Multiple sequence alignment - TraesCS5B01G130300

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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 TraesCS5B01G130300 chr5B 100.000 2717 0 0 1 2717 241806454 241803738 0.000000e+00 5018.0
1 TraesCS5B01G130300 chr5D 92.874 2105 56 29 660 2717 218939844 218937787 0.000000e+00 2970.0
2 TraesCS5B01G130300 chr5D 88.972 671 62 4 1 660 21991849 21992518 0.000000e+00 819.0
3 TraesCS5B01G130300 chr5D 86.810 652 75 4 10 650 546316646 546315995 0.000000e+00 717.0
4 TraesCS5B01G130300 chr5D 72.237 371 90 13 238 601 29147242 29146878 4.790000e-18 102.0
5 TraesCS5B01G130300 chr5A 89.820 1778 77 31 660 2379 292257172 292255441 0.000000e+00 2185.0
6 TraesCS5B01G130300 chr5A 94.326 282 7 2 2407 2685 292253728 292253453 8.990000e-115 424.0
7 TraesCS5B01G130300 chr2D 89.866 671 57 4 1 660 497994162 497993492 0.000000e+00 852.0
8 TraesCS5B01G130300 chr2D 87.928 671 64 8 1 660 54096441 54097105 0.000000e+00 774.0
9 TraesCS5B01G130300 chr4D 89.419 671 55 6 1 660 73247372 73246707 0.000000e+00 832.0
10 TraesCS5B01G130300 chr4D 89.121 671 62 4 1 660 374514164 374513494 0.000000e+00 824.0
11 TraesCS5B01G130300 chr3B 88.227 671 67 5 1 660 786360355 786361024 0.000000e+00 791.0
12 TraesCS5B01G130300 chr2B 87.820 665 70 4 7 660 306905769 306905105 0.000000e+00 769.0
13 TraesCS5B01G130300 chr1A 86.412 655 78 4 7 650 506268860 506268206 0.000000e+00 706.0
14 TraesCS5B01G130300 chr4A 70.994 624 144 29 2 601 553440545 553439935 6.150000e-22 115.0
15 TraesCS5B01G130300 chr7D 72.118 373 81 15 11 366 19278457 19278091 1.040000e-14 91.6
16 TraesCS5B01G130300 chr7D 88.889 72 6 2 8 78 514066749 514066679 1.340000e-13 87.9
17 TraesCS5B01G130300 chr6D 70.805 435 118 8 169 598 65708613 65709043 1.040000e-14 91.6
18 TraesCS5B01G130300 chr6A 72.135 384 80 18 2 366 499284021 499283646 1.040000e-14 91.6
19 TraesCS5B01G130300 chr3D 71.802 383 87 13 2 366 578208241 578208620 3.730000e-14 89.8
20 TraesCS5B01G130300 chr3D 89.855 69 5 2 11 78 611903263 611903196 1.340000e-13 87.9
21 TraesCS5B01G130300 chr1D 85.135 74 11 0 2 75 348717074 348717147 2.900000e-10 76.8


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 TraesCS5B01G130300 chr5B 241803738 241806454 2716 True 5018.0 5018 100.000 1 2717 1 chr5B.!!$R1 2716
1 TraesCS5B01G130300 chr5D 218937787 218939844 2057 True 2970.0 2970 92.874 660 2717 1 chr5D.!!$R2 2057
2 TraesCS5B01G130300 chr5D 21991849 21992518 669 False 819.0 819 88.972 1 660 1 chr5D.!!$F1 659
