Multiple sequence alignment - TraesCS7A01G028500

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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 TraesCS7A01G028500 chr7A 100.000 1755 0 0 1 1755 11438666 11440420 0.000000e+00 3241
1 TraesCS7A01G028500 chr7A 100.000 249 0 0 2388 2636 11441053 11441301 6.650000e-126 460
2 TraesCS7A01G028500 chr4A 90.719 1627 119 19 152 1755 725894673 725893056 0.000000e+00 2139
3 TraesCS7A01G028500 chr7D 89.626 1282 92 15 153 1402 49208391 49207119 0.000000e+00 1592
4 TraesCS7A01G028500 chr7D 88.900 1009 71 21 153 1130 12149669 12150667 0.000000e+00 1205
5 TraesCS7A01G028500 chr7D 93.766 385 21 1 1374 1755 12150844 12151228 2.280000e-160 575
6 TraesCS7A01G028500 chr7D 92.222 360 25 1 1399 1755 49205508 49205149 8.420000e-140 507
7 TraesCS7A01G028500 chr7D 95.618 251 7 3 2388 2636 12151230 12151478 1.470000e-107 399
8 TraesCS7A01G028500 chr7D 94.180 189 11 0 1157 1345 12150661 12150849 3.320000e-74 289
9 TraesCS7A01G028500 chrUn 100.000 249 0 0 2388 2636 294457939 294458187 6.650000e-126 460


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 TraesCS7A01G028500 chr7A 11438666 11441301 2635 False 1850.5 3241 100.000 1 2636 2 chr7A.!!$F1 2635
1 TraesCS7A01G028500 chr4A 725893056 725894673 1617 True 2139.0 2139 90.719 152 1755 1 chr4A.!!$R1 1603
2 TraesCS7A01G028500 chr7D 49205149 49208391 3242 True 1049.5 1592 90.924 153 1755 2 chr7D.!!$R1 1602
3 TraesCS7A01G028500 chr7D 12149669 12151478 1809 False 617.0 1205 93.116 153 2636 4 chr7D.!!$F1 2483

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
22 23 0.378610 GCGGTGGCAAAAGCTATCTC 59.621 55.0 0.0 0.0 39.62 2.75 F
1048 1080 0.179065 CTTCTCTGCCATCGCCATCA 60.179 55.0 0.0 0.0 0.00 3.07 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1227 1259 0.396811 CCAGGTCACGAAGGTCCTTT 59.603 55.0 5.36 0.00 0.00 3.11 R
2539 4190 1.078759 AGATGCAGTTGCGCGTAGAC 61.079 55.0 8.43 4.67 45.83 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
21 22 2.482326 GCGGTGGCAAAAGCTATCT 58.518 52.632 0.00 0.00 39.62 1.98
22 23 0.378610 GCGGTGGCAAAAGCTATCTC 59.621 55.000 0.00 0.00 39.62 2.75
23 24 1.017387 CGGTGGCAAAAGCTATCTCC 58.983 55.000 0.00 0.00 0.00 3.71
