Multiple sequence alignment - TraesCS6A01G080900

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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 TraesCS6A01G080900 chr6A 100.000 2312 0 0 1 2312 49482826 49485137 0.000000e+00 4270
1 TraesCS6A01G080900 chr6A 84.217 1584 134 46 476 2000 49196279 49197805 0.000000e+00 1434
2 TraesCS6A01G080900 chr6A 85.010 1481 118 42 833 2270 49550738 49552157 0.000000e+00 1410
3 TraesCS6A01G080900 chr6A 86.159 1091 81 34 923 1995 49499737 49500775 0.000000e+00 1114
4 TraesCS6A01G080900 chr6A 92.533 750 35 10 1 737 49497889 49498630 0.000000e+00 1055
5 TraesCS6A01G080900 chr6A 88.989 554 41 10 923 1473 49202027 49202563 0.000000e+00 667
6 TraesCS6A01G080900 chr6A 92.025 326 25 1 1987 2312 49197832 49198156 7.530000e-125 457
7 TraesCS6A01G080900 chr6A 84.348 460 43 14 1818 2270 49202918 49203355 7.640000e-115 424
8 TraesCS6A01G080900 chr6A 87.770 278 22 4 564 837 49550440 49550709 4.800000e-82 315
9 TraesCS6A01G080900 chr6A 82.036 167 12 8 327 476 49550042 49550207 2.410000e-25 126
10 TraesCS6A01G080900 chr6A 80.000 185 18 7 227 405 49195855 49196026 4.040000e-23 119
11 TraesCS6A01G080900 chr6A 90.244 82 8 0 756 837 49499535 49499616 8.730000e-20 108
12 TraesCS6A01G080900 chr6D 84.426 1464 148 35 841 2270 37933935 37935352 0.000000e+00 1367
13 TraesCS6A01G080900 chr6D 88.259 988 45 23 833 1786 37927680 37928630 0.000000e+00 1116
14 TraesCS6A01G080900 chr6D 82.442 1327 122 43 487 1749 38119352 38120631 0.000000e+00 1057
15 TraesCS6A01G080900 chr6D 83.128 729 93 19 1563 2270 37923625 37924344 2.510000e-179 638
16 TraesCS6A01G080900 chr6D 90.148 406 32 7 1 403 37932833 37933233 2.630000e-144 521
17 TraesCS6A01G080900 chr6D 88.517 418 28 11 1 405 38118679 38119089 2.670000e-134 488
18 TraesCS6A01G080900 chr6D 91.515 165 13 1 674 837 37933735 37933899 2.310000e-55 226
19 TraesCS6A01G080900 chr6D 92.308 156 12 0 682 837 37927496 37927651 2.990000e-54 222
20 TraesCS6A01G080900 chr6B 82.210 1484 140 50 495 1906 88716971 88718402 0.000000e+00 1164
21 TraesCS6A01G080900 chr6B 84.190 1050 84 38 684 1688 88735818 88736830 0.000000e+00 944
22 TraesCS6A01G080900 chr6B 82.682 895 104 28 1395 2270 88816852 88817714 0.000000e+00 747
23 TraesCS6A01G080900 chr6B 82.386 721 97 16 1564 2267 88714143 88714850 3.290000e-168 601
24 TraesCS6A01G080900 chr6B 85.743 505 40 13 1 480 88778536 88779033 2.650000e-139 505
