Multiple sequence alignment - TraesCS6B01G081700

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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 TraesCS6B01G081700 chr6B 100.000 2495 0 0 1 2495 58075893 58078387 0.000000e+00 4608.0
1 TraesCS6B01G081700 chr6D 88.107 1236 71 33 1010 2207 29740228 29739031 0.000000e+00 1399.0
2 TraesCS6B01G081700 chr6D 85.047 749 57 16 375 1102 29740928 29740214 0.000000e+00 712.0
3 TraesCS6B01G081700 chr6D 97.315 298 4 3 2199 2495 29736661 29736367 1.030000e-138 503.0
4 TraesCS6B01G081700 chr6D 88.472 373 42 1 3 375 29742843 29742472 1.360000e-122 449.0
5 TraesCS6B01G081700 chr6D 100.000 42 0 0 1061 1102 29740300 29740259 7.400000e-11 78.7
6 TraesCS6B01G081700 chr6A 85.201 919 59 37 1010 1898 32919562 32920433 0.000000e+00 872.0
7 TraesCS6B01G081700 chr6A 89.848 591 58 2 3 592 32918419 32919008 0.000000e+00 758.0
8 TraesCS6B01G081700 chr6A 83.951 567 43 22 1935 2495 32920435 32920959 1.330000e-137 499.0
9 TraesCS6B01G081700 chr6A 85.412 473 25 9 648 1102 32919115 32919561 3.780000e-123 451.0
10 TraesCS6B01G081700 chr6A 91.011 89 5 1 1014 1102 32919521 32919606 1.570000e-22 117.0
11 TraesCS6B01G081700 chr7B 82.636 478 35 20 1802 2278 94997005 94996575 1.810000e-101 379.0
12 TraesCS6B01G081700 chr4D 88.841 233 21 2 2046 2278 358698604 358698831 5.250000e-72 281.0
13 TraesCS6B01G081700 chr4D 87.565 193 21 2 2296 2487 358698821 358699011 1.160000e-53 220.0
14 TraesCS6B01G081700 chr4D 89.474 114 9 1 1802 1915 358698419 358698529 9.300000e-30 141.0
15 TraesCS6B01G081700 chr5B 75.211 355 42 25 827 1175 63851112 63850798 2.610000e-25 126.0


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 TraesCS6B01G081700 chr6B 58075893 58078387 2494 False 4608.00 4608 100.000000 1 2495 1 chr6B.!!$F1 2494
1 TraesCS6B01G081700 chr6D 29736367 29742843 6476 True 628.34 1399 91.788200 3 2495 5 chr6D.!!$R1 2492
2 TraesCS6B01G081700 chr6A 32918419 32920959 2540 False 539.40 872 87.084600 3 2495 5 chr6A.!!$F1 2492
3 TraesCS6B01G081700 chr4D 358698419 358699011 592 False 214.00 281 88.626667 1802 2487 3 chr4D.!!$F1 685

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
100 101 0.037046 TGCTCTGCATCATGACGTGT 60.037 50.0 0.0 0.0 31.71 4.49 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1932 3706 0.308993 GGTTCTGCGCCTAATGCATC 59.691 55.0 4.18 0.0 42.32 3.91 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
41 42 1.907222 CTGGCAGGCTGGTGAGATCA 61.907 60.000 17.64 0.00 0.00 2.92
46 47 0.990374 AGGCTGGTGAGATCAAGCTT 59.010 50.000 0.00 0.00 0.00 3.74