24 25 1.393603 GGTGGCAAAAGCTATCTCCC 58.606 55.000 0.00 0.00 0.00 4.30
25 26 1.064389 GGTGGCAAAAGCTATCTCCCT 60.064 52.381 0.00 0.00 0.00 4.20
26 27 2.621668 GGTGGCAAAAGCTATCTCCCTT 60.622 50.000 0.00 0.00 0.00 3.95
27 28 3.092301 GTGGCAAAAGCTATCTCCCTTT 58.908 45.455 0.00 0.00 32.98 3.11
28 29 3.511540 GTGGCAAAAGCTATCTCCCTTTT 59.488 43.478 0.00 0.00 40.74 2.27
29 30 4.021104 GTGGCAAAAGCTATCTCCCTTTTT 60.021 41.667 0.00 0.00 38.74 1.94
30 31 5.185056 GTGGCAAAAGCTATCTCCCTTTTTA 59.815 40.000 0.00 0.00 38.74 1.52
31 32 5.957774 TGGCAAAAGCTATCTCCCTTTTTAT 59.042 36.000 0.00 0.00 38.74 1.40
32 33 6.096846 TGGCAAAAGCTATCTCCCTTTTTATC 59.903 38.462 0.00 0.00 38.74 1.75
33 34 6.096846 GGCAAAAGCTATCTCCCTTTTTATCA 59.903 38.462 0.00 0.00 38.74 2.15
34 35 7.363793 GGCAAAAGCTATCTCCCTTTTTATCAA 60.364 37.037 0.00 0.00 38.74 2.57
35 36 8.034804 GCAAAAGCTATCTCCCTTTTTATCAAA 58.965 33.333 0.00 0.00 38.74 2.69
38 39 9.479549 AAAGCTATCTCCCTTTTTATCAAATGA 57.520 29.630 0.00 0.00 0.00 2.57
39 40 9.652114 AAGCTATCTCCCTTTTTATCAAATGAT 57.348 29.630 1.01 1.01 38.51 2.45
56 57 8.752005 TCAAATGATATAAAGGAAGGGAACAG 57.248 34.615 0.00 0.00 0.00 3.16
57 58 7.779798 TCAAATGATATAAAGGAAGGGAACAGG 59.220 37.037 0.00 0.00 0.00 4.00
58 59 7.465900 AATGATATAAAGGAAGGGAACAGGA 57.534 36.000 0.00 0.00 0.00 3.86
59 60 6.901615 TGATATAAAGGAAGGGAACAGGAA 57.098 37.500 0.00 0.00 0.00 3.36
60 61 7.465900 TGATATAAAGGAAGGGAACAGGAAT 57.534 36.000 0.00 0.00 0.00 3.01
61 62 7.290061 TGATATAAAGGAAGGGAACAGGAATG 58.710 38.462 0.00 0.00 0.00 2.67
62 63 2.907458 AAGGAAGGGAACAGGAATGG 57.093 50.000 0.00 0.00 0.00 3.16
63 64 1.002857 AGGAAGGGAACAGGAATGGG 58.997 55.000 0.00 0.00 0.00 4.00
64 65 0.999712 GGAAGGGAACAGGAATGGGA 59.000 55.000 0.00 0.00 0.00 4.37
65 66 1.357761 GGAAGGGAACAGGAATGGGAA 59.642 52.381 0.00 0.00 0.00 3.97
66 67 2.023984 GGAAGGGAACAGGAATGGGAAT 60.024 50.000 0.00 0.00 0.00 3.01
67 68 3.204382 GGAAGGGAACAGGAATGGGAATA 59.796 47.826 0.00 0.00 0.00 1.75
68 69 4.325816 GGAAGGGAACAGGAATGGGAATAA 60.326 45.833 0.00 0.00 0.00 1.40
69 70 4.965283 AGGGAACAGGAATGGGAATAAA 57.035 40.909 0.00 0.00 0.00 1.40
70 71 4.871822 AGGGAACAGGAATGGGAATAAAG 58.128 43.478 0.00 0.00 0.00 1.85
71 72 3.960755 GGGAACAGGAATGGGAATAAAGG 59.039 47.826 0.00 0.00 0.00 3.11
