Multiple sequence alignment - TraesCS5D01G074900

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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 TraesCS5D01G074900 chr5D 100.000 3715 0 0 1 3715 74143856 74147570 0.000000e+00 6861
1 TraesCS5D01G074900 chr5B 92.257 2893 135 34 45 2887 78222405 78219552 0.000000e+00 4019
2 TraesCS5D01G074900 chr5B 88.857 691 33 10 2884 3545 78219501 78218826 0.000000e+00 809
3 TraesCS5D01G074900 chr5B 94.304 158 9 0 3542 3699 78218746 78218589 3.710000e-60 243
4 TraesCS5D01G074900 chr5A 90.547 2888 147 49 1 2811 69139474 69142312 0.000000e+00 3705
5 TraesCS5D01G074900 chr5A 90.134 598 44 8 3126 3710 69142624 69143219 0.000000e+00 763
6 TraesCS5D01G074900 chr5A 90.000 310 21 5 1039 1347 69222864 69222564 3.480000e-105 392
7 TraesCS5D01G074900 chr5A 86.207 319 18 10 2836 3143 69142304 69142607 4.630000e-84 322
8 TraesCS5D01G074900 chr4A 78.910 1119 196 28 1358 2462 552832916 552831824 0.000000e+00 723
9 TraesCS5D01G074900 chr4A 78.226 1116 204 28 1358 2461 552817054 552818142 0.000000e+00 678
10 TraesCS5D01G074900 chr4D 78.463 1119 199 31 1358 2461 46187188 46186097 0.000000e+00 693
11 TraesCS5D01G074900 chr4B 78.125 1120 203 30 1358 2462 67095230 67096322 0.000000e+00 673
12 TraesCS5D01G074900 chr4B 77.887 1117 206 32 1358 2461 67543626 67542538 0.000000e+00 656
13 TraesCS5D01G074900 chr4B 77.130 1115 218 27 1358 2461 67354025 67352937 2.450000e-171 612
14 TraesCS5D01G074900 chr4B 76.459 1028 205 30 1446 2459 67484847 67483843 1.180000e-144 523
15 TraesCS5D01G074900 chr7B 93.750 208 13 0 2340 2547 449873714 449873507 2.790000e-81 313


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 TraesCS5D01G074900 chr5D 74143856 74147570 3714 False 6861.000000 6861 100.000000 1 3715 1 chr5D.!!$F1 3714
1 TraesCS5D01G074900 chr5B 78218589 78222405 3816 True 1690.333333 4019 91.806000 45 3699 3 chr5B.!!$R1 3654
2 TraesCS5D01G074900 chr5A 69139474 69143219 3745 False 1596.666667 3705 88.962667 1 3710 3 chr5A.!!$F1 3709
3 TraesCS5D01G074900 chr4A 552831824 552832916 1092 True 723.000000 723 78.910000 1358 2462 1 chr4A.!!$R1 1104
4 TraesCS5D01G074900 chr4A 552817054 552818142 1088 False 678.000000 678 78.226000 1358 2461 1 chr4A.!!$F1 1103
5 TraesCS5D01G074900 chr4D 46186097 46187188 1091 True 693.000000 693 78.463000 1358 2461 1 chr4D.!!$R1 1103