3 TraesCS5B01G130300 chr5D 546315995 546316646 651 True 717.0 717 86.810 10 650 1 chr5D.!!$R3 640
4 TraesCS5B01G130300 chr5A 292253453 292257172 3719 True 1304.5 2185 92.073 660 2685 2 chr5A.!!$R1 2025
5 TraesCS5B01G130300 chr2D 497993492 497994162 670 True 852.0 852 89.866 1 660 1 chr2D.!!$R1 659
6 TraesCS5B01G130300 chr2D 54096441 54097105 664 False 774.0 774 87.928 1 660 1 chr2D.!!$F1 659
7 TraesCS5B01G130300 chr4D 73246707 73247372 665 True 832.0 832 89.419 1 660 1 chr4D.!!$R1 659
8 TraesCS5B01G130300 chr4D 374513494 374514164 670 True 824.0 824 89.121 1 660 1 chr4D.!!$R2 659
9 TraesCS5B01G130300 chr3B 786360355 786361024 669 False 791.0 791 88.227 1 660 1 chr3B.!!$F1 659
10 TraesCS5B01G130300 chr2B 306905105 306905769 664 True 769.0 769 87.820 7 660 1 chr2B.!!$R1 653
11 TraesCS5B01G130300 chr1A 506268206 506268860 654 True 706.0 706 86.412 7 650 1 chr1A.!!$R1 643

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
879 904 0.173481 TGTCCGCTCCATCTCGAAAG 59.827 55.0 0.0 0.0 0.0 2.62 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1881 1962 0.235144 GACTATTAGCGAGCGAGCGA 59.765 55.0 1.41 0.0 43.0 4.93 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
46 47 9.498307 ACATAAAAATTTTAATACGAAGCGGAG 57.502 29.630 3.34 0.00 0.00 4.63
68 69 5.717119 AGCTTTAATCTTCCAAATGTGCAG 58.283 37.500 0.00 0.00 0.00 4.41
84 85 1.446792 CAGCGACCTCGACAATGCT 60.447 57.895 0.00 0.00 43.02 3.79
88 99 1.060698 GCGACCTCGACAATGCTTTAC 59.939 52.381 0.00 0.00 43.02 2.01
155 166 8.784043 GTTAACTTTCAGTGAATTGTATCTGGT 58.216 33.333 6.36 0.00 0.00 4.00
166 177 7.441157 GTGAATTGTATCTGGTTGATCCGATAA 59.559 37.037 0.00 0.00 39.52 1.75
184 195 2.586648 AAGTGAACCTCCATCAACCC 57.413 50.000 0.00 0.00 0.00 4.11
231 242 3.956199 CCAACGTTCCCCTACTAGTGATA 59.044 47.826 5.39 0.00 0.00 2.15
234 245 5.057843 ACGTTCCCCTACTAGTGATATCA 57.942 43.478 5.39 0.00 0.00 2.15
239 250 8.027771 CGTTCCCCTACTAGTGATATCATAAAC 58.972 40.741 9.02 0.00 0.00 2.01
300 311 2.386661 ATCCTCCTTACGTTGCACAG 57.613 50.000 0.00 0.00 0.00 3.66
355 367 2.417924 GCATCTCCCTAGCCATGTATCG 60.418 54.545 0.00 0.00 0.00 2.92
373 385 3.226346 TCGTCCCAAAATCGAGTAGTG 57.774 47.619 0.00 0.00 0.00 2.74
389 401 5.575606 CGAGTAGTGTTACCATTACCAACTG 59.424 44.000 0.00 0.00 35.09 3.16
391 403 4.986054 AGTGTTACCATTACCAACTGGA 57.014 40.909 1.86 0.00 38.94 3.86
399 411 5.393866 ACCATTACCAACTGGAAACTTCAT 58.606 37.500 1.86 0.00 38.94 2.57
401 413 6.326323 ACCATTACCAACTGGAAACTTCATTT 59.674 34.615 1.86 0.00 38.94 2.32
