Multiple sequence alignment - TraesCS6A01G379900

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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 TraesCS6A01G379900 chr6A 100.000 5556 0 0 1 5556 600451752 600457307 0.000000e+00 10261.0
1 TraesCS6A01G379900 chr6A 89.239 381 28 5 5155 5532 600396392 600396022 1.090000e-126 464.0
2 TraesCS6A01G379900 chr6B 94.019 5350 232 39 231 5556 690727733 690733018 0.000000e+00 8026.0
3 TraesCS6A01G379900 chr6B 83.038 902 86 38 196 1065 690585585 690586451 0.000000e+00 756.0
4 TraesCS6A01G379900 chr6B 89.323 384 35 6 5153 5532 690443425 690443044 1.400000e-130 477.0
5 TraesCS6A01G379900 chr6B 89.351 385 34 7 5151 5532 690451674 690451294 1.400000e-130 477.0
6 TraesCS6A01G379900 chr6B 89.276 373 27 5 5163 5532 690331411 690331049 6.560000e-124 455.0
7 TraesCS6A01G379900 chr6B 92.308 234 18 0 1 234 690727086 690727319 3.210000e-87 333.0
8 TraesCS6A01G379900 chr6B 93.464 153 8 2 5151 5301 690452668 690452516 5.600000e-55 226.0
9 TraesCS6A01G379900 chr6B 95.000 40 2 0 1 40 690583966 690584005 4.650000e-06 63.9
10 TraesCS6A01G379900 chr6D 94.412 3078 140 20 763 3818 454245936 454249003 0.000000e+00 4702.0
11 TraesCS6A01G379900 chr6D 96.613 1742 46 6 3817 5556 454249162 454250892 0.000000e+00 2878.0
12 TraesCS6A01G379900 chr6D 89.610 385 35 5 5151 5532 454217766 454217384 8.370000e-133 484.0
13 TraesCS6A01G379900 chr6D 89.610 385 35 5 5151 5532 454226032 454225650 8.370000e-133 484.0
14 TraesCS6A01G379900 chr6D 89.835 364 27 4 5172 5532 454129777 454129421 5.070000e-125 459.0


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 TraesCS6A01G379900 chr6A 600451752 600457307 5555 False 10261.00 10261 100.0000 1 5556 1 chr6A.!!$F1 5555
1 TraesCS6A01G379900 chr6B 690727086 690733018 5932 False 4179.50 8026 93.1635 1 5556 2 chr6B.!!$F2 5555
2 TraesCS6A01G379900 chr6B 690583966 690586451 2485 False 409.95 756 89.0190 1 1065 2 chr6B.!!$F1 1064
3 TraesCS6A01G379900 chr6B 690451294 690452668 1374 True 351.50 477 91.4075 5151 5532 2 chr6B.!!$R3 381
4 TraesCS6A01G379900 chr6D 454245936 454250892 4956 False 3790.00 4702 95.5125 763 5556 2 chr6D.!!$F1 4793

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
113 1466 0.988832 GTGAATGGTAGGGGTGGACA 59.011 55.0 0.00 0.0 0.00 4.02 F
1653 3568 0.251474 AGAGCCTTGATGCAAAGCCA 60.251 50.0 0.00 0.0 31.86 4.75 F
2283 4198 0.178975 ACAACCCGGATGAGCCAAAA 60.179 50.0 0.73 0.0 35.94 2.44 F
3658 5577 0.475044 TTCGCTTAACCCACAACCCT 59.525 50.0 0.00 0.0 0.00 4.34 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1900 3815 0.609406 GAAACCTCCCCTGAACCAGC 60.609 60.0 0.00 0.0 0.00 4.85 R
