Multiple sequence alignment - TraesCS6A01G267300

Loading Multiple Alignment...

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 TraesCS6A01G267300 chr6A 100.000 3887 0 0 1 3887 492802932 492806818 0 7179
1 TraesCS6A01G267300 chr6B 94.754 3927 144 30 1 3887 528912463 528916367 0 6054
2 TraesCS6A01G267300 chr6D 94.600 3185 106 31 47 3197 350931179 350928027 0 4868
3 TraesCS6A01G267300 chr6D 92.439 701 35 7 3193 3887 350915305 350914617 0 985


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 TraesCS6A01G267300 chr6A 492802932 492806818 3886 False 7179 7179 100.000 1 3887 1 chr6A.!!$F1 3886
1 TraesCS6A01G267300 chr6B 528912463 528916367 3904 False 6054 6054 94.754 1 3887 1 chr6B.!!$F1 3886
2 TraesCS6A01G267300 chr6D 350928027 350931179 3152 True 4868 4868 94.600 47 3197 1 chr6D.!!$R2 3150
3 TraesCS6A01G267300 chr6D 350914617 350915305 688 True 985 985 92.439 3193 3887 1 chr6D.!!$R1 694

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
691 709 0.034186 GGGAAGTGGGCATGATCACA 60.034 55.000 17.22 0.0 36.43 3.58 F
1065 1102 0.251341 GCACCACCATCCCAAACTCT 60.251 55.000 0.00 0.0 0.00 3.24 F
2239 2276 1.667830 CGAAGGAAAGGTGCTGCGA 60.668 57.895 0.00 0.0 46.88 5.10 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1565 1602 0.907486 CAGACAGGAGAAGCATGGGA 59.093 55.000 0.0 0.0 31.2 4.37 R
2629 2666 1.207089 CTCCAGCACCGATACCTGAAA 59.793 52.381 0.0 0.0 0.0 2.69 R
3305 3343 2.301870 ACAGGGTGATTTGCTAGAACGA 59.698 45.455 0.0 0.0 0.0 3.85 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
94 95 5.594317 TCCTCTGATCAACGATGAGTTATGA 59.406 40.000 0.82 0.00 42.02 2.15
147 163 1.682854 AGGGTGCATGTGAAAACTGTG 59.317 47.619 0.00 0.00 0.00 3.66
186 202 6.677187 GCGTATATGCTATGGAATGTCTCGTA 60.677 42.308 9.78 0.00 0.00 3.43
193 209 0.804933 GGAATGTCTCGTACGGCCAC 60.805 60.000 16.52 10.02 0.00 5.01
211 227 1.475280 CACTGGCCATCCAATGACTTG 59.525 52.381 5.51 0.00 41.92 3.16
260 276 1.301716 ACACGCTGACACATGGACC 60.302 57.895 0.00 0.00 0.00 4.46
550 567 5.175491 TCGTAAATGGCGTATACGGAATTTC 59.825 40.000 25.55 8.43 41.89 2.17
553 571 5.821516 AATGGCGTATACGGAATTTCAAA 57.178 34.783 25.55 2.12 40.23 2.69
557 575 4.261031 GGCGTATACGGAATTTCAAATGCT 60.261 41.667 25.55 0.00 40.23 3.79
