Multiple sequence alignment - TraesCS2D01G032800

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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 TraesCS2D01G032800 chr2D 100.000 2183 0 0 1 2183 12789299 12787117 0.000000e+00 4032.0
1 TraesCS2D01G032800 chr2D 87.075 588 42 19 8 572 12866649 12866073 3.060000e-178 634.0
2 TraesCS2D01G032800 chr2D 80.882 272 27 16 1384 1645 12865805 12865549 7.950000e-45 191.0
3 TraesCS2D01G032800 chr2B 89.744 507 28 8 731 1213 23538564 23538058 5.120000e-176 627.0
4 TraesCS2D01G032800 chr2B 85.985 528 31 17 1 512 23541977 23541477 1.920000e-145 525.0
5 TraesCS2D01G032800 chr2B 89.044 429 22 12 1736 2152 23537422 23537007 1.930000e-140 508.0
6 TraesCS2D01G032800 chr2B 82.152 381 31 20 1350 1705 23537968 23537600 2.120000e-75 292.0
7 TraesCS2D01G032800 chr2B 97.500 40 1 0 2144 2183 23536869 23536830 3.890000e-08 69.4
8 TraesCS2D01G032800 chr2A 88.136 413 19 15 1741 2125 14953181 14952771 4.240000e-127 464.0
9 TraesCS2D01G032800 chr2A 81.746 630 44 42 768 1337 14954374 14953756 5.490000e-126 460.0
10 TraesCS2D01G032800 chr2A 83.442 459 34 19 158 599 14954792 14954359 2.630000e-104 388.0
11 TraesCS2D01G032800 chr2A 81.940 299 25 16 1461 1740 14953673 14953385 2.180000e-55 226.0
12 TraesCS2D01G032800 chr2A 97.436 39 1 0 2145 2183 14952777 14952739 1.400000e-07 67.6


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 TraesCS2D01G032800 chr2D 12787117 12789299 2182 True 4032.00 4032 100.0000 1 2183 1 chr2D.!!$R1 2182
1 TraesCS2D01G032800 chr2D 12865549 12866649 1100 True 412.50 634 83.9785 8 1645 2 chr2D.!!$R2 1637
2 TraesCS2D01G032800 chr2B 23536830 23541977 5147 True 404.28 627 88.8850 1 2183 5 chr2B.!!$R1 2182
3 TraesCS2D01G032800 chr2A 14952739 14954792 2053 True 321.12 464 86.5400 158 2183 5 chr2A.!!$R1 2025

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
256 265 0.180171 TTCCTGGTACATCATGGCCG 59.82 55.0 0.0 0.0 38.2 6.13 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1309 4205 0.61585 GGTGAGGGAGAGGAAACAGG 59.384 60.0 0.0 0.0 0.0 4.0 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
52 53 3.316308 CCAGCACAGCAGTTTTAGAAACT 59.684 43.478 0.44 0.44 0.00 2.66
137 139 7.118390 CCTCTGTTCGATTTTCTGATACACTTT 59.882 37.037 0.00 0.00 0.00 2.66
