Multiple sequence alignment - TraesCS7B01G266100

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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 TraesCS7B01G266100 chr7B 100.000 4622 0 0 1 4622 488413720 488418341 0.000000e+00 8536
1 TraesCS7B01G266100 chr7A 89.487 3643 218 74 1 3607 536983565 536987078 0.000000e+00 4453
2 TraesCS7B01G266100 chr7A 92.039 515 34 3 4111 4622 536987973 536988483 0.000000e+00 717
3 TraesCS7B01G266100 chr7A 88.477 486 41 6 3625 4101 536987316 536987795 1.440000e-159 573
4 TraesCS7B01G266100 chr7D 96.972 2477 67 7 1608 4081 463260761 463258290 0.000000e+00 4152
5 TraesCS7B01G266100 chr7D 89.231 1625 81 25 1 1596 463262304 463260745 0.000000e+00 1945
6 TraesCS7B01G266100 chr7D 92.505 507 20 4 4116 4622 463258110 463257622 0.000000e+00 710


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 TraesCS7B01G266100 chr7B 488413720 488418341 4621 False 8536.000000 8536 100.000000 1 4622 1 chr7B.!!$F1 4621
1 TraesCS7B01G266100 chr7A 536983565 536988483 4918 False 1914.333333 4453 90.001000 1 4622 3 chr7A.!!$F1 4621
2 TraesCS7B01G266100 chr7D 463257622 463262304 4682 True 2269.000000 4152 92.902667 1 4622 3 chr7D.!!$R1 4621

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
793 840 0.386731 GCGTTGTGTTGCCGCTTATT 60.387 50.0 0.00 0.0 43.81 1.40 F
1043 1093 0.040425 GATTCGCTCTCGCTCTCCTC 60.040 60.0 0.00 0.0 35.26 3.71 F
1699 1750 0.107703 TGAACGGGATCCACATCTGC 60.108 55.0 15.23 0.0 0.00 4.26 F
1980 2039 1.348064 TGTGCTGGCCACTAACTACT 58.652 50.0 0.00 0.0 44.92 2.57 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1674 1725 0.104304 GTGGATCCCGTTCACGCTAT 59.896 55.000 9.9 0.0 38.18 2.97 R
2673 2735 4.679373 AGCTCGTGAAGATATGTCCAAT 57.321 40.909 0.0 0.0 0.00 3.16 R
3148 3210 4.409901 TCATGAGGAGGACATGCATTAGAA 59.590 41.667 0.0 0.0 43.03 2.10 R
3843 4141 1.110442 CACCCTGTTTTCCTTGTGCA 58.890 50.000 0.0 0.0 0.00 4.57 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
37 38 3.118775 TGTGAACGGAGGGAGTATCAATG 60.119 47.826 0.00 0.00 36.25 2.82
50 59 5.376625 GAGTATCAATGAGGCCACCAATTA 58.623 41.667 5.01 0.00 33.17 1.40
411 445 2.726351 GGTGGAGAAGAGGCGGGAG 61.726 68.421 0.00 0.00 0.00 4.30
510 544 1.003545 CAATCGCAGCCACGGATTAAG 60.004 52.381 0.00 0.00 0.00 1.85
528 569 4.157120 CGGGTGATCGGGGGTGAC 62.157 72.222 0.00 0.00 0.00 3.67
557 598 2.738510 ATCTCATCTCCCCGCCGGAT 62.739 60.000 5.05 0.00 41.00 4.18