560 578 6.355638 CGTATACGGAATTTCAAATGCTCTC 58.644 40.000 17.61 0.00 35.37 3.20
580 598 1.060937 GCTCGTGTATTTGGCAGCG 59.939 57.895 0.00 0.00 0.00 5.18
582 600 1.075542 CTCGTGTATTTGGCAGCGAA 58.924 50.000 0.00 0.00 0.00 4.70
585 603 1.464023 CGTGTATTTGGCAGCGAACAG 60.464 52.381 0.00 0.00 0.00 3.16
596 614 0.940126 AGCGAACAGACAAGCAACAG 59.060 50.000 0.00 0.00 0.00 3.16
597 615 0.937304 GCGAACAGACAAGCAACAGA 59.063 50.000 0.00 0.00 0.00 3.41
600 618 2.033407 CGAACAGACAAGCAACAGACAG 60.033 50.000 0.00 0.00 0.00 3.51
619 637 8.800332 ACAGACAGATTAATTTTCAGCAAAGAT 58.200 29.630 0.00 0.00 0.00 2.40
632 650 7.658179 TTCAGCAAAGATCACTAGTAAGTTG 57.342 36.000 0.00 0.00 31.97 3.16
635 653 8.097038 TCAGCAAAGATCACTAGTAAGTTGATT 58.903 33.333 0.00 0.00 31.97 2.57
636 654 9.371136 CAGCAAAGATCACTAGTAAGTTGATTA 57.629 33.333 0.00 0.00 31.97 1.75
637 655 9.944376 AGCAAAGATCACTAGTAAGTTGATTAA 57.056 29.630 0.00 0.00 31.97 1.40
644 662 9.798994 ATCACTAGTAAGTTGATTAACTAACCG 57.201 33.333 2.94 0.00 46.14 4.44
681 699 2.729028 ATAAATCACCGGGAAGTGGG 57.271 50.000 6.32 0.00 38.34 4.61
682 700 0.034863 TAAATCACCGGGAAGTGGGC 60.035 55.000 6.32 0.00 38.34 5.36
683 701 2.075355 AAATCACCGGGAAGTGGGCA 62.075 55.000 6.32 0.00 38.34 5.36
684 702 1.863155 AATCACCGGGAAGTGGGCAT 61.863 55.000 6.32 0.00 38.34 4.40
685 703 2.556840 ATCACCGGGAAGTGGGCATG 62.557 60.000 6.32 0.00 38.34 4.06
687 705 2.308722 ACCGGGAAGTGGGCATGAT 61.309 57.895 6.32 0.00 0.00 2.45
688 706 1.526917 CCGGGAAGTGGGCATGATC 60.527 63.158 0.00 0.00 0.00 2.92
689 707 1.224315 CGGGAAGTGGGCATGATCA 59.776 57.895 0.00 0.00 0.00 2.92
690 708 1.097547 CGGGAAGTGGGCATGATCAC 61.098 60.000 0.00 3.66 0.00 3.06
691 709 0.034186 GGGAAGTGGGCATGATCACA 60.034 55.000 17.22 0.00 36.43 3.58
692 710 1.386533 GGAAGTGGGCATGATCACAG 58.613 55.000 17.22 0.00 36.43 3.66
695 714 2.885135 AGTGGGCATGATCACAGAAA 57.115 45.000 17.22 0.00 36.43 2.52
703 722 4.201990 GGCATGATCACAGAAAGGAATCAC 60.202 45.833 0.00 0.00 0.00 3.06
730 749 5.669111 GCTTTTCGTAGTAAGAAAGCTCAGC 60.669 44.000 13.51 13.51 38.61 4.26
750 769 2.906354 CGTCCAGGGAAAGAATACAGG 58.094 52.381 0.00 0.00 0.00 4.00
756 775 4.321974 CCAGGGAAAGAATACAGGCAAAAC 60.322 45.833 0.00 0.00 0.00 2.43
