Multiple sequence alignment - TraesCS3D01G523900

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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 TraesCS3D01G523900 chr3D 100.000 3472 0 0 1 3472 604293013 604289542 0.000000e+00 6412.0
1 TraesCS3D01G523900 chr3D 80.620 387 59 15 249 629 613831888 613832264 5.670000e-73 285.0
2 TraesCS3D01G523900 chr3D 86.316 95 9 3 253 346 592545656 592545565 2.210000e-17 100.0
3 TraesCS3D01G523900 chr3A 90.769 1235 72 16 1395 2606 733923602 733922387 0.000000e+00 1611.0
4 TraesCS3D01G523900 chr3A 90.909 836 45 7 2612 3439 733919282 733918470 0.000000e+00 1094.0
5 TraesCS3D01G523900 chr3A 84.923 650 31 16 785 1398 733926037 733925419 2.310000e-166 595.0
6 TraesCS3D01G523900 chr3A 87.719 57 4 2 1371 1425 733871493 733871438 2.890000e-06 63.9
7 TraesCS3D01G523900 chrUn 89.233 1226 98 17 1411 2625 42250591 42251793 0.000000e+00 1502.0
8 TraesCS3D01G523900 chrUn 85.815 1424 112 41 1 1378 42249136 42250515 0.000000e+00 1428.0
9 TraesCS3D01G523900 chrUn 83.059 608 67 28 2861 3460 42258349 42258928 1.430000e-143 520.0
10 TraesCS3D01G523900 chrUn 86.696 451 42 9 772 1206 42243643 42244091 5.210000e-133 484.0
11 TraesCS3D01G523900 chrUn 84.074 270 18 7 2612 2856 42257286 42257555 1.610000e-58 237.0
12 TraesCS3D01G523900 chrUn 84.038 213 22 4 1620 1832 42263320 42263520 9.830000e-46 195.0
13 TraesCS3D01G523900 chrUn 81.457 151 21 4 787 936 42216393 42216537 2.190000e-22 117.0
14 TraesCS3D01G523900 chr5B 86.029 408 40 13 780 1175 710737833 710738235 4.140000e-114 422.0
15 TraesCS3D01G523900 chr7D 81.098 164 20 9 498 656 46958312 46958469 1.690000e-23 121.0
16 TraesCS3D01G523900 chr6A 79.545 132 23 4 251 379 585495949 585495819 1.330000e-14 91.6
17 TraesCS3D01G523900 chr6A 87.324 71 5 3 592 658 3302025 3301955 1.030000e-10 78.7
18 TraesCS3D01G523900 chr5A 79.675 123 19 5 283 402 675692356 675692237 2.220000e-12 84.2
19 TraesCS3D01G523900 chr7A 89.655 58 5 1 42 98 406067352 406067409 4.810000e-09 73.1
20 TraesCS3D01G523900 chr7A 89.655 58 5 1 42 98 406090056 406090113 4.810000e-09 73.1
21 TraesCS3D01G523900 chr4B 78.899 109 17 6 516 624 522295507 522295405 6.220000e-08 69.4
22 TraesCS3D01G523900 chr6D 83.562 73 9 2 577 649 4115666 4115735 8.040000e-07 65.8
