Multiple sequence alignment - TraesCS1B01G200100

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 TraesCS1B01G200100 chr1B 100.000 4353 0 0 1 4353 358837441 358841793 0.000000e+00 8039.0
1 TraesCS1B01G200100 chr1D 95.479 3827 105 27 291 4066 253529582 253525773 0.000000e+00 6047.0
2 TraesCS1B01G200100 chr1D 92.405 237 6 4 60 294 253530091 253529865 1.170000e-85 327.0
3 TraesCS1B01G200100 chr1D 95.413 109 5 0 4245 4353 253525520 253525412 1.610000e-39 174.0
4 TraesCS1B01G200100 chr1A 96.402 3252 91 15 740 3974 325781890 325785132 0.000000e+00 5334.0
5 TraesCS1B01G200100 chr1A 92.201 577 28 7 174 735 325781279 325781853 0.000000e+00 800.0
6 TraesCS1B01G200100 chr1A 90.379 343 25 5 4017 4353 325785215 325785555 1.110000e-120 444.0
7 TraesCS1B01G200100 chr1A 100.000 47 0 0 95 141 325781246 325781292 2.160000e-13 87.9
8 TraesCS1B01G200100 chr3B 88.273 631 73 1 1239 1869 286217085 286217714 0.000000e+00 754.0
9 TraesCS1B01G200100 chr7B 87.893 636 61 5 1234 1869 305155522 305154903 0.000000e+00 734.0
10 TraesCS1B01G200100 chr7B 84.884 86 11 2 3813 3896 272330316 272330231 7.760000e-13 86.1
11 TraesCS1B01G200100 chr6A 94.760 458 23 1 1232 1689 349933737 349934193 0.000000e+00 712.0
12 TraesCS1B01G200100 chr6A 95.105 143 7 0 1727 1869 349934194 349934336 4.380000e-55 226.0
13 TraesCS1B01G200100 chr4D 87.500 88 9 2 3811 3896 268071173 268071260 2.770000e-17 100.0
14 TraesCS1B01G200100 chr2A 87.356 87 9 2 3812 3896 78811451 78811537 9.960000e-17 99.0
15 TraesCS1B01G200100 chr2D 90.278 72 6 1 3813 3883 190112159 190112230 4.640000e-15 93.5
16 TraesCS1B01G200100 chr6B 85.227 88 11 2 3812 3897 127312306 127312219 6.000000e-14 89.8
17 TraesCS1B01G200100 chr4A 85.882 85 9 3 3815 3896 618556333 618556417 2.160000e-13 87.9


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 TraesCS1B01G200100 chr1B 358837441 358841793 4352 False 8039.000000 8039 100.000000 1 4353 1 chr1B.!!$F1 4352
1 TraesCS1B01G200100 chr1D 253525412 253530091 4679 True 2182.666667 6047 94.432333 60 4353 3 chr1D.!!$R1 4293
2 TraesCS1B01G200100 chr1A 325781246 325785555 4309 False 1666.475000 5334 94.745500 95 4353 4 chr1A.!!$F1 4258
3 TraesCS1B01G200100 chr3B 286217085 286217714 629 False 754.000000 754 88.273000 1239 1869 1 chr3B.!!$F1 630
