Multiple sequence alignment - TraesCS7D01G016200

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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 TraesCS7D01G016200 chr7D 100.000 2702 0 0 1 2702 7077657 7080358 0.000000e+00 4990.0
1 TraesCS7D01G016200 chr7D 90.698 43 4 0 2507 2549 163564190 163564232 1.040000e-04 58.4
2 TraesCS7D01G016200 chr7A 94.789 2648 90 23 63 2691 7919683 7922301 0.000000e+00 4082.0
3 TraesCS7D01G016200 chrUn 94.712 1891 79 11 55 1931 51200584 51198701 0.000000e+00 2918.0
4 TraesCS7D01G016200 chrUn 84.082 779 40 31 1965 2702 51198705 51197970 0.000000e+00 675.0
5 TraesCS7D01G016200 chr6B 83.103 290 46 2 993 1279 11299310 11299021 7.420000e-66 261.0
6 TraesCS7D01G016200 chr6D 83.817 241 39 0 1039 1279 5987832 5987592 2.090000e-56 230.0
7 TraesCS7D01G016200 chr3D 100.000 43 0 0 2507 2549 308060208 308060166 2.230000e-11 80.5
8 TraesCS7D01G016200 chr3D 92.857 42 3 0 2508 2549 48427845 48427804 8.080000e-06 62.1
9 TraesCS7D01G016200 chr1B 95.833 48 1 1 2505 2552 18211166 18211212 2.880000e-10 76.8
10 TraesCS7D01G016200 chr4B 95.652 46 2 0 2506 2551 139759823 139759778 1.040000e-09 75.0
11 TraesCS7D01G016200 chr3B 95.455 44 2 0 2507 2550 644679777 644679734 1.340000e-08 71.3
12 TraesCS7D01G016200 chr2D 89.286 56 6 0 2497 2552 436499284 436499339 1.340000e-08 71.3
13 TraesCS7D01G016200 chr6A 90.385 52 4 1 2505 2556 466097980 466098030 1.740000e-07 67.6


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 TraesCS7D01G016200 chr7D 7077657 7080358 2701 False 4990.0 4990 100.000 1 2702 1 chr7D.!!$F1 2701
1 TraesCS7D01G016200 chr7A 7919683 7922301 2618 False 4082.0 4082 94.789 63 2691 1 chr7A.!!$F1 2628
2 TraesCS7D01G016200 chrUn 51197970 51200584 2614 True 1796.5 2918 89.397 55 2702 2 chrUn.!!$R1 2647

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
654 664 0.169009 GAAGGGAACATGTCTTGCGC 59.831 55.0 0.0 0.0 0.0 6.09 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2317 2345 0.10852 GCAAACACATGGATGCCCTG 60.109 55.0 0.0 0.0 32.73 4.45 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
23 24 5.478407 TGATGATGATACGTGTGTTCTTGT 58.522 37.500 0.00 0.00 0.00 3.16
24 25 6.626302 TGATGATGATACGTGTGTTCTTGTA 58.374 36.000 0.00 0.00 0.00 2.41
