Multiple sequence alignment - TraesCS6B01G248800

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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 TraesCS6B01G248800 chr6B 100.000 2576 0 0 667 3242 446304418 446301843 0.000000e+00 4758.0
1 TraesCS6B01G248800 chr6B 100.000 343 0 0 1 343 446305084 446304742 4.560000e-178 634.0
2 TraesCS6B01G248800 chr1B 96.513 2380 52 5 877 3242 470431346 470433708 0.000000e+00 3906.0
3 TraesCS6B01G248800 chr1B 96.053 76 3 0 805 880 470430966 470431041 1.220000e-24 124.0
4 TraesCS6B01G248800 chr6D 94.113 1257 40 7 809 2062 447746 448971 0.000000e+00 1881.0
5 TraesCS6B01G248800 chr6D 90.109 1193 70 16 2068 3241 449184 450347 0.000000e+00 1506.0
6 TraesCS6B01G248800 chr6D 91.691 337 26 2 2 338 285502474 285502140 1.760000e-127 466.0
7 TraesCS6B01G248800 chr6D 99.074 108 1 0 667 774 285501828 285501721 9.180000e-46 195.0
8 TraesCS6B01G248800 chr6A 86.550 342 46 0 2 343 405828371 405828030 8.490000e-101 377.0
9 TraesCS6B01G248800 chr6A 97.619 42 1 0 667 708 405826589 405826548 4.490000e-09 73.1
10 TraesCS6B01G248800 chr7D 82.544 338 46 7 8 343 259360072 259359746 5.290000e-73 285.0
11 TraesCS6B01G248800 chr7D 85.253 217 31 1 5 221 500784426 500784641 4.210000e-54 222.0
12 TraesCS6B01G248800 chr7D 83.410 217 33 3 1 216 479016972 479017186 7.090000e-47 198.0
13 TraesCS6B01G248800 chr5B 84.375 288 33 6 8 294 163282513 163282789 4.120000e-69 272.0
14 TraesCS6B01G248800 chr7B 82.394 284 37 11 8 289 61756574 61756846 5.410000e-58 235.0
15 TraesCS6B01G248800 chrUn 90.854 164 15 0 3079 3242 334300331 334300494 1.510000e-53 220.0
16 TraesCS6B01G248800 chr4B 90.854 164 15 0 3079 3242 165449865 165450028 1.510000e-53 220.0
17 TraesCS6B01G248800 chr4B 90.854 164 15 0 3079 3242 287112427 287112590 1.510000e-53 220.0
18 TraesCS6B01G248800 chr4B 90.854 164 15 0 3079 3242 573586761 573586924 1.510000e-53 220.0
19 TraesCS6B01G248800 chr4B 88.889 54 5 1 234 287 181699997 181699945 7.510000e-07 65.8
20 TraesCS6B01G248800 chr1A 90.854 164 15 0 3079 3242 146009740 146009903 1.510000e-53 220.0
21 TraesCS6B01G248800 chr1A 90.854 164 15 0 3079 3242 392588765 392588602 1.510000e-53 220.0
22 TraesCS6B01G248800 chr1A 90.854 164 15 0 3079 3242 428642914 428642751 1.510000e-53 220.0
23 TraesCS6B01G248800 chr5D 84.977 213 31 1 9 221 77867967 77868178 7.040000e-52 215.0
24 TraesCS6B01G248800 chr3D 83.333 216 35 1 1 216 418760109 418760323 7.090000e-47 198.0
25 TraesCS6B01G248800 chr2D 92.593 54 4 0 234 287 54881215 54881162 9.640000e-11 78.7


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 TraesCS6B01G248800 chr6B 446301843 446305084 3241 True 2696.00 4758 100.0000 1 3242 2 chr6B.!!$R1 3241
1 TraesCS6B01G248800 chr1B 470430966 470433708 2742 False 2015.00 3906 96.2830 805 3242 2 chr1B.!!$F1 2437
2 TraesCS6B01G248800 chr6D 447746 450347 2601 False 1693.50 1881 92.1110 809 3241 2 chr6D.!!$F1 2432
3 TraesCS6B01G248800 chr6D 285501721 285502474 753 True 330.50 466 95.3825 2 774 2 chr6D.!!$R1 772
4 TraesCS6B01G248800 chr6A 405826548 405828371 1823 True 225.05 377 92.0845 2 708 2 chr6A.!!$R1 706

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
