Multiple sequence alignment - TraesCS5A01G387600

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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 TraesCS5A01G387600 chr5A 100.000 2474 0 0 1 2474 584662296 584664769 0.000000e+00 4569
1 TraesCS5A01G387600 chr5B 91.682 2128 142 21 1 2104 571320645 571322761 0.000000e+00 2916
2 TraesCS5A01G387600 chr5B 87.956 274 13 10 2190 2462 571322766 571323020 3.090000e-79 305
3 TraesCS5A01G387600 chr5D 92.258 1550 65 22 611 2110 464225959 464227503 0.000000e+00 2146
4 TraesCS5A01G387600 chr5D 91.129 620 52 3 1 619 464224946 464225563 0.000000e+00 837
5 TraesCS5A01G387600 chr5D 93.836 292 8 3 2190 2472 464227509 464227799 4.890000e-117 431
6 TraesCS5A01G387600 chr3A 95.890 73 2 1 2116 2188 547196126 547196055 1.550000e-22 117
7 TraesCS5A01G387600 chr3A 98.361 61 0 1 2128 2188 27735784 27735725 3.360000e-19 106
8 TraesCS5A01G387600 chr2B 93.671 79 2 3 2114 2189 6120428 6120350 5.590000e-22 115
9 TraesCS5A01G387600 chr2B 96.970 66 2 0 2124 2189 404743524 404743589 7.230000e-21 111
10 TraesCS5A01G387600 chr2A 94.595 74 3 1 2117 2189 80885951 80886024 2.010000e-21 113
11 TraesCS5A01G387600 chr2A 97.015 67 2 0 2123 2189 473641745 473641679 2.010000e-21 113
12 TraesCS5A01G387600 chr1A 98.438 64 1 0 2126 2189 346451470 346451407 2.010000e-21 113
13 TraesCS5A01G387600 chr4A 98.413 63 1 0 2127 2189 569869481 569869419 7.230000e-21 111
14 TraesCS5A01G387600 chr1D 93.333 75 4 1 2116 2189 465522141 465522067 2.600000e-20 110


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 TraesCS5A01G387600 chr5A 584662296 584664769 2473 False 4569.0 4569 100.000000 1 2474 1 chr5A.!!$F1 2473
1 TraesCS5A01G387600 chr5B 571320645 571323020 2375 False 1610.5 2916 89.819000 1 2462 2 chr5B.!!$F1 2461
2 TraesCS5A01G387600 chr5D 464224946 464227799 2853 False 1138.0 2146 92.407667 1 2472 3 chr5D.!!$F1 2471

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
602 609 0.109781 ATGAATCACGCGGTGCAAAC 60.11 50.0 12.47 0.0 32.98 2.93 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1858 2313 0.399233 AGTGACAGGATAGGGGGCTC 60.399 60.0 0.0 0.0 0.0 4.7 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
107 110 3.056821 CGTATCACTGTCCTCTTCAACCA 60.057 47.826 0.00 0.00 0.00 3.67
135 138 1.586541 CTCCAGCGAGTGCACACTA 59.413 57.895 21.04 0.00 46.23 2.74
156 159 7.399191 ACACTATCATACCCTCAACAGAAACTA 59.601 37.037 0.00 0.00 0.00 2.24
173 176 1.272536 ACTAGCCTCCCTTTCAGTCGA 60.273 52.381 0.00 0.00 0.00 4.20