25 TraesCS6A01G080900 chr6B 88.329 377 30 9 1349 1720 88738499 88738866 7.580000e-120 440
26 TraesCS6A01G080900 chr6B 98.058 103 2 0 2210 2312 88754961 88755063 1.830000e-41 180
27 TraesCS6A01G080900 chr7A 79.205 1183 134 53 832 1966 679004424 679003306 0.000000e+00 719
28 TraesCS6A01G080900 chr7A 91.753 97 7 1 728 823 511011968 511012064 1.440000e-27 134
29 TraesCS6A01G080900 chr2B 83.181 547 83 6 1730 2269 156918789 156918245 2.060000e-135 492
30 TraesCS6A01G080900 chr7B 81.571 624 61 27 728 1310 658268589 658267979 1.250000e-127 466
31 TraesCS6A01G080900 chr7D 80.976 615 62 23 728 1304 587150435 587149838 9.810000e-119 436
32 TraesCS6A01G080900 chr7D 78.135 654 99 26 1345 1966 587149841 587149200 2.170000e-100 375
33 TraesCS6A01G080900 chr5A 88.393 112 11 2 728 837 537368753 537368864 1.440000e-27 134
34 TraesCS6A01G080900 chr5D 88.182 110 11 2 730 837 423964406 423964515 1.860000e-26 130


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 TraesCS6A01G080900 chr6A 49482826 49485137 2311 False 4270.000000 4270 100.000000 1 2312 1 chr6A.!!$F1 2311
1 TraesCS6A01G080900 chr6A 49497889 49500775 2886 False 759.000000 1114 89.645333 1 1995 3 chr6A.!!$F3 1994
2 TraesCS6A01G080900 chr6A 49195855 49203355 7500 False 620.200000 1434 85.915800 227 2312 5 chr6A.!!$F2 2085
3 TraesCS6A01G080900 chr6A 49550042 49552157 2115 False 617.000000 1410 84.938667 327 2270 3 chr6A.!!$F4 1943
4 TraesCS6A01G080900 chr6D 38118679 38120631 1952 False 772.500000 1057 85.479500 1 1749 2 chr6D.!!$F3 1748
5 TraesCS6A01G080900 chr6D 37932833 37935352 2519 False 704.666667 1367 88.696333 1 2270 3 chr6D.!!$F2 2269
6 TraesCS6A01G080900 chr6D 37923625 37928630 5005 False 658.666667 1116 87.898333 682 2270 3 chr6D.!!$F1 1588
7 TraesCS6A01G080900 chr6B 88714143 88718402 4259 False 882.500000 1164 82.298000 495 2267 2 chr6B.!!$F4 1772
8 TraesCS6A01G080900 chr6B 88816852 88817714 862 False 747.000000 747 82.682000 1395 2270 1 chr6B.!!$F3 875
9 TraesCS6A01G080900 chr6B 88735818 88738866 3048 False 692.000000 944 86.259500 684 1720 2 chr6B.!!$F5 1036
10 TraesCS6A01G080900 chr7A 679003306 679004424 1118 True 719.000000 719 79.205000 832 1966 1 chr7A.!!$R1 1134
11 TraesCS6A01G080900 chr2B 156918245 156918789 544 True 492.000000 492 83.181000 1730 2269 1 chr2B.!!$R1 539
12 TraesCS6A01G080900 chr7B 658267979 658268589 610 True 466.000000 466 81.571000 728 1310 1 chr7B.!!$R1 582