734 736 0.179124 GAGATCTCAGCACCGACACC 60.179 60.0 18.11 0.0 0.0 4.16 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2688 3543 0.110486 GACAGAACCAGCCCCAAAGA 59.89 55.0 0.0 0.0 0.0 2.52 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
166 167 3.376078 GTGCGGTCTGGTACCCGA 61.376 66.667 10.07 5.52 46.62 5.14
185 186 3.602104 CCAATCCATGGCAAGGAGT 57.398 52.632 17.35 11.97 43.80 3.85
214 215 1.595489 GCGATCGGATGTGCACAAATC 60.595 52.381 25.72 17.66 0.00 2.17
223 224 4.160635 GCACAAATCCGGCGGTCG 62.161 66.667 27.32 14.77 38.88 4.79
240 241 2.793946 GCGCGCAAATCTGGACAT 59.206 55.556 29.10 0.00 0.00 3.06
318 320 2.660064 GGGATGGACAGCGAGGTGT 61.660 63.158 7.72 7.72 0.00 4.16
330 332 1.671850 GCGAGGTGTCCGAGAAAATGA 60.672 52.381 0.00 0.00 0.00 2.57
687 689 4.135747 CTAAAGAGGCAAGAGCTAAGCT 57.864 45.455 4.75 0.00 43.88 3.74
688 690 5.269505 CTAAAGAGGCAAGAGCTAAGCTA 57.730 43.478 4.75 0.00 39.88 3.32
689 691 3.817709 AAGAGGCAAGAGCTAAGCTAG 57.182 47.619 4.75 0.00 39.88 3.42
690 692 3.025322 AGAGGCAAGAGCTAAGCTAGA 57.975 47.619 0.00 0.00 39.88 2.43
691 693 2.958355 AGAGGCAAGAGCTAAGCTAGAG 59.042 50.000 0.00 0.00 39.88 2.43
692 694 1.412343 AGGCAAGAGCTAAGCTAGAGC 59.588 52.381 11.71 11.71 39.88 4.09
707 709 1.927895 AGAGCTAGCGTACATTGTGC 58.072 50.000 9.55 0.00 0.00 4.57
708 710 1.204704 AGAGCTAGCGTACATTGTGCA 59.795 47.619 9.55 0.00 0.00 4.57
709 711 2.159043 AGAGCTAGCGTACATTGTGCAT 60.159 45.455 9.55 0.00 0.00 3.96
710 712 1.935873 AGCTAGCGTACATTGTGCATG 59.064 47.619 9.55 0.00 39.07 4.06
711 713 1.933181 GCTAGCGTACATTGTGCATGA 59.067 47.619 0.00 0.00 36.24 3.07
712 714 2.545526 GCTAGCGTACATTGTGCATGAT 59.454 45.455 0.00 0.00 36.24 2.45
713 715 3.740832 GCTAGCGTACATTGTGCATGATA 59.259 43.478 0.00 0.00 36.24 2.15
714 716 4.376413 GCTAGCGTACATTGTGCATGATAC 60.376 45.833 0.00 0.00 36.24 2.24
715 717 2.539688 AGCGTACATTGTGCATGATACG 59.460 45.455 0.00 12.00 41.21 3.06
716 718 2.538037 GCGTACATTGTGCATGATACGA 59.462 45.455 17.52 0.00 41.01 3.43
717 719 3.362014 GCGTACATTGTGCATGATACGAG 60.362 47.826 17.52 0.00 41.01 4.18
718 720 4.041723 CGTACATTGTGCATGATACGAGA 58.958 43.478 0.00 0.00 41.01 4.04
719 721 4.681483 CGTACATTGTGCATGATACGAGAT 59.319 41.667 0.00 0.00 41.01 2.75
720 722 5.164148 CGTACATTGTGCATGATACGAGATC 60.164 44.000 0.00 0.00 41.01 2.75
721 723 4.953667 ACATTGTGCATGATACGAGATCT 58.046 39.130 0.00 0.00 36.24 2.75
722 724 4.987285 ACATTGTGCATGATACGAGATCTC 59.013 41.667 13.05 13.05 36.24 2.75
723 725 4.654091 TTGTGCATGATACGAGATCTCA 57.346 40.909 22.31 4.32 0.00 3.27
724 726 4.234530 TGTGCATGATACGAGATCTCAG 57.765 45.455 22.31 16.31 0.00 3.35
725 727 2.985809 GTGCATGATACGAGATCTCAGC 59.014 50.000 22.31 13.15 0.00 4.26
726 728 2.624838 TGCATGATACGAGATCTCAGCA 59.375 45.455 22.31 12.93 0.00 4.41
727 729 2.985809 GCATGATACGAGATCTCAGCAC 59.014 50.000 22.31 10.90 0.00 4.40
728 730 3.573598 CATGATACGAGATCTCAGCACC 58.426 50.000 22.31 7.67 0.00 5.01
729 731 1.604278 TGATACGAGATCTCAGCACCG 59.396 52.381 22.31 10.34 0.00 4.94
730 732 1.874231 GATACGAGATCTCAGCACCGA 59.126 52.381 22.31 0.00 0.00 4.69
731 733 1.015109 TACGAGATCTCAGCACCGAC 58.985 55.000 22.31 0.00 0.00 4.79