205 208 3.253838 TCGGGTGGGGTGGAAAGG 61.254 66.667 0.00 0.00 0.00 3.11
256 259 1.809684 TGACAACACGACCAAACACA 58.190 45.000 0.00 0.00 0.00 3.72
338 342 6.901081 AATCCAACTCAGGGTAAAAGAAAG 57.099 37.500 0.00 0.00 0.00 2.62
356 360 1.507140 AGGTCAACCCAAGTGACTGA 58.493 50.000 4.70 0.00 36.42 3.41
381 385 2.903350 GTTTGGCGAACACCCCGT 60.903 61.111 12.78 0.00 38.18 5.28
465 472 9.650539 ACTTGAAGGAGATATCGAATTATCATG 57.349 33.333 8.38 4.47 32.10 3.07
480 487 7.307396 CGAATTATCATGTTGACAGGTATGGTC 60.307 40.741 0.00 0.00 35.83 4.02
497 504 1.903183 GGTCAGGTTAGAGTTGGAGCT 59.097 52.381 0.00 0.00 0.00 4.09
511 518 5.439721 AGTTGGAGCTCAATATGTGCAATA 58.560 37.500 17.19 0.00 39.15 1.90
518 525 8.545420 GGAGCTCAATATGTGCAATAAAATTTG 58.455 33.333 17.19 0.00 39.15 2.32
602 609 0.109781 ATGAATCACGCGGTGCAAAC 60.110 50.000 12.47 0.00 32.98 2.93
656 1067 1.803922 TCGCCACGTATCACTTGCG 60.804 57.895 0.00 0.00 39.57 4.85
704 1115 4.794278 TCTGAGAGGTTATGTTTGCGTA 57.206 40.909 0.00 0.00 0.00 4.42
800 1215 5.819991 TGAGGCAGAATTAATTTCTCCACT 58.180 37.500 1.43 0.00 42.98 4.00
801 1216 5.649395 TGAGGCAGAATTAATTTCTCCACTG 59.351 40.000 1.43 5.22 42.98 3.66
824 1239 9.823647 ACTGGAAGATACAAATAACTAGTCATG 57.176 33.333 0.00 0.00 37.43 3.07
1472 1920 0.251634 TGTGGCCGTGATGCTAATCA 59.748 50.000 0.00 0.00 40.61 2.57
1476 1924 2.158769 TGGCCGTGATGCTAATCAATCT 60.159 45.455 0.00 0.00 44.40 2.40
1542 1990 6.473455 GCCAGAATTAATGTTGTAATGCAGAC 59.527 38.462 0.00 0.00 0.00 3.51
1556 2004 1.128507 TGCAGACAAATTCGTCGCATC 59.871 47.619 10.57 0.00 39.08 3.91
1631 2080 2.182614 ATTGCTGCGTACGTGTTGCC 62.183 55.000 17.90 0.00 0.00 4.52
1682 2131 4.201980 GGCGAAAACAGTAGAAAAACAGGT 60.202 41.667 0.00 0.00 0.00 4.00
1689 2138 5.422145 ACAGTAGAAAAACAGGTGTACGTT 58.578 37.500 0.00 0.00 0.00 3.99
1738 2189 4.430007 TGTCAAAGCTCATCCATACGTAC 58.570 43.478 0.00 0.00 0.00 3.67
1857 2312 2.755103 CAGGGCAAATCCAAAGTAGGAC 59.245 50.000 0.00 0.00 41.30 3.85
1858 2313 1.743394 GGGCAAATCCAAAGTAGGACG 59.257 52.381 0.00 0.00 41.30 4.79
1861 2316 2.096013 GCAAATCCAAAGTAGGACGAGC 59.904 50.000 0.00 0.00 41.30 5.03
1862 2317 2.678336 CAAATCCAAAGTAGGACGAGCC 59.322 50.000 0.00 0.00 41.30 4.70
1867 2332 0.337428 AAAGTAGGACGAGCCCCCTA 59.663 55.000 0.00 0.00 37.37 3.53
1876 2341 1.749334 CGAGCCCCCTATCCTGTCAC 61.749 65.000 0.00 0.00 0.00 3.67
1877 2342 0.399233 GAGCCCCCTATCCTGTCACT 60.399 60.000 0.00 0.00 0.00 3.41
1898 2363 0.389426 TCTTGTAAACGAGAGGCGGC 60.389 55.000 0.00 0.00 46.49 6.53