13 TraesCS6A01G080900 chr7D 587149200 587150435 1235 True 405.500000 436 79.555500 728 1966 2 chr7D.!!$R1 1238

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
698 3892 0.970937 AGTTCGAATCTCCCTCCGCA 60.971 55.0 0.0 0.0 0.0 5.69 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1966 13574 0.251474 ACCACCAGTGCAAGCATCAT 60.251 50.0 0.0 0.0 0.0 2.45 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
601 2961 4.430007 GAAAAGAAAACCCGCAAGAAACT 58.570 39.130 0.00 0.00 43.02 2.66
613 2973 1.808945 CAAGAAACTGCAGCGAAGGAT 59.191 47.619 15.27 0.00 0.00 3.24
617 2977 1.016130 AACTGCAGCGAAGGATCACG 61.016 55.000 15.27 0.00 0.00 4.35
624 2984 1.840061 CGAAGGATCACGCGAATCG 59.160 57.895 15.93 7.76 45.38 3.34
634 2994 3.613702 GCGAATCGCGTACGTGGG 61.614 66.667 26.98 15.27 44.55 4.61
650 3022 2.267961 GGACGGCCCAACTGTAGG 59.732 66.667 0.00 0.00 38.28 3.18
696 3890 2.674796 AAAGTTCGAATCTCCCTCCG 57.325 50.000 0.00 0.00 0.00 4.63
698 3892 0.970937 AGTTCGAATCTCCCTCCGCA 60.971 55.000 0.00 0.00 0.00 5.69
823 4914 2.610232 CCGACCAAAAATGGCAGGAAAG 60.610 50.000 0.00 0.00 32.67 2.62
902 5081 2.291153 ACCTACCTCCGCTACAAGTACA 60.291 50.000 0.00 0.00 0.00 2.90
1008 5222 1.066908 CTCTTCTCCGAGATGGCAGTC 59.933 57.143 10.54 0.00 37.80 3.51
1072 5289 2.417516 CCCGTCCTCATGGCGTAG 59.582 66.667 0.00 0.00 33.31 3.51
1073 5290 2.423898 CCCGTCCTCATGGCGTAGT 61.424 63.158 0.00 0.00 33.31 2.73
1074 5291 1.105167 CCCGTCCTCATGGCGTAGTA 61.105 60.000 0.00 0.00 33.31 1.82
1159 5376 0.817634 CACCAACCTCTTCGTTGCCA 60.818 55.000 0.00 0.00 41.50 4.92
1290 5531 2.307098 ACTGAAGCCTGGCAGATACTTT 59.693 45.455 22.65 3.88 36.07 2.66
1318 5565 5.278561 CGGAAGGAGTTTAGATAGCTACCTG 60.279 48.000 0.00 0.00 0.00 4.00
1319 5566 5.510009 GGAAGGAGTTTAGATAGCTACCTGC 60.510 48.000 0.00 0.00 43.29 4.85
1320 5567 3.898741 AGGAGTTTAGATAGCTACCTGCC 59.101 47.826 0.00 0.00 44.23 4.85
1321 5568 3.898741 GGAGTTTAGATAGCTACCTGCCT 59.101 47.826 0.00 0.00 44.23 4.75
1322 5569 5.078256 GGAGTTTAGATAGCTACCTGCCTA 58.922 45.833 0.00 0.00 44.23 3.93
1323 5570 5.047872 GGAGTTTAGATAGCTACCTGCCTAC 60.048 48.000 0.00 0.00 44.23 3.18
1325 5572 1.912417 AGATAGCTACCTGCCTACCG 58.088 55.000 0.00 0.00 44.23 4.02
1326 5573 1.424302 AGATAGCTACCTGCCTACCGA 59.576 52.381 0.00 0.00 44.23 4.69
1327 5574 2.041891 AGATAGCTACCTGCCTACCGAT 59.958 50.000 0.00 0.00 44.23 4.18
1329 5576 1.041437 AGCTACCTGCCTACCGATTC 58.959 55.000 0.00 0.00 44.23 2.52
