Multiple sequence alignment - TraesCS3D01G431700

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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 TraesCS3D01G431700 chr3D 100.000 2790 0 0 1 2790 545338736 545341525 0 5153
1 TraesCS3D01G431700 chr3B 89.829 2871 146 62 1 2790 721492847 721495652 0 3550
2 TraesCS3D01G431700 chr3A 86.919 2882 165 83 1 2790 681747016 681749777 0 3038


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 TraesCS3D01G431700 chr3D 545338736 545341525 2789 False 5153 5153 100.000 1 2790 1 chr3D.!!$F1 2789
1 TraesCS3D01G431700 chr3B 721492847 721495652 2805 False 3550 3550 89.829 1 2790 1 chr3B.!!$F1 2789
2 TraesCS3D01G431700 chr3A 681747016 681749777 2761 False 3038 3038 86.919 1 2790 1 chr3A.!!$F1 2789

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
935 1032 0.107214 CACACGGCCTATTGACCCAT 60.107 55.0 0.0 0.0 0.0 4.00 F
937 1034 0.535102 CACGGCCTATTGACCCATCC 60.535 60.0 0.0 0.0 0.0 3.51 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1750 1863 0.181350 AATTGGAGGCGGTCTCATCC 59.819 55.0 12.28 0.0 44.19 3.51 R
2110 2235 0.249868 AGCTGTTTGCAGTCGCTACA 60.250 50.0 0.00 0.0 45.94 2.74 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
17 18 4.284550 AGCCAAAGCCGGAGCCAA 62.285 61.111 5.05 0.00 41.25 4.52
72 77 2.176546 CGGCCGTGCATTTGACTG 59.823 61.111 19.50 0.00 0.00 3.51
73 78 2.568090 GGCCGTGCATTTGACTGG 59.432 61.111 0.00 0.00 0.00 4.00
104 109 2.091555 TGTAAAGTCCACCCCAAAAGCT 60.092 45.455 0.00 0.00 0.00 3.74
106 111 1.115326 AAGTCCACCCCAAAAGCTGC 61.115 55.000 0.00 0.00 0.00 5.25
107 112 1.832167 GTCCACCCCAAAAGCTGCA 60.832 57.895 1.02 0.00 0.00 4.41
108 113 1.531365 TCCACCCCAAAAGCTGCAG 60.531 57.895 10.11 10.11 0.00 4.41
109 114 1.833934 CCACCCCAAAAGCTGCAGT 60.834 57.895 16.64 0.00 0.00 4.40
110 115 0.539438 CCACCCCAAAAGCTGCAGTA 60.539 55.000 16.64 0.00 0.00 2.74
111 116 1.327303 CACCCCAAAAGCTGCAGTAA 58.673 50.000 16.64 0.00 0.00 2.24
112 117 1.895131 CACCCCAAAAGCTGCAGTAAT 59.105 47.619 16.64 0.00 0.00 1.89
114 119 3.509575 CACCCCAAAAGCTGCAGTAATTA 59.490 43.478 16.64 0.00 0.00 1.40
115 120 4.021544 CACCCCAAAAGCTGCAGTAATTAA 60.022 41.667 16.64 0.00 0.00 1.40
116 121 4.220602 ACCCCAAAAGCTGCAGTAATTAAG 59.779 41.667 16.64 1.30 0.00 1.85