442 454 5.630415 TCGTTCTCATTAATCCCTTCCAT 57.370 39.130 0.00 0.00 0.00 3.41
513 525 7.491696 AGAGTGTAAGTATTTATTCCGCAAGAC 59.508 37.037 0.00 0.00 43.02 3.01
526 538 1.464608 CGCAAGACTTGTACCCACATG 59.535 52.381 16.39 0.00 43.02 3.21
559 571 9.184523 GTCTCAGTAGATATTCTGTATAGCCAT 57.815 37.037 0.00 0.00 33.30 4.40
585 597 7.870509 TGCTAAGCAGACATCTATTTTTGAT 57.129 32.000 0.00 0.00 33.32 2.57
616 628 5.888691 TCTCGATCTCTAATGTATCCTGC 57.111 43.478 0.00 0.00 0.00 4.85
618 630 6.007076 TCTCGATCTCTAATGTATCCTGCTT 58.993 40.000 0.00 0.00 0.00 3.91
676 688 6.036083 GTCTGTACTGTAGGCATACATTTGTG 59.964 42.308 12.22 2.41 41.05 3.33
677 689 6.043854 TGTACTGTAGGCATACATTTGTGA 57.956 37.500 12.22 0.00 41.05 3.58
678 690 6.649155 TGTACTGTAGGCATACATTTGTGAT 58.351 36.000 12.22 0.00 41.05 3.06
780 802 3.133721 TGCTAGGTGTTTGTTTTGCCATT 59.866 39.130 0.00 0.00 0.00 3.16
781 803 3.494251 GCTAGGTGTTTGTTTTGCCATTG 59.506 43.478 0.00 0.00 0.00 2.82
794 816 1.353103 CCATTGAAAGCTAGCGCCG 59.647 57.895 9.55 0.00 36.60 6.46
795 817 1.297893 CATTGAAAGCTAGCGCCGC 60.298 57.895 9.55 7.63 36.60 6.53
796 818 2.472909 ATTGAAAGCTAGCGCCGCC 61.473 57.895 4.98 0.00 36.60 6.13
874 899 2.107953 GCCTGTCCGCTCCATCTC 59.892 66.667 0.00 0.00 0.00 2.75
879 904 0.173481 TGTCCGCTCCATCTCGAAAG 59.827 55.000 0.00 0.00 0.00 2.62
884 909 2.742053 CCGCTCCATCTCGAAAGAAAAA 59.258 45.455 0.00 0.00 41.32 1.94
947 982 5.476945 TGTGTTCTAGTATCTCTTGTGCTCA 59.523 40.000 0.00 0.00 0.00 4.26
1077 1113 0.386113 CTCCCGAAGCCACTACTAGC 59.614 60.000 0.00 0.00 0.00 3.42
1078 1114 0.033405 TCCCGAAGCCACTACTAGCT 60.033 55.000 0.00 0.00 42.40 3.32
1079 1115 1.213678 TCCCGAAGCCACTACTAGCTA 59.786 52.381 0.00 0.00 38.74 3.32
1080 1116 1.609555 CCCGAAGCCACTACTAGCTAG 59.390 57.143 19.44 19.44 38.74 3.42
1101 1149 0.610174 AGCACACTAGCTTAGCTGCA 59.390 50.000 17.97 0.00 43.70 4.41
1102 1150 1.209019 AGCACACTAGCTTAGCTGCAT 59.791 47.619 17.97 0.00 43.70 3.96
1103 1151 2.432146 AGCACACTAGCTTAGCTGCATA 59.568 45.455 17.97 0.00 43.70 3.14
1104 1152 2.541762 GCACACTAGCTTAGCTGCATAC 59.458 50.000 17.97 0.00 40.10 2.39
1105 1153 3.785486 CACACTAGCTTAGCTGCATACA 58.215 45.455 17.97 0.00 40.10 2.29
1106 1154 4.183865 CACACTAGCTTAGCTGCATACAA 58.816 43.478 17.97 0.00 40.10 2.41
1107 1155 4.033358 CACACTAGCTTAGCTGCATACAAC 59.967 45.833 17.97 0.00 40.10 3.32
1108 1156 4.081420 ACACTAGCTTAGCTGCATACAACT 60.081 41.667 17.97 0.00 40.10 3.16
1109 1157 4.505922 CACTAGCTTAGCTGCATACAACTC 59.494 45.833 17.97 0.00 40.10 3.01