216 225 5.227152 AGCACGTTTGTTCTGAAAGTTTTT 58.773 33.333 0.00 0.00 33.76 1.94
248 257 3.761752 CCGATTTTGGTTTCCTGGTACAT 59.238 43.478 0.00 0.00 38.20 2.29
256 265 0.180171 TTCCTGGTACATCATGGCCG 59.820 55.000 0.00 0.00 38.20 6.13
264 273 2.799126 ACATCATGGCCGGAACTTTA 57.201 45.000 5.05 0.00 0.00 1.85
266 275 4.431416 ACATCATGGCCGGAACTTTATA 57.569 40.909 5.05 0.00 0.00 0.98
333 342 3.734463 TGGTTGATACGAGTTGCTTTCA 58.266 40.909 0.00 0.00 0.00 2.69
433 457 3.697045 TCCCACCAACAACACAGTAAAAG 59.303 43.478 0.00 0.00 0.00 2.27
516 542 5.386958 GGTGACAACCTTCCTTTTTATCC 57.613 43.478 0.00 0.00 43.84 2.59
547 575 2.734670 CAAGTTGCAACATGGAGTGTG 58.265 47.619 30.11 11.14 41.14 3.82
591 647 2.322355 ACATCTAGTGCCTGACATGC 57.678 50.000 0.00 0.00 0.00 4.06
592 648 1.556451 ACATCTAGTGCCTGACATGCA 59.444 47.619 0.78 0.78 36.12 3.96
611 667 1.284785 CAGGCCCCAGGAATGAAAGTA 59.715 52.381 0.00 0.00 0.00 2.24
633 689 1.001487 TCACGCATGAACCTTTGCAAG 60.001 47.619 0.00 0.00 38.80 4.01
634 690 1.032014 ACGCATGAACCTTTGCAAGT 58.968 45.000 0.00 0.00 38.80 3.16
635 691 1.001378 ACGCATGAACCTTTGCAAGTC 60.001 47.619 0.00 0.00 38.80 3.01
648 704 0.593128 GCAAGTCGCAACAGGAATGT 59.407 50.000 0.00 0.00 41.79 2.71
656 712 1.470098 GCAACAGGAATGTAGTGGCAG 59.530 52.381 0.00 0.00 0.00 4.85
659 715 2.260822 ACAGGAATGTAGTGGCAGTCT 58.739 47.619 0.00 0.00 34.35 3.24
662 718 2.237392 AGGAATGTAGTGGCAGTCTTCC 59.763 50.000 17.26 17.26 34.35 3.46
664 720 3.526534 GAATGTAGTGGCAGTCTTCCTC 58.473 50.000 0.00 0.00 31.60 3.71
665 721 1.267121 TGTAGTGGCAGTCTTCCTCC 58.733 55.000 0.00 0.00 0.00 4.30
668 724 1.439543 AGTGGCAGTCTTCCTCCTTT 58.560 50.000 0.00 0.00 0.00 3.11
669 725 1.072965 AGTGGCAGTCTTCCTCCTTTG 59.927 52.381 0.00 0.00 0.00 2.77
682 738 6.663523 TCTTCCTCCTTTGTTTTTCAACTCTT 59.336 34.615 0.00 0.00 35.61 2.85
702 758 0.740737 GCAAGTTGCAACTGGAGTGT 59.259 50.000 33.61 15.14 44.26 3.55
712 768 2.726832 ACTGGAGTGTAGCGAAACTC 57.273 50.000 8.56 8.56 41.75 3.01
762 3553 4.808364 GCAATGTTTTCTTGCTGTTAACCA 59.192 37.500 2.48 0.00 44.36 3.67
765 3556 5.843673 TGTTTTCTTGCTGTTAACCATCA 57.156 34.783 2.48 0.00 0.00 3.07
948 3801 6.513884 GCAACAGAACATCACAAGATTCAGAA 60.514 38.462 0.00 0.00 30.20 3.02
958 3820 3.823304 ACAAGATTCAGAAAAGCACCTCC 59.177 43.478 0.00 0.00 0.00 4.30