1330 5577 0.318784 GCTACCTGCCTACCGATTCG 60.319 60.000 0.00 0.00 35.15 3.34
1331 5578 1.315690 CTACCTGCCTACCGATTCGA 58.684 55.000 7.83 0.00 0.00 3.71
1333 5580 0.460311 ACCTGCCTACCGATTCGAAG 59.540 55.000 7.83 4.63 0.00 3.79
1334 5581 0.460311 CCTGCCTACCGATTCGAAGT 59.540 55.000 7.83 0.00 0.00 3.01
1335 5582 1.560923 CTGCCTACCGATTCGAAGTG 58.439 55.000 7.83 0.00 0.00 3.16
1336 5583 0.174845 TGCCTACCGATTCGAAGTGG 59.825 55.000 14.97 14.97 0.00 4.00
1337 5584 0.458669 GCCTACCGATTCGAAGTGGA 59.541 55.000 21.51 7.59 0.00 4.02
1338 5585 1.068741 GCCTACCGATTCGAAGTGGAT 59.931 52.381 21.51 10.59 0.00 3.41
1339 5586 2.483188 GCCTACCGATTCGAAGTGGATT 60.483 50.000 21.51 6.23 0.00 3.01
1340 5587 3.243636 GCCTACCGATTCGAAGTGGATTA 60.244 47.826 21.51 6.94 0.00 1.75
1341 5588 4.560919 GCCTACCGATTCGAAGTGGATTAT 60.561 45.833 21.51 5.32 0.00 1.28
1342 5589 5.336213 GCCTACCGATTCGAAGTGGATTATA 60.336 44.000 21.51 6.07 0.00 0.98
1343 5590 6.091437 CCTACCGATTCGAAGTGGATTATAC 58.909 44.000 21.51 0.00 0.00 1.47
1344 5591 4.543692 ACCGATTCGAAGTGGATTATACG 58.456 43.478 21.51 6.74 0.00 3.06
1345 5592 4.276678 ACCGATTCGAAGTGGATTATACGA 59.723 41.667 21.51 0.00 0.00 3.43
1346 5593 4.852104 CCGATTCGAAGTGGATTATACGAG 59.148 45.833 7.83 0.00 0.00 4.18
1550 7826 1.748493 GGACTCGACATCTGCTTCTCT 59.252 52.381 0.00 0.00 0.00 3.10
1551 7827 2.479389 GGACTCGACATCTGCTTCTCTG 60.479 54.545 0.00 0.00 0.00 3.35
1557 7840 2.931325 GACATCTGCTTCTCTGCTTCTG 59.069 50.000 0.00 0.00 0.00 3.02
1559 7842 2.452295 TCTGCTTCTCTGCTTCTGTG 57.548 50.000 0.00 0.00 0.00 3.66
1561 7844 0.761187 TGCTTCTCTGCTTCTGTGGT 59.239 50.000 0.00 0.00 0.00 4.16
1615 7900 9.500785 TTGTCATGTCTTGTGTATTAGAATTCA 57.499 29.630 8.44 0.00 0.00 2.57
1719 8012 7.148440 GGCATATGCACAAGCTTTTGATTAAAA 60.148 33.333 28.07 0.00 44.36 1.52
1720 8013 8.229137 GCATATGCACAAGCTTTTGATTAAAAA 58.771 29.630 22.84 0.00 42.74 1.94
1849 13456 5.293814 CCACTCTTCTGCAATCTCTGTATTG 59.706 44.000 0.00 0.00 39.41 1.90
1924 13532 2.358737 CCCTGACAACCGTGCTCC 60.359 66.667 0.00 0.00 0.00 4.70
1966 13574 8.740906 GGATATCAAGATTGACCGAGTCTATAA 58.259 37.037 4.83 0.00 40.49 0.98
1971 13579 8.084684 TCAAGATTGACCGAGTCTATAATGATG 58.915 37.037 5.77 0.00 33.15 3.07
2000 13608 5.010719 CACTGGTGGTAAGACTGAAGACTTA 59.989 44.000 0.00 0.00 32.71 2.24
2023 13631 0.039708 GCTGCTGCAAAGGTGTTCTC 60.040 55.000 11.11 0.00 39.41 2.87
2067 13677 6.686484 AACCTATCATCATGTAGCATGGTA 57.314 37.500 0.00 0.00 0.00 3.25