54 55 2.533535 GTGAGATCAAGCTTGTCGATCG 59.466 50.000 25.19 9.36 40.39 3.69
61 62 4.033019 TCAAGCTTGTCGATCGTATAACG 58.967 43.478 25.19 1.61 44.19 3.18
70 71 0.240411 ATCGTATAACGGAGCCTCGC 59.760 55.000 0.00 0.00 42.81 5.03
100 101 0.037046 TGCTCTGCATCATGACGTGT 60.037 50.000 0.00 0.00 31.71 4.49
104 105 1.300266 CTGCATCATGACGTGTGGCA 61.300 55.000 0.00 12.91 36.82 4.92
108 109 0.321346 ATCATGACGTGTGGCACTGA 59.679 50.000 19.83 13.01 31.34 3.41
118 119 0.671781 GTGGCACTGAGTCGATGCTT 60.672 55.000 11.13 0.00 39.38 3.91
174 175 2.489329 TGGTAGCCTAACGTACTGTGAC 59.511 50.000 0.00 0.00 0.00 3.67
177 178 2.511659 AGCCTAACGTACTGTGACTGA 58.488 47.619 0.00 0.00 0.00 3.41
199 201 0.456221 ATTCGTGAATCGGAGTCGCT 59.544 50.000 15.80 0.00 40.32 4.93
206 208 2.186076 GAATCGGAGTCGCTGTTACTG 58.814 52.381 0.00 0.00 36.13 2.74
216 218 0.721718 GCTGTTACTGTGGTCATCGC 59.278 55.000 0.00 0.00 0.00 4.58
247 249 7.632861 TCTTCCTCCACATTTTATCTGATCAA 58.367 34.615 0.00 0.00 0.00 2.57
282 284 6.353404 TGAATTGGTTGTATTTCCTTTCCC 57.647 37.500 0.00 0.00 0.00 3.97
324 326 4.758165 CCCTTTTCCTCTTTAAACGCACTA 59.242 41.667 0.00 0.00 0.00 2.74
333 335 7.658575 TCCTCTTTAAACGCACTATAGTTTTGT 59.341 33.333 1.56 0.00 40.54 2.83
336 338 9.440784 TCTTTAAACGCACTATAGTTTTGTTTG 57.559 29.630 23.90 14.52 40.54 2.93
349 351 1.975660 TTGTTTGGTAGTCTGGTGCC 58.024 50.000 0.00 0.00 0.00 5.01
359 361 2.154462 AGTCTGGTGCCATTTTTCTCG 58.846 47.619 0.00 0.00 0.00 4.04
361 364 0.109132 CTGGTGCCATTTTTCTCGGC 60.109 55.000 0.00 0.00 46.43 5.54
404 1951 8.944029 CATATATGGAAATGATCTGTCCTGTTC 58.056 37.037 4.68 0.00 32.28 3.18
439 1986 5.243207 TCTTACTAGCTTAGGTTTGTTGCC 58.757 41.667 0.00 0.00 0.00 4.52
448 1995 5.610398 CTTAGGTTTGTTGCCAAGGAAATT 58.390 37.500 0.00 0.00 0.00 1.82
454 2001 2.955660 TGTTGCCAAGGAAATTCGTTCT 59.044 40.909 0.00 0.00 36.40 3.01
479 2026 5.235850 TGTTTATCCTAGCTTTGACACCA 57.764 39.130 0.00 0.00 0.00 4.17
546 2093 5.234116 ACTCAAAACGGCATGAAAATTGTTC 59.766 36.000 0.00 0.00 0.00 3.18
562 2109 1.944024 TGTTCGGCTCAAAACAATCGT 59.056 42.857 0.00 0.00 32.69 3.73
579 2126 9.874205 AAACAATCGTGAAATGGATATTCATTT 57.126 25.926 19.94 19.94 46.36 2.32
581 2128 9.520204 ACAATCGTGAAATGGATATTCATTTTC 57.480 29.630 20.62 15.67 44.48 2.29
592 2139 8.479313 TGGATATTCATTTTCCTCGATATTCG 57.521 34.615 0.00 0.00 42.10 3.34
650 2253 0.169009 GATGGTGCTCGGCTCAAAAC 59.831 55.000 0.00 0.00 0.00 2.43
674 2277 5.971792 CAGAAAAGAAAAGAAACGGAGGTTC 59.028 40.000 0.00 0.00 34.62 3.62
676 2279 5.752892 AAAGAAAAGAAACGGAGGTTCTC 57.247 39.130 0.44 0.00 34.62 2.87