966 3828 1.004745 GAAAAGCACCTCCATCTCCCA 59.995 52.381 0.00 0.00 0.00 4.37
969 3831 0.980231 AGCACCTCCATCTCCCAGTC 60.980 60.000 0.00 0.00 0.00 3.51
974 3836 1.690633 TCCATCTCCCAGTCCCAGC 60.691 63.158 0.00 0.00 0.00 4.85
979 3841 2.039624 TCCCAGTCCCAGCCTCTC 59.960 66.667 0.00 0.00 0.00 3.20
980 3842 2.040278 CCCAGTCCCAGCCTCTCT 59.960 66.667 0.00 0.00 0.00 3.10
1098 3975 2.854076 CCCAAGGGGTTCCTGCTT 59.146 61.111 0.00 0.00 44.07 3.91
1205 4088 1.133181 TCCACCCAGATGAACCAGCA 61.133 55.000 0.00 0.00 0.00 4.41
1228 4111 3.755628 CGTGGACGGACGGATGGT 61.756 66.667 0.00 0.00 35.65 3.55
1229 4112 2.125673 GTGGACGGACGGATGGTG 60.126 66.667 0.00 0.00 0.00 4.17
1230 4113 3.387091 TGGACGGACGGATGGTGG 61.387 66.667 0.00 0.00 0.00 4.61
1231 4114 4.832608 GGACGGACGGATGGTGGC 62.833 72.222 0.00 0.00 0.00 5.01
1232 4115 3.771160 GACGGACGGATGGTGGCT 61.771 66.667 0.00 0.00 0.00 4.75
1233 4116 3.718210 GACGGACGGATGGTGGCTC 62.718 68.421 0.00 0.00 0.00 4.70
1234 4117 4.873129 CGGACGGATGGTGGCTCG 62.873 72.222 0.00 0.00 0.00 5.03
1275 4158 1.214589 CCGAGGTTTGACCGTCGAT 59.785 57.895 15.56 0.00 44.90 3.59
1276 4159 1.076533 CCGAGGTTTGACCGTCGATG 61.077 60.000 15.56 0.00 44.90 3.84
1278 4161 1.359459 GAGGTTTGACCGTCGATGGC 61.359 60.000 23.85 16.12 44.90 4.40
1306 4202 4.963276 TCGATGATGCCCAAGTAAAAAG 57.037 40.909 0.00 0.00 0.00 2.27
1308 4204 3.443681 CGATGATGCCCAAGTAAAAAGGT 59.556 43.478 0.00 0.00 0.00 3.50
1309 4205 4.438744 CGATGATGCCCAAGTAAAAAGGTC 60.439 45.833 0.00 0.00 0.00 3.85
1312 4208 2.593026 TGCCCAAGTAAAAAGGTCCTG 58.407 47.619 0.00 0.00 0.00 3.86
1313 4209 2.091555 TGCCCAAGTAAAAAGGTCCTGT 60.092 45.455 0.00 0.00 0.00 4.00
1322 4225 3.510531 AAAAGGTCCTGTTTCCTCTCC 57.489 47.619 0.00 0.00 33.09 3.71
1337 4240 2.284921 TCCCTCACCCTGCTCTGG 60.285 66.667 0.00 0.00 0.00 3.86
1345 4262 1.153289 CCCTGCTCTGGTTCCATCG 60.153 63.158 0.00 0.00 0.00 3.84
1367 4284 9.507280 CATCGTTGCTCAATCTTTTGTAATAAT 57.493 29.630 0.00 0.00 34.32 1.28
1437 4357 3.092403 CCATCGCCATGTCACACG 58.908 61.111 0.00 0.00 0.00 4.49
1517 4445 9.798994 AATGCAGAAAGATTTTAGATTCATGTC 57.201 29.630 0.00 0.00 0.00 3.06
1518 4446 7.765307 TGCAGAAAGATTTTAGATTCATGTCC 58.235 34.615 0.00 0.00 0.00 4.02