124 129 5.888105 AGCTGCAGTAATTAAGCTTGAATG 58.112 37.500 16.64 2.58 43.33 2.67
126 131 6.320672 AGCTGCAGTAATTAAGCTTGAATGAT 59.679 34.615 16.64 0.00 43.33 2.45
127 132 6.417044 GCTGCAGTAATTAAGCTTGAATGATG 59.583 38.462 16.64 2.80 32.82 3.07
133 150 8.742777 AGTAATTAAGCTTGAATGATGCTTCAA 58.257 29.630 9.86 2.67 42.54 2.69
140 157 1.401905 GAATGATGCTTCAACCCGGAC 59.598 52.381 0.73 0.00 34.96 4.79
288 305 1.519455 GGCCAAGGAGACGACGATG 60.519 63.158 0.00 0.00 0.00 3.84
293 310 3.372954 CCAAGGAGACGACGATGATAAC 58.627 50.000 0.00 0.00 0.00 1.89
296 313 4.920640 AGGAGACGACGATGATAACAAT 57.079 40.909 0.00 0.00 0.00 2.71
299 316 6.982852 AGGAGACGACGATGATAACAATAAT 58.017 36.000 0.00 0.00 0.00 1.28
300 317 8.107399 AGGAGACGACGATGATAACAATAATA 57.893 34.615 0.00 0.00 0.00 0.98
401 423 2.379459 GCTTCTCCTTCCCCCTCCC 61.379 68.421 0.00 0.00 0.00 4.30
402 424 1.398234 CTTCTCCTTCCCCCTCCCT 59.602 63.158 0.00 0.00 0.00 4.20
465 488 5.238583 AGATGAGAAGGAATTTCGTTTCGT 58.761 37.500 5.86 6.97 40.86 3.85
466 489 5.701290 AGATGAGAAGGAATTTCGTTTCGTT 59.299 36.000 5.86 4.15 40.86 3.85
467 490 5.744666 TGAGAAGGAATTTCGTTTCGTTT 57.255 34.783 5.86 0.00 40.86 3.60
468 491 5.744490 TGAGAAGGAATTTCGTTTCGTTTC 58.256 37.500 5.86 1.36 40.86 2.78
469 492 5.104562 AGAAGGAATTTCGTTTCGTTTCC 57.895 39.130 5.86 10.57 40.86 3.13
603 651 4.767255 CAGAGGGACCCTGCGTGC 62.767 72.222 20.90 2.26 31.76 5.34
605 653 4.459089 GAGGGACCCTGCGTGCTC 62.459 72.222 20.90 0.00 31.76 4.26
767 834 4.988598 CACGACACCGGCTGCCTT 62.989 66.667 17.92 0.00 40.78 4.35
768 835 4.681978 ACGACACCGGCTGCCTTC 62.682 66.667 17.92 6.74 40.78 3.46
770 837 4.021925 GACACCGGCTGCCTTCCT 62.022 66.667 17.92 0.00 0.00 3.36
771 838 4.335647 ACACCGGCTGCCTTCCTG 62.336 66.667 17.92 8.47 0.00 3.86
796 863 2.224450 GCCACTATATAACCGCCAACCT 60.224 50.000 0.00 0.00 0.00 3.50
832 899 0.471022 TAGCTATCATCCCGCACCCA 60.471 55.000 0.00 0.00 0.00 4.51
833 900 1.148273 GCTATCATCCCGCACCCAA 59.852 57.895 0.00 0.00 0.00 4.12
834 901 1.166531 GCTATCATCCCGCACCCAAC 61.167 60.000 0.00 0.00 0.00 3.77
835 902 0.469917 CTATCATCCCGCACCCAACT 59.530 55.000 0.00 0.00 0.00 3.16
836 903 1.691976 CTATCATCCCGCACCCAACTA 59.308 52.381 0.00 0.00 0.00 2.24
837 904 0.180406 ATCATCCCGCACCCAACTAC 59.820 55.000 0.00 0.00 0.00 2.73