732 734 0.960861 ACGAGATCTCAGCACCGACA 60.961 55.000 22.31 0.00 0.00 4.35
733 735 0.524392 CGAGATCTCAGCACCGACAC 60.524 60.000 22.31 0.00 0.00 3.67
734 736 0.179124 GAGATCTCAGCACCGACACC 60.179 60.000 18.11 0.00 0.00 4.16
735 737 1.517257 GATCTCAGCACCGACACCG 60.517 63.158 0.00 0.00 0.00 4.94
736 738 1.934220 GATCTCAGCACCGACACCGA 61.934 60.000 0.00 0.00 38.22 4.69
737 739 1.323271 ATCTCAGCACCGACACCGAT 61.323 55.000 0.00 0.00 38.22 4.18
738 740 1.517257 CTCAGCACCGACACCGATC 60.517 63.158 0.00 0.00 38.22 3.69
739 741 2.212900 CTCAGCACCGACACCGATCA 62.213 60.000 0.00 0.00 38.22 2.92
740 742 1.374125 CAGCACCGACACCGATCAA 60.374 57.895 0.00 0.00 38.22 2.57
741 743 1.374252 AGCACCGACACCGATCAAC 60.374 57.895 0.00 0.00 38.22 3.18
742 744 2.388232 GCACCGACACCGATCAACC 61.388 63.158 0.00 0.00 38.22 3.77
743 745 1.292223 CACCGACACCGATCAACCT 59.708 57.895 0.00 0.00 38.22 3.50
744 746 0.320421 CACCGACACCGATCAACCTT 60.320 55.000 0.00 0.00 38.22 3.50
745 747 0.320421 ACCGACACCGATCAACCTTG 60.320 55.000 0.00 0.00 38.22 3.61
746 748 1.635663 CCGACACCGATCAACCTTGC 61.636 60.000 0.00 0.00 38.22 4.01
747 749 1.787847 GACACCGATCAACCTTGCG 59.212 57.895 0.00 0.00 0.00 4.85
748 750 0.949105 GACACCGATCAACCTTGCGT 60.949 55.000 0.00 0.00 0.00 5.24
749 751 0.319083 ACACCGATCAACCTTGCGTA 59.681 50.000 0.00 0.00 0.00 4.42
750 752 0.719465 CACCGATCAACCTTGCGTAC 59.281 55.000 0.00 0.00 0.00 3.67
751 753 0.319083 ACCGATCAACCTTGCGTACA 59.681 50.000 0.00 0.00 0.00 2.90
752 754 0.719465 CCGATCAACCTTGCGTACAC 59.281 55.000 0.00 0.00 0.00 2.90
753 755 0.365523 CGATCAACCTTGCGTACACG 59.634 55.000 0.00 0.00 43.27 4.49
754 756 1.705256 GATCAACCTTGCGTACACGA 58.295 50.000 5.84 0.00 43.02 4.35
755 757 2.268298 GATCAACCTTGCGTACACGAT 58.732 47.619 5.84 0.00 43.02 3.73
756 758 1.705256 TCAACCTTGCGTACACGATC 58.295 50.000 5.84 0.00 43.02 3.69
757 759 0.719465 CAACCTTGCGTACACGATCC 59.281 55.000 5.84 0.00 43.02 3.36
758 760 0.606604 AACCTTGCGTACACGATCCT 59.393 50.000 5.84 0.00 43.02 3.24
759 761 1.466856 ACCTTGCGTACACGATCCTA 58.533 50.000 5.84 0.00 43.02 2.94
760 762 1.404391 ACCTTGCGTACACGATCCTAG 59.596 52.381 5.84 0.00 43.02 3.02
761 763 1.478137 CTTGCGTACACGATCCTAGC 58.522 55.000 5.84 0.00 43.02 3.42
762 764 1.065701 CTTGCGTACACGATCCTAGCT 59.934 52.381 5.84 0.00 43.02 3.32
763 765 1.957668 TGCGTACACGATCCTAGCTA 58.042 50.000 5.84 0.00 43.02 3.32
764 766 1.871676 TGCGTACACGATCCTAGCTAG 59.128 52.381 14.20 14.20 43.02 3.42
765 767 1.399984 GCGTACACGATCCTAGCTAGC 60.400 57.143 15.74 6.62 43.02 3.42
766 768 2.144730 CGTACACGATCCTAGCTAGCT 58.855 52.381 23.12 23.12 43.02 3.32
767 769 3.324117 CGTACACGATCCTAGCTAGCTA 58.676 50.000 22.85 22.85 43.02 3.32
768 770 3.368539 CGTACACGATCCTAGCTAGCTAG 59.631 52.174 35.39 35.39 42.44 3.42
769 771 6.188330 CGTACACGATCCTAGCTAGCTAGC 62.188 54.167 36.47 33.96 45.19 3.42
779 781 2.507339 GCTAGCTAGCCAGAGAACAG 57.493 55.000 31.67 0.59 43.39 3.16
780 782 1.068434 GCTAGCTAGCCAGAGAACAGG 59.932 57.143 31.67 0.00 43.39 4.00
781 783 2.383855 CTAGCTAGCCAGAGAACAGGT 58.616 52.381 12.13 0.00 0.00 4.00
782 784 1.650528 AGCTAGCCAGAGAACAGGTT 58.349 50.000 12.13 0.00 0.00 3.50