1521 4449 8.119226 CAGAAAGATTTTAGATTCATGTCCGTC 58.881 37.037 0.00 0.00 0.00 4.79
1523 4451 8.567285 AAAGATTTTAGATTCATGTCCGTCTT 57.433 30.769 0.00 0.00 0.00 3.01
1524 4452 8.567285 AAGATTTTAGATTCATGTCCGTCTTT 57.433 30.769 0.00 0.00 0.00 2.52
1587 4532 0.950836 TGAATTCGTGGTTGCACCTG 59.049 50.000 0.04 0.97 39.58 4.00
1591 4536 1.444119 TTCGTGGTTGCACCTGCTTC 61.444 55.000 6.83 0.00 39.58 3.86
1595 4540 2.281484 GTTGCACCTGCTTCCCGA 60.281 61.111 0.00 0.00 42.66 5.14
1596 4541 1.675641 GTTGCACCTGCTTCCCGAT 60.676 57.895 0.00 0.00 42.66 4.18
1597 4542 1.074775 TTGCACCTGCTTCCCGATT 59.925 52.632 0.00 0.00 42.66 3.34
1598 4543 1.243342 TTGCACCTGCTTCCCGATTG 61.243 55.000 0.00 0.00 42.66 2.67
1620 4565 1.890876 TCTTCGGAAACCATGGTGTG 58.109 50.000 20.60 8.85 0.00 3.82
1644 4590 8.968242 GTGGTTTGATTCAATCTACAACTTTTC 58.032 33.333 15.23 0.00 29.27 2.29
1646 4592 9.528018 GGTTTGATTCAATCTACAACTTTTCAA 57.472 29.630 0.00 0.00 0.00 2.69
1680 4626 4.163458 TGATGATACACCCAACCTAGGAAC 59.837 45.833 17.98 0.00 0.00 3.62
1685 4631 1.217244 CCCAACCTAGGAACGGACG 59.783 63.158 17.98 0.00 0.00 4.79
1686 4632 1.252904 CCCAACCTAGGAACGGACGA 61.253 60.000 17.98 0.00 0.00 4.20
1687 4633 0.604578 CCAACCTAGGAACGGACGAA 59.395 55.000 17.98 0.00 0.00 3.85
1688 4634 1.206371 CCAACCTAGGAACGGACGAAT 59.794 52.381 17.98 0.00 0.00 3.34
1709 4655 3.916761 TGAATGAATCAACCAAGCAAGC 58.083 40.909 0.00 0.00 34.30 4.01
1711 4657 4.202233 TGAATGAATCAACCAAGCAAGCAA 60.202 37.500 0.00 0.00 34.30 3.91
1712 4658 3.374220 TGAATCAACCAAGCAAGCAAG 57.626 42.857 0.00 0.00 0.00 4.01
1716 4662 3.883830 TCAACCAAGCAAGCAAGAAAA 57.116 38.095 0.00 0.00 0.00 2.29
1762 4912 2.100631 ATTCCTCGCCGCTTTCACG 61.101 57.895 0.00 0.00 0.00 4.35
1857 5021 1.006998 ACACCACACCATATGGCCATT 59.993 47.619 26.37 9.15 41.31 3.16
1871 5035 8.152246 CCATATGGCCATTGTCAATAATTTTCT 58.848 33.333 26.37 0.00 0.00 2.52
1876 5040 9.434420 TGGCCATTGTCAATAATTTTCTTTTAG 57.566 29.630 0.00 0.00 0.00 1.85
1918 5086 2.223340 GCCGCCATTTCTGACATGTTAG 60.223 50.000 11.29 11.29 0.00 2.34
1921 5089 4.437390 CCGCCATTTCTGACATGTTAGTTC 60.437 45.833 16.43 0.00 0.00 3.01
1930 5098 4.782156 TGACATGTTAGTTCATTGTTGCG 58.218 39.130 0.00 0.00 0.00 4.85
1990 5163 2.978013 GCACAATGCATACGTCAGATG 58.022 47.619 0.00 0.00 44.26 2.90