838 905 0.907704 TCATCCCGCACCCAACTACT 60.908 55.000 0.00 0.00 0.00 2.57
842 909 1.258445 CCCGCACCCAACTACTCTCT 61.258 60.000 0.00 0.00 0.00 3.10
843 910 0.108615 CCGCACCCAACTACTCTCTG 60.109 60.000 0.00 0.00 0.00 3.35
845 912 0.610687 GCACCCAACTACTCTCTGCT 59.389 55.000 0.00 0.00 0.00 4.24
877 969 3.733507 ATGGAGGGGCGAGCGAGTA 62.734 63.158 0.00 0.00 0.00 2.59
878 970 3.902086 GGAGGGGCGAGCGAGTAC 61.902 72.222 0.00 0.00 0.00 2.73
879 971 3.902086 GAGGGGCGAGCGAGTACC 61.902 72.222 0.00 0.00 0.00 3.34
925 1022 3.177194 TACAGCAAGCACACGGCCT 62.177 57.895 0.00 0.00 46.50 5.19
928 1025 1.002134 AGCAAGCACACGGCCTATT 60.002 52.632 0.00 0.00 46.50 1.73
929 1026 1.137404 GCAAGCACACGGCCTATTG 59.863 57.895 0.00 0.00 46.50 1.90
930 1027 1.305219 GCAAGCACACGGCCTATTGA 61.305 55.000 0.00 0.00 46.50 2.57
931 1028 0.447801 CAAGCACACGGCCTATTGAC 59.552 55.000 0.00 0.00 46.50 3.18
932 1029 0.676782 AAGCACACGGCCTATTGACC 60.677 55.000 0.00 0.00 46.50 4.02
933 1030 2.112815 GCACACGGCCTATTGACCC 61.113 63.158 0.00 0.00 36.11 4.46
934 1031 1.298340 CACACGGCCTATTGACCCA 59.702 57.895 0.00 0.00 0.00 4.51
935 1032 0.107214 CACACGGCCTATTGACCCAT 60.107 55.000 0.00 0.00 0.00 4.00
937 1034 0.535102 CACGGCCTATTGACCCATCC 60.535 60.000 0.00 0.00 0.00 3.51
952 1049 1.317613 CATCCGAGACAGAGAGAGGG 58.682 60.000 0.00 0.00 0.00 4.30
957 1054 2.484770 CCGAGACAGAGAGAGGGAGTAG 60.485 59.091 0.00 0.00 0.00 2.57
981 1081 2.065899 TGCTTGCTTAGTTGGGTTGT 57.934 45.000 0.00 0.00 0.00 3.32
1185 1298 2.815308 GACATCATCCCCGTCGCT 59.185 61.111 0.00 0.00 0.00 4.93
1299 1412 2.462255 ATTGCGCTGACTGTTTGCCG 62.462 55.000 9.73 0.00 0.00 5.69
1540 1653 2.490217 CACGAGTACCGCCTCCTG 59.510 66.667 0.00 0.00 43.32 3.86
1750 1863 2.818132 GGCATGGAGGAGGACGAG 59.182 66.667 0.00 0.00 0.00 4.18
1856 1969 0.037512 TGCCCCGTTAATTCGTCGAA 60.038 50.000 10.61 10.61 0.00 3.71
2062 2184 4.467735 GGAGTTCTTTTGCTCGTGAATTC 58.532 43.478 0.00 0.00 32.83 2.17
2072 2197 2.095053 GCTCGTGAATTCCAGCTTCTTC 59.905 50.000 2.27 0.00 0.00 2.87
2073 2198 3.594134 CTCGTGAATTCCAGCTTCTTCT 58.406 45.455 2.27 0.00 0.00 2.85
2074 2199 3.999663 CTCGTGAATTCCAGCTTCTTCTT 59.000 43.478 2.27 0.00 0.00 2.52
2075 2200 3.748048 TCGTGAATTCCAGCTTCTTCTTG 59.252 43.478 2.27 0.00 0.00 3.02