4 TraesCS1B01G200100 chr7B 305154903 305155522 619 True 734.000000 734 87.893000 1234 1869 1 chr7B.!!$R2 635
5 TraesCS1B01G200100 chr6A 349933737 349934336 599 False 469.000000 712 94.932500 1232 1869 2 chr6A.!!$F1 637

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
643 945 0.391661 ATGTCGCCTACACTGCAAGG 60.392 55.0 0.0 0.0 42.09 3.61 F
1626 1966 0.325933 TCGGGAAGTACGACTGGAGA 59.674 55.0 0.0 0.0 35.12 3.71 F
2576 2945 0.032017 TCTAACCTCCCTGCTCTCCC 60.032 60.0 0.0 0.0 0.00 4.30 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2474 2832 0.036952 AGGTCGATGCTCACACCAAG 60.037 55.000 0.00 0.00 0.00 3.61 R
3087 3456 2.420687 GCCAGATAAAGGAGGTGACCTG 60.421 54.545 9.89 0.00 40.49 4.00 R
3746 4120 2.173996 ACCAGGACATGCATCATGATGA 59.826 45.455 34.65 21.22 43.81 2.92 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
18 19 3.483954 CTCCAGCATCCACGGATTT 57.516 52.632 0.00 0.00 31.62 2.17
19 20 1.755179 CTCCAGCATCCACGGATTTT 58.245 50.000 0.00 0.00 31.62 1.82
20 21 1.672881 CTCCAGCATCCACGGATTTTC 59.327 52.381 0.00 0.00 31.62 2.29
21 22 1.281867 TCCAGCATCCACGGATTTTCT 59.718 47.619 0.00 0.00 31.62 2.52
22 23 2.094675 CCAGCATCCACGGATTTTCTT 58.905 47.619 0.00 0.00 31.62 2.52
23 24 2.493278 CCAGCATCCACGGATTTTCTTT 59.507 45.455 0.00 0.00 31.62 2.52
24 25 3.428045 CCAGCATCCACGGATTTTCTTTC 60.428 47.826 0.00 0.00 31.62 2.62
25 26 2.420022 AGCATCCACGGATTTTCTTTCG 59.580 45.455 0.00 0.00 31.62 3.46
26 27 2.161609 GCATCCACGGATTTTCTTTCGT 59.838 45.455 0.00 0.00 36.19 3.85
31 32 3.396260 ACGGATTTTCTTTCGTGAGGA 57.604 42.857 0.00 0.00 34.40 3.71
32 33 3.735591 ACGGATTTTCTTTCGTGAGGAA 58.264 40.909 0.00 0.00 34.40 3.36
34 35 3.424962 CGGATTTTCTTTCGTGAGGAAGC 60.425 47.826 0.00 0.00 46.59 3.86
35 36 3.502211 GGATTTTCTTTCGTGAGGAAGCA 59.498 43.478 0.00 0.00 46.59 3.91
36 37 3.963383 TTTTCTTTCGTGAGGAAGCAC 57.037 42.857 0.00 0.00 46.59 4.40
37 38 2.613026 TTCTTTCGTGAGGAAGCACA 57.387 45.000 0.00 0.00 46.59 4.57
38 39 2.613026 TCTTTCGTGAGGAAGCACAA 57.387 45.000 0.00 0.00 46.59 3.33
39 40 2.210116 TCTTTCGTGAGGAAGCACAAC 58.790 47.619 0.00 0.00 46.59 3.32
40 41 1.264288 CTTTCGTGAGGAAGCACAACC 59.736 52.381 0.00 0.00 40.39 3.77
41 42 0.534203 TTCGTGAGGAAGCACAACCC 60.534 55.000 0.00 0.00 38.69 4.11