745 792 4.222847 GGGATGGTCGCCTCGGTC 62.223 72.222 0.00 0.00 0.00 4.79
746 793 3.148279 GGATGGTCGCCTCGGTCT 61.148 66.667 0.00 0.00 0.00 3.85
747 794 2.413765 GATGGTCGCCTCGGTCTC 59.586 66.667 0.00 0.00 0.00 3.36
771 818 4.704103 TCGCTCTGGGCTGGGAGT 62.704 66.667 0.00 0.00 39.13 3.85
792 839 1.209127 GCGTTGTGTTGCCGCTTAT 59.791 52.632 0.00 0.00 43.81 1.73
793 840 0.386731 GCGTTGTGTTGCCGCTTATT 60.387 50.000 0.00 0.00 43.81 1.40
794 841 1.135916 GCGTTGTGTTGCCGCTTATTA 60.136 47.619 0.00 0.00 43.81 0.98
903 950 3.063485 GAGAGTGCTTCTGAAGTTGGAC 58.937 50.000 17.97 10.08 35.87 4.02
934 981 1.274703 TAGCCCTCCTTCCCTTGCTG 61.275 60.000 0.00 0.00 0.00 4.41
937 984 1.378250 CCTCCTTCCCTTGCTGCAG 60.378 63.158 10.11 10.11 0.00 4.41
964 1011 0.532862 CTGGAGTTTGGAGCACACGT 60.533 55.000 0.00 0.00 0.00 4.49
968 1015 3.187700 GGAGTTTGGAGCACACGTATAG 58.812 50.000 0.00 0.00 0.00 1.31
991 1038 2.086251 TTACGCGGAAGAACGGTGGT 62.086 55.000 12.47 0.00 34.40 4.16
1015 1065 2.695127 TGTAAAATATCCACCGCCGT 57.305 45.000 0.00 0.00 0.00 5.68
1039 1089 2.494530 GGGGATTCGCTCTCGCTCT 61.495 63.158 0.40 0.00 35.26 4.09
1040 1090 1.007849 GGGATTCGCTCTCGCTCTC 60.008 63.158 0.00 0.00 35.26 3.20
1043 1093 0.040425 GATTCGCTCTCGCTCTCCTC 60.040 60.000 0.00 0.00 35.26 3.71
1044 1094 1.452145 ATTCGCTCTCGCTCTCCTCC 61.452 60.000 0.00 0.00 35.26 4.30
1045 1095 3.947841 CGCTCTCGCTCTCCTCCG 61.948 72.222 0.00 0.00 0.00 4.63
1204 1254 4.000557 CACACACACTGCGCGGTC 62.001 66.667 21.45 0.00 0.00 4.79
1293 1343 2.943265 AGGGAGTTGGGCATGCCT 60.943 61.111 34.70 16.75 36.10 4.75
1401 1451 3.733883 TTCTCCTCCTCTTAGTTCCGA 57.266 47.619 0.00 0.00 0.00 4.55
1471 1521 2.031245 TGCATTGTACCAGTTTGAAGCG 60.031 45.455 0.00 0.00 0.00 4.68
1570 1620 6.583806 GCTGTTCTGAATGTAAAATTGACCAG 59.416 38.462 0.00 0.00 0.00 4.00
1579 1629 4.847512 TGTAAAATTGACCAGGGTCTAGGA 59.152 41.667 18.60 3.93 44.80 2.94
1580 1630 5.491078 TGTAAAATTGACCAGGGTCTAGGAT 59.509 40.000 18.60 5.88 44.80 3.24
1581 1631 4.510167 AAATTGACCAGGGTCTAGGATG 57.490 45.455 18.60 0.00 44.80 3.51
1582 1632 2.642171 TTGACCAGGGTCTAGGATGT 57.358 50.000 18.60 0.00 44.80 3.06
1583 1633 2.642171 TGACCAGGGTCTAGGATGTT 57.358 50.000 18.60 0.00 44.80 2.71
1584 1634 2.467880 TGACCAGGGTCTAGGATGTTC 58.532 52.381 18.60 0.00 44.80 3.18
1585 1635 2.044492 TGACCAGGGTCTAGGATGTTCT 59.956 50.000 18.60 0.00 44.80 3.01
1586 1636 2.696187 GACCAGGGTCTAGGATGTTCTC 59.304 54.545 11.21 0.00 41.57 2.87