677 2280 3.741249 AGAAAAGAAACGGAGGTTCTCC 58.259 45.455 0.44 3.96 46.44 3.71
755 2360 3.207669 CAGGCCAGCGATCCAAGC 61.208 66.667 5.01 0.00 0.00 4.01
807 2412 4.603946 GGGGCGCATCCTACGGTC 62.604 72.222 10.83 0.00 34.39 4.79
870 2475 3.008517 TCCTCCAATCAGCGCCCA 61.009 61.111 2.29 0.00 0.00 5.36
876 2481 1.817099 CAATCAGCGCCCACCTCTC 60.817 63.158 2.29 0.00 0.00 3.20
877 2482 1.992277 AATCAGCGCCCACCTCTCT 60.992 57.895 2.29 0.00 0.00 3.10
884 2489 0.976073 CGCCCACCTCTCTCCCTTTA 60.976 60.000 0.00 0.00 0.00 1.85
885 2490 0.833949 GCCCACCTCTCTCCCTTTAG 59.166 60.000 0.00 0.00 0.00 1.85
886 2491 1.622725 GCCCACCTCTCTCCCTTTAGA 60.623 57.143 0.00 0.00 0.00 2.10
889 2494 3.055021 CCCACCTCTCTCCCTTTAGAAAC 60.055 52.174 0.00 0.00 0.00 2.78
890 2495 3.055021 CCACCTCTCTCCCTTTAGAAACC 60.055 52.174 0.00 0.00 0.00 3.27
891 2496 3.055021 CACCTCTCTCCCTTTAGAAACCC 60.055 52.174 0.00 0.00 0.00 4.11
892 2497 3.182152 CCTCTCTCCCTTTAGAAACCCA 58.818 50.000 0.00 0.00 0.00 4.51
893 2498 3.783082 CCTCTCTCCCTTTAGAAACCCAT 59.217 47.826 0.00 0.00 0.00 4.00
894 2499 4.141597 CCTCTCTCCCTTTAGAAACCCATC 60.142 50.000 0.00 0.00 0.00 3.51
895 2500 3.780850 TCTCTCCCTTTAGAAACCCATCC 59.219 47.826 0.00 0.00 0.00 3.51
896 2501 2.504175 TCTCCCTTTAGAAACCCATCCG 59.496 50.000 0.00 0.00 0.00 4.18
897 2502 1.064979 TCCCTTTAGAAACCCATCCGC 60.065 52.381 0.00 0.00 0.00 5.54
898 2503 1.389555 CCTTTAGAAACCCATCCGCC 58.610 55.000 0.00 0.00 0.00 6.13
899 2504 1.340600 CCTTTAGAAACCCATCCGCCA 60.341 52.381 0.00 0.00 0.00 5.69
900 2505 2.654863 CTTTAGAAACCCATCCGCCAT 58.345 47.619 0.00 0.00 0.00 4.40
901 2506 2.051334 TTAGAAACCCATCCGCCATG 57.949 50.000 0.00 0.00 0.00 3.66
902 2507 0.465460 TAGAAACCCATCCGCCATGC 60.465 55.000 0.00 0.00 0.00 4.06
903 2508 1.754234 GAAACCCATCCGCCATGCT 60.754 57.895 0.00 0.00 0.00 3.79
932 2537 1.070275 ACGTCTCGTTCCAAACCCC 59.930 57.895 0.00 0.00 36.35 4.95
947 2552 4.243550 CCCCCACCTTCCACTACA 57.756 61.111 0.00 0.00 0.00 2.74
958 2563 0.102663 TCCACTACACACGAAACGCA 59.897 50.000 0.00 0.00 0.00 5.24
976 2581 1.285578 CAAAACCACCACCAAAAGCG 58.714 50.000 0.00 0.00 0.00 4.68
1214 2981 4.819105 CCTACAAGGTCCACATCTACAA 57.181 45.455 0.00 0.00 0.00 2.41
1218 2985 3.394606 ACAAGGTCCACATCTACAAGGTT 59.605 43.478 0.00 0.00 0.00 3.50
1228 2995 4.284490 ACATCTACAAGGTTCTCAAGCAGA 59.716 41.667 0.00 0.00 0.00 4.26
1229 2996 4.258702 TCTACAAGGTTCTCAAGCAGAC 57.741 45.455 0.00 0.00 0.00 3.51
1239 3006 3.649986 AAGCAGACGCACGGCAAC 61.650 61.111 0.00 0.00 41.88 4.17
1281 3048 3.001514 ATGGCCGCCATGAACTCT 58.998 55.556 24.52 0.00 43.39 3.24