1110 1158 3.902881 AGCTTAGCTGCATACAACTCT 57.097 42.857 5.70 0.00 37.57 3.24
1111 1159 3.529533 AGCTTAGCTGCATACAACTCTG 58.470 45.455 5.70 0.00 37.57 3.35
1112 1160 2.031437 GCTTAGCTGCATACAACTCTGC 59.969 50.000 1.02 0.00 38.87 4.26
1113 1161 2.315925 TAGCTGCATACAACTCTGCC 57.684 50.000 1.02 0.00 37.59 4.85
1114 1162 0.393537 AGCTGCATACAACTCTGCCC 60.394 55.000 1.02 0.00 37.59 5.36
1115 1163 0.393537 GCTGCATACAACTCTGCCCT 60.394 55.000 0.00 0.00 37.59 5.19
1116 1164 1.952367 GCTGCATACAACTCTGCCCTT 60.952 52.381 0.00 0.00 37.59 3.95
1117 1165 2.012673 CTGCATACAACTCTGCCCTTC 58.987 52.381 0.00 0.00 37.59 3.46
1118 1166 1.630369 TGCATACAACTCTGCCCTTCT 59.370 47.619 0.00 0.00 37.59 2.85
1136 1184 4.096382 CCTTCTCTTCTCTTCTCTTCCTCG 59.904 50.000 0.00 0.00 0.00 4.63
1255 1308 2.583593 CTGCTTCTCCTACGGCGC 60.584 66.667 6.90 0.00 0.00 6.53
1332 1389 2.094338 ACCACCGATACCTTTTCTCGTC 60.094 50.000 0.00 0.00 0.00 4.20
1387 1448 5.972935 TCTGATTGCTTAGATCGTTAACCA 58.027 37.500 0.00 0.00 0.00 3.67
1410 1472 2.083774 CGTGGATGTGTATTTGCAGGT 58.916 47.619 0.00 0.00 0.00 4.00
1415 1477 3.058914 GGATGTGTATTTGCAGGTATCGC 60.059 47.826 0.00 0.00 0.00 4.58
1465 1527 1.751349 AACAACGGACGGCCTAGTGT 61.751 55.000 5.33 3.18 0.00 3.55
1803 1880 1.542915 CTGCTGCTGTTTTGGCTACAT 59.457 47.619 0.00 0.00 0.00 2.29
1856 1937 2.125106 GGGTCTGCCACATCGTCC 60.125 66.667 0.00 0.00 36.17 4.79
1880 1961 2.263077 GTACATCGATCCATCCATCGC 58.737 52.381 0.00 0.00 44.48 4.58
1881 1962 0.972134 ACATCGATCCATCCATCGCT 59.028 50.000 0.00 0.00 44.48 4.93
1882 1963 1.067283 ACATCGATCCATCCATCGCTC 60.067 52.381 0.00 0.00 44.48 5.03
1883 1964 0.172127 ATCGATCCATCCATCGCTCG 59.828 55.000 0.00 0.00 44.48 5.03
1988 2081 2.288518 GCCACATACAGTAGCTCCTAGC 60.289 54.545 0.00 0.00 42.84 3.42
2004 2097 1.347707 CTAGCACTGTTGGGACTTCCA 59.652 52.381 0.00 0.00 45.43 3.53
2005 2098 0.773644 AGCACTGTTGGGACTTCCAT 59.226 50.000 0.00 0.00 46.52 3.41
2006 2099 0.883833 GCACTGTTGGGACTTCCATG 59.116 55.000 0.00 0.00 46.52 3.66
2007 2100 1.819305 GCACTGTTGGGACTTCCATGT 60.819 52.381 0.00 0.00 46.52 3.21
2008 2101 1.881973 CACTGTTGGGACTTCCATGTG 59.118 52.381 0.00 0.00 46.52 3.21
2009 2102 1.202927 ACTGTTGGGACTTCCATGTGG 60.203 52.381 0.00 0.00 46.52 4.17
2181 2292 2.159099 AGCTGTGAACGAGTGAACAAGA 60.159 45.455 0.00 0.00 0.00 3.02
2363 2479 0.392863 CCACTGAATCCATGCCGTCA 60.393 55.000 0.00 0.00 0.00 4.35
2369 2485 0.250901 AATCCATGCCGTCATAGCCC 60.251 55.000 0.00 0.00 0.00 5.19