2007 2472 7.939039 TCAGTTTAGGAAGTTTGTCTGATGATT 59.061 33.333 0.00 0.00 0.00 2.57
2016 2481 5.468072 AGTTTGTCTGATGATTGCGATATCC 59.532 40.000 0.00 0.00 0.00 2.59
2026 2491 0.391793 TGCGATATCCGTTGTTGCCA 60.392 50.000 0.00 0.00 41.15 4.92
2028 2493 1.069906 GCGATATCCGTTGTTGCCATC 60.070 52.381 0.00 0.00 41.15 3.51
2072 2538 0.253820 AGGTGGATGGAGGGGATTGT 60.254 55.000 0.00 0.00 0.00 2.71
2073 2539 0.106519 GGTGGATGGAGGGGATTGTG 60.107 60.000 0.00 0.00 0.00 3.33
2078 2544 1.583784 ATGGAGGGGATTGTGTGGGG 61.584 60.000 0.00 0.00 0.00 4.96
2110 2576 0.036732 GTGTCATGTCAGCTTGGGGA 59.963 55.000 0.00 0.00 0.00 4.81
2111 2577 0.325933 TGTCATGTCAGCTTGGGGAG 59.674 55.000 0.00 0.00 0.00 4.30
2112 2578 0.326264 GTCATGTCAGCTTGGGGAGT 59.674 55.000 0.00 0.00 0.00 3.85
2114 2580 2.027192 GTCATGTCAGCTTGGGGAGTTA 60.027 50.000 0.00 0.00 0.00 2.24
2115 2581 2.846206 TCATGTCAGCTTGGGGAGTTAT 59.154 45.455 0.00 0.00 0.00 1.89
2116 2582 4.037222 TCATGTCAGCTTGGGGAGTTATA 58.963 43.478 0.00 0.00 0.00 0.98
2117 2583 3.906720 TGTCAGCTTGGGGAGTTATAC 57.093 47.619 0.00 0.00 0.00 1.47
2118 2584 3.450904 TGTCAGCTTGGGGAGTTATACT 58.549 45.455 0.00 0.00 0.00 2.12
2119 2585 4.616553 TGTCAGCTTGGGGAGTTATACTA 58.383 43.478 0.00 0.00 0.00 1.82
2120 2586 4.404715 TGTCAGCTTGGGGAGTTATACTAC 59.595 45.833 0.00 0.00 0.00 2.73
2121 2587 4.650131 GTCAGCTTGGGGAGTTATACTACT 59.350 45.833 0.00 0.00 0.00 2.57
2122 2588 5.832060 GTCAGCTTGGGGAGTTATACTACTA 59.168 44.000 0.00 0.00 0.00 1.82
2123 2589 5.832060 TCAGCTTGGGGAGTTATACTACTAC 59.168 44.000 0.00 0.00 0.00 2.73
2124 2590 5.834204 CAGCTTGGGGAGTTATACTACTACT 59.166 44.000 0.00 0.00 0.00 2.57
2125 2591 6.016108 CAGCTTGGGGAGTTATACTACTACTC 60.016 46.154 0.00 0.00 38.02 2.59
2134 2600 8.206126 GAGTTATACTACTACTCCTACTCCCT 57.794 42.308 0.00 0.00 33.77 4.20
2135 2601 8.206126 AGTTATACTACTACTCCTACTCCCTC 57.794 42.308 0.00 0.00 0.00 4.30
2136 2602 7.237471 AGTTATACTACTACTCCTACTCCCTCC 59.763 44.444 0.00 0.00 0.00 4.30
2137 2603 2.705127 ACTACTACTCCTACTCCCTCCG 59.295 54.545 0.00 0.00 0.00 4.63
2138 2604 1.594129 ACTACTCCTACTCCCTCCGT 58.406 55.000 0.00 0.00 0.00 4.69
2139 2605 1.921748 ACTACTCCTACTCCCTCCGTT 59.078 52.381 0.00 0.00 0.00 4.44
2140 2606 2.092484 ACTACTCCTACTCCCTCCGTTC 60.092 54.545 0.00 0.00 0.00 3.95
2141 2607 1.001282 ACTCCTACTCCCTCCGTTCT 58.999 55.000 0.00 0.00 0.00 3.01
2142 2608 1.341187 ACTCCTACTCCCTCCGTTCTG 60.341 57.143 0.00 0.00 0.00 3.02
2143 2609 0.997363 TCCTACTCCCTCCGTTCTGA 59.003 55.000 0.00 0.00 0.00 3.27