6 TraesCS5D01G074900 chr4B 67095230 67096322 1092 False 673.000000 673 78.125000 1358 2462 1 chr4B.!!$F1 1104
7 TraesCS5D01G074900 chr4B 67542538 67543626 1088 True 656.000000 656 77.887000 1358 2461 1 chr4B.!!$R3 1103
8 TraesCS5D01G074900 chr4B 67352937 67354025 1088 True 612.000000 612 77.130000 1358 2461 1 chr4B.!!$R1 1103
9 TraesCS5D01G074900 chr4B 67483843 67484847 1004 True 523.000000 523 76.459000 1446 2459 1 chr4B.!!$R2 1013

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
576 606 0.096976 ATTTCGCTGCCAAATCGTCG 59.903 50.0 0.0 0.0 0.00 5.12 F
1053 1152 0.171455 AAGCGTCACTCTCGACATCC 59.829 55.0 0.0 0.0 35.54 3.51 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1765 1867 1.005037 CCGCAGCCACACAGAACTA 60.005 57.895 0.0 0.0 0.00 2.24 R
2837 2969 0.673956 CGACCTCTCAGTCTCACCGA 60.674 60.000 0.0 0.0 34.46 4.69 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
91 92 4.034742 CGTACCCTAATCCAAAATCAACCG 59.965 45.833 0.00 0.00 0.00 4.44
98 101 2.166829 TCCAAAATCAACCGGTGATGG 58.833 47.619 8.52 12.57 46.80 3.51
104 107 0.762418 TCAACCGGTGATGGTCACTT 59.238 50.000 8.52 0.00 46.19 3.16
143 146 0.652592 CACATTGTCGCGATCCTTCC 59.347 55.000 14.06 0.00 0.00 3.46
183 188 4.504858 GGATAGACCGTCACATGTTTTCT 58.495 43.478 0.00 0.00 0.00 2.52
195 200 6.589907 GTCACATGTTTTCTGTTTTTCAACCT 59.410 34.615 0.00 0.00 31.02 3.50
218 223 2.806288 AATAACTCATCAACGCACGC 57.194 45.000 0.00 0.00 0.00 5.34
232 240 2.358737 ACGCACCAGCTGCTAACC 60.359 61.111 8.66 0.00 44.64 2.85
283 291 0.953960 GGTCGATTCCACACCACACC 60.954 60.000 0.00 0.00 0.00 4.16
309 319 1.925185 GGAAGGATCGAGTTAACACGC 59.075 52.381 18.91 7.41 0.00 5.34
315 325 0.106335 TCGAGTTAACACGCCCCAAA 59.894 50.000 18.91 0.00 0.00 3.28
317 327 0.240145 GAGTTAACACGCCCCAAAGC 59.760 55.000 8.61 0.00 0.00 3.51
336 346 0.734889 CAGCCGAATCAACATGGACC 59.265 55.000 0.00 0.00 0.00 4.46
339 349 1.133025 GCCGAATCAACATGGACCAAG 59.867 52.381 0.00 0.00 0.00 3.61
340 350 2.436417 CCGAATCAACATGGACCAAGT 58.564 47.619 0.00 0.00 0.00 3.16
341 351 2.819608 CCGAATCAACATGGACCAAGTT 59.180 45.455 9.29 9.29 0.00 2.66
342 352 3.119849 CCGAATCAACATGGACCAAGTTC 60.120 47.826 12.10 1.03 0.00 3.01
343 353 3.501828 CGAATCAACATGGACCAAGTTCA 59.498 43.478 12.10 0.00 0.00 3.18
