Multiple sequence alignment - TraesCS6A01G236200

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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 TraesCS6A01G236200 chr6A 100.000 3020 0 0 1 3020 445643306 445640287 0.000000e+00 5578
1 TraesCS6A01G236200 chr6A 96.117 206 8 0 729 934 445616419 445616214 1.340000e-88 337
2 TraesCS6A01G236200 chr7A 95.645 2296 99 1 726 3020 463450406 463452701 0.000000e+00 3685
3 TraesCS6A01G236200 chr7A 96.117 206 8 0 729 934 463455225 463455430 1.340000e-88 337
4 TraesCS6A01G236200 chr5A 95.288 2292 106 2 727 3017 407085145 407087435 0.000000e+00 3633
5 TraesCS6A01G236200 chr5A 82.947 733 115 8 1 728 591644802 591644075 0.000000e+00 652
6 TraesCS6A01G236200 chr1A 96.136 1734 66 1 1184 2916 13654219 13655952 0.000000e+00 2830
7 TraesCS6A01G236200 chr1A 95.228 461 21 1 729 1188 13644990 13645450 0.000000e+00 728
8 TraesCS6A01G236200 chr1A 94.203 207 11 1 729 934 13658752 13658958 6.280000e-82 315
9 TraesCS6A01G236200 chr3B 84.281 2322 321 28 729 3020 454713566 454711259 0.000000e+00 2226
10 TraesCS6A01G236200 chr3A 84.204 2317 328 30 729 3016 21206102 21208409 0.000000e+00 2217
11 TraesCS6A01G236200 chr3A 80.978 736 128 10 1 731 510687927 510687199 9.390000e-160 573
12 TraesCS6A01G236200 chr5B 85.613 2106 275 15 931 3011 535476141 535478243 0.000000e+00 2185
13 TraesCS6A01G236200 chr2A 84.566 2190 318 14 844 3017 35809238 35811423 0.000000e+00 2154
14 TraesCS6A01G236200 chr2A 84.211 2223 333 10 810 3017 35832787 35835006 0.000000e+00 2145
15 TraesCS6A01G236200 chr2A 84.139 2194 326 13 844 3017 35827971 35830162 0.000000e+00 2104
16 TraesCS6A01G236200 chr2A 80.680 735 132 8 1 731 652570010 652569282 2.030000e-156 562
17 TraesCS6A01G236200 chr5D 91.047 592 49 4 1 590 332201836 332202425 0.000000e+00 797
18 TraesCS6A01G236200 chr6D 85.519 732 99 7 2 728 266247686 266248415 0.000000e+00 758
19 TraesCS6A01G236200 chr4B 83.836 730 109 7 4 728 69425634 69424909 0.000000e+00 686
20 TraesCS6A01G236200 chr2D 81.789 626 106 6 106 728 626505146 626504526 4.460000e-143 518
21 TraesCS6A01G236200 chr2B 90.404 198 17 1 729 926 610015293 610015488 2.990000e-65 259


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 TraesCS6A01G236200 chr6A 445640287 445643306 3019 True 5578.0 5578 100.0000 1 3020 1 chr6A.!!$R2 3019
