Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.04
Sequence: scaffold257
Parameters: 2 7 7 80 10 50 500
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 500
Length: 1615106
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.29
Warning! 208026 characters in sequence are not A, C, G, or T
File 6 of 5
Found at i:1317654 original size:2 final size:2
Alignment explanation
Indices: 1317647--1317718 Score: 110
Period size: 2 Copynumber: 36.5 Consensus size: 2
1317637 TGTCTGTCTG
* *
1317647 TC TC TC TC T- TC TC TC TC TC TC TC TC TC TC CC CC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
*
1317688 TC TC TC TC TC TC TC TC CC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1317719 GGTCAAAAAG
Statistics
Matches: 65, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
1 1 0.02
2 64 0.98
ACGTcount: A:0.00, C:0.53, G:0.00, T:0.47
Consensus pattern (2 bp):
TC
Found at i:1321856 original size:10 final size:10
Alignment explanation
Indices: 1321826--1322003 Score: 71
Period size: 10 Copynumber: 17.7 Consensus size: 10
1321816 AGTGCCATTT
1321826 TTTACTGATAA
1 TTTACTGAT-A
1321837 TTT-CTGATA
1 TTTACTGATA
1321846 TTTACTGATA
1 TTTACTGATA
*
1321856 TTGTACTGTTA
1 TT-TACTGATA
* * *
1321867 -GTGCTGAGA
1 TTTACTGATA
* *
1321876 ATTGCTGATA
1 TTTACTGATA
1321886 TTTACTGATAA
1 TTTACTGAT-A
*
1321897 TTTTACTGCT-
1 -TTTACTGATA
*
1321907 GTTACTGATA
1 TTTACTGATA
* * * *
1321917 ATTGCTGTTG
1 TTTACTGATA
*
1321927 GTT-CTGATA
1 TTTACTGATA
*
1321936 TTTACTGACA
1 TTTACTGATA
*
1321946 TTTACTGATGCT
1 TTTACTGAT--A
*
1321958 TTTGCTG-TGA
1 TTTACTGAT-A
**
1321968 GCT-CTGATA
1 TTTACTGATA
*
1321977 ATTACTGATA
1 TTTACTGATA
*
1321987 TTTACTGAGA
1 TTTACTGATA
1321997 TTTACTG
1 TTTACTG
1322004 TTGGTACTGA
Statistics
Matches: 124, Mismatches: 32, Indels: 23
0.69 0.18 0.13
Matches are distributed among these distances:
9 27 0.22
10 71 0.57
11 12 0.10
12 14 0.11
ACGTcount: A:0.24, C:0.12, G:0.18, T:0.46
Consensus pattern (10 bp):
TTTACTGATA
Found at i:1321925 original size:60 final size:59
Alignment explanation
Indices: 1321826--1321954 Score: 136
Period size: 60 Copynumber: 2.2 Consensus size: 59
1321816 AGTGCCATTT
* * *
1321826 TTTACTGATAATTTCTGATATTTACTGATATTGTACTGTTAGTGCTGAGAATTGCTGATA
1 TTTACTGATAATTTCTGATAGTTACTGATATTG-ACTGTTAGTGCTGAGAATTACTGACA
* * * * *
1321886 TTTACTGATAATTTTACTGCT-GTTACTGATAATTG-CTGTTGGTTCTGATATTTACTGACA
1 TTTACTGATAA-TTT-CTGATAGTTACTGAT-ATTGACTGTTAGTGCTGAGAATTACTGACA
1321946 TTTACTGAT
1 TTTACTGAT
1321955 GCTTTTGCTG
Statistics
Matches: 58, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
60 39 0.67
61 11 0.19
62 8 0.14
ACGTcount: A:0.25, C:0.12, G:0.17, T:0.47
Consensus pattern (59 bp):