2144 2610 1.356738 TCCTACTCCCTCCGTTCTGAA 59.643 52.381 0.00 0.00 0.00 3.02
2145 2611 2.024273 TCCTACTCCCTCCGTTCTGAAT 60.024 50.000 0.00 0.00 0.00 2.57
2146 2612 2.766828 CCTACTCCCTCCGTTCTGAATT 59.233 50.000 0.00 0.00 0.00 2.17
2147 2613 3.958798 CCTACTCCCTCCGTTCTGAATTA 59.041 47.826 0.00 0.00 0.00 1.40
2148 2614 3.889520 ACTCCCTCCGTTCTGAATTAC 57.110 47.619 0.00 0.00 0.00 1.89
2149 2615 3.442076 ACTCCCTCCGTTCTGAATTACT 58.558 45.455 0.00 0.00 0.00 2.24
2150 2616 3.838903 ACTCCCTCCGTTCTGAATTACTT 59.161 43.478 0.00 0.00 0.00 2.24
2151 2617 4.184629 CTCCCTCCGTTCTGAATTACTTG 58.815 47.826 0.00 0.00 0.00 3.16
2152 2618 3.581332 TCCCTCCGTTCTGAATTACTTGT 59.419 43.478 0.00 0.00 0.00 3.16
2153 2619 3.933332 CCCTCCGTTCTGAATTACTTGTC 59.067 47.826 0.00 0.00 0.00 3.18
2154 2620 4.322801 CCCTCCGTTCTGAATTACTTGTCT 60.323 45.833 0.00 0.00 0.00 3.41
2155 2621 5.238583 CCTCCGTTCTGAATTACTTGTCTT 58.761 41.667 0.00 0.00 0.00 3.01
2156 2622 5.120830 CCTCCGTTCTGAATTACTTGTCTTG 59.879 44.000 0.00 0.00 0.00 3.02
2157 2623 4.994852 TCCGTTCTGAATTACTTGTCTTGG 59.005 41.667 0.00 0.00 0.00 3.61
2158 2624 4.994852 CCGTTCTGAATTACTTGTCTTGGA 59.005 41.667 0.00 0.00 0.00 3.53
2159 2625 5.643777 CCGTTCTGAATTACTTGTCTTGGAT 59.356 40.000 0.00 0.00 0.00 3.41
2160 2626 6.149474 CCGTTCTGAATTACTTGTCTTGGATT 59.851 38.462 0.00 0.00 0.00 3.01
2161 2627 7.308589 CCGTTCTGAATTACTTGTCTTGGATTT 60.309 37.037 0.00 0.00 0.00 2.17
2162 2628 7.535258 CGTTCTGAATTACTTGTCTTGGATTTG 59.465 37.037 0.00 0.00 0.00 2.32
2163 2629 8.352942 GTTCTGAATTACTTGTCTTGGATTTGT 58.647 33.333 0.00 0.00 0.00 2.83
2164 2630 8.099364 TCTGAATTACTTGTCTTGGATTTGTC 57.901 34.615 0.00 0.00 0.00 3.18
2165 2631 7.939039 TCTGAATTACTTGTCTTGGATTTGTCT 59.061 33.333 0.00 0.00 0.00 3.41
2166 2632 9.219603 CTGAATTACTTGTCTTGGATTTGTCTA 57.780 33.333 0.00 0.00 0.00 2.59
2167 2633 9.219603 TGAATTACTTGTCTTGGATTTGTCTAG 57.780 33.333 0.00 0.00 0.00 2.43
2168 2634 9.436957 GAATTACTTGTCTTGGATTTGTCTAGA 57.563 33.333 0.00 0.00 0.00 2.43
2169 2635 9.965902 AATTACTTGTCTTGGATTTGTCTAGAT 57.034 29.630 0.00 0.00 0.00 1.98
2171 2637 9.871238 TTACTTGTCTTGGATTTGTCTAGATAC 57.129 33.333 0.00 0.00 0.00 2.24
2172 2638 7.036220 ACTTGTCTTGGATTTGTCTAGATACG 58.964 38.462 0.00 0.00 0.00 3.06
2173 2639 5.902681 TGTCTTGGATTTGTCTAGATACGG 58.097 41.667 0.00 0.00 0.00 4.02
2174 2640 5.655090 TGTCTTGGATTTGTCTAGATACGGA 59.345 40.000 0.00 0.00 0.00 4.69
2175 2641 6.323996 TGTCTTGGATTTGTCTAGATACGGAT 59.676 38.462 0.00 0.00 0.00 4.18