345 355 5.335897 CGAATCAACATGGACCAAGTTCATT 60.336 40.000 10.95 10.95 27.74 2.57
346 356 6.423776 AATCAACATGGACCAAGTTCATTT 57.576 33.333 12.10 4.20 27.74 2.32
366 384 8.331539 TCATTTAACGTAGTATAGCTTTCACG 57.668 34.615 0.00 0.00 45.00 4.35
367 385 7.970061 TCATTTAACGTAGTATAGCTTTCACGT 59.030 33.333 0.00 0.00 45.00 4.49
421 443 4.275196 ACTGCGTCTATAATTAGCGTCTGA 59.725 41.667 0.00 0.00 31.74 3.27
506 536 1.202154 CGTACTTGTCACCTAGCTCGG 60.202 57.143 1.98 1.98 0.00 4.63
507 537 0.815734 TACTTGTCACCTAGCTCGGC 59.184 55.000 3.73 0.00 0.00 5.54
508 538 1.517257 CTTGTCACCTAGCTCGGCG 60.517 63.158 3.73 0.00 0.00 6.46
509 539 2.890847 CTTGTCACCTAGCTCGGCGG 62.891 65.000 7.21 0.00 0.00 6.13
510 540 4.874977 GTCACCTAGCTCGGCGGC 62.875 72.222 7.21 9.87 0.00 6.53
576 606 0.096976 ATTTCGCTGCCAAATCGTCG 59.903 50.000 0.00 0.00 0.00 5.12
587 617 3.670203 CCAAATCGTCGATCTTTTTCCG 58.330 45.455 8.45 0.00 0.00 4.30
676 733 6.128795 GCAGTCTAAGCTTAATAATAGCGTGG 60.129 42.308 7.74 0.00 43.37 4.94
680 737 5.613358 AAGCTTAATAATAGCGTGGCATC 57.387 39.130 0.00 0.00 43.37 3.91
694 751 3.649073 GTGGCATCCCAACTTTTTACAC 58.351 45.455 0.00 0.00 44.33 2.90
696 753 2.554893 GGCATCCCAACTTTTTACACGA 59.445 45.455 0.00 0.00 0.00 4.35
712 769 4.410492 ACACGAGAACTGCATTCAAATC 57.590 40.909 10.26 1.36 40.09 2.17
769 826 1.790387 GTGTGGCTCAGTGCGATTC 59.210 57.895 0.00 0.00 44.05 2.52
781 838 4.444838 CGATTCGCGGGGACACCA 62.445 66.667 6.13 0.00 40.22 4.17
782 839 2.818274 GATTCGCGGGGACACCAC 60.818 66.667 6.13 0.00 40.22 4.16
783 840 3.599285 GATTCGCGGGGACACCACA 62.599 63.158 6.13 0.00 40.22 4.17
784 841 3.894547 ATTCGCGGGGACACCACAC 62.895 63.158 6.13 0.00 40.22 3.82
790 847 2.840753 GGGGACACCACACCACCAT 61.841 63.158 0.00 0.00 39.85 3.55
793 850 0.179004 GGACACCACACCACCATCAA 60.179 55.000 0.00 0.00 0.00 2.57
1053 1152 0.171455 AAGCGTCACTCTCGACATCC 59.829 55.000 0.00 0.00 35.54 3.51
1054 1153 1.226717 GCGTCACTCTCGACATCCC 60.227 63.158 0.00 0.00 35.54 3.85
1055 1154 1.934220 GCGTCACTCTCGACATCCCA 61.934 60.000 0.00 0.00 35.54 4.37
1148 1247 2.710760 GTCGCAGAGACTCGATACTTG 58.289 52.381 0.00 0.00 46.13 3.16
1162 1261 0.600782 TACTTGGTTGAACGGTCGGC 60.601 55.000 0.00 0.00 0.00 5.54
1182 1281 1.138671 GCTGGTGTTGCGTTTGTGT 59.861 52.632 0.00 0.00 0.00 3.72