25 26 7.264947 TGATGATGATACGTGTGTTCTTGTAT 58.735 34.615 0.00 0.00 0.00 2.29
26 27 7.763985 TGATGATGATACGTGTGTTCTTGTATT 59.236 33.333 0.00 0.00 0.00 1.89
27 28 7.289587 TGATGATACGTGTGTTCTTGTATTG 57.710 36.000 0.00 0.00 0.00 1.90
28 29 7.093992 TGATGATACGTGTGTTCTTGTATTGA 58.906 34.615 0.00 0.00 0.00 2.57
29 30 7.763985 TGATGATACGTGTGTTCTTGTATTGAT 59.236 33.333 0.00 0.00 0.00 2.57
30 31 9.244799 GATGATACGTGTGTTCTTGTATTGATA 57.755 33.333 0.00 0.00 0.00 2.15
31 32 9.764363 ATGATACGTGTGTTCTTGTATTGATAT 57.236 29.630 0.00 0.00 0.00 1.63
35 36 7.851508 ACGTGTGTTCTTGTATTGATATATGC 58.148 34.615 0.00 0.00 0.00 3.14
36 37 7.494298 ACGTGTGTTCTTGTATTGATATATGCA 59.506 33.333 0.00 0.00 0.00 3.96
37 38 8.334632 CGTGTGTTCTTGTATTGATATATGCAA 58.665 33.333 0.00 0.00 0.00 4.08
47 48 9.723601 TGTATTGATATATGCAATTAGACAGCA 57.276 29.630 12.57 0.00 43.14 4.41
50 51 8.851541 TTGATATATGCAATTAGACAGCATCA 57.148 30.769 3.68 0.00 45.11 3.07
51 52 8.851541 TGATATATGCAATTAGACAGCATCAA 57.148 30.769 3.68 0.00 45.11 2.57
52 53 9.287373 TGATATATGCAATTAGACAGCATCAAA 57.713 29.630 3.68 0.00 45.11 2.69
61 62 8.404000 CAATTAGACAGCATCAAAAGCTAATCT 58.596 33.333 0.00 0.00 41.14 2.40
81 82 3.070018 CTGTGGAGCTTTCGTTCTGATT 58.930 45.455 0.00 0.00 0.00 2.57
83 84 3.250762 TGTGGAGCTTTCGTTCTGATTTG 59.749 43.478 0.00 0.00 0.00 2.32
84 85 2.813754 TGGAGCTTTCGTTCTGATTTGG 59.186 45.455 0.00 0.00 0.00 3.28
125 131 4.084223 CGAGCAACGTTTGTAACCTTGTAT 60.084 41.667 0.00 0.00 37.22 2.29
206 212 1.811266 AAGTGGCTCGCTGCGTATG 60.811 57.895 22.48 13.95 44.05 2.39
226 232 2.223805 TGCTGCATCCTCATACTACACG 60.224 50.000 0.00 0.00 0.00 4.49
255 264 0.818445 TGGTTTTTGCGGCCGTTAGA 60.818 50.000 28.70 8.93 0.00 2.10
329 338 2.831526 ACTTTGGACCAGTTTGCACTTT 59.168 40.909 0.00 0.00 0.00 2.66
376 385 2.974148 TGCTGTTCGCTGCACAGG 60.974 61.111 18.26 4.48 45.10 4.00
522 532 9.404348 CTCTGTATAGTTATGTTATGTCTGCTG 57.596 37.037 0.00 0.00 0.00 4.41
654 664 0.169009 GAAGGGAACATGTCTTGCGC 59.831 55.000 0.00 0.00 0.00 6.09
1032 1042 2.040544 CGGTAACCAAGCAGGCCAG 61.041 63.158 5.01 0.00 43.14 4.85
1152 1162 2.027605 GCCGCGATCATCTCGGAA 59.972 61.111 20.43 0.00 46.83 4.30
1516 1526 1.371558 GGGCTATACTGCGAAGGGG 59.628 63.158 0.00 0.00 0.00 4.79