2370 2486 2.129555 ATCCATGCCGTCATAGCCCC 62.130 60.000 0.00 0.00 0.00 5.80
2381 2497 3.654414 GTCATAGCCCCTTCAGATTACG 58.346 50.000 0.00 0.00 0.00 3.18
2431 4236 0.112606 TCTCACCGAGTCCAAGAGGT 59.887 55.000 0.00 0.00 37.49 3.85
2432 4237 1.353358 TCTCACCGAGTCCAAGAGGTA 59.647 52.381 0.00 0.00 34.83 3.08
2433 4238 1.746220 CTCACCGAGTCCAAGAGGTAG 59.254 57.143 0.00 0.00 34.83 3.18
2434 4239 0.818296 CACCGAGTCCAAGAGGTAGG 59.182 60.000 0.00 0.00 34.83 3.18
2455 4260 0.795085 CCTCTGAAACAGCAAGCTCG 59.205 55.000 0.00 0.00 0.00 5.03
2571 4376 0.166814 CGCAGCTACAGTTGGCTTTC 59.833 55.000 0.00 0.00 36.59 2.62
2702 4513 4.816984 GCTGGCTGGCTGGCTGAT 62.817 66.667 24.03 0.00 41.53 2.90
2710 4521 1.211457 CTGGCTGGCTGATTAGGTCTT 59.789 52.381 2.00 0.00 0.00 3.01
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
27 28 5.813080 AAGCTCCGCTTCGTATTAAAATT 57.187 34.783 0.00 0.00 46.77 1.82
46 47 4.328169 GCTGCACATTTGGAAGATTAAAGC 59.672 41.667 0.00 0.00 0.00 3.51
68 69 1.060698 GTAAAGCATTGTCGAGGTCGC 59.939 52.381 0.00 0.00 39.60 5.19
84 85 5.699915 TGAAAACCATGTATTCGGACGTAAA 59.300 36.000 0.00 0.00 0.00 2.01
88 99 4.875544 ATGAAAACCATGTATTCGGACG 57.124 40.909 0.00 0.00 33.39 4.79
155 166 3.772572 TGGAGGTTCACTTATCGGATCAA 59.227 43.478 0.00 0.00 0.00 2.57
166 177 1.073923 GTGGGTTGATGGAGGTTCACT 59.926 52.381 0.00 0.00 0.00 3.41
184 195 1.172180 ATGGTTGCACCTGGTTCGTG 61.172 55.000 0.00 0.00 39.58 4.35
203 214 0.693622 TAGGGGAACGTTGGAATGCA 59.306 50.000 5.00 0.00 0.00 3.96
231 242 9.601217 GATACCGCTTAATATCCAGTTTATGAT 57.399 33.333 0.00 0.00 0.00 2.45
234 245 7.833786 TCGATACCGCTTAATATCCAGTTTAT 58.166 34.615 0.00 0.00 35.37 1.40
239 250 5.312120 ACTCGATACCGCTTAATATCCAG 57.688 43.478 0.00 0.00 35.37 3.86
311 322 3.386932 TTGGCCTTGCAATATCCTTCT 57.613 42.857 3.32 0.00 0.00 2.85
314 325 2.391678 CCTTTGGCCTTGCAATATCCT 58.608 47.619 3.32 0.00 0.00 3.24
355 367 4.628766 GGTAACACTACTCGATTTTGGGAC 59.371 45.833 0.00 0.00 0.00 4.46
373 385 6.263617 TGAAGTTTCCAGTTGGTAATGGTAAC 59.736 38.462 6.16 6.16 43.40 2.50
389 401 7.041721 ACTTTCTTCCAACAAATGAAGTTTCC 58.958 34.615 0.00 0.00 0.00 3.13
391 403 7.148423 GCAACTTTCTTCCAACAAATGAAGTTT 60.148 33.333 0.00 0.00 0.00 2.66
399 411 4.862018 CGAAAGCAACTTTCTTCCAACAAA 59.138 37.500 15.81 0.00 45.19 2.83
401 413 3.442273 ACGAAAGCAACTTTCTTCCAACA 59.558 39.130 15.81 0.00 45.19 3.33
442 454 0.690762 GGCCAACAGACTCACCCTTA 59.309 55.000 0.00 0.00 0.00 2.69
468 480 2.076863 CTAAGACTTTGGCCCAAGTCG 58.923 52.381 32.71 20.80 36.50 4.18
