Multiple sequence alignment - TraesCS1B01G210700

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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 TraesCS1B01G210700 chr1B 100.000 6267 0 0 1 6267 383791487 383797753 0.000000e+00 11574
1 TraesCS1B01G210700 chr1B 97.241 145 3 1 56 199 144273309 144273453 1.750000e-60 244
2 TraesCS1B01G210700 chr1B 96.552 145 4 1 56 199 40487449 40487305 8.120000e-59 239
3 TraesCS1B01G210700 chr1D 97.831 3228 61 4 2457 5680 282283318 282286540 0.000000e+00 5565
4 TraesCS1B01G210700 chr1D 96.246 2264 47 14 216 2456 282280833 282283081 0.000000e+00 3675
5 TraesCS1B01G210700 chr1D 92.818 543 33 6 5731 6267 282286545 282287087 0.000000e+00 782
6 TraesCS1B01G210700 chr1D 96.517 201 6 1 1 200 282280648 282280848 1.300000e-86 331
7 TraesCS1B01G210700 chr1A 97.646 3228 68 3 2457 5680 354296816 354300039 0.000000e+00 5533
8 TraesCS1B01G210700 chr1A 95.664 2260 59 12 216 2456 354294340 354296579 0.000000e+00 3594
9 TraesCS1B01G210700 chr1A 92.237 541 34 6 5731 6267 354300044 354300580 0.000000e+00 760
10 TraesCS1B01G210700 chr1A 95.625 160 6 1 1 159 354292756 354292915 8.060000e-64 255
11 TraesCS1B01G210700 chr7D 77.358 954 193 19 3510 4450 14882075 14881132 1.540000e-150 544
12 TraesCS1B01G210700 chr7D 75.542 830 184 14 2523 3347 14883402 14882587 2.120000e-104 390
13 TraesCS1B01G210700 chr7A 77.358 954 193 19 3510 4450 14191151 14190208 1.540000e-150 544
14 TraesCS1B01G210700 chr7A 95.890 146 5 1 56 200 113109534 113109389 1.050000e-57 235
15 TraesCS1B01G210700 chr4A 76.625 954 200 19 3507 4447 721384195 721385138 7.250000e-139 505
16 TraesCS1B01G210700 chr6B 97.959 147 2 1 54 199 708552969 708552823 2.900000e-63 254
17 TraesCS1B01G210700 chr5B 97.241 145 3 1 56 199 416465156 416465300 1.750000e-60 244
18 TraesCS1B01G210700 chr5B 95.862 145 5 1 56 199 421517577 421517721 3.780000e-57 233
19 TraesCS1B01G210700 chr2A 95.890 146 4 2 56 200 59043393 59043249 1.050000e-57 235
20 TraesCS1B01G210700 chr5A 98.276 58 1 0 143 200 400399913 400399970 1.110000e-17 102


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 TraesCS1B01G210700 chr1B 383791487 383797753 6266 False 11574.00 11574 100.000 1 6267 1 chr1B.!!$F2 6266
1 TraesCS1B01G210700 chr1D 282280648 282287087 6439 False 2588.25 5565 95.853 1 6267 4 chr1D.!!$F1 6266
2 TraesCS1B01G210700 chr1A 354292756 354300580 7824 False 2535.50 5533 95.293 1 6267 4 chr1A.!!$F1 6266
3 TraesCS1B01G210700 chr7D 14881132 14883402 2270 True 467.00 544 76.450 2523 4450 2 chr7D.!!$R1 1927