790 827 8.442632 TTCATTTTCAGATCACTATAAGCTGG 57.557 34.615 0.00 0.00 0.00 4.85
808 845 2.421725 TGGCCCTGATATCACCAGAAT 58.578 47.619 9.00 0.00 33.65 2.40
809 846 2.785269 TGGCCCTGATATCACCAGAATT 59.215 45.455 9.00 0.00 33.65 2.17
810 847 3.181440 TGGCCCTGATATCACCAGAATTC 60.181 47.826 9.00 0.00 33.65 2.17
811 848 3.416156 GCCCTGATATCACCAGAATTCC 58.584 50.000 0.00 0.00 33.65 3.01
813 850 4.649692 CCCTGATATCACCAGAATTCCAG 58.350 47.826 0.00 0.00 33.65 3.86
815 852 5.163163 CCCTGATATCACCAGAATTCCAGAA 60.163 44.000 0.00 0.00 33.65 3.02
817 854 6.830324 CCTGATATCACCAGAATTCCAGAAAA 59.170 38.462 0.00 0.00 33.65 2.29
818 855 7.013083 CCTGATATCACCAGAATTCCAGAAAAG 59.987 40.741 0.00 0.00 33.65 2.27
819 856 7.632861 TGATATCACCAGAATTCCAGAAAAGA 58.367 34.615 0.00 0.00 0.00 2.52
820 857 8.108999 TGATATCACCAGAATTCCAGAAAAGAA 58.891 33.333 0.00 0.00 0.00 2.52
821 858 8.884124 ATATCACCAGAATTCCAGAAAAGAAA 57.116 30.769 0.65 0.00 0.00 2.52
824 861 7.491682 TCACCAGAATTCCAGAAAAGAAAAAG 58.508 34.615 0.65 0.00 0.00 2.27
826 863 7.650903 CACCAGAATTCCAGAAAAGAAAAAGAG 59.349 37.037 0.65 0.00 0.00 2.85
888 925 8.611257 TCTCATTTCCCTCCTTATGTTTTCTTA 58.389 33.333 0.00 0.00 0.00 2.10
928 965 5.999205 TCTTTCATCAAGCTCTCTCTTCT 57.001 39.130 0.00 0.00 31.70 2.85
942 979 2.110899 TCTCTTCTCCCCAAGTCTCAGT 59.889 50.000 0.00 0.00 0.00 3.41
943 980 2.903135 CTCTTCTCCCCAAGTCTCAGTT 59.097 50.000 0.00 0.00 0.00 3.16
944 981 4.090090 CTCTTCTCCCCAAGTCTCAGTTA 58.910 47.826 0.00 0.00 0.00 2.24
945 982 3.833070 TCTTCTCCCCAAGTCTCAGTTAC 59.167 47.826 0.00 0.00 0.00 2.50
946 983 3.254093 TCTCCCCAAGTCTCAGTTACA 57.746 47.619 0.00 0.00 0.00 2.41
947 984 3.583228 TCTCCCCAAGTCTCAGTTACAA 58.417 45.455 0.00 0.00 0.00 2.41
948 985 3.323979 TCTCCCCAAGTCTCAGTTACAAC 59.676 47.826 0.00 0.00 0.00 3.32
988 1025 0.612744 AAGAGCAGCTCCAAGAGGTC 59.387 55.000 19.40 0.00 38.40 3.85
1022 1059 1.880894 CATTCTGCAGCCCACACAG 59.119 57.895 9.47 0.00 0.00 3.66
1065 1102 0.251341 GCACCACCATCCCAAACTCT 60.251 55.000 0.00 0.00 0.00 3.24
1236 1273 4.695993 TTCATGCGCCGGCTCACA 62.696 61.111 23.54 18.57 40.82 3.58
1579 1616 2.856760 TCTACTCCCATGCTTCTCCT 57.143 50.000 0.00 0.00 0.00 3.69
1581 1618 2.114616 CTACTCCCATGCTTCTCCTGT 58.885 52.381 0.00 0.00 0.00 4.00