783 785 1.277557 AGCTAGCCAGAGAACAGGTTG 59.722 52.381 12.13 0.00 0.00 3.77
784 786 1.276421 GCTAGCCAGAGAACAGGTTGA 59.724 52.381 2.29 0.00 0.00 3.18
785 787 2.093235 GCTAGCCAGAGAACAGGTTGAT 60.093 50.000 2.29 0.00 0.00 2.57
786 788 2.777832 AGCCAGAGAACAGGTTGATC 57.222 50.000 0.00 0.00 0.00 2.92
787 789 2.264455 AGCCAGAGAACAGGTTGATCT 58.736 47.619 0.00 0.00 31.87 2.75
788 790 2.235898 AGCCAGAGAACAGGTTGATCTC 59.764 50.000 7.92 7.92 43.87 2.75
793 795 3.936564 GAGAACAGGTTGATCTCTTGCT 58.063 45.455 8.55 0.00 41.38 3.91
794 796 3.672808 AGAACAGGTTGATCTCTTGCTG 58.327 45.455 0.00 0.00 0.00 4.41
795 797 3.326006 AGAACAGGTTGATCTCTTGCTGA 59.674 43.478 0.00 0.00 0.00 4.26
796 798 3.777106 ACAGGTTGATCTCTTGCTGAA 57.223 42.857 0.00 0.00 0.00 3.02
797 799 3.406764 ACAGGTTGATCTCTTGCTGAAC 58.593 45.455 0.00 0.00 0.00 3.18
798 800 2.746362 CAGGTTGATCTCTTGCTGAACC 59.254 50.000 0.00 0.00 34.29 3.62
799 801 2.087646 GGTTGATCTCTTGCTGAACCC 58.912 52.381 0.00 0.00 0.00 4.11
800 802 1.734465 GTTGATCTCTTGCTGAACCCG 59.266 52.381 0.00 0.00 0.00 5.28
801 803 0.250234 TGATCTCTTGCTGAACCCGG 59.750 55.000 0.00 0.00 0.00 5.73
802 804 0.462759 GATCTCTTGCTGAACCCGGG 60.463 60.000 22.25 22.25 0.00 5.73
803 805 0.909610 ATCTCTTGCTGAACCCGGGA 60.910 55.000 32.02 3.04 0.00 5.14
909 1219 6.837471 TCTCCTTACTCAACTCTTTCCTAC 57.163 41.667 0.00 0.00 0.00 3.18
1084 1394 6.586344 CAAACAGAGGAATATCAAGAGGCTA 58.414 40.000 0.00 0.00 0.00 3.93
1149 1459 4.473196 TCTGCACCAAGGGTTCATAATCTA 59.527 41.667 0.00 0.00 31.02 1.98
1171 1481 1.609208 GGCAACACAGGTCAGTCAAT 58.391 50.000 0.00 0.00 0.00 2.57
1305 1615 6.198650 AGACATCATTTTCATGCGATTTCA 57.801 33.333 0.00 0.00 0.00 2.69
1306 1616 6.802608 AGACATCATTTTCATGCGATTTCAT 58.197 32.000 0.00 0.00 0.00 2.57
1372 1682 8.585471 AGAATCCATGATGTTTGTTCTTATGT 57.415 30.769 0.00 0.00 0.00 2.29
1546 1856 8.135382 ACTTTTACAGCAAATCCTCTCTACTA 57.865 34.615 0.00 0.00 0.00 1.82
1692 2005 8.912988 ACATTGGATGAAAAGAACTCTAAAACA 58.087 29.630 0.00 0.00 0.00 2.83
1806 2119 6.547510 ACATTATTATGGAAAGGGTGAGAAGC 59.452 38.462 0.00 0.00 36.01 3.86
1833 2146 7.362142 GGACAAACAACAGAAGATATTCCCTTC 60.362 40.741 0.00 0.00 40.10 3.46
1922 2235 2.827322 CCACAAATCCCATTCTGAGCAA 59.173 45.455 0.00 0.00 0.00 3.91
2276 2798 4.927049 ACAGATGTCAATCCAATCCTTGT 58.073 39.130 0.00 0.00 32.77 3.16
2414 2948 5.735285 TGATGTTTGCCATGGAAATACAA 57.265 34.783 18.40 6.80 32.56 2.41
2421 2955 8.538701 TGTTTGCCATGGAAATACAAAGAATAT 58.461 29.630 18.40 0.00 31.39 1.28
2449 2983 3.994729 GCAGTGTTATGCGATGCAA 57.005 47.368 0.00 0.00 43.62 4.08
2640 3477 2.339769 GCCTAGTGGGTGGGATATTCT 58.660 52.381 0.00 0.00 37.43 2.40
2659 3496 2.173356 TCTACCTCCTGGATTTGGCATG 59.827 50.000 0.00 0.00 37.04 4.06
2681 3536 0.324552 TGATGCCAACCTTCATGGGG 60.325 55.000 0.00 0.00 41.11 4.96
2682 3537 1.679559 GATGCCAACCTTCATGGGGC 61.680 60.000 0.00 0.00 41.68 5.80
2683 3538 2.037847 GCCAACCTTCATGGGGCT 59.962 61.111 5.71 0.00 39.26 5.19
2684 3539 2.353610 GCCAACCTTCATGGGGCTG 61.354 63.158 5.71 4.38 39.26 4.85
2685 3540 2.353610 CCAACCTTCATGGGGCTGC 61.354 63.158 5.71 0.00 41.11 5.25
2686 3541 1.304713 CAACCTTCATGGGGCTGCT 60.305 57.895 0.00 0.00 41.11 4.24