2076 2201 3.499918 CGTGAATTCCAGCTTCTTCTTGT 59.500 43.478 2.27 0.00 0.00 3.16
2077 2202 4.690748 CGTGAATTCCAGCTTCTTCTTGTA 59.309 41.667 2.27 0.00 0.00 2.41
2078 2203 5.389935 CGTGAATTCCAGCTTCTTCTTGTAC 60.390 44.000 2.27 0.00 0.00 2.90
2079 2204 5.703130 GTGAATTCCAGCTTCTTCTTGTACT 59.297 40.000 2.27 0.00 0.00 2.73
2080 2205 6.874134 GTGAATTCCAGCTTCTTCTTGTACTA 59.126 38.462 2.27 0.00 0.00 1.82
2081 2206 6.874134 TGAATTCCAGCTTCTTCTTGTACTAC 59.126 38.462 2.27 0.00 0.00 2.73
2169 2294 3.130160 GCGCAGAGAAAGCAGGGG 61.130 66.667 0.30 0.00 0.00 4.79
2338 2472 0.248825 CTCGAATCCACTCAGGCTCG 60.249 60.000 0.00 0.00 41.25 5.03
2351 2485 4.933064 GCTCGGTCCGGAGATGCG 62.933 72.222 12.29 0.00 36.08 4.73
2435 2570 2.423064 GCCCCCGTTATTGGCAAGG 61.423 63.158 5.96 0.71 44.70 3.61
2460 2595 4.104183 GAATCCCGGCCGGTCCAA 62.104 66.667 40.52 23.90 34.01 3.53
2461 2596 4.419921 AATCCCGGCCGGTCCAAC 62.420 66.667 40.52 0.00 34.01 3.77
2473 2608 1.232119 GGTCCAACCAACGAACGAAT 58.768 50.000 0.14 0.00 38.42 3.34
2476 2611 2.096417 GTCCAACCAACGAACGAATGAG 60.096 50.000 0.14 0.00 0.00 2.90
2477 2612 2.139917 CCAACCAACGAACGAATGAGA 58.860 47.619 0.14 0.00 0.00 3.27
2488 2623 6.363473 ACGAACGAATGAGAGAACAATTTTC 58.637 36.000 0.14 0.00 0.00 2.29
2542 2686 3.838271 TGCCCGCCTCATCTCGTC 61.838 66.667 0.00 0.00 0.00 4.20
2543 2687 3.532155 GCCCGCCTCATCTCGTCT 61.532 66.667 0.00 0.00 0.00 4.18
2544 2688 2.725008 CCCGCCTCATCTCGTCTC 59.275 66.667 0.00 0.00 0.00 3.36
2545 2689 2.121538 CCCGCCTCATCTCGTCTCA 61.122 63.158 0.00 0.00 0.00 3.27
2546 2690 1.459455 CCCGCCTCATCTCGTCTCAT 61.459 60.000 0.00 0.00 0.00 2.90
2588 2732 7.303634 TGAGAATCATATCGTATCGATCGAA 57.696 36.000 23.50 5.69 41.08 3.71
2589 2733 7.402640 TGAGAATCATATCGTATCGATCGAAG 58.597 38.462 23.50 16.11 41.08 3.79
2590 2734 6.195868 AGAATCATATCGTATCGATCGAAGC 58.804 40.000 23.50 16.09 43.45 3.86
2591 2735 4.274421 TCATATCGTATCGATCGAAGCC 57.726 45.455 23.50 11.56 43.45 4.35
2592 2736 2.800694 TATCGTATCGATCGAAGCCG 57.199 50.000 23.50 22.07 43.45 5.52
2593 2737 1.154197 ATCGTATCGATCGAAGCCGA 58.846 50.000 27.47 27.47 43.45 5.54
2638 2792 1.654954 ATCAACCGAGACCGAGACCG 61.655 60.000 0.00 0.00 38.22 4.79
2639 2793 2.033141 AACCGAGACCGAGACCGA 59.967 61.111 0.00 0.00 38.22 4.69
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