4 TraesCS1B01G210700 chr7A 14190208 14191151 943 True 544.00 544 77.358 3510 4450 1 chr7A.!!$R1 940
5 TraesCS1B01G210700 chr4A 721384195 721385138 943 False 505.00 505 76.625 3507 4447 1 chr4A.!!$F1 940

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
98 100 2.436109 GGCCCTCTGGTGCAAAGA 59.564 61.111 0.00 0.0 0.00 2.52 F
973 2381 3.078097 TCACGAGGAAGAAGAGAGTCAG 58.922 50.000 0.00 0.0 0.00 3.51 F
2539 4201 0.543277 CATGCAGGCTCCTTGTCCTA 59.457 55.000 0.00 0.0 0.00 2.94 F
2917 4579 0.695462 ATGATGGAGGGGCACTGCTA 60.695 55.000 10.39 0.0 38.54 3.49 F
4645 6668 0.250640 ACTGCTTCCTTCCAGCACTG 60.251 55.000 0.00 0.0 42.49 3.66 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1116 2524 1.219124 GATGAAGCGCCCAGACTCA 59.781 57.895 2.29 0.0 0.00 3.41 R
2545 4207 0.178953 AGAAGGCCAGTGCAACCAAT 60.179 50.000 5.01 0.0 37.80 3.16 R
3706 5723 0.457851 GCACATAGCAGAGTCGGTCT 59.542 55.000 0.00 0.0 44.79 3.85 R
4718 6741 0.674895 GCCAGGAGACAAAGCGTGAT 60.675 55.000 0.00 0.0 0.00 3.06 R
6112 8145 0.036952 ACACCGAGAATGAGGCAGTG 60.037 55.000 0.00 0.0 0.00 3.66 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
98 100 2.436109 GGCCCTCTGGTGCAAAGA 59.564 61.111 0.00 0.00 0.00 2.52
184 1586 4.951094 ACAAGGTAAAACCAAGTTGCAGTA 59.049 37.500 0.00 0.00 41.95 2.74
185 1587 5.419471 ACAAGGTAAAACCAAGTTGCAGTAA 59.581 36.000 0.00 0.00 41.95 2.24
186 1588 6.097696 ACAAGGTAAAACCAAGTTGCAGTAAT 59.902 34.615 0.00 0.00 41.95 1.89
187 1589 7.285858 ACAAGGTAAAACCAAGTTGCAGTAATA 59.714 33.333 0.00 0.00 41.95 0.98
188 1590 7.826918 AGGTAAAACCAAGTTGCAGTAATAA 57.173 32.000 0.00 0.00 41.95 1.40
189 1591 7.882179 AGGTAAAACCAAGTTGCAGTAATAAG 58.118 34.615 0.00 0.00 41.95 1.73
190 1592 7.039993 AGGTAAAACCAAGTTGCAGTAATAAGG 60.040 37.037 0.00 0.00 41.95 2.69
191 1593 6.969993 AAAACCAAGTTGCAGTAATAAGGA 57.030 33.333 0.00 0.00 0.00 3.36
192 1594 7.539034 AAAACCAAGTTGCAGTAATAAGGAT 57.461 32.000 0.00 0.00 0.00 3.24
193 1595 8.644374 AAAACCAAGTTGCAGTAATAAGGATA 57.356 30.769 0.00 0.00 0.00 2.59
194 1596 7.865706 AACCAAGTTGCAGTAATAAGGATAG 57.134 36.000 0.00 0.00 0.00 2.08
195 1597 6.958767 ACCAAGTTGCAGTAATAAGGATAGT 58.041 36.000 0.00 0.00 0.00 2.12
196 1598 8.086143 ACCAAGTTGCAGTAATAAGGATAGTA 57.914 34.615 0.00 0.00 0.00 1.82
197 1599 8.204836 ACCAAGTTGCAGTAATAAGGATAGTAG 58.795 37.037 0.00 0.00 0.00 2.57
198 1600 8.204836 CCAAGTTGCAGTAATAAGGATAGTAGT 58.795 37.037 0.00 0.00 0.00 2.73
199 1601 9.035607 CAAGTTGCAGTAATAAGGATAGTAGTG 57.964 37.037 0.00 0.00 36.54 2.74
200 1602 8.534954 AGTTGCAGTAATAAGGATAGTAGTGA 57.465 34.615 3.18 0.00 35.86 3.41
201 1603 8.978472 AGTTGCAGTAATAAGGATAGTAGTGAA 58.022 33.333 3.18 0.00 35.86 3.18
202 1604 9.595823 GTTGCAGTAATAAGGATAGTAGTGAAA 57.404 33.333 3.18 0.00 35.86 2.69
292 1699 8.958119 TCAGGTGTGGATGATTAAGTTATAAC 57.042 34.615 7.57 7.57 0.00 1.89
353 1760 7.854557 ATGATTGCATCGCATGTAATAGTAT 57.145 32.000 10.64 5.76 43.99 2.12
354 1761 7.064060 TGATTGCATCGCATGTAATAGTATG 57.936 36.000 10.64 0.00 43.99 2.39
355 1762 6.650390 TGATTGCATCGCATGTAATAGTATGT 59.350 34.615 10.64 0.00 43.99 2.29
356 1763 7.816995 TGATTGCATCGCATGTAATAGTATGTA 59.183 33.333 10.64 0.00 43.99 2.29
357 1764 8.722480 ATTGCATCGCATGTAATAGTATGTAT 57.278 30.769 9.48 0.00 42.53 2.29
359 1766 9.816354 TTGCATCGCATGTAATAGTATGTATAT 57.184 29.630 0.00 0.00 38.76 0.86
360 1767 9.248291 TGCATCGCATGTAATAGTATGTATATG 57.752 33.333 0.00 0.00 31.71 1.78
361 1768 9.249457 GCATCGCATGTAATAGTATGTATATGT 57.751 33.333 0.00 0.00 0.00 2.29
523 1930 5.044558 CGCTTCCTCATTACTACCTTTCTC 58.955 45.833 0.00 0.00 0.00 2.87
680 2087 7.589958 TCCTTTCCTTACAAAGCAAAATACA 57.410 32.000 0.00 0.00 32.75 2.29
861 2268 9.956640 TCCAAATATGTCTTGGCAAAAATAAAT 57.043 25.926 0.00 0.00 42.68 1.40
943 2350 4.842574 TCAGCCACAAGATAACAGCATAA 58.157 39.130 0.00 0.00 0.00 1.90
944 2351 5.439721 TCAGCCACAAGATAACAGCATAAT 58.560 37.500 0.00 0.00 0.00 1.28
973 2381 3.078097 TCACGAGGAAGAAGAGAGTCAG 58.922 50.000 0.00 0.00 0.00 3.51
1116 2524 4.736896 GTCTTCGGCCGGCGAACT 62.737 66.667 27.83 0.00 0.00 3.01
1347 2755 2.670148 GGGCCCTGACTCCGACATT 61.670 63.158 17.04 0.00 0.00 2.71
1389 2797 1.227764 CATCTGCATGGTCGAGGGG 60.228 63.158 0.00 0.00 0.00 4.79
1551 2959 1.129058 ACACCGAGTGGGAAGAAGTT 58.871 50.000 0.00 0.00 40.75 2.66
1755 3163 1.060713 CAGACGACAATGTGGACGAC 58.939 55.000 1.61 0.00 0.00 4.34
1908 3316 3.780804 TGTGCCATTACTGTTACCTGT 57.219 42.857 0.00 0.00 0.00 4.00
1989 3397 8.400947 CCCACTAACACAAGAATAATGAATCAG 58.599 37.037 0.00 0.00 0.00 2.90
2023 3431 8.685838 ACATTAAACTAAAGGAACTGCAGTTA 57.314 30.769 31.20 14.95 40.79 2.24
2156 3564 6.242396 TGCTACAAGGAAGCCAAGTAAATAA 58.758 36.000 0.00 0.00 39.30 1.40
2232 3642 6.489700 TGAGTTGTCAATTTCAGCCAAAGATA 59.510 34.615 0.00 0.00 0.00 1.98
2488 4150 5.068198 ACATCTAGGTGCATTGCTATTTTGG 59.932 40.000 10.49 0.00 0.00 3.28
2491 4153 2.762327 AGGTGCATTGCTATTTTGGGAG 59.238 45.455 10.49 0.00 0.00 4.30
2510 4172 3.517500 GGAGACCTTCCTCTTGTCTGAAT 59.482 47.826 0.00 0.00 43.16 2.57
2539 4201 0.543277 CATGCAGGCTCCTTGTCCTA 59.457 55.000 0.00 0.00 0.00 2.94
2545 4207 1.120530 GGCTCCTTGTCCTAATCCGA 58.879 55.000 0.00 0.00 0.00 4.55
2779 4441 3.819902 GCAAATCTGATCTCCCTGGAATC 59.180 47.826 0.00 0.00 0.00 2.52
2848 4510 3.248363 TCACAGCAAACACAATTCTCTCG 59.752 43.478 0.00 0.00 0.00 4.04
2917 4579 0.695462 ATGATGGAGGGGCACTGCTA 60.695 55.000 10.39 0.00 38.54 3.49
3109 4771 4.557205 GTGAGTATGACGAGTTCAAGGTT 58.443 43.478 0.00 0.00 37.92 3.50
3208 4870 8.248904 TGAATCTTCAAAGGGAAAAGATCAAA 57.751 30.769 0.00 0.00 38.47 2.69
3706 5723 0.907230 TCATGATGGACCGTGGTGGA 60.907 55.000 0.00 0.00 42.00 4.02
3850 5867 2.666085 AGTGTATGTCGGCACTGGA 58.334 52.632 0.00 0.00 43.45 3.86
3940 5957 3.670377 GGTTGTTGCCTCCCACGC 61.670 66.667 0.00 0.00 0.00 5.34
4399 6422 1.971357 ACAGATCGTCTTCACCAGGTT 59.029 47.619 0.00 0.00 0.00 3.50
4478 6501 2.164422 GCCAGCTCCAAAATGAAGGTAC 59.836 50.000 0.00 0.00 0.00 3.34
4480 6503 3.826157 CCAGCTCCAAAATGAAGGTACAA 59.174 43.478 0.00 0.00 0.00 2.41
4488 6511 1.668826 ATGAAGGTACAAGCCCCTCA 58.331 50.000 0.00 0.00 0.00 3.86
4503 6526 3.948473 GCCCCTCAAGACTTTCTATTTCC 59.052 47.826 0.00 0.00 0.00 3.13
4573 6596 4.870991 GCTTCACAGGTACTACAAAGGATC 59.129 45.833 0.00 0.00 36.02 3.36
4645 6668 0.250640 ACTGCTTCCTTCCAGCACTG 60.251 55.000 0.00 0.00 42.49 3.66
4718 6741 6.267699 CCTGACATACCTACTTATCATCACCA 59.732 42.308 0.00 0.00 0.00 4.17
4786 6809 2.046892 CTGGAAGAGTGGTGGCGG 60.047 66.667 0.00 0.00 34.07 6.13
4909 6932 1.076024 ACATCAAAGCAGGTGGGTGAT 59.924 47.619 0.00 0.00 0.00 3.06
5152 7175 2.044946 GGCAGGACACCCACCATC 60.045 66.667 0.00 0.00 32.75 3.51
5251 7274 0.108329 ATCAACAGTTAGGCGGGTCG 60.108 55.000 0.00 0.00 0.00 4.79
5388 7411 5.356190 CACTCTATGAACCACATTCTGCATT 59.644 40.000 0.00 0.00 40.07 3.56
5428 7451 3.065095 GCAGCTGAATCCAGATCAAGTTC 59.935 47.826 20.43 0.00 43.02 3.01
5429 7452 3.309138 CAGCTGAATCCAGATCAAGTTCG 59.691 47.826 8.42 0.00 43.02 3.95
5430 7453 3.055530 AGCTGAATCCAGATCAAGTTCGT 60.056 43.478 0.00 0.00 43.02 3.85
5431 7454 3.308323 GCTGAATCCAGATCAAGTTCGTC 59.692 47.826 0.00 0.00 43.02 4.20
5568 7591 7.012421 GTCATTCTTTGGTCACAACTCTTACTT 59.988 37.037 0.00 0.00 36.06 2.24
5668 7695 2.028130 AGCTCACTCCTATTCAGACCG 58.972 52.381 0.00 0.00 0.00 4.79
5680 7707 7.634718 TCCTATTCAGACCGATAGTGATATCT 58.365 38.462 3.98 0.00 0.00 1.98
5682 7709 8.402472 CCTATTCAGACCGATAGTGATATCTTC 58.598 40.741 3.98 0.00 0.00 2.87
5683 7710 9.173021 CTATTCAGACCGATAGTGATATCTTCT 57.827 37.037 3.98 5.40 0.00 2.85
5685 7712 8.919777 TTCAGACCGATAGTGATATCTTCTAA 57.080 34.615 3.98 0.00 0.00 2.10
5686 7713 9.521841 TTCAGACCGATAGTGATATCTTCTAAT 57.478 33.333 3.98 0.00 0.00 1.73
5687 7714 9.521841 TCAGACCGATAGTGATATCTTCTAATT 57.478 33.333 3.98 0.00 0.00 1.40
5688 7715 9.566530 CAGACCGATAGTGATATCTTCTAATTG 57.433 37.037 3.98 3.32 0.00 2.32
5689 7716 9.521841 AGACCGATAGTGATATCTTCTAATTGA 57.478 33.333 3.98 0.00 0.00 2.57
5696 7723 8.900983 AGTGATATCTTCTAATTGAAAGGAGC 57.099 34.615 3.98 0.00 33.79 4.70
5697 7724 7.655328 AGTGATATCTTCTAATTGAAAGGAGCG 59.345 37.037 3.98 0.00 33.79 5.03
5698 7725 6.425114 TGATATCTTCTAATTGAAAGGAGCGC 59.575 38.462 0.00 0.00 33.79 5.92
5699 7726 4.207891 TCTTCTAATTGAAAGGAGCGCT 57.792 40.909 11.27 11.27 33.79 5.92
5700 7727 4.184629 TCTTCTAATTGAAAGGAGCGCTC 58.815 43.478 29.38 29.38 33.79 5.03
5709 7736 4.400961 GGAGCGCTCCTGCCAGTT 62.401 66.667 42.50 3.20 46.16 3.16
5710 7737 2.359230 GAGCGCTCCTGCCAGTTT 60.359 61.111 27.22 0.00 35.36 2.66
5711 7738 2.359230 AGCGCTCCTGCCAGTTTC 60.359 61.111 2.64 0.00 35.36 2.78
5712 7739 2.359230 GCGCTCCTGCCAGTTTCT 60.359 61.111 0.00 0.00 35.36 2.52
5713 7740 2.394563 GCGCTCCTGCCAGTTTCTC 61.395 63.158 0.00 0.00 35.36 2.87
5714 7741 2.097038 CGCTCCTGCCAGTTTCTCG 61.097 63.158 0.00 0.00 35.36 4.04
5715 7742 1.293498 GCTCCTGCCAGTTTCTCGA 59.707 57.895 0.00 0.00 0.00 4.04
5716 7743 0.320771 GCTCCTGCCAGTTTCTCGAA 60.321 55.000 0.00 0.00 0.00 3.71
5717 7744 1.878102 GCTCCTGCCAGTTTCTCGAAA 60.878 52.381 0.00 0.00 0.00 3.46
5718 7745 2.494059 CTCCTGCCAGTTTCTCGAAAA 58.506 47.619 0.00 0.00 31.33 2.29
5719 7746 2.878406 CTCCTGCCAGTTTCTCGAAAAA 59.122 45.455 0.00 0.00 31.33 1.94
5755 7782 7.561021 AATGTGTGTGCGTATTCCATATAAA 57.439 32.000 0.00 0.00 0.00 1.40
5757 7784 6.777101 TGTGTGTGCGTATTCCATATAAAAC 58.223 36.000 0.00 0.00 0.00 2.43
5810 7837 8.829612 ACAGAAATGCCATTTTCTTTGTAAAAG 58.170 29.630 3.82 0.00 41.95 2.27
5823 7850 9.809096 TTTCTTTGTAAAAGTAATGCATCAACA 57.191 25.926 0.00 0.00 0.00 3.33
5856 7883 5.488262 AAAAATGGACTGGGAAATTCCTG 57.512 39.130 12.28 7.86 36.57 3.86
5923 7953 7.704899 TGGAACTTATGTAACGATGATACACTG 59.295 37.037 0.00 0.00 36.19 3.66
6017 8050 7.955918 ACCTGCAATTTCTTTCAAATCTAGTT 58.044 30.769 0.00 0.00 0.00 2.24
6018 8051 8.424133 ACCTGCAATTTCTTTCAAATCTAGTTT 58.576 29.630 0.00 0.00 0.00 2.66
6064 8097 8.616076 CATTTAGGTGTAAGCCTCTTGAAATAG 58.384 37.037 0.00 0.00 39.94 1.73
6078 8111 7.384660 CCTCTTGAAATAGAGTACATCAGCATC 59.615 40.741 0.00 0.00 40.04 3.91
6094 8127 3.376234 CAGCATCGTGTCATGGAAAGATT 59.624 43.478 0.00 0.00 0.00 2.40
6103 8136 6.415867 CGTGTCATGGAAAGATTCAATATTGC 59.584 38.462 10.76 0.00 0.00 3.56
6107 8140 7.437267 GTCATGGAAAGATTCAATATTGCCAAG 59.563 37.037 8.62 4.64 42.22 3.61
6109 8142 7.104043 TGGAAAGATTCAATATTGCCAAGAG 57.896 36.000 1.48 0.00 36.26 2.85
6186 8219 5.351740 GCATCTGAGTAGAACCCAAAGTTAC 59.648 44.000 0.00 0.00 39.40 2.50
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
34 35 3.879885 CCCCCAACACACGGTGGA 61.880 66.667 13.48 0.00 37.94 4.02
74 76 2.208349 ACCAGAGGGCCCAAGTCT 59.792 61.111 27.56 16.15 37.90 3.24
212 1614 8.275040 ACATCTGCCACTACTATCCTTATTTTT 58.725 33.333 0.00 0.00 0.00 1.94
213 1615 7.806180 ACATCTGCCACTACTATCCTTATTTT 58.194 34.615 0.00 0.00 0.00 1.82
214 1616 7.380423 ACATCTGCCACTACTATCCTTATTT 57.620 36.000 0.00 0.00 0.00 1.40
249 1651 6.666546 ACACCTGATACCTGCTTTTACTACTA 59.333 38.462 0.00 0.00 0.00 1.82
250 1652 5.484290 ACACCTGATACCTGCTTTTACTACT 59.516 40.000 0.00 0.00 0.00 2.57
251 1653 5.581085 CACACCTGATACCTGCTTTTACTAC 59.419 44.000 0.00 0.00 0.00 2.73
292 1699 1.607628 GATGGATGCCTGCTTGCTTAG 59.392 52.381 0.00 0.00 0.00 2.18
353 1760 6.484818 GCATGATGCATACACACATATACA 57.515 37.500 13.36 0.00 44.26 2.29
523 1930 2.043625 CAATGGCGATGGAATGGGG 58.956 57.895 0.00 0.00 0.00 4.96
680 2087 2.587307 AGGGGGAGAATAAATGGCAAGT 59.413 45.455 0.00 0.00 0.00 3.16
861 2268 5.125578 ACATTGACATTAGTCTCGCTGTAGA 59.874 40.000 0.00 0.00 45.20 2.59
943 2350 6.037786 TCTTCTTCCTCGTGATGTTGTTAT 57.962 37.500 0.00 0.00 0.00 1.89
944 2351 5.243060 TCTCTTCTTCCTCGTGATGTTGTTA 59.757 40.000 0.00 0.00 0.00 2.41
973 2381 2.414824 CCTCTGTACGTGCTCTTCACTC 60.415 54.545 4.97 0.00 43.46 3.51
990 2398 2.367512 GACCCCATGGCCTCCTCT 60.368 66.667 6.09 0.00 33.59 3.69
1071 2479 4.101790 GCCGATGTTGGTGCCGTG 62.102 66.667 0.00 0.00 0.00 4.94
1107 2515 2.125912 CCAGACTCAGTTCGCCGG 60.126 66.667 0.00 0.00 0.00 6.13
1116 2524 1.219124 GATGAAGCGCCCAGACTCA 59.781 57.895 2.29 0.00 0.00 3.41
1347 2755 2.609299 TTGGGGCCAGATCGACCA 60.609 61.111 4.39 0.00 0.00 4.02
1551 2959 2.235650 CTCATTGCTGGAGTTGGAGAGA 59.764 50.000 0.00 0.00 0.00 3.10
1755 3163 2.213499 GGTACTCCATTTCTGCCATCG 58.787 52.381 0.00 0.00 0.00 3.84
1908 3316 8.795842 AACCCGTACATATAACTTTTGATTGA 57.204 30.769 0.00 0.00 0.00 2.57
2023 3431 3.245052 GGCCTAATGAGAGGGTAATGCAT 60.245 47.826 0.00 0.00 37.06 3.96
2456 3882 1.343142 TGCACCTAGATGTTGTCACGT 59.657 47.619 0.00 0.00 0.00 4.49
2458 3884 3.426695 GCAATGCACCTAGATGTTGTCAC 60.427 47.826 0.00 0.00 0.00 3.67
2488 4150 2.530701 TCAGACAAGAGGAAGGTCTCC 58.469 52.381 0.00 0.00 45.81 3.71
2491 4153 4.646572 ACAATTCAGACAAGAGGAAGGTC 58.353 43.478 0.00 0.00 0.00 3.85
2495 4157 5.815233 AGAGACAATTCAGACAAGAGGAA 57.185 39.130 0.00 0.00 0.00 3.36
2510 4172 0.251033 AGCCTGCATGCAAGAGACAA 60.251 50.000 22.88 0.00 0.00 3.18
2539 4201 1.176527 CCAGTGCAACCAATCGGATT 58.823 50.000 0.00 0.00 37.80 3.01
2545 4207 0.178953 AGAAGGCCAGTGCAACCAAT 60.179 50.000 5.01 0.00 37.80 3.16
2779 4441 4.627035 TCAGCAGTTGACACAAAGATATCG 59.373 41.667 0.00 0.00 0.00 2.92
2848 4510 2.237392 AGGGTAGTCAACTGCAAGGATC 59.763 50.000 0.72 0.00 39.30 3.36
2917 4579 2.125106 GCCATCGCCTCGAAGGTT 60.125 61.111 11.34 0.00 44.99 3.50
2953 4615 2.675889 GCAGAATGGCACCCAGAAATTG 60.676 50.000 0.00 0.00 36.75 2.32
3109 4771 1.643868 CTGGCAAGCCATTAACGCGA 61.644 55.000 15.93 0.00 46.15 5.87
3208 4870 0.917533 ATTGCTCATCACCTCCAGCT 59.082 50.000 0.00 0.00 32.76 4.24
3363 5025 3.880490 AGACCAGAAATTGTGTTTACGCA 59.120 39.130 0.00 0.00 34.11 5.24
3706 5723 0.457851 GCACATAGCAGAGTCGGTCT 59.542 55.000 0.00 0.00 44.79 3.85
3955 5972 1.490490 TCGGGATTAGCATTGGAAGCT 59.510 47.619 0.00 0.00 45.77 3.74
4051 6074 5.163673 GGAGTCAATGAGAAAGCTGGAATTC 60.164 44.000 0.00 0.00 0.00 2.17
4399 6422 0.834687 AACCAGTAGCCCACCGAAGA 60.835 55.000 0.00 0.00 0.00 2.87
4478 6501 2.575805 AGAAAGTCTTGAGGGGCTTG 57.424 50.000 0.00 0.00 0.00 4.01
4480 6503 4.324641 GGAAATAGAAAGTCTTGAGGGGCT 60.325 45.833 0.00 0.00 0.00 5.19
4488 6511 8.164057 AGTAAGGGATGGAAATAGAAAGTCTT 57.836 34.615 0.00 0.00 0.00 3.01
4503 6526 6.380274 TGGTGAGTCTACTTTAGTAAGGGATG 59.620 42.308 0.00 0.00 35.61 3.51
4573 6596 1.093972 TGCCAACATTGAGGTATGCG 58.906 50.000 0.00 0.00 0.00 4.73
4718 6741 0.674895 GCCAGGAGACAAAGCGTGAT 60.675 55.000 0.00 0.00 0.00 3.06
4786 6809 6.532657 CACCAATAAGCCAGAATTGTTCATTC 59.467 38.462 0.00 0.00 41.73 2.67
4909 6932 7.443272 AGTTCTGCAAATTCATCATCGATATCA 59.557 33.333 0.00 0.00 0.00 2.15
5152 7175 0.465705 ATCCAGCCCAGACATACACG 59.534 55.000 0.00 0.00 0.00 4.49
5218 7241 1.814394 TGTTGATTGGCAGCTGATGAC 59.186 47.619 20.43 4.47 37.50 3.06
5251 7274 2.951229 TGGGTCAAGGGAAAGAGAAC 57.049 50.000 0.00 0.00 0.00 3.01
5388 7411 4.136796 GCTGCAGATTAACCCATCATGTA 58.863 43.478 20.43 0.00 0.00 2.29
5428 7451 2.746904 TCCTATGCCAATTGTTGTGACG 59.253 45.455 4.43 0.00 0.00 4.35
5429 7452 4.989279 ATCCTATGCCAATTGTTGTGAC 57.011 40.909 4.43 0.00 0.00 3.67
5430 7453 6.604171 AGATATCCTATGCCAATTGTTGTGA 58.396 36.000 4.43 0.00 0.00 3.58
5431 7454 6.713903 AGAGATATCCTATGCCAATTGTTGTG 59.286 38.462 4.43 0.00 0.00 3.33
5591 7614 4.161754 GGTCAGGTACTTGTAAGCTATGGT 59.838 45.833 4.75 0.00 34.60 3.55
5592 7615 4.406003 AGGTCAGGTACTTGTAAGCTATGG 59.594 45.833 4.75 0.00 34.60 2.74
5680 7707 3.270877 GGAGCGCTCCTTTCAATTAGAA 58.729 45.455 42.50 0.00 46.16 2.10
5693 7720 2.359230 AAACTGGCAGGAGCGCTC 60.359 61.111 29.38 29.38 43.41 5.03
5694 7721 2.359230 GAAACTGGCAGGAGCGCT 60.359 61.111 20.34 11.27 43.41 5.92
5695 7722 2.359230 AGAAACTGGCAGGAGCGC 60.359 61.111 20.34 0.00 43.41 5.92
5696 7723 2.097038 CGAGAAACTGGCAGGAGCG 61.097 63.158 20.34 10.84 43.41 5.03
5697 7724 0.320771 TTCGAGAAACTGGCAGGAGC 60.321 55.000 20.34 7.04 41.10 4.70
5698 7725 2.169832 TTTCGAGAAACTGGCAGGAG 57.830 50.000 20.34 3.32 0.00 3.69
5699 7726 2.631160 TTTTCGAGAAACTGGCAGGA 57.369 45.000 20.34 1.80 0.00 3.86
5728 7755 4.576216 TGGAATACGCACACACATTTTT 57.424 36.364 0.00 0.00 0.00 1.94
5729 7756 4.782019 ATGGAATACGCACACACATTTT 57.218 36.364 0.00 0.00 0.00 1.82
5736 7763 8.984764 TCTATGTTTTATATGGAATACGCACAC 58.015 33.333 0.00 0.00 0.00 3.82
5755 7782 7.224753 CCGTTTTAGCACTATCATGTCTATGTT 59.775 37.037 0.00 0.00 35.73 2.71
5757 7784 6.923508 TCCGTTTTAGCACTATCATGTCTATG 59.076 38.462 0.00 0.00 35.57 2.23
5889 7919 5.813672 TCGTTACATAAGTTCCAACTATGCC 59.186 40.000 0.00 0.00 38.57 4.40
5898 7928 7.705325 ACAGTGTATCATCGTTACATAAGTTCC 59.295 37.037 0.00 0.00 32.56 3.62
5899 7929 8.630278 ACAGTGTATCATCGTTACATAAGTTC 57.370 34.615 0.00 0.00 32.56 3.01
6017 8050 3.119209 TGATTTTGCAATGCCGCTCATAA 60.119 39.130 1.53 0.00 34.33 1.90
6018 8051 2.426381 TGATTTTGCAATGCCGCTCATA 59.574 40.909 1.53 0.00 34.33 2.15
6022 8055 2.389962 AATGATTTTGCAATGCCGCT 57.610 40.000 1.53 0.00 0.00 5.52
6064 8097 3.150848 TGACACGATGCTGATGTACTC 57.849 47.619 0.00 0.00 0.00 2.59
6078 8111 6.415867 GCAATATTGAATCTTTCCATGACACG 59.584 38.462 19.73 0.00 0.00 4.49
6103 8136 0.322277 ATGAGGCAGTGTGCTCTTGG 60.322 55.000 0.00 0.00 44.28 3.61
6107 8140 1.367659 GAGAATGAGGCAGTGTGCTC 58.632 55.000 0.00 0.00 44.28 4.26
6109 8142 1.364626 CCGAGAATGAGGCAGTGTGC 61.365 60.000 0.00 0.00 44.08 4.57
6112 8145 0.036952 ACACCGAGAATGAGGCAGTG 60.037 55.000 0.00 0.00 0.00 3.66
6210 8243 8.873144 CCTTTTGAATATCATCCCACCATTATT 58.127 33.333 0.00 0.00 0.00 1.40


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

AutoCloner maintained by Alex Coulton.