Multiple sequence alignment - TraesCS7D01G238100

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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 TraesCS7D01G238100 chr7D 100.000 4844 0 0 499 5342 203360583 203365426 0.000000e+00 8946.0
1 TraesCS7D01G238100 chr7D 100.000 234 0 0 1 234 203360085 203360318 2.960000e-117 433.0
2 TraesCS7D01G238100 chr7B 96.519 2959 78 13 1424 4367 166989213 166992161 0.000000e+00 4870.0
3 TraesCS7D01G238100 chr7B 94.314 897 31 11 499 1394 166988337 166989214 0.000000e+00 1356.0
4 TraesCS7D01G238100 chr7B 87.300 1000 81 13 4364 5341 166992450 166993425 0.000000e+00 1101.0
5 TraesCS7D01G238100 chr7B 86.188 543 53 15 4817 5342 66876174 66876711 7.760000e-158 568.0
6 TraesCS7D01G238100 chr7B 94.787 211 8 2 25 234 166987726 166987934 5.160000e-85 326.0
7 TraesCS7D01G238100 chr7B 93.023 43 2 1 876 917 186819196 186819154 1.610000e-05 62.1
8 TraesCS7D01G238100 chr7A 94.175 2781 129 14 499 3269 215184882 215187639 0.000000e+00 4207.0
9 TraesCS7D01G238100 chr7A 91.967 1556 84 13 3275 4805 215187975 215189514 0.000000e+00 2143.0
10 TraesCS7D01G238100 chr7A 89.540 239 24 1 4874 5112 612431207 612430970 8.690000e-78 302.0
11 TraesCS7D01G238100 chr3D 87.703 553 54 6 4803 5342 108574165 108574716 2.710000e-177 632.0
12 TraesCS7D01G238100 chr3B 87.545 554 53 8 4804 5342 160148942 160149494 1.260000e-175 627.0
13 TraesCS7D01G238100 chr2D 85.045 555 65 10 4803 5342 378153186 378153737 2.810000e-152 549.0
14 TraesCS7D01G238100 chr2D 100.000 29 0 0 881 909 578682869 578682897 3.000000e-03 54.7
15 TraesCS7D01G238100 chr4B 84.492 561 65 13 4799 5342 189994251 189994806 7.880000e-148 534.0
16 TraesCS7D01G238100 chr4B 86.301 292 26 6 5064 5342 516477472 516477182 6.720000e-79 305.0
17 TraesCS7D01G238100 chr4B 76.056 142 22 8 802 934 9521618 9521756 4.470000e-06 63.9
18 TraesCS7D01G238100 chr2A 83.401 494 63 11 4864 5342 104391914 104391425 1.770000e-119 440.0
19 TraesCS7D01G238100 chr6D 86.139 303 29 6 5053 5342 15445634 15445332 1.120000e-81 315.0
20 TraesCS7D01G238100 chr6B 85.621 306 31 5 5050 5342 27322172 27321867 5.200000e-80 309.0
21 TraesCS7D01G238100 chr6B 90.566 53 4 1 3991 4043 100933080 100933131 9.600000e-08 69.4
22 TraesCS7D01G238100 chr6B 90.566 53 4 1 3991 4043 597987136 597987187 9.600000e-08 69.4
23 TraesCS7D01G238100 chr6A 83.660 306 37 5 5050 5342 16134719 16134414 5.270000e-70 276.0