1587 1624 2.553904 CCCATGCTTCTCCTGTCTGTTT 60.554 50.000 0.00 0.00 0.00 2.83
1653 1690 2.302157 AGTAGCTGTTGGGTAAGTGGTC 59.698 50.000 0.00 0.00 0.00 4.02
1663 1700 6.207810 TGTTGGGTAAGTGGTCATCATAAAAC 59.792 38.462 0.00 0.00 0.00 2.43
1902 1939 3.498774 AATTCAGGTGAGCTGAACAGT 57.501 42.857 26.94 13.85 42.63 3.55
2088 2125 6.016276 ACTGCCTTTTTACCAACTAATCACAG 60.016 38.462 0.00 0.00 0.00 3.66
2239 2276 1.667830 CGAAGGAAAGGTGCTGCGA 60.668 57.895 0.00 0.00 46.88 5.10
2432 2469 5.141182 TGGCTTATTTACCCTTTTGTGTCA 58.859 37.500 0.00 0.00 0.00 3.58
2471 2508 7.759489 ACTGCTGTTACTTGGAAATAAATCA 57.241 32.000 0.00 0.00 0.00 2.57
2532 2569 5.505181 AGAGAGCTCCAAAACCATTCTTA 57.495 39.130 10.93 0.00 0.00 2.10
2544 2581 7.436673 CCAAAACCATTCTTAGACTAGAGATCG 59.563 40.741 0.00 0.00 0.00 3.69
2629 2666 9.893305 GTACAATCTTAGTGTTTGCTTGTTTAT 57.107 29.630 0.00 0.00 0.00 1.40
3086 3123 7.455008 AGGGTCTCTTATGTCTCTTCTTAACAA 59.545 37.037 0.00 0.00 0.00 2.83
3305 3343 5.128827 AGAACATGTGGACTATTCGGTACAT 59.871 40.000 0.00 0.00 32.21 2.29
3306 3344 4.945246 ACATGTGGACTATTCGGTACATC 58.055 43.478 0.00 0.00 32.21 3.06
3394 3432 7.715265 ATCATCCACTAACAAACGTATCATC 57.285 36.000 0.00 0.00 0.00 2.92
3396 3434 5.408880 TCCACTAACAAACGTATCATCCA 57.591 39.130 0.00 0.00 0.00 3.41
3415 3453 9.818270 ATCATCCATGATAACAGAAATGGTTAT 57.182 29.630 0.00 0.00 45.17 1.89
3419 3457 9.473007 TCCATGATAACAGAAATGGTTATGAAA 57.527 29.630 0.00 0.00 40.51 2.69
3457 3495 9.199982 CAATCATGTCATTATTATGGAAAAGGC 57.800 33.333 0.00 0.00 32.40 4.35
3658 3699 5.537674 ACTCACTTTCTCAGCCAAAATTCAT 59.462 36.000 0.00 0.00 0.00 2.57
3796 3840 7.589587 TCGATGCAAACCATATAAATTTTAGCG 59.410 33.333 0.00 0.00 33.29 4.26
3804 3848 9.835389 AACCATATAAATTTTAGCGGTACAGTA 57.165 29.630 0.00 0.00 0.00 2.74
3869 3913 4.037089 TCAGTGTGTAAGTGCGAGAAGTTA 59.963 41.667 0.00 0.00 0.00 2.24
3878 3922 0.320421 GCGAGAAGTTACAGGCCACA 60.320 55.000 5.01 0.00 0.00 4.17
3881 3925 2.417719 GAGAAGTTACAGGCCACACAG 58.582 52.381 5.01 0.00 0.00 3.66
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
94 95 7.661847 AGAATTCCTTTTGACTCGTTACAGAAT 59.338 33.333 0.65 0.00 0.00 2.40
211 227 2.123428 GTGCCATGTCAGCATCCCC 61.123 63.158 0.00 0.00 43.29 4.81
402 419 6.013379 TGGTTCCATGGATCTAGATATGGTTC 60.013 42.308 24.57 19.47 40.68 3.62