2021 5198 1.502163 GCATATGCACCTCGCTGTCC 61.502 60.000 22.84 0.00 43.06 4.02
2047 5228 3.538780 GAACGTCACCTTTCGCTAAAAC 58.461 45.455 0.00 0.00 0.00 2.43
2064 5245 6.193410 CGCTAAAACAACATTTCATCTCGATG 59.807 38.462 0.45 0.45 40.09 3.84
2113 5295 1.728971 GCGGAGACAGACATTTCACAG 59.271 52.381 0.00 0.00 0.00 3.66
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
4 5 1.669779 CAAAACCCGGTGTTACGACAA 59.330 47.619 0.00 0.00 37.57 3.18
17 18 2.425592 GCTGGGGCAACAAAACCC 59.574 61.111 0.00 0.00 46.24 4.11
77 78 6.074544 AGCAGAACGAATATACACCTCTAC 57.925 41.667 0.00 0.00 0.00 2.59
81 82 4.894114 ACCTAGCAGAACGAATATACACCT 59.106 41.667 0.00 0.00 0.00 4.00
92 93 1.471676 GGATGACCACCTAGCAGAACG 60.472 57.143 0.00 0.00 35.97 3.95
137 139 1.270777 GGAAACGAGACGAACGCGAA 61.271 55.000 15.93 0.00 44.01 4.70
185 194 0.379316 AACAAACGTGCTCGGAAACC 59.621 50.000 13.32 0.00 41.85 3.27
220 229 5.128991 ACCAGGAAACCAAAATCGGTAAAAA 59.871 36.000 0.00 0.00 38.76 1.94
221 230 4.650131 ACCAGGAAACCAAAATCGGTAAAA 59.350 37.500 0.00 0.00 38.76 1.52
222 231 4.216708 ACCAGGAAACCAAAATCGGTAAA 58.783 39.130 0.00 0.00 38.76 2.01
223 232 3.834938 ACCAGGAAACCAAAATCGGTAA 58.165 40.909 0.00 0.00 38.76 2.85
248 257 5.042463 TCAATATAAAGTTCCGGCCATGA 57.958 39.130 2.24 0.00 0.00 3.07
266 275 8.133024 TGAAAACCTATAAAATGCACCTCAAT 57.867 30.769 0.00 0.00 0.00 2.57
333 342 2.594592 GGCGCCACCAGTTTGACT 60.595 61.111 24.80 0.00 38.86 3.41
513 539 0.188342 AACTTGCAGGTGTTGGGGAT 59.812 50.000 0.65 0.00 0.00 3.85
515 541 1.741525 CAACTTGCAGGTGTTGGGG 59.258 57.895 0.65 0.00 39.64 4.96
516 542 1.067916 GCAACTTGCAGGTGTTGGG 59.932 57.895 21.94 6.14 44.26 4.12
565 621 3.068873 GTCAGGCACTAGATGTAGAAGGG 59.931 52.174 3.49 0.00 36.02 3.95
591 647 0.040204 ACTTTCATTCCTGGGGCCTG 59.960 55.000 0.84 0.00 0.00 4.85
592 648 1.681229 TACTTTCATTCCTGGGGCCT 58.319 50.000 0.84 0.00 0.00 5.19
611 667 1.612950 TGCAAAGGTTCATGCGTGAAT 59.387 42.857 23.53 6.79 45.46 2.57
633 689 1.732259 CCACTACATTCCTGTTGCGAC 59.268 52.381 0.00 0.00 36.79 5.19
634 690 1.943968 GCCACTACATTCCTGTTGCGA 60.944 52.381 0.00 0.00 36.79 5.10
635 691 0.447801 GCCACTACATTCCTGTTGCG 59.552 55.000 0.00 0.00 36.79 4.85
648 704 2.303022 CAAAGGAGGAAGACTGCCACTA 59.697 50.000 1.14 0.00 38.49 2.74