24 TraesCS7D01G238100 chrUn 80.791 177 24 10 741 913 282486754 282486924 4.340000e-26 130.0
25 TraesCS7D01G238100 chrUn 80.791 177 24 10 741 913 307152954 307153124 4.340000e-26 130.0
26 TraesCS7D01G238100 chr5B 90.566 53 4 1 3991 4043 590084622 590084571 9.600000e-08 69.4
27 TraesCS7D01G238100 chr5B 90.566 53 4 1 3991 4043 673376041 673375990 9.600000e-08 69.4
28 TraesCS7D01G238100 chr3A 90.566 53 4 1 3991 4043 70971924 70971975 9.600000e-08 69.4
29 TraesCS7D01G238100 chr1B 86.667 60 5 3 876 932 488397431 488397372 4.470000e-06 63.9
30 TraesCS7D01G238100 chr5A 89.362 47 3 1 885 929 662054053 662054099 2.080000e-04 58.4


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 TraesCS7D01G238100 chr7D 203360085 203365426 5341 False 4689.50 8946 100.000 1 5342 2 chr7D.!!$F1 5341
1 TraesCS7D01G238100 chr7B 166987726 166993425 5699 False 1913.25 4870 93.230 25 5341 4 chr7B.!!$F2 5316
2 TraesCS7D01G238100 chr7B 66876174 66876711 537 False 568.00 568 86.188 4817 5342 1 chr7B.!!$F1 525
3 TraesCS7D01G238100 chr7A 215184882 215189514 4632 False 3175.00 4207 93.071 499 4805 2 chr7A.!!$F1 4306
4 TraesCS7D01G238100 chr3D 108574165 108574716 551 False 632.00 632 87.703 4803 5342 1 chr3D.!!$F1 539
5 TraesCS7D01G238100 chr3B 160148942 160149494 552 False 627.00 627 87.545 4804 5342 1 chr3B.!!$F1 538
6 TraesCS7D01G238100 chr2D 378153186 378153737 551 False 549.00 549 85.045 4803 5342 1 chr2D.!!$F1 539
7 TraesCS7D01G238100 chr4B 189994251 189994806 555 False 534.00 534 84.492 4799 5342 1 chr4B.!!$F2 543

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
569 709 1.689813 TGTCCTCGCAAACAAGACCTA 59.310 47.619 0.00 0.0 0.00 3.08 F
1598 1756 0.034670 AGATTCCAGGGCTGCAGTTC 60.035 55.000 16.64 8.1 0.00 3.01 F
3106 3269 0.031994 GCAGTGGTTCCGTGCATTTT 59.968 50.000 10.01 0.0 37.16 1.82 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1880 2038 2.105821 AGATCACCACGGAAAACCTCAA 59.894 45.455 0.0 0.0 0.00 3.02 R
3443 3937 0.884704 CAACCAGAACACCGTCAGGG 60.885 60.000 0.0 0.0 43.47 4.45 R
4975 5796 1.070289 GGCCGTATACCCCTCTGAAAG 59.930 57.143 0.0 0.0 0.00 2.62 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
35 36 4.566545 TTTTTCGTGTAGGTGACGACTA 57.433 40.909 0.00 0.00 45.11 2.59
166 168 8.633075 ACAAATGACAACAACATAAGTGAAAG 57.367 30.769 0.00 0.00 0.00 2.62
219 221 6.484288 AGACAAAGATGTATCCCAATGTTCA 58.516 36.000 0.00 0.00 40.74 3.18
220 222 6.375455 AGACAAAGATGTATCCCAATGTTCAC 59.625 38.462 0.00 0.00 40.74 3.18