1762 1775 8.621532 TCTTTTCATTTGCTGTGATACTTAGT 57.378 30.769 0.00 0.00 0.00 2.24
1763 1776 8.506437 TCTTTTCATTTGCTGTGATACTTAGTG 58.494 33.333 0.00 0.00 0.00 2.74
1769 1782 2.222819 GCTGTGATACTTAGTGTTGCGC 60.223 50.000 0.00 0.00 0.00 6.09
1779 1792 2.203084 TGTTGCGCCGAGAAACCA 60.203 55.556 4.18 0.00 37.60 3.67
1827 1843 2.507866 GTCTTACTGTCGAGTCGAAGC 58.492 52.381 18.42 6.50 37.72 3.86
1855 1871 2.292292 GGTGTGTATTTGGCGTCAGTTT 59.708 45.455 0.00 0.00 0.00 2.66
1856 1872 3.296628 GTGTGTATTTGGCGTCAGTTTG 58.703 45.455 0.00 0.00 0.00 2.93
1857 1873 2.946329 TGTGTATTTGGCGTCAGTTTGT 59.054 40.909 0.00 0.00 0.00 2.83
1858 1874 3.378742 TGTGTATTTGGCGTCAGTTTGTT 59.621 39.130 0.00 0.00 0.00 2.83
1916 1933 4.664150 TGTTTTTGCTTTTACCAGAGGG 57.336 40.909 0.00 0.00 41.29 4.30
1933 1954 3.133003 AGAGGGTGATGTGTATGTGTAGC 59.867 47.826 0.00 0.00 0.00 3.58
1945 1966 5.569059 GTGTATGTGTAGCTCAATTTGTTGC 59.431 40.000 0.00 8.36 0.00 4.17
2056 2078 2.421739 GTCGCCACCTCAGTGTGT 59.578 61.111 0.00 0.00 42.88 3.72
2057 2079 1.956170 GTCGCCACCTCAGTGTGTG 60.956 63.158 8.11 8.11 42.88 3.82
2058 2080 2.108976 CGCCACCTCAGTGTGTGT 59.891 61.111 12.39 0.00 42.88 3.72
2059 2081 2.246739 CGCCACCTCAGTGTGTGTG 61.247 63.158 12.39 9.54 42.88 3.82
2081 2103 7.694784 GTGTGGTGGTATTATTATTGTTGTTCG 59.305 37.037 0.00 0.00 0.00 3.95
2107 2129 3.692593 TGCAATGTCAGATCTGAATGGTG 59.307 43.478 26.70 20.70 41.85 4.17
2108 2130 3.693085 GCAATGTCAGATCTGAATGGTGT 59.307 43.478 26.70 6.85 41.85 4.16
2109 2131 4.438336 GCAATGTCAGATCTGAATGGTGTG 60.438 45.833 26.70 17.93 41.85 3.82
2110 2132 4.831674 ATGTCAGATCTGAATGGTGTGA 57.168 40.909 26.70 0.00 41.85 3.58
2111 2133 4.198028 TGTCAGATCTGAATGGTGTGAG 57.802 45.455 26.70 0.00 41.85 3.51
2112 2134 3.580022 TGTCAGATCTGAATGGTGTGAGT 59.420 43.478 26.70 0.00 41.85 3.41
2113 2135 4.180057 GTCAGATCTGAATGGTGTGAGTC 58.820 47.826 26.70 6.41 41.85 3.36
2114 2136 3.834231 TCAGATCTGAATGGTGTGAGTCA 59.166 43.478 23.17 0.00 36.53 3.41
2138 2160 1.138266 AGTGTGTGTGTGGTACCAGTC 59.862 52.381 16.93 11.93 0.00 3.51
2294 2321 1.602311 CTGGAGTTGCATGCCTATCC 58.398 55.000 16.68 18.65 0.00 2.59
2299 2326 2.880890 GAGTTGCATGCCTATCCGATTT 59.119 45.455 16.68 0.00 0.00 2.17
2317 2345 7.417612 TCCGATTTTTATTGAGCATTAGAAGC 58.582 34.615 0.00 0.00 0.00 3.86