1412 3179 3.610669 CCCCGGCGATCTCTCCAG 61.611 72.222 9.30 0.00 0.00 3.86
1426 3193 1.839994 TCTCCAGGATTGCCTTCGAAT 59.160 47.619 0.00 0.00 43.90 3.34
1427 3194 1.945394 CTCCAGGATTGCCTTCGAATG 59.055 52.381 0.00 0.00 43.90 2.67
1452 3219 3.414700 GCTGCCGTCGACAGGTTG 61.415 66.667 17.16 14.06 35.62 3.77
1458 3225 1.596220 GCCGTCGACAGGTTGAAAAAC 60.596 52.381 17.16 0.00 0.00 2.43
1464 3231 5.260900 GTCGACAGGTTGAAAAACTACAAC 58.739 41.667 11.55 0.00 46.52 3.32
1469 3236 6.951643 ACAGGTTGAAAAACTACAACGTATC 58.048 36.000 0.00 0.00 46.52 2.24
1511 3278 8.074370 GGAAGAGTAATTGTTGACTTTGGTTAC 58.926 37.037 0.00 0.00 0.00 2.50
1520 3287 3.146066 TGACTTTGGTTACCTGCATGTC 58.854 45.455 2.07 5.61 0.00 3.06
1521 3288 3.146066 GACTTTGGTTACCTGCATGTCA 58.854 45.455 2.07 0.00 0.00 3.58
1665 3439 7.148205 GGTTCTGTTACTTTAGTGGTTGTTGAA 60.148 37.037 0.00 0.00 0.00 2.69
1671 3445 4.278419 ACTTTAGTGGTTGTTGAATCTGGC 59.722 41.667 0.00 0.00 0.00 4.85
1683 3457 3.801698 TGAATCTGGCTATCTGCAAGTC 58.198 45.455 0.00 0.00 43.20 3.01
1693 3467 4.806247 GCTATCTGCAAGTCGTTGAAGTAT 59.194 41.667 0.00 0.00 40.05 2.12
1694 3468 5.977725 GCTATCTGCAAGTCGTTGAAGTATA 59.022 40.000 0.00 0.00 40.05 1.47
1722 3496 0.961019 GGTGGATGCAAGTTGCTGAA 59.039 50.000 27.17 9.10 45.31 3.02
1723 3497 1.547372 GGTGGATGCAAGTTGCTGAAT 59.453 47.619 27.17 13.65 45.31 2.57
1724 3498 2.602878 GTGGATGCAAGTTGCTGAATG 58.397 47.619 27.17 0.00 45.31 2.67
1725 3499 1.067425 TGGATGCAAGTTGCTGAATGC 60.067 47.619 27.17 17.98 45.31 3.56
1788 3562 4.689612 TGCTCTTGTAAACTGGAGACTT 57.310 40.909 0.00 0.00 0.00 3.01
1789 3563 4.380531 TGCTCTTGTAAACTGGAGACTTG 58.619 43.478 0.00 0.00 0.00 3.16
1790 3564 4.141711 TGCTCTTGTAAACTGGAGACTTGT 60.142 41.667 0.00 0.00 0.00 3.16
1791 3565 4.212214 GCTCTTGTAAACTGGAGACTTGTG 59.788 45.833 0.00 0.00 0.00 3.33
1792 3566 5.353394 TCTTGTAAACTGGAGACTTGTGT 57.647 39.130 0.00 0.00 0.00 3.72
1793 3567 5.357257 TCTTGTAAACTGGAGACTTGTGTC 58.643 41.667 0.00 0.00 43.22 3.67
1808 3582 2.151202 TGTGTCTCGAAATGGAAAGCC 58.849 47.619 0.00 0.00 0.00 4.35
1915 3689 5.615925 AGGTTGATGATCAGTAGGTTACC 57.384 43.478 0.09 2.73 0.00 2.85
1916 3690 4.099573 AGGTTGATGATCAGTAGGTTACCG 59.900 45.833 0.09 0.00 0.00 4.02
1917 3691 4.098960 GGTTGATGATCAGTAGGTTACCGA 59.901 45.833 0.09 0.00 0.00 4.69
1918 3692 4.913335 TGATGATCAGTAGGTTACCGAC 57.087 45.455 6.54 6.54 0.00 4.79
1919 3693 4.533815 TGATGATCAGTAGGTTACCGACT 58.466 43.478 11.37 11.37 40.00 4.18
1925 3699 2.720915 AGTAGGTTACCGACTGACTCC 58.279 52.381 16.12 0.00 38.04 3.85
1926 3700 1.399791 GTAGGTTACCGACTGACTCCG 59.600 57.143 7.40 0.00 0.00 4.63
