Multiple sequence alignment - TraesCS7D01G061700

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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 TraesCS7D01G061700 chr7D 100.000 3676 0 0 1 3676 33451561 33447886 0.000000e+00 6789
1 TraesCS7D01G061700 chr7A 97.994 3090 49 5 588 3676 33903717 33900640 0.000000e+00 5350
2 TraesCS7D01G061700 chr7A 88.067 595 45 13 8 591 33904324 33903745 0.000000e+00 682
3 TraesCS7D01G061700 chr3B 80.804 224 16 17 479 682 816223240 816223024 2.290000e-32 150


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 TraesCS7D01G061700 chr7D 33447886 33451561 3675 True 6789 6789 100.0000 1 3676 1 chr7D.!!$R1 3675
1 TraesCS7D01G061700 chr7A 33900640 33904324 3684 True 3016 5350 93.0305 8 3676 2 chr7A.!!$R1 3668

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
153 161 0.035056 CTAGGGTTTGCAGGTCAGGG 60.035 60.0 0.00 0.00 0.00 4.45 F
221 229 0.251653 TCGTCTGAACTGCCCCTACT 60.252 55.0 0.00 0.00 0.00 2.57 F
969 1016 0.764890 AGGGCAGTGCACTTACTTCA 59.235 50.0 18.94 0.00 40.61 3.02 F
970 1017 1.160137 GGGCAGTGCACTTACTTCAG 58.840 55.0 18.94 5.05 0.00 3.02 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1434 1481 0.249657 GAGCAGGATAGCCCACTTCG 60.250 60.000 0.0 0.0 37.41 3.79 R
1898 1945 1.142060 CTCCCACAACAACCACACCTA 59.858 52.381 0.0 0.0 0.00 3.08 R
1957 2004 1.193203 CAGTAGCACTTGAGCAACACG 59.807 52.381 0.0 0.0 36.85 4.49 R
2710 2757 2.017049 CAAGGGCTCCAAGAATTACCG 58.983 52.381 0.0 0.0 0.00 4.02 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
51 52 3.839432 CCTCCTTCCCGCGACTCC 61.839 72.222 8.23 0.00 0.00 3.85
52 53 3.839432 CTCCTTCCCGCGACTCCC 61.839 72.222 8.23 0.00 0.00 4.30
95 96 0.476771 ACATCCAACCCGTTTGAGGT 59.523 50.000 0.00 0.00 37.39 3.85
99 100 2.458620 TCCAACCCGTTTGAGGTTTTT 58.541 42.857 0.00 0.00 45.46 1.94
112 113 7.114811 CGTTTGAGGTTTTTGATTGTCCTATTG 59.885 37.037 0.00 0.00 0.00 1.90
116 117 8.141268 TGAGGTTTTTGATTGTCCTATTGTTTC 58.859 33.333 0.00 0.00 0.00 2.78
120 121 4.666412 TGATTGTCCTATTGTTTCCCCA 57.334 40.909 0.00 0.00 0.00 4.96
122 123 2.891191 TGTCCTATTGTTTCCCCACC 57.109 50.000 0.00 0.00 0.00 4.61
123 124 2.066592 TGTCCTATTGTTTCCCCACCA 58.933 47.619 0.00 0.00 0.00 4.17
125 126 2.041216 GTCCTATTGTTTCCCCACCACT 59.959 50.000 0.00 0.00 0.00 4.00
127 128 2.041081 CCTATTGTTTCCCCACCACTCA 59.959 50.000 0.00 0.00 0.00 3.41
129 130 0.464735 TTGTTTCCCCACCACTCACG 60.465 55.000 0.00 0.00 0.00 4.35
130 131 1.599797 GTTTCCCCACCACTCACGG 60.600 63.158 0.00 0.00 0.00 4.94
131 132 3.485346 TTTCCCCACCACTCACGGC 62.485 63.158 0.00 0.00 0.00 5.68