3533 5452 0.036732 TCCAAGTACTGGGCTGCTTG 59.963 55.0 11.96 0.0 46.44 4.01 R
3705 5624 0.798776 CCTCAGCATCCGTGTTGTTC 59.201 55.0 0.00 0.0 37.75 3.18 R
5414 8499 0.700564 TGCTGGATTTCTCCCTTGCT 59.299 50.0 0.00 0.0 41.29 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
80 1429 3.225104 TCCTTTTGAAGCAAGCAGTCAT 58.775 40.909 0.00 0.00 0.00 3.06
84 1434 5.362556 TTTTGAAGCAAGCAGTCATAGAC 57.637 39.130 0.00 0.00 0.00 2.59
97 1447 2.688446 GTCATAGACGATGAGTGGGTGA 59.312 50.000 0.00 0.00 45.46 4.02
99 1449 3.960755 TCATAGACGATGAGTGGGTGAAT 59.039 43.478 0.00 0.00 39.78 2.57
101 1451 1.208052 AGACGATGAGTGGGTGAATGG 59.792 52.381 0.00 0.00 0.00 3.16
113 1466 0.988832 GTGAATGGTAGGGGTGGACA 59.011 55.000 0.00 0.00 0.00 4.02
189 1542 5.104900 GGGAGAGTTTGCAATTACTCCTCTA 60.105 44.000 28.43 2.14 41.31 2.43
245 2087 5.257262 AGAAAGCTTATTCTTCCACCCTTC 58.743 41.667 0.00 0.00 36.23 3.46
332 2174 7.271653 GTGATTTGTTGTTTACACTCGTTTTCA 59.728 33.333 0.00 0.00 36.21 2.69
339 2181 9.155053 GTTGTTTACACTCGTTTTCAGATTAAG 57.845 33.333 0.00 0.00 0.00 1.85
379 2221 7.599171 TCTGATGTACACGAATACTTCTTTGA 58.401 34.615 0.00 8.98 32.86 2.69
380 2222 7.755373 TCTGATGTACACGAATACTTCTTTGAG 59.245 37.037 0.00 6.76 32.86 3.02
384 2226 7.204604 TGTACACGAATACTTCTTTGAGTCAA 58.795 34.615 0.08 0.08 0.00 3.18
386 2228 6.281405 ACACGAATACTTCTTTGAGTCAAGT 58.719 36.000 5.56 3.09 34.68 3.16
387 2229 6.761714 ACACGAATACTTCTTTGAGTCAAGTT 59.238 34.615 5.56 0.00 32.56 2.66
446 2290 4.211125 TGTGGACATTTCTTTTGGTAGCA 58.789 39.130 0.00 0.00 0.00 3.49
563 2414 5.122554 ACATTTCACCAATCGCGTAAACATA 59.877 36.000 5.77 0.00 0.00 2.29
621 2472 6.806739 CCCTCCGAAAGTATTTGAACAAAATC 59.193 38.462 4.12 1.66 39.27 2.17
783 2648 4.467084 GGCCACGCCGATTGAGGA 62.467 66.667 0.00 0.00 39.62 3.71
784 2649 2.892425 GCCACGCCGATTGAGGAG 60.892 66.667 0.00 0.00 37.11 3.69
785 2650 2.892425 CCACGCCGATTGAGGAGC 60.892 66.667 0.00 0.00 34.23 4.70
786 2651 2.185350 CACGCCGATTGAGGAGCT 59.815 61.111 0.00 0.00 34.23 4.09
787 2652 1.880340 CACGCCGATTGAGGAGCTC 60.880 63.158 4.71 4.71 34.23 4.09
788 2653 2.279784 CGCCGATTGAGGAGCTCC 60.280 66.667 26.22 26.22 0.00 4.70
789 2654 2.110006 GCCGATTGAGGAGCTCCC 59.890 66.667 29.54 20.23 36.42 4.30
790 2655 2.419198 CCGATTGAGGAGCTCCCG 59.581 66.667 29.54 23.14 40.87 5.14
791 2656 2.419198 CGATTGAGGAGCTCCCGG 59.581 66.667 29.54 8.42 40.87 5.73
792 2657 2.110006 GATTGAGGAGCTCCCGGC 59.890 66.667 29.54 18.81 40.87 6.13
909 2805 4.896829 CGCGCCTCCCCTCTCCTA 62.897 72.222 0.00 0.00 0.00 2.94