1927 3701 0.251077 AGGTTACCGACTGACTCCGT 60.251 55.000 0.00 0.00 0.00 4.69
1928 3702 0.600057 GGTTACCGACTGACTCCGTT 59.400 55.000 0.00 0.00 0.00 4.44
1929 3703 1.668047 GGTTACCGACTGACTCCGTTG 60.668 57.143 0.00 0.00 0.00 4.10
1930 3704 1.267806 GTTACCGACTGACTCCGTTGA 59.732 52.381 0.00 0.00 0.00 3.18
1931 3705 1.830279 TACCGACTGACTCCGTTGAT 58.170 50.000 0.00 0.00 0.00 2.57
1932 3706 0.243907 ACCGACTGACTCCGTTGATG 59.756 55.000 0.00 0.00 0.00 3.07
1933 3707 0.526211 CCGACTGACTCCGTTGATGA 59.474 55.000 0.00 0.00 0.00 2.92
1958 3732 1.895020 TAGGCGCAGAACCAACCGAT 61.895 55.000 10.83 0.00 0.00 4.18
1962 3736 1.794222 GCAGAACCAACCGATTCCG 59.206 57.895 0.00 0.00 0.00 4.30
1991 3765 3.034721 TCGTCTCGTTTAATTGCCTGT 57.965 42.857 0.00 0.00 0.00 4.00
2184 3967 0.759346 GGTGGCCGTCCTAATCTGAT 59.241 55.000 9.23 0.00 0.00 2.90
2195 3978 6.262496 CCGTCCTAATCTGATAAGTGAGTGTA 59.738 42.308 0.00 0.00 0.00 2.90
2404 6566 7.434492 AGCGTTGCTTATATTCACAGTAGTAT 58.566 34.615 0.00 0.00 33.89 2.12
2405 6567 8.573885 AGCGTTGCTTATATTCACAGTAGTATA 58.426 33.333 0.00 0.00 33.89 1.47
2426 6588 7.980099 AGTATACATAGCAGTTTGGTGTACTTC 59.020 37.037 5.50 0.00 34.21 3.01
2489 6651 4.699637 TCTTGCCTGAAGTCGTTTTTCTA 58.300 39.130 0.00 0.00 32.90 2.10
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
21 22 1.908340 GATCTCACCAGCCTGCCAGT 61.908 60.000 0.00 0.00 0.00 4.00
30 31 1.998315 CGACAAGCTTGATCTCACCAG 59.002 52.381 32.50 8.69 0.00 4.00
41 42 3.065786 TCCGTTATACGATCGACAAGCTT 59.934 43.478 24.34 0.00 46.05 3.74
46 47 1.265095 GGCTCCGTTATACGATCGACA 59.735 52.381 24.34 9.49 46.05 4.35
54 55 4.223514 CGCGAGGCTCCGTTATAC 57.776 61.111 9.32 0.00 0.00 1.47
79 80 0.037046 ACGTCATGATGCAGAGCACA 60.037 50.000 15.01 0.00 43.04 4.57
86 87 1.302351 TGCCACACGTCATGATGCA 60.302 52.632 15.01 6.83 36.48 3.96
89 90 0.321346 TCAGTGCCACACGTCATGAT 59.679 50.000 0.00 0.00 39.64 2.45
100 101 0.390340 GAAGCATCGACTCAGTGCCA 60.390 55.000 4.38 0.00 39.62 4.92
151 152 2.229543 CACAGTACGTTAGGCTACCACA 59.770 50.000 0.00 0.00 0.00 4.17
152 153 2.489329 TCACAGTACGTTAGGCTACCAC 59.511 50.000 0.00 0.00 0.00 4.16
174 175 4.490959 CGACTCCGATTCACGAATTTTCAG 60.491 45.833 0.00 0.00 45.77 3.02
177 178 2.093783 GCGACTCCGATTCACGAATTTT 59.906 45.455 0.00 0.00 45.77 1.82
199 201 0.036765 GGGCGATGACCACAGTAACA 60.037 55.000 0.00 0.00 0.00 2.41
216 218 2.887151 AATGTGGAGGAAGAAGTGGG 57.113 50.000 0.00 0.00 0.00 4.61
247 249 0.102844 CCAATTCATTGCCGCCGATT 59.897 50.000 0.00 0.00 36.48 3.34
282 284 9.626045 GAAAAGGGATATAGTCAGTTTTGTTTG 57.374 33.333 0.00 0.00 0.00 2.93