1 TraesCS6A01G236200 chr7A 463450406 463455430 5024 False 2011.0 3685 95.8810 726 3020 2 chr7A.!!$F1 2294
2 TraesCS6A01G236200 chr5A 407085145 407087435 2290 False 3633.0 3633 95.2880 727 3017 1 chr5A.!!$F1 2290
3 TraesCS6A01G236200 chr5A 591644075 591644802 727 True 652.0 652 82.9470 1 728 1 chr5A.!!$R1 727
4 TraesCS6A01G236200 chr1A 13654219 13658958 4739 False 1572.5 2830 95.1695 729 2916 2 chr1A.!!$F2 2187
5 TraesCS6A01G236200 chr3B 454711259 454713566 2307 True 2226.0 2226 84.2810 729 3020 1 chr3B.!!$R1 2291
6 TraesCS6A01G236200 chr3A 21206102 21208409 2307 False 2217.0 2217 84.2040 729 3016 1 chr3A.!!$F1 2287
7 TraesCS6A01G236200 chr3A 510687199 510687927 728 True 573.0 573 80.9780 1 731 1 chr3A.!!$R1 730
8 TraesCS6A01G236200 chr5B 535476141 535478243 2102 False 2185.0 2185 85.6130 931 3011 1 chr5B.!!$F1 2080
9 TraesCS6A01G236200 chr2A 35809238 35811423 2185 False 2154.0 2154 84.5660 844 3017 1 chr2A.!!$F1 2173
10 TraesCS6A01G236200 chr2A 35827971 35835006 7035 False 2124.5 2145 84.1750 810 3017 2 chr2A.!!$F2 2207
11 TraesCS6A01G236200 chr2A 652569282 652570010 728 True 562.0 562 80.6800 1 731 1 chr2A.!!$R1 730
12 TraesCS6A01G236200 chr5D 332201836 332202425 589 False 797.0 797 91.0470 1 590 1 chr5D.!!$F1 589
13 TraesCS6A01G236200 chr6D 266247686 266248415 729 False 758.0 758 85.5190 2 728 1 chr6D.!!$F1 726
14 TraesCS6A01G236200 chr4B 69424909 69425634 725 True 686.0 686 83.8360 4 728 1 chr4B.!!$R1 724
15 TraesCS6A01G236200 chr2D 626504526 626505146 620 True 518.0 518 81.7890 106 728 1 chr2D.!!$R1 622

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
545 553 0.111253 ACCCAAGCTTTCCAGACCAG 59.889 55.0 0.00 0.0 0.00 4.00 F
731 739 0.258774 AGGAGGTGCTGGTTGTTGTT 59.741 50.0 0.00 0.0 0.00 2.83 F
1421 5486 0.112995 AAAGGCTCCATGTCCAGCAA 59.887 50.0 9.92 0.0 37.38 3.91 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1390 5455 1.269778 GGAGCCTTTCTTTGTGTTGGC 60.270 52.381 0.0 0.0 40.54 4.52 R
1599 5664 1.487452 GCTGATCGAACGCCGCAATA 61.487 55.000 0.0 0.0 38.37 1.90 R
2732 6808 0.529337 CCCAGTCAGTCTGCATAGCG 60.529 60.000 0.0 0.0 42.38 4.26 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
39 42 1.804748 CGGACAAAACCCTAGAACAGC 59.195 52.381 0.00 0.00 0.00 4.40
49 53 9.921637 CAAAACCCTAGAACAGCAAAATTATTA 57.078 29.630 0.00 0.00 0.00 0.98
52 56 7.716612 ACCCTAGAACAGCAAAATTATTATGC 58.283 34.615 0.00 0.00 40.34 3.14