2176 2642 6.642950 GTCTTGGATTTGTCTAGATACGGATG 59.357 42.308 0.00 0.00 0.00 3.51
2177 2643 6.323996 TCTTGGATTTGTCTAGATACGGATGT 59.676 38.462 0.00 0.00 0.00 3.06
2178 2644 7.504574 TCTTGGATTTGTCTAGATACGGATGTA 59.495 37.037 0.00 0.00 34.45 2.29
2179 2645 7.776618 TGGATTTGTCTAGATACGGATGTAT 57.223 36.000 0.00 0.00 43.97 2.29
2286 2756 1.037493 AGGTGACAGTGACGCTACAA 58.963 50.000 0.00 0.00 0.00 2.41
2353 2823 3.734463 TCGCACAACTCACAGGAAATAA 58.266 40.909 0.00 0.00 0.00 1.40
2435 2911 3.252701 GCTTCTCTATTCGACGGTGGATA 59.747 47.826 0.00 0.00 0.00 2.59
2446 2922 8.665643 ATTCGACGGTGGATAAAAATTATGTA 57.334 30.769 0.00 0.00 0.00 2.29
2450 2926 9.377383 CGACGGTGGATAAAAATTATGTATTTC 57.623 33.333 0.00 0.00 35.39 2.17
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
80 83 2.281517 AGAGGACAGTGATACGTCTCG 58.718 52.381 0.00 0.00 32.57 4.04
107 110 0.392193 CTCGCTGGAGCAAAGGATGT 60.392 55.000 0.00 0.00 42.21 3.06
135 138 5.396884 GGCTAGTTTCTGTTGAGGGTATGAT 60.397 44.000 0.00 0.00 0.00 2.45
156 159 0.539051 CATCGACTGAAAGGGAGGCT 59.461 55.000 0.00 0.00 39.30 4.58
173 176 0.530650 CCCGAGCGCAATAGTGACAT 60.531 55.000 11.47 0.00 0.00 3.06
256 259 1.209504 CCCGTGACACATGGACCTTAT 59.790 52.381 11.05 0.00 42.73 1.73
306 309 3.555586 CCCTGAGTTGGATTTTTGCCTTG 60.556 47.826 0.00 0.00 0.00 3.61
311 314 7.049799 TCTTTTACCCTGAGTTGGATTTTTG 57.950 36.000 0.00 0.00 0.00 2.44
313 316 7.202001 CCTTTCTTTTACCCTGAGTTGGATTTT 60.202 37.037 0.00 0.00 0.00 1.82
318 321 4.470602 ACCTTTCTTTTACCCTGAGTTGG 58.529 43.478 0.00 0.00 0.00 3.77
338 342 2.154462 CATCAGTCACTTGGGTTGACC 58.846 52.381 0.00 0.00 40.81 4.02
381 385 3.768757 CCCAATTTAGGTGATTTCAGCCA 59.231 43.478 6.16 0.00 44.82 4.75
427 434 3.153919 TCCTTCAAGTTTATGTGTGGCC 58.846 45.455 0.00 0.00 0.00 5.36
428 435 4.072131 TCTCCTTCAAGTTTATGTGTGGC 58.928 43.478 0.00 0.00 0.00 5.01
464 471 2.334977 ACCTGACCATACCTGTCAACA 58.665 47.619 0.00 0.00 41.85 3.33
465 472 3.418684 AACCTGACCATACCTGTCAAC 57.581 47.619 0.00 0.00 41.85 3.18
480 487 3.685139 TTGAGCTCCAACTCTAACCTG 57.315 47.619 12.15 0.00 37.58 4.00
518 525 5.398176 TTCACGTAGAATTGTGTGTTCAC 57.602 39.130 0.00 0.00 44.08 3.18
572 579 1.593006 CGTGATTCATTACTCGGGCAC 59.407 52.381 0.00 0.00 0.00 5.01
602 609 2.468831 GCCTTGAAGAGTAGATCGCAG 58.531 52.381 0.00 0.00 0.00 5.18
656 1067 3.198068 ACACGTGCAATATGGATCTCAC 58.802 45.455 17.22 0.00 0.00 3.51
756 1170 0.162082 TTCGTGCACGCGTTCATTAC 59.838 50.000 33.63 6.46 39.60 1.89