42 43 1.071471 CGTGAGGAAGCACAACCCT 59.929 57.895 0.00 0.00 38.69 4.34
43 44 0.535102 CGTGAGGAAGCACAACCCTT 60.535 55.000 0.00 0.00 38.69 3.95
44 45 1.692411 GTGAGGAAGCACAACCCTTT 58.308 50.000 0.00 0.00 38.63 3.11
45 46 2.031870 GTGAGGAAGCACAACCCTTTT 58.968 47.619 0.00 0.00 38.63 2.27
46 47 2.430694 GTGAGGAAGCACAACCCTTTTT 59.569 45.455 0.00 0.00 38.63 1.94
152 155 3.634397 AGCTCCATCGGATTCTCAAAA 57.366 42.857 0.00 0.00 0.00 2.44
213 216 8.306038 ACATCAAATACAACATGCATAAACAGT 58.694 29.630 0.00 0.00 0.00 3.55
411 705 3.711863 ACCACATTGCAATAACCCATCT 58.288 40.909 12.53 0.00 0.00 2.90
412 706 4.095946 ACCACATTGCAATAACCCATCTT 58.904 39.130 12.53 0.00 0.00 2.40
452 749 5.759763 CACAATCATTGACGGGATAGATCAA 59.240 40.000 3.79 0.00 36.81 2.57
508 809 7.305474 AGATACATTTTGTTTTGCCGAGTAAG 58.695 34.615 0.00 0.00 0.00 2.34
552 854 1.350193 AAGCACATTCGCTAGACACG 58.650 50.000 0.00 0.00 42.89 4.49
579 881 2.550208 CCCTTTCAACGTCCTAGCTTGT 60.550 50.000 0.00 0.00 0.00 3.16
643 945 0.391661 ATGTCGCCTACACTGCAAGG 60.392 55.000 0.00 0.00 42.09 3.61
742 1077 2.910977 ACCTTAACCCGTCCAAGATTCT 59.089 45.455 0.00 0.00 0.00 2.40
807 1146 8.933955 CGTGCAAAGATTCGTAATGTTTTATAG 58.066 33.333 0.00 0.00 32.68 1.31
885 1225 4.225042 TGATGGACCTGTGCTATTACAACT 59.775 41.667 0.00 0.00 0.00 3.16
1228 1568 3.222855 CGGATGAGGCGCTCTCCT 61.223 66.667 19.09 11.91 41.76 3.69
1626 1966 0.325933 TCGGGAAGTACGACTGGAGA 59.674 55.000 0.00 0.00 35.12 3.71
1689 2029 0.690762 ACACCTATTTCAGCCACGGT 59.309 50.000 0.00 0.00 0.00 4.83
2065 2410 4.565166 CCATGCTTGAATTAGTGCAATGTG 59.435 41.667 0.00 0.00 38.96 3.21
2178 2523 4.851558 GCGCTGTTTTGAACTTTACTATGG 59.148 41.667 0.00 0.00 0.00 2.74
2322 2668 6.939730 TGCCAGAGTGTTTATGATAGTGAAAA 59.060 34.615 0.00 0.00 0.00 2.29
2352 2698 4.892934 TGGTTAGCCTTGACTGTTGATTTT 59.107 37.500 0.00 0.00 35.27 1.82
2368 2714 9.713740 CTGTTGATTTTCTCTGTTTATGATAGC 57.286 33.333 0.00 0.00 0.00 2.97
2389 2735 5.408204 GCATTTGCTTGCTTGTTTACTTT 57.592 34.783 0.00 0.00 39.57 2.66
2519 2877 3.118884 ACTGCATGGATTGATTTTCCAGC 60.119 43.478 0.00 3.61 46.06 4.85
2576 2945 0.032017 TCTAACCTCCCTGCTCTCCC 60.032 60.000 0.00 0.00 0.00 4.30
2820 3189 5.656859 TGATAAGAGGCAGAAGCTTACACTA 59.343 40.000 0.00 0.00 41.70 2.74
3087 3456 4.754322 TCAAAAGGAAGGTGTTTTGCTTC 58.246 39.130 3.23 0.00 41.45 3.86