227 229 6.573664 TGTATCCCAATGTTCACTTCTTTG 57.426 37.500 0.00 0.00 0.00 2.77
569 709 1.689813 TGTCCTCGCAAACAAGACCTA 59.310 47.619 0.00 0.00 0.00 3.08
582 722 3.256136 ACAAGACCTAGACTTTCCAGACG 59.744 47.826 0.00 0.00 0.00 4.18
677 817 2.126189 GGACTCGACCCGTTTCCG 60.126 66.667 0.00 0.00 0.00 4.30
854 1007 8.049655 TCTATTCAATACGAGATCTGATCTGG 57.950 38.462 24.04 23.46 40.38 3.86
1170 1328 1.072666 CGGCTCAAATTTGCGGCTTC 61.073 55.000 26.06 14.00 36.45 3.86
1410 1568 3.194861 TCGATTCCTAGTTCAATTGGCG 58.805 45.455 5.42 0.00 0.00 5.69
1411 1569 2.936498 CGATTCCTAGTTCAATTGGCGT 59.064 45.455 5.42 0.00 0.00 5.68
1485 1643 6.644775 GCTTGAGCTCAACGATTAATCTTAG 58.355 40.000 25.16 11.54 38.21 2.18
1598 1756 0.034670 AGATTCCAGGGCTGCAGTTC 60.035 55.000 16.64 8.10 0.00 3.01
1877 2035 2.918712 ACTCTGTGTTCCTGTTCAGG 57.081 50.000 12.20 12.20 0.00 3.86
1880 2038 3.054361 ACTCTGTGTTCCTGTTCAGGTTT 60.054 43.478 17.00 0.00 0.00 3.27
1910 2068 0.376152 CGTGGTGATCTTGATGCAGC 59.624 55.000 0.00 0.00 0.00 5.25
2032 2190 7.247929 GTAGCTTCTGGTACCATATTTTCAC 57.752 40.000 16.75 5.04 40.24 3.18
2093 2251 9.294030 GTTTTCAGACATGCTATTTGAAATAGG 57.706 33.333 22.36 11.19 37.53 2.57
2160 2318 2.632996 TGTAGTCCTGCACAAGCTAGTT 59.367 45.455 0.00 0.00 42.74 2.24
2264 2422 9.474313 TTGTTCCTATGAAAATTAGCCACTAAT 57.526 29.630 0.00 0.00 38.17 1.73
2409 2567 8.840321 CCTTGTATCTCTTTAACATATGGTTGG 58.160 37.037 7.80 0.00 40.73 3.77
2589 2747 1.554160 CCACTGACCTCTGAGAAGCAT 59.446 52.381 6.17 0.00 0.00 3.79
2627 2785 1.308069 GGACATGTTGCTCCATGCGT 61.308 55.000 13.80 0.00 44.88 5.24
2674 2832 8.816144 GTGTTTGATTGAACTTGCATTTTTCTA 58.184 29.630 0.00 0.00 0.00 2.10
2811 2971 0.754957 TGGTTGCTGGTGGGTTTCAG 60.755 55.000 0.00 0.00 0.00 3.02
3106 3269 0.031994 GCAGTGGTTCCGTGCATTTT 59.968 50.000 10.01 0.00 37.16 1.82
3437 3931 4.021544 GGTAAAATCATTGCTGTTGTGGGA 60.022 41.667 0.00 0.00 0.00 4.37
3469 3963 2.002586 CGGTGTTCTGGTTGATGCTAG 58.997 52.381 0.00 0.00 0.00 3.42
3605 4101 5.184864 TGGTCATTTGGATTATTCGTTTGCT 59.815 36.000 0.00 0.00 0.00 3.91
3698 4194 2.299297 CCGTAACCTCTCCAAGTCTGTT 59.701 50.000 0.00 0.00 0.00 3.16
3764 4260 1.338200 ACATCTGACGGCAAGTTCCTC 60.338 52.381 0.00 0.00 0.00 3.71
3803 4299 4.691175 CAGACTTCATCCACATCTTCGAT 58.309 43.478 0.00 0.00 0.00 3.59
3845 4341 3.151461 GCAGGAGCTGGACTTCTTC 57.849 57.895 0.00 0.00 28.33 2.87
3852 4348 0.390472 GCTGGACTTCTTCGGTGAGG 60.390 60.000 0.00 0.00 0.00 3.86