61 65 5.840149 AGCAAAATTATTATGCCTCATGGGA 59.160 36.000 0.00 0.00 40.93 4.37
102 106 1.738099 GCACGTCGCTCCTGTGATT 60.738 57.895 0.00 0.00 37.77 2.57
147 152 0.904649 TGCGTCTGATGATGTCCCTT 59.095 50.000 0.00 0.00 0.00 3.95
148 153 1.293924 GCGTCTGATGATGTCCCTTG 58.706 55.000 0.00 0.00 0.00 3.61
152 157 3.448686 GTCTGATGATGTCCCTTGTACG 58.551 50.000 0.00 0.00 0.00 3.67
156 161 1.217244 GATGTCCCTTGTACGCGGT 59.783 57.895 12.47 0.00 0.00 5.68
184 189 3.037549 TCCTGGAAAGTGCATTGGTTTT 58.962 40.909 0.00 0.00 0.00 2.43
350 358 2.114670 CGTGCCATTGCCCGATCTT 61.115 57.895 0.00 0.00 41.12 2.40
363 371 0.787787 CGATCTTGTTCCAAACGCGA 59.212 50.000 15.93 0.00 0.00 5.87
404 412 1.789576 AACAGGTGGCCCGAGGATTT 61.790 55.000 0.00 0.00 35.12 2.17
442 450 2.104792 AGCTGGCAGAAGTAGTTGTTCA 59.895 45.455 20.86 0.00 0.00 3.18
455 463 2.034999 GTTCATCCAACCCCGCCA 59.965 61.111 0.00 0.00 0.00 5.69
477 485 3.326588 ACTGTAGCCTGTCATTACACCAA 59.673 43.478 0.00 0.00 0.00 3.67
481 489 1.202348 GCCTGTCATTACACCAAAGCC 59.798 52.381 0.00 0.00 0.00 4.35
482 490 1.468520 CCTGTCATTACACCAAAGCCG 59.531 52.381 0.00 0.00 0.00 5.52
483 491 2.422597 CTGTCATTACACCAAAGCCGA 58.577 47.619 0.00 0.00 0.00 5.54
487 495 2.238646 TCATTACACCAAAGCCGATCCT 59.761 45.455 0.00 0.00 0.00 3.24
522 530 3.273434 TGCAAAGATCTTGATCTTCCCG 58.727 45.455 21.59 15.38 39.77 5.14
542 550 1.527433 GGCACCCAAGCTTTCCAGAC 61.527 60.000 0.00 0.00 34.17 3.51
545 553 0.111253 ACCCAAGCTTTCCAGACCAG 59.889 55.000 0.00 0.00 0.00 4.00
549 557 1.610522 CAAGCTTTCCAGACCAGTTGG 59.389 52.381 0.00 0.00 42.17 3.77
626 634 1.033746 TACGTCCCCGAGCTCGAAAT 61.034 55.000 36.59 17.21 43.02 2.17
687 695 1.519234 CGCCGATTGCTGTAGCTCA 60.519 57.895 5.38 0.00 42.66 4.26
699 707 2.659063 TAGCTCACGGTGCATGGCT 61.659 57.895 16.69 16.69 0.00 4.75
729 737 1.230635 CGAGGAGGTGCTGGTTGTTG 61.231 60.000 0.00 0.00 0.00 3.33
731 739 0.258774 AGGAGGTGCTGGTTGTTGTT 59.741 50.000 0.00 0.00 0.00 2.83
734 742 2.486548 GGAGGTGCTGGTTGTTGTTAGA 60.487 50.000 0.00 0.00 0.00 2.10
735 743 2.548480 GAGGTGCTGGTTGTTGTTAGAC 59.452 50.000 0.00 0.00 0.00 2.59
736 744 2.172717 AGGTGCTGGTTGTTGTTAGACT 59.827 45.455 0.00 0.00 0.00 3.24
737 745 2.949644 GGTGCTGGTTGTTGTTAGACTT 59.050 45.455 0.00 0.00 0.00 3.01
738 746 4.131596 GGTGCTGGTTGTTGTTAGACTTA 58.868 43.478 0.00 0.00 0.00 2.24
