATTCTGCA 59.064 40.000 0.00 0.00 0.00 4.41


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

AutoCloner maintained by Alex Coulton.