3188 3557 9.151471 TCGTTCTAACATTCCTAGAAAAATCTG 57.849 33.333 0.00 0.00 37.19 2.90
3538 3907 7.065563 TCTGTATCTTCTCCGAGTAAGTACAAC 59.934 40.741 0.00 0.00 0.00 3.32
3650 4021 3.250521 GCTAGTATTACGCCTTCTCGACT 59.749 47.826 0.00 0.00 0.00 4.18
3652 4023 4.809815 AGTATTACGCCTTCTCGACTAC 57.190 45.455 0.00 0.00 0.00 2.73
3676 4047 5.466393 CGGTTGATCTGTCATGTATGCAATA 59.534 40.000 0.00 0.00 33.56 1.90
3826 4204 4.101741 CCAAAAGAATACTCCCTCCGATCT 59.898 45.833 0.00 0.00 0.00 2.75
3827 4205 4.946478 AAAGAATACTCCCTCCGATCTG 57.054 45.455 0.00 0.00 0.00 2.90
3911 4315 9.570468 CATAGGGAGTAGTACTACAACTTATGA 57.430 37.037 30.13 16.45 36.85 2.15
3960 4364 7.385205 CGTGCTTACCTGCAGTCTAATTAATAT 59.615 37.037 13.81 0.00 44.20 1.28
4023 4493 2.470362 GCTCTGTGCTGCATGCGAT 61.470 57.895 14.09 0.00 46.63 4.58
4025 4495 0.580578 CTCTGTGCTGCATGCGATAC 59.419 55.000 14.09 11.72 46.63 2.24
4069 4543 7.230849 TGCATCTTTATTTCCTGTTCATGTT 57.769 32.000 0.00 0.00 0.00 2.71
4092 4566 7.015098 TGTTGATACAACAGGAATGGTTTCATT 59.985 33.333 12.32 0.00 45.45 2.57
4192 4666 5.003804 AGTTATAGTGGACAAGTTGCTTGG 58.996 41.667 12.66 0.00 44.81 3.61
4249 4832 8.736097 TGATATCTAAGAAAATAGGGGCTGTA 57.264 34.615 3.98 0.00 0.00 2.74
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 1.672881 GAAAATCCGTGGATGCTGGAG 59.327 52.381 1.33 0.00 34.75 3.86
1 2 1.281867 AGAAAATCCGTGGATGCTGGA 59.718 47.619 1.33 1.58 34.70 3.86
2 3 1.755179 AGAAAATCCGTGGATGCTGG 58.245 50.000 1.33 0.00 34.70 4.85
3 4 3.728864 CGAAAGAAAATCCGTGGATGCTG 60.729 47.826 1.33 0.00 34.70 4.41
4 5 2.420022 CGAAAGAAAATCCGTGGATGCT 59.580 45.455 1.33 0.00 34.70 3.79
5 6 2.161609 ACGAAAGAAAATCCGTGGATGC 59.838 45.455 1.33 0.00 34.70 3.91
6 7 3.747193 CACGAAAGAAAATCCGTGGATG 58.253 45.455 1.33 0.00 45.79 3.51
11 12 3.396260 TCCTCACGAAAGAAAATCCGT 57.604 42.857 0.00 0.00 35.46 4.69
12 13 3.424962 GCTTCCTCACGAAAGAAAATCCG 60.425 47.826 0.00 0.00 0.00 4.18
13 14 3.502211 TGCTTCCTCACGAAAGAAAATCC 59.498 43.478 0.00 0.00 0.00 3.01
14 15 4.024048 TGTGCTTCCTCACGAAAGAAAATC 60.024 41.667 0.00 0.00 39.73 2.17
15 16 3.882888 TGTGCTTCCTCACGAAAGAAAAT 59.117 39.130 0.00 0.00 39.73 1.82
16 17 3.275143 TGTGCTTCCTCACGAAAGAAAA 58.725 40.909 0.00 0.00 39.73 2.29