TTTACTGATAATTTCTGATAGTTACTGATATTGACTGTTAGTGCTGAGAATTACTGACA
Found at i:1322853 original size:2 final size:2
Alignment explanation
Indices: 1322846--1322877 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
1322836 GCCCACCCTG
1322846 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1322878 TGCTCGCATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:1323199 original size:2 final size:2
Alignment explanation
Indices: 1323192--1323232 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
1323182 AAAGATGACC
1323192 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1323233 NTTCATCTTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:1331343 original size:2 final size:2
Alignment explanation
Indices: 1331324--1331375 Score: 79
Period size: 2 Copynumber: 26.0 Consensus size: 2
1331314 CCTCTTTCAA
*
1331324 TC TC TC TG TC T- TC GTC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC -TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1331366 TC TC TC TC TC
1 TC TC TC TC TC
1331376 ACGTCCCACA
Statistics
Matches: 46, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
1 1 0.02
2 43 0.93
3 2 0.04
ACGTcount: A:0.00, C:0.46, G:0.04, T:0.50
Consensus pattern (2 bp):
TC
Found at i:1336460 original size:14 final size:13
Alignment explanation
Indices: 1336427--1336460 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
1336417 TAATAAACAG
1336427 TTTAAATCAGCTC
1 TTTAAATCAGCTC
1336440 TTGTAAATCAGCTGC
1 TT-TAAATCAGCT-C
1336455 TTTAAA
1 TTTAAA
1336461 GAACAGATGC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 2 0.11
14 14 0.74
15 3 0.16
ACGTcount: A:0.32, C:0.18, G:0.12, T:0.38
Consensus pattern (13 bp):
TTTAAATCAGCTC
Found at i:1340099 original size:12 final size:12
Alignment explanation
Indices: 1340075--1340107 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
1340065 GATCACATTT
1340075 GTCTGTC-GTCC
1 GTCTGTCTGTCC
1340086 GTCTGTCTGTCC
1 GTCTGTCTGTCC
1340098 GTCTGTCTGT
1 GTCTGTCTGT
1340108 AAACTTTTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 7 0.33
12 14 0.67
ACGTcount: A:0.00, C:0.30, G:0.27, T:0.42
Consensus pattern (12 bp):
GTCTGTCTGTCC
Found at i:1340480 original size:165 final size:165
Alignment explanation
Indices: 1340277--1342665 Score: 2959
Period size: 166 Copynumber: 14.5 Consensus size: 165
1340267 AGAAATTTTC
* * * *
1340277 AAAAATCTTCTTCTCATG-AAC-CATAAGACCAGGAAAGCTGAAACTTGTGTGAAAGCATTCTCA
1 AAAAATCTTCTTCTCA-GAAACTAATCAG-CCAGGAAAGCTGAAACTTGTGTGGAAGCATCCTCA
* * *
1340340 GGTAGTGTTA-ATTCAAAATTGTGAAAATCATGATCCCCAGTGGTAGGATGGGGCCACAATGGGG
64 GGTAGTG-TAGATTCAAAGTTGTGAAAATCATGA-CCCCAGGGGTAGGGTGGGGCCACAATGGGG
* * * *
1340404 CATTGAAGTTTAACATAGCAATATATA-AATAAATCTTT