2321 2349 6.455360 TTTTATTGAGCATTAGAAGCAGGG 57.545 37.500 0.00 0.00 0.00 4.45
2348 2395 3.472283 TGTGTTTGCCATTGCTGAATT 57.528 38.095 0.00 0.00 38.71 2.17
2349 2396 3.806380 TGTGTTTGCCATTGCTGAATTT 58.194 36.364 0.00 0.00 38.71 1.82
2350 2397 4.197750 TGTGTTTGCCATTGCTGAATTTT 58.802 34.783 0.00 0.00 38.71 1.82
2351 2398 4.035324 TGTGTTTGCCATTGCTGAATTTTG 59.965 37.500 0.00 0.00 38.71 2.44
2352 2399 4.035441 GTGTTTGCCATTGCTGAATTTTGT 59.965 37.500 0.00 0.00 38.71 2.83
2353 2400 4.639310 TGTTTGCCATTGCTGAATTTTGTT 59.361 33.333 0.00 0.00 38.71 2.83
2354 2401 5.125097 TGTTTGCCATTGCTGAATTTTGTTT 59.875 32.000 0.00 0.00 38.71 2.83
2355 2402 4.815040 TGCCATTGCTGAATTTTGTTTG 57.185 36.364 0.00 0.00 38.71 2.93
2356 2403 4.449131 TGCCATTGCTGAATTTTGTTTGA 58.551 34.783 0.00 0.00 38.71 2.69
2357 2404 5.064558 TGCCATTGCTGAATTTTGTTTGAT 58.935 33.333 0.00 0.00 38.71 2.57
2358 2405 5.531659 TGCCATTGCTGAATTTTGTTTGATT 59.468 32.000 0.00 0.00 38.71 2.57
2359 2406 6.039493 TGCCATTGCTGAATTTTGTTTGATTT 59.961 30.769 0.00 0.00 38.71 2.17
2360 2407 6.919115 GCCATTGCTGAATTTTGTTTGATTTT 59.081 30.769 0.00 0.00 33.53 1.82
2361 2408 7.096394 GCCATTGCTGAATTTTGTTTGATTTTG 60.096 33.333 0.00 0.00 33.53 2.44
2362 2409 7.916450 CCATTGCTGAATTTTGTTTGATTTTGT 59.084 29.630 0.00 0.00 0.00 2.83
2363 2410 8.738554 CATTGCTGAATTTTGTTTGATTTTGTG 58.261 29.630 0.00 0.00 0.00 3.33
2364 2411 7.606858 TGCTGAATTTTGTTTGATTTTGTGA 57.393 28.000 0.00 0.00 0.00 3.58
2365 2412 8.037382 TGCTGAATTTTGTTTGATTTTGTGAA 57.963 26.923 0.00 0.00 0.00 3.18
2366 2413 7.961827 TGCTGAATTTTGTTTGATTTTGTGAAC 59.038 29.630 0.00 0.00 0.00 3.18
2389 2436 5.418840 ACTTTGTGTTGATTTGGAGAAGTGT 59.581 36.000 0.00 0.00 0.00 3.55
2392 2439 4.035091 TGTGTTGATTTGGAGAAGTGTTCG 59.965 41.667 0.00 0.00 34.02 3.95
2402 2449 0.868406 GAAGTGTTCGCCTTGTCTGG 59.132 55.000 0.00 0.00 0.00 3.86
2411 2458 1.523758 GCCTTGTCTGGTCGATGTTT 58.476 50.000 0.00 0.00 0.00 2.83
2416 2463 4.036262 CCTTGTCTGGTCGATGTTTCAAAA 59.964 41.667 0.00 0.00 0.00 2.44
2423 2470 7.646130 GTCTGGTCGATGTTTCAAAATTTGTTA 59.354 33.333 5.56 0.00 0.00 2.41
2451 2500 3.345414 TGGTTTTGGTTCTGTTGTACGT 58.655 40.909 0.00 0.00 0.00 3.57
2492 2569 3.555139 GTGCAAGTTATGTTTTTGCTGCA 59.445 39.130 0.00 0.00 45.53 4.41