741 749 5.177696 GTGCTGGTTGTTGTTAGACTTAGAG 59.822 44.000 0.00 0.00 0.00 2.43
742 750 5.069914 TGCTGGTTGTTGTTAGACTTAGAGA 59.930 40.000 0.00 0.00 0.00 3.10
744 752 7.039293 TGCTGGTTGTTGTTAGACTTAGAGATA 60.039 37.037 0.00 0.00 0.00 1.98
773 781 7.963532 TCCTGTTGTAATCTCAAACTAACTCT 58.036 34.615 0.00 0.00 0.00 3.24
774 782 9.085645 TCCTGTTGTAATCTCAAACTAACTCTA 57.914 33.333 0.00 0.00 0.00 2.43
775 783 9.877178 CCTGTTGTAATCTCAAACTAACTCTAT 57.123 33.333 0.00 0.00 0.00 1.98
783 791 7.648039 TCTCAAACTAACTCTATCTCTTCCC 57.352 40.000 0.00 0.00 0.00 3.97
787 795 6.349897 AACTAACTCTATCTCTTCCCCTCT 57.650 41.667 0.00 0.00 0.00 3.69
788 796 5.948842 ACTAACTCTATCTCTTCCCCTCTC 58.051 45.833 0.00 0.00 0.00 3.20
789 797 3.502123 ACTCTATCTCTTCCCCTCTCG 57.498 52.381 0.00 0.00 0.00 4.04
790 798 2.781174 ACTCTATCTCTTCCCCTCTCGT 59.219 50.000 0.00 0.00 0.00 4.18
792 800 4.041198 ACTCTATCTCTTCCCCTCTCGTAG 59.959 50.000 0.00 0.00 0.00 3.51
793 801 1.989706 ATCTCTTCCCCTCTCGTAGC 58.010 55.000 0.00 0.00 0.00 3.58
794 802 0.920438 TCTCTTCCCCTCTCGTAGCT 59.080 55.000 0.00 0.00 0.00 3.32
795 803 1.134037 TCTCTTCCCCTCTCGTAGCTC 60.134 57.143 0.00 0.00 0.00 4.09
796 804 0.920438 TCTTCCCCTCTCGTAGCTCT 59.080 55.000 0.00 0.00 0.00 4.09
797 805 1.285373 TCTTCCCCTCTCGTAGCTCTT 59.715 52.381 0.00 0.00 0.00 2.85
799 807 1.765230 TCCCCTCTCGTAGCTCTTTC 58.235 55.000 0.00 0.00 0.00 2.62
800 808 1.285373 TCCCCTCTCGTAGCTCTTTCT 59.715 52.381 0.00 0.00 0.00 2.52
801 809 2.508716 TCCCCTCTCGTAGCTCTTTCTA 59.491 50.000 0.00 0.00 0.00 2.10
802 810 3.138653 TCCCCTCTCGTAGCTCTTTCTAT 59.861 47.826 0.00 0.00 0.00 1.98
804 812 4.394729 CCCTCTCGTAGCTCTTTCTATCT 58.605 47.826 0.00 0.00 0.00 1.98
805 813 4.454504 CCCTCTCGTAGCTCTTTCTATCTC 59.545 50.000 0.00 0.00 0.00 2.75
806 814 4.454504 CCTCTCGTAGCTCTTTCTATCTCC 59.545 50.000 0.00 0.00 0.00 3.71
807 815 5.298989 TCTCGTAGCTCTTTCTATCTCCT 57.701 43.478 0.00 0.00 0.00 3.69
808 816 6.422344 TCTCGTAGCTCTTTCTATCTCCTA 57.578 41.667 0.00 0.00 0.00 2.94
810 818 6.876789 TCTCGTAGCTCTTTCTATCTCCTATG 59.123 42.308 0.00 0.00 0.00 2.23
811 819 6.535540 TCGTAGCTCTTTCTATCTCCTATGT 58.464 40.000 0.00 0.00 0.00 2.29
813 821 8.155510 TCGTAGCTCTTTCTATCTCCTATGTAA 58.844 37.037 0.00 0.00 0.00 2.41
814 822 8.231837 CGTAGCTCTTTCTATCTCCTATGTAAC 58.768 40.741 0.00 0.00 0.00 2.50
815 823 9.292195 GTAGCTCTTTCTATCTCCTATGTAACT 57.708 37.037 0.00 0.00 0.00 2.24