23 TraesCS3D01G523900 chr1A 82.667 75 12 1 251 325 469651360 469651287 8.040000e-07 65.8
24 TraesCS3D01G523900 chr7B 89.362 47 5 0 408 454 40579254 40579208 3.740000e-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 TraesCS3D01G523900 chr3D 604289542 604293013 3471 True 6412.0 6412 100.0000 1 3472 1 chr3D.!!$R2 3471
1 TraesCS3D01G523900 chr3A 733918470 733926037 7567 True 1100.0 1611 88.8670 785 3439 3 chr3A.!!$R2 2654
2 TraesCS3D01G523900 chrUn 42249136 42251793 2657 False 1465.0 1502 87.5240 1 2625 2 chrUn.!!$F4 2624
3 TraesCS3D01G523900 chrUn 42257286 42258928 1642 False 378.5 520 83.5665 2612 3460 2 chrUn.!!$F5 848

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
764 788 0.249073 CTGATAGGCCCGAACACGAG 60.249 60.0 0.0 0.0 0.00 4.18 F
1436 3394 0.244450 AAGCAATTCACCATGCACGG 59.756 50.0 0.0 0.0 44.95 4.94 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2102 4088 0.112995 AGTCATGCACCACCCATTGT 59.887 50.0 0.0 0.0 0.00 2.71 R
2762 7875 0.609957 TCACCCTCGCCTTTCGTCTA 60.610 55.0 0.0 0.0 39.67 2.59 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
124 127 6.465084 TCAAATGCATGATGGACATTTTTGA 58.535 32.000 0.00 8.66 40.94 2.69
359 365 9.691362 AATACTTTTTGAATACATGGTCAACAC 57.309 29.630 7.90 0.00 33.58 3.32
360 366 6.512297 ACTTTTTGAATACATGGTCAACACC 58.488 36.000 7.90 0.00 44.10 4.16
379 385 8.550376 TCAACACCTTGTCTATAAACGTTAAAC 58.450 33.333 0.00 0.00 0.00 2.01
590 596 8.755696 TCAAATATTTGTATGGAAAGTGTTGC 57.244 30.769 23.95 0.00 39.18 4.17
705 711 3.181473 GCAGCTTAATTGAATGGGATGCA 60.181 43.478 9.42 0.00 0.00 3.96
730 736 6.049790 CCTGTTATTAGTAGGCCTTGAGAAC 58.950 44.000 12.58 5.07 0.00 3.01
731 737 5.985911 TGTTATTAGTAGGCCTTGAGAACC 58.014 41.667 12.58 0.00 0.00 3.62
734 758 0.914902 AGTAGGCCTTGAGAACCCCC 60.915 60.000 12.58 0.00 0.00 5.40
737 761 3.647771 GCCTTGAGAACCCCCGGT 61.648 66.667 0.00 0.00 37.65 5.28
739 763 2.221299 CCTTGAGAACCCCCGGTCA 61.221 63.158 0.00 0.00 33.12 4.02
761 785 0.530870 GAGCTGATAGGCCCGAACAC 60.531 60.000 0.00 0.00 0.00 3.32
762 786 1.883084 GCTGATAGGCCCGAACACG 60.883 63.158 0.00 0.00 0.00 4.49
763 787 1.813859 CTGATAGGCCCGAACACGA 59.186 57.895 0.00 0.00 0.00 4.35
764 788 0.249073 CTGATAGGCCCGAACACGAG 60.249 60.000 0.00 0.00 0.00 4.18
765 789 1.067582 GATAGGCCCGAACACGAGG 59.932 63.158 0.00 0.00 0.00 4.63