3902 4398 0.320247 AGGCTCTCTTTGTCAGCGTG 60.320 55.000 0.00 0.00 33.66 5.34
4199 4696 4.430007 TGTAAGCCAGCAATAGTCTAACG 58.570 43.478 0.00 0.00 0.00 3.18
4234 4731 2.611225 ATCTTGCTCCCGATCAGTTC 57.389 50.000 0.00 0.00 0.00 3.01
4258 4762 3.365820 CGTTTACCGAAGAGCAAATACGT 59.634 43.478 0.00 0.00 39.56 3.57
4262 4766 3.518590 ACCGAAGAGCAAATACGTTAGG 58.481 45.455 0.00 0.00 0.00 2.69
4277 4781 2.827921 CGTTAGGTAGGGTACAACAGGT 59.172 50.000 0.00 0.00 0.00 4.00
4342 4846 6.750039 ACGAAAAGGACATGTAAAAGTGTTTG 59.250 34.615 0.00 0.00 0.00 2.93
4345 4849 4.215109 AGGACATGTAAAAGTGTTTGGCT 58.785 39.130 0.00 0.00 0.00 4.75
4346 4850 4.278419 AGGACATGTAAAAGTGTTTGGCTC 59.722 41.667 0.00 0.00 0.00 4.70
4387 5183 1.955778 TGTGACCATGGTGCAAGAAAG 59.044 47.619 25.52 0.00 0.00 2.62
4388 5184 1.956477 GTGACCATGGTGCAAGAAAGT 59.044 47.619 25.52 0.00 0.00 2.66
4398 5197 3.367395 GGTGCAAGAAAGTAATGAAGGGC 60.367 47.826 0.00 0.00 0.00 5.19
4471 5278 9.267096 GAATACGAATCAAGAAAATGAGTGAAC 57.733 33.333 0.00 0.00 31.76 3.18
4477 5284 7.905604 ATCAAGAAAATGAGTGAACGATACA 57.094 32.000 0.00 0.00 31.76 2.29
4494 5301 1.609208 ACAGCCAATGAAGCGAAAGT 58.391 45.000 0.00 0.00 34.64 2.66
4504 5311 6.317088 CAATGAAGCGAAAGTACATGTCATT 58.683 36.000 0.00 0.00 35.43 2.57
4525 5332 7.325338 GTCATTGAAAGTGACTTGTGATTGATG 59.675 37.037 0.00 0.00 42.04 3.07
4548 5355 1.215014 ACGCGCATGTCGTCATATGG 61.215 55.000 5.73 0.00 41.07 2.74
4549 5356 1.215014 CGCGCATGTCGTCATATGGT 61.215 55.000 8.75 0.00 41.07 3.55
4550 5357 0.508641 GCGCATGTCGTCATATGGTC 59.491 55.000 0.30 0.00 41.07 4.02
4551 5358 1.139989 CGCATGTCGTCATATGGTCC 58.860 55.000 2.13 0.00 32.47 4.46
4552 5359 1.537990 CGCATGTCGTCATATGGTCCA 60.538 52.381 2.13 0.00 32.47 4.02
4553 5360 2.560504 GCATGTCGTCATATGGTCCAA 58.439 47.619 2.13 0.00 32.47 3.53
4554 5361 2.545526 GCATGTCGTCATATGGTCCAAG 59.454 50.000 2.13 0.00 32.47 3.61
4667 5479 4.148838 TCAAATTTGAACCGATGACCCTT 58.851 39.130 18.45 0.00 33.55 3.95
4688 5500 3.402110 TGCATTACGGATATGCCTCTTG 58.598 45.455 13.66 0.00 46.05 3.02
4710 5531 7.491048 TCTTGCTTGGTTTGTATTTTCTTGTTC 59.509 33.333 0.00 0.00 0.00 3.18
4714 5535 4.038162 TGGTTTGTATTTTCTTGTTCGGGG 59.962 41.667 0.00 0.00 0.00 5.73
4715 5536 3.926821 TTGTATTTTCTTGTTCGGGGC 57.073 42.857 0.00 0.00 0.00 5.80
4748 5569 7.651027 TCATGATTCTCATCTCTACAACTCA 57.349 36.000 0.00 0.00 34.28 3.41
4759 5580 5.199723 TCTCTACAACTCATGCTCAGAGAT 58.800 41.667 0.00 0.00 37.10 2.75