817 825 9.292195 AGCTCTTTCTATCTCCTATGTAACTAC 57.708 37.037 0.00 0.00 0.00 2.73
818 826 9.292195 GCTCTTTCTATCTCCTATGTAACTACT 57.708 37.037 0.00 0.00 0.00 2.57
893 4907 6.446909 TGCCCCAATCAATATATAGACACA 57.553 37.500 0.00 0.00 0.00 3.72
920 4934 1.616187 CCTCACGAGGGAGTAGGAACA 60.616 57.143 5.08 0.00 44.87 3.18
1390 5455 1.591594 AACCTACGCATCGCCATCG 60.592 57.895 0.00 0.00 0.00 3.84
1421 5486 0.112995 AAAGGCTCCATGTCCAGCAA 59.887 50.000 9.92 0.00 37.38 3.91
1510 5575 2.170607 CCGGAGATGGTGGACTATGTTT 59.829 50.000 0.00 0.00 0.00 2.83
1665 5730 1.692411 AAGCCGGCTTCAAAACTTCT 58.308 45.000 35.84 10.35 0.00 2.85
1677 5742 6.350110 GCTTCAAAACTTCTGCCAATATGGTA 60.350 38.462 0.00 0.00 40.46 3.25
1687 5752 4.239495 TGCCAATATGGTATACAGAGGGT 58.761 43.478 5.01 0.00 40.46 4.34
1830 5902 2.032634 GCGTCAGCAACAATCCGGA 61.033 57.895 6.61 6.61 44.35 5.14
1907 5982 1.067142 TGGCACAGGTACGATGAAGAC 60.067 52.381 3.91 0.00 0.00 3.01
2122 6197 5.896073 TCAATTGTTAAAACCCCCACAAT 57.104 34.783 5.13 0.00 40.75 2.71
2123 6198 6.253946 TCAATTGTTAAAACCCCCACAATT 57.746 33.333 5.13 3.78 46.13 2.32
2223 6298 7.963981 TGATAATCGTGTTCTCATTGAGTTTC 58.036 34.615 13.23 6.17 0.00 2.78
2257 6332 4.993705 TCTTGGTTAAGGACTTGGACAT 57.006 40.909 0.00 0.00 34.59 3.06
2376 6451 0.662619 TTCTTCAGCAAAGTGGCACG 59.337 50.000 12.71 0.00 36.31 5.34
2380 6455 0.036164 TCAGCAAAGTGGCACGGTAT 59.964 50.000 12.71 0.00 35.83 2.73
2385 6460 4.515191 CAGCAAAGTGGCACGGTATATTAT 59.485 41.667 12.71 0.00 35.83 1.28
2393 6468 3.863424 GGCACGGTATATTATGTCATCCG 59.137 47.826 6.79 6.79 41.77 4.18
2458 6533 3.265791 CCCATTGTCTTGAGTCTAGCAC 58.734 50.000 0.00 0.00 0.00 4.40
2627 6703 8.879342 ACTATGTAAGCTTCATTGATGACTAC 57.121 34.615 19.02 4.63 36.36 2.73
2629 6705 9.317936 CTATGTAAGCTTCATTGATGACTACAA 57.682 33.333 0.00 0.00 36.36 2.41
2685 6761 6.632834 ACGATCTGAAGTGTTTCAAATTTTCG 59.367 34.615 0.00 0.00 42.48 3.46
2724 6800 5.826866 CGTTGAACGAAAACTAAACACTG 57.173 39.130 13.13 0.00 46.05 3.66
2732 6808 7.352719 ACGAAAACTAAACACTGAGATCATC 57.647 36.000 0.00 0.00 0.00 2.92
2808 6884 5.363868 CAGGAACTTGGTATCTCAGACCATA 59.636 44.000 0.00 0.00 46.29 2.74
2860 6936 0.181587 TCCGCTGAAAGGAAACACCA 59.818 50.000 0.00 0.00 42.04 4.17
2960 7232 8.721133 TGACTGCCACCTATCTTATAAATCTA 57.279 34.615 0.00 0.00 0.00 1.98
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