17 18 2.912771 TGTGCTTCCTCACGAAAGAAA 58.087 42.857 0.00 0.00 39.73 2.52
18 19 2.612212 GTTGTGCTTCCTCACGAAAGAA 59.388 45.455 0.00 0.00 39.73 2.52
19 20 2.210116 GTTGTGCTTCCTCACGAAAGA 58.790 47.619 0.00 0.00 39.73 2.52
20 21 1.264288 GGTTGTGCTTCCTCACGAAAG 59.736 52.381 0.00 0.00 39.73 2.62
21 22 1.305201 GGTTGTGCTTCCTCACGAAA 58.695 50.000 0.00 0.00 39.73 3.46
22 23 0.534203 GGGTTGTGCTTCCTCACGAA 60.534 55.000 0.00 0.00 39.73 3.85
23 24 1.070786 GGGTTGTGCTTCCTCACGA 59.929 57.895 0.00 0.00 39.73 4.35
24 25 0.535102 AAGGGTTGTGCTTCCTCACG 60.535 55.000 0.00 0.00 39.73 4.35
25 26 1.692411 AAAGGGTTGTGCTTCCTCAC 58.308 50.000 0.00 0.00 37.48 3.51
26 27 2.452600 AAAAGGGTTGTGCTTCCTCA 57.547 45.000 0.00 0.00 0.00 3.86
89 92 4.713814 AGTGATATGAGGCTGAGAGTTTCA 59.286 41.667 0.00 0.00 0.00 2.69
161 164 5.621193 TGGAGCTAGTAGTTTCTTTTGCTT 58.379 37.500 0.00 0.00 0.00 3.91
162 165 5.228945 TGGAGCTAGTAGTTTCTTTTGCT 57.771 39.130 0.00 0.00 0.00 3.91
163 166 5.643777 TGATGGAGCTAGTAGTTTCTTTTGC 59.356 40.000 0.00 0.00 0.00 3.68
164 167 6.650807 TGTGATGGAGCTAGTAGTTTCTTTTG 59.349 38.462 0.00 0.00 0.00 2.44
165 168 6.769512 TGTGATGGAGCTAGTAGTTTCTTTT 58.230 36.000 0.00 0.00 0.00 2.27
166 169 6.360370 TGTGATGGAGCTAGTAGTTTCTTT 57.640 37.500 0.00 0.00 0.00 2.52
167 170 6.155221 TGATGTGATGGAGCTAGTAGTTTCTT 59.845 38.462 0.00 0.00 0.00 2.52
168 171 5.658634 TGATGTGATGGAGCTAGTAGTTTCT 59.341 40.000 0.00 0.00 0.00 2.52
169 172 5.907207 TGATGTGATGGAGCTAGTAGTTTC 58.093 41.667 0.00 0.00 0.00 2.78
170 173 5.939764 TGATGTGATGGAGCTAGTAGTTT 57.060 39.130 0.00 0.00 0.00 2.66
171 174 5.939764 TTGATGTGATGGAGCTAGTAGTT 57.060 39.130 0.00 0.00 0.00 2.24
172 175 5.939764 TTTGATGTGATGGAGCTAGTAGT 57.060 39.130 0.00 0.00 0.00 2.73
213 216 6.934645 CAGTTGGAAGGTGAACTAATTACTGA 59.065 38.462 0.00 0.00 32.21 3.41
411 705 7.459795 TGATTGTGCTACCAATATTTGTGAA 57.540 32.000 2.51 0.00 35.24 3.18
412 706 7.643569 ATGATTGTGCTACCAATATTTGTGA 57.356 32.000 2.51 0.00 35.24 3.58
526 827 7.908601 CGTGTCTAGCGAATGTGCTTATATATA 59.091 37.037 0.00 0.00 44.46 0.86
527 828 6.747739 CGTGTCTAGCGAATGTGCTTATATAT 59.252 38.462 0.00 0.00 44.46 0.86
543 845 2.434359 GGGTGCCACGTGTCTAGC 60.434 66.667 15.65 11.15 0.00 3.42
552 854 1.652563 GACGTTGAAAGGGTGCCAC 59.347 57.895 0.00 0.00 0.00 5.01