127 GATCGAAGTTTAACATAGGAATATATAGAGTAAATCTTT
* *
1340442 AAAAATCTTCTTCTCAGAAACTAATCAGCCAAGAAAGCTGAAACTTGTGTGAAAGCATCCTC---
1 AAAAATCTTCTTCTCAGAAACTAATCAGCCAGGAAAGCTGAAACTTGTGTGGAAGCATCCTCAGG
* ***
1340504 -----T-G----AAA---G-CATCCTCATGACCCCCAGGGGTAGGGTGGGGCC-CTAATGAGGGG
66 TAGTGTAGATTCAAAGTTGTGAAAATCATGA-CCCCAGGGGTAGGGTGGGGCCAC-AATG-GGGG
* *
1340554 -TCGAAGCTTAACATATGAATATATAGAGTAAATCTTT
128 ATCGAAGTTTAACATAGGAATATATAGAGTAAATCTTT
* * *
1340591 AAAAATCTTCTTCTCAGAAACTAATCAGCTAGGAAAGCTGAAACTTGTGTGAAAGCATTCTCAGG
1 AAAAATCTTCTTCTCAGAAACTAATCAGCCAGGAAAGCTGAAACTTGTGTGGAAGCATCCTCAGG
* * *
1340656 TAGTGTAAATTCAAAATTGTGAAAATCATGATCCCCAGGGGTAGGATGGGGCCACAATGGGGGGG
66 TAGTGTAGATTCAAAGTTGTGAAAATCATGA-CCCCAGGGGTAGGGTGGGGCCACAAT--GGGGG
* *
1340721 GTCGAAGTTTTACATAGGAATATACT-GAGTAAATCTTT
128 ATCGAAGTTTAACATAGGAATATA-TAGAGTAAATCTTT
* * * * * *
1340759 AAAAGTTTTCCTCTCAAAAACTAATCAGCCAGGAAAGCTGAAACTTGTGTGAAAGCATCCTCTGG
1 AAAAATCTTCTTCTCAGAAACTAATCAGCCAGGAAAGCTGAAACTTGTGTGGAAGCATCCTCAGG
* * *
1340824 TAGTGTAGATTCACAGTTGTGAAAATCATGACCCCCGGGTGTAGGGTGGGGCCACAATGGGGCAT
66 TAGTGTAGATTCAAAGTTGTGAAAATCATGACCCCAGGG-GTAGGGTGGGGCCACAATGGGGGAT
*
1340889 TGAAGTTTTAA-ATAGGAATATATAGAGTAAATCTTT
130 CGAAG-TTTAACATAGGAATATATAGAGTAAATCTTT
* * *
1340925 AAAAATCTTTTTCTCAGAAACAAATCAGCCAGGAAAGCTGACACTTGTGTGGAAGCATCCTCAGG
1 AAAAATCTTCTTCTCAGAAACTAATCAGCCAGGAAAGCTGAAACTTGTGTGGAAGCATCCTCAGG
* * *
1340990 TAGTGTAGATTCAAAGTTGTGAAAATCATGGCCCCCGGGGGTAGAGTGGGGCCACAATGGGGTG-
66 TAGTGTAGATTCAAAGTTGTGAAAATCAT-GACCCCAGGGGTAGGGTGGGGCCACAATGGGG-GA
1341054 TCGAAGTTTAACATAGGAATATATAGAGTAAATCTTT
129 TCGAAGTTTAACATAGGAATATATAGAGTAAATCTTT
* * * * *
1341091 AAAAATCTTCTTCTCAGAAACTAACCAGCCAGGAAAGCTGAAACTTGTTTGGAAGCATTCTAATG
1 AAAAATCTTCTTCTCAGAAACTAATCAGCCAGGAAAGCTGAAACTTGTGTGGAAGCATCCTCAGG
* * *
1341156 TAGTGTAAATTCAAAGTTGTGAAAATCATGACCCCTGGGGGTAGGGTGGGACCACAATGGGGGGA
66 TAGTGTAGATTCAAAGTTGTGAAAATCATGACCCC-AGGGGTAGGGTGGGGCCACAAT-GGGGGA
* *
1341221 GGGGTCAAAGTTTAACATATGAATATATAGAGTAAATCTTT
129 ----TCGAAGTTTAACATAGGAATATATAGAGTAAATCTTT
* * * * *
1341262 AAAAATCTTTTTCTCATAAACTGATCAGCCAGGAAAGCTGAAACTTGTGTGAAAGCAACCTCAGG
1 AAAAATCTTCTTCTCAGAAACTAATCAGCCAGGAAAGCTGAAACTTGTGTGGAAGCATCCTCAGG
* * *
1341327 TAGTGTATATACAAAGTTGTGAAAATCATGACCCC-GCGAGTAGGGT-GGGCCACAATGGGGGAT
66 TAGTGTAGATTCAAAGTTGTGAAAATCATGACCCCAG-GGGTAGGGTGGGGCCACAATGGGGGAT
* * * *
1341390 CGAAATTTTACATAAGAATATATGGAGTAAATCTTT
130 CGAAGTTTAACATAGGAATATATAGAGTAAATCTTT
* * * *
1341426 AAAAGTCTTTTTCTCATG-AACCATATGA-CCAGGAAAGCTGAAACTTGTGTGGAAGCATCCTCA
1 AAAAATCTTCTTCTCA-GAAACTA-ATCAGCCAGGAAAGCTGAAACTTGTGTGGAAGCATCCTCA
* *
1341489 GTTAGTGTAGATTCAAAGTTGTGAAAATCATGACCCCCAGGGGTAGGGTGGGGCCACAATGAGGG