39 42 7.294017 ACTCCCATGAGGCATAATAATTTTG 57.706 36.000 0.00 0.00 43.29 2.44
102 106 1.474478 GACAACATCGAGCTCTGGAGA 59.526 52.381 12.85 1.42 0.00 3.71
147 152 2.117156 GGAGAGCCTACCGCGTACA 61.117 63.158 4.92 0.00 44.76 2.90
148 153 1.823041 AGGAGAGCCTACCGCGTAC 60.823 63.158 4.92 0.00 44.74 3.67
152 157 1.614241 TTTCCAGGAGAGCCTACCGC 61.614 60.000 0.00 0.00 44.80 5.68
156 161 0.905357 GCACTTTCCAGGAGAGCCTA 59.095 55.000 6.93 0.00 44.80 3.93
184 189 2.632512 GTTGGGAAATTTGGCAGGAGAA 59.367 45.455 0.00 0.00 0.00 2.87
256 264 4.748144 CCAGAGCACCTTGCCCCC 62.748 72.222 0.00 0.00 46.52 5.40
350 358 1.144276 TCCAGTCGCGTTTGGAACA 59.856 52.632 24.74 8.93 40.41 3.18
363 371 3.314331 CACTGCCCGGAGTCCAGT 61.314 66.667 10.49 7.13 40.22 4.00
404 412 2.922503 TCTGCGCCAGGAACCTGA 60.923 61.111 20.79 1.56 46.30 3.86
442 450 1.910580 CTACAGTGGCGGGGTTGGAT 61.911 60.000 0.00 0.00 0.00 3.41
455 463 2.903784 TGGTGTAATGACAGGCTACAGT 59.096 45.455 0.00 0.00 35.82 3.55
477 485 2.906458 CTGCTCCAGGATCGGCTT 59.094 61.111 0.00 0.00 0.00 4.35
481 489 2.588314 GCTGCTGCTCCAGGATCG 60.588 66.667 8.53 0.00 30.16 3.69
482 490 2.203181 GGCTGCTGCTCCAGGATC 60.203 66.667 15.64 0.00 39.59 3.36
483 491 2.384433 ATGGCTGCTGCTCCAGGAT 61.384 57.895 15.64 1.67 39.59 3.24
522 530 2.203625 TGGAAAGCTTGGGTGCCC 60.204 61.111 0.00 0.00 0.00 5.36
542 550 2.347490 CCCACCTCGACCAACTGG 59.653 66.667 0.00 0.00 42.17 4.00
545 553 2.048503 CGACCCACCTCGACCAAC 60.049 66.667 0.00 0.00 35.58 3.77
626 634 1.072505 GACGCCCTCACCTGGAAAA 59.927 57.895 0.00 0.00 0.00 2.29
676 684 2.048222 GCACCGTGAGCTACAGCA 60.048 61.111 1.65 0.00 45.16 4.41
687 695 2.584608 GTCCTAGCCATGCACCGT 59.415 61.111 0.00 0.00 0.00 4.83
746 754 9.220767 GAGTTAGTTTGAGATTACAACAGGAAT 57.779 33.333 0.00 0.00 0.00 3.01
748 756 7.963532 AGAGTTAGTTTGAGATTACAACAGGA 58.036 34.615 0.00 0.00 0.00 3.86
757 765 8.700973 GGGAAGAGATAGAGTTAGTTTGAGATT 58.299 37.037 0.00 0.00 0.00 2.40
758 766 7.289084 GGGGAAGAGATAGAGTTAGTTTGAGAT 59.711 40.741 0.00 0.00 0.00 2.75
760 768 6.609616 AGGGGAAGAGATAGAGTTAGTTTGAG 59.390 42.308 0.00 0.00 0.00 3.02
761 769 6.503944 AGGGGAAGAGATAGAGTTAGTTTGA 58.496 40.000 0.00 0.00 0.00 2.69
762 770 6.609616 AGAGGGGAAGAGATAGAGTTAGTTTG 59.390 42.308 0.00 0.00 0.00 2.93
763 771 6.747931 AGAGGGGAAGAGATAGAGTTAGTTT 58.252 40.000 0.00 0.00 0.00 2.66
764 772 6.349897 AGAGGGGAAGAGATAGAGTTAGTT 57.650 41.667 0.00 0.00 0.00 2.24