72 73 4.325816 GGGAACAGGAATGGGAATAAAGGA 60.326 45.833 0.00 0.00 0.00 3.36
73 74 5.269189 GGAACAGGAATGGGAATAAAGGAA 58.731 41.667 0.00 0.00 0.00 3.36
74 75 5.360999 GGAACAGGAATGGGAATAAAGGAAG 59.639 44.000 0.00 0.00 0.00 3.46
75 76 5.796502 ACAGGAATGGGAATAAAGGAAGA 57.203 39.130 0.00 0.00 0.00 2.87
76 77 6.152638 ACAGGAATGGGAATAAAGGAAGAA 57.847 37.500 0.00 0.00 0.00 2.52
77 78 6.561294 ACAGGAATGGGAATAAAGGAAGAAA 58.439 36.000 0.00 0.00 0.00 2.52
78 79 7.016296 ACAGGAATGGGAATAAAGGAAGAAAA 58.984 34.615 0.00 0.00 0.00 2.29
79 80 7.679881 ACAGGAATGGGAATAAAGGAAGAAAAT 59.320 33.333 0.00 0.00 0.00 1.82
80 81 8.542926 CAGGAATGGGAATAAAGGAAGAAAATT 58.457 33.333 0.00 0.00 0.00 1.82
81 82 8.542926 AGGAATGGGAATAAAGGAAGAAAATTG 58.457 33.333 0.00 0.00 0.00 2.32
82 83 8.539544 GGAATGGGAATAAAGGAAGAAAATTGA 58.460 33.333 0.00 0.00 0.00 2.57
83 84 9.371136 GAATGGGAATAAAGGAAGAAAATTGAC 57.629 33.333 0.00 0.00 0.00 3.18
84 85 7.847711 TGGGAATAAAGGAAGAAAATTGACA 57.152 32.000 0.00 0.00 0.00 3.58
85 86 8.256356 TGGGAATAAAGGAAGAAAATTGACAA 57.744 30.769 0.00 0.00 0.00 3.18
86 87 8.879227 TGGGAATAAAGGAAGAAAATTGACAAT 58.121 29.630 0.00 0.00 0.00 2.71
122 123 9.541143 AAAGAAAACAAAAACAGAAGTTTGAGA 57.459 25.926 3.32 0.00 46.79 3.27
123 124 9.541143 AAGAAAACAAAAACAGAAGTTTGAGAA 57.459 25.926 3.32 0.00 46.79 2.87
124 125 9.541143 AGAAAACAAAAACAGAAGTTTGAGAAA 57.459 25.926 3.32 0.00 46.79 2.52
128 129 8.887036 ACAAAAACAGAAGTTTGAGAAAAAGT 57.113 26.923 3.32 0.00 46.79 2.66
129 130 8.764287 ACAAAAACAGAAGTTTGAGAAAAAGTG 58.236 29.630 3.32 0.00 46.79 3.16
130 131 7.889589 AAAACAGAAGTTTGAGAAAAAGTGG 57.110 32.000 0.00 0.00 46.79 4.00
131 132 6.834168 AACAGAAGTTTGAGAAAAAGTGGA 57.166 33.333 0.00 0.00 33.11 4.02
132 133 6.834168 ACAGAAGTTTGAGAAAAAGTGGAA 57.166 33.333 0.00 0.00 0.00 3.53
133 134 7.227049 ACAGAAGTTTGAGAAAAAGTGGAAA 57.773 32.000 0.00 0.00 0.00 3.13
134 135 7.666623 ACAGAAGTTTGAGAAAAAGTGGAAAA 58.333 30.769 0.00 0.00 0.00 2.29
135 136 8.147704 ACAGAAGTTTGAGAAAAAGTGGAAAAA 58.852 29.630 0.00 0.00 0.00 1.94
440 452 4.901197 TTCCACACTAGGAAGCACATAA 57.099 40.909 0.00 0.00 42.56 1.90
472 484 2.563013 ATTGGGCCAGCCTAGCACAG 62.563 60.000 6.23 0.00 46.10 3.66
498 510 0.811219 GCCGCATCAGACTGCATGTA 60.811 55.000 13.14 0.00 42.40 2.29