2068 13678 6.291648 ACCTATCATCATGTAGCATGGTAG 57.708 41.667 4.51 5.73 34.62 3.18
2073 13683 9.958234 CTATCATCATGTAGCATGGTAGTATAC 57.042 37.037 4.51 0.00 42.04 1.47
2086 13696 8.314751 GCATGGTAGTATACAGTCAGGATTATT 58.685 37.037 5.50 0.00 45.43 1.40
2116 13726 7.593875 TTTTTATGCATTTTGCCATACACTC 57.406 32.000 3.54 0.00 44.23 3.51
2118 13728 3.574284 TGCATTTTGCCATACACTCAC 57.426 42.857 0.00 0.00 44.23 3.51
2148 13764 4.545823 TTTTGAAACTTGCAGAGTACGG 57.454 40.909 2.60 0.00 37.72 4.02
2155 13771 4.803098 ACTTGCAGAGTACGGTTATTCT 57.197 40.909 0.44 0.00 36.65 2.40
2162 13778 5.690857 GCAGAGTACGGTTATTCTAATGGTC 59.309 44.000 0.00 0.00 0.00 4.02
2177 13795 9.905713 ATTCTAATGGTCTTGTACATGTATTGT 57.094 29.630 9.18 0.00 42.62 2.71
2178 13796 9.733556 TTCTAATGGTCTTGTACATGTATTGTT 57.266 29.630 9.18 0.00 39.87 2.83
2179 13797 9.733556 TCTAATGGTCTTGTACATGTATTGTTT 57.266 29.630 9.18 0.00 39.87 2.83
2184 13808 8.132362 TGGTCTTGTACATGTATTGTTTTTGTC 58.868 33.333 9.18 0.00 39.87 3.18
2209 13833 7.234782 TCAGTTTCTTATGTTGTCTTCCCTCTA 59.765 37.037 0.00 0.00 0.00 2.43
2226 13851 9.627395 CTTCCCTCTACATACTATGAATTAACG 57.373 37.037 2.90 0.00 0.00 3.18
2228 13853 6.812160 CCCTCTACATACTATGAATTAACGGC 59.188 42.308 2.90 0.00 0.00 5.68
2260 13885 9.059260 TGTTAAAATAGGAAGTGTTGTAGGTTC 57.941 33.333 0.00 0.00 0.00 3.62
2270 13895 7.117956 GGAAGTGTTGTAGGTTCTCTGTAATTC 59.882 40.741 0.00 0.00 0.00 2.17
2271 13896 7.062749 AGTGTTGTAGGTTCTCTGTAATTCA 57.937 36.000 0.00 0.00 0.00 2.57
2272 13897 6.929606 AGTGTTGTAGGTTCTCTGTAATTCAC 59.070 38.462 0.00 0.00 0.00 3.18
2273 13898 6.929606 GTGTTGTAGGTTCTCTGTAATTCACT 59.070 38.462 0.00 0.00 0.00 3.41
2274 13899 7.116519 GTGTTGTAGGTTCTCTGTAATTCACTC 59.883 40.741 0.00 0.00 0.00 3.51
2275 13900 7.015292 TGTTGTAGGTTCTCTGTAATTCACTCT 59.985 37.037 0.00 0.00 0.00 3.24
2276 13901 8.521176 GTTGTAGGTTCTCTGTAATTCACTCTA 58.479 37.037 0.00 0.00 0.00 2.43
2277 13902 8.824756 TGTAGGTTCTCTGTAATTCACTCTAT 57.175 34.615 0.00 0.00 0.00 1.98
2278 13903 8.687242 TGTAGGTTCTCTGTAATTCACTCTATG 58.313 37.037 0.00 0.00 0.00 2.23
2279 13904 6.578023 AGGTTCTCTGTAATTCACTCTATGC 58.422 40.000 0.00 0.00 0.00 3.14
2280 13905 6.155221 AGGTTCTCTGTAATTCACTCTATGCA 59.845 38.462 0.00 0.00 0.00 3.96
2281 13906 6.818644 GGTTCTCTGTAATTCACTCTATGCAA 59.181 38.462 0.00 0.00 0.00 4.08
2282 13907 7.334421 GGTTCTCTGTAATTCACTCTATGCAAA 59.666 37.037 0.00 0.00 0.00 3.68