4786 5607 4.457466 TCAGAGTGGGAAAGTTAACCAAC 58.543 43.478 0.88 0.12 35.77 3.77
4797 5618 2.441750 AGTTAACCAACTTCTCCTGCCA 59.558 45.455 0.88 0.00 42.51 4.92
4968 5789 4.962362 TCTATGTTACAGGAAGAGGATGCA 59.038 41.667 0.00 0.00 0.00 3.96
4969 5790 3.334583 TGTTACAGGAAGAGGATGCAC 57.665 47.619 0.00 0.00 0.00 4.57
4975 5796 1.202580 AGGAAGAGGATGCACATACGC 60.203 52.381 0.00 0.00 0.00 4.42
5031 5854 7.119699 CAGATTTGAGCACATAAACTGACCTTA 59.880 37.037 9.04 0.00 0.00 2.69
5047 5870 5.452255 TGACCTTAGTTATATGGACCGAGT 58.548 41.667 0.00 0.00 31.94 4.18
5076 5899 3.323691 ACAGGATAAGCCAAAACAAACCC 59.676 43.478 0.00 0.00 40.02 4.11
5146 5970 2.697431 TGGACCGCAAAGAAATTTCG 57.303 45.000 12.42 1.05 0.00 3.46
5211 6036 6.599244 TGATAGACATGGCTAAAAGAAGGTTG 59.401 38.462 13.50 0.00 0.00 3.77
5297 6134 3.644966 ATTTCTTGGCACCTTATCCGA 57.355 42.857 0.00 0.00 0.00 4.55
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
18 19 2.976589 TCATAGTCGTCACCTACACGA 58.023 47.619 0.00 0.00 43.85 4.35
19 20 3.752412 TTCATAGTCGTCACCTACACG 57.248 47.619 0.00 0.00 38.67 4.49
20 21 6.615264 TCTATTCATAGTCGTCACCTACAC 57.385 41.667 0.00 0.00 0.00 2.90
21 22 7.225011 AGATCTATTCATAGTCGTCACCTACA 58.775 38.462 0.00 0.00 0.00 2.74
22 23 7.604927 AGAGATCTATTCATAGTCGTCACCTAC 59.395 40.741 0.00 0.00 0.00 3.18
23 24 7.681679 AGAGATCTATTCATAGTCGTCACCTA 58.318 38.462 0.00 0.00 0.00 3.08
147 149 8.660373 CCTAGATCTTTCACTTATGTTGTTGTC 58.340 37.037 0.00 0.00 0.00 3.18
149 151 8.777865 TCCTAGATCTTTCACTTATGTTGTTG 57.222 34.615 0.00 0.00 0.00 3.33
187 189 5.363101 GGATACATCTTTGTCTCTCATGCA 58.637 41.667 0.00 0.00 37.28 3.96
501 641 4.020218 TGAAAGTTTGGAGACCATCTCGAT 60.020 41.667 0.00 0.00 44.28 3.59
582 722 2.452937 GGCCTAGGGGTGATGTCCC 61.453 68.421 11.72 0.00 46.31 4.46
874 1027 8.679385 GCACGAATCTTAAAGTTACTTGAAAAC 58.321 33.333 0.00 0.00 0.00 2.43
1417 1575 3.826221 GCATCCAGGTATGCGCAA 58.174 55.556 17.11 0.11 42.57 4.85
1440 1598 2.604046 AGCAGCCTACTCAATTACCG 57.396 50.000 0.00 0.00 0.00 4.02
1485 1643 2.818130 TCTGCAAAACAATCTTGGCC 57.182 45.000 0.00 0.00 0.00 5.36
1553 1711 3.561143 ACACCACAAATGCAGGTAAGAA 58.439 40.909 0.00 0.00 33.49 2.52
1598 1756 3.746492 AGACCGAAAGAAAACGATTCTGG 59.254 43.478 8.57 8.33 0.00 3.86
1774 1932 6.663944 ATTAGGTATGTTCTCAAAGTTCGC 57.336 37.500 0.00 0.00 0.00 4.70
1877 2035 2.424246 TCACCACGGAAAACCTCAAAAC 59.576 45.455 0.00 0.00 0.00 2.43
1880 2038 2.105821 AGATCACCACGGAAAACCTCAA 59.894 45.455 0.00 0.00 0.00 3.02