1587 1637 2.316372 ACCAGGGTCTAGGATGTTCTCT 59.684 50.000 0.00 0.00 0.00 3.10
1588 1638 3.532232 ACCAGGGTCTAGGATGTTCTCTA 59.468 47.826 0.00 0.00 0.00 2.43
1589 1639 4.171044 ACCAGGGTCTAGGATGTTCTCTAT 59.829 45.833 0.00 0.00 0.00 1.98
1590 1640 4.526262 CCAGGGTCTAGGATGTTCTCTATG 59.474 50.000 0.00 0.00 0.00 2.23
1591 1641 5.144100 CAGGGTCTAGGATGTTCTCTATGT 58.856 45.833 0.00 0.00 0.00 2.29
1592 1642 5.010516 CAGGGTCTAGGATGTTCTCTATGTG 59.989 48.000 0.00 0.00 0.00 3.21
1593 1643 4.262249 GGGTCTAGGATGTTCTCTATGTGC 60.262 50.000 0.00 0.00 0.00 4.57
1594 1644 4.586841 GGTCTAGGATGTTCTCTATGTGCT 59.413 45.833 0.00 0.00 0.00 4.40
1595 1645 5.069781 GGTCTAGGATGTTCTCTATGTGCTT 59.930 44.000 0.00 0.00 0.00 3.91
1596 1646 6.407525 GGTCTAGGATGTTCTCTATGTGCTTT 60.408 42.308 0.00 0.00 0.00 3.51
1597 1647 7.044798 GTCTAGGATGTTCTCTATGTGCTTTT 58.955 38.462 0.00 0.00 0.00 2.27
1598 1648 7.550906 GTCTAGGATGTTCTCTATGTGCTTTTT 59.449 37.037 0.00 0.00 0.00 1.94
1661 1712 4.020218 GGCTGCAGGATACCACATAAGATA 60.020 45.833 17.12 0.00 37.17 1.98
1666 1717 6.873605 TGCAGGATACCACATAAGATAATTCG 59.126 38.462 0.00 0.00 37.17 3.34
1687 1738 2.865343 ACTTCTATAGCGTGAACGGG 57.135 50.000 4.84 0.00 40.23 5.28
1691 1742 1.884579 TCTATAGCGTGAACGGGATCC 59.115 52.381 1.92 1.92 40.23 3.36
1692 1743 1.611977 CTATAGCGTGAACGGGATCCA 59.388 52.381 15.23 0.00 40.23 3.41
1699 1750 0.107703 TGAACGGGATCCACATCTGC 60.108 55.000 15.23 0.00 0.00 4.26
1783 1835 5.087323 AGTCTATCAAGTGAACCTGGAGAA 58.913 41.667 0.00 0.00 0.00 2.87
1804 1856 7.432252 GGAGAACATGTTTCTTTTGTTACAGTG 59.568 37.037 13.36 0.00 33.92 3.66
1915 1967 3.979501 AGGTCCATGGCCATTCTTAAT 57.020 42.857 17.92 0.00 0.00 1.40
1939 1991 6.299805 ACTTTCATCAGCTTCATACAGGTA 57.700 37.500 0.00 0.00 0.00 3.08
1979 2038 2.178912 TTGTGCTGGCCACTAACTAC 57.821 50.000 0.00 0.00 44.92 2.73
1980 2039 1.348064 TGTGCTGGCCACTAACTACT 58.652 50.000 0.00 0.00 44.92 2.57
1983 2042 3.259902 GTGCTGGCCACTAACTACTAAC 58.740 50.000 0.00 0.00 41.35 2.34
1984 2043 3.056035 GTGCTGGCCACTAACTACTAACT 60.056 47.826 0.00 0.00 41.35 2.24
1985 2044 4.159135 GTGCTGGCCACTAACTACTAACTA 59.841 45.833 0.00 0.00 41.35 2.24
1986 2045 4.960469 TGCTGGCCACTAACTACTAACTAT 59.040 41.667 0.00 0.00 0.00 2.12
1987 2046 5.424252 TGCTGGCCACTAACTACTAACTATT 59.576 40.000 0.00 0.00 0.00 1.73
1988 2047 6.608405 TGCTGGCCACTAACTACTAACTATTA 59.392 38.462 0.00 0.00 0.00 0.98