60 61 1.337167 GGCTTTCCCAGTCAAATGCAC 60.337 52.381 0.00 0.00 0.00 4.57
72 77 0.803117 GACTTTACAGCGGCTTTCCC 59.197 55.000 0.00 0.00 0.00 3.97
73 78 0.803117 GGACTTTACAGCGGCTTTCC 59.197 55.000 0.00 0.00 0.00 3.13
104 109 6.095860 AGCATCATTCAAGCTTAATTACTGCA 59.904 34.615 17.18 0.00 34.37 4.41
108 113 8.801913 GTTGAAGCATCATTCAAGCTTAATTAC 58.198 33.333 0.00 0.00 46.80 1.89
109 114 8.915871 GTTGAAGCATCATTCAAGCTTAATTA 57.084 30.769 0.00 0.00 46.80 1.40
110 115 7.823149 GTTGAAGCATCATTCAAGCTTAATT 57.177 32.000 0.00 0.00 46.80 1.40
118 123 1.818060 CCGGGTTGAAGCATCATTCAA 59.182 47.619 0.00 0.00 44.72 2.69
119 124 1.004161 TCCGGGTTGAAGCATCATTCA 59.996 47.619 0.00 0.00 37.41 2.57
122 127 0.744414 CGTCCGGGTTGAAGCATCAT 60.744 55.000 0.00 0.00 34.96 2.45
123 128 1.375396 CGTCCGGGTTGAAGCATCA 60.375 57.895 0.00 0.00 0.00 3.07
124 129 2.106683 CCGTCCGGGTTGAAGCATC 61.107 63.158 0.00 0.00 0.00 3.91
140 157 5.390567 GCTTAATTACTTCACCAGTTCACCG 60.391 44.000 0.00 0.00 36.88 4.94
183 200 2.622452 CCAAAAGAGATGGATGGGCTGT 60.622 50.000 0.00 0.00 40.56 4.40
299 316 9.820725 CTTGGATTCCAGCATTCAATTTATTTA 57.179 29.630 5.36 0.00 33.81 1.40
300 317 7.771826 CCTTGGATTCCAGCATTCAATTTATTT 59.228 33.333 5.36 0.00 33.81 1.40
401 423 0.401738 TTTTGTGCTGGAGGAGGGAG 59.598 55.000 0.00 0.00 0.00 4.30
402 424 0.401738 CTTTTGTGCTGGAGGAGGGA 59.598 55.000 0.00 0.00 0.00 4.20
465 488 1.384989 TTTCTTTGCGCCCGTGGAAA 61.385 50.000 4.18 6.01 0.00 3.13
466 489 1.384989 TTTTCTTTGCGCCCGTGGAA 61.385 50.000 4.18 0.00 0.00 3.53
467 490 1.791103 CTTTTCTTTGCGCCCGTGGA 61.791 55.000 4.18 0.00 0.00 4.02
468 491 1.371635 CTTTTCTTTGCGCCCGTGG 60.372 57.895 4.18 0.00 0.00 4.94
469 492 0.030101 TTCTTTTCTTTGCGCCCGTG 59.970 50.000 4.18 0.00 0.00 4.94
511 536 4.798026 TTCGTGCGCGCCCGATTA 62.798 61.111 36.84 22.18 38.14 1.75
669 717 1.002087 GCGAAGGGAACAGAGAAAGGA 59.998 52.381 0.00 0.00 0.00 3.36
767 834 1.621814 GTTATATAGTGGCGGGCAGGA 59.378 52.381 3.75 0.00 0.00 3.86
768 835 1.338769 GGTTATATAGTGGCGGGCAGG 60.339 57.143 3.75 0.00 0.00 4.85
769 836 1.671850 CGGTTATATAGTGGCGGGCAG 60.672 57.143 3.75 0.00 0.00 4.85
770 837 0.319083 CGGTTATATAGTGGCGGGCA 59.681 55.000 0.00 0.00 0.00 5.36
771 838 1.017701 GCGGTTATATAGTGGCGGGC 61.018 60.000 0.00 0.00 0.00 6.13