800 1215 8.264347 TGCATGACTAGTTATTTGTATCTTCCA 58.736 33.333 0.00 0.00 0.00 3.53
801 1216 8.662781 TGCATGACTAGTTATTTGTATCTTCC 57.337 34.615 0.00 0.00 0.00 3.46
824 1239 9.202273 AGAAATATCTCTCGATTTAGATGTTGC 57.798 33.333 12.78 11.28 34.83 4.17
861 1284 8.737168 TGTGCTATGTAATTGCTCTAATCTTT 57.263 30.769 0.00 0.00 45.44 2.52
1033 1463 0.034896 CGGCAGTTACTGGGTTCTGT 59.965 55.000 14.63 0.00 31.21 3.41
1039 1469 4.388499 ACGGCGGCAGTTACTGGG 62.388 66.667 14.63 0.00 31.21 4.45
1507 1955 6.906157 ACATTAATTCTGGCTCCATTATGG 57.094 37.500 4.57 4.57 39.43 2.74
1542 1990 4.901814 AGAAAGATGATGCGACGAATTTG 58.098 39.130 0.00 0.00 0.00 2.32
1556 2004 8.781196 TGTTTTCTCTCAATCTCAAGAAAGATG 58.219 33.333 0.00 0.00 38.55 2.90
1601 2050 1.860950 ACGCAGCAATATCACGATCAC 59.139 47.619 0.00 0.00 0.00 3.06
1682 2131 1.529226 CCATTTGCCCTGAACGTACA 58.471 50.000 0.00 0.00 0.00 2.90
1689 2138 0.899717 GCAACTCCCATTTGCCCTGA 60.900 55.000 0.00 0.00 43.02 3.86
1738 2189 1.153289 CCTCCGAATCCACAGGCTG 60.153 63.158 14.16 14.16 0.00 4.85
1784 2235 3.552839 GCTCGCTCGCTGCTTCTG 61.553 66.667 0.00 0.00 40.11 3.02
1857 2312 1.457643 TGACAGGATAGGGGGCTCG 60.458 63.158 0.00 0.00 0.00 5.03
1858 2313 0.399233 AGTGACAGGATAGGGGGCTC 60.399 60.000 0.00 0.00 0.00 4.70
1861 2316 1.219213 AGAGAGTGACAGGATAGGGGG 59.781 57.143 0.00 0.00 0.00 5.40
1862 2317 2.697751 CAAGAGAGTGACAGGATAGGGG 59.302 54.545 0.00 0.00 0.00 4.79
1867 2332 4.523173 TCGTTTACAAGAGAGTGACAGGAT 59.477 41.667 0.00 0.00 0.00 3.24
1877 2342 1.201647 CCGCCTCTCGTTTACAAGAGA 59.798 52.381 0.00 0.00 41.28 3.10
1898 2363 2.895865 CAGGCCTGCTGCTCGATG 60.896 66.667 22.33 0.00 40.92 3.84
2007 2472 2.389386 GGCAACAACGGATATCGCA 58.611 52.632 0.00 0.00 43.89 5.10
2026 2491 0.541392 TACGATTGGGCTGTGCAGAT 59.459 50.000 3.02 0.00 0.00 2.90
2028 2493 1.695893 CGTACGATTGGGCTGTGCAG 61.696 60.000 10.44 0.00 0.00 4.41
2072 2538 2.837291 GCAGTTGCAACCCCCACA 60.837 61.111 25.62 0.00 41.59 4.17
2110 2576 7.237471 GGAGGGAGTAGGAGTAGTAGTATAACT 59.763 44.444 0.00 0.00 0.00 2.24
2111 2577 7.394016 GGAGGGAGTAGGAGTAGTAGTATAAC 58.606 46.154 0.00 0.00 0.00 1.89
2112 2578 6.212388 CGGAGGGAGTAGGAGTAGTAGTATAA 59.788 46.154 0.00 0.00 0.00 0.98
2114 2580 4.531732 CGGAGGGAGTAGGAGTAGTAGTAT 59.468 50.000 0.00 0.00 0.00 2.12
2115 2581 3.900601 CGGAGGGAGTAGGAGTAGTAGTA 59.099 52.174 0.00 0.00 0.00 1.82
2116 2582 2.705127 CGGAGGGAGTAGGAGTAGTAGT 59.295 54.545 0.00 0.00 0.00 2.73
2117 2583 2.705127 ACGGAGGGAGTAGGAGTAGTAG 59.295 54.545 0.00 0.00 0.00 2.57