765 773 5.455612 CGAGAGGGGAAGAGATAGAGTTAGT 60.456 48.000 0.00 0.00 0.00 2.24
766 774 5.001232 CGAGAGGGGAAGAGATAGAGTTAG 58.999 50.000 0.00 0.00 0.00 2.34
767 775 4.412858 ACGAGAGGGGAAGAGATAGAGTTA 59.587 45.833 0.00 0.00 0.00 2.24
768 776 3.203487 ACGAGAGGGGAAGAGATAGAGTT 59.797 47.826 0.00 0.00 0.00 3.01
769 777 2.781174 ACGAGAGGGGAAGAGATAGAGT 59.219 50.000 0.00 0.00 0.00 3.24
770 778 3.502123 ACGAGAGGGGAAGAGATAGAG 57.498 52.381 0.00 0.00 0.00 2.43
771 779 3.244630 GCTACGAGAGGGGAAGAGATAGA 60.245 52.174 0.00 0.00 0.00 1.98
773 781 2.712087 AGCTACGAGAGGGGAAGAGATA 59.288 50.000 0.00 0.00 0.00 1.98
774 782 1.497286 AGCTACGAGAGGGGAAGAGAT 59.503 52.381 0.00 0.00 0.00 2.75
775 783 0.920438 AGCTACGAGAGGGGAAGAGA 59.080 55.000 0.00 0.00 0.00 3.10
776 784 1.133915 AGAGCTACGAGAGGGGAAGAG 60.134 57.143 0.00 0.00 0.00 2.85
777 785 0.920438 AGAGCTACGAGAGGGGAAGA 59.080 55.000 0.00 0.00 0.00 2.87
778 786 1.770294 AAGAGCTACGAGAGGGGAAG 58.230 55.000 0.00 0.00 0.00 3.46
779 787 2.100989 GAAAGAGCTACGAGAGGGGAA 58.899 52.381 0.00 0.00 0.00 3.97
780 788 1.285373 AGAAAGAGCTACGAGAGGGGA 59.715 52.381 0.00 0.00 0.00 4.81
781 789 1.770294 AGAAAGAGCTACGAGAGGGG 58.230 55.000 0.00 0.00 0.00 4.79
782 790 4.394729 AGATAGAAAGAGCTACGAGAGGG 58.605 47.826 0.00 0.00 0.00 4.30
783 791 4.454504 GGAGATAGAAAGAGCTACGAGAGG 59.545 50.000 0.00 0.00 0.00 3.69
787 795 6.535540 ACATAGGAGATAGAAAGAGCTACGA 58.464 40.000 0.00 0.00 0.00 3.43
788 796 6.811253 ACATAGGAGATAGAAAGAGCTACG 57.189 41.667 0.00 0.00 0.00 3.51
789 797 9.292195 AGTTACATAGGAGATAGAAAGAGCTAC 57.708 37.037 0.00 0.00 0.00 3.58
792 800 9.292195 AGTAGTTACATAGGAGATAGAAAGAGC 57.708 37.037 0.00 0.00 0.00 4.09
801 809 9.670442 TTGGGATTTAGTAGTTACATAGGAGAT 57.330 33.333 0.00 0.00 0.00 2.75
802 810 9.496710 TTTGGGATTTAGTAGTTACATAGGAGA 57.503 33.333 0.00 0.00 0.00 3.71
804 812 9.496710 TCTTTGGGATTTAGTAGTTACATAGGA 57.503 33.333 0.00 0.00 0.00 2.94
805 813 9.765795 CTCTTTGGGATTTAGTAGTTACATAGG 57.234 37.037 0.00 0.00 0.00 2.57
810 818 7.652507 CCGATCTCTTTGGGATTTAGTAGTTAC 59.347 40.741 0.00 0.00 0.00 2.50
811 819 7.562454 TCCGATCTCTTTGGGATTTAGTAGTTA 59.438 37.037 0.00 0.00 0.00 2.24
813 821 5.897824 TCCGATCTCTTTGGGATTTAGTAGT 59.102 40.000 0.00 0.00 0.00 2.73
814 822 6.406692 TCCGATCTCTTTGGGATTTAGTAG 57.593 41.667 0.00 0.00 0.00 2.57