1989 2048 7.124599 TGCTGGCCACTAACTACTAACTATTAA 59.875 37.037 0.00 0.00 0.00 1.40
1990 2049 8.148999 GCTGGCCACTAACTACTAACTATTAAT 58.851 37.037 0.00 0.00 0.00 1.40
2322 2382 6.648310 AGAAGCGATGTGATAATATTGACTGG 59.352 38.462 0.00 0.00 0.00 4.00
2477 2538 4.603131 TCTTCCTGCATATGCTTTTCCTT 58.397 39.130 27.13 0.00 42.66 3.36
2478 2539 5.018809 TCTTCCTGCATATGCTTTTCCTTT 58.981 37.500 27.13 0.00 42.66 3.11
2485 2546 7.715249 CCTGCATATGCTTTTCCTTTAGTACTA 59.285 37.037 27.13 0.00 42.66 1.82
2576 2638 9.337396 GATATGTTTGTGTTTCTGGTCCATATA 57.663 33.333 0.00 0.00 0.00 0.86
2581 2643 7.684317 TTGTGTTTCTGGTCCATATATAGGA 57.316 36.000 0.00 0.00 0.00 2.94
2673 2735 3.973305 TGATATGGCAGTGGTTGAGGATA 59.027 43.478 0.00 0.00 0.00 2.59
2890 2952 7.255277 GCTTTTAGGGCTATCGAATTCTTCAAT 60.255 37.037 3.52 0.00 0.00 2.57
3138 3200 5.133660 TGCCCTTGGATGTTAAGGTACATAT 59.866 40.000 0.00 0.00 42.52 1.78
3225 3300 6.554419 TGCACAGTCATGCTATTTTGTAATC 58.446 36.000 0.00 0.00 46.28 1.75
3264 3339 0.682532 TTGCCACTTGCCACTTGTCA 60.683 50.000 0.00 0.00 40.16 3.58
3665 3963 9.820725 TTATGTATGGCTTATAACGTGTTTACT 57.179 29.630 0.00 0.00 0.00 2.24
3843 4141 5.276440 AGAGTCATCAGGAACTCAGGTTAT 58.724 41.667 5.42 0.00 34.60 1.89
3890 4188 2.759973 TGCTGAGGGTAGCTCGGG 60.760 66.667 0.00 0.00 44.01 5.14
4071 4378 0.478072 TTGGTTGTGGCTGATGAGGT 59.522 50.000 0.00 0.00 0.00 3.85
4076 4383 3.003480 GTTGTGGCTGATGAGGTTACTC 58.997 50.000 0.00 0.00 44.23 2.59
4094 4401 4.561735 ACTCGGAATTTTTCGCTTTCAA 57.438 36.364 0.00 0.00 0.00 2.69
4103 4410 5.950758 TTTTTCGCTTTCAATACAGGCTA 57.049 34.783 0.00 0.00 0.00 3.93
4104 4411 4.939509 TTTCGCTTTCAATACAGGCTAC 57.060 40.909 0.00 0.00 0.00 3.58
4105 4412 2.536365 TCGCTTTCAATACAGGCTACG 58.464 47.619 0.00 0.00 0.00 3.51
4106 4413 2.094390 TCGCTTTCAATACAGGCTACGT 60.094 45.455 0.00 0.00 0.00 3.57
4107 4414 2.029244 CGCTTTCAATACAGGCTACGTG 59.971 50.000 0.00 0.00 0.00 4.49
4108 4415 2.223044 GCTTTCAATACAGGCTACGTGC 60.223 50.000 0.00 0.00 41.94 5.34
4109 4416 3.262420 CTTTCAATACAGGCTACGTGCT 58.738 45.455 0.00 0.00 42.39 4.40
4110 4417 2.293677 TCAATACAGGCTACGTGCTG 57.706 50.000 0.00 3.53 42.39 4.41
4111 4418 1.548719 TCAATACAGGCTACGTGCTGT 59.451 47.619 0.00 8.83 42.39 4.40
4114 4421 4.119862 CAATACAGGCTACGTGCTGTAAT 58.880 43.478 17.02 11.34 42.39 1.89
4130 4627 7.807907 CGTGCTGTAATAGTTTTCCAAAGAATT 59.192 33.333 0.00 0.00 0.00 2.17
4146 4643 4.918810 AGAATTTTCAACCAACGAAGCT 57.081 36.364 0.00 0.00 0.00 3.74