656 712 6.095580 AGAGTTGAAAAACAAAGGAGGAAGAC 59.904 38.462 0.00 0.00 40.36 3.01
659 715 6.630071 CAAGAGTTGAAAAACAAAGGAGGAA 58.370 36.000 0.00 0.00 40.36 3.36
662 718 5.410067 TGCAAGAGTTGAAAAACAAAGGAG 58.590 37.500 0.00 0.00 40.36 3.69
664 720 5.639082 ACTTGCAAGAGTTGAAAAACAAAGG 59.361 36.000 32.50 0.60 40.36 3.11
665 721 6.710692 ACTTGCAAGAGTTGAAAAACAAAG 57.289 33.333 32.50 0.61 40.36 2.77
762 3553 0.184451 GGGCCCACATGTCAGATGAT 59.816 55.000 19.95 0.00 0.00 2.45
765 3556 3.010144 GGGGCCCACATGTCAGAT 58.990 61.111 26.86 0.00 0.00 2.90
948 3801 0.622665 CTGGGAGATGGAGGTGCTTT 59.377 55.000 0.00 0.00 0.00 3.51
958 3820 1.692042 AGGCTGGGACTGGGAGATG 60.692 63.158 0.00 0.00 0.00 2.90
979 3841 2.266055 GGCGACCCTCTTCACCAG 59.734 66.667 0.00 0.00 0.00 4.00
980 3842 3.691342 CGGCGACCCTCTTCACCA 61.691 66.667 0.00 0.00 0.00 4.17
1098 3975 1.228033 CAGGGCGATCATCATGGCA 60.228 57.895 0.00 0.00 35.49 4.92
1214 4097 4.832608 GCCACCATCCGTCCGTCC 62.833 72.222 0.00 0.00 0.00 4.79
1215 4098 3.718210 GAGCCACCATCCGTCCGTC 62.718 68.421 0.00 0.00 0.00 4.79
1216 4099 3.771160 GAGCCACCATCCGTCCGT 61.771 66.667 0.00 0.00 0.00 4.69
1217 4100 4.873129 CGAGCCACCATCCGTCCG 62.873 72.222 0.00 0.00 0.00 4.79
1275 4158 1.069596 CATCATCGATCCACGGCCA 59.930 57.895 2.24 0.00 42.82 5.36
1276 4159 2.320587 GCATCATCGATCCACGGCC 61.321 63.158 0.00 0.00 42.82 6.13
1278 4161 1.669115 GGGCATCATCGATCCACGG 60.669 63.158 0.00 0.00 42.82 4.94
1306 4202 0.906066 GAGGGAGAGGAAACAGGACC 59.094 60.000 0.00 0.00 0.00 4.46
1308 4204 1.645710 GTGAGGGAGAGGAAACAGGA 58.354 55.000 0.00 0.00 0.00 3.86
1309 4205 0.615850 GGTGAGGGAGAGGAAACAGG 59.384 60.000 0.00 0.00 0.00 4.00
1312 4208 0.615850 CAGGGTGAGGGAGAGGAAAC 59.384 60.000 0.00 0.00 0.00 2.78
1313 4209 1.201429 GCAGGGTGAGGGAGAGGAAA 61.201 60.000 0.00 0.00 0.00 3.13
1322 4225 1.298014 GAACCAGAGCAGGGTGAGG 59.702 63.158 0.00 0.00 39.01 3.86
1337 4240 4.425577 AAAGATTGAGCAACGATGGAAC 57.574 40.909 0.00 0.00 0.00 3.62
1368 4285 9.865321 TCAGCTAATTACAGTACGTTTCTATTT 57.135 29.630 0.00 0.00 0.00 1.40
1370 4287 8.900781 TCTCAGCTAATTACAGTACGTTTCTAT 58.099 33.333 0.00 0.00 0.00 1.98
1371 4288 8.272545 TCTCAGCTAATTACAGTACGTTTCTA 57.727 34.615 0.00 0.00 0.00 2.10
1373 4290 7.988904 ATCTCAGCTAATTACAGTACGTTTC 57.011 36.000 0.00 0.00 0.00 2.78