1216 1315 1.197721 CTTCGTTGTGCCATGAGGAAC 59.802 52.381 0.00 0.00 44.61 3.62
1235 1334 0.318445 CCACAAGAAGTTGCTGCAGC 60.318 55.000 31.89 31.89 37.14 5.25
1438 1540 4.475135 GAGACGGGGCTCCTTGGC 62.475 72.222 0.00 0.00 40.96 4.52
1522 1624 1.282930 GCACGGACTCCAAGAACGTC 61.283 60.000 0.00 0.00 35.36 4.34
1771 1879 4.891727 CGGCGCCGGCATAGTTCT 62.892 66.667 40.50 0.00 42.47 3.01
2277 2388 2.836360 GGCCGACCGGACCATCTA 60.836 66.667 9.46 0.00 37.31 1.98
2616 2732 2.973600 TGTAAACCGTGTGGCCGC 60.974 61.111 10.11 10.11 39.70 6.53
2678 2804 5.368145 AGAATCATGCATACACCGTATGTT 58.632 37.500 13.95 2.39 43.19 2.71
2784 2916 2.430694 CTGGGATGTTGACGGATGAGTA 59.569 50.000 0.00 0.00 0.00 2.59
2873 3005 3.695060 AGGTCGATTTGTACACTCTCGAT 59.305 43.478 20.13 8.29 40.10 3.59
2881 3013 7.411480 CGATTTGTACACTCTCGATTAAGCAAA 60.411 37.037 13.02 0.00 0.00 3.68
2882 3014 6.462073 TTGTACACTCTCGATTAAGCAAAC 57.538 37.500 0.00 0.00 0.00 2.93
2886 3018 4.929808 ACACTCTCGATTAAGCAAACGAAT 59.070 37.500 0.00 0.00 34.50 3.34
2888 3020 5.729883 CACTCTCGATTAAGCAAACGAATTG 59.270 40.000 0.00 0.00 42.21 2.32
2996 3186 7.324354 TCAAATTAGGTCCGTTTATAAAGGC 57.676 36.000 11.57 0.00 0.00 4.35
3009 3199 0.313672 TAAAGGCTTTGCTTGTGCGG 59.686 50.000 22.32 0.00 43.34 5.69
3111 3328 6.673154 GTAGAAAACGGTGCCTGTAAATAT 57.327 37.500 0.00 0.00 0.00 1.28
3136 3353 5.748592 ACTTTCAAATGTAAAGACAGCGAC 58.251 37.500 2.79 0.00 39.50 5.19
3155 3407 0.640768 CGCCTTCGATTCAGACGAAC 59.359 55.000 0.00 0.00 43.19 3.95
3177 3429 3.488553 CGAATTAATTCCCGGTTGCTTCC 60.489 47.826 20.01 0.00 33.28 3.46
3207 3459 7.550597 AGCATCAAGGAAGATATCTGTCATA 57.449 36.000 5.86 0.00 0.00 2.15
3343 3602 0.384353 GACGCCGAAACTGACAAAGC 60.384 55.000 0.00 0.00 0.00 3.51
3394 3654 2.446802 GGAAGAGGGGGCCGATCT 60.447 66.667 0.00 0.00 0.00 2.75
3545 3807 5.220043 CGTCTGAGCTTGTCGTTTACTATTG 60.220 44.000 0.00 0.00 0.00 1.90
3585 3930 4.020751 TGTCGTCTATACTATCTAGGCCGT 60.021 45.833 0.00 0.00 0.00 5.68
3645 3990 2.956333 GGTTTCCCCCGATTTCCATTAG 59.044 50.000 0.00 0.00 0.00 1.73
3647 3992 4.021229 GTTTCCCCCGATTTCCATTAGTT 58.979 43.478 0.00 0.00 0.00 2.24
3699 4044 1.272769 AGACAAGGTACGTGGAGCTTC 59.727 52.381 0.00 0.00 43.51 3.86
3703 4048 3.322828 ACAAGGTACGTGGAGCTTCTTTA 59.677 43.478 0.00 0.00 43.51 1.85
3704 4049 3.589495 AGGTACGTGGAGCTTCTTTAC 57.411 47.619 0.00 0.00 0.00 2.01