533 550 4.496673 GCATTTGAAATTCCGTATACGCCA 60.497 41.667 19.86 8.34 38.18 5.69
557 575 0.459585 GCCAAATACACGAGCGGAGA 60.460 55.000 0.00 0.00 0.00 3.71
560 578 1.715585 CTGCCAAATACACGAGCGG 59.284 57.895 0.00 0.00 0.00 5.52
580 598 3.198068 TCTGTCTGTTGCTTGTCTGTTC 58.802 45.455 0.00 0.00 0.00 3.18
582 600 2.988010 TCTGTCTGTTGCTTGTCTGT 57.012 45.000 0.00 0.00 0.00 3.41
585 603 7.862372 TGAAAATTAATCTGTCTGTTGCTTGTC 59.138 33.333 0.00 0.00 0.00 3.18
596 614 9.070149 GTGATCTTTGCTGAAAATTAATCTGTC 57.930 33.333 0.00 0.00 0.00 3.51
597 615 8.800332 AGTGATCTTTGCTGAAAATTAATCTGT 58.200 29.630 0.00 0.00 0.00 3.41
619 637 9.013229 TCGGTTAGTTAATCAACTTACTAGTGA 57.987 33.333 5.39 0.00 42.51 3.41
626 644 8.752187 ACCTGTATCGGTTAGTTAATCAACTTA 58.248 33.333 0.00 0.00 44.60 2.24
660 678 3.361786 CCCACTTCCCGGTGATTTATTT 58.638 45.455 0.00 0.00 39.34 1.40
662 680 1.409661 GCCCACTTCCCGGTGATTTAT 60.410 52.381 0.00 0.00 39.34 1.40
663 681 0.034863 GCCCACTTCCCGGTGATTTA 60.035 55.000 0.00 0.00 39.34 1.40
666 684 2.308722 ATGCCCACTTCCCGGTGAT 61.309 57.895 0.00 0.00 39.34 3.06
667 685 2.933287 ATGCCCACTTCCCGGTGA 60.933 61.111 0.00 0.00 39.34 4.02
668 686 2.556840 ATCATGCCCACTTCCCGGTG 62.557 60.000 0.00 0.00 37.00 4.94
669 687 2.270874 GATCATGCCCACTTCCCGGT 62.271 60.000 0.00 0.00 0.00 5.28
670 688 1.526917 GATCATGCCCACTTCCCGG 60.527 63.158 0.00 0.00 0.00 5.73
671 689 1.097547 GTGATCATGCCCACTTCCCG 61.098 60.000 0.00 0.00 0.00 5.14
672 690 0.034186 TGTGATCATGCCCACTTCCC 60.034 55.000 15.13 0.00 34.57 3.97
673 691 1.065199 TCTGTGATCATGCCCACTTCC 60.065 52.381 15.13 0.00 34.57 3.46
674 692 2.408271 TCTGTGATCATGCCCACTTC 57.592 50.000 15.13 0.00 34.57 3.01
675 693 2.885135 TTCTGTGATCATGCCCACTT 57.115 45.000 15.13 0.00 34.57 3.16
677 695 1.747355 CCTTTCTGTGATCATGCCCAC 59.253 52.381 0.00 9.47 0.00 4.61
678 696 1.634973 TCCTTTCTGTGATCATGCCCA 59.365 47.619 0.00 0.00 0.00 5.36
679 697 2.425143 TCCTTTCTGTGATCATGCCC 57.575 50.000 0.00 0.00 0.00 5.36
681 699 4.397103 TGTGATTCCTTTCTGTGATCATGC 59.603 41.667 0.00 0.00 0.00 4.06
682 700 6.505044 TTGTGATTCCTTTCTGTGATCATG 57.495 37.500 0.00 0.00 0.00 3.07
683 701 5.125097 GCTTGTGATTCCTTTCTGTGATCAT 59.875 40.000 0.00 0.00 0.00 2.45