2118 2584 2.769209 ACGGAGGGAGTAGGAGTAGTA 58.231 52.381 0.00 0.00 0.00 1.82
2119 2585 1.594129 ACGGAGGGAGTAGGAGTAGT 58.406 55.000 0.00 0.00 0.00 2.73
2120 2586 2.173143 AGAACGGAGGGAGTAGGAGTAG 59.827 54.545 0.00 0.00 0.00 2.57
2121 2587 2.092538 CAGAACGGAGGGAGTAGGAGTA 60.093 54.545 0.00 0.00 0.00 2.59
2122 2588 1.001282 AGAACGGAGGGAGTAGGAGT 58.999 55.000 0.00 0.00 0.00 3.85
2123 2589 1.064611 TCAGAACGGAGGGAGTAGGAG 60.065 57.143 0.00 0.00 0.00 3.69
2124 2590 0.997363 TCAGAACGGAGGGAGTAGGA 59.003 55.000 0.00 0.00 0.00 2.94
2125 2591 1.848652 TTCAGAACGGAGGGAGTAGG 58.151 55.000 0.00 0.00 0.00 3.18
2126 2592 4.645588 AGTAATTCAGAACGGAGGGAGTAG 59.354 45.833 0.00 0.00 0.00 2.57
2127 2593 4.607239 AGTAATTCAGAACGGAGGGAGTA 58.393 43.478 0.00 0.00 0.00 2.59
2128 2594 3.442076 AGTAATTCAGAACGGAGGGAGT 58.558 45.455 0.00 0.00 0.00 3.85
2129 2595 4.184629 CAAGTAATTCAGAACGGAGGGAG 58.815 47.826 0.00 0.00 0.00 4.30
2130 2596 3.581332 ACAAGTAATTCAGAACGGAGGGA 59.419 43.478 0.00 0.00 0.00 4.20
2131 2597 3.933332 GACAAGTAATTCAGAACGGAGGG 59.067 47.826 0.00 0.00 0.00 4.30
2132 2598 4.822026 AGACAAGTAATTCAGAACGGAGG 58.178 43.478 0.00 0.00 0.00 4.30
2133 2599 5.120830 CCAAGACAAGTAATTCAGAACGGAG 59.879 44.000 0.00 0.00 0.00 4.63
2134 2600 4.994852 CCAAGACAAGTAATTCAGAACGGA 59.005 41.667 0.00 0.00 0.00 4.69
2135 2601 4.994852 TCCAAGACAAGTAATTCAGAACGG 59.005 41.667 0.00 0.00 0.00 4.44
2136 2602 6.727824 ATCCAAGACAAGTAATTCAGAACG 57.272 37.500 0.00 0.00 0.00 3.95
2137 2603 8.352942 ACAAATCCAAGACAAGTAATTCAGAAC 58.647 33.333 0.00 0.00 0.00 3.01
2138 2604 8.463930 ACAAATCCAAGACAAGTAATTCAGAA 57.536 30.769 0.00 0.00 0.00 3.02
2139 2605 7.939039 AGACAAATCCAAGACAAGTAATTCAGA 59.061 33.333 0.00 0.00 0.00 3.27
2140 2606 8.103948 AGACAAATCCAAGACAAGTAATTCAG 57.896 34.615 0.00 0.00 0.00 3.02
2141 2607 9.219603 CTAGACAAATCCAAGACAAGTAATTCA 57.780 33.333 0.00 0.00 0.00 2.57
2142 2608 9.436957 TCTAGACAAATCCAAGACAAGTAATTC 57.563 33.333 0.00 0.00 0.00 2.17
2143 2609 9.965902 ATCTAGACAAATCCAAGACAAGTAATT 57.034 29.630 0.00 0.00 0.00 1.40
2145 2611 9.871238 GTATCTAGACAAATCCAAGACAAGTAA 57.129 33.333 0.00 0.00 0.00 2.24
2146 2612 8.188799 CGTATCTAGACAAATCCAAGACAAGTA 58.811 37.037 0.00 0.00 0.00 2.24
2147 2613 7.036220 CGTATCTAGACAAATCCAAGACAAGT 58.964 38.462 0.00 0.00 0.00 3.16
2148 2614 6.477033 CCGTATCTAGACAAATCCAAGACAAG 59.523 42.308 0.00 0.00 0.00 3.16
2149 2615 6.153851 TCCGTATCTAGACAAATCCAAGACAA 59.846 38.462 0.00 0.00 0.00 3.18