3710 4055 5.767816 ACGTGGAGCTTCTTTACAAAAAT 57.232 34.783 0.00 0.00 0.00 1.82
3711 4056 6.144078 ACGTGGAGCTTCTTTACAAAAATT 57.856 33.333 0.00 0.00 0.00 1.82
3712 4057 7.266922 ACGTGGAGCTTCTTTACAAAAATTA 57.733 32.000 0.00 0.00 0.00 1.40
3713 4058 7.136772 ACGTGGAGCTTCTTTACAAAAATTAC 58.863 34.615 0.00 0.00 0.00 1.89
3714 4059 6.302313 CGTGGAGCTTCTTTACAAAAATTACG 59.698 38.462 0.00 0.00 0.00 3.18
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
9 10 7.707893 TGTAATTACTAGTACAAAGCGGGAATC 59.292 37.037 16.33 0.00 32.38 2.52
65 66 6.037500 GGTTGATTTTGGATTAGGGTACGTAC 59.962 42.308 17.56 17.56 0.00 3.67
98 101 4.059459 CACGCGCGACCAAGTGAC 62.059 66.667 39.36 0.00 36.79 3.67
104 107 3.033764 GAAAGTCACGCGCGACCA 61.034 61.111 39.36 16.75 36.52 4.02
169 174 6.453659 GGTTGAAAAACAGAAAACATGTGACG 60.454 38.462 0.00 0.00 30.22 4.35
183 188 7.883391 TGAGTTATTACCAGGTTGAAAAACA 57.117 32.000 0.00 0.00 34.45 2.83
195 200 3.615056 CGTGCGTTGATGAGTTATTACCA 59.385 43.478 0.00 0.00 0.00 3.25
232 240 2.467962 TGGACGACAGAGACGCTAG 58.532 57.895 0.00 0.00 0.00 3.42
283 291 1.961180 AACTCGATCCTTCCCAGCCG 61.961 60.000 0.00 0.00 0.00 5.52
309 319 1.250154 TTGATTCGGCTGCTTTGGGG 61.250 55.000 0.00 0.00 0.00 4.96
315 325 0.035152 TCCATGTTGATTCGGCTGCT 60.035 50.000 0.00 0.00 0.00 4.24
317 327 0.734889 GGTCCATGTTGATTCGGCTG 59.265 55.000 0.00 0.00 0.00 4.85
339 349 9.897349 GTGAAAGCTATACTACGTTAAATGAAC 57.103 33.333 0.00 0.00 34.41 3.18
340 350 8.800972 CGTGAAAGCTATACTACGTTAAATGAA 58.199 33.333 0.00 0.00 0.00 2.57
341 351 7.970061 ACGTGAAAGCTATACTACGTTAAATGA 59.030 33.333 0.00 0.00 41.31 2.57
342 352 8.048436 CACGTGAAAGCTATACTACGTTAAATG 58.952 37.037 10.90 0.00 42.06 2.32
343 353 7.756722 ACACGTGAAAGCTATACTACGTTAAAT 59.243 33.333 25.01 0.00 42.06 1.40
345 355 6.524239 CACACGTGAAAGCTATACTACGTTAA 59.476 38.462 25.01 0.00 42.06 2.01
346 356 6.023435 CACACGTGAAAGCTATACTACGTTA 58.977 40.000 25.01 0.00 42.06 3.18
366 384 3.026630 TGACAAAGTCTCGGATCACAC 57.973 47.619 0.00 0.00 33.15 3.82
367 385 3.744238 TTGACAAAGTCTCGGATCACA 57.256 42.857 0.00 0.00 33.15 3.58
421 443 5.657302 CAGGCCGGGTCTAATATACTAATCT 59.343 44.000 0.00 0.00 0.00 2.40
576 606 5.283294 GCTAGGAGTAGACGGAAAAAGATC 58.717 45.833 0.00 0.00 0.00 2.75
587 617 2.694109 ACCCAAATCGCTAGGAGTAGAC 59.306 50.000 0.00 0.00 0.00 2.59