535 547 5.573219 TCCATGATCAAGAGGTGTTGAATT 58.427 37.500 0.00 0.00 39.84 2.17
543 555 5.652014 TCAAGAGGTGTTGAATTCACAAAGT 59.348 36.000 7.89 0.00 37.52 2.66
569 601 7.721286 ATGGAAGTTAGATCTAAAATGAGCG 57.279 36.000 16.73 0.00 0.00 5.03
576 608 7.602644 AGTTAGATCTAAAATGAGCGTCAACAA 59.397 33.333 16.73 0.00 0.00 2.83
619 651 9.643693 GGCATTAATACAAGGATATCCAAAATG 57.356 33.333 23.81 18.67 38.89 2.32
638 670 8.361889 CCAAAATGAGGATATGTATTCATGCAA 58.638 33.333 0.00 0.00 35.70 4.08
641 673 7.698506 ATGAGGATATGTATTCATGCAAAGG 57.301 36.000 0.00 0.00 35.70 3.11
658 690 9.023967 CATGCAAAGGTAAGCACTAATAATTTC 57.976 33.333 0.00 0.00 44.49 2.17
680 712 8.853077 TTTCAATATATCTATGGTCAAGCTGG 57.147 34.615 0.00 0.00 0.00 4.85
705 737 0.531974 GCATCTCCGAACCGCCAATA 60.532 55.000 0.00 0.00 0.00 1.90
719 751 3.374988 CCGCCAATACATATGTGCATAGG 59.625 47.826 18.81 13.00 0.00 2.57
730 762 8.938801 ACATATGTGCATAGGATGGAAAATAA 57.061 30.769 7.78 0.00 30.45 1.40
758 790 4.309933 TCGATATCCATGTCAAGATGTGC 58.690 43.478 0.00 0.00 0.00 4.57
782 814 5.288543 GCATTTATGGCTATGCAGTAGAC 57.711 43.478 0.00 0.00 44.99 2.59
789 821 5.777850 TGGCTATGCAGTAGACGTATTAA 57.222 39.130 0.00 0.00 41.74 1.40
822 854 2.223971 CCGTAGTGAGTGTCAACAGGTT 60.224 50.000 0.00 0.00 0.00 3.50
830 862 0.449786 TGTCAACAGGTTTGTGCACG 59.550 50.000 13.13 0.00 37.67 5.34
837 869 1.066908 CAGGTTTGTGCACGACCAAAT 59.933 47.619 31.66 16.70 35.89 2.32
863 895 1.108776 CTGCATTCATGAACCCCCAG 58.891 55.000 11.07 10.55 0.00 4.45
964 996 5.187967 ACTTATCCTCACCACTCCTACTTTG 59.812 44.000 0.00 0.00 0.00 2.77
1042 1074 2.158986 ACCATCTTCTTCTCTGCCATCG 60.159 50.000 0.00 0.00 0.00 3.84
1043 1075 1.865970 CATCTTCTTCTCTGCCATCGC 59.134 52.381 0.00 0.00 0.00 4.58
1048 1080 0.179065 CTTCTCTGCCATCGCCATCA 60.179 55.000 0.00 0.00 0.00 3.07
1089 1121 2.194271 GTTGCTCATACTAGCGGTGAC 58.806 52.381 0.00 0.00 45.85 3.67
1176 1208 3.138304 CGACAAAGAAATCCACCTCACA 58.862 45.455 0.00 0.00 0.00 3.58
1212 1244 2.995574 ACCCTCCGGTCGGACAAG 60.996 66.667 15.28 3.26 38.28 3.16
1282 1314 1.202639 ACATCCTCAAAGCACGTGTCA 60.203 47.619 18.38 0.00 0.00 3.58
1285 1317 0.439985 CCTCAAAGCACGTGTCATCG 59.560 55.000 18.38 2.67 0.00 3.84
1306 1338 1.540267 CGCCAATGGTAAGGTCCAAA 58.460 50.000 0.00 0.00 41.09 3.28