324 326 5.240844 GCACCAGACTACCAAACAAAACTAT 59.759 40.000 0.00 0.00 0.00 2.12
333 335 2.969821 AATGGCACCAGACTACCAAA 57.030 45.000 0.00 0.00 35.41 3.28
336 338 3.421844 AGAAAAATGGCACCAGACTACC 58.578 45.455 0.00 0.00 0.00 3.18
439 1986 9.503427 GGATAAACATAAGAACGAATTTCCTTG 57.497 33.333 0.00 0.00 34.32 3.61
448 1995 8.255206 TCAAAGCTAGGATAAACATAAGAACGA 58.745 33.333 0.00 0.00 0.00 3.85
454 2001 7.398829 TGGTGTCAAAGCTAGGATAAACATAA 58.601 34.615 0.00 0.00 0.00 1.90
468 2015 6.908825 TGTAAGAACATAATGGTGTCAAAGC 58.091 36.000 0.00 0.00 0.00 3.51
502 2049 5.997129 TGAGTCACATTGAGATGCTTAAACA 59.003 36.000 0.00 0.00 36.72 2.83
517 2064 2.503331 TCATGCCGTTTTGAGTCACAT 58.497 42.857 0.00 0.00 0.00 3.21
546 2093 2.679355 TTCACGATTGTTTTGAGCCG 57.321 45.000 0.00 0.00 0.00 5.52
560 2107 6.852853 CGAGGAAAATGAATATCCATTTCACG 59.147 38.462 0.00 1.88 43.61 4.35
562 2109 8.696043 ATCGAGGAAAATGAATATCCATTTCA 57.304 30.769 0.00 0.00 43.61 2.69
624 2213 1.750399 CCGAGCACCATCCCTTTGG 60.750 63.158 0.00 0.00 42.82 3.28
625 2214 2.409870 GCCGAGCACCATCCCTTTG 61.410 63.158 0.00 0.00 0.00 2.77
626 2215 2.044946 GCCGAGCACCATCCCTTT 60.045 61.111 0.00 0.00 0.00 3.11
627 2216 3.011517 AGCCGAGCACCATCCCTT 61.012 61.111 0.00 0.00 0.00 3.95
650 2253 5.500645 ACCTCCGTTTCTTTTCTTTTCTG 57.499 39.130 0.00 0.00 0.00 3.02
694 2298 2.218603 TGAGCACCTCCGTTTCTTTTC 58.781 47.619 0.00 0.00 0.00 2.29
698 2302 0.250338 GGTTGAGCACCTCCGTTTCT 60.250 55.000 0.00 0.00 43.29 2.52
724 2328 2.941616 GCCTGGCAAAAATGGGCGA 61.942 57.895 15.17 0.00 33.30 5.54
850 2455 2.586792 GCGCTGATTGGAGGAGGT 59.413 61.111 0.00 0.00 0.00 3.85
870 2475 3.182976 GGGTTTCTAAAGGGAGAGAGGT 58.817 50.000 0.00 0.00 0.00 3.85
876 2481 2.919228 CGGATGGGTTTCTAAAGGGAG 58.081 52.381 0.00 0.00 0.00 4.30
877 2482 1.064979 GCGGATGGGTTTCTAAAGGGA 60.065 52.381 0.00 0.00 0.00 4.20
881 2486 2.374184 CATGGCGGATGGGTTTCTAAA 58.626 47.619 0.00 0.00 0.00 1.85
884 2489 1.754234 GCATGGCGGATGGGTTTCT 60.754 57.895 0.00 0.00 31.99 2.52
885 2490 1.728490 GAGCATGGCGGATGGGTTTC 61.728 60.000 0.00 0.00 31.99 2.78
886 2491 1.754234 GAGCATGGCGGATGGGTTT 60.754 57.895 0.00 0.00 31.99 3.27
889 2494 3.839353 GAGGAGCATGGCGGATGGG 62.839 68.421 0.00 0.00 31.99 4.00
890 2495 2.281345 GAGGAGCATGGCGGATGG 60.281 66.667 0.00 0.00 31.99 3.51
891 2496 2.281345 GGAGGAGCATGGCGGATG 60.281 66.667 0.00 0.00 34.84 3.51
892 2497 2.049627 GAAGGAGGAGCATGGCGGAT 62.050 60.000 0.00 0.00 0.00 4.18
893 2498 2.688666 AAGGAGGAGCATGGCGGA 60.689 61.111 0.00 0.00 0.00 5.54
894 2499 2.203126 GAAGGAGGAGCATGGCGG 60.203 66.667 0.00 0.00 0.00 6.13