1910 2068 4.223032 ACCTTTCTCCACAGGTGTACATAG 59.777 45.833 0.00 0.00 42.20 2.23
2032 2190 2.421424 GCATGAACTAAGCAAGACCCAG 59.579 50.000 0.00 0.00 0.00 4.45
2061 2219 3.228188 AGCATGTCTGAAAACCCTTGA 57.772 42.857 0.00 0.00 0.00 3.02
2093 2251 7.361286 GGAGGAAAGAACACAATAACAGACATC 60.361 40.741 0.00 0.00 0.00 3.06
2160 2318 5.749596 TCAAGAAAGAAAATCTGCGACAA 57.250 34.783 0.00 0.00 0.00 3.18
2238 2396 8.871629 TTAGTGGCTAATTTTCATAGGAACAA 57.128 30.769 0.00 0.00 31.35 2.83
2589 2747 5.868454 TGTCCTTGAAGATCAATGACTTCA 58.132 37.500 21.08 17.78 45.80 3.02
2627 2785 5.070001 CACTTGGAAGAGGAATTTGTACCA 58.930 41.667 0.00 0.00 0.00 3.25
2694 2852 8.994429 TCTGAAGTCAAAAGCAACAAAATAAA 57.006 26.923 0.00 0.00 0.00 1.40
2696 2854 7.222611 GCTTCTGAAGTCAAAAGCAACAAAATA 59.777 33.333 17.97 0.00 42.80 1.40
2697 2855 6.036408 GCTTCTGAAGTCAAAAGCAACAAAAT 59.964 34.615 17.97 0.00 42.80 1.82
2724 2884 2.443255 GCCCTCATAGAAATTCCCCTCA 59.557 50.000 0.00 0.00 0.00 3.86
2811 2971 5.710567 AGTTACCTTGCAAATTAGTTCTCCC 59.289 40.000 0.00 0.00 0.00 4.30
3106 3269 5.945191 TCCACAATCATTGTTTGATGCTAGA 59.055 36.000 13.11 0.50 44.51 2.43
3443 3937 0.884704 CAACCAGAACACCGTCAGGG 60.885 60.000 0.00 0.00 43.47 4.45
3469 3963 2.998670 GCTGTACTTACTTTCCCCGAAC 59.001 50.000 0.00 0.00 0.00 3.95
3564 4060 1.337260 ACCACTGAGCTCGTGAATCAC 60.337 52.381 28.48 2.75 34.35 3.06
3605 4101 1.002624 GTCTGGGTTCCATGCCGAA 60.003 57.895 0.00 0.00 30.82 4.30
3629 4125 0.108520 GGTTCCCAGTCGCGAATGTA 60.109 55.000 31.48 18.54 0.00 2.29
3698 4194 2.853542 TTGCCTCCCAGGACAGCA 60.854 61.111 3.10 3.10 37.67 4.41
3764 4260 4.842091 GCAGCTTCGGCCATTGCG 62.842 66.667 2.24 1.34 43.01 4.85
3803 4299 4.720902 TCGTACCCGCTCCCGACA 62.721 66.667 0.00 0.00 36.29 4.35
3852 4348 0.304705 CTGAACGATATGCCGGCAAC 59.695 55.000 36.33 25.06 0.00 4.17
3902 4398 2.159734 GCTGCTATAGTTGCGATCATGC 60.160 50.000 0.84 0.00 0.00 4.06
4199 4696 6.368516 GGAGCAAGATAAGATCAGCATAGTTC 59.631 42.308 0.00 0.00 35.76 3.01
4234 4731 3.806316 ATTTGCTCTTCGGTAAACGTG 57.194 42.857 0.00 0.00 44.69 4.49
4258 4762 6.127366 CGAATAACCTGTTGTACCCTACCTAA 60.127 42.308 0.00 0.00 0.00 2.69
4262 4766 4.866486 CACGAATAACCTGTTGTACCCTAC 59.134 45.833 0.00 0.00 0.00 3.18
4277 4781 8.761497 TGTTTGTTTTGTTTGAAACACGAATAA 58.239 25.926 10.72 10.09 46.04 1.40
4342 4846 2.252714 AGATTTCTCTATCCCCGAGCC 58.747 52.381 0.00 0.00 0.00 4.70
4345 4849 4.342378 CACTCAAGATTTCTCTATCCCCGA 59.658 45.833 0.00 0.00 0.00 5.14