684 702 4.456911 GCTTGTGATTCCTTTCTGTGATCA 59.543 41.667 0.00 0.00 0.00 2.92
685 703 4.699257 AGCTTGTGATTCCTTTCTGTGATC 59.301 41.667 0.00 0.00 0.00 2.92
687 705 4.090761 AGCTTGTGATTCCTTTCTGTGA 57.909 40.909 0.00 0.00 0.00 3.58
688 706 4.843220 AAGCTTGTGATTCCTTTCTGTG 57.157 40.909 0.00 0.00 0.00 3.66
689 707 5.506317 CGAAAAGCTTGTGATTCCTTTCTGT 60.506 40.000 0.00 0.00 0.00 3.41
690 708 4.913924 CGAAAAGCTTGTGATTCCTTTCTG 59.086 41.667 0.00 0.00 0.00 3.02
691 709 4.580580 ACGAAAAGCTTGTGATTCCTTTCT 59.419 37.500 0.00 0.00 0.00 2.52
692 710 4.860072 ACGAAAAGCTTGTGATTCCTTTC 58.140 39.130 0.00 0.00 0.00 2.62
695 714 4.642429 ACTACGAAAAGCTTGTGATTCCT 58.358 39.130 0.00 0.00 0.00 3.36
703 722 6.073765 TGAGCTTTCTTACTACGAAAAGCTTG 60.074 38.462 18.84 0.00 36.23 4.01
730 749 2.906354 CCTGTATTCTTTCCCTGGACG 58.094 52.381 0.00 0.00 0.00 4.79
756 775 7.080099 AGTGATCTGAAAATGAAACAATCGTG 58.920 34.615 0.00 0.00 0.00 4.35
790 827 3.181440 TGGAATTCTGGTGATATCAGGGC 60.181 47.826 5.42 0.00 33.36 5.19
831 868 1.639108 GTGGTGTCCCTATTTCCCCTT 59.361 52.381 0.00 0.00 0.00 3.95
833 870 0.996583 TGTGGTGTCCCTATTTCCCC 59.003 55.000 0.00 0.00 0.00 4.81
836 873 4.576463 GTGATGATGTGGTGTCCCTATTTC 59.424 45.833 0.00 0.00 0.00 2.17
845 882 2.573009 TGAGATGGTGATGATGTGGTGT 59.427 45.455 0.00 0.00 0.00 4.16
846 883 3.271055 TGAGATGGTGATGATGTGGTG 57.729 47.619 0.00 0.00 0.00 4.17
888 925 5.247110 TGAAAGAACTGTGGAGATAAGAGCT 59.753 40.000 0.00 0.00 0.00 4.09
928 965 3.314693 AGTTGTAACTGAGACTTGGGGA 58.685 45.455 0.00 0.00 37.98 4.81
942 979 4.825085 CCCTTCAAGCCTTGTAAGTTGTAA 59.175 41.667 4.04 0.00 0.00 2.41
943 980 4.394729 CCCTTCAAGCCTTGTAAGTTGTA 58.605 43.478 4.04 0.00 0.00 2.41
944 981 3.222603 CCCTTCAAGCCTTGTAAGTTGT 58.777 45.455 4.04 0.00 0.00 3.32
945 982 2.558359 CCCCTTCAAGCCTTGTAAGTTG 59.442 50.000 4.04 1.80 0.00 3.16
946 983 2.445525 TCCCCTTCAAGCCTTGTAAGTT 59.554 45.455 4.04 0.00 0.00 2.66
947 984 2.040412 CTCCCCTTCAAGCCTTGTAAGT 59.960 50.000 4.04 0.00 0.00 2.24
948 985 2.305927 TCTCCCCTTCAAGCCTTGTAAG 59.694 50.000 4.04 6.94 0.00 2.34
988 1025 2.510064 AATGCCATGTTTGCTGCCCG 62.510 55.000 0.00 0.00 0.00 6.13
1236 1273 1.152963 AGCACCTCCAAACACGCTT 60.153 52.632 0.00 0.00 0.00 4.68