2687 3542 1.304713 AACCTTCATGGGGCTGCTG 60.305 57.895 0.00 0.00 41.11 4.41
2688 3543 2.085343 AACCTTCATGGGGCTGCTGT 62.085 55.000 0.00 0.00 41.11 4.40
2689 3544 1.751927 CCTTCATGGGGCTGCTGTC 60.752 63.158 0.00 0.00 0.00 3.51
2690 3545 1.302285 CTTCATGGGGCTGCTGTCT 59.698 57.895 0.00 0.00 0.00 3.41
2691 3546 0.323178 CTTCATGGGGCTGCTGTCTT 60.323 55.000 0.00 0.00 0.00 3.01
2692 3547 0.112995 TTCATGGGGCTGCTGTCTTT 59.887 50.000 0.00 0.00 0.00 2.52
2693 3548 0.609957 TCATGGGGCTGCTGTCTTTG 60.610 55.000 0.00 0.00 0.00 2.77
2694 3549 1.304713 ATGGGGCTGCTGTCTTTGG 60.305 57.895 0.00 0.00 0.00 3.28
2695 3550 2.677875 GGGGCTGCTGTCTTTGGG 60.678 66.667 0.00 0.00 0.00 4.12
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
68 69 1.341531 CTATCCCGTTGGAGATTCGCT 59.658 52.381 0.00 0.00 46.08 4.93
129 130 2.361610 CCCAGGCAACGCTTCCAT 60.362 61.111 0.00 0.00 46.39 3.41
223 224 1.135699 CAATGTCCAGATTTGCGCGC 61.136 55.000 27.26 27.26 0.00 6.86
227 228 2.165030 CCACCTCAATGTCCAGATTTGC 59.835 50.000 0.00 0.00 0.00 3.68
240 241 1.533625 CATTTTCTCGGCCACCTCAA 58.466 50.000 2.24 0.00 0.00 3.02
295 297 2.202797 CGCTGTCCATCCCTGTCG 60.203 66.667 0.00 0.00 0.00 4.35
296 298 1.142748 CTCGCTGTCCATCCCTGTC 59.857 63.158 0.00 0.00 0.00 3.51
297 299 2.362369 CCTCGCTGTCCATCCCTGT 61.362 63.158 0.00 0.00 0.00 4.00
299 301 2.039624 ACCTCGCTGTCCATCCCT 59.960 61.111 0.00 0.00 0.00 4.20
318 320 1.447140 CCGCCGTCATTTTCTCGGA 60.447 57.895 7.01 0.00 46.05 4.55
666 668 4.135747 AGCTTAGCTCTTGCCTCTTTAG 57.864 45.455 0.00 0.00 40.80 1.85
667 669 4.956700 TCTAGCTTAGCTCTTGCCTCTTTA 59.043 41.667 11.09 0.00 40.44 1.85
668 670 3.772025 TCTAGCTTAGCTCTTGCCTCTTT 59.228 43.478 11.09 0.00 40.44 2.52
669 671 3.370104 TCTAGCTTAGCTCTTGCCTCTT 58.630 45.455 11.09 0.00 40.44 2.85
670 672 2.958355 CTCTAGCTTAGCTCTTGCCTCT 59.042 50.000 11.09 0.00 40.44 3.69
671 673 2.545742 GCTCTAGCTTAGCTCTTGCCTC 60.546 54.545 11.09 0.00 40.44 4.70
672 674 1.412343 GCTCTAGCTTAGCTCTTGCCT 59.588 52.381 11.09 0.00 40.44 4.75
673 675 1.864565 GCTCTAGCTTAGCTCTTGCC 58.135 55.000 11.09 0.00 40.44 4.52
686 688 3.046390 GCACAATGTACGCTAGCTCTAG 58.954 50.000 13.93 0.00 36.29 2.43
687 689 2.425668 TGCACAATGTACGCTAGCTCTA 59.574 45.455 13.93 0.00 0.00 2.43
688 690 1.204704 TGCACAATGTACGCTAGCTCT 59.795 47.619 13.93 0.00 0.00 4.09
689 691 1.640428 TGCACAATGTACGCTAGCTC 58.360 50.000 13.93 3.91 0.00 4.09
690 692 1.935873 CATGCACAATGTACGCTAGCT 59.064 47.619 13.93 2.46 0.00 3.32
691 693 1.933181 TCATGCACAATGTACGCTAGC 59.067 47.619 4.06 4.06 37.56 3.42
692 694 4.143535 CGTATCATGCACAATGTACGCTAG 60.144 45.833 0.00 0.00 38.35 3.42
693 695 3.733727 CGTATCATGCACAATGTACGCTA 59.266 43.478 0.00 0.00 38.35 4.26
694 696 2.539688 CGTATCATGCACAATGTACGCT 59.460 45.455 0.00 0.00 38.35 5.07
695 697 2.538037 TCGTATCATGCACAATGTACGC 59.462 45.455 11.67 0.00 41.22 4.42
696 698 4.041723 TCTCGTATCATGCACAATGTACG 58.958 43.478 10.74 10.74 41.92 3.67
697 699 5.923114 AGATCTCGTATCATGCACAATGTAC 59.077 40.000 0.00 0.00 37.56 2.90
698 700 6.089249 AGATCTCGTATCATGCACAATGTA 57.911 37.500 0.00 0.00 37.56 2.29
699 701 4.953667 AGATCTCGTATCATGCACAATGT 58.046 39.130 0.00 0.00 37.56 2.71