766 790 1.673808 GATAGGCCCGAACACGAGGT 61.674 60.000 0.00 0.00 0.00 3.85
767 791 1.262640 ATAGGCCCGAACACGAGGTT 61.263 55.000 0.00 0.00 44.10 3.50
768 792 2.162338 TAGGCCCGAACACGAGGTTG 62.162 60.000 0.00 0.00 40.63 3.77
769 793 3.047877 GCCCGAACACGAGGTTGG 61.048 66.667 0.00 0.00 40.63 3.77
770 794 3.047877 CCCGAACACGAGGTTGGC 61.048 66.667 0.00 0.00 40.63 4.52
771 795 3.047877 CCGAACACGAGGTTGGCC 61.048 66.667 0.00 0.00 40.63 5.36
772 796 3.411351 CGAACACGAGGTTGGCCG 61.411 66.667 0.00 0.00 40.63 6.13
773 797 2.280592 GAACACGAGGTTGGCCGT 60.281 61.111 0.00 0.00 40.63 5.68
867 891 2.613506 GCCGTCAACCAAGGAACGG 61.614 63.158 20.14 20.14 42.86 4.44
868 892 1.070105 CCGTCAACCAAGGAACGGA 59.930 57.895 19.93 0.00 42.63 4.69
869 893 1.226030 CCGTCAACCAAGGAACGGAC 61.226 60.000 19.93 9.21 42.63 4.79
870 894 1.554042 CGTCAACCAAGGAACGGACG 61.554 60.000 0.00 0.00 41.46 4.79
871 895 1.595929 TCAACCAAGGAACGGACGC 60.596 57.895 0.00 0.00 0.00 5.19
872 896 2.663852 AACCAAGGAACGGACGCG 60.664 61.111 3.53 3.53 0.00 6.01
873 897 4.675029 ACCAAGGAACGGACGCGG 62.675 66.667 12.47 0.00 0.00 6.46
907 931 5.468746 TGCAACTAGTACATTTCAACTCCAC 59.531 40.000 0.00 0.00 0.00 4.02
908 932 5.106673 GCAACTAGTACATTTCAACTCCACC 60.107 44.000 0.00 0.00 0.00 4.61
909 933 5.161943 ACTAGTACATTTCAACTCCACCC 57.838 43.478 0.00 0.00 0.00 4.61
910 934 4.844655 ACTAGTACATTTCAACTCCACCCT 59.155 41.667 0.00 0.00 0.00 4.34
911 935 4.724279 AGTACATTTCAACTCCACCCTT 57.276 40.909 0.00 0.00 0.00 3.95
912 936 5.061721 AGTACATTTCAACTCCACCCTTT 57.938 39.130 0.00 0.00 0.00 3.11
933 957 3.428532 TCCCTTTCGTCTACAACTAGCT 58.571 45.455 0.00 0.00 0.00 3.32
941 965 3.489398 CGTCTACAACTAGCTAGCCAAGG 60.489 52.174 20.91 8.70 0.00 3.61
967 991 0.391793 CCCCTGTTTCGCCTTCTCTC 60.392 60.000 0.00 0.00 0.00 3.20
1273 1339 2.399916 AATCAACCTCTGCTCTGCTC 57.600 50.000 0.00 0.00 0.00 4.26
1276 1342 2.744760 TCAACCTCTGCTCTGCTCTAT 58.255 47.619 0.00 0.00 0.00 1.98
1300 1366 0.386352 CTGCTTGTGTTGTCCATGCG 60.386 55.000 0.00 0.00 36.18 4.73
1319 1386 4.076394 TGCGTCCCAGCTTAACTTTATTT 58.924 39.130 0.00 0.00 38.13 1.40
1341 1408 6.510746 TTATACGCTTCGATTCAATGTCAG 57.489 37.500 0.00 0.00 0.00 3.51
1425 3383 5.762045 TCAGTTAAGTTGAGCAAGCAATTC 58.238 37.500 0.00 0.00 0.00 2.17
1436 3394 0.244450 AAGCAATTCACCATGCACGG 59.756 50.000 0.00 0.00 44.95 4.94