772 839 0.390735 GGCGGTTATATAGTGGCGGG 60.391 60.000 0.00 0.00 0.00 6.13
773 840 0.319083 TGGCGGTTATATAGTGGCGG 59.681 55.000 0.00 0.00 0.00 6.13
774 841 1.796459 GTTGGCGGTTATATAGTGGCG 59.204 52.381 0.00 0.00 0.00 5.69
796 863 2.891307 CTAGCGGGAAAGGGGGAGGA 62.891 65.000 0.00 0.00 0.00 3.71
832 899 2.294074 CGGAGCTAGCAGAGAGTAGTT 58.706 52.381 18.83 0.00 0.00 2.24
833 900 1.210967 ACGGAGCTAGCAGAGAGTAGT 59.789 52.381 18.83 2.34 0.00 2.73
834 901 1.871039 GACGGAGCTAGCAGAGAGTAG 59.129 57.143 18.83 1.71 0.00 2.57
835 902 1.475392 GGACGGAGCTAGCAGAGAGTA 60.475 57.143 18.83 0.00 0.00 2.59
836 903 0.750182 GGACGGAGCTAGCAGAGAGT 60.750 60.000 18.83 9.16 0.00 3.24
837 904 0.465460 AGGACGGAGCTAGCAGAGAG 60.465 60.000 18.83 5.85 0.00 3.20
838 905 0.464735 GAGGACGGAGCTAGCAGAGA 60.465 60.000 18.83 0.00 0.00 3.10
842 909 1.075970 ATGGAGGACGGAGCTAGCA 60.076 57.895 18.83 0.00 0.00 3.49
843 910 1.365633 CATGGAGGACGGAGCTAGC 59.634 63.158 6.62 6.62 0.00 3.42
845 912 0.468214 CTCCATGGAGGACGGAGCTA 60.468 60.000 31.14 0.00 43.07 3.32
877 969 1.696336 ACATGCAAGTCAGACTCAGGT 59.304 47.619 2.72 3.61 0.00 4.00
878 970 2.074576 CACATGCAAGTCAGACTCAGG 58.925 52.381 2.72 2.94 0.00 3.86
879 971 2.994578 CTCACATGCAAGTCAGACTCAG 59.005 50.000 2.72 0.92 0.00 3.35
925 1022 2.959030 CTCTGTCTCGGATGGGTCAATA 59.041 50.000 0.00 0.00 0.00 1.90
928 1025 0.331616 TCTCTGTCTCGGATGGGTCA 59.668 55.000 0.00 0.00 0.00 4.02
929 1026 1.028905 CTCTCTGTCTCGGATGGGTC 58.971 60.000 0.00 0.00 0.00 4.46
930 1027 0.626382 TCTCTCTGTCTCGGATGGGT 59.374 55.000 0.00 0.00 0.00 4.51
931 1028 1.317613 CTCTCTCTGTCTCGGATGGG 58.682 60.000 0.00 0.00 0.00 4.00
932 1029 1.317613 CCTCTCTCTGTCTCGGATGG 58.682 60.000 0.00 0.00 0.00 3.51
933 1030 1.133945 TCCCTCTCTCTGTCTCGGATG 60.134 57.143 0.00 0.00 0.00 3.51
934 1031 1.142870 CTCCCTCTCTCTGTCTCGGAT 59.857 57.143 0.00 0.00 0.00 4.18
935 1032 0.544223 CTCCCTCTCTCTGTCTCGGA 59.456 60.000 0.00 0.00 0.00 4.55
937 1034 2.169769 ACTACTCCCTCTCTCTGTCTCG 59.830 54.545 0.00 0.00 0.00 4.04
952 1049 5.106908 CCAACTAAGCAAGCAAAGACTACTC 60.107 44.000 0.00 0.00 0.00 2.59
957 1054 2.623416 ACCCAACTAAGCAAGCAAAGAC 59.377 45.455 0.00 0.00 0.00 3.01
981 1081 3.752747 CCATAGATGCACACACAAAGACA 59.247 43.478 0.00 0.00 0.00 3.41