700 702 4.986659 TGAGATCTCGTATCATGCACAATG 59.013 41.667 17.76 0.00 37.66 2.82
701 703 5.205759 TGAGATCTCGTATCATGCACAAT 57.794 39.130 17.76 0.00 0.00 2.71
702 704 4.614946 CTGAGATCTCGTATCATGCACAA 58.385 43.478 17.76 0.00 0.00 3.33
703 705 3.551659 GCTGAGATCTCGTATCATGCACA 60.552 47.826 17.76 0.00 0.00 4.57
704 706 2.985809 GCTGAGATCTCGTATCATGCAC 59.014 50.000 17.76 0.00 0.00 4.57
705 707 2.624838 TGCTGAGATCTCGTATCATGCA 59.375 45.455 17.76 14.36 33.19 3.96
706 708 2.985809 GTGCTGAGATCTCGTATCATGC 59.014 50.000 17.76 12.31 0.00 4.06
707 709 3.573598 GGTGCTGAGATCTCGTATCATG 58.426 50.000 17.76 3.49 0.00 3.07
708 710 2.227626 CGGTGCTGAGATCTCGTATCAT 59.772 50.000 17.76 0.00 0.00 2.45
709 711 1.604278 CGGTGCTGAGATCTCGTATCA 59.396 52.381 17.76 9.56 0.00 2.15
710 712 1.874231 TCGGTGCTGAGATCTCGTATC 59.126 52.381 17.76 11.07 0.00 2.24
711 713 1.604755 GTCGGTGCTGAGATCTCGTAT 59.395 52.381 17.76 0.00 0.00 3.06
712 714 1.015109 GTCGGTGCTGAGATCTCGTA 58.985 55.000 17.76 9.35 0.00 3.43
713 715 0.960861 TGTCGGTGCTGAGATCTCGT 60.961 55.000 17.76 0.00 0.00 4.18
714 716 0.524392 GTGTCGGTGCTGAGATCTCG 60.524 60.000 17.76 13.10 0.00 4.04
715 717 0.179124 GGTGTCGGTGCTGAGATCTC 60.179 60.000 16.21 16.21 0.00 2.75
716 718 1.893786 GGTGTCGGTGCTGAGATCT 59.106 57.895 0.00 0.00 0.00 2.75
717 719 1.517257 CGGTGTCGGTGCTGAGATC 60.517 63.158 0.00 0.00 0.00 2.75
718 720 1.323271 ATCGGTGTCGGTGCTGAGAT 61.323 55.000 0.00 0.00 36.95 2.75
719 721 1.934220 GATCGGTGTCGGTGCTGAGA 61.934 60.000 0.00 0.00 36.95 3.27
720 722 1.517257 GATCGGTGTCGGTGCTGAG 60.517 63.158 0.00 0.00 36.95 3.35
721 723 1.811645 TTGATCGGTGTCGGTGCTGA 61.812 55.000 0.00 0.00 36.95 4.26
722 724 1.374125 TTGATCGGTGTCGGTGCTG 60.374 57.895 0.00 0.00 36.95 4.41
723 725 1.374252 GTTGATCGGTGTCGGTGCT 60.374 57.895 0.00 0.00 36.95 4.40
724 726 2.388232 GGTTGATCGGTGTCGGTGC 61.388 63.158 0.00 0.00 36.95 5.01
725 727 0.320421 AAGGTTGATCGGTGTCGGTG 60.320 55.000 0.00 0.00 36.95 4.94
726 728 0.320421 CAAGGTTGATCGGTGTCGGT 60.320 55.000 0.00 0.00 36.95 4.69
727 729 1.635663 GCAAGGTTGATCGGTGTCGG 61.636 60.000 0.00 0.00 36.95 4.79
728 730 1.787847 GCAAGGTTGATCGGTGTCG 59.212 57.895 0.00 0.00 37.82 4.35
729 731 0.949105 ACGCAAGGTTGATCGGTGTC 60.949 55.000 0.00 0.00 46.39 3.67
730 732 0.319083 TACGCAAGGTTGATCGGTGT 59.681 50.000 0.00 0.00 46.39 4.16
731 733 0.719465 GTACGCAAGGTTGATCGGTG 59.281 55.000 0.00 0.00 46.39 4.94
732 734 0.319083 TGTACGCAAGGTTGATCGGT 59.681 50.000 0.00 0.00 46.39 4.69
733 735 0.719465 GTGTACGCAAGGTTGATCGG 59.281 55.000 0.39 0.00 46.39 4.18
734 736 0.365523 CGTGTACGCAAGGTTGATCG 59.634 55.000 7.29 0.00 46.39 3.69
735 737 1.705256 TCGTGTACGCAAGGTTGATC 58.295 50.000 7.29 0.00 46.39 2.92
736 738 2.268298 GATCGTGTACGCAAGGTTGAT 58.732 47.619 7.29 0.00 46.39 2.57
737 739 1.670674 GGATCGTGTACGCAAGGTTGA 60.671 52.381 7.29 0.00 46.39 3.18
738 740 0.719465 GGATCGTGTACGCAAGGTTG 59.281 55.000 7.29 0.00 46.39 3.77
739 741 0.606604 AGGATCGTGTACGCAAGGTT 59.393 50.000 7.29 0.00 46.39 3.50
740 742 1.404391 CTAGGATCGTGTACGCAAGGT 59.596 52.381 7.29 0.00 46.39 3.50
741 743 1.864435 GCTAGGATCGTGTACGCAAGG 60.864 57.143 7.29 0.00 46.39 3.61