815 823 5.221461 GCTCCGATCTCTTTGGGATTTAGTA 60.221 44.000 0.00 0.00 0.00 1.82
816 824 4.443598 GCTCCGATCTCTTTGGGATTTAGT 60.444 45.833 0.00 0.00 0.00 2.24
817 825 4.061596 GCTCCGATCTCTTTGGGATTTAG 58.938 47.826 0.00 0.00 0.00 1.85
818 826 3.454447 TGCTCCGATCTCTTTGGGATTTA 59.546 43.478 0.00 0.00 0.00 1.40
819 827 2.239654 TGCTCCGATCTCTTTGGGATTT 59.760 45.455 0.00 0.00 0.00 2.17
920 4934 4.101114 TGTATACCATGTCAGGTGGAAGT 58.899 43.478 0.00 0.00 43.14 3.01
956 4970 1.069204 GTTGCTGGCTAGATCGATGGA 59.931 52.381 0.54 0.00 0.00 3.41
1390 5455 1.269778 GGAGCCTTTCTTTGTGTTGGC 60.270 52.381 0.00 0.00 40.54 4.52
1421 5486 4.162320 TCTTCATCTTGGAGATAAAGGCGT 59.838 41.667 1.97 0.00 32.08 5.68
1560 5625 6.213677 GTCCACAAAGATTTGGTTCTTTACC 58.786 40.000 9.91 0.00 42.58 2.85
1599 5664 1.487452 GCTGATCGAACGCCGCAATA 61.487 55.000 0.00 0.00 38.37 1.90
1665 5730 4.041567 CACCCTCTGTATACCATATTGGCA 59.958 45.833 0.00 0.00 42.67 4.92
1677 5742 3.849951 CGCCCGCACCCTCTGTAT 61.850 66.667 0.00 0.00 0.00 2.29
1830 5902 6.445451 ACATATCTGGCATTCTGGATAGTT 57.555 37.500 0.00 0.00 0.00 2.24
1907 5982 1.617947 CCCCCTTCTCCTCCTGTTCG 61.618 65.000 0.00 0.00 0.00 3.95
2140 6215 4.580868 TGTTTCGGGCACATGTAGAATTA 58.419 39.130 0.00 0.00 0.00 1.40
2257 6332 2.023307 CCCCTAAGAAGTACCCTCCTCA 60.023 54.545 0.00 0.00 0.00 3.86
2376 6451 5.946298 TGACGACGGATGACATAATATACC 58.054 41.667 0.00 0.00 0.00 2.73
2380 6455 5.509716 AACTGACGACGGATGACATAATA 57.490 39.130 0.00 0.00 0.00 0.98
2385 6460 3.057104 ACAATAACTGACGACGGATGACA 60.057 43.478 0.00 0.00 0.00 3.58
2393 6468 6.224420 ACAAGCTTAACAATAACTGACGAC 57.776 37.500 0.00 0.00 0.00 4.34
2458 6533 4.384056 ACAAGGATCACAAACAGACTCAG 58.616 43.478 0.00 0.00 0.00 3.35
2627 6703 9.401058 AGAAGATAGATCCAGGTAAATTTGTTG 57.599 33.333 0.00 0.00 0.00 3.33
2685 6761 7.586300 TCGTTCAACGAGATTTTGAAAATTCTC 59.414 33.333 9.01 10.96 46.73 2.87
2724 6800 3.057666 TCAGTCTGCATAGCGATGATCTC 60.058 47.826 11.36 0.00 34.73 2.75
2732 6808 0.529337 CCCAGTCAGTCTGCATAGCG 60.529 60.000 0.00 0.00 42.38 4.26
2860 6936 4.307032 AGCCCTACTTCAACAACATGAT 57.693 40.909 0.00 0.00 0.00 2.45
2902 6978 4.591321 TCCCAGAACTTTAATGGCATCT 57.409 40.909 0.00 0.00 32.46 2.90
2960 7232 8.540388 TCATAGTTGATAACTTTGCTAGGAAGT 58.460 33.333 0.00 0.00 42.81 3.01


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

AutoCloner maintained by Alex Coulton.