2497 2574 6.146021 GCAAGTTATGTTTTTGCTGCATACTT 59.854 34.615 1.84 3.76 42.84 2.24
2499 2576 6.086222 AGTTATGTTTTTGCTGCATACTTCG 58.914 36.000 1.84 0.00 0.00 3.79
2558 2635 3.705051 TCGGAGGGAGTACTACATTGTT 58.295 45.455 7.57 0.00 0.00 2.83
2637 2718 3.119495 CCGAGGGTAAATTGCAAGAAAGG 60.119 47.826 4.94 0.00 0.00 3.11
2643 2724 0.240945 AATTGCAAGAAAGGCCGACG 59.759 50.000 4.94 0.00 0.00 5.12
2670 2751 1.061546 ACCATAACCCGGTGACAAGT 58.938 50.000 0.00 0.00 34.69 3.16
2691 2772 3.485463 AAATCCACTCCAACTCGAACA 57.515 42.857 0.00 0.00 0.00 3.18
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 5.478407 ACAAGAACACACGTATCATCATCA 58.522 37.500 0.00 0.00 0.00 3.07
1 2 7.700322 ATACAAGAACACACGTATCATCATC 57.300 36.000 0.00 0.00 0.00 2.92
2 3 7.763985 TCAATACAAGAACACACGTATCATCAT 59.236 33.333 0.00 0.00 0.00 2.45
3 4 7.093992 TCAATACAAGAACACACGTATCATCA 58.906 34.615 0.00 0.00 0.00 3.07
4 5 7.520119 TCAATACAAGAACACACGTATCATC 57.480 36.000 0.00 0.00 0.00 2.92
5 6 9.764363 ATATCAATACAAGAACACACGTATCAT 57.236 29.630 0.00 0.00 0.00 2.45
9 10 8.974408 GCATATATCAATACAAGAACACACGTA 58.026 33.333 0.00 0.00 0.00 3.57
10 11 7.494298 TGCATATATCAATACAAGAACACACGT 59.506 33.333 0.00 0.00 0.00 4.49
11 12 7.850501 TGCATATATCAATACAAGAACACACG 58.149 34.615 0.00 0.00 0.00 4.49
21 22 9.723601 TGCTGTCTAATTGCATATATCAATACA 57.276 29.630 9.42 9.36 34.09 2.29
24 25 9.457436 TGATGCTGTCTAATTGCATATATCAAT 57.543 29.630 0.59 5.20 45.90 2.57
25 26 8.851541 TGATGCTGTCTAATTGCATATATCAA 57.148 30.769 0.59 1.69 45.90 2.57
26 27 8.851541 TTGATGCTGTCTAATTGCATATATCA 57.148 30.769 0.59 0.00 45.90 2.15
29 30 8.077991 GCTTTTGATGCTGTCTAATTGCATATA 58.922 33.333 0.59 0.00 45.90 0.86
30 31 6.921857 GCTTTTGATGCTGTCTAATTGCATAT 59.078 34.615 0.59 0.00 45.90 1.78
31 32 6.095860 AGCTTTTGATGCTGTCTAATTGCATA 59.904 34.615 0.59 0.00 45.90 3.14
33 34 4.219070 AGCTTTTGATGCTGTCTAATTGCA 59.781 37.500 0.00 0.00 39.56 4.08
34 35 4.741342 AGCTTTTGATGCTGTCTAATTGC 58.259 39.130 0.00 0.00 39.56 3.56
35 36 8.404000 AGATTAGCTTTTGATGCTGTCTAATTG 58.596 33.333 0.00 0.00 41.32 2.32
36 37 8.404000 CAGATTAGCTTTTGATGCTGTCTAATT 58.596 33.333 0.00 0.00 41.32 1.40
37 38 7.555554 ACAGATTAGCTTTTGATGCTGTCTAAT 59.444 33.333 0.00 0.00 41.32 1.73