743 745 1.100510 AGCTAGGATCGTGTACGCAA 58.899 50.000 7.29 0.00 39.60 4.85
744 746 1.871676 CTAGCTAGGATCGTGTACGCA 59.128 52.381 13.32 0.00 39.60 5.24
745 747 1.399984 GCTAGCTAGGATCGTGTACGC 60.400 57.143 22.10 0.00 39.60 4.42
746 748 2.144730 AGCTAGCTAGGATCGTGTACG 58.855 52.381 17.69 0.00 41.45 3.67
747 749 3.125658 GCTAGCTAGCTAGGATCGTGTAC 59.874 52.174 39.60 22.91 45.62 2.90
748 750 3.336468 GCTAGCTAGCTAGGATCGTGTA 58.664 50.000 39.60 13.88 45.62 2.90
749 751 2.156098 GCTAGCTAGCTAGGATCGTGT 58.844 52.381 39.60 11.75 45.62 4.49
750 752 2.911819 GCTAGCTAGCTAGGATCGTG 57.088 55.000 39.60 22.25 45.62 4.35
761 763 2.383855 ACCTGTTCTCTGGCTAGCTAG 58.616 52.381 21.31 21.31 36.34 3.42
762 764 2.497675 CAACCTGTTCTCTGGCTAGCTA 59.502 50.000 15.72 7.83 36.34 3.32
763 765 1.277557 CAACCTGTTCTCTGGCTAGCT 59.722 52.381 15.72 0.00 36.34 3.32
764 766 1.276421 TCAACCTGTTCTCTGGCTAGC 59.724 52.381 6.04 6.04 36.34 3.42
765 767 3.450457 AGATCAACCTGTTCTCTGGCTAG 59.550 47.826 0.00 0.00 36.34 3.42
766 768 3.445008 AGATCAACCTGTTCTCTGGCTA 58.555 45.455 0.00 0.00 36.34 3.93
767 769 2.235898 GAGATCAACCTGTTCTCTGGCT 59.764 50.000 0.00 0.00 39.14 4.75
768 770 2.235898 AGAGATCAACCTGTTCTCTGGC 59.764 50.000 13.81 0.00 46.25 4.85
769 771 4.252073 CAAGAGATCAACCTGTTCTCTGG 58.748 47.826 14.84 10.08 46.92 3.86
770 772 3.683822 GCAAGAGATCAACCTGTTCTCTG 59.316 47.826 14.84 11.17 46.92 3.35
772 774 3.683822 CAGCAAGAGATCAACCTGTTCTC 59.316 47.826 0.00 6.62 41.30 2.87
773 775 3.326006 TCAGCAAGAGATCAACCTGTTCT 59.674 43.478 0.00 0.00 0.00 3.01
774 776 3.668447 TCAGCAAGAGATCAACCTGTTC 58.332 45.455 0.00 0.00 0.00 3.18
775 777 3.777106 TCAGCAAGAGATCAACCTGTT 57.223 42.857 0.00 0.00 0.00 3.16
776 778 3.406764 GTTCAGCAAGAGATCAACCTGT 58.593 45.455 0.00 0.00 0.00 4.00
777 779 2.746362 GGTTCAGCAAGAGATCAACCTG 59.254 50.000 0.00 0.00 0.00 4.00
778 780 2.290577 GGGTTCAGCAAGAGATCAACCT 60.291 50.000 7.13 0.00 0.00 3.50
779 781 2.087646 GGGTTCAGCAAGAGATCAACC 58.912 52.381 0.00 0.00 0.00 3.77
780 782 1.734465 CGGGTTCAGCAAGAGATCAAC 59.266 52.381 0.00 0.00 0.00 3.18
781 783 1.339055 CCGGGTTCAGCAAGAGATCAA 60.339 52.381 0.00 0.00 0.00 2.57
782 784 0.250234 CCGGGTTCAGCAAGAGATCA 59.750 55.000 0.00 0.00 0.00 2.92
783 785 0.462759 CCCGGGTTCAGCAAGAGATC 60.463 60.000 14.18 0.00 0.00 2.75
784 786 0.909610 TCCCGGGTTCAGCAAGAGAT 60.910 55.000 22.86 0.00 0.00 2.75
785 787 1.535444 TCCCGGGTTCAGCAAGAGA 60.535 57.895 22.86 0.00 0.00 3.10
786 788 1.078848 CTCCCGGGTTCAGCAAGAG 60.079 63.158 22.86 2.47 0.00 2.85
787 789 1.535444 TCTCCCGGGTTCAGCAAGA 60.535 57.895 22.86 11.38 0.00 3.02
788 790 1.376037 GTCTCCCGGGTTCAGCAAG 60.376 63.158 22.86 8.77 0.00 4.01
789 791 1.415672 AAGTCTCCCGGGTTCAGCAA 61.416 55.000 22.86 0.00 0.00 3.91
790 792 1.415672 AAAGTCTCCCGGGTTCAGCA 61.416 55.000 22.86 0.00 0.00 4.41
791 793 0.250770 AAAAGTCTCCCGGGTTCAGC 60.251 55.000 22.86 7.16 0.00 4.26
792 794 1.809684 GAAAAGTCTCCCGGGTTCAG 58.190 55.000 22.86 11.34 0.00 3.02
793 795 0.034337 CGAAAAGTCTCCCGGGTTCA 59.966 55.000 22.86 0.00 0.00 3.18
794 796 0.319405 TCGAAAAGTCTCCCGGGTTC 59.681 55.000 22.86 14.70 0.00 3.62
795 797 0.320697 CTCGAAAAGTCTCCCGGGTT 59.679 55.000 22.86 5.80 0.00 4.11