1299 1412 4.374702 CTTCGCCTGCACGCACAC 62.375 66.667 8.42 0.00 0.00 3.82
1750 1863 0.181350 AATTGGAGGCGGTCTCATCC 59.819 55.000 12.28 0.00 44.19 3.51
1856 1969 0.902531 AGTGCTACCACATTAGCGGT 59.097 50.000 0.00 0.00 46.51 5.68
2062 2184 6.268825 TGTAGTAGTACAAGAAGAAGCTGG 57.731 41.667 7.99 0.00 36.15 4.85
2095 2220 7.306283 GCAGTCGCTACATAGTTCATTCTTTAG 60.306 40.741 0.00 0.00 34.30 1.85
2110 2235 0.249868 AGCTGTTTGCAGTCGCTACA 60.250 50.000 0.00 0.00 45.94 2.74
2169 2294 3.491652 GCTCCGACGCCTTTCTGC 61.492 66.667 0.00 0.00 0.00 4.26
2338 2472 0.391263 AAGAAACGCATCTCCGGACC 60.391 55.000 0.00 0.00 0.00 4.46
2351 2485 1.711206 CGTCGGGAGGAAGAAGAAAC 58.289 55.000 0.00 0.00 0.00 2.78
2458 2593 3.057019 TCTCTCATTCGTTCGTTGGTTG 58.943 45.455 0.00 0.00 0.00 3.77
2459 2594 3.380479 TCTCTCATTCGTTCGTTGGTT 57.620 42.857 0.00 0.00 0.00 3.67
2460 2595 3.057734 GTTCTCTCATTCGTTCGTTGGT 58.942 45.455 0.00 0.00 0.00 3.67
2461 2596 3.057019 TGTTCTCTCATTCGTTCGTTGG 58.943 45.455 0.00 0.00 0.00 3.77
2542 2686 3.380004 ACTTCGAGCCTAAGTGAGATGAG 59.620 47.826 0.00 0.00 35.87 2.90
2543 2687 3.357203 ACTTCGAGCCTAAGTGAGATGA 58.643 45.455 0.00 0.00 35.87 2.92
2544 2688 3.791973 ACTTCGAGCCTAAGTGAGATG 57.208 47.619 0.00 0.00 35.87 2.90
2588 2732 3.220110 TCTGTCCGTCTTATATTCGGCT 58.780 45.455 0.00 0.00 43.35 5.52
2589 2733 3.637998 TCTGTCCGTCTTATATTCGGC 57.362 47.619 0.00 0.00 43.35 5.54
2590 2734 5.405571 CCAAATCTGTCCGTCTTATATTCGG 59.594 44.000 0.00 0.00 44.76 4.30
2591 2735 6.213677 TCCAAATCTGTCCGTCTTATATTCG 58.786 40.000 0.00 0.00 0.00 3.34
2592 2736 6.647067 CCTCCAAATCTGTCCGTCTTATATTC 59.353 42.308 0.00 0.00 0.00 1.75
2593 2737 6.326583 TCCTCCAAATCTGTCCGTCTTATATT 59.673 38.462 0.00 0.00 0.00 1.28
2594 2738 5.839063 TCCTCCAAATCTGTCCGTCTTATAT 59.161 40.000 0.00 0.00 0.00 0.86
2595 2739 5.205821 TCCTCCAAATCTGTCCGTCTTATA 58.794 41.667 0.00 0.00 0.00 0.98
2638 2792 1.080093 TGAACGCATGTCCGGTCTC 60.080 57.895 11.29 0.00 44.83 3.36
2639 2793 1.374252 GTGAACGCATGTCCGGTCT 60.374 57.895 11.29 0.00 44.83 3.85
2713 2867 2.554272 CGAAAAAGTGGTCCGCGG 59.446 61.111 22.12 22.12 0.00 6.46
2714 2868 2.554272 CCGAAAAAGTGGTCCGCG 59.446 61.111 0.00 0.00 0.00 6.46


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

AutoCloner maintained by Alex Coulton.