1565 1602 0.907486 CAGACAGGAGAAGCATGGGA 59.093 55.000 0.00 0.00 31.20 4.37
1579 1616 5.527214 CAGACACCAAATACTGAAACAGACA 59.473 40.000 5.76 0.00 35.18 3.41
1581 1618 5.680619 ACAGACACCAAATACTGAAACAGA 58.319 37.500 5.76 0.00 35.18 3.41
1614 1651 6.705381 CAGCTACTGGAATATGAGGAAGAAAG 59.295 42.308 0.00 0.00 0.00 2.62
1622 1659 4.141620 ACCCAACAGCTACTGGAATATGAG 60.142 45.833 13.65 0.00 35.51 2.90
1653 1690 7.599621 TGCTGTGATTCAAAAGGTTTTATGATG 59.400 33.333 0.00 0.00 0.00 3.07
1663 1700 3.054878 GTTGCTGCTGTGATTCAAAAGG 58.945 45.455 0.00 0.00 0.00 3.11
1950 1987 4.094739 GCAAAAGTGCCAGTGATTGTTTTT 59.905 37.500 0.00 0.00 45.68 1.94
2088 2125 6.670077 TTTTGGTTTATGGAAAACACTTGC 57.330 33.333 3.33 0.00 42.01 4.01
2239 2276 8.125978 TGCCTTCTTTCATGATCAATTTAACT 57.874 30.769 0.00 0.00 0.00 2.24
2412 2449 7.419204 TCGTTTGACACAAAAGGGTAAATAAG 58.581 34.615 9.37 0.00 0.00 1.73
2432 2469 8.216884 AGTAACAGCAGTTAGCATTACTCGTTT 61.217 37.037 1.40 0.00 46.17 3.60
2471 2508 5.937111 TGGACTACTTGCTAGGTTTCTTTT 58.063 37.500 0.00 0.00 0.00 2.27
2507 2544 5.249420 AGAATGGTTTTGGAGCTCTCTTAC 58.751 41.667 14.64 7.29 0.00 2.34
2532 2569 6.822442 TCAGTGAATAGTCGATCTCTAGTCT 58.178 40.000 16.83 0.00 34.79 3.24
2629 2666 1.207089 CTCCAGCACCGATACCTGAAA 59.793 52.381 0.00 0.00 0.00 2.69
2805 2842 7.811282 AGAGATCTCTAATCTTCAGTCCTACA 58.189 38.462 23.98 0.00 38.35 2.74
2888 2925 2.351738 CGTGAACTTGAATTTGGGGCTC 60.352 50.000 0.00 0.00 0.00 4.70
3086 3123 5.989477 TGGGAGAAGATGTACATCGAAATT 58.011 37.500 26.13 16.81 42.48 1.82
3246 3284 5.473162 CACAATTCTGTCTACAAATCCACCA 59.527 40.000 0.00 0.00 31.64 4.17
3305 3343 2.301870 ACAGGGTGATTTGCTAGAACGA 59.698 45.455 0.00 0.00 0.00 3.85
3306 3344 2.416547 CACAGGGTGATTTGCTAGAACG 59.583 50.000 0.00 0.00 35.23 3.95
3415 3453 8.747471 TGACATGATTGTTATGCCTTAATTTCA 58.253 29.630 0.00 0.00 35.79 2.69
3457 3495 6.728200 TCTTTCTTGAAAGTAGCACAATGTG 58.272 36.000 18.84 9.36 36.51 3.21
3794 3838 2.413634 GCCAATTGTTGTACTGTACCGC 60.414 50.000 14.91 8.37 0.00 5.68
3796 3840 4.794169 CTTGCCAATTGTTGTACTGTACC 58.206 43.478 14.91 1.78 0.00 3.34
3804 3848 2.965147 ACCTTAGCTTGCCAATTGTTGT 59.035 40.909 4.43 0.00 0.00 3.32


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

AutoCloner maintained by Alex Coulton.