1419 3334 2.284151 GAGAGGGGGAGGAGGTCC 59.716 72.222 0.00 0.00 46.10 4.46
1515 3430 1.372748 CGCTCATGAGATCGGCTCC 60.373 63.158 27.04 4.81 43.26 4.70
1585 3500 4.352009 AGAGATCAGCAGGAAAAGAGAGA 58.648 43.478 0.00 0.00 0.00 3.10
1653 3568 0.251474 AGAGCCTTGATGCAAAGCCA 60.251 50.000 0.00 0.00 31.86 4.75
1660 3575 0.319083 TGATGCAAAGCCAAAGCAGG 59.681 50.000 0.00 0.00 42.14 4.85
1770 3685 1.202330 AGAAGCAGAGTGATGAGGGG 58.798 55.000 0.00 0.00 0.00 4.79
1794 3709 2.095461 GGGAAAAGACAGGGCATCTTC 58.905 52.381 0.00 0.00 35.31 2.87
1856 3771 1.229951 AGGAGGGGCATGACCTGAA 60.230 57.895 19.55 0.00 38.79 3.02
1858 3773 0.394899 GGAGGGGCATGACCTGAAAG 60.395 60.000 19.55 0.00 38.79 2.62
1864 3779 0.883833 GCATGACCTGAAAGTGGTGG 59.116 55.000 0.00 0.00 38.03 4.61
1880 3795 2.502947 TGGTGGATGAGATCAGTTCCAG 59.497 50.000 9.92 0.00 36.14 3.86
1900 3815 2.624838 AGGAATGTTGTTGCTGGTCTTG 59.375 45.455 0.00 0.00 0.00 3.02
1969 3884 2.768253 TTGTGATGGAGGTAGCAGTG 57.232 50.000 0.00 0.00 0.00 3.66
2057 3972 1.160137 CAAAAGAAGCCCGAGGAGTG 58.840 55.000 0.00 0.00 0.00 3.51
2146 4061 1.130561 GCGAGGGAAAATCGGTGAAAG 59.869 52.381 0.00 0.00 40.50 2.62
2229 4144 1.425066 AGGGTTCAGAAGATTGCCACA 59.575 47.619 0.00 0.00 0.00 4.17
2262 4177 0.467384 CCAAGGAGATGCTGGACGAT 59.533 55.000 0.00 0.00 31.38 3.73
2271 4186 0.390603 TGCTGGACGATAACAACCCG 60.391 55.000 0.00 0.00 0.00 5.28
2283 4198 0.178975 ACAACCCGGATGAGCCAAAA 60.179 50.000 0.73 0.00 35.94 2.44
2349 4264 5.159209 CAGGCAATTTCTCATGTCAAAGTC 58.841 41.667 0.00 0.00 0.00 3.01
2355 4270 7.912250 GCAATTTCTCATGTCAAAGTCGATAAT 59.088 33.333 0.00 0.00 0.00 1.28
2435 4350 1.538512 TGCAAGTGAGAAATCTGCTGC 59.461 47.619 0.00 0.00 0.00 5.25
2436 4351 1.811359 GCAAGTGAGAAATCTGCTGCT 59.189 47.619 0.00 0.00 0.00 4.24
2522 4437 8.293699 AGGTTTTTCCCACATCATAAACTATC 57.706 34.615 0.00 0.00 36.75 2.08
3106 5025 7.935338 TTTTCTTTCAAGTGCTGATTCAATC 57.065 32.000 0.00 0.00 32.78 2.67
3151 5070 6.487299 AGTCTGAATATAAACCTCCCAGTC 57.513 41.667 0.00 0.00 0.00 3.51
3216 5135 1.071385 CCAGGTGTAGATGGATGCTCC 59.929 57.143 0.00 0.00 39.02 4.70
3240 5159 1.413812 AGATATGTGGTCGCAGCATCA 59.586 47.619 0.00 0.00 0.00 3.07
3329 5248 0.753479 GTCGAGGAGGAGGCATCTCA 60.753 60.000 0.00 0.00 41.69 3.27
3420 5339 5.730550 TCTGCTATTTCAACCATAGAACGT 58.269 37.500 0.00 0.00 0.00 3.99
3423 5342 4.873827 GCTATTTCAACCATAGAACGTCCA 59.126 41.667 0.00 0.00 0.00 4.02
3489 5408 2.309613 AGCAAGCAAAAGATGGTCACA 58.690 42.857 0.00 0.00 39.29 3.58
3504 5423 2.418746 GGTCACAGCTTATGACATCCGT 60.419 50.000 23.11 0.00 46.89 4.69