1375 4292 9.298774 GTAAATCTCAGCTAATTACAGTACGTT 57.701 33.333 0.00 0.00 0.00 3.99
1376 4293 8.684520 AGTAAATCTCAGCTAATTACAGTACGT 58.315 33.333 0.00 0.00 0.00 3.57
1377 4294 8.959058 CAGTAAATCTCAGCTAATTACAGTACG 58.041 37.037 0.00 0.00 0.00 3.67
1378 4295 8.756864 GCAGTAAATCTCAGCTAATTACAGTAC 58.243 37.037 0.00 0.00 0.00 2.73
1379 4296 8.696374 AGCAGTAAATCTCAGCTAATTACAGTA 58.304 33.333 0.00 0.00 33.06 2.74
1380 4297 7.493971 CAGCAGTAAATCTCAGCTAATTACAGT 59.506 37.037 0.00 0.00 33.59 3.55
1381 4298 7.518052 GCAGCAGTAAATCTCAGCTAATTACAG 60.518 40.741 0.00 0.00 33.59 2.74
1382 4299 6.258727 GCAGCAGTAAATCTCAGCTAATTACA 59.741 38.462 0.00 0.00 33.59 2.41
1459 4379 1.963338 AGCAGTGGTCGCTTGCTTC 60.963 57.895 0.00 0.00 35.82 3.86
1542 4482 3.782889 AGGTTCTTTCTTGTGCACAAC 57.217 42.857 27.96 16.77 0.00 3.32
1587 4532 2.527442 CGAAGAAACAATCGGGAAGC 57.473 50.000 0.00 0.00 35.49 3.86
1620 4565 9.528018 TTGAAAAGTTGTAGATTGAATCAAACC 57.472 29.630 8.03 0.00 0.00 3.27
1644 4590 9.070179 TGGGTGTATCATCAGATCAAAATATTG 57.930 33.333 0.00 0.00 35.67 1.90
1646 4592 9.071276 GTTGGGTGTATCATCAGATCAAAATAT 57.929 33.333 0.00 0.00 35.67 1.28
1680 4626 3.373748 TGGTTGATTCATTCATTCGTCCG 59.626 43.478 0.00 0.00 33.34 4.79
1685 4631 5.063060 GCTTGCTTGGTTGATTCATTCATTC 59.937 40.000 0.00 0.00 33.34 2.67
1686 4632 4.933400 GCTTGCTTGGTTGATTCATTCATT 59.067 37.500 0.00 0.00 33.34 2.57
1687 4633 4.020928 TGCTTGCTTGGTTGATTCATTCAT 60.021 37.500 0.00 0.00 33.34 2.57
1688 4634 3.321396 TGCTTGCTTGGTTGATTCATTCA 59.679 39.130 0.00 0.00 0.00 2.57
1782 4941 1.648467 GCCGTTTCACAGCCTCCATC 61.648 60.000 0.00 0.00 0.00 3.51
1871 5035 9.773328 CTGAATCGATAAGTTGCATTTCTAAAA 57.227 29.630 0.00 0.00 0.00 1.52
1876 5040 4.972440 GGCTGAATCGATAAGTTGCATTTC 59.028 41.667 0.00 0.00 0.00 2.17
1930 5098 9.860898 AATCTTTAGAAAAAGGATTGTGCATAC 57.139 29.630 0.00 0.00 42.09 2.39
1961 5129 3.373748 CGTATGCATTGTGCCACTTAGAA 59.626 43.478 3.54 0.00 44.23 2.10
1962 5130 2.935849 CGTATGCATTGTGCCACTTAGA 59.064 45.455 3.54 0.00 44.23 2.10
1990 5163 2.475200 GCATATGCAGTTTTCCGTCC 57.525 50.000 22.84 0.00 41.59 4.79
2021 5198 0.949105 CGAAAGGTGACGTTCCCCTG 60.949 60.000 7.03 0.00 44.66 4.45


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

AutoCloner maintained by Alex Coulton.