676 733 3.500680 TCTCGTGTAAAAAGTTGGGATGC 59.499 43.478 0.00 0.00 0.00 3.91
680 737 4.788521 GCAGTTCTCGTGTAAAAAGTTGGG 60.789 45.833 0.00 0.00 0.00 4.12
694 751 3.686241 TCAGGATTTGAATGCAGTTCTCG 59.314 43.478 0.00 0.00 37.72 4.04
696 753 3.438087 CGTCAGGATTTGAATGCAGTTCT 59.562 43.478 0.00 0.00 37.61 3.01
712 769 1.238439 AATGTCAACTTGGCGTCAGG 58.762 50.000 0.00 0.00 0.00 3.86
776 833 0.257328 TGTTGATGGTGGTGTGGTGT 59.743 50.000 0.00 0.00 0.00 4.16
779 836 0.467106 TGGTGTTGATGGTGGTGTGG 60.467 55.000 0.00 0.00 0.00 4.17
780 837 1.066908 GTTGGTGTTGATGGTGGTGTG 59.933 52.381 0.00 0.00 0.00 3.82
781 838 1.341482 TGTTGGTGTTGATGGTGGTGT 60.341 47.619 0.00 0.00 0.00 4.16
782 839 1.066908 GTGTTGGTGTTGATGGTGGTG 59.933 52.381 0.00 0.00 0.00 4.17
783 840 1.064017 AGTGTTGGTGTTGATGGTGGT 60.064 47.619 0.00 0.00 0.00 4.16
784 841 1.337703 CAGTGTTGGTGTTGATGGTGG 59.662 52.381 0.00 0.00 0.00 4.61
790 847 0.322906 TGGTGCAGTGTTGGTGTTGA 60.323 50.000 0.00 0.00 0.00 3.18
793 850 0.748005 GAGTGGTGCAGTGTTGGTGT 60.748 55.000 0.00 0.00 0.00 4.16
965 1061 0.748450 GCGGGGTATATATAGCGGCA 59.252 55.000 21.82 0.00 33.76 5.69
1053 1152 1.597461 GGAGAAGGAACCGAGGTGG 59.403 63.158 0.00 0.00 46.41 4.61
1054 1153 0.905337 AGGGAGAAGGAACCGAGGTG 60.905 60.000 0.00 0.00 0.00 4.00
1055 1154 0.178900 AAGGGAGAAGGAACCGAGGT 60.179 55.000 0.00 0.00 0.00 3.85
1095 1194 0.606096 AACCGGCTGCCAAAATTACC 59.394 50.000 20.29 0.00 0.00 2.85
1162 1261 2.353376 CAAACGCAACACCAGCCG 60.353 61.111 0.00 0.00 0.00 5.52
1216 1315 0.318445 GCTGCAGCAACTTCTTGTGG 60.318 55.000 33.36 0.00 41.59 4.17
1438 1540 3.403276 GTCCTCCTTGACGAACGAG 57.597 57.895 0.14 0.00 0.00 4.18
1765 1867 1.005037 CCGCAGCCACACAGAACTA 60.005 57.895 0.00 0.00 0.00 2.24
1768 1876 4.560743 TGCCGCAGCCACACAGAA 62.561 61.111 0.00 0.00 38.69 3.02
1771 1879 4.873810 AAGTGCCGCAGCCACACA 62.874 61.111 13.48 0.00 38.69 3.72
1795 1903 2.601666 AGGCTGAGGCACGAGACA 60.602 61.111 9.23 0.00 40.87 3.41
2628 2746 3.068585 CGTACGCGTATCTACAGCC 57.931 57.895 23.56 5.70 0.00 4.85
2678 2804 1.467204 CGCAACACCGTATACGTACCA 60.467 52.381 22.87 0.00 37.74 3.25
2784 2916 1.064017 ACCAAATCACCACCACACAGT 60.064 47.619 0.00 0.00 0.00 3.55
2831 2963 1.304217 TCAGTCTCACCGACCCCTC 60.304 63.158 0.00 0.00 43.91 4.30