38 39 6.881065 ACAGATTAGCTTTTGATGCTGTCTAA 59.119 34.615 0.00 0.00 41.32 2.10
39 40 6.314648 CACAGATTAGCTTTTGATGCTGTCTA 59.685 38.462 0.00 0.00 41.32 2.59
40 41 5.123502 CACAGATTAGCTTTTGATGCTGTCT 59.876 40.000 0.00 0.00 41.32 3.41
41 42 5.330295 CACAGATTAGCTTTTGATGCTGTC 58.670 41.667 0.00 0.00 41.32 3.51
42 43 4.157289 CCACAGATTAGCTTTTGATGCTGT 59.843 41.667 0.00 0.00 41.32 4.40
43 44 4.397103 TCCACAGATTAGCTTTTGATGCTG 59.603 41.667 0.00 0.00 41.32 4.41
44 45 4.592942 TCCACAGATTAGCTTTTGATGCT 58.407 39.130 0.00 0.00 43.79 3.79
45 46 4.732938 GCTCCACAGATTAGCTTTTGATGC 60.733 45.833 0.00 0.00 33.40 3.91
46 47 4.639310 AGCTCCACAGATTAGCTTTTGATG 59.361 41.667 0.00 0.00 43.97 3.07
47 48 4.853007 AGCTCCACAGATTAGCTTTTGAT 58.147 39.130 0.00 0.00 43.97 2.57
48 49 4.292186 AGCTCCACAGATTAGCTTTTGA 57.708 40.909 0.00 0.00 43.97 2.69
61 62 2.839486 ATCAGAACGAAAGCTCCACA 57.161 45.000 0.00 0.00 0.00 4.17
81 82 0.326595 TTGTGAATCTAGCGGCCCAA 59.673 50.000 0.00 0.00 0.00 4.12
83 84 0.733150 GTTTGTGAATCTAGCGGCCC 59.267 55.000 0.00 0.00 0.00 5.80
84 85 0.373716 CGTTTGTGAATCTAGCGGCC 59.626 55.000 0.00 0.00 0.00 6.13
125 131 3.371917 CCTGGTAAATGCTGGATTCTCCA 60.372 47.826 13.79 13.79 45.98 3.86
146 152 1.683385 GAAAATGGCTCATGGCTACCC 59.317 52.381 6.20 0.00 41.46 3.69
202 208 4.926238 GTGTAGTATGAGGATGCAGCATAC 59.074 45.833 9.96 9.96 42.77 2.39
206 212 2.223829 ACGTGTAGTATGAGGATGCAGC 60.224 50.000 0.00 0.00 0.00 5.25
226 232 2.855370 CCGCAAAAACCAACACACTAAC 59.145 45.455 0.00 0.00 0.00 2.34
317 326 6.145371 ACAACACAAGTTAAAAGTGCAAACTG 59.855 34.615 1.61 0.39 35.85 3.16
376 385 1.745653 GCACTGAATAAAGTGGCCTCC 59.254 52.381 3.32 0.00 46.34 4.30
409 418 2.853705 AGTAAACGGCCAAACTTAGCA 58.146 42.857 2.24 0.00 0.00 3.49
522 532 7.470289 AGATCAAAGCATCGTATAGTTCAAC 57.530 36.000 0.00 0.00 0.00 3.18
643 653 0.454789 TTCAATGCGCGCAAGACATG 60.455 50.000 39.68 27.99 43.02 3.21
654 664 5.022021 GGTTAGAAACGAAGATTCAATGCG 58.978 41.667 0.00 0.00 41.98 4.73
1032 1042 4.377897 TCTTCTTTCCTTTCTTCGACACC 58.622 43.478 0.00 0.00 0.00 4.16
1152 1162 1.294780 CTGCCGCTTCTTCTCCAGT 59.705 57.895 0.00 0.00 0.00 4.00
1458 1468 2.099921 CTCCCACGATGAGAACGAGAAT 59.900 50.000 0.00 0.00 31.26 2.40
1516 1526 2.359230 GTCTGTCTGGCAGGGTGC 60.359 66.667 15.73 3.66 45.08 5.01