1435 3081 1.229400 AAGGACTTCCGTGGCCCTA 60.229 57.895 0.00 0.00 42.08 3.53
1455 3101 2.047655 GGCGGTGACAACGATGGA 60.048 61.111 18.96 0.00 0.00 3.41
1459 3105 1.740296 GGTGACAACGATGGACCGG 60.740 63.158 0.00 0.00 0.00 5.28
1493 3139 1.310933 CCTCAATGTGTGGAGCAGGC 61.311 60.000 0.00 0.00 33.04 4.85
1505 3151 2.281484 GCAGGCGAACACCCTCAA 60.281 61.111 0.00 0.00 0.00 3.02
1528 3174 0.539518 TTACTGCGGGCATGAGCTTA 59.460 50.000 0.00 0.00 41.70 3.09
1610 3256 1.065199 CCTCAACATGGCCTTGCTAGA 60.065 52.381 18.17 12.11 0.00 2.43
1624 3270 5.704888 CCTTGCTAGAACCATATAGAGACG 58.295 45.833 0.00 0.00 0.00 4.18
1659 3305 3.343617 TGTATTTTAGCCTGAGTGGTGC 58.656 45.455 0.00 0.00 38.35 5.01
2510 4161 2.260844 TAGTTGCATGCTCATAGCCC 57.739 50.000 20.33 0.00 41.51 5.19
2512 4163 0.383231 GTTGCATGCTCATAGCCCAC 59.617 55.000 20.33 0.00 41.51 4.61
2518 4169 2.963854 CTCATAGCCCACGCGCAG 60.964 66.667 5.73 2.42 41.18 5.18
2574 4225 0.471617 ATCTCTATGGCCAGCACACC 59.528 55.000 13.05 0.00 0.00 4.16
2575 4226 0.909133 TCTCTATGGCCAGCACACCA 60.909 55.000 13.05 0.00 41.06 4.17
2599 4250 5.527582 AGATTACACATATGTCGCCTTTTCC 59.472 40.000 5.07 0.00 40.48 3.13
2608 4259 5.738619 ATGTCGCCTTTTCCCTTTTTATT 57.261 34.783 0.00 0.00 0.00 1.40
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 1.134946 GATAGCTTTTGCCACCGCATT 59.865 47.619 0.00 0.00 46.67 3.56
1 2 0.740737 GATAGCTTTTGCCACCGCAT 59.259 50.000 0.00 0.00 46.67 4.73
12 13 9.479549 TCATTTGATAAAAAGGGAGATAGCTTT 57.520 29.630 0.00 0.00 0.00 3.51
13 14 9.652114 ATCATTTGATAAAAAGGGAGATAGCTT 57.348 29.630 0.00 0.00 32.01 3.74
30 31 9.359653 CTGTTCCCTTCCTTTATATCATTTGAT 57.640 33.333 0.00 0.00 38.51 2.57
31 32 7.779798 CCTGTTCCCTTCCTTTATATCATTTGA 59.220 37.037 0.00 0.00 0.00 2.69
32 33 7.779798 TCCTGTTCCCTTCCTTTATATCATTTG 59.220 37.037 0.00 0.00 0.00 2.32
33 34 7.882755 TCCTGTTCCCTTCCTTTATATCATTT 58.117 34.615 0.00 0.00 0.00 2.32
34 35 7.465900 TCCTGTTCCCTTCCTTTATATCATT 57.534 36.000 0.00 0.00 0.00 2.57
35 36 7.465900 TTCCTGTTCCCTTCCTTTATATCAT 57.534 36.000 0.00 0.00 0.00 2.45
36 37 6.901615 TTCCTGTTCCCTTCCTTTATATCA 57.098 37.500 0.00 0.00 0.00 2.15
37 38 6.717084 CCATTCCTGTTCCCTTCCTTTATATC 59.283 42.308 0.00 0.00 0.00 1.63