2832 2964 1.304547 CTCAGTCTCACCGACCCCT 60.305 63.158 0.00 0.00 43.91 4.79
2836 2968 0.806241 GACCTCTCAGTCTCACCGAC 59.194 60.000 0.00 0.00 43.17 4.79
2837 2969 0.673956 CGACCTCTCAGTCTCACCGA 60.674 60.000 0.00 0.00 34.46 4.69
2873 3005 6.801575 AGAAAGAACCAATTCGTTTGCTTAA 58.198 32.000 0.00 0.00 36.76 1.85
2881 3013 4.760204 CCCAACTAGAAAGAACCAATTCGT 59.240 41.667 0.00 0.00 40.04 3.85
2882 3014 5.001232 TCCCAACTAGAAAGAACCAATTCG 58.999 41.667 0.00 0.00 40.04 3.34
2886 3018 5.382664 AAGTCCCAACTAGAAAGAACCAA 57.617 39.130 0.00 0.00 33.48 3.67
2888 3020 5.009710 CCAAAAGTCCCAACTAGAAAGAACC 59.990 44.000 0.00 0.00 33.48 3.62
2996 3186 1.286880 CCTTCCCGCACAAGCAAAG 59.713 57.895 0.00 0.00 42.27 2.77
3009 3199 7.776618 TCTTCCTTCTTTAATTTTCCCTTCC 57.223 36.000 0.00 0.00 0.00 3.46
3108 3325 9.988350 CGCTGTCTTTACATTTGAAAGTTATAT 57.012 29.630 0.00 0.00 35.73 0.86
3109 3326 9.210329 TCGCTGTCTTTACATTTGAAAGTTATA 57.790 29.630 0.00 0.00 35.73 0.98
3110 3327 8.015658 GTCGCTGTCTTTACATTTGAAAGTTAT 58.984 33.333 0.00 0.00 35.73 1.89
3111 3328 7.349711 GTCGCTGTCTTTACATTTGAAAGTTA 58.650 34.615 0.00 0.00 35.73 2.24
3125 3342 2.022129 CGAAGGCGTCGCTGTCTTT 61.022 57.895 18.11 4.35 44.14 2.52
3136 3353 0.640768 GTTCGTCTGAATCGAAGGCG 59.359 55.000 3.25 3.25 45.58 5.52
3151 3403 3.676540 CAACCGGGAATTAATTCGTTCG 58.323 45.455 19.41 20.01 37.67 3.95
3155 3407 3.488553 GGAAGCAACCGGGAATTAATTCG 60.489 47.826 19.41 11.24 37.67 3.34
3177 3429 6.205076 CAGATATCTTCCTTGATGCTTTCCAG 59.795 42.308 1.33 0.00 0.00 3.86
3207 3459 3.152400 CCCGGCCGGCTAACTACT 61.152 66.667 39.46 0.00 0.00 2.57
3245 3501 3.007182 ACGACCTTCCTTTTTACGATCCA 59.993 43.478 0.00 0.00 0.00 3.41
3343 3602 1.596260 CACCAACGATAGCAGCATCTG 59.404 52.381 0.00 0.00 42.67 2.90
3394 3654 2.418280 TCGCACGTACGGTACTCATTTA 59.582 45.455 21.06 0.00 0.00 1.40
3523 3783 5.779922 ACAATAGTAAACGACAAGCTCAGA 58.220 37.500 0.00 0.00 0.00 3.27
3545 3807 3.794564 ACGACAATTCCGCAAAGAAAAAC 59.205 39.130 0.00 0.00 0.00 2.43
3585 3930 5.964958 AAGAAAATGCTCAATCGAAGGAA 57.035 34.783 0.00 0.00 0.00 3.36
3645 3990 7.589954 AGCATTTTCGTGTATTGAAACTACAAC 59.410 33.333 0.00 0.00 35.22 3.32
3647 3992 7.197071 AGCATTTTCGTGTATTGAAACTACA 57.803 32.000 0.00 0.00 35.22 2.74


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

AutoCloner maintained by Alex Coulton.