2283 13908 8.721478 GTTCTCTGTAATTCACTCTATGCAAAA 58.279 33.333 0.00 0.00 0.00 2.44
2284 13909 8.484641 TCTCTGTAATTCACTCTATGCAAAAG 57.515 34.615 0.00 0.00 0.00 2.27
2285 13910 7.065085 TCTCTGTAATTCACTCTATGCAAAAGC 59.935 37.037 0.00 0.00 0.00 3.51
2286 13911 6.654582 TCTGTAATTCACTCTATGCAAAAGCA 59.345 34.615 0.00 0.00 0.00 3.91
2287 13912 7.337689 TCTGTAATTCACTCTATGCAAAAGCAT 59.662 33.333 8.14 8.14 0.00 3.79
2288 13913 7.475015 TGTAATTCACTCTATGCAAAAGCATC 58.525 34.615 6.19 0.00 0.00 3.91
2289 13914 6.770746 AATTCACTCTATGCAAAAGCATCT 57.229 33.333 6.19 0.00 0.00 2.90
2290 13915 6.770746 ATTCACTCTATGCAAAAGCATCTT 57.229 33.333 6.19 0.00 0.00 2.40
2291 13916 5.556355 TCACTCTATGCAAAAGCATCTTG 57.444 39.130 6.19 1.38 0.00 3.02
2292 13917 4.397103 TCACTCTATGCAAAAGCATCTTGG 59.603 41.667 6.19 0.00 0.00 3.61
2293 13918 3.698040 ACTCTATGCAAAAGCATCTTGGG 59.302 43.478 6.19 1.95 0.00 4.12
2294 13919 3.698040 CTCTATGCAAAAGCATCTTGGGT 59.302 43.478 6.19 0.00 0.00 4.51
2295 13920 3.696051 TCTATGCAAAAGCATCTTGGGTC 59.304 43.478 6.19 0.00 0.00 4.46
2296 13921 1.702182 TGCAAAAGCATCTTGGGTCA 58.298 45.000 0.00 0.00 0.00 4.02
2297 13922 2.250031 TGCAAAAGCATCTTGGGTCAT 58.750 42.857 0.00 0.00 0.00 3.06
2298 13923 2.231964 TGCAAAAGCATCTTGGGTCATC 59.768 45.455 0.00 0.00 0.00 2.92
2299 13924 2.417787 GCAAAAGCATCTTGGGTCATCC 60.418 50.000 0.00 0.00 0.00 3.51
2300 13925 3.094572 CAAAAGCATCTTGGGTCATCCT 58.905 45.455 0.00 0.00 36.20 3.24
2301 13926 4.272489 CAAAAGCATCTTGGGTCATCCTA 58.728 43.478 0.00 0.00 36.20 2.94
2302 13927 4.803329 AAAGCATCTTGGGTCATCCTAT 57.197 40.909 0.00 0.00 36.20 2.57
2303 13928 4.803329 AAGCATCTTGGGTCATCCTATT 57.197 40.909 0.00 0.00 36.20 1.73
2304 13929 4.363991 AGCATCTTGGGTCATCCTATTC 57.636 45.455 0.00 0.00 36.20 1.75
2305 13930 3.073650 AGCATCTTGGGTCATCCTATTCC 59.926 47.826 0.00 0.00 36.20 3.01
2306 13931 3.073650 GCATCTTGGGTCATCCTATTCCT 59.926 47.826 0.00 0.00 36.20 3.36
2307 13932 4.649692 CATCTTGGGTCATCCTATTCCTG 58.350 47.826 0.00 0.00 36.20 3.86
2308 13933 3.736094 TCTTGGGTCATCCTATTCCTGT 58.264 45.455 0.00 0.00 36.20 4.00
2309 13934 4.890988 TCTTGGGTCATCCTATTCCTGTA 58.109 43.478 0.00 0.00 36.20 2.74
2310 13935 4.901849 TCTTGGGTCATCCTATTCCTGTAG 59.098 45.833 0.00 0.00 36.20 2.74
2311 13936 4.280789 TGGGTCATCCTATTCCTGTAGT 57.719 45.455 0.00 0.00 36.20 2.73
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