579 881 0.464916 TATCTCCGCGTAGTGAGCCA 60.465 55.000 4.92 0.00 43.07 4.75
643 945 1.913403 CGATGCCACGAATTCTTTTGC 59.087 47.619 3.52 0.39 35.09 3.68
754 1089 7.718272 TGCGTTACTTAAATATAATCCGCTT 57.282 32.000 0.00 0.00 38.32 4.68
807 1146 9.528018 TGTATTTGAAAAAGAACACCTGAATTC 57.472 29.630 0.00 0.00 0.00 2.17
811 1150 7.417342 CCCTTGTATTTGAAAAAGAACACCTGA 60.417 37.037 0.00 0.00 0.00 3.86
815 1154 6.811954 TCCCCTTGTATTTGAAAAAGAACAC 58.188 36.000 0.00 0.00 0.00 3.32
1626 1966 1.035932 CCCCGACGTACACCATCTCT 61.036 60.000 0.00 0.00 0.00 3.10
1689 2029 4.215742 CCGCCTCCGAACGCCATA 62.216 66.667 0.00 0.00 36.29 2.74
1755 2095 1.244697 ACCTCTCGATGCACACGTCT 61.245 55.000 13.37 0.00 0.00 4.18
1968 2313 1.615392 GACCCAATTGCTTTGCTCAGT 59.385 47.619 0.00 0.00 33.73 3.41
2065 2410 2.676839 CAGTCCACATCAAGAGCATGAC 59.323 50.000 0.00 0.00 30.82 3.06
2178 2523 6.202762 TGTCATAACGAATCAAGCATGATACC 59.797 38.462 4.61 0.00 45.60 2.73
2322 2668 3.632145 CAGTCAAGGCTAACCAAACTTGT 59.368 43.478 0.00 0.00 40.74 3.16
2334 2680 4.518211 CAGAGAAAATCAACAGTCAAGGCT 59.482 41.667 0.00 0.00 0.00 4.58
2395 2741 7.834681 ACAGAGAGATGTACAAAGATAGTACCA 59.165 37.037 0.00 0.00 40.79 3.25
2402 2760 4.950475 TCCGACAGAGAGATGTACAAAGAT 59.050 41.667 0.00 0.00 32.25 2.40
2407 2765 4.276183 GCTTATCCGACAGAGAGATGTACA 59.724 45.833 0.00 0.00 32.25 2.90
2408 2766 4.276183 TGCTTATCCGACAGAGAGATGTAC 59.724 45.833 0.00 0.00 32.25 2.90
2409 2767 4.276183 GTGCTTATCCGACAGAGAGATGTA 59.724 45.833 0.00 0.00 32.25 2.29
2410 2768 3.067461 GTGCTTATCCGACAGAGAGATGT 59.933 47.826 0.00 0.00 35.68 3.06
2411 2769 3.067320 TGTGCTTATCCGACAGAGAGATG 59.933 47.826 0.00 0.00 0.00 2.90
2412 2770 3.291584 TGTGCTTATCCGACAGAGAGAT 58.708 45.455 0.00 0.00 0.00 2.75
2413 2771 2.723273 TGTGCTTATCCGACAGAGAGA 58.277 47.619 0.00 0.00 0.00 3.10
2414 2772 3.067320 TGATGTGCTTATCCGACAGAGAG 59.933 47.826 0.00 0.00 0.00 3.20
2415 2773 3.023832 TGATGTGCTTATCCGACAGAGA 58.976 45.455 0.00 0.00 0.00 3.10
2416 2774 3.443099 TGATGTGCTTATCCGACAGAG 57.557 47.619 0.00 0.00 0.00 3.35
2417 2775 4.406648 AATGATGTGCTTATCCGACAGA 57.593 40.909 0.00 0.00 0.00 3.41
2418 2776 5.532557 TCTAATGATGTGCTTATCCGACAG 58.467 41.667 0.00 0.00 0.00 3.51
2469 2827 4.785767 TGCTCACACCAAGCAGAG 57.214 55.556 0.00 0.00 44.51 3.35