149 157 1.745489 CCGCTAGGGTTTGCAGGTC 60.745 63.158 6.02 0.00 0.00 3.85
153 161 0.035056 CTAGGGTTTGCAGGTCAGGG 60.035 60.000 0.00 0.00 0.00 4.45
217 225 2.266055 CCTCGTCTGAACTGCCCC 59.734 66.667 0.00 0.00 0.00 5.80
218 226 2.286523 CCTCGTCTGAACTGCCCCT 61.287 63.158 0.00 0.00 0.00 4.79
221 229 0.251653 TCGTCTGAACTGCCCCTACT 60.252 55.000 0.00 0.00 0.00 2.57
335 348 2.128035 CAGATCGAGGTACCGCAAATC 58.872 52.381 16.39 16.09 0.00 2.17
398 411 6.418057 TGATTTGGTGCTAATTGTTTTCCT 57.582 33.333 0.00 0.00 0.00 3.36
413 426 6.078202 TGTTTTCCTTTCGATTGTGCATAA 57.922 33.333 0.00 0.00 0.00 1.90
415 428 6.806249 TGTTTTCCTTTCGATTGTGCATAATC 59.194 34.615 22.35 22.35 34.48 1.75
446 461 9.539825 ACTACAGAAATGATATGTGATGAGTTC 57.460 33.333 0.00 0.00 0.00 3.01
527 543 6.839124 TGATATGAAGCAACCTGATTTTGT 57.161 33.333 0.00 0.00 0.00 2.83
530 546 4.044336 TGAAGCAACCTGATTTTGTGTG 57.956 40.909 0.00 0.00 0.00 3.82
541 557 7.551585 ACCTGATTTTGTGTGTATTTTGTTCA 58.448 30.769 0.00 0.00 0.00 3.18
564 580 2.100916 ACTCGTTCCCTATGACGATTGG 59.899 50.000 0.00 0.00 45.88 3.16
591 638 6.972722 AGTAGTTGAGTTCTGTAGTTCTGTC 58.027 40.000 0.00 0.00 0.00 3.51
609 656 5.316167 TCTGTCCACAGCTTATTTGTGATT 58.684 37.500 6.93 0.00 46.85 2.57
652 699 0.880278 TTGCACGCTGTCCACTTCTC 60.880 55.000 0.00 0.00 0.00 2.87
682 729 6.073222 GGTTTAGTTGTTGGAGACATGTGTAG 60.073 42.308 1.15 0.00 42.32 2.74
684 731 4.887748 AGTTGTTGGAGACATGTGTAGAG 58.112 43.478 1.15 0.00 42.32 2.43
826 873 7.109501 TGTATATGTTGCAGTTCAATAGGTGT 58.890 34.615 0.00 0.00 36.99 4.16
827 874 4.771590 ATGTTGCAGTTCAATAGGTGTG 57.228 40.909 0.00 0.00 36.99 3.82
834 881 4.335594 GCAGTTCAATAGGTGTGATAACCC 59.664 45.833 0.00 0.00 41.54 4.11
845 892 6.289064 AGGTGTGATAACCCGATAATCTTTC 58.711 40.000 0.00 0.00 41.54 2.62
885 932 7.391148 ACATGAATGCCGTTTATAAGTTTCT 57.609 32.000 0.00 0.00 0.00 2.52
902 949 2.793288 TCTGCTGATGCCTTGATGAA 57.207 45.000 0.00 0.00 38.71 2.57
920 967 9.696917 CTTGATGAACTTTAAACTTTAATGCCT 57.303 29.630 6.95 0.00 0.00 4.75
963 1010 1.302832 GCAGTAGGGCAGTGCACTT 60.303 57.895 27.84 5.22 40.61 3.16
968 1015 2.028020 AGTAGGGCAGTGCACTTACTTC 60.028 50.000 27.84 12.86 40.61 3.01
969 1016 0.764890 AGGGCAGTGCACTTACTTCA 59.235 50.000 18.94 0.00 40.61 3.02
970 1017 1.160137 GGGCAGTGCACTTACTTCAG 58.840 55.000 18.94 5.05 0.00 3.02
971 1018 1.543429 GGGCAGTGCACTTACTTCAGT 60.543 52.381 18.94 0.00 0.00 3.41
972 1019 1.532868 GGCAGTGCACTTACTTCAGTG 59.467 52.381 18.94 4.45 46.15 3.66
973 1020 2.213499 GCAGTGCACTTACTTCAGTGT 58.787 47.619 18.94 0.00 45.31 3.55