3516 5435 0.750249 ACATCCGTGATGGCGATGTA 59.250 50.000 15.41 0.00 43.60 2.29
3532 5451 4.335315 GCGATGTAGTGATGAAATGGGAAA 59.665 41.667 0.00 0.00 0.00 3.13
3533 5452 5.730568 GCGATGTAGTGATGAAATGGGAAAC 60.731 44.000 0.00 0.00 0.00 2.78
3540 5459 2.818130 TGAAATGGGAAACAAGCAGC 57.182 45.000 0.00 0.00 0.00 5.25
3549 5468 2.230660 GAAACAAGCAGCCCAGTACTT 58.769 47.619 0.00 0.00 0.00 2.24
3658 5577 0.475044 TTCGCTTAACCCACAACCCT 59.525 50.000 0.00 0.00 0.00 4.34
3705 5624 5.695851 AAAGAGTTTACTGCCTTCATGTG 57.304 39.130 0.00 0.00 0.00 3.21
3778 5697 4.708726 ACAATCTTGCCTTAACTGCATC 57.291 40.909 0.00 0.00 38.76 3.91
3796 5715 6.591834 ACTGCATCTCACTGTTCTGTTATTAC 59.408 38.462 0.00 0.00 0.00 1.89
3836 5915 6.769512 TGCCTAGATTAAGTTGACTTGTTCT 58.230 36.000 6.64 10.03 37.40 3.01
3844 5923 2.945668 AGTTGACTTGTTCTGGTGAAGC 59.054 45.455 0.00 0.00 32.15 3.86
3878 5957 6.422344 TTTGGTTACTATGGGCGTATGATA 57.578 37.500 0.00 0.00 0.00 2.15
3881 5960 7.907841 TGGTTACTATGGGCGTATGATATAT 57.092 36.000 0.00 0.00 0.00 0.86
3892 5971 7.226523 TGGGCGTATGATATATGCATTTGATAC 59.773 37.037 3.54 4.25 0.00 2.24
3901 5980 9.224267 GATATATGCATTTGATACTTGTCCTGT 57.776 33.333 3.54 0.00 0.00 4.00
3905 5984 5.048782 TGCATTTGATACTTGTCCTGTTCAC 60.049 40.000 0.00 0.00 0.00 3.18
3919 5998 5.121454 GTCCTGTTCACTGATAAAGCTGAAG 59.879 44.000 0.00 0.00 31.13 3.02
3921 6000 3.753272 TGTTCACTGATAAAGCTGAAGCC 59.247 43.478 0.00 0.00 43.38 4.35
3923 6002 5.178797 GTTCACTGATAAAGCTGAAGCCTA 58.821 41.667 0.00 0.00 43.38 3.93
3983 6062 2.364647 CTGCTCTATGTGATCTGGCTCA 59.635 50.000 0.00 0.00 0.00 4.26
4007 6086 4.516698 GCCTCATCATTAACCTGTATGTGG 59.483 45.833 0.00 0.00 35.38 4.17
4012 6091 4.513442 TCATTAACCTGTATGTGGCTGTC 58.487 43.478 0.00 0.00 0.00 3.51
4039 6118 3.368531 GCAGAGTTAGTTCATCCGAGGTT 60.369 47.826 0.00 0.00 0.00 3.50
4144 6223 1.153127 AAGAAACGGTGGAACGGCA 60.153 52.632 0.00 0.00 41.39 5.69
4153 6232 0.307760 GTGGAACGGCAAACTCAGTG 59.692 55.000 0.00 0.00 0.00 3.66
4199 6278 1.746991 GGTAGCACAGAAGGCAGGC 60.747 63.158 0.00 0.00 0.00 4.85
4229 6308 2.045731 GGGGGCCGAAATCACGAA 60.046 61.111 0.00 0.00 35.09 3.85
4231 6310 1.444917 GGGGGCCGAAATCACGAATC 61.445 60.000 0.00 0.00 35.09 2.52
4282 6361 5.336372 GCTTGTTGCAACCTATGAATTACCA 60.336 40.000 26.14 0.07 42.31 3.25
4372 6451 0.817013 CATGCGGTATGGGCTTGTTT 59.183 50.000 0.00 0.00 32.95 2.83
4381 6460 3.775261 ATGGGCTTGTTTGCTTTTGAT 57.225 38.095 0.00 0.00 0.00 2.57
4382 6461 2.836262 TGGGCTTGTTTGCTTTTGATG 58.164 42.857 0.00 0.00 0.00 3.07
4411 6490 1.001706 GAAGAAGGCGTCCAACAAACC 60.002 52.381 0.00 0.00 0.00 3.27
