Multiple sequence alignment - TraesCS7A01G227400

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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 TraesCS7A01G227400 chr7A 100.000 5174 0 0 1 5174 198007046 198001873 0.000000e+00 9555.0
1 TraesCS7A01G227400 chr7D 94.743 5193 191 40 2 5174 187099930 187105060 0.000000e+00 8002.0
2 TraesCS7A01G227400 chr7D 90.000 100 4 2 5045 5143 426558987 426558893 1.960000e-24 124.0
3 TraesCS7A01G227400 chr7D 89.216 102 4 4 5038 5138 567719910 567719815 2.530000e-23 121.0
4 TraesCS7A01G227400 chr7D 86.087 115 8 4 5045 5158 141292176 141292069 3.270000e-22 117.0
5 TraesCS7A01G227400 chr7B 94.986 4148 143 34 6 4127 329847409 329851517 0.000000e+00 6447.0
6 TraesCS7A01G227400 chr7B 94.894 568 27 2 4126 4692 329851641 329852207 0.000000e+00 887.0
7 TraesCS7A01G227400 chr7B 94.545 330 12 4 4722 5050 329852355 329852679 5.980000e-139 505.0
8 TraesCS7A01G227400 chr7B 97.436 39 1 0 5136 5174 329852678 329852716 3.340000e-07 67.6
9 TraesCS7A01G227400 chr2B 88.034 117 4 5 5044 5158 63783814 63783706 4.200000e-26 130.0
10 TraesCS7A01G227400 chrUn 90.722 97 4 2 5048 5143 84435466 84435374 1.960000e-24 124.0
11 TraesCS7A01G227400 chr6D 90.099 101 2 4 5044 5143 146072911 146072818 1.960000e-24 124.0
12 TraesCS7A01G227400 chr5D 88.571 105 4 5 5040 5141 77746215 77746314 2.530000e-23 121.0
13 TraesCS7A01G227400 chr3D 87.273 110 6 4 5036 5143 420822382 420822279 9.100000e-23 119.0


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 TraesCS7A01G227400 chr7A 198001873 198007046 5173 True 9555.00 9555 100.00000 1 5174 1 chr7A.!!$R1 5173
1 TraesCS7A01G227400 chr7D 187099930 187105060 5130 False 8002.00 8002 94.74300 2 5174 1 chr7D.!!$F1 5172
2 TraesCS7A01G227400 chr7B 329847409 329852716 5307 False 1976.65 6447 95.46525 6 5174 4 chr7B.!!$F1 5168

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
90 93 0.099436 GCTAACATCTGCCGCCAAAG 59.901 55.000 0.0 0.00 0.00 2.77 F
136 139 0.384309 TAAGCAGACGATACTGGCGG 59.616 55.000 0.0 0.00 38.22 6.13 F
1421 1442 0.457851 CTCCTTAGTCCCGCAGTCTG 59.542 60.000 0.0 0.00 0.00 3.51 F
2211 2239 0.392193 CTGTCTCACAGGCCATGGAC 60.392 60.000 18.4 14.73 42.35 4.02 F
2636 2664 1.353694 AGAGTTGGCAGGCTCTGAAAT 59.646 47.619 18.6 0.17 40.24 2.17 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1400 1421 0.683504 GACTGCGGGACTAAGGAGGA 60.684 60.0 0.00 0.0 0.00 3.71 R
1625 1646 0.908910 AACATATGTGAGTCCCCGCA 59.091 50.0 9.63 0.0 0.00 5.69 R