1762 1775 1.377366 TTTGGTTTCTCGGCGCAACA 61.377 50.000 10.83 0.00 0.00 3.33
1763 1776 0.248702 TTTTGGTTTCTCGGCGCAAC 60.249 50.000 10.83 4.07 0.00 4.17
1769 1782 5.527582 CCTATATCCACTTTTGGTTTCTCGG 59.472 44.000 0.00 0.00 44.35 4.63
1794 1807 5.585445 CGACAGTAAGACGGCTCCTATATAT 59.415 44.000 0.00 0.00 0.00 0.86
1795 1808 4.934001 CGACAGTAAGACGGCTCCTATATA 59.066 45.833 0.00 0.00 0.00 0.86
1827 1843 1.135689 GCCAAATACACACCGCTTCTG 60.136 52.381 0.00 0.00 0.00 3.02
1855 1871 4.156922 CACAAAAACCCACTGTCTGTAACA 59.843 41.667 0.00 0.00 36.18 2.41
1856 1872 4.396790 TCACAAAAACCCACTGTCTGTAAC 59.603 41.667 0.00 0.00 0.00 2.50
1857 1873 4.590918 TCACAAAAACCCACTGTCTGTAA 58.409 39.130 0.00 0.00 0.00 2.41
1858 1874 4.223556 TCACAAAAACCCACTGTCTGTA 57.776 40.909 0.00 0.00 0.00 2.74
1916 1933 6.668541 AATTGAGCTACACATACACATCAC 57.331 37.500 0.00 0.00 0.00 3.06
2056 2078 7.390996 ACGAACAACAATAATAATACCACCACA 59.609 33.333 0.00 0.00 0.00 4.17
2057 2079 7.754625 ACGAACAACAATAATAATACCACCAC 58.245 34.615 0.00 0.00 0.00 4.16
2058 2080 7.925043 ACGAACAACAATAATAATACCACCA 57.075 32.000 0.00 0.00 0.00 4.17
2059 2081 9.628746 AAAACGAACAACAATAATAATACCACC 57.371 29.630 0.00 0.00 0.00 4.61
2081 2103 5.575606 CCATTCAGATCTGACATTGCAAAAC 59.424 40.000 25.07 0.00 39.66 2.43
2107 2129 2.196749 CACACACACTCACTGACTCAC 58.803 52.381 0.00 0.00 0.00 3.51
2108 2130 1.824852 ACACACACACTCACTGACTCA 59.175 47.619 0.00 0.00 0.00 3.41
2109 2131 2.196749 CACACACACACTCACTGACTC 58.803 52.381 0.00 0.00 0.00 3.36
2110 2132 1.134699 CCACACACACACTCACTGACT 60.135 52.381 0.00 0.00 0.00 3.41
2111 2133 1.290203 CCACACACACACTCACTGAC 58.710 55.000 0.00 0.00 0.00 3.51
2112 2134 0.901827 ACCACACACACACTCACTGA 59.098 50.000 0.00 0.00 0.00 3.41
2113 2135 2.201732 GTACCACACACACACTCACTG 58.798 52.381 0.00 0.00 0.00 3.66
2114 2136 1.138266 GGTACCACACACACACTCACT 59.862 52.381 7.15 0.00 0.00 3.41
2138 2160 1.826385 AGGTGGGCAAAAAGAGATCG 58.174 50.000 0.00 0.00 0.00 3.69
2294 2321 7.377928 CCTGCTTCTAATGCTCAATAAAAATCG 59.622 37.037 0.00 0.00 0.00 3.34
2299 2326 4.339247 GCCCTGCTTCTAATGCTCAATAAA 59.661 41.667 0.00 0.00 0.00 1.40
2317 2345 0.108520 GCAAACACATGGATGCCCTG 60.109 55.000 0.00 0.00 32.73 4.45
2321 2349 2.004017 CAATGGCAAACACATGGATGC 58.996 47.619 0.00 1.64 38.06 3.91