4159 4697 5.293569 ACCAACGAAGCTAGTAATACATTGC 59.706 40.000 0.00 0.00 0.00 3.56
4217 4755 2.556622 TGATGACACACTGTAGCTTCGA 59.443 45.455 0.00 0.00 0.00 3.71
4271 4809 4.285260 ACCATACGAAGTTACCAACTCCTT 59.715 41.667 0.00 0.00 37.78 3.36
4272 4810 5.221783 ACCATACGAAGTTACCAACTCCTTT 60.222 40.000 0.00 0.00 37.78 3.11
4273 4811 5.704053 CCATACGAAGTTACCAACTCCTTTT 59.296 40.000 0.00 0.00 37.78 2.27
4274 4812 6.128363 CCATACGAAGTTACCAACTCCTTTTC 60.128 42.308 0.00 0.00 37.78 2.29
4285 4823 9.675464 TTACCAACTCCTTTTCGATGTAATAAT 57.325 29.630 0.00 0.00 0.00 1.28
4286 4824 7.985476 ACCAACTCCTTTTCGATGTAATAATG 58.015 34.615 0.00 0.00 0.00 1.90
4315 4853 2.315925 ACCTATGACAAGACCATGCG 57.684 50.000 0.00 0.00 0.00 4.73
4331 4869 5.077564 ACCATGCGAACTCCTATACTGATA 58.922 41.667 0.00 0.00 0.00 2.15
4345 4883 7.452813 TCCTATACTGATACTCATCACTGCATT 59.547 37.037 0.00 0.00 36.22 3.56
4382 4920 4.262463 GGTAAGATCATGCTATGTCCCGAA 60.262 45.833 0.00 0.00 0.00 4.30
4428 4966 1.258676 GTGTCGTCCTTCTTCCCTCT 58.741 55.000 0.00 0.00 0.00 3.69
4431 4969 1.893801 GTCGTCCTTCTTCCCTCTGAA 59.106 52.381 0.00 0.00 0.00 3.02
4534 5072 2.721274 TGATGTCGGCCATGTTTTTG 57.279 45.000 2.24 0.00 32.56 2.44
4583 5121 1.472201 GCACGATCTTCTCCAGCATCA 60.472 52.381 0.00 0.00 0.00 3.07
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
37 38 2.496070 GGGAAGTTTAATTGGTGGCCTC 59.504 50.000 3.32 0.00 0.00 4.70
50 59 5.012871 GGTACTAGTTTCTCAGGGGAAGTTT 59.987 44.000 0.00 0.00 0.00 2.66
359 393 0.102481 ATAGACGTGCATCGGACCAC 59.898 55.000 12.18 1.65 44.69 4.16
411 445 0.392729 AAGATGTGAGCTGCTCTGCC 60.393 55.000 28.04 16.86 0.00 4.85
528 569 0.602562 GAGATGAGATGCTCCTCCGG 59.397 60.000 0.00 0.00 32.32 5.14
538 579 2.919856 CCGGCGGGGAGATGAGAT 60.920 66.667 20.56 0.00 38.47 2.75
539 580 4.137615 TCCGGCGGGGAGATGAGA 62.138 66.667 27.98 0.00 40.94 3.27
550 591 1.811266 CAAGGTCAGTCATCCGGCG 60.811 63.158 0.00 0.00 0.00 6.46
557 598 2.583441 CGGGCTCCAAGGTCAGTCA 61.583 63.158 0.00 0.00 0.00 3.41
728 775 4.222847 GACCGAGGCGACCATCCC 62.223 72.222 0.00 0.00 0.00 3.85
730 777 2.413765 GAGACCGAGGCGACCATC 59.586 66.667 0.00 0.00 0.00 3.51
869 916 3.060602 AGCACTCTCTCGCAAAAAGTAC 58.939 45.455 0.00 0.00 0.00 2.73
903 950 0.590195 GAGGGCTAGCGATGCAAATG 59.410 55.000 9.00 0.00 0.00 2.32
934 981 2.363683 CAAACTCCAGAGATTCCCTGC 58.636 52.381 0.70 0.00 0.00 4.85
937 984 2.682269 GCTCCAAACTCCAGAGATTCCC 60.682 54.545 0.70 0.00 0.00 3.97