2753 2781 0.400213 AGTTGGGGCATTCTCGACAA 59.600 50.0 0.00 0.0 0.00 3.18 R
3845 3882 0.693622 TTAGCCCACGATGGACCAAA 59.306 50.0 0.00 0.0 40.96 3.28 R
4595 4757 0.539986 GTAGTCCCCCTTGATCGCAA 59.460 55.0 0.00 0.0 0.00 4.85 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
30 31 4.530161 TCCCCTGTTTTATTTGGTTCATGG 59.470 41.667 0.00 0.00 0.00 3.66
33 34 5.170748 CCTGTTTTATTTGGTTCATGGCTC 58.829 41.667 0.00 0.00 0.00 4.70
35 36 6.166984 TGTTTTATTTGGTTCATGGCTCAA 57.833 33.333 0.00 0.00 0.00 3.02
36 37 6.222389 TGTTTTATTTGGTTCATGGCTCAAG 58.778 36.000 0.00 0.00 0.00 3.02
48 49 1.002430 TGGCTCAAGCTGACTGGTTAG 59.998 52.381 1.46 0.00 41.70 2.34
62 63 2.731976 CTGGTTAGAAGAACAGCACGAC 59.268 50.000 0.00 0.00 0.00 4.34
72 75 2.285827 ACAGCACGACTTCAGATAGC 57.714 50.000 0.00 0.00 0.00 2.97
89 92 0.322456 AGCTAACATCTGCCGCCAAA 60.322 50.000 0.00 0.00 0.00 3.28
90 93 0.099436 GCTAACATCTGCCGCCAAAG 59.901 55.000 0.00 0.00 0.00 2.77
103 106 2.352617 CCGCCAAAGCAAAAGCATTCTA 60.353 45.455 0.00 0.00 39.83 2.10
128 131 2.939103 GCACTTGGATTAAGCAGACGAT 59.061 45.455 0.00 0.00 40.16 3.73
133 136 4.322080 TGGATTAAGCAGACGATACTGG 57.678 45.455 0.00 0.00 38.22 4.00
136 139 0.384309 TAAGCAGACGATACTGGCGG 59.616 55.000 0.00 0.00 38.22 6.13
137 140 1.605058 AAGCAGACGATACTGGCGGT 61.605 55.000 3.57 3.57 38.22 5.68
138 141 1.589196 GCAGACGATACTGGCGGTC 60.589 63.158 0.06 0.00 38.22 4.79
139 142 1.807226 CAGACGATACTGGCGGTCA 59.193 57.895 0.06 0.00 34.64 4.02
156 159 5.095691 CGGTCAGCACATAATAATTCACC 57.904 43.478 0.00 0.00 0.00 4.02
248 251 3.357079 CTTGTCCCACCGCAGCAC 61.357 66.667 0.00 0.00 0.00 4.40
419 422 4.388080 GCAATCTGCACGCACGCA 62.388 61.111 0.00 0.00 44.26 5.24
420 423 2.500369 CAATCTGCACGCACGCAC 60.500 61.111 0.00 0.00 36.86 5.34
421 424 4.075910 AATCTGCACGCACGCACG 62.076 61.111 0.00 0.00 36.86 5.34
464 468 1.908299 CCAGCAGGGGTTGGGTTTC 60.908 63.158 0.00 0.00 41.35 2.78
676 685 1.068921 GCAGGCGAGAGGGAAGATC 59.931 63.158 0.00 0.00 0.00 2.75
745 759 4.341520 AGAAGACGGCCGACTCTTTATTAT 59.658 41.667 35.90 13.46 0.00 1.28
747 761 3.005578 AGACGGCCGACTCTTTATTATCC 59.994 47.826 35.90 0.00 0.00 2.59
748 762 2.288030 ACGGCCGACTCTTTATTATCCG 60.288 50.000 35.90 0.00 40.09 4.18
749 763 2.288030 CGGCCGACTCTTTATTATCCGT 60.288 50.000 24.07 0.00 0.00 4.69
864 881 0.869028 GTCTACGCGAACCGGAATCC 60.869 60.000 15.93 0.00 42.52 3.01
865 882 1.033746 TCTACGCGAACCGGAATCCT 61.034 55.000 15.93 0.00 42.52 3.24