796 798 0.541296 TCTCGAAAAGTCTCCCGGGT 60.541 55.000 22.86 0.00 0.00 5.28
797 799 0.173708 CTCTCGAAAAGTCTCCCGGG 59.826 60.000 16.85 16.85 0.00 5.73
798 800 1.133407 CTCTCTCGAAAAGTCTCCCGG 59.867 57.143 0.00 0.00 0.00 5.73
799 801 1.468395 GCTCTCTCGAAAAGTCTCCCG 60.468 57.143 0.00 0.00 0.00 5.14
800 802 1.822371 AGCTCTCTCGAAAAGTCTCCC 59.178 52.381 0.00 0.00 0.00 4.30
801 803 2.874849 CAGCTCTCTCGAAAAGTCTCC 58.125 52.381 0.00 0.00 0.00 3.71
802 804 2.258755 GCAGCTCTCTCGAAAAGTCTC 58.741 52.381 0.00 0.00 0.00 3.36
803 805 1.067213 GGCAGCTCTCTCGAAAAGTCT 60.067 52.381 0.00 0.00 0.00 3.24
909 1219 0.253044 TGGCGGAGAAAGATTGGGAG 59.747 55.000 0.00 0.00 0.00 4.30
1149 1459 2.111043 CTGACCTGTGTTGCCCGT 59.889 61.111 0.00 0.00 0.00 5.28
1305 1615 8.139989 GCCATGAAAAGATTTGCAGATACTTAT 58.860 33.333 0.00 0.00 0.00 1.73
1306 1616 7.416664 GGCCATGAAAAGATTTGCAGATACTTA 60.417 37.037 0.00 0.00 0.00 2.24
1372 1682 3.269578 CCATTGTCCATGGCTGACA 57.730 52.632 6.96 3.37 46.59 3.58
1546 1856 1.549203 AATTCAGACGGCTTGCCAAT 58.451 45.000 12.45 0.72 0.00 3.16
1806 2119 5.163754 GGGAATATCTTCTGTTGTTTGTCCG 60.164 44.000 0.00 0.00 0.00 4.79
1833 2146 6.883217 CCATTACCCATTCTCCATATCTGAAG 59.117 42.308 0.00 0.00 0.00 3.02
1922 2235 7.601705 TCCTCCTGAAACATCTTTTGAAATT 57.398 32.000 0.00 0.00 0.00 1.82
2276 2798 2.589720 CTCATGGGCCATTGCTTGATA 58.410 47.619 18.46 0.00 37.74 2.15
2414 2948 7.944729 AACACTGCAATTCACCTATATTCTT 57.055 32.000 0.00 0.00 0.00 2.52
2421 2955 3.373748 CGCATAACACTGCAATTCACCTA 59.626 43.478 0.00 0.00 42.40 3.08
2467 3001 2.428544 TCCCTCTCTCTCTTCCTTCG 57.571 55.000 0.00 0.00 0.00 3.79
2640 3477 1.410083 GCATGCCAAATCCAGGAGGTA 60.410 52.381 6.36 0.00 35.89 3.08
2681 3536 2.282745 AGCCCCAAAGACAGCAGC 60.283 61.111 0.00 0.00 0.00 5.25
2682 3537 1.975407 CCAGCCCCAAAGACAGCAG 60.975 63.158 0.00 0.00 0.00 4.24
2683 3538 2.115910 CCAGCCCCAAAGACAGCA 59.884 61.111 0.00 0.00 0.00 4.41
2684 3539 1.527433 GAACCAGCCCCAAAGACAGC 61.527 60.000 0.00 0.00 0.00 4.40
2685 3540 0.111253 AGAACCAGCCCCAAAGACAG 59.889 55.000 0.00 0.00 0.00 3.51
2686 3541 0.178992 CAGAACCAGCCCCAAAGACA 60.179 55.000 0.00 0.00 0.00 3.41
2687 3542 0.178990 ACAGAACCAGCCCCAAAGAC 60.179 55.000 0.00 0.00 0.00 3.01
2688 3543 0.110486 GACAGAACCAGCCCCAAAGA 59.890 55.000 0.00 0.00 0.00 2.52
2689 3544 0.111253 AGACAGAACCAGCCCCAAAG 59.889 55.000 0.00 0.00 0.00 2.77
2690 3545 0.110486 GAGACAGAACCAGCCCCAAA 59.890 55.000 0.00 0.00 0.00 3.28
2691 3546 0.768221 AGAGACAGAACCAGCCCCAA 60.768 55.000 0.00 0.00 0.00 4.12
2692 3547 1.152030 AGAGACAGAACCAGCCCCA 60.152 57.895 0.00 0.00 0.00 4.96
2693 3548 1.194781 TCAGAGACAGAACCAGCCCC 61.195 60.000 0.00 0.00 0.00 5.80
2694 3549 0.908198 ATCAGAGACAGAACCAGCCC 59.092 55.000 0.00 0.00 0.00 5.19
2695 3550 1.470632 CGATCAGAGACAGAACCAGCC 60.471 57.143 0.00 0.00 0.00 4.85
2911 4382 1.640917 AAACTTCGACAGGAGGGCTA 58.359 50.000 0.00 0.00 0.00 3.93
3117 4588 1.509463 CGTGGTGCCTTACGAGCTA 59.491 57.895 0.00 0.00 42.54 3.32
3121 4592 4.382320 GCCCGTGGTGCCTTACGA 62.382 66.667 5.45 0.00 42.54 3.43


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

AutoCloner maintained by Alex Coulton.