964 1011 4.977963 CCGTTCTTCCGCGTAAATTCTATA 59.022 41.667 4.92 0.00 0.00 1.31
968 1015 1.728425 ACCGTTCTTCCGCGTAAATTC 59.272 47.619 4.92 0.00 0.00 2.17
991 1038 4.035792 CGGCGGTGGATATTTTACATTCAA 59.964 41.667 0.00 0.00 0.00 2.69
1204 1254 2.202987 GGATCGTCAGCAGGGCAG 60.203 66.667 0.00 0.00 0.00 4.85
1271 1321 1.083706 ATGCCCAACTCCCTCTCCT 59.916 57.895 0.00 0.00 0.00 3.69
1282 1332 2.614969 AGGAGGAGGCATGCCCAA 60.615 61.111 33.14 0.00 36.58 4.12
1293 1343 2.283894 TTCGGCAGAGCAGGAGGA 60.284 61.111 0.00 0.00 0.00 3.71
1398 1448 2.002586 AGTCACAATGCGAGAAATCGG 58.997 47.619 0.00 0.00 0.00 4.18
1401 1451 3.814842 TCACAAGTCACAATGCGAGAAAT 59.185 39.130 0.00 0.00 0.00 2.17
1490 1540 8.049721 CAGTATTCTTGTTCCCTAATCTCCTTT 58.950 37.037 0.00 0.00 0.00 3.11
1503 1553 9.846248 AAAGCATTGATAACAGTATTCTTGTTC 57.154 29.630 0.00 0.00 0.00 3.18
1523 1573 7.031372 CAGCATGTACAATCTTTACAAAGCAT 58.969 34.615 0.00 0.00 37.17 3.79
1570 1620 4.262249 GCACATAGAGAACATCCTAGACCC 60.262 50.000 0.00 0.00 0.00 4.46
1605 1655 7.062839 GCACTACTAAGCATATAGAGAACATGC 59.937 40.741 0.00 0.00 44.29 4.06
1606 1656 7.543868 GGCACTACTAAGCATATAGAGAACATG 59.456 40.741 0.00 0.00 0.00 3.21
1614 1664 7.316640 CCTAACTGGCACTACTAAGCATATAG 58.683 42.308 0.00 0.00 0.00 1.31
1661 1712 5.680229 CGTTCACGCTATAGAAGTACGAATT 59.320 40.000 3.21 0.00 0.00 2.17
1666 1717 3.313526 TCCCGTTCACGCTATAGAAGTAC 59.686 47.826 3.21 0.00 38.18 2.73
1674 1725 0.104304 GTGGATCCCGTTCACGCTAT 59.896 55.000 9.90 0.00 38.18 2.97
1712 1763 9.362151 TCCTGAAGAAAATGGTAAAATGTAGTT 57.638 29.630 0.00 0.00 0.00 2.24
1763 1815 5.152623 TGTTCTCCAGGTTCACTTGATAG 57.847 43.478 0.00 0.00 0.00 2.08
1783 1835 7.540745 GTGAACACTGTAACAAAAGAAACATGT 59.459 33.333 0.00 0.00 0.00 3.21
1915 1967 6.299805 ACCTGTATGAAGCTGATGAAAGTA 57.700 37.500 0.00 0.00 0.00 2.24
1939 1991 6.264067 CACAAACAAGAGGAAAAGGAAGATCT 59.736 38.462 0.00 0.00 0.00 2.75
2009 2068 9.211485 GTGATTTGAATCATTCCAAACTTTGAT 57.789 29.630 9.42 0.00 46.17 2.57
2010 2069 8.423349 AGTGATTTGAATCATTCCAAACTTTGA 58.577 29.630 9.42 0.00 46.17 2.69
2011 2070 8.492748 CAGTGATTTGAATCATTCCAAACTTTG 58.507 33.333 9.42 0.00 46.17 2.77
2012 2071 8.206189 ACAGTGATTTGAATCATTCCAAACTTT 58.794 29.630 9.42 0.00 46.17 2.66
2013 2072 7.729116 ACAGTGATTTGAATCATTCCAAACTT 58.271 30.769 9.42 0.00 46.17 2.66
2014 2073 7.014518 TGACAGTGATTTGAATCATTCCAAACT 59.985 33.333 9.42 0.00 46.17 2.66