895 2500 2.203126 GGAAGGAGGAGCATGGCG 60.203 66.667 0.00 0.00 0.00 5.69
896 2501 2.194326 GGGAAGGAGGAGCATGGC 59.806 66.667 0.00 0.00 0.00 4.40
897 2502 1.225704 GTGGGAAGGAGGAGCATGG 59.774 63.158 0.00 0.00 0.00 3.66
898 2503 1.153289 CGTGGGAAGGAGGAGCATG 60.153 63.158 0.00 0.00 0.00 4.06
899 2504 1.613630 ACGTGGGAAGGAGGAGCAT 60.614 57.895 0.00 0.00 0.00 3.79
900 2505 2.203788 ACGTGGGAAGGAGGAGCA 60.204 61.111 0.00 0.00 0.00 4.26
901 2506 1.950973 GAGACGTGGGAAGGAGGAGC 61.951 65.000 0.00 0.00 0.00 4.70
902 2507 1.658686 CGAGACGTGGGAAGGAGGAG 61.659 65.000 0.00 0.00 0.00 3.69
903 2508 1.677966 CGAGACGTGGGAAGGAGGA 60.678 63.158 0.00 0.00 0.00 3.71
932 2537 0.320421 CGTGTGTAGTGGAAGGTGGG 60.320 60.000 0.00 0.00 0.00 4.61
947 2552 0.179158 GGTGGTTTTGCGTTTCGTGT 60.179 50.000 0.00 0.00 0.00 4.49
958 2563 0.461163 GCGCTTTTGGTGGTGGTTTT 60.461 50.000 0.00 0.00 0.00 2.43
1012 2617 4.840005 GGGCTTCTTCTCCGCCGG 62.840 72.222 0.00 0.00 44.68 6.13
1166 2903 2.927856 TCCTCTTGCCCGCCTTGA 60.928 61.111 0.00 0.00 0.00 3.02
1214 2981 0.601311 GTGCGTCTGCTTGAGAACCT 60.601 55.000 0.00 0.00 43.34 3.50
1218 2985 2.049156 CCGTGCGTCTGCTTGAGA 60.049 61.111 0.00 0.00 43.34 3.27
1239 3006 2.279120 GAGGTGATGCCGAGCTCG 60.279 66.667 29.06 29.06 43.70 5.03
1402 3169 2.547642 CGAAGGCAATCCTGGAGAGATC 60.548 54.545 1.52 0.00 43.40 2.75
1403 3170 1.415659 CGAAGGCAATCCTGGAGAGAT 59.584 52.381 1.52 0.00 43.40 2.75
1458 3225 7.118825 TCCGGAGATACATAAGATACGTTGTAG 59.881 40.741 0.00 0.00 0.00 2.74
1464 3231 5.183969 TCCTCCGGAGATACATAAGATACG 58.816 45.833 33.39 10.53 0.00 3.06
1469 3236 5.074115 ACTCTTCCTCCGGAGATACATAAG 58.926 45.833 33.39 21.77 31.21 1.73
1480 3247 3.933332 GTCAACAATTACTCTTCCTCCGG 59.067 47.826 0.00 0.00 0.00 5.14
1494 3261 3.957497 TGCAGGTAACCAAAGTCAACAAT 59.043 39.130 0.00 0.00 37.17 2.71
1511 3278 6.238211 GCACTAGTACTTAAATGACATGCAGG 60.238 42.308 0.00 0.00 0.00 4.85
1520 3287 9.469807 CTTCTATCCAGCACTAGTACTTAAATG 57.530 37.037 0.00 0.00 0.00 2.32
1521 3288 9.203163 ACTTCTATCCAGCACTAGTACTTAAAT 57.797 33.333 0.00 0.00 0.00 1.40
1665 3439 1.759445 ACGACTTGCAGATAGCCAGAT 59.241 47.619 0.00 0.00 44.83 2.90
1671 3445 9.335891 CTATATACTTCAACGACTTGCAGATAG 57.664 37.037 0.00 0.00 0.00 2.08
1683 3457 7.709947 TCCACCAGTAACTATATACTTCAACG 58.290 38.462 0.00 0.00 33.90 4.10
1693 3467 5.950544 ACTTGCATCCACCAGTAACTATA 57.049 39.130 0.00 0.00 0.00 1.31
1694 3468 4.844349 ACTTGCATCCACCAGTAACTAT 57.156 40.909 0.00 0.00 0.00 2.12
1725 3499 5.048921 ACAACAAGAGAGACAAGCAATCATG 60.049 40.000 0.00 0.00 0.00 3.07