4501 6580 6.712095 GCCCTACATTTGATTACTCATCATCA 59.288 38.462 0.00 0.00 41.82 3.07
4593 6672 5.919707 GTGTGCATCATGTGACATGTAAAAA 59.080 36.000 23.39 5.94 0.00 1.94
4793 6872 6.405538 ACCATTGTTCAAAATCAGTTGTTGT 58.594 32.000 0.00 0.00 0.00 3.32
4860 6947 1.128507 GACACACACACACACACACAG 59.871 52.381 0.00 0.00 0.00 3.66
4864 6951 2.009051 CACACACACACACACAGACAT 58.991 47.619 0.00 0.00 0.00 3.06
4975 7062 0.179702 CCAGAATGCCTCAGCTAGCA 59.820 55.000 18.83 7.61 44.45 3.49
5002 7089 2.419673 CTGGCGAACTTGATACAATGCA 59.580 45.455 0.00 0.00 0.00 3.96
5414 8499 3.293337 TCGTCGGATTATCTCCAAGGAA 58.707 45.455 0.00 0.00 45.24 3.36
5516 8601 6.106648 AGCACTAGATTTAGCATCTGCATA 57.893 37.500 4.79 0.00 45.16 3.14
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
80 1429 2.430694 CCATTCACCCACTCATCGTCTA 59.569 50.000 0.00 0.00 0.00 2.59
84 1434 2.483714 CCTACCATTCACCCACTCATCG 60.484 54.545 0.00 0.00 0.00 3.84
94 1444 0.988832 TGTCCACCCCTACCATTCAC 59.011 55.000 0.00 0.00 0.00 3.18
97 1447 0.999712 CCTTGTCCACCCCTACCATT 59.000 55.000 0.00 0.00 0.00 3.16
99 1449 0.838987 GACCTTGTCCACCCCTACCA 60.839 60.000 0.00 0.00 0.00 3.25
101 1451 0.613777 CTGACCTTGTCCACCCCTAC 59.386 60.000 0.00 0.00 0.00 3.18
113 1466 2.685380 CCGGCCTCCTCTGACCTT 60.685 66.667 0.00 0.00 0.00 3.50
154 1507 0.034059 AACTCTCCCTTGTGTCGCTG 59.966 55.000 0.00 0.00 0.00 5.18
189 1542 1.139058 CCTCCGTCTGAAATTCGGGAT 59.861 52.381 1.53 0.00 43.75 3.85
332 2174 6.769822 CAGAAGAATGGTATGGTGCTTAATCT 59.230 38.462 0.00 0.00 0.00 2.40
339 2181 4.202441 ACATCAGAAGAATGGTATGGTGC 58.798 43.478 0.00 0.00 0.00 5.01
424 2268 4.211125 TGCTACCAAAAGAAATGTCCACA 58.789 39.130 0.00 0.00 0.00 4.17
621 2472 8.925700 GCCAGAAAATGTTTAATCTACTTTTGG 58.074 33.333 0.00 0.00 0.00 3.28
773 2638 2.419198 CGGGAGCTCCTCAATCGG 59.581 66.667 31.36 9.10 35.95 4.18
774 2639 2.419198 CCGGGAGCTCCTCAATCG 59.581 66.667 31.36 24.16 35.95 3.34
775 2640 2.110006 GCCGGGAGCTCCTCAATC 59.890 66.667 31.36 13.98 38.99 2.67
776 2641 3.854669 CGCCGGGAGCTCCTCAAT 61.855 66.667 31.36 0.00 40.39 2.57
785 2650 4.821589 GAAGAGGCACGCCGGGAG 62.822 72.222 2.18 0.00 41.95 4.30
791 2656 4.681978 ACCGTGGAAGAGGCACGC 62.682 66.667 0.00 0.00 40.53 5.34
792 2657 2.738521 CACCGTGGAAGAGGCACG 60.739 66.667 0.00 0.00 41.40 5.34
793 2658 2.358737 CCACCGTGGAAGAGGCAC 60.359 66.667 12.68 0.00 40.96 5.01
794 2659 3.636231 CCCACCGTGGAAGAGGCA 61.636 66.667 19.81 0.00 40.96 4.75
909 2805 2.290008 GGCGGATTTGGTTTGGGATTTT 60.290 45.455 0.00 0.00 0.00 1.82
1098 3001 1.641552 CGGAGGAGGAGGAGGAGAGT 61.642 65.000 0.00 0.00 0.00 3.24