38 39 6.412024 CCCATTCCTGTTCCCTTCCTTTATAT 60.412 42.308 0.00 0.00 0.00 0.86
39 40 5.103686 CCCATTCCTGTTCCCTTCCTTTATA 60.104 44.000 0.00 0.00 0.00 0.98
40 41 4.326132 CCCATTCCTGTTCCCTTCCTTTAT 60.326 45.833 0.00 0.00 0.00 1.40
41 42 3.011257 CCCATTCCTGTTCCCTTCCTTTA 59.989 47.826 0.00 0.00 0.00 1.85
42 43 2.225369 CCCATTCCTGTTCCCTTCCTTT 60.225 50.000 0.00 0.00 0.00 3.11
43 44 1.359130 CCCATTCCTGTTCCCTTCCTT 59.641 52.381 0.00 0.00 0.00 3.36
44 45 1.002857 CCCATTCCTGTTCCCTTCCT 58.997 55.000 0.00 0.00 0.00 3.36
45 46 0.999712 TCCCATTCCTGTTCCCTTCC 59.000 55.000 0.00 0.00 0.00 3.46
46 47 2.899303 TTCCCATTCCTGTTCCCTTC 57.101 50.000 0.00 0.00 0.00 3.46
47 48 4.965283 TTATTCCCATTCCTGTTCCCTT 57.035 40.909 0.00 0.00 0.00 3.95
48 49 4.326132 CCTTTATTCCCATTCCTGTTCCCT 60.326 45.833 0.00 0.00 0.00 4.20
49 50 3.960755 CCTTTATTCCCATTCCTGTTCCC 59.039 47.826 0.00 0.00 0.00 3.97
50 51 4.867086 TCCTTTATTCCCATTCCTGTTCC 58.133 43.478 0.00 0.00 0.00 3.62
51 52 6.187682 TCTTCCTTTATTCCCATTCCTGTTC 58.812 40.000 0.00 0.00 0.00 3.18
52 53 6.152638 TCTTCCTTTATTCCCATTCCTGTT 57.847 37.500 0.00 0.00 0.00 3.16
53 54 5.796502 TCTTCCTTTATTCCCATTCCTGT 57.203 39.130 0.00 0.00 0.00 4.00
54 55 7.480760 TTTTCTTCCTTTATTCCCATTCCTG 57.519 36.000 0.00 0.00 0.00 3.86
55 56 8.542926 CAATTTTCTTCCTTTATTCCCATTCCT 58.457 33.333 0.00 0.00 0.00 3.36
56 57 8.539544 TCAATTTTCTTCCTTTATTCCCATTCC 58.460 33.333 0.00 0.00 0.00 3.01
57 58 9.371136 GTCAATTTTCTTCCTTTATTCCCATTC 57.629 33.333 0.00 0.00 0.00 2.67
58 59 8.879227 TGTCAATTTTCTTCCTTTATTCCCATT 58.121 29.630 0.00 0.00 0.00 3.16
59 60 8.434589 TGTCAATTTTCTTCCTTTATTCCCAT 57.565 30.769 0.00 0.00 0.00 4.00
60 61 7.847711 TGTCAATTTTCTTCCTTTATTCCCA 57.152 32.000 0.00 0.00 0.00 4.37
96 97 9.541143 TCTCAAACTTCTGTTTTTGTTTTCTTT 57.459 25.926 0.00 0.00 43.13 2.52
97 98 9.541143 TTCTCAAACTTCTGTTTTTGTTTTCTT 57.459 25.926 0.00 0.00 43.13 2.52
98 99 9.541143 TTTCTCAAACTTCTGTTTTTGTTTTCT 57.459 25.926 0.00 0.00 43.13 2.52
102 103 9.325198 ACTTTTTCTCAAACTTCTGTTTTTGTT 57.675 25.926 0.00 0.00 43.13 2.83
103 104 8.764287 CACTTTTTCTCAAACTTCTGTTTTTGT 58.236 29.630 0.00 0.00 43.13 2.83
104 105 8.223100 CCACTTTTTCTCAAACTTCTGTTTTTG 58.777 33.333 0.00 0.00 43.13 2.44
105 106 8.147704 TCCACTTTTTCTCAAACTTCTGTTTTT 58.852 29.630 0.00 0.00 43.13 1.94