513 525 0.744414 CGAGGGCATGTGGGTACAAG 60.744 60.000 0.00 0.00 40.84 3.16
526 538 2.273538 TATCTACTGAGACCGAGGGC 57.726 55.000 0.00 0.00 33.41 5.19
559 571 8.109705 TCAAAAATAGATGTCTGCTTAGCAAA 57.890 30.769 8.68 0.00 38.41 3.68
618 630 7.009179 TGGGATATTATTTGCACACCAAAAA 57.991 32.000 0.00 0.00 45.80 1.94
626 638 5.065218 CGGCTAGATGGGATATTATTTGCAC 59.935 44.000 0.00 0.00 0.00 4.57
676 688 2.815478 TGTTTCGGTGCCAAACAAATC 58.185 42.857 12.87 0.00 40.08 2.17
677 689 2.969628 TGTTTCGGTGCCAAACAAAT 57.030 40.000 12.87 0.00 40.08 2.32
678 690 2.743636 TTGTTTCGGTGCCAAACAAA 57.256 40.000 19.37 10.20 46.03 2.83
884 909 3.697542 GACACGGCCAATATTTTAGGGTT 59.302 43.478 2.24 0.00 0.00 4.11
885 910 3.284617 GACACGGCCAATATTTTAGGGT 58.715 45.455 2.24 0.00 0.00 4.34
886 911 3.283751 TGACACGGCCAATATTTTAGGG 58.716 45.455 2.24 0.00 0.00 3.53
947 982 2.166050 TGCAAGCAAACACAACAGTGAT 59.834 40.909 0.00 0.00 37.04 3.06
1078 1114 3.066900 GCAGCTAAGCTAGTGTGCTACTA 59.933 47.826 0.00 2.25 43.24 1.82
1079 1115 2.159170 GCAGCTAAGCTAGTGTGCTACT 60.159 50.000 0.00 0.12 43.24 2.57
1080 1116 2.197577 GCAGCTAAGCTAGTGTGCTAC 58.802 52.381 0.00 0.00 43.24 3.58
1101 1149 4.100373 AGAAGAGAAGGGCAGAGTTGTAT 58.900 43.478 0.00 0.00 0.00 2.29
1102 1150 3.511477 AGAAGAGAAGGGCAGAGTTGTA 58.489 45.455 0.00 0.00 0.00 2.41
1103 1151 2.301583 GAGAAGAGAAGGGCAGAGTTGT 59.698 50.000 0.00 0.00 0.00 3.32
1104 1152 2.566724 AGAGAAGAGAAGGGCAGAGTTG 59.433 50.000 0.00 0.00 0.00 3.16
1105 1153 2.901291 AGAGAAGAGAAGGGCAGAGTT 58.099 47.619 0.00 0.00 0.00 3.01
1106 1154 2.621556 AGAGAAGAGAAGGGCAGAGT 57.378 50.000 0.00 0.00 0.00 3.24
1107 1155 3.099141 AGAAGAGAAGAGAAGGGCAGAG 58.901 50.000 0.00 0.00 0.00 3.35
1108 1156 3.096092 GAGAAGAGAAGAGAAGGGCAGA 58.904 50.000 0.00 0.00 0.00 4.26
1109 1157 3.099141 AGAGAAGAGAAGAGAAGGGCAG 58.901 50.000 0.00 0.00 0.00 4.85
1110 1158 3.182887 AGAGAAGAGAAGAGAAGGGCA 57.817 47.619 0.00 0.00 0.00 5.36
1111 1159 3.118775 GGAAGAGAAGAGAAGAGAAGGGC 60.119 52.174 0.00 0.00 0.00 5.19
1112 1160 4.352893 AGGAAGAGAAGAGAAGAGAAGGG 58.647 47.826 0.00 0.00 0.00 3.95
1113 1161 4.096382 CGAGGAAGAGAAGAGAAGAGAAGG 59.904 50.000 0.00 0.00 0.00 3.46
1114 1162 4.096382 CCGAGGAAGAGAAGAGAAGAGAAG 59.904 50.000 0.00 0.00 0.00 2.85
1115 1163 4.013728 CCGAGGAAGAGAAGAGAAGAGAA 58.986 47.826 0.00 0.00 0.00 2.87
1116 1164 3.264706 TCCGAGGAAGAGAAGAGAAGAGA 59.735 47.826 0.00 0.00 0.00 3.10
1117 1165 3.377172 GTCCGAGGAAGAGAAGAGAAGAG 59.623 52.174 0.00 0.00 0.00 2.85
1118 1166 3.244946 TGTCCGAGGAAGAGAAGAGAAGA 60.245 47.826 0.00 0.00 0.00 2.87