1444 3402 2.080693 TCACCATGCACGGTCAAATAC 58.919 47.619 0.00 0.00 37.07 1.89
1445 3403 1.083489 ACCATGCACGGTCAAATACG 58.917 50.000 0.00 0.00 32.11 3.06
1461 3419 8.609176 GGTCAAATACGAGTAATTGCTAATTGA 58.391 33.333 0.00 1.26 32.38 2.57
1532 3500 6.867662 ATTATCCAGCTCCACTATTTTTCG 57.132 37.500 0.00 0.00 0.00 3.46
1541 3509 6.038714 AGCTCCACTATTTTTCGAATCATTCC 59.961 38.462 0.00 0.00 0.00 3.01
1555 3523 9.537192 TTCGAATCATTCCGTAGTTATGTAATT 57.463 29.630 0.00 0.00 0.00 1.40
1577 3552 4.398549 TTTTCAATAGTCTTTCACCGCG 57.601 40.909 0.00 0.00 0.00 6.46
1578 3553 2.004583 TCAATAGTCTTTCACCGCGG 57.995 50.000 26.86 26.86 0.00 6.46
1670 3645 3.300765 ACGTTCGAGGACCCGCTT 61.301 61.111 0.00 0.00 0.00 4.68
1722 3701 5.186996 TGTTGTTGCCTGAATTTCTTCTC 57.813 39.130 0.00 0.00 32.29 2.87
1744 3723 5.751586 TCCATATGATCCATCATCCATGTG 58.248 41.667 3.65 0.00 43.72 3.21
1763 3742 6.183360 CCATGTGCCTTCTTTAATCGAATTCT 60.183 38.462 3.52 0.00 0.00 2.40
1811 3790 4.269603 CAGATCAAATCAGCCTTCTACACG 59.730 45.833 0.00 0.00 0.00 4.49
1854 3837 6.684686 CACCTTCATATGCTTTATTCATGGG 58.315 40.000 0.00 0.00 0.00 4.00
1856 3839 6.266103 ACCTTCATATGCTTTATTCATGGGTG 59.734 38.462 0.00 0.00 0.00 4.61
1919 3902 2.607187 ACTAATCCAAAGACTCGTGCG 58.393 47.619 0.00 0.00 0.00 5.34
1921 3904 1.429463 AATCCAAAGACTCGTGCGTC 58.571 50.000 0.00 0.00 0.00 5.19
1972 3955 6.021939 CGTAGAGTACACGATAAAGGAAAACG 60.022 42.308 0.00 0.00 41.91 3.60
2019 4005 6.375455 AGGTAATCAACTCATTTGGACATCAC 59.625 38.462 0.00 0.00 35.69 3.06
2031 4017 2.019984 GGACATCACCCTTCTGCATTC 58.980 52.381 0.00 0.00 0.00 2.67
2102 4088 8.874744 TTACAAACGTGATCGGAATATCAATA 57.125 30.769 0.00 0.00 37.61 1.90
2120 4106 1.832883 TACAATGGGTGGTGCATGAC 58.167 50.000 0.00 0.00 0.00 3.06
2173 4159 2.629617 CAAGGTCTTTGGCAAGGATGTT 59.370 45.455 15.44 8.98 32.95 2.71
2203 4189 0.243907 CCCTCATCACACTCGACGTT 59.756 55.000 0.00 0.00 0.00 3.99
2251 4237 2.742589 GGACTGGTAAGCTACAACAAGC 59.257 50.000 0.00 0.00 43.11 4.01
2260 4246 3.813529 GCTACAACAAGCTCGATGTTT 57.186 42.857 0.00 0.00 38.90 2.83
2456 4445 0.251121 TTCTCATGGGCTTCGGCAAA 60.251 50.000 0.00 0.00 43.96 3.68
2468 4457 3.909651 GGCAAAGACCCCACCCCA 61.910 66.667 0.00 0.00 0.00 4.96
2675 7766 2.494059 ACATTGTGTTGGTCTTCTCGG 58.506 47.619 0.00 0.00 0.00 4.63