2150 2616 5.655090 TCCGTATCTAGACAAATCCAAGACA 59.345 40.000 0.00 0.00 0.00 3.41
2151 2617 6.145338 TCCGTATCTAGACAAATCCAAGAC 57.855 41.667 0.00 0.00 0.00 3.01
2152 2618 6.323996 ACATCCGTATCTAGACAAATCCAAGA 59.676 38.462 0.00 0.00 0.00 3.02
2153 2619 6.516718 ACATCCGTATCTAGACAAATCCAAG 58.483 40.000 0.00 0.00 0.00 3.61
2154 2620 6.479972 ACATCCGTATCTAGACAAATCCAA 57.520 37.500 0.00 0.00 0.00 3.53
2155 2621 7.776618 ATACATCCGTATCTAGACAAATCCA 57.223 36.000 0.00 0.00 32.66 3.41
2168 2634 7.594714 CAAACTAGTGCTAGATACATCCGTAT 58.405 38.462 12.65 0.00 41.16 3.06
2169 2635 6.514541 GCAAACTAGTGCTAGATACATCCGTA 60.515 42.308 12.65 0.00 41.51 4.02
2170 2636 5.736492 GCAAACTAGTGCTAGATACATCCGT 60.736 44.000 12.65 0.00 41.51 4.69
2171 2637 4.681942 GCAAACTAGTGCTAGATACATCCG 59.318 45.833 12.65 0.00 41.51 4.18
2172 2638 5.601662 TGCAAACTAGTGCTAGATACATCC 58.398 41.667 12.65 0.00 45.17 3.51
2173 2639 6.201806 CCTTGCAAACTAGTGCTAGATACATC 59.798 42.308 15.21 0.00 46.29 3.06
2174 2640 6.051717 CCTTGCAAACTAGTGCTAGATACAT 58.948 40.000 15.21 0.00 46.29 2.29
2175 2641 5.186992 TCCTTGCAAACTAGTGCTAGATACA 59.813 40.000 15.21 1.72 46.29 2.29
2176 2642 5.661458 TCCTTGCAAACTAGTGCTAGATAC 58.339 41.667 15.21 0.00 46.29 2.24
2177 2643 5.656859 TCTCCTTGCAAACTAGTGCTAGATA 59.343 40.000 15.21 5.50 46.29 1.98
2178 2644 4.467795 TCTCCTTGCAAACTAGTGCTAGAT 59.532 41.667 15.21 0.00 46.29 1.98
2179 2645 3.832490 TCTCCTTGCAAACTAGTGCTAGA 59.168 43.478 15.21 7.06 46.29 2.43
2180 2646 3.929610 GTCTCCTTGCAAACTAGTGCTAG 59.070 47.826 0.00 2.93 45.17 3.42
2181 2647 3.306780 GGTCTCCTTGCAAACTAGTGCTA 60.307 47.826 0.00 0.00 45.17 3.49
2182 2648 2.551071 GGTCTCCTTGCAAACTAGTGCT 60.551 50.000 0.00 0.00 45.17 4.40
2183 2649 1.807142 GGTCTCCTTGCAAACTAGTGC 59.193 52.381 0.00 0.00 45.15 4.40
2184 2650 2.069273 CGGTCTCCTTGCAAACTAGTG 58.931 52.381 0.00 0.00 0.00 2.74
2185 2651 1.002087 CCGGTCTCCTTGCAAACTAGT 59.998 52.381 0.00 0.00 0.00 2.57
2186 2652 1.002087 ACCGGTCTCCTTGCAAACTAG 59.998 52.381 0.00 0.00 0.00 2.57
2187 2653 1.053424 ACCGGTCTCCTTGCAAACTA 58.947 50.000 0.00 0.00 0.00 2.24
2188 2654 1.002087 CTACCGGTCTCCTTGCAAACT 59.998 52.381 12.40 0.00 0.00 2.66
2221 2687 3.138798 GGCAGGCAGGCACATCTG 61.139 66.667 0.00 0.00 43.51 2.90
2286 2756 1.078143 GCTTTGCCTCGGACCATCT 60.078 57.895 0.00 0.00 0.00 2.90
2353 2823 3.256704 TGGATGTTAACCTCTCTTGGGT 58.743 45.455 10.23 0.00 38.94 4.51


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

AutoCloner maintained by Alex Coulton.