105 109 1.758862 CCCCTAAACTCGTCCCGTAAT 59.241 52.381 0.00 0.00 0.00 1.89
578 2938 3.446310 TTCTTGCGGGTTTTCTTTTCC 57.554 42.857 0.00 0.00 0.00 3.13
621 2981 4.183686 CCGTCCCACGTACGCGAT 62.184 66.667 15.93 0.00 40.58 4.58
633 2993 1.623542 ATCCTACAGTTGGGCCGTCC 61.624 60.000 0.00 0.00 0.00 4.79
634 2994 0.252197 AATCCTACAGTTGGGCCGTC 59.748 55.000 0.00 0.00 0.00 4.79
650 3022 1.133025 CTGATTTCACACGGGCCAATC 59.867 52.381 4.39 3.75 0.00 2.67
753 3957 5.292101 TGAAAATTTTCGCGAAATGTTTGGT 59.708 32.000 31.23 22.09 35.71 3.67
829 4920 0.887387 TTTGAGTTTTCGGCGGAGGG 60.887 55.000 7.21 0.00 0.00 4.30
970 5178 3.003173 AAGAGGTGCCTGCCGCTA 61.003 61.111 0.00 0.00 37.70 4.26
1072 5289 2.202810 GCAGCTCCTGACGGCTAC 60.203 66.667 0.00 0.00 37.00 3.58
1073 5290 2.230994 CTTGCAGCTCCTGACGGCTA 62.231 60.000 0.00 0.00 37.00 3.93
1074 5291 3.602513 CTTGCAGCTCCTGACGGCT 62.603 63.158 0.00 0.00 39.60 5.52
1318 5565 0.458669 TCCACTTCGAATCGGTAGGC 59.541 55.000 1.76 0.00 0.00 3.93
1319 5566 3.454371 AATCCACTTCGAATCGGTAGG 57.546 47.619 1.76 0.44 0.00 3.18
1320 5567 5.793952 CGTATAATCCACTTCGAATCGGTAG 59.206 44.000 1.76 3.51 0.00 3.18
1321 5568 5.469760 TCGTATAATCCACTTCGAATCGGTA 59.530 40.000 1.76 0.91 0.00 4.02
1322 5569 4.276678 TCGTATAATCCACTTCGAATCGGT 59.723 41.667 1.76 0.00 0.00 4.69
1323 5570 4.790878 TCGTATAATCCACTTCGAATCGG 58.209 43.478 1.76 2.11 0.00 4.18
1325 5572 7.583230 AGTACTCGTATAATCCACTTCGAATC 58.417 38.462 0.00 0.00 0.00 2.52
1326 5573 7.507733 AGTACTCGTATAATCCACTTCGAAT 57.492 36.000 0.00 0.00 0.00 3.34
1327 5574 6.932356 AGTACTCGTATAATCCACTTCGAA 57.068 37.500 0.00 0.00 0.00 3.71
1329 5576 6.957150 AGAAGTACTCGTATAATCCACTTCG 58.043 40.000 0.00 0.00 43.14 3.79
1344 5591 6.214191 TGGACAATGAGATGAGAAGTACTC 57.786 41.667 0.00 0.00 45.11 2.59
1345 5592 6.611613 TTGGACAATGAGATGAGAAGTACT 57.388 37.500 0.00 0.00 0.00 2.73
1346 5593 7.856145 AATTGGACAATGAGATGAGAAGTAC 57.144 36.000 0.00 0.00 0.00 2.73
1550 7826 1.872952 CGAATGTCAACCACAGAAGCA 59.127 47.619 0.00 0.00 38.85 3.91
1551 7827 1.400242 GCGAATGTCAACCACAGAAGC 60.400 52.381 0.00 0.00 38.85 3.86
1557 7840 6.081536 CAATATTTTGCGAATGTCAACCAC 57.918 37.500 0.00 0.00 0.00 4.16
1879 13486 2.223735 GGCTGCACATTCATGGAGATTG 60.224 50.000 0.50 0.00 40.28 2.67
1924 13532 4.820173 TGATATCCTTGCATTCTCTTGCTG 59.180 41.667 0.00 0.00 43.18 4.41
1944 13552 8.183104 TCATTATAGACTCGGTCAATCTTGAT 57.817 34.615 6.78 0.00 39.73 2.57