1176 3091 2.126463 TTGGAGAGCTTCGACGCG 60.126 61.111 3.53 3.53 34.40 6.01
1438 3353 3.790437 CCTGGCGGCATCTGAGGT 61.790 66.667 13.85 0.00 0.00 3.85
1476 3391 4.802051 GCATCTGAAGCCCGGGCA 62.802 66.667 45.13 26.77 44.88 5.36
1477 3392 4.496336 AGCATCTGAAGCCCGGGC 62.496 66.667 39.29 39.29 42.33 6.13
1515 3430 1.069358 GAATCGAACCCTAGGCTCCTG 59.931 57.143 2.05 0.00 0.00 3.86
1653 3568 2.452600 TTTTCCCACTGACCTGCTTT 57.547 45.000 0.00 0.00 0.00 3.51
1770 3685 1.923356 TGCCCTGTCTTTTCCCATTC 58.077 50.000 0.00 0.00 0.00 2.67
1794 3709 1.493950 CTAGCTTTGCCCTCGCATCG 61.494 60.000 0.00 0.00 46.67 3.84
1856 3771 3.054802 GGAACTGATCTCATCCACCACTT 60.055 47.826 0.00 0.00 32.08 3.16
1858 3773 2.237143 TGGAACTGATCTCATCCACCAC 59.763 50.000 9.09 0.00 37.05 4.16
1864 3779 5.033589 ACATTCCTGGAACTGATCTCATC 57.966 43.478 12.11 0.00 0.00 2.92
1880 3795 2.863704 GCAAGACCAGCAACAACATTCC 60.864 50.000 0.00 0.00 0.00 3.01
1900 3815 0.609406 GAAACCTCCCCTGAACCAGC 60.609 60.000 0.00 0.00 0.00 4.85
1969 3884 3.749609 ACGGTAAACACAGGAATAACAGC 59.250 43.478 0.00 0.00 0.00 4.40
2057 3972 3.071747 CCCCTTCTCTCCCTGCTTATTAC 59.928 52.174 0.00 0.00 0.00 1.89
2146 4061 2.187707 CTTGTTCACACTGCACAAAGC 58.812 47.619 0.00 0.00 45.96 3.51
2229 4144 6.464180 GCATCTCCTTGGTCTTCTTGATATCT 60.464 42.308 3.98 0.00 0.00 1.98
2262 4177 0.693622 TTGGCTCATCCGGGTTGTTA 59.306 50.000 0.00 0.00 37.80 2.41
2271 4186 5.357878 TGACAATATCTGTTTTGGCTCATCC 59.642 40.000 0.00 0.00 38.84 3.51
2313 4228 2.087501 TTGCCTGCTCAATTGCATTG 57.912 45.000 0.00 0.00 42.48 2.82
2403 4318 0.798776 CACTTGCACCCTTCTTAGCG 59.201 55.000 0.00 0.00 0.00 4.26
2418 4333 2.812591 CACAGCAGCAGATTTCTCACTT 59.187 45.455 0.00 0.00 0.00 3.16
2435 4350 1.069765 AGGTCACGTGGCTTCACAG 59.930 57.895 21.13 0.00 41.27 3.66
2436 4351 1.227527 CAGGTCACGTGGCTTCACA 60.228 57.895 21.13 0.00 41.27 3.58
2547 4465 2.029073 ACGCACGACTCCTGTTGG 59.971 61.111 0.00 0.00 31.91 3.77
2802 4720 3.501828 TCTCACCACACAATTCCATTTCG 59.498 43.478 0.00 0.00 0.00 3.46
3151 5070 4.199310 CCCCAAGTATTATGTGACACCAG 58.801 47.826 2.45 0.00 0.00 4.00
3216 5135 1.930817 GCTGCGACCACATATCTACCG 60.931 57.143 0.00 0.00 0.00 4.02
3240 5159 2.102578 GGTTCCAATGCATTACCAGCT 58.897 47.619 20.36 0.00 0.00 4.24
3396 5315 5.812642 ACGTTCTATGGTTGAAATAGCAGAG 59.187 40.000 0.00 0.00 36.48 3.35
3477 5396 4.910195 TGTCATAAGCTGTGACCATCTTT 58.090 39.130 22.62 0.00 44.10 2.52
3489 5408 2.808202 GCCATCACGGATGTCATAAGCT 60.808 50.000 11.38 0.00 38.28 3.74
3504 5423 3.817709 TTCATCACTACATCGCCATCA 57.182 42.857 0.00 0.00 0.00 3.07
3516 5435 3.896888 TGCTTGTTTCCCATTTCATCACT 59.103 39.130 0.00 0.00 0.00 3.41