2713 7806 3.742882 TCATGAAGCTGTGAAACTCGAAG 59.257 43.478 0.00 0.00 38.04 3.79
2762 7875 5.455326 CCAAAGACTAGCTTATAGGCACCAT 60.455 44.000 9.75 0.00 35.24 3.55
2805 7918 1.073923 GGAAGGTCAAGGGAAGCAGAA 59.926 52.381 0.00 0.00 0.00 3.02
2858 7971 2.705658 ACCTGGTGAAGTGAGACAATCA 59.294 45.455 0.00 0.00 34.79 2.57
2897 8800 3.296854 AGCTCGGTGGATAGACATGTAA 58.703 45.455 0.00 0.00 0.00 2.41
2902 8805 2.480759 GGTGGATAGACATGTAACGCGT 60.481 50.000 5.58 5.58 0.00 6.01
3201 9112 6.054295 CCAGGAACATTTTTCCAATTCACAA 58.946 36.000 4.48 0.00 41.00 3.33
3202 9113 6.541641 CCAGGAACATTTTTCCAATTCACAAA 59.458 34.615 4.48 0.00 41.00 2.83
3203 9114 7.408910 CAGGAACATTTTTCCAATTCACAAAC 58.591 34.615 4.48 0.00 41.00 2.93
3204 9115 7.065563 CAGGAACATTTTTCCAATTCACAAACA 59.934 33.333 4.48 0.00 41.00 2.83
3205 9116 7.774625 AGGAACATTTTTCCAATTCACAAACAT 59.225 29.630 4.48 0.00 41.00 2.71
3206 9117 8.404765 GGAACATTTTTCCAATTCACAAACATT 58.595 29.630 0.00 0.00 38.45 2.71
3207 9118 9.786105 GAACATTTTTCCAATTCACAAACATTT 57.214 25.926 0.00 0.00 0.00 2.32
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
184 187 6.200665 TGAAACATTGTAATCAAGCAACAAGC 59.799 34.615 3.46 0.00 46.19 4.01
185 188 7.697352 TGAAACATTGTAATCAAGCAACAAG 57.303 32.000 3.46 0.00 36.62 3.16
333 339 9.691362 GTGTTGACCATGTATTCAAAAAGTATT 57.309 29.630 3.85 0.00 33.58 1.89
334 340 8.303876 GGTGTTGACCATGTATTCAAAAAGTAT 58.696 33.333 3.85 0.00 42.59 2.12
335 341 7.504238 AGGTGTTGACCATGTATTCAAAAAGTA 59.496 33.333 3.85 0.00 45.98 2.24
336 342 6.323739 AGGTGTTGACCATGTATTCAAAAAGT 59.676 34.615 3.85 0.00 45.98 2.66
337 343 6.748132 AGGTGTTGACCATGTATTCAAAAAG 58.252 36.000 3.85 0.00 45.98 2.27
338 344 6.723298 AGGTGTTGACCATGTATTCAAAAA 57.277 33.333 3.85 0.00 45.98 1.94
339 345 6.511416 CAAGGTGTTGACCATGTATTCAAAA 58.489 36.000 3.85 0.00 45.98 2.44
340 346 6.083098 CAAGGTGTTGACCATGTATTCAAA 57.917 37.500 3.85 0.00 45.98 2.69
341 347 5.703978 CAAGGTGTTGACCATGTATTCAA 57.296 39.130 0.00 0.00 45.98 2.69
354 360 7.799914 GGTTTAACGTTTATAGACAAGGTGTTG 59.200 37.037 5.91 0.00 39.82 3.33
359 365 7.677454 AAGGGTTTAACGTTTATAGACAAGG 57.323 36.000 5.91 0.00 0.00 3.61
360 366 9.955208 AAAAAGGGTTTAACGTTTATAGACAAG 57.045 29.630 5.91 0.00 0.00 3.16
363 369 9.949174 TTGAAAAAGGGTTTAACGTTTATAGAC 57.051 29.630 5.91 0.00 0.00 2.59