975 1022 3.457234 CAGTGCACTTACTTCAGTGTGA 58.543 45.455 18.94 0.00 45.31 3.58
976 1023 3.871006 CAGTGCACTTACTTCAGTGTGAA 59.129 43.478 18.94 0.00 45.31 3.18
1332 1379 5.872070 GGTGTATGAGTTCAAGGAGAAGAAG 59.128 44.000 0.00 0.00 36.78 2.85
1434 1481 1.613925 GGCCCTCCACTTGAAAACTTC 59.386 52.381 0.00 0.00 0.00 3.01
1507 1554 2.930826 TCCAACCAAGTCTTCTGTCC 57.069 50.000 0.00 0.00 0.00 4.02
1740 1787 7.726291 TGGGATGTAAATGAACAGAAAAAGGTA 59.274 33.333 0.00 0.00 31.70 3.08
1898 1945 4.197750 CCAGATGTGCTTCAAGCTTCTAT 58.802 43.478 11.57 0.00 42.97 1.98
1911 1958 4.910458 AGCTTCTATAGGTGTGGTTGTT 57.090 40.909 0.00 0.00 32.15 2.83
1957 2004 8.306761 CCTTAAATTATGCAACAGATATTCCCC 58.693 37.037 0.00 0.00 0.00 4.81
2013 2060 3.274288 GTCCTCAAATGTCCAGGTCATC 58.726 50.000 0.00 0.00 0.00 2.92
2192 2239 6.121776 TGATGAGGGTGTGTACTGTAAAAT 57.878 37.500 0.00 0.00 0.00 1.82
2493 2540 4.054780 ACTTGTAGACGAAAGAGTTGCA 57.945 40.909 0.00 0.00 0.00 4.08
2500 2547 3.993081 AGACGAAAGAGTTGCAGAATCTG 59.007 43.478 5.78 5.78 34.12 2.90
2556 2603 5.405935 TGCTATGCAGTAAGAAAGAGTCA 57.594 39.130 0.00 0.00 33.32 3.41
2710 2757 0.747283 CAGCTGAGTTCCAGGCCATC 60.747 60.000 8.42 0.00 43.13 3.51
3005 3052 1.362406 GGAGGCGTAGTGAAAGCTGC 61.362 60.000 0.00 0.00 32.56 5.25
3006 3053 0.390472 GAGGCGTAGTGAAAGCTGCT 60.390 55.000 0.00 0.00 32.56 4.24
3007 3054 0.671781 AGGCGTAGTGAAAGCTGCTG 60.672 55.000 1.35 0.00 32.56 4.41
3088 3135 8.984891 TGAATTTTCTAAAACATATGTGCCTG 57.015 30.769 9.63 1.24 0.00 4.85
3124 3171 4.645136 TCTGTTGCGTCCTACTATCTCATT 59.355 41.667 0.00 0.00 0.00 2.57
3259 3306 9.734620 ATTGTCAAACATCATATTGATAAACCG 57.265 29.630 2.61 0.00 39.18 4.44
3260 3307 7.702386 TGTCAAACATCATATTGATAAACCGG 58.298 34.615 0.00 0.00 37.82 5.28
3336 3383 4.202111 GGTGTTTTGTTGTCTGTTGCCTAT 60.202 41.667 0.00 0.00 0.00 2.57
3362 3409 4.741342 ACACTAGCGGAGTTAACACATAC 58.259 43.478 8.61 0.00 35.64 2.39
3419 3466 4.681744 TCATGAAACTTCAAGTTGTTGGC 58.318 39.130 2.78 0.00 38.66 4.52
3534 3581 6.931281 GGTCATCGGAAATCTAAGAATGATGA 59.069 38.462 0.00 0.00 0.00 2.92
3565 3612 7.992008 TGAAGTTCATTTTTAACGGACTTCTT 58.008 30.769 0.08 0.00 34.10 2.52
3659 3706 7.553760 ACTGATTATGTGCATGTGATCAGTTTA 59.446 33.333 23.83 1.74 46.79 2.01
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
43 44 3.407046 GAACCTACCGGGAGTCGCG 62.407 68.421 21.62 21.62 39.48 5.87
72 73 1.074727 TCAAACGGGTTGGATGTGGAT 59.925 47.619 5.85 0.00 37.85 3.41
73 74 0.474614 TCAAACGGGTTGGATGTGGA 59.525 50.000 5.85 0.00 37.85 4.02
74 75 0.881118 CTCAAACGGGTTGGATGTGG 59.119 55.000 5.85 0.00 37.85 4.17
75 76 0.881118 CCTCAAACGGGTTGGATGTG 59.119 55.000 5.85 0.00 37.85 3.21
76 77 0.476771 ACCTCAAACGGGTTGGATGT 59.523 50.000 5.85 0.00 37.85 3.06
77 78 1.616159 AACCTCAAACGGGTTGGATG 58.384 50.000 5.85 0.00 44.34 3.51
78 79 2.375014 AAACCTCAAACGGGTTGGAT 57.625 45.000 5.85 0.00 45.15 3.41
79 80 2.146920 AAAACCTCAAACGGGTTGGA 57.853 45.000 5.85 0.00 45.15 3.53
83 84 3.449377 ACAATCAAAAACCTCAAACGGGT 59.551 39.130 0.00 0.00 38.94 5.28
95 96 6.327626 TGGGGAAACAATAGGACAATCAAAAA 59.672 34.615 0.00 0.00 0.00 1.94
99 100 4.340617 GTGGGGAAACAATAGGACAATCA 58.659 43.478 0.00 0.00 0.00 2.57
112 113 1.599797 CCGTGAGTGGTGGGGAAAC 60.600 63.158 0.00 0.00 0.00 2.78
120 121 3.760035 CTAGCGGCCGTGAGTGGT 61.760 66.667 28.70 4.84 0.00 4.16
122 123 4.514577 CCCTAGCGGCCGTGAGTG 62.515 72.222 28.70 11.74 0.00 3.51
125 126 3.315949 AAACCCTAGCGGCCGTGA 61.316 61.111 28.70 14.17 33.26 4.35
129 130 3.134127 CTGCAAACCCTAGCGGCC 61.134 66.667 0.00 0.00 33.26 6.13
130 131 3.134127 CCTGCAAACCCTAGCGGC 61.134 66.667 0.00 0.00 35.82 6.53
131 132 1.745489 GACCTGCAAACCCTAGCGG 60.745 63.158 0.00 0.00 36.89 5.52
204 212 0.391793 GCAGTAGGGGCAGTTCAGAC 60.392 60.000 0.00 0.00 0.00 3.51
205 213 1.888436 CGCAGTAGGGGCAGTTCAGA 61.888 60.000 0.00 0.00 0.00 3.27
294 307 4.459089 GAGGCCTCAGTGGGACGC 62.459 72.222 28.43 0.00 39.91 5.19
295 308 2.681778 AGAGGCCTCAGTGGGACG 60.682 66.667 33.90 0.00 39.91 4.79
296 309 2.363172 GGAGAGGCCTCAGTGGGAC 61.363 68.421 33.90 14.77 41.20 4.46
303 316 1.456518 CGATCTGGGAGAGGCCTCA 60.457 63.158 33.90 13.29 41.20 3.86
304 317 1.152652 TCGATCTGGGAGAGGCCTC 60.153 63.158 26.22 26.22 38.70 4.70
335 348 2.941720 GGCAAGTGGATTAGCAAGAGAG 59.058 50.000 0.00 0.00 0.00 3.20
398 411 5.643348 AGTCACAGATTATGCACAATCGAAA 59.357 36.000 11.88 0.00 39.45 3.46
446 461 2.554806 CATTGGTGCTGCTATGTGTG 57.445 50.000 0.00 0.00 0.00 3.82
467 482 2.435437 AGGACAGGCTTGCAAAATTTGT 59.565 40.909 7.60 2.93 0.00 2.83
474 489 2.356665 TAAACAGGACAGGCTTGCAA 57.643 45.000 0.00 0.00 0.00 4.08
500 516 8.407832 CAAAATCAGGTTGCTTCATATCATACA 58.592 33.333 0.00 0.00 0.00 2.29
501 517 8.408601 ACAAAATCAGGTTGCTTCATATCATAC 58.591 33.333 0.00 0.00 0.00 2.39
502 518 8.407832 CACAAAATCAGGTTGCTTCATATCATA 58.592 33.333 0.00 0.00 0.00 2.15
503 519 7.093640 ACACAAAATCAGGTTGCTTCATATCAT 60.094 33.333 0.00 0.00 0.00 2.45
504 520 6.209192 ACACAAAATCAGGTTGCTTCATATCA 59.791 34.615 0.00 0.00 0.00 2.15
505 521 6.529125 CACACAAAATCAGGTTGCTTCATATC 59.471 38.462 0.00 0.00 0.00 1.63
506 522 6.015180 ACACACAAAATCAGGTTGCTTCATAT 60.015 34.615 0.00 0.00 0.00 1.78
511 527 5.789643 ATACACACAAAATCAGGTTGCTT 57.210 34.783 0.00 0.00 0.00 3.91
512 528 5.789643 AATACACACAAAATCAGGTTGCT 57.210 34.783 0.00 0.00 0.00 3.91
513 529 6.257630 ACAAAATACACACAAAATCAGGTTGC 59.742 34.615 0.00 0.00 0.00 4.17
516 532 7.551585 TGAACAAAATACACACAAAATCAGGT 58.448 30.769 0.00 0.00 0.00 4.00
527 543 6.148150 GGGAACGAGTATGAACAAAATACACA 59.852 38.462 0.00 0.00 33.70 3.72
530 546 6.980051 AGGGAACGAGTATGAACAAAATAC 57.020 37.500 0.00 0.00 0.00 1.89
541 557 4.022242 CCAATCGTCATAGGGAACGAGTAT 60.022 45.833 3.90 0.00 38.03 2.12
564 580 6.858993 CAGAACTACAGAACTCAACTACTCAC 59.141 42.308 0.00 0.00 0.00 3.51
591 638 7.326789 CAGTAACAAATCACAAATAAGCTGTGG 59.673 37.037 3.50 0.00 43.60 4.17
633 680 0.880278 GAGAAGTGGACAGCGTGCAA 60.880 55.000 4.68 0.00 35.32 4.08
640 687 2.751166 ACCATTCGAGAAGTGGACAG 57.249 50.000 15.87 0.00 36.82 3.51
652 699 4.513692 TGTCTCCAACAACTAAACCATTCG 59.486 41.667 0.00 0.00 34.03 3.34
682 729 3.444388 AGAGGATCACCGAAACTACACTC 59.556 47.826 0.00 0.00 41.83 3.51
684 731 3.870633 AGAGGATCACCGAAACTACAC 57.129 47.619 0.00 0.00 41.83 2.90
826 873 9.056005 CAAATGAGAAAGATTATCGGGTTATCA 57.944 33.333 6.27 6.27 0.00 2.15
827 874 9.273016 TCAAATGAGAAAGATTATCGGGTTATC 57.727 33.333 0.00 0.00 0.00 1.75
834 881 7.412063 TGCATGTCAAATGAGAAAGATTATCG 58.588 34.615 0.00 0.00 0.00 2.92
885 932 2.502142 AGTTCATCAAGGCATCAGCA 57.498 45.000 0.00 0.00 44.61 4.41
902 949 8.499403 TGCAAAAAGGCATTAAAGTTTAAAGT 57.501 26.923 11.92 0.00 39.25 2.66
920 967 8.016229 GCAATAAACACATGAATCATGCAAAAA 58.984 29.630 21.92 6.86 44.80 1.94
968 1015 2.638480 TTTCCAGGACCTTCACACTG 57.362 50.000 0.00 0.00 0.00 3.66
969 1016 3.910627 AGTATTTCCAGGACCTTCACACT 59.089 43.478 0.00 0.00 0.00 3.55
970 1017 4.287766 AGTATTTCCAGGACCTTCACAC 57.712 45.455 0.00 0.00 0.00 3.82
971 1018 4.104102 ACAAGTATTTCCAGGACCTTCACA 59.896 41.667 0.00 0.00 0.00 3.58
972 1019 4.652822 ACAAGTATTTCCAGGACCTTCAC 58.347 43.478 0.00 0.00 0.00 3.18
973 1020 4.993705 ACAAGTATTTCCAGGACCTTCA 57.006 40.909 0.00 0.00 0.00 3.02
975 1022 5.701224 TGAAACAAGTATTTCCAGGACCTT 58.299 37.500 0.00 0.00 37.72 3.50
976 1023 5.319043 TGAAACAAGTATTTCCAGGACCT 57.681 39.130 0.00 0.00 37.72 3.85
977 1024 6.399639 TTTGAAACAAGTATTTCCAGGACC 57.600 37.500 0.00 0.00 37.72 4.46
978 1025 6.868339 CCATTTGAAACAAGTATTTCCAGGAC 59.132 38.462 0.00 0.00 37.72 3.85
1035 1082 0.909610 TCATCAAAGGAGGCCCGTCT 60.910 55.000 0.00 0.00 37.58 4.18
1139 1186 6.062749 AGGGTCTTAAACTTCCTTTTGAGAC 58.937 40.000 10.49 10.49 45.05 3.36