2474 2832 0.036952 AGGTCGATGCTCACACCAAG 60.037 55.000 0.00 0.00 0.00 3.61
2576 2945 7.050377 ACATCAGAGGGAAAGTACATACATTG 58.950 38.462 0.00 0.00 0.00 2.82
2658 3027 3.118261 GGTGGATACTGATGAAAGGAGCA 60.118 47.826 0.00 0.00 37.61 4.26
2820 3189 4.019174 CAACATAACCCAAAGAGATGGCT 58.981 43.478 0.00 0.00 39.26 4.75
2903 3272 3.476552 TGGCTCATCCTATTAAAAGCGG 58.523 45.455 0.00 0.00 35.26 5.52
3027 3396 5.105146 ACTTGACCTTATGTAAGAGCCTCTG 60.105 44.000 0.00 0.00 35.33 3.35
3087 3456 2.420687 GCCAGATAAAGGAGGTGACCTG 60.421 54.545 9.89 0.00 40.49 4.00
3188 3557 6.224584 ACTGTAAAGGTTGAAAGAGTAGAGC 58.775 40.000 0.00 0.00 0.00 4.09
3650 4021 4.142049 TGCATACATGACAGATCAACCGTA 60.142 41.667 0.00 0.00 38.69 4.02
3652 4023 3.197265 TGCATACATGACAGATCAACCG 58.803 45.455 0.00 0.00 38.69 4.44
3676 4047 5.241728 GGTCAAGAAAGATTAACAAGCCTGT 59.758 40.000 0.00 0.00 37.39 4.00
3746 4120 2.173996 ACCAGGACATGCATCATGATGA 59.826 45.455 34.65 21.22 43.81 2.92
3809 4184 5.986501 AATACAGATCGGAGGGAGTATTC 57.013 43.478 0.00 0.00 29.03 1.75
3884 4287 9.570468 CATAAGTTGTAGTACTACTCCCTATGA 57.430 37.037 28.56 7.79 33.24 2.15
3885 4288 9.570468 TCATAAGTTGTAGTACTACTCCCTATG 57.430 37.037 28.56 25.18 33.24 2.23
3911 4315 8.559536 CACGAGGCTGTTTTCATGTAATAATAT 58.440 33.333 0.00 0.00 0.00 1.28
4023 4493 5.733091 GCAACTGAGTGCAATTGTCAAAGTA 60.733 40.000 7.40 0.00 44.29 2.24
4025 4495 3.488310 GCAACTGAGTGCAATTGTCAAAG 59.512 43.478 7.40 7.00 44.29 2.77
4054 4528 7.523293 TGTTGTATCAACATGAACAGGAAAT 57.477 32.000 10.63 0.00 34.97 2.17
4069 4543 6.947733 AGAATGAAACCATTCCTGTTGTATCA 59.052 34.615 12.83 0.00 46.87 2.15
4092 4566 6.119536 ACCAACTGTGAATAAGTGAACAAGA 58.880 36.000 0.00 0.00 0.00 3.02
4135 4609 7.100409 TGACCGTTTGATAATCAACACAGATA 58.900 34.615 0.00 0.00 35.89 1.98
4144 4618 7.100409 TGATAACACTGACCGTTTGATAATCA 58.900 34.615 0.00 0.00 0.00 2.57
4145 4619 7.277981 ACTGATAACACTGACCGTTTGATAATC 59.722 37.037 0.00 0.00 0.00 1.75
4156 4630 6.979238 GTCCACTATAACTGATAACACTGACC 59.021 42.308 0.00 0.00 0.00 4.02
4234 4770 7.224297 TGACAGATATTACAGCCCCTATTTTC 58.776 38.462 0.00 0.00 0.00 2.29
4319 4902 7.710907 GCTCATATTAGTTGTGAACTCATGGTA 59.289 37.037 0.00 0.00 41.77 3.25


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

AutoCloner maintained by Alex Coulton.