1966 13574 0.251474 ACCACCAGTGCAAGCATCAT 60.251 50.000 0.00 0.00 0.00 2.45
1971 13579 0.875059 GTCTTACCACCAGTGCAAGC 59.125 55.000 0.00 0.00 0.00 4.01
2116 13726 4.144051 GCAAGTTTCAAAATACGACACGTG 59.856 41.667 15.48 15.48 41.39 4.49
2118 13728 4.275662 TGCAAGTTTCAAAATACGACACG 58.724 39.130 0.00 0.00 0.00 4.49
2162 13778 9.515020 AACTGACAAAAACAATACATGTACAAG 57.485 29.630 7.96 0.00 42.99 3.16
2174 13792 9.134734 GACAACATAAGAAACTGACAAAAACAA 57.865 29.630 0.00 0.00 0.00 2.83
2175 13793 8.519526 AGACAACATAAGAAACTGACAAAAACA 58.480 29.630 0.00 0.00 0.00 2.83
2176 13794 8.911247 AGACAACATAAGAAACTGACAAAAAC 57.089 30.769 0.00 0.00 0.00 2.43
2177 13795 9.567848 GAAGACAACATAAGAAACTGACAAAAA 57.432 29.630 0.00 0.00 0.00 1.94
2178 13796 8.188139 GGAAGACAACATAAGAAACTGACAAAA 58.812 33.333 0.00 0.00 0.00 2.44
2179 13797 7.201785 GGGAAGACAACATAAGAAACTGACAAA 60.202 37.037 0.00 0.00 0.00 2.83
2184 13808 6.234177 AGAGGGAAGACAACATAAGAAACTG 58.766 40.000 0.00 0.00 0.00 3.16
2209 13833 4.373527 TGCGCCGTTAATTCATAGTATGT 58.626 39.130 4.18 0.00 0.00 2.29
2226 13851 4.082949 ACTTCCTATTTTAACAACTGCGCC 60.083 41.667 4.18 0.00 0.00 6.53
2228 13853 5.997385 ACACTTCCTATTTTAACAACTGCG 58.003 37.500 0.00 0.00 0.00 5.18
2260 13885 7.185453 GCTTTTGCATAGAGTGAATTACAGAG 58.815 38.462 0.00 0.00 46.58 3.35
2278 13903 2.417787 GGATGACCCAAGATGCTTTTGC 60.418 50.000 0.00 0.00 39.57 3.68
2279 13904 3.094572 AGGATGACCCAAGATGCTTTTG 58.905 45.455 0.00 0.00 37.41 2.44
2280 13905 3.463048 AGGATGACCCAAGATGCTTTT 57.537 42.857 0.00 0.00 37.41 2.27
2281 13906 4.803329 ATAGGATGACCCAAGATGCTTT 57.197 40.909 0.00 0.00 37.41 3.51
2282 13907 4.446889 GGAATAGGATGACCCAAGATGCTT 60.447 45.833 0.00 0.00 37.41 3.91
2283 13908 3.073650 GGAATAGGATGACCCAAGATGCT 59.926 47.826 0.00 0.00 37.41 3.79
2284 13909 3.073650 AGGAATAGGATGACCCAAGATGC 59.926 47.826 0.00 0.00 37.41 3.91
2285 13910 4.103785 ACAGGAATAGGATGACCCAAGATG 59.896 45.833 0.00 0.00 37.41 2.90
2286 13911 4.310740 ACAGGAATAGGATGACCCAAGAT 58.689 43.478 0.00 0.00 37.41 2.40
2287 13912 3.736094 ACAGGAATAGGATGACCCAAGA 58.264 45.455 0.00 0.00 37.41 3.02
2288 13913 4.656112 ACTACAGGAATAGGATGACCCAAG 59.344 45.833 0.00 0.00 37.41 3.61
2289 13914 4.631234 ACTACAGGAATAGGATGACCCAA 58.369 43.478 0.00 0.00 37.41 4.12
2290 13915 4.280789 ACTACAGGAATAGGATGACCCA 57.719 45.455 0.00 0.00 37.41 4.51


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

AutoCloner maintained by Alex Coulton.