1788 3562 2.151202 GGCTTTCCATTTCGAGACACA 58.849 47.619 0.00 0.00 0.00 3.72
1789 3563 2.151202 TGGCTTTCCATTTCGAGACAC 58.849 47.619 0.00 0.00 37.47 3.67
1790 3564 2.559698 TGGCTTTCCATTTCGAGACA 57.440 45.000 0.00 0.00 37.47 3.41
1808 3582 6.131544 TCATCACAGCAGAAATGAATCATG 57.868 37.500 0.00 0.00 0.00 3.07
1915 3689 2.188524 CATCATCAACGGAGTCAGTCG 58.811 52.381 0.00 0.00 45.00 4.18
1916 3690 1.929836 GCATCATCAACGGAGTCAGTC 59.070 52.381 0.00 0.00 45.00 3.51
1917 3691 1.276138 TGCATCATCAACGGAGTCAGT 59.724 47.619 0.00 0.00 45.00 3.41
1918 3692 2.014335 TGCATCATCAACGGAGTCAG 57.986 50.000 0.00 0.00 45.00 3.51
1919 3693 2.696989 ATGCATCATCAACGGAGTCA 57.303 45.000 0.00 0.00 45.00 3.41
1920 3694 3.496130 CCTAATGCATCATCAACGGAGTC 59.504 47.826 0.00 0.00 45.00 3.36
1921 3695 4.300045 GCCTAATGCATCATCAACGGAGT 61.300 47.826 0.00 0.00 42.02 3.85
1922 3696 2.225019 GCCTAATGCATCATCAACGGAG 59.775 50.000 0.00 0.00 40.77 4.63
1923 3697 2.221169 GCCTAATGCATCATCAACGGA 58.779 47.619 0.00 0.00 40.77 4.69
1924 3698 1.069703 CGCCTAATGCATCATCAACGG 60.070 52.381 0.00 0.00 41.33 4.44
1925 3699 1.661178 GCGCCTAATGCATCATCAACG 60.661 52.381 0.00 0.90 41.33 4.10
1926 3700 1.334556 TGCGCCTAATGCATCATCAAC 59.665 47.619 4.18 0.00 41.33 3.18
1927 3701 1.605232 CTGCGCCTAATGCATCATCAA 59.395 47.619 4.18 0.00 42.32 2.57
1928 3702 1.202675 TCTGCGCCTAATGCATCATCA 60.203 47.619 4.18 0.00 42.32 3.07
1929 3703 1.516161 TCTGCGCCTAATGCATCATC 58.484 50.000 4.18 0.00 42.32 2.92
1930 3704 1.605710 GTTCTGCGCCTAATGCATCAT 59.394 47.619 4.18 0.00 42.32 2.45
1931 3705 1.016627 GTTCTGCGCCTAATGCATCA 58.983 50.000 4.18 0.00 42.32 3.07
1932 3706 0.308993 GGTTCTGCGCCTAATGCATC 59.691 55.000 4.18 0.00 42.32 3.91
1933 3707 0.394216 TGGTTCTGCGCCTAATGCAT 60.394 50.000 4.18 0.00 42.32 3.96
1958 3732 2.055838 CGAGACGATTGAACAACGGAA 58.944 47.619 0.00 0.00 0.00 4.30
1962 3736 6.183359 GCAATTAAACGAGACGATTGAACAAC 60.183 38.462 0.00 0.00 31.15 3.32
1991 3765 2.137528 TCAGGGTGCTCGGTGACAA 61.138 57.895 0.00 0.00 0.00 3.18
2184 3967 8.951787 ACATTACAACAAAGTACACTCACTTA 57.048 30.769 0.00 0.00 37.78 2.24
2287 6449 8.956426 GTCAAGTTAATGAACAATATTCTCCCA 58.044 33.333 0.00 0.00 38.10 4.37
2288 6450 8.956426 TGTCAAGTTAATGAACAATATTCTCCC 58.044 33.333 0.00 0.00 38.10 4.30
2404 6566 6.354794 AGAAGTACACCAAACTGCTATGTA 57.645 37.500 0.00 0.00 30.60 2.29
2405 6567 5.228945 AGAAGTACACCAAACTGCTATGT 57.771 39.130 0.00 0.00 30.60 2.29
2426 6588 5.579119 TGTCACACACGTATAGGCATTTTAG 59.421 40.000 0.00 0.00 0.00 1.85


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

AutoCloner maintained by Alex Coulton.