1136 1184 4.729918 CACTGGGCTGGGCTGTCC 62.730 72.222 0.00 0.00 0.00 4.02
1157 1210 5.312120 TCTCGACTTCCTGCTTAAACTAG 57.688 43.478 0.00 0.00 0.00 2.57
1215 1268 1.077858 GGAGAAGCAGGGCAAGAGG 60.078 63.158 0.00 0.00 0.00 3.69
1332 1389 6.128715 CGAGGAGTATGCAAGCATGTAATAAG 60.129 42.308 17.26 1.46 37.82 1.73
1387 1448 3.876914 CCTGCAAATACACATCCACGTAT 59.123 43.478 0.00 0.00 0.00 3.06
1415 1477 2.684843 GCCTTTGCTCTCGCCACAG 61.685 63.158 0.00 0.00 34.43 3.66
1447 1509 2.151049 GACACTAGGCCGTCCGTTGT 62.151 60.000 0.00 0.00 37.47 3.32
1465 1527 1.544825 CCACCTTCCTCCTTGAGCGA 61.545 60.000 0.00 0.00 0.00 4.93
1536 1598 3.493303 GCCTCCACCTCCATCCCC 61.493 72.222 0.00 0.00 0.00 4.81
1581 1658 2.765807 ATGCACTCCTCCCCCTCG 60.766 66.667 0.00 0.00 0.00 4.63
1856 1937 4.386954 CGATGGATGGATCGATGTACAAAG 59.613 45.833 0.54 0.00 46.72 2.77
1880 1961 0.236187 ACTATTAGCGAGCGAGCGAG 59.764 55.000 1.41 1.37 43.00 5.03
1881 1962 0.235144 GACTATTAGCGAGCGAGCGA 59.765 55.000 1.41 0.00 43.00 4.93
1882 1963 0.236187 AGACTATTAGCGAGCGAGCG 59.764 55.000 0.00 0.00 43.00 5.03
1883 1964 3.539431 TTAGACTATTAGCGAGCGAGC 57.461 47.619 0.00 0.00 37.41 5.03
1924 2008 7.413785 ACTTGAAGAAGAAGACGGAGTACAGA 61.414 42.308 0.00 0.00 34.83 3.41
2004 2097 1.635487 AGCTTACCACCACATCCACAT 59.365 47.619 0.00 0.00 0.00 3.21
2005 2098 1.064003 AGCTTACCACCACATCCACA 58.936 50.000 0.00 0.00 0.00 4.17
2006 2099 1.003118 TCAGCTTACCACCACATCCAC 59.997 52.381 0.00 0.00 0.00 4.02
2007 2100 1.003118 GTCAGCTTACCACCACATCCA 59.997 52.381 0.00 0.00 0.00 3.41
2008 2101 1.739067 GTCAGCTTACCACCACATCC 58.261 55.000 0.00 0.00 0.00 3.51
2009 2102 1.359848 CGTCAGCTTACCACCACATC 58.640 55.000 0.00 0.00 0.00 3.06
2363 2479 3.574826 GACTCGTAATCTGAAGGGGCTAT 59.425 47.826 0.00 0.00 0.00 2.97
2369 2485 4.399618 TCTCTTGGACTCGTAATCTGAAGG 59.600 45.833 0.00 0.00 0.00 3.46
2370 2486 5.568685 TCTCTTGGACTCGTAATCTGAAG 57.431 43.478 0.00 0.00 0.00 3.02
2381 2497 2.550830 TTGGTTGCTCTCTTGGACTC 57.449 50.000 0.00 0.00 0.00 3.36
2431 4236 1.003580 CTTGCTGTTTCAGAGGCCCTA 59.996 52.381 0.00 0.00 32.44 3.53
2432 4237 0.251077 CTTGCTGTTTCAGAGGCCCT 60.251 55.000 0.00 0.00 32.44 5.19
2433 4238 1.871126 GCTTGCTGTTTCAGAGGCCC 61.871 60.000 0.00 0.00 32.44 5.80
2434 4239 0.892814 AGCTTGCTGTTTCAGAGGCC 60.893 55.000 0.00 0.00 32.44 5.19
2571 4376 4.362470 TCCTGATCAGCCCAGATTTATG 57.638 45.455 17.76 0.00 33.65 1.90


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

AutoCloner maintained by Alex Coulton.