2018 2077 5.106038 GCTGACAGTGATTTGAATCATTCCA 60.106 40.000 9.42 5.56 46.17 3.53
2371 2431 5.532779 GCCTCGAGAATAATTTCCCTCAATT 59.467 40.000 15.71 0.00 31.84 2.32
2576 2638 9.036980 TCAAGTTTTAGCTCTAGAAAGTCCTAT 57.963 33.333 0.00 0.00 0.00 2.57
2581 2643 7.304497 TCCTCAAGTTTTAGCTCTAGAAAGT 57.696 36.000 0.00 0.00 0.00 2.66
2673 2735 4.679373 AGCTCGTGAAGATATGTCCAAT 57.321 40.909 0.00 0.00 0.00 3.16
3148 3210 4.409901 TCATGAGGAGGACATGCATTAGAA 59.590 41.667 0.00 0.00 43.03 2.10
3225 3300 5.402270 GGCAACAATAAAAAGCAGTGTACTG 59.598 40.000 7.64 7.64 46.40 2.74
3399 3476 4.524802 ATTGTAGAAATCCCATGCCTCA 57.475 40.909 0.00 0.00 0.00 3.86
3607 3685 8.792830 ACACATACAGCAACAAAGACTAATAT 57.207 30.769 0.00 0.00 0.00 1.28
3843 4141 1.110442 CACCCTGTTTTCCTTGTGCA 58.890 50.000 0.00 0.00 0.00 4.57
3890 4188 3.248602 GTCGTGGCACCAATCTCATATTC 59.751 47.826 12.86 0.00 0.00 1.75
4071 4378 5.676532 TGAAAGCGAAAAATTCCGAGTAA 57.323 34.783 0.00 0.00 0.00 2.24
4076 4383 5.286082 CCTGTATTGAAAGCGAAAAATTCCG 59.714 40.000 0.00 0.00 0.00 4.30
4078 4385 5.863935 AGCCTGTATTGAAAGCGAAAAATTC 59.136 36.000 0.00 0.00 0.00 2.17
4081 4388 4.846779 AGCCTGTATTGAAAGCGAAAAA 57.153 36.364 0.00 0.00 0.00 1.94
4087 4394 2.223044 GCACGTAGCCTGTATTGAAAGC 60.223 50.000 0.00 0.00 37.23 3.51
4103 4410 5.761234 TCTTTGGAAAACTATTACAGCACGT 59.239 36.000 0.00 0.00 0.00 4.49
4104 4411 6.236017 TCTTTGGAAAACTATTACAGCACG 57.764 37.500 0.00 0.00 0.00 5.34
4105 4412 9.476202 AAATTCTTTGGAAAACTATTACAGCAC 57.524 29.630 0.00 0.00 34.90 4.40
4114 4421 9.157104 GTTGGTTGAAAATTCTTTGGAAAACTA 57.843 29.630 0.00 0.00 34.90 2.24
4130 4627 6.930164 TGTATTACTAGCTTCGTTGGTTGAAA 59.070 34.615 0.00 0.00 0.00 2.69
4133 4630 6.903883 ATGTATTACTAGCTTCGTTGGTTG 57.096 37.500 0.00 0.00 0.00 3.77
4217 4755 5.311649 ACCATGGGAGTTAGCATGATCTTAT 59.688 40.000 18.09 0.00 0.00 1.73
4285 4823 5.127194 GTCTTGTCATAGGTAGTGATGTCCA 59.873 44.000 0.00 0.00 0.00 4.02
4286 4824 5.452077 GGTCTTGTCATAGGTAGTGATGTCC 60.452 48.000 0.00 0.00 0.00 4.02
4331 4869 5.221342 GCTACCTAGTAATGCAGTGATGAGT 60.221 44.000 0.00 0.00 0.00 3.41
4345 4883 7.339721 GCATGATCTTACCATAGCTACCTAGTA 59.660 40.741 0.00 0.00 0.00 1.82
4382 4920 0.456312 GTCGTCGCCTTCATCGAGTT 60.456 55.000 0.00 0.00 36.56 3.01
4428 4966 3.685756 GGAACACGGACGGAATAAATTCA 59.314 43.478 5.15 0.00 38.53 2.57
4431 4969 2.635714 GGGAACACGGACGGAATAAAT 58.364 47.619 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.