898 915 2.271173 CAGCAGCAGCCCATCAGA 59.729 61.111 0.00 0.00 43.56 3.27
956 973 3.816523 CACTAGCTTCCCGTAAACCAAAA 59.183 43.478 0.00 0.00 0.00 2.44
983 1000 2.970974 GCTGCAAACCAGACTCGCC 61.971 63.158 0.00 0.00 44.64 5.54
1021 1038 3.093057 AGACTCGCAGTCCATACTTTCT 58.907 45.455 11.24 0.00 46.18 2.52
1400 1421 3.498397 CGTCCACTTGCTTCTACAACAAT 59.502 43.478 0.00 0.00 0.00 2.71
1411 1432 5.813157 GCTTCTACAACAATCCTCCTTAGTC 59.187 44.000 0.00 0.00 0.00 2.59
1420 1441 0.684805 CCTCCTTAGTCCCGCAGTCT 60.685 60.000 0.00 0.00 0.00 3.24
1421 1442 0.457851 CTCCTTAGTCCCGCAGTCTG 59.542 60.000 0.00 0.00 0.00 3.51
1424 1445 0.459237 CTTAGTCCCGCAGTCTGCTG 60.459 60.000 22.13 15.72 42.25 4.41
1439 1460 6.483307 GCAGTCTGCTGGTAATAATTATGTGA 59.517 38.462 17.89 0.00 42.78 3.58
1478 1499 3.133362 TGTACCTGTGTTCTCCTTTCGTT 59.867 43.478 0.00 0.00 0.00 3.85
1480 1501 2.143925 CCTGTGTTCTCCTTTCGTTCC 58.856 52.381 0.00 0.00 0.00 3.62
1625 1646 8.818057 GTTGTTTAGATAAATGTATCTGCGAGT 58.182 33.333 14.76 0.00 45.08 4.18
1627 1648 7.042725 TGTTTAGATAAATGTATCTGCGAGTGC 60.043 37.037 14.76 0.81 45.08 4.40
1780 1803 4.589908 ACATGTACTAAGCCTTTCCTTGG 58.410 43.478 0.00 0.00 0.00 3.61
1799 1825 6.649557 TCCTTGGTCTCTCGTTTTTATTCTTC 59.350 38.462 0.00 0.00 0.00 2.87
1824 1851 7.969536 TGCTTAACCTAGCATCTTCATATTC 57.030 36.000 0.00 0.00 45.72 1.75
1831 1858 8.985315 ACCTAGCATCTTCATATTCAATTTCA 57.015 30.769 0.00 0.00 0.00 2.69
1837 1864 9.537192 GCATCTTCATATTCAATTTCAAATCCA 57.463 29.630 0.00 0.00 0.00 3.41
2098 2126 4.149396 GTGCTGCTTGCTTTGACTTTTATG 59.851 41.667 0.00 0.00 43.37 1.90
2211 2239 0.392193 CTGTCTCACAGGCCATGGAC 60.392 60.000 18.40 14.73 42.35 4.02
2244 2272 4.042934 ACTTTTGTTAGGGACTGCCATACT 59.957 41.667 0.00 0.00 41.52 2.12
2283 2311 5.813672 GCCAGTATTACGAGGAACATAACAA 59.186 40.000 11.16 0.00 0.00 2.83
2636 2664 1.353694 AGAGTTGGCAGGCTCTGAAAT 59.646 47.619 18.60 0.17 40.24 2.17
2753 2781 7.800092 ACTGATAATCCTGAAGAAAGTGCTAT 58.200 34.615 0.00 0.00 0.00 2.97
2763 2791 6.166279 TGAAGAAAGTGCTATTGTCGAGAAT 58.834 36.000 12.86 12.86 0.00 2.40
3234 3267 5.244402 TCACCTTTCGTTCTCCAACAGTATA 59.756 40.000 0.00 0.00 32.14 1.47
3263 3296 4.685169 ACGTTTGGAGAATATGCTTGTG 57.315 40.909 0.00 0.00 0.00 3.33
3461 3496 2.563471 ATTCCTCGTAGCGTTGTCTC 57.437 50.000 0.00 0.00 0.00 3.36
3484 3519 4.911610 CGAAGGCTCAAATTAACACAGTTG 59.088 41.667 0.00 0.00 0.00 3.16
3694 3729 3.181455 TGGCCGAAGCAAGTATGTGATAT 60.181 43.478 0.00 0.00 42.56 1.63
3776 3813 3.922910 ACGTCACTTACCCTAAAAGCTC 58.077 45.455 0.00 0.00 0.00 4.09