106 107 7.666623 TCCACTTTTTCTCAAACTTCTGTTTT 58.333 30.769 0.00 0.00 43.13 2.43
107 108 7.227049 TCCACTTTTTCTCAAACTTCTGTTT 57.773 32.000 0.00 0.00 46.20 2.83
108 109 6.834168 TCCACTTTTTCTCAAACTTCTGTT 57.166 33.333 0.00 0.00 38.16 3.16
109 110 6.834168 TTCCACTTTTTCTCAAACTTCTGT 57.166 33.333 0.00 0.00 0.00 3.41
110 111 8.532977 TTTTTCCACTTTTTCTCAAACTTCTG 57.467 30.769 0.00 0.00 0.00 3.02
402 407 3.508402 GTGGAATGGAATACGTGGGTTTT 59.492 43.478 0.00 0.00 0.00 2.43
440 452 1.521450 GCCCAATATGCTCATGCGCT 61.521 55.000 9.73 0.00 43.34 5.92
490 502 8.326680 TGGATATACAAATGATGTACATGCAG 57.673 34.615 14.43 1.18 42.55 4.41
543 555 9.261180 CGCTCATTTTAGATCTAACTTCCATAA 57.739 33.333 14.85 5.44 0.00 1.90
569 601 7.255277 GCCCTCTCTATCCATAAATTTGTTGAC 60.255 40.741 0.00 0.00 0.00 3.18
619 651 8.621532 TTACCTTTGCATGAATACATATCCTC 57.378 34.615 0.00 0.00 35.09 3.71
658 690 9.539825 GTATCCAGCTTGACCATAGATATATTG 57.460 37.037 0.00 0.00 0.00 1.90
663 695 5.047021 GCAGTATCCAGCTTGACCATAGATA 60.047 44.000 0.00 0.00 0.00 1.98
664 696 4.262808 GCAGTATCCAGCTTGACCATAGAT 60.263 45.833 0.00 0.00 0.00 1.98
665 697 3.070159 GCAGTATCCAGCTTGACCATAGA 59.930 47.826 0.00 0.00 0.00 1.98
666 698 3.181462 TGCAGTATCCAGCTTGACCATAG 60.181 47.826 0.00 0.00 0.00 2.23
672 704 2.103771 GGAGATGCAGTATCCAGCTTGA 59.896 50.000 9.20 0.00 38.15 3.02
680 712 1.772182 CGGTTCGGAGATGCAGTATC 58.228 55.000 0.00 0.00 35.04 2.24
690 722 2.519377 TATGTATTGGCGGTTCGGAG 57.481 50.000 0.00 0.00 0.00 4.63
693 725 2.349438 GCACATATGTATTGGCGGTTCG 60.349 50.000 8.32 0.00 0.00 3.95
705 737 8.938801 TTATTTTCCATCCTATGCACATATGT 57.061 30.769 1.41 1.41 0.00 2.29
730 762 7.881751 ACATCTTGACATGGATATCGAAATGAT 59.118 33.333 14.95 3.64 41.30 2.45
789 821 7.284716 TGACACTCACTACGGATATCTTGTTAT 59.715 37.037 2.05 0.00 0.00 1.89
804 836 4.188462 CACAAACCTGTTGACACTCACTA 58.812 43.478 0.00 0.00 31.64 2.74
822 854 1.393603 TCCAATTTGGTCGTGCACAA 58.606 45.000 18.64 3.03 39.03 3.33
830 862 5.581126 TGAATGCAGTATCCAATTTGGTC 57.419 39.130 14.98 7.44 39.03 4.02
837 869 3.953612 GGGTTCATGAATGCAGTATCCAA 59.046 43.478 12.12 0.00 0.00 3.53
888 920 1.133823 TGCGGTTTGATGGATGCCTAT 60.134 47.619 0.00 0.00 0.00 2.57