1148 1195 3.672767 TCACGAGGGTCTTAAACTTCC 57.327 47.619 0.00 0.00 0.00 3.46
1202 1249 2.032924 GCAACCGTGAAAACAGCTAACT 59.967 45.455 0.00 0.00 0.00 2.24
1332 1379 3.319122 ACTTCTTTGTTTCATGTCCCTGC 59.681 43.478 0.00 0.00 0.00 4.85
1401 1448 1.472188 GAGGGCCTTCACGTAGTAGT 58.528 55.000 7.89 0.00 41.61 2.73
1434 1481 0.249657 GAGCAGGATAGCCCACTTCG 60.250 60.000 0.00 0.00 37.41 3.79
1507 1554 1.792301 CCATTGCACGCAGAGACTG 59.208 57.895 0.00 0.00 34.12 3.51
1898 1945 1.142060 CTCCCACAACAACCACACCTA 59.858 52.381 0.00 0.00 0.00 3.08
1911 1958 1.386772 AAGGTTCACCCCTCCCACA 60.387 57.895 0.00 0.00 36.42 4.17
1957 2004 1.193203 CAGTAGCACTTGAGCAACACG 59.807 52.381 0.00 0.00 36.85 4.49
2013 2060 3.447586 TGTAGATGGGAAACTCTCCTTCG 59.552 47.826 0.00 0.00 44.68 3.79
2192 2239 6.042781 ACTGTCCTTAACACATCCTTTAGTCA 59.957 38.462 0.00 0.00 33.24 3.41
2338 2385 8.293699 AGATTTTAGTCAACCTTTTTCACTGT 57.706 30.769 0.00 0.00 0.00 3.55
2493 2540 3.445008 TGGGTACTCTGCTTCAGATTCT 58.555 45.455 0.00 0.00 39.92 2.40
2500 2547 2.271800 CATCGTTGGGTACTCTGCTTC 58.728 52.381 0.00 0.00 0.00 3.86
2556 2603 7.147602 ACAGTCTTACCTTGTAAGTTTAGTGGT 60.148 37.037 12.34 0.00 0.00 4.16
2592 2639 8.969121 TTTATTGACACTACAAGATGCAAATG 57.031 30.769 0.00 0.00 33.22 2.32
2710 2757 2.017049 CAAGGGCTCCAAGAATTACCG 58.983 52.381 0.00 0.00 0.00 4.02
2926 2973 7.507616 TCACAACTAAAAGGGAAACACCATAAT 59.492 33.333 0.00 0.00 41.20 1.28
3005 3052 4.778534 AAAATGGTGATCTGAACTGCAG 57.221 40.909 13.48 13.48 46.31 4.41
3006 3053 4.320421 CGAAAAATGGTGATCTGAACTGCA 60.320 41.667 0.00 0.00 0.00 4.41
3007 3054 4.161333 CGAAAAATGGTGATCTGAACTGC 58.839 43.478 0.00 0.00 0.00 4.40
3088 3135 3.432252 ACGCAACAGACAGTATTAACAGC 59.568 43.478 0.00 0.00 0.00 4.40
3152 3199 5.728637 AATATAGCACCAGATGACGATGA 57.271 39.130 0.00 0.00 0.00 2.92
3259 3306 3.641436 AGGGATTGAAAACACAACCTTCC 59.359 43.478 0.00 0.00 32.50 3.46
3260 3307 4.937201 AGGGATTGAAAACACAACCTTC 57.063 40.909 0.00 0.00 32.50 3.46
3321 3368 4.755123 AGTGTAACATAGGCAACAGACAAC 59.245 41.667 0.00 0.00 41.43 3.32
3336 3383 4.037803 TGTGTTAACTCCGCTAGTGTAACA 59.962 41.667 7.22 11.22 41.43 2.41
3419 3466 8.009974 AGAAGAAATCAAATTCGAAGTTACACG 58.990 33.333 10.90 0.00 34.46 4.49
3510 3557 7.869937 TCTCATCATTCTTAGATTTCCGATGAC 59.130 37.037 0.00 0.00 34.61 3.06
3534 3581 9.244799 GTCCGTTAAAAATGAACTTCAAATTCT 57.755 29.630 0.00 0.00 0.00 2.40
3565 3612 6.657541 GTCAAGGGTGTTTACATGATAAAGGA 59.342 38.462 0.00 0.00 0.00 3.36


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

AutoCloner maintained by Alex Coulton.