3532 5451 0.250901 CCAAGTACTGGGCTGCTTGT 60.251 55.000 2.48 0.00 42.17 3.16
3533 5452 0.036732 TCCAAGTACTGGGCTGCTTG 59.963 55.000 11.96 0.00 46.44 4.01
3540 5459 4.138487 GTACTCCATTCCAAGTACTGGG 57.862 50.000 10.42 10.42 46.44 4.45
3658 5577 5.500234 ACCAGCAGAAGCAACAGATAATAA 58.500 37.500 0.00 0.00 45.49 1.40
3705 5624 0.798776 CCTCAGCATCCGTGTTGTTC 59.201 55.000 0.00 0.00 37.75 3.18
3757 5676 4.338879 AGATGCAGTTAAGGCAAGATTGT 58.661 39.130 5.89 0.00 45.60 2.71
3778 5697 5.237815 TGGCAGTAATAACAGAACAGTGAG 58.762 41.667 0.00 0.00 0.00 3.51
3796 5715 1.030457 GGCAGGATCTCAAATGGCAG 58.970 55.000 0.00 0.00 38.07 4.85
3878 5957 7.557358 TGAACAGGACAAGTATCAAATGCATAT 59.443 33.333 0.00 0.00 0.00 1.78
3881 5960 5.048782 GTGAACAGGACAAGTATCAAATGCA 60.049 40.000 0.00 0.00 0.00 3.96
3892 5971 4.999950 AGCTTTATCAGTGAACAGGACAAG 59.000 41.667 0.00 0.00 0.00 3.16
3901 5980 4.292186 AGGCTTCAGCTTTATCAGTGAA 57.708 40.909 0.00 0.00 41.70 3.18
3905 5984 5.526846 CCTTTCTAGGCTTCAGCTTTATCAG 59.473 44.000 0.00 0.00 41.70 2.90
3919 5998 7.778185 TCAGATACTTATACCCTTTCTAGGC 57.222 40.000 0.00 0.00 40.50 3.93
3983 6062 5.371526 CACATACAGGTTAATGATGAGGCT 58.628 41.667 0.00 0.00 0.00 4.58
3987 6066 5.125356 CAGCCACATACAGGTTAATGATGA 58.875 41.667 0.00 0.00 0.00 2.92
4007 6086 4.273480 TGAACTAACTCTGCAAAAGACAGC 59.727 41.667 2.91 0.00 35.04 4.40
4012 6091 4.690748 TCGGATGAACTAACTCTGCAAAAG 59.309 41.667 0.00 0.00 0.00 2.27
4039 6118 4.280677 GTGAAAACACCATCATTTCCCTCA 59.719 41.667 0.00 0.00 33.23 3.86
4144 6223 2.167693 TCCACGTGAGAACACTGAGTTT 59.832 45.455 19.30 0.00 43.99 2.66
4162 6241 6.382859 TGCTACCAATAAATACTGAGTCTCCA 59.617 38.462 0.00 0.00 0.00 3.86
4282 6361 1.425066 TGGAAGTGGGCATTGAACTCT 59.575 47.619 0.00 0.00 0.00 3.24
4411 6490 2.163818 TTCCACGGTCAAAGCTGTAG 57.836 50.000 0.00 0.00 0.00 2.74
4501 6580 2.011122 TCGAGACCAGAAGAACCCTT 57.989 50.000 0.00 0.00 34.81 3.95
4593 6672 4.827692 TCAAAGCATACGGACAGTACATT 58.172 39.130 0.00 0.00 38.29 2.71
4793 6872 5.674933 TGCACGTGTTAATATGAACAACA 57.325 34.783 18.38 1.88 40.88 3.33
4860 6947 6.609237 TTGCTGATGATTAAGCTGTATGTC 57.391 37.500 0.00 0.00 40.21 3.06
4864 6951 5.188434 AGCTTTGCTGATGATTAAGCTGTA 58.812 37.500 6.83 0.00 46.95 2.74
4975 7062 2.129555 ATCAAGTTCGCCAGGGCACT 62.130 55.000 11.42 4.27 42.06 4.40
5002 7089 5.643421 AAGATGGAATAAGCTCAGATGGT 57.357 39.130 0.00 0.00 0.00 3.55
5414 8499 0.700564 TGCTGGATTTCTCCCTTGCT 59.299 50.000 0.00 0.00 41.29 3.91


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

AutoCloner maintained by Alex Coulton.