64 GGTAGTGTAGATTCAAAGTTGTGAAAATCATGA-CCCCAGGGGTAGGGTGGGGCCACAATGGGGG
*
1341554 ATCGAAGTTTAACATAGCAATATATAGA-TAAATCTTT
128 ATCGAAGTTTAACATAGGAATATATAGAGTAAATCTTT
* * *
1341591 AAAAATCTTCTCCTCAGAAACTAATCAGCCAGGAAAGCTGTAACTTGTGTGGAAGCATCCTCAGT
1 AAAAATCTTCTTCTCAGAAACTAATCAGCCAGGAAAGCTGAAACTTGTGTGGAAGCATCCTCAGG
*
1341656 TAGTGTAGATTCAAAGTTGTGAAAATCATGACCCCCAGGGGTAGGGTGGGGCCACAATGAGGGAT
66 TAGTGTAGATTCAAAGTTGTGAAAATCATGA-CCCCAGGGGTAGGGTGGGGCCACAATGGGGGAT
*
1341721 CGAAGTTTAACATAGCAATATATAGA-TAAATCTTT
130 CGAAGTTTAACATAGGAATATATAGAGTAAATCTTT
* *
1341756 AAAAATCTTCTCCTCAGAAACTAATCAGCCAGGAAAGCTGTAACTTGTGTGGAAGCATCCTCAGG
1 AAAAATCTTCTTCTCAGAAACTAATCAGCCAGGAAAGCTGAAACTTGTGTGGAAGCATCCTCAGG
* *
1341821 TAGTGTAGATTCAAAGTTGTGAAAATCATGACCCCTTGGGGTAGGGTAGGGCCACAATTGGGGG-
66 TAGTGTAGATTCAAAGTTGTGAAAATCATGACCCC-AGGGGTAGGGTGGGGCCACAA-TGGGGGA
* * *
1341885 TCAAAGTTTAACATATGAATATATAGAGTAACTCTTT
129 TCGAAGTTTAACATAGGAATATATAGAGTAAATCTTT
** * * *
1341922 AAAAATCTTCTTCTCTTAAACTGATCAGCCAGGAAAGCTGAAACTTGTGTGAAAGCAACCTCAGG
1 AAAAATCTTCTTCTCAGAAACTAATCAGCCAGGAAAGCTGAAACTTGTGTGGAAGCATCCTCAGG
* * *
1341987 TAGTGTAGATACAAAGTTGTGAAAATCATGACCCC-GCGAGTAGGGT-GGGCCACAATGGGGGGT
66 TAGTGTAGATTCAAAGTTGTGAAAATCATGACCCCAG-GGGTAGGGTGGGGCCACAATGGGGGAT
* * *
1342050 CGAAATTTTACATAAGAATATAT-GAAGTAAATCTTT
130 CGAAGTTTAACATAGGAATATATAG-AGTAAATCTTT
* ** * * * * * *
1342086 AAAAATTTTCTTCTCAGAAACTAATTGGACAGGAATGCTGATACCTGAGTGGAAGCATCCTCGGG
1 AAAAATCTTCTTCTCAGAAACTAATCAGCCAGGAAAGCTGAAACTTGTGTGGAAGCATCCTCAGG
*
1342151 TAGTGTTA-ATAT-AAAGTTGTGAAAATCATGACCCCTTGGGGTAGGGTGGGGCCACAATGGGCG
66 TAGTG-TAGAT-TCAAAGTTGTGAAAATCATGACCCC-AGGGGTAGGGTGGGGCCACAATGGG-G
* * *
1342214 G-TCGAAAATTTTACATAGGAATATATAGAGTATATCTTT
127 GATCG-AAGTTTAACATAGGAATATATAGAGTAAATCTTT
* * *
1342253 AAAAATCTTCTTCTCAGAAACTAATCAGTCAGGAAAGCTGACACTTGTGTGGAAGTATCCTCAGG
1 AAAAATCTTCTTCTCAGAAACTAATCAGCCAGGAAAGCTGAAACTTGTGTGGAAGCATCCTCAGG
* * * * *
1342318 TAGTGTAGATTCAAAGTTGTGAAAATAATGGCCCCTGGGGGTAGGGT-TGGCCACAATGGGGCAT
66 TAGTGTAGATTCAAAGTTGTGAAAATCATGACCCC-AGGGGTAGGGTGGGGCCACAATGGGGGAT
* * *
1342382 TGAAGTTTTACATAGGAATATATTGAGTAAATCTTT
130 CGAAGTTTAACATAGGAATATATAGAGTAAATCTTT
*
1342418 AAAAATCTTCTTCTCAGAAACTAATCAGCTAGGAAAGCTGAAACTTGTGTGGAAGCATCCTCAGG
1 AAAAATCTTCTTCTCAGAAACTAATCAGCCAGGAAAGCTGAAACTTGTGTGGAAGCATCCTCAGG
* * * * ** * *
1342483 TAGTGTAGATTCATAGCTGTGAAAATCATGGCCCCCGGGTGTAGGGTACGGACAAAATGGGGGAT
66 TAGTGTAGATTCAAAGTTGTGAAAATCATGACCCCAGGG-GTAGGGTGGGGCCACAATGGGGGAT
* *
1342548 CAAAGTTTTACATAGGAATATATAGAGTAAATCTTT
130 CGAAGTTTAACATAGGAATATATAGAGTAAATCTTT
* **
1342584 AAAAATCTTCTTCTCAGAAACTAAACAGCCAGGAAAGCTGAAACTTGTGTAAAAGCATCCTCAGG
1 AAAAATCