Multiple sequence alignment - TraesCS7B01G101800

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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 TraesCS7B01G101800 chr7B 100.000 4358 0 0 1 4358 116050091 116045734 0.000000e+00 8048.0
1 TraesCS7B01G101800 chr7B 98.958 960 10 0 3399 4358 739088383 739089342 0.000000e+00 1718.0
2 TraesCS7B01G101800 chr7B 98.750 960 11 1 3399 4358 727332557 727331599 0.000000e+00 1705.0
3 TraesCS7B01G101800 chr7B 98.646 960 13 0 3399 4358 70909181 70910140 0.000000e+00 1701.0
4 TraesCS7B01G101800 chr7B 85.086 409 43 7 665 1066 116127609 116127212 6.790000e-108 401.0
5 TraesCS7B01G101800 chr7D 95.979 1542 48 8 1830 3365 153986363 153984830 0.000000e+00 2492.0
6 TraesCS7B01G101800 chr7D 90.170 1882 106 31 1 1842 153988291 153986449 0.000000e+00 2377.0
7 TraesCS7B01G101800 chr7D 83.594 128 10 5 803 919 154084327 154084200 4.610000e-20 110.0
8 TraesCS7B01G101800 chr7D 80.247 162 17 7 663 822 154085065 154084917 1.660000e-19 108.0
9 TraesCS7B01G101800 chr7A 95.090 1507 63 5 1893 3398 155967111 155965615 0.000000e+00 2362.0
10 TraesCS7B01G101800 chr7A 87.030 1542 97 41 273 1734 155968784 155967266 0.000000e+00 1644.0
11 TraesCS7B01G101800 chr7A 92.683 123 8 1 149 271 155968835 155968956 4.480000e-40 176.0
12 TraesCS7B01G101800 chr6B 99.167 960 8 0 3399 4358 29925995 29926954 0.000000e+00 1729.0
13 TraesCS7B01G101800 chr6B 98.854 960 11 0 3399 4358 708527459 708528418 0.000000e+00 1712.0
14 TraesCS7B01G101800 chr3B 98.854 960 10 1 3399 4358 814763830 814762872 0.000000e+00 1711.0
15 TraesCS7B01G101800 chr4B 98.750 960 12 0 3399 4358 663890404 663889445 0.000000e+00 1707.0
16 TraesCS7B01G101800 chr2B 98.750 960 12 0 3399 4358 68194191 68195150 0.000000e+00 1707.0
17 TraesCS7B01G101800 chr2A 98.646 960 12 1 3399 4358 746947263 746946305 0.000000e+00 1700.0
18 TraesCS7B01G101800 chr3A 87.500 64 6 2 2246 2308 632425861 632425923 6.050000e-09 73.1


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 TraesCS7B01G101800 chr7B 116045734 116050091 4357 True 8048.0 8048 100.0000 1 4358 1 chr7B.!!$R1 4357
1 TraesCS7B01G101800 chr7B 739088383 739089342 959 False 1718.0 1718 98.9580 3399 4358 1 chr7B.!!$F2 959
2 TraesCS7B01G101800 chr7B 727331599 727332557 958 True 1705.0 1705 98.7500 3399 4358 1 chr7B.!!$R3 959
3 TraesCS7B01G101800 chr7B 70909181 70910140 959 False 1701.0 1701 98.6460 3399 4358 1 chr7B.!!$F1 959
4 TraesCS7B01G101800 chr7D 153984830 153988291 3461 True 2434.5 2492 93.0745 1 3365 2 chr7D.!!$R1 3364
5 TraesCS7B01G101800 chr7A 155965615 155968784 3169 True 2003.0 2362 91.0600 273 3398 2 chr7A.!!$R1 3125
6 TraesCS7B01G101800 chr6B 29925995 29926954 959 False 1729.0 1729 99.1670 3399 4358 1 chr6B.!!$F1 959
7 TraesCS7B01G101800 chr6B 708527459 708528418 959 False 1712.0 1712 98.8540 3399 4358 1 chr6B.!!$F2 959
8 TraesCS7B01G101800 chr3B 814762872 814763830 958 True 1711.0 1711 98.8540 3399 4358 1 chr3B.!!$R1 959
9 TraesCS7B01G101800 chr4B 663889445 663890404 959 True 1707.0 1707 98.7500 3399 4358 1 chr4B.!!$R1 959
10 TraesCS7B01G101800 chr2B 68194191 68195150 959 False 1707.0 1707 98.7500 3399 4358 1 chr2B.!!$F1 959
11 TraesCS7B01G101800 chr2A 746946305 746947263 958 True 1700.0 1700 98.6460 3399 4358 1 chr2A.!!$R1 959

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
942 977 0.251077 AAGTAGGTGAGTCGTCGGGT 60.251 55.0 0.00 0.0 0.00 5.28 F
1669 1769 0.109412 GCAACATGGCAAGAGCTGTC 60.109 55.0 0.00 0.0 41.70 3.51 F
2891 3119 0.765903 ATCATCCCCCTGATCAGCGT 60.766 55.0 17.76 0.0 29.85 5.07 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2657 2885 0.107703 GATGATCTTGGCCACACCGA 60.108 55.000 3.88 0.0 43.94 4.69 R
3266 3494 0.750850 GTAGTTATCCAGGCGCTCCA 59.249 55.000 7.64 0.0 33.74 3.86 R
3731 3959 1.065418 AGCCACGTATCCTCCCAAAAG 60.065 52.381 0.00 0.0 0.00 2.27 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
67 68 1.953559 ACCCATATGCACATGTCGTC 58.046 50.000 3.92 0.00 0.00 4.20
81 82 6.020281 GCACATGTCGTCATCTACTCTAAAAG 60.020 42.308 0.00 0.00 31.15 2.27
87 88 8.573885 TGTCGTCATCTACTCTAAAAGAAAAGA 58.426 33.333 0.00 0.00 0.00 2.52
119 120 0.457166 TTATTGTGCGTCGACGGGAG 60.457 55.000 36.13 11.87 40.23 4.30
136 137 6.366332 CGACGGGAGAGGAAATAAGAAATATG 59.634 42.308 0.00 0.00 0.00 1.78
184 204 2.749621 GTGGAAGCTTGGAGTAACATGG 59.250 50.000 2.10 0.00 0.00 3.66
186 206 3.274288 GGAAGCTTGGAGTAACATGGAG 58.726 50.000 2.10 0.00 0.00 3.86
187 207 2.409948 AGCTTGGAGTAACATGGAGC 57.590 50.000 0.00 0.00 0.00 4.70
235 255 7.846101 AGGGAATATTTCAAGATCCAAATCC 57.154 36.000 0.00 0.00 31.78 3.01
243 263 4.199310 TCAAGATCCAAATCCTAAAGGCG 58.801 43.478 0.00 0.00 31.78 5.52
293 313 8.535690 TCAAAAGGTTTTATCAACGTGTTTTT 57.464 26.923 0.00 0.00 0.00 1.94
317 337 1.087771 GTTAGCCATCGTGAACCCCG 61.088 60.000 0.00 0.00 0.00 5.73
342 363 6.430000 GCAAAGGAACCTGTTGAGAAATAGTA 59.570 38.462 14.83 0.00 0.00 1.82
382 407 5.010516 ACACATTACATGCAAAAGCACCTTA 59.989 36.000 0.00 0.00 0.00 2.69
419 444 9.168451 TGATTATTAGCAGTGAAAAACGGAATA 57.832 29.630 0.00 0.00 0.00 1.75
443 468 1.768684 TTGTCAGGGCTGAGGGACAC 61.769 60.000 0.00 0.00 39.75 3.67
445 470 1.229625 TCAGGGCTGAGGGACACAT 60.230 57.895 0.00 0.00 34.14 3.21
457 482 6.681729 TGAGGGACACATATAACTAATCCC 57.318 41.667 0.00 0.00 44.05 3.85
552 577 2.489938 AAGCTTGCCACCTCGAAATA 57.510 45.000 0.00 0.00 0.00 1.40
580 605 2.241880 GCGTACACGGTGCAACACT 61.242 57.895 8.30 0.00 39.98 3.55
619 644 2.038387 CCACGGGGTCATTCCTAAAG 57.962 55.000 0.00 0.00 36.25 1.85
620 645 1.408266 CCACGGGGTCATTCCTAAAGG 60.408 57.143 0.00 0.00 36.25 3.11
726 755 1.922821 CCATCCGAACCTTGGGGAT 59.077 57.895 0.00 0.00 41.16 3.85
776 807 1.410882 GGTAGCTAGAGGGCTTGTCTG 59.589 57.143 0.00 0.00 42.97 3.51
832 863 3.426568 GGCTCGTGCAAGCTCCAC 61.427 66.667 12.07 7.26 42.13 4.02
918 953 1.048601 TTCCTGCTGTCTCCTCGTTT 58.951 50.000 0.00 0.00 0.00 3.60
941 976 1.399791 GTAAGTAGGTGAGTCGTCGGG 59.600 57.143 0.00 0.00 0.00 5.14
942 977 0.251077 AAGTAGGTGAGTCGTCGGGT 60.251 55.000 0.00 0.00 0.00 5.28
1066 1101 7.174426 CGTGTATCCTGATCATAGGTACTGTAA 59.826 40.741 14.23 0.00 41.52 2.41
1070 1105 8.783660 ATCCTGATCATAGGTACTGTAAAAGA 57.216 34.615 0.00 0.00 41.52 2.52
1074 1109 7.782049 TGATCATAGGTACTGTAAAAGAGGTG 58.218 38.462 0.00 0.00 41.52 4.00
1078 1113 3.008049 AGGTACTGTAAAAGAGGTGCAGG 59.992 47.826 0.00 0.00 37.18 4.85
1082 1117 3.389983 ACTGTAAAAGAGGTGCAGGTACA 59.610 43.478 0.00 0.00 0.00 2.90
1083 1118 3.735591 TGTAAAAGAGGTGCAGGTACAC 58.264 45.455 0.00 0.00 39.94 2.90
1096 1159 1.001406 AGGTACACTGTTCTGAGCTGC 59.999 52.381 0.00 0.00 0.00 5.25
1106 1169 2.666190 TGAGCTGCTGTTCGTGGC 60.666 61.111 7.01 0.00 0.00 5.01
1119 1182 1.592669 CGTGGCCGTCTGATGATCC 60.593 63.158 0.00 0.23 0.00 3.36
1121 1184 1.756561 TGGCCGTCTGATGATCCGA 60.757 57.895 0.00 0.00 0.00 4.55
1125 1188 2.600731 GCCGTCTGATGATCCGATTAG 58.399 52.381 0.00 0.00 0.00 1.73
1332 1395 3.295304 CTCCACCGTCACCGCATCA 62.295 63.158 0.00 0.00 0.00 3.07
1344 1407 1.696336 ACCGCATCATCCTTGCTCTAT 59.304 47.619 0.00 0.00 37.96 1.98
1363 1426 3.668596 ATGTCGCCGTAAGTTAATTGC 57.331 42.857 0.00 0.00 0.00 3.56
1384 1450 4.518970 TGCTTCTTAGTTGTTTCCACCATC 59.481 41.667 0.00 0.00 0.00 3.51
1390 1466 7.712797 TCTTAGTTGTTTCCACCATCTTTTTC 58.287 34.615 0.00 0.00 0.00 2.29
1422 1498 6.145371 GTCATGTTCTTGTGTGTGTTTGTTTT 59.855 34.615 0.00 0.00 0.00 2.43
1423 1499 5.896922 TGTTCTTGTGTGTGTTTGTTTTG 57.103 34.783 0.00 0.00 0.00 2.44
1473 1549 3.775654 CCGGAGTCTGGGGTCTGC 61.776 72.222 10.51 0.00 0.00 4.26
1669 1769 0.109412 GCAACATGGCAAGAGCTGTC 60.109 55.000 0.00 0.00 41.70 3.51
1679 1779 1.303799 AAGAGCTGTCGCAATGCAGG 61.304 55.000 5.91 0.00 39.10 4.85
1706 1806 9.628746 CATTTGATGTAGTTCATGAATGTCAAA 57.371 29.630 23.26 23.26 36.83 2.69
1707 1807 9.850628 ATTTGATGTAGTTCATGAATGTCAAAG 57.149 29.630 24.15 0.00 36.83 2.77
1709 1809 8.394971 TGATGTAGTTCATGAATGTCAAAGTT 57.605 30.769 12.12 0.00 36.83 2.66
1710 1810 9.500785 TGATGTAGTTCATGAATGTCAAAGTTA 57.499 29.630 12.12 0.00 36.83 2.24
1782 1890 2.229792 TCACTGGACTTCAAACATGGC 58.770 47.619 0.00 0.00 0.00 4.40
1784 1892 2.559668 CACTGGACTTCAAACATGGCAT 59.440 45.455 0.00 0.00 0.00 4.40
1786 1894 3.006110 ACTGGACTTCAAACATGGCATTG 59.994 43.478 0.00 0.00 0.00 2.82
1882 2106 7.867909 CCCTGGTATTTTCTTCTTTCAAAAGTC 59.132 37.037 2.63 0.00 37.31 3.01
1883 2107 8.413229 CCTGGTATTTTCTTCTTTCAAAAGTCA 58.587 33.333 2.63 0.00 37.31 3.41
1884 2108 9.237846 CTGGTATTTTCTTCTTTCAAAAGTCAC 57.762 33.333 2.63 0.00 37.31 3.67
1885 2109 8.966868 TGGTATTTTCTTCTTTCAAAAGTCACT 58.033 29.630 2.63 0.00 37.31 3.41
1886 2110 9.803315 GGTATTTTCTTCTTTCAAAAGTCACTT 57.197 29.630 2.63 0.00 37.31 3.16
1888 2112 7.581011 TTTTCTTCTTTCAAAAGTCACTTGC 57.419 32.000 0.00 0.00 37.31 4.01
1889 2113 6.515272 TTCTTCTTTCAAAAGTCACTTGCT 57.485 33.333 0.00 0.00 37.31 3.91
2015 2240 1.275856 GGGCAATGCTTCACAAATGGA 59.724 47.619 4.82 0.00 0.00 3.41
2056 2281 1.393603 TGCCACTCTACCTGATCTCG 58.606 55.000 0.00 0.00 0.00 4.04
2164 2389 2.586792 GGCACAGCGGAGGAGAAT 59.413 61.111 0.00 0.00 0.00 2.40
2294 2519 4.802051 GCTTCGCCATCCCCTGCA 62.802 66.667 0.00 0.00 0.00 4.41
2345 2570 1.965754 CTGCTGCACCCCTCTCTACC 61.966 65.000 0.00 0.00 0.00 3.18
2440 2665 1.296056 CGAGTGTTTCGGCCGGAAAT 61.296 55.000 23.29 10.26 45.80 2.17
2541 2769 4.336433 GTGCATTGCCAGCTAAATTCTAGA 59.664 41.667 6.12 0.00 0.00 2.43
2590 2818 4.698583 ATGCAAGAATTCTGAACTCTGC 57.301 40.909 16.98 16.98 0.00 4.26
2751 2979 1.066573 CAGCCGATGACCTTCTTCACT 60.067 52.381 0.00 0.00 0.00 3.41
2891 3119 0.765903 ATCATCCCCCTGATCAGCGT 60.766 55.000 17.76 0.00 29.85 5.07
2919 3147 1.685224 GGACAGCAAGGGGATCACA 59.315 57.895 0.00 0.00 0.00 3.58
2949 3177 4.856801 ATCGGCGTGGGCATGGTC 62.857 66.667 6.85 0.00 42.47 4.02
3299 3527 5.105064 TGGATAACTACTACTGGTTCTTGGC 60.105 44.000 0.00 0.00 0.00 4.52
3344 3572 2.291465 TGATCTTCACACAGCTTTGCAC 59.709 45.455 0.00 0.00 0.00 4.57
3387 3615 1.069823 TGACGCCAATGTTTGCCATTT 59.930 42.857 0.00 0.00 41.93 2.32
3393 3621 3.068560 CCAATGTTTGCCATTTGGTCAG 58.931 45.455 0.00 0.00 41.93 3.51
3731 3959 0.804933 GGAATGGTACCACGACGAGC 60.805 60.000 19.09 1.44 0.00 5.03
3774 4002 0.984995 GGAGACCCCACTAGCACTTT 59.015 55.000 0.00 0.00 34.14 2.66
4173 4401 4.677584 GTCTCGATGTAGCTTCTGTGATT 58.322 43.478 0.00 0.00 0.00 2.57
4178 4406 6.805713 TCGATGTAGCTTCTGTGATTATTCA 58.194 36.000 0.00 0.00 0.00 2.57
4183 4411 8.484641 TGTAGCTTCTGTGATTATTCAGAAAG 57.515 34.615 0.00 8.96 45.75 2.62
4350 4578 2.733945 GGGTTGGCGTTTGTGCAT 59.266 55.556 0.00 0.00 36.28 3.96
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
6 7 0.102300 GGACCAAAACCTGTGTGTGC 59.898 55.000 0.00 0.00 0.00 4.57
87 88 6.560253 ACGCACAATAAGATTCAAGTTTCT 57.440 33.333 0.00 0.00 0.00 2.52
107 108 2.280823 ATTTCCTCTCCCGTCGACGC 62.281 60.000 31.73 0.00 38.18 5.19
136 137 3.411446 TCCATCAGTCACACAAATGTCC 58.589 45.455 0.00 0.00 36.72 4.02
207 227 6.840090 TGGATCTTGAAATATTCCCTACCA 57.160 37.500 0.00 0.00 0.00 3.25
212 232 7.846101 AGGATTTGGATCTTGAAATATTCCC 57.154 36.000 0.00 0.00 32.66 3.97
217 237 7.013274 CGCCTTTAGGATTTGGATCTTGAAATA 59.987 37.037 0.00 0.00 37.39 1.40
228 248 5.828299 TTTCATACGCCTTTAGGATTTGG 57.172 39.130 0.00 0.00 37.39 3.28
235 255 7.639039 TGCAATCTTATTTCATACGCCTTTAG 58.361 34.615 0.00 0.00 0.00 1.85
293 313 3.071479 GGTTCACGATGGCTAACTCAAA 58.929 45.455 0.00 0.00 0.00 2.69
317 337 4.590850 ATTTCTCAACAGGTTCCTTTGC 57.409 40.909 0.00 0.00 0.00 3.68
382 407 5.221803 ACTGCTAATAATCACCAGCATAGCT 60.222 40.000 0.00 0.00 42.72 3.32
419 444 3.241530 TCAGCCCTGACAACCGCT 61.242 61.111 0.00 0.00 34.14 5.52
443 468 4.468510 TGTAGGGCCGGGATTAGTTATATG 59.531 45.833 2.18 0.00 0.00 1.78
445 470 4.130719 TGTAGGGCCGGGATTAGTTATA 57.869 45.455 2.18 0.00 0.00 0.98
457 482 0.879090 GTTCAGGTTTTGTAGGGCCG 59.121 55.000 0.00 0.00 0.00 6.13
608 633 3.541632 CCGCTTTAGCCTTTAGGAATGA 58.458 45.455 0.00 0.00 37.91 2.57
609 634 2.033424 GCCGCTTTAGCCTTTAGGAATG 59.967 50.000 0.00 0.00 37.91 2.67
610 635 2.298610 GCCGCTTTAGCCTTTAGGAAT 58.701 47.619 0.00 0.00 37.91 3.01
611 636 1.746470 GCCGCTTTAGCCTTTAGGAA 58.254 50.000 0.00 0.00 37.91 3.36
613 638 0.461339 TCGCCGCTTTAGCCTTTAGG 60.461 55.000 0.00 0.00 37.91 2.69
615 640 1.134640 TCATCGCCGCTTTAGCCTTTA 60.135 47.619 0.00 0.00 37.91 1.85
616 641 0.392461 TCATCGCCGCTTTAGCCTTT 60.392 50.000 0.00 0.00 37.91 3.11
617 642 0.811616 CTCATCGCCGCTTTAGCCTT 60.812 55.000 0.00 0.00 37.91 4.35
618 643 1.227380 CTCATCGCCGCTTTAGCCT 60.227 57.895 0.00 0.00 37.91 4.58
619 644 1.491505 GACTCATCGCCGCTTTAGCC 61.492 60.000 0.00 0.00 37.91 3.93
620 645 0.528684 AGACTCATCGCCGCTTTAGC 60.529 55.000 0.00 0.00 37.78 3.09
726 755 4.864704 AGGGAAAATTAAAGCGCTTTCA 57.135 36.364 36.74 27.46 34.23 2.69
756 785 1.410882 CAGACAAGCCCTCTAGCTACC 59.589 57.143 0.00 0.00 44.11 3.18
757 786 2.104170 ACAGACAAGCCCTCTAGCTAC 58.896 52.381 0.00 0.00 44.11 3.58
832 863 1.525197 CAATGTGTGCAAGCAAAGCTG 59.475 47.619 0.00 0.00 39.62 4.24
918 953 2.998670 CGACGACTCACCTACTTACAGA 59.001 50.000 0.00 0.00 0.00 3.41
941 976 1.534595 CACCTGAGCTTGCTTCTTCAC 59.465 52.381 0.00 0.00 0.00 3.18
942 977 1.888215 CACCTGAGCTTGCTTCTTCA 58.112 50.000 0.00 0.00 0.00 3.02
1035 1070 1.040893 TGATCAGGATACACGGCCGT 61.041 55.000 28.70 28.70 41.41 5.68
1066 1101 1.768870 ACAGTGTACCTGCACCTCTTT 59.231 47.619 10.26 0.00 45.68 2.52
1070 1105 1.070758 CAGAACAGTGTACCTGCACCT 59.929 52.381 11.23 4.13 45.68 4.00
1074 1109 1.001406 AGCTCAGAACAGTGTACCTGC 59.999 52.381 16.53 9.40 45.68 4.85
1078 1113 2.064762 CAGCAGCTCAGAACAGTGTAC 58.935 52.381 0.00 0.00 0.00 2.90
1082 1117 1.871408 CGAACAGCAGCTCAGAACAGT 60.871 52.381 0.00 0.00 0.00 3.55
1083 1118 0.788995 CGAACAGCAGCTCAGAACAG 59.211 55.000 0.00 0.00 0.00 3.16
1090 1153 3.426568 GGCCACGAACAGCAGCTC 61.427 66.667 0.00 0.00 0.00 4.09
1093 1156 3.414700 GACGGCCACGAACAGCAG 61.415 66.667 2.24 0.00 44.60 4.24
1096 1159 1.079819 ATCAGACGGCCACGAACAG 60.080 57.895 2.24 0.00 44.60 3.16
1106 1169 3.924918 ACTAATCGGATCATCAGACGG 57.075 47.619 0.00 0.00 0.00 4.79
1119 1182 1.135689 GCCACCACTGCAAACTAATCG 60.136 52.381 0.00 0.00 0.00 3.34
1121 1184 1.256812 GGCCACCACTGCAAACTAAT 58.743 50.000 0.00 0.00 0.00 1.73
1125 1188 3.977244 CCGGCCACCACTGCAAAC 61.977 66.667 2.24 0.00 0.00 2.93
1150 1213 3.419759 CCCCTTGAACGCGAACCG 61.420 66.667 15.93 0.00 44.21 4.44
1197 1260 3.770040 CTCATCCCCACGACGCCA 61.770 66.667 0.00 0.00 0.00 5.69
1245 1308 3.579496 GGAGGTGATCCCTACCCAT 57.421 57.895 3.03 0.00 46.51 4.00
1332 1395 0.032678 CGGCGACATAGAGCAAGGAT 59.967 55.000 0.00 0.00 34.54 3.24
1344 1407 2.690786 AGCAATTAACTTACGGCGACA 58.309 42.857 16.62 0.00 0.00 4.35
1384 1450 8.971321 CACAAGAACATGACCAATAAGAAAAAG 58.029 33.333 0.00 0.00 0.00 2.27
1390 1466 6.144854 CACACACAAGAACATGACCAATAAG 58.855 40.000 0.00 0.00 0.00 1.73
1442 1518 2.289820 GACTCCGGGAAACAGAAAACAC 59.710 50.000 0.00 0.00 0.00 3.32
1618 1718 2.079158 CATGCCAGTAACAGAGTGTGG 58.921 52.381 0.00 0.00 0.00 4.17
1669 1769 0.927537 CATCAAATGCCTGCATTGCG 59.072 50.000 17.37 11.97 44.86 4.85
1679 1779 7.252708 TGACATTCATGAACTACATCAAATGC 58.747 34.615 11.07 0.00 39.84 3.56
1706 1806 9.632638 AGTGCCTACATTTCAATCATAATAACT 57.367 29.630 0.00 0.00 0.00 2.24
1714 1814 9.625747 TCAAATATAGTGCCTACATTTCAATCA 57.374 29.630 0.00 0.00 0.00 2.57
1717 1817 9.237187 TGTTCAAATATAGTGCCTACATTTCAA 57.763 29.630 0.00 0.00 0.00 2.69
1718 1818 8.673711 GTGTTCAAATATAGTGCCTACATTTCA 58.326 33.333 0.00 0.00 0.00 2.69
1739 1839 1.884579 TCTAGACGTGAGGGTGTGTTC 59.115 52.381 0.00 0.00 0.00 3.18
1782 1890 9.340695 ACAAATTTGTTACGTCATGTATCAATG 57.659 29.630 18.13 1.48 40.58 2.82
1851 2058 4.495690 AGAAGAAAATACCAGGGAGCTC 57.504 45.455 4.71 4.71 0.00 4.09
1887 2111 4.634184 TGCAGTAGTACTAGCAAGTAGC 57.366 45.455 18.89 10.23 38.89 3.58
1888 2112 6.378710 TGATGCAGTAGTACTAGCAAGTAG 57.621 41.667 22.59 4.24 38.89 2.57
1889 2113 6.961360 ATGATGCAGTAGTACTAGCAAGTA 57.039 37.500 22.59 15.38 36.43 2.24
2056 2281 4.884257 TACGCGCCTTGCCCGATC 62.884 66.667 5.73 0.00 42.08 3.69
2152 2377 1.222936 CTTGCCATTCTCCTCCGCT 59.777 57.895 0.00 0.00 0.00 5.52
2164 2389 2.669569 GCGCTCTTCACCTTGCCA 60.670 61.111 0.00 0.00 0.00 4.92
2285 2510 4.511246 CATGGCGGTGCAGGGGAT 62.511 66.667 0.00 0.00 0.00 3.85
2345 2570 1.065636 TCTTGGCTGGCTGATCTTCTG 60.066 52.381 2.00 0.00 0.00 3.02
2541 2769 8.947115 GGTCACTAAATGCAACTATAAACTTCT 58.053 33.333 0.00 0.00 0.00 2.85
2575 2803 1.129437 GCACGGCAGAGTTCAGAATTC 59.871 52.381 0.00 0.00 0.00 2.17
2657 2885 0.107703 GATGATCTTGGCCACACCGA 60.108 55.000 3.88 0.00 43.94 4.69
2661 2889 1.211212 CTGAGGATGATCTTGGCCACA 59.789 52.381 3.88 0.00 0.00 4.17
2751 2979 1.450134 CATCAGCGTGCCCTGCTTA 60.450 57.895 0.00 0.00 41.72 3.09
2919 3147 3.842923 CCGATCCGCTGGAGCACT 61.843 66.667 12.15 0.00 38.11 4.40
2949 3177 1.811266 CATGGCCACGACGGAGAAG 60.811 63.158 8.16 0.00 36.56 2.85
3007 3235 2.825836 GTTCATCTGGCCAGCCGG 60.826 66.667 28.91 18.61 43.69 6.13
3012 3240 1.134007 CAGGCTATGTTCATCTGGCCA 60.134 52.381 4.71 4.71 41.71 5.36
3023 3251 2.750657 GGGAGCAGCCAGGCTATGT 61.751 63.158 15.64 0.46 45.99 2.29
3139 3367 2.415608 CGCTGAGGTAGAGCCCGAA 61.416 63.158 0.00 0.00 38.26 4.30
3228 3456 4.659172 CAGCCGTGGCCCTTTCCA 62.659 66.667 7.39 0.00 43.17 3.53
3266 3494 0.750850 GTAGTTATCCAGGCGCTCCA 59.249 55.000 7.64 0.00 33.74 3.86
3387 3615 8.090831 CCAAAAGAATCGAGATATATCTGACCA 58.909 37.037 20.05 1.45 37.25 4.02
3731 3959 1.065418 AGCCACGTATCCTCCCAAAAG 60.065 52.381 0.00 0.00 0.00 2.27
4173 4401 6.240894 AGAGGTGTTTGATGCTTTCTGAATA 58.759 36.000 0.00 0.00 0.00 1.75
4178 4406 5.136105 AGAAAGAGGTGTTTGATGCTTTCT 58.864 37.500 0.00 0.00 43.76 2.52
4183 4411 3.067106 TCGAGAAAGAGGTGTTTGATGC 58.933 45.455 0.00 0.00 0.00 3.91


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

AutoCloner maintained by Alex Coulton.