964 996 7.360353 GCCAGCAAGAAACCTTGAATTTTATTC 60.360 37.037 9.13 0.00 42.71 1.75
984 1016 1.368209 CATTGTTGCAAGGCCAGCA 59.632 52.632 17.76 17.76 40.85 4.41
987 1019 1.693152 TTGCCATTGTTGCAAGGCCA 61.693 50.000 21.00 10.38 46.45 5.36
1006 1038 2.027192 AGATGGTGGTCGTTTGTGCTAT 60.027 45.455 0.00 0.00 0.00 2.97
1042 1074 1.332997 CGAGGAAAAGAGCATGATGGC 59.667 52.381 0.00 0.00 0.00 4.40
1043 1075 2.611292 GACGAGGAAAAGAGCATGATGG 59.389 50.000 0.00 0.00 0.00 3.51
1048 1080 4.074970 ACAATTGACGAGGAAAAGAGCAT 58.925 39.130 13.59 0.00 0.00 3.79
1089 1121 1.135315 CTTCGGCTTGCCATCAACG 59.865 57.895 12.45 0.00 0.00 4.10
1176 1208 3.056465 GGGTCGAGACACAGAATTTCTCT 60.056 47.826 5.55 0.00 34.72 3.10
1212 1244 2.742372 TTTGCCTTCTCGCTCCGC 60.742 61.111 0.00 0.00 0.00 5.54
1227 1259 0.396811 CCAGGTCACGAAGGTCCTTT 59.603 55.000 5.36 0.00 0.00 3.11
1282 1314 1.525995 CCTTACCATTGGCGGCGAT 60.526 57.895 12.98 5.75 0.00 4.58
1285 1317 2.119029 GGACCTTACCATTGGCGGC 61.119 63.158 0.00 0.00 0.00 6.53
1306 1338 8.494735 CCAGTTTTGGCTTTGTGCAACATTTT 62.495 38.462 0.00 0.00 42.26 1.82
1435 3081 2.029964 ATCGTTGTCACCGCCGTT 59.970 55.556 0.00 0.00 0.00 4.44
1440 3086 2.092291 CGGTCCATCGTTGTCACCG 61.092 63.158 15.77 15.77 39.59 4.94
1455 3101 1.680338 GGAGCATAAAAGATGCCGGT 58.320 50.000 1.90 0.00 45.59 5.28
1459 3105 4.340381 ACATTGAGGGAGCATAAAAGATGC 59.660 41.667 1.21 1.21 44.85 3.91
1493 3139 1.142474 GTAACCGTTGAGGGTGTTCG 58.858 55.000 0.00 0.00 42.40 3.95
1505 3151 2.435938 CATGCCCGCAGTAACCGT 60.436 61.111 0.00 0.00 0.00 4.83
1528 3174 1.758122 GAAGCCCCGGCAAATCCAT 60.758 57.895 8.74 0.00 44.88 3.41
1552 3198 6.429624 TCATGTCAAGATTTTCGTTGAACAG 58.570 36.000 0.00 0.00 34.52 3.16
1610 3256 6.576662 ATGAATCGTCGTCTCTATATGGTT 57.423 37.500 0.00 0.00 0.00 3.67
2510 4161 2.471607 CAACTGTAGCTGCGCGTG 59.528 61.111 8.43 1.88 0.00 5.34
2512 4163 1.420641 TATGCAACTGTAGCTGCGCG 61.421 55.000 0.00 0.00 39.80 6.86
2539 4190 1.078759 AGATGCAGTTGCGCGTAGAC 61.079 55.000 8.43 4.67 45.83 2.59
2574 4225 5.991328 AAAGGCGACATATGTGTAATCTG 57.009 39.130 14.43 0.00 39.09 2.90
2575 4226 5.527582 GGAAAAGGCGACATATGTGTAATCT 59.472 40.000 14.43 0.83 39.09 2.40


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

AutoCloner maintained by Alex Coulton.