379 385 8.606040 TTCTTAATCAAGCATTTGAAAAAGGG 57.394 30.769 10.73 0.00 45.82 3.95
419 425 8.954950 TTATCAAGCCTTTGAAAAATGTTGAA 57.045 26.923 0.00 0.00 45.82 2.69
685 691 3.385755 GGTGCATCCCATTCAATTAAGCT 59.614 43.478 0.00 0.00 0.00 3.74
686 692 3.385755 AGGTGCATCCCATTCAATTAAGC 59.614 43.478 0.00 0.00 36.75 3.09
705 711 5.278061 TCTCAAGGCCTACTAATAACAGGT 58.722 41.667 5.16 0.00 0.00 4.00
749 773 1.909781 AACCTCGTGTTCGGGCCTA 60.910 57.895 0.84 0.00 36.05 3.93
750 774 3.239253 AACCTCGTGTTCGGGCCT 61.239 61.111 0.84 0.00 36.05 5.19
867 891 2.580867 CAGTAGCAGAGCCGCGTC 60.581 66.667 4.92 0.00 36.85 5.19
868 892 4.803426 GCAGTAGCAGAGCCGCGT 62.803 66.667 4.92 0.00 41.58 6.01
891 915 4.217767 GGAAAGGGTGGAGTTGAAATGTAC 59.782 45.833 0.00 0.00 0.00 2.90
907 931 3.072211 GTTGTAGACGAAAGGGAAAGGG 58.928 50.000 0.00 0.00 0.00 3.95
908 932 4.004196 AGTTGTAGACGAAAGGGAAAGG 57.996 45.455 0.00 0.00 0.00 3.11
909 933 4.626172 GCTAGTTGTAGACGAAAGGGAAAG 59.374 45.833 0.00 0.00 0.00 2.62
910 934 4.282703 AGCTAGTTGTAGACGAAAGGGAAA 59.717 41.667 0.00 0.00 0.00 3.13
911 935 3.830755 AGCTAGTTGTAGACGAAAGGGAA 59.169 43.478 0.00 0.00 0.00 3.97
912 936 3.428532 AGCTAGTTGTAGACGAAAGGGA 58.571 45.455 0.00 0.00 0.00 4.20
941 965 1.078637 GCGAAACAGGGGAGGGTAC 60.079 63.158 0.00 0.00 0.00 3.34
1033 1064 3.749064 GAGCAGTCGCAGTCGGGA 61.749 66.667 0.00 0.00 42.27 5.14
1128 1177 4.838486 CCTGCCGTCGTCGAGAGC 62.838 72.222 2.98 9.03 39.71 4.09
1129 1178 4.838486 GCCTGCCGTCGTCGAGAG 62.838 72.222 2.98 0.00 39.71 3.20
1273 1339 3.120060 GGACAACACAAGCAGAGCAATAG 60.120 47.826 0.00 0.00 0.00 1.73
1276 1342 1.024271 GGACAACACAAGCAGAGCAA 58.976 50.000 0.00 0.00 0.00 3.91
1300 1366 7.226128 AGCGTATAAATAAAGTTAAGCTGGGAC 59.774 37.037 0.00 0.00 0.00 4.46
1319 1386 5.827666 TCTGACATTGAATCGAAGCGTATA 58.172 37.500 0.00 0.00 0.00 1.47
1334 1401 4.992688 TGAACTTTTGCGTTTCTGACATT 58.007 34.783 0.00 0.00 0.00 2.71
1341 1408 2.034591 GCAAGCTGAACTTTTGCGTTTC 60.035 45.455 0.00 0.00 37.97 2.78
1425 3383 1.202020 CGTATTTGACCGTGCATGGTG 60.202 52.381 34.99 14.78 44.01 4.17
1512 3474 4.487714 TCGAAAAATAGTGGAGCTGGAT 57.512 40.909 0.00 0.00 0.00 3.41
1521 3489 7.906160 ACTACGGAATGATTCGAAAAATAGTG 58.094 34.615 0.00 0.00 0.00 2.74
1555 3523 4.319911 CCGCGGTGAAAGACTATTGAAAAA 60.320 41.667 19.50 0.00 0.00 1.94