4008 4045 3.758554 AGGCAACGCTTTCATCTATGTTT 59.241 39.130 0.00 0.00 46.39 2.83
4089 4126 3.437049 GTCAGTTAGCTGGGTGATTTGAC 59.563 47.826 6.75 0.00 42.78 3.18
4152 4314 9.632638 ATGTAAAGCAGGTTGAATATCTTATGT 57.367 29.630 0.00 0.00 0.00 2.29
4197 4359 5.010012 AGTCCTTGTTCTTGCGATGATTTTT 59.990 36.000 0.00 0.00 0.00 1.94
4341 4503 3.160679 AGAATGCAGTTAAGTTGGCCT 57.839 42.857 3.32 0.00 0.00 5.19
4414 4576 7.950512 TCAATGAAGTTCCTGAAAAATGCTAA 58.049 30.769 0.00 0.00 0.00 3.09
4415 4577 8.420222 TCAATGAAGTTCCTGAAAAATGCTAAA 58.580 29.630 0.00 0.00 0.00 1.85
4482 4644 5.068636 AGTAGCAAATGATAAGGCCTGATG 58.931 41.667 7.59 0.00 0.00 3.07
4567 4729 3.581024 AGTGCTTACAAATGCCATGTG 57.419 42.857 0.00 0.00 32.27 3.21
4573 4735 4.563976 GCTTACAAATGCCATGTGTTCATC 59.436 41.667 5.69 0.00 32.27 2.92
4595 4757 8.368668 TCATCCCAATACGTTTTTAAATTGGTT 58.631 29.630 19.24 8.00 44.51 3.67
4607 4769 3.317603 AAATTGGTTTGCGATCAAGGG 57.682 42.857 0.00 0.00 33.12 3.95
4674 4837 5.250200 ACAGTAGCATGTTCCGGAAATTAA 58.750 37.500 20.79 5.48 0.00 1.40
4692 4855 9.811995 GGAAATTAAAATGAAGTTACCCATACC 57.188 33.333 0.00 0.00 0.00 2.73
4719 4882 4.035612 AGGTACAAGTGAGCTACTCAGA 57.964 45.455 0.00 0.00 41.46 3.27
4757 5038 7.683578 TGAATGCTAGCTATCACAATAGGATT 58.316 34.615 17.23 1.97 38.50 3.01
4947 5228 4.202326 ACCCACTCGAAGTTGTCAAATAGT 60.202 41.667 0.00 0.00 0.00 2.12
4968 5249 2.236146 TGACCATGCAAAGTATCCTCGT 59.764 45.455 0.00 0.00 0.00 4.18
4988 5269 0.249911 ACGTCAACTCCTTGCCTGAC 60.250 55.000 0.00 0.00 35.82 3.51
4989 5270 0.249868 CGTCAACTCCTTGCCTGACA 60.250 55.000 0.00 0.00 38.46 3.58
4990 5271 1.810031 CGTCAACTCCTTGCCTGACAA 60.810 52.381 0.00 0.00 38.46 3.18
5033 5314 7.151308 TCATTGTTTTGGCATAAATCGAGTTT 58.849 30.769 2.37 0.82 0.00 2.66
5056 5337 8.560374 GTTTAAGCATTGTGATATTACTCCCTC 58.440 37.037 0.00 0.00 0.00 4.30
5070 5351 4.008916 ACTCCCTCCGCCCATAATATAT 57.991 45.455 0.00 0.00 0.00 0.86
5074 5355 3.711704 CCCTCCGCCCATAATATATGAGT 59.288 47.826 0.00 0.00 0.00 3.41
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 5.163353 ACCAAATAAAACAGGGGAACACTTG 60.163 40.000 0.00 0.00 0.00 3.16
30 31 2.751166 TCTAACCAGTCAGCTTGAGC 57.249 50.000 0.00 0.00 42.49 4.26
33 34 4.380531 TGTTCTTCTAACCAGTCAGCTTG 58.619 43.478 0.00 0.00 0.00 4.01
35 36 3.556004 GCTGTTCTTCTAACCAGTCAGCT 60.556 47.826 0.00 0.00 42.16 4.24
36 37 2.739379 GCTGTTCTTCTAACCAGTCAGC 59.261 50.000 0.00 0.00 39.73 4.26