2348 2395 8.147642 ACACAAAGTTCACAAAATCAAACAAA 57.852 26.923 0.00 0.00 0.00 2.83
2349 2396 7.721286 ACACAAAGTTCACAAAATCAAACAA 57.279 28.000 0.00 0.00 0.00 2.83
2350 2397 7.439356 TCAACACAAAGTTCACAAAATCAAACA 59.561 29.630 0.00 0.00 38.74 2.83
2351 2398 7.791949 TCAACACAAAGTTCACAAAATCAAAC 58.208 30.769 0.00 0.00 38.74 2.93
2352 2399 7.953158 TCAACACAAAGTTCACAAAATCAAA 57.047 28.000 0.00 0.00 38.74 2.69
2353 2400 8.545229 AATCAACACAAAGTTCACAAAATCAA 57.455 26.923 0.00 0.00 38.74 2.57
2354 2401 8.441608 CAAATCAACACAAAGTTCACAAAATCA 58.558 29.630 0.00 0.00 38.74 2.57
2355 2402 7.904461 CCAAATCAACACAAAGTTCACAAAATC 59.096 33.333 0.00 0.00 38.74 2.17
2356 2403 7.605691 TCCAAATCAACACAAAGTTCACAAAAT 59.394 29.630 0.00 0.00 38.74 1.82
2357 2404 6.931281 TCCAAATCAACACAAAGTTCACAAAA 59.069 30.769 0.00 0.00 38.74 2.44
2358 2405 6.459066 TCCAAATCAACACAAAGTTCACAAA 58.541 32.000 0.00 0.00 38.74 2.83
2359 2406 6.030548 TCCAAATCAACACAAAGTTCACAA 57.969 33.333 0.00 0.00 38.74 3.33
2360 2407 5.417266 TCTCCAAATCAACACAAAGTTCACA 59.583 36.000 0.00 0.00 38.74 3.58
2361 2408 5.890334 TCTCCAAATCAACACAAAGTTCAC 58.110 37.500 0.00 0.00 38.74 3.18
2362 2409 6.152661 ACTTCTCCAAATCAACACAAAGTTCA 59.847 34.615 0.00 0.00 38.74 3.18
2363 2410 6.473455 CACTTCTCCAAATCAACACAAAGTTC 59.527 38.462 0.00 0.00 38.74 3.01
2364 2411 6.071391 ACACTTCTCCAAATCAACACAAAGTT 60.071 34.615 0.00 0.00 42.42 2.66
2365 2412 5.418840 ACACTTCTCCAAATCAACACAAAGT 59.581 36.000 0.00 0.00 0.00 2.66
2366 2413 5.894807 ACACTTCTCCAAATCAACACAAAG 58.105 37.500 0.00 0.00 0.00 2.77
2389 2436 0.389817 CATCGACCAGACAAGGCGAA 60.390 55.000 0.00 0.00 39.39 4.70
2392 2439 1.464997 GAAACATCGACCAGACAAGGC 59.535 52.381 0.00 0.00 0.00 4.35
2431 2480 4.359971 AACGTACAACAGAACCAAAACC 57.640 40.909 0.00 0.00 0.00 3.27
2451 2500 4.336713 TGCACTACACATTAACAGCACAAA 59.663 37.500 0.00 0.00 0.00 2.83
2497 2574 4.815308 TGGTTTTAGTTCAAATTCGGACGA 59.185 37.500 0.00 0.00 0.00 4.20
2499 2576 4.907582 CGTGGTTTTAGTTCAAATTCGGAC 59.092 41.667 0.00 0.00 0.00 4.79
2643 2724 1.146263 CGGGTTATGGTGGGAGCTC 59.854 63.158 4.71 4.71 0.00 4.09
2670 2751 4.202274 TGTGTTCGAGTTGGAGTGGATTTA 60.202 41.667 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.