1655 3630 1.152383 GCATAAGCGGGTCCTCGAAC 61.152 60.000 4.18 0.00 0.00 3.95
1670 3645 0.250684 CATACCCATGGGCACGCATA 60.251 55.000 31.73 14.82 39.32 3.14
1676 3651 1.121378 CAATTGCATACCCATGGGCA 58.879 50.000 31.73 20.13 39.32 5.36
1682 3657 4.343526 ACAACAAACTCAATTGCATACCCA 59.656 37.500 0.00 0.00 33.52 4.51
1722 3701 4.338400 GCACATGGATGATGGATCATATGG 59.662 45.833 13.37 6.79 46.84 2.74
1744 3723 5.960105 CGAACAGAATTCGATTAAAGAAGGC 59.040 40.000 2.98 0.00 43.97 4.35
1811 3790 4.003648 GGTGCATATGTACCTTAGGCATC 58.996 47.826 29.57 10.13 45.69 3.91
1919 3902 1.471684 ACTCACCGAATACCTGACGAC 59.528 52.381 0.00 0.00 0.00 4.34
1921 3904 1.202268 GGACTCACCGAATACCTGACG 60.202 57.143 0.00 0.00 0.00 4.35
2001 3984 3.424703 AGGGTGATGTCCAAATGAGTTG 58.575 45.455 0.00 0.00 36.94 3.16
2019 4005 2.398498 CTACGATCGAATGCAGAAGGG 58.602 52.381 24.34 0.00 0.00 3.95
2102 4088 0.112995 AGTCATGCACCACCCATTGT 59.887 50.000 0.00 0.00 0.00 2.71
2120 4106 5.233902 GCTTGTTGTCTATCAGTATCTGCAG 59.766 44.000 7.63 7.63 0.00 4.41
2134 4120 3.627577 CCTTGTAGTGTTGCTTGTTGTCT 59.372 43.478 0.00 0.00 0.00 3.41
2203 4189 1.191489 TGACGACCTTGCCATCCTCA 61.191 55.000 0.00 0.00 0.00 3.86
2251 4237 4.527564 GTTTGGTGACAGAAAACATCGAG 58.472 43.478 7.66 0.00 44.54 4.04
2260 4246 4.935205 CGATGATTAGGTTTGGTGACAGAA 59.065 41.667 0.00 0.00 44.54 3.02
2456 4445 1.852965 CTAAATCATGGGGTGGGGTCT 59.147 52.381 0.00 0.00 0.00 3.85
2468 4457 7.807977 AACCAAATCATAGCGACTAAATCAT 57.192 32.000 0.00 0.00 0.00 2.45
2665 7756 5.241064 TGATGTAAGCTATACCGAGAAGACC 59.759 44.000 0.00 0.00 0.00 3.85
2675 7766 8.441608 CAGCTTCATGATTGATGTAAGCTATAC 58.558 37.037 12.61 0.00 44.74 1.47
2713 7806 3.380320 ACCCTTAATTCGCAATAGCAACC 59.620 43.478 0.00 0.00 42.27 3.77
2762 7875 0.609957 TCACCCTCGCCTTTCGTCTA 60.610 55.000 0.00 0.00 39.67 2.59
2805 7918 1.597742 ATGACGTGCTTGTTTGCTCT 58.402 45.000 0.00 0.00 0.00 4.09
2858 7971 4.870426 CGAGCTACACACTAAAATGGTCAT 59.130 41.667 0.00 0.00 0.00 3.06
2951 8854 4.879598 AGTGTCCTTAAACAGTTCTACCG 58.120 43.478 0.00 0.00 28.22 4.02
3168 9078 6.765512 TGGAAAAATGTTCCTGGATTTCAAAC 59.234 34.615 17.08 4.91 39.31 2.93
3267 9195 9.709495 CACAAATCTGAAAATTTTATTCCTCCA 57.291 29.630 2.75 0.00 0.00 3.86


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

AutoCloner maintained by Alex Coulton.