48 49 2.743938 TCTGAAGTCGTGCTGTTCTTC 58.256 47.619 0.00 0.00 37.42 2.87
72 75 0.099436 GCTTTGGCGGCAGATGTTAG 59.901 55.000 12.87 5.47 0.00 2.34
103 106 3.445096 GTCTGCTTAATCCAAGTGCCAAT 59.555 43.478 0.00 0.00 36.55 3.16
128 131 0.899019 TTATGTGCTGACCGCCAGTA 59.101 50.000 5.21 0.00 44.71 2.74
133 136 4.527564 GTGAATTATTATGTGCTGACCGC 58.472 43.478 0.00 0.00 39.77 5.68
136 139 6.316140 TGAGTGGTGAATTATTATGTGCTGAC 59.684 38.462 0.00 0.00 0.00 3.51
137 140 6.413892 TGAGTGGTGAATTATTATGTGCTGA 58.586 36.000 0.00 0.00 0.00 4.26
138 141 6.682423 TGAGTGGTGAATTATTATGTGCTG 57.318 37.500 0.00 0.00 0.00 4.41
139 142 7.886629 ATTGAGTGGTGAATTATTATGTGCT 57.113 32.000 0.00 0.00 0.00 4.40
140 143 8.190122 TCAATTGAGTGGTGAATTATTATGTGC 58.810 33.333 3.38 0.00 0.00 4.57
141 144 9.726232 CTCAATTGAGTGGTGAATTATTATGTG 57.274 33.333 24.65 0.00 37.40 3.21
142 145 8.408601 GCTCAATTGAGTGGTGAATTATTATGT 58.591 33.333 30.88 0.00 43.85 2.29
143 146 8.407832 TGCTCAATTGAGTGGTGAATTATTATG 58.592 33.333 30.88 6.23 43.85 1.90
144 147 8.523915 TGCTCAATTGAGTGGTGAATTATTAT 57.476 30.769 30.88 0.00 43.85 1.28
145 148 7.067372 CCTGCTCAATTGAGTGGTGAATTATTA 59.933 37.037 30.88 6.37 43.85 0.98
146 149 6.127535 CCTGCTCAATTGAGTGGTGAATTATT 60.128 38.462 30.88 0.00 43.85 1.40
153 156 1.171308 CCCTGCTCAATTGAGTGGTG 58.829 55.000 30.88 21.84 43.85 4.17
156 159 1.404391 GATGCCCTGCTCAATTGAGTG 59.596 52.381 30.88 23.72 43.85 3.51
421 424 3.758931 AAAGCGGATTTGGGCGGC 61.759 61.111 0.00 0.00 0.00 6.53
457 461 9.983024 TCCTTAAGTATCAAATTATGAAACCCA 57.017 29.630 0.97 0.00 42.54 4.51
480 489 4.324331 GGTAACCCATCTGCTACTTTTCCT 60.324 45.833 0.00 0.00 0.00 3.36
485 494 1.485066 CCGGTAACCCATCTGCTACTT 59.515 52.381 0.00 0.00 0.00 2.24
486 495 1.120530 CCGGTAACCCATCTGCTACT 58.879 55.000 0.00 0.00 0.00 2.57
488 497 1.052124 CCCCGGTAACCCATCTGCTA 61.052 60.000 0.00 0.00 0.00 3.49
490 499 2.192175 CCCCGGTAACCCATCTGC 59.808 66.667 0.00 0.00 0.00 4.26
491 500 2.192175 GCCCCGGTAACCCATCTG 59.808 66.667 0.00 0.00 0.00 2.90
492 501 2.285818 TGCCCCGGTAACCCATCT 60.286 61.111 0.00 0.00 0.00 2.90
494 503 3.735097 GGTGCCCCGGTAACCCAT 61.735 66.667 0.00 0.00 0.00 4.00
496 505 4.419921 CTGGTGCCCCGGTAACCC 62.420 72.222 13.27 3.23 32.70 4.11
632 641 1.095600 CGAGATGACGGTGGAGAAGA 58.904 55.000 0.00 0.00 0.00 2.87
668 677 0.541863 TCCAAGCTTCCGATCTTCCC 59.458 55.000 0.00 0.00 0.00 3.97
676 685 1.078143 CTTCCCCTCCAAGCTTCCG 60.078 63.158 0.00 0.00 0.00 4.30
748 762 2.279517 CGCCATCCCGTAGAGCAC 60.280 66.667 0.00 0.00 0.00 4.40