4346 4850 4.100189 ACACTCAAGATTTCTCTATCCCCG 59.900 45.833 0.00 0.00 0.00 5.73
4387 5183 2.513897 AGCCGCGCCCTTCATTAC 60.514 61.111 0.00 0.00 0.00 1.89
4388 5184 2.203015 GAGCCGCGCCCTTCATTA 60.203 61.111 0.00 0.00 0.00 1.90
4471 5278 1.570813 TCGCTTCATTGGCTGTATCG 58.429 50.000 0.00 0.00 0.00 2.92
4477 5284 2.778299 TGTACTTTCGCTTCATTGGCT 58.222 42.857 0.00 0.00 0.00 4.75
4504 5311 4.823442 AGCATCAATCACAAGTCACTTTCA 59.177 37.500 0.00 0.00 0.00 2.69
4548 5355 5.299949 TCTTTTACGTTTCCTACCTTGGAC 58.700 41.667 0.00 0.00 35.58 4.02
4549 5356 5.549742 TCTTTTACGTTTCCTACCTTGGA 57.450 39.130 0.00 0.00 0.00 3.53
4550 5357 5.353400 GGATCTTTTACGTTTCCTACCTTGG 59.647 44.000 0.00 0.00 0.00 3.61
4551 5358 6.092259 CAGGATCTTTTACGTTTCCTACCTTG 59.908 42.308 0.00 0.00 35.07 3.61
4552 5359 6.171213 CAGGATCTTTTACGTTTCCTACCTT 58.829 40.000 0.00 0.00 35.07 3.50
4553 5360 5.338137 CCAGGATCTTTTACGTTTCCTACCT 60.338 44.000 0.00 0.00 35.07 3.08
4554 5361 4.874396 CCAGGATCTTTTACGTTTCCTACC 59.126 45.833 0.00 0.00 35.07 3.18
4647 5459 3.306019 GCAAGGGTCATCGGTTCAAATTT 60.306 43.478 0.00 0.00 0.00 1.82
4688 5500 5.174943 CCGAACAAGAAAATACAAACCAAGC 59.825 40.000 0.00 0.00 0.00 4.01
4710 5531 1.216178 CATGAAAAGCAAGGCCCCG 59.784 57.895 0.00 0.00 0.00 5.73
4714 5535 4.445452 TGAGAATCATGAAAAGCAAGGC 57.555 40.909 0.00 0.00 42.56 4.35
4759 5580 1.722034 ACTTTCCCACTCTGAGAGCA 58.278 50.000 12.44 0.00 32.04 4.26
4786 5607 6.352516 AGTCATTAATACTTGGCAGGAGAAG 58.647 40.000 2.65 0.00 0.00 2.85
4789 5610 6.369059 CAAGTCATTAATACTTGGCAGGAG 57.631 41.667 19.53 0.00 46.52 3.69
4858 5679 5.435686 TCATTCATAGGCTTTACCACTGT 57.564 39.130 0.00 0.00 43.14 3.55
4943 5764 5.069781 GCATCCTCTTCCTGTAACATAGACT 59.930 44.000 0.00 0.00 0.00 3.24
4968 5789 1.276622 ACCCCTCTGAAAGCGTATGT 58.723 50.000 0.00 0.00 0.00 2.29
4969 5790 3.753294 ATACCCCTCTGAAAGCGTATG 57.247 47.619 0.00 0.00 0.00 2.39
4975 5796 1.070289 GGCCGTATACCCCTCTGAAAG 59.930 57.143 0.00 0.00 0.00 2.62
5031 5854 2.365617 CAGCCACTCGGTCCATATAACT 59.634 50.000 0.00 0.00 33.28 2.24
5076 5899 4.464244 TGCAGGATATATCTTCCTCTTCCG 59.536 45.833 12.42 0.00 41.78 4.30
5124 5948 3.181575 CGAAATTTCTTTGCGGTCCAAAC 59.818 43.478 15.92 0.00 38.46 2.93
5238 6064 3.100671 CCTACCAGTCTCAAGTAAGGCT 58.899 50.000 0.00 0.00 0.00 4.58
5297 6134 2.964464 TGCCAATCAAAGTCAACACCAT 59.036 40.909 0.00 0.00 0.00 3.55


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

AutoCloner maintained by Alex Coulton.