749 763 2.758327 ACGCCATCCCGTAGAGCA 60.758 61.111 0.00 0.00 40.08 4.26
898 915 4.323868 GGTCTTGGGTCTCTTCTGCTTATT 60.324 45.833 0.00 0.00 0.00 1.40
973 990 0.323629 TTTTAGTGGGGCGAGTCTGG 59.676 55.000 0.00 0.00 0.00 3.86
996 1013 3.027412 AGTATGGACTGCGAGTCTGATT 58.973 45.455 13.59 2.99 44.46 2.57
1021 1038 1.615919 GCTTTTCGGGAAGATGGGGAA 60.616 52.381 3.35 0.00 0.00 3.97
1260 1281 1.296002 GTTTGGAGGTAGGGGTGGAT 58.704 55.000 0.00 0.00 0.00 3.41
1345 1366 2.933495 GGGGATTTCGCCAAACTTAC 57.067 50.000 8.66 0.00 46.98 2.34
1400 1421 0.683504 GACTGCGGGACTAAGGAGGA 60.684 60.000 0.00 0.00 0.00 3.71
1420 1441 5.236263 CACGCTCACATAATTATTACCAGCA 59.764 40.000 12.56 0.00 0.00 4.41
1421 1442 5.334105 CCACGCTCACATAATTATTACCAGC 60.334 44.000 0.00 1.03 0.00 4.85
1424 1445 6.854496 TTCCACGCTCACATAATTATTACC 57.146 37.500 0.00 0.00 0.00 2.85
1439 1460 4.406003 AGGTACAGAATTAGATTCCACGCT 59.594 41.667 0.00 0.00 40.13 5.07
1478 1499 3.839490 TCAAGGTACCCAATTTCTACGGA 59.161 43.478 8.74 0.00 0.00 4.69
1480 1501 4.094442 GCTTCAAGGTACCCAATTTCTACG 59.906 45.833 8.74 0.00 0.00 3.51
1625 1646 0.908910 AACATATGTGAGTCCCCGCA 59.091 50.000 9.63 0.00 0.00 5.69
1627 1648 3.605634 TCAAAACATATGTGAGTCCCCG 58.394 45.455 9.63 0.00 0.00 5.73
1780 1803 6.713792 AGCAGAAGAATAAAAACGAGAGAC 57.286 37.500 0.00 0.00 0.00 3.36
1837 1864 3.330701 TGGTCTTGAGGTAGCCAAAGAAT 59.669 43.478 8.10 0.00 32.80 2.40
1943 1971 2.609459 CGCATACCTAGTTGCTGAAAGG 59.391 50.000 7.64 0.00 36.71 3.11
2098 2126 1.000955 CCGCACATCTATCCCCTACAC 59.999 57.143 0.00 0.00 0.00 2.90
2211 2239 9.367444 CAGTCCCTAACAAAAGTTGTATAGTAG 57.633 37.037 0.00 0.00 44.59 2.57
2244 2272 7.338703 CGTAATACTGGCTATACCTTATCCTCA 59.661 40.741 0.00 0.00 40.22 3.86
2283 2311 9.420118 TGTATAGCAATTTCCAGAACCAATATT 57.580 29.630 0.00 0.00 0.00 1.28
2636 2664 1.944024 CTGAAGCACCAACACCGTAAA 59.056 47.619 0.00 0.00 0.00 2.01
2753 2781 0.400213 AGTTGGGGCATTCTCGACAA 59.600 50.000 0.00 0.00 0.00 3.18
2763 2791 1.383799 CCCTGATTCAGTTGGGGCA 59.616 57.895 12.54 0.00 36.15 5.36
3090 3123 2.145397 TCATGAGCTAACCTCGGACT 57.855 50.000 0.00 0.00 43.82 3.85
3461 3496 4.749245 ACTGTGTTAATTTGAGCCTTCG 57.251 40.909 0.00 0.00 0.00 3.79
3521 3556 3.503363 CAGCAAAGGAAGCAATGTCAGTA 59.497 43.478 0.00 0.00 0.00 2.74
3566 3601 5.888982 TCTTTTCCTCTAAGGTTGACACT 57.111 39.130 0.00 0.00 36.53 3.55
3776 3813 2.816087 CACAAGACCACTTTGGATGGAG 59.184 50.000 0.00 0.00 40.96 3.86
3845 3882 0.693622 TTAGCCCACGATGGACCAAA 59.306 50.000 0.00 0.00 40.96 3.28
4008 4045 5.806654 TTATATGCACTGGTCTGCTATCA 57.193 39.130 0.00 0.00 38.07 2.15
4052 4089 5.117287 GCTAACTGACTAACACTTGAACTCG 59.883 44.000 0.00 0.00 0.00 4.18
4089 4126 2.496070 TCAGGGACGAAGGTACAATCAG 59.504 50.000 0.00 0.00 0.00 2.90
4152 4314 8.472413 AGGACTATACGTTGCAAAAGTAGATAA 58.528 33.333 17.40 1.61 43.63 1.75
4156 4318 6.367969 ACAAGGACTATACGTTGCAAAAGTAG 59.632 38.462 17.40 12.43 43.63 2.57
4197 4359 9.905713 ACATAGTTTAAGAAGATTTATGGCAGA 57.094 29.630 0.00 0.00 0.00 4.26
4334 4496 3.426159 CGTGACATTATTCACAGGCCAAC 60.426 47.826 5.01 0.00 45.38 3.77
4341 4503 4.816925 TGAAACCACGTGACATTATTCACA 59.183 37.500 19.30 0.26 45.38 3.58
4394 4556 7.154656 ACCATTTAGCATTTTTCAGGAACTTC 58.845 34.615 0.00 0.00 34.60 3.01
4414 4576 5.191727 TGGGTGAGTGATCAAATACCATT 57.808 39.130 19.33 0.00 0.00 3.16
4415 4577 4.860802 TGGGTGAGTGATCAAATACCAT 57.139 40.909 19.33 0.00 0.00 3.55
4482 4644 6.854892 CAGCATAGCAATAATTTAGCACTGAC 59.145 38.462 0.00 0.00 0.00 3.51
4567 4729 8.652463 CCAATTTAAAAACGTATTGGGATGAAC 58.348 33.333 14.98 0.00 42.02 3.18
4595 4757 0.539986 GTAGTCCCCCTTGATCGCAA 59.460 55.000 0.00 0.00 0.00 4.85
4607 4769 5.839606 AGTAAGGGATAACAGATGTAGTCCC 59.160 44.000 20.19 20.19 45.15 4.46
4674 4837 9.807921 CCTAATATGGTATGGGTAACTTCATTT 57.192 33.333 0.00 0.00 0.00 2.32
4692 4855 7.941919 TGAGTAGCTCACTTGTACCTAATATG 58.058 38.462 0.00 0.00 37.72 1.78
4757 5038 7.124573 AGTACAGTGTCAGCATAATGGATAA 57.875 36.000 0.00 0.00 0.00 1.75
4988 5269 5.806366 TGAAGTATCTGCATGACATGTTG 57.194 39.130 16.62 9.78 0.00 3.33
4989 5270 6.376299 ACAATGAAGTATCTGCATGACATGTT 59.624 34.615 16.62 1.37 28.80 2.71
4990 5271 5.884232 ACAATGAAGTATCTGCATGACATGT 59.116 36.000 16.62 0.00 28.80 3.21
5033 5314 6.518369 CGGAGGGAGTAATATCACAATGCTTA 60.518 42.308 0.00 0.00 0.00 3.09
5056 5337 6.817765 AAAACACTCATATATTATGGGCGG 57.182 37.500 0.00 0.00 0.00 6.13
5103 5384 4.091509 GTCCCATAATATAAGAGCGTTGCG 59.908 45.833 0.00 0.00 0.00 4.85
5104 5385 4.091509 CGTCCCATAATATAAGAGCGTTGC 59.908 45.833 0.00 0.00 0.00 4.17
5105 5386 4.625742 CCGTCCCATAATATAAGAGCGTTG 59.374 45.833 0.00 0.00 0.00 4.10
5106 5387 4.525487 TCCGTCCCATAATATAAGAGCGTT 59.475 41.667 0.00 0.00 0.00 4.84
5107 5388 4.084287 TCCGTCCCATAATATAAGAGCGT 58.916 43.478 0.00 0.00 0.00 5.07
5108 5389 4.440250 CCTCCGTCCCATAATATAAGAGCG 60.440 50.000 0.00 0.00 0.00 5.03


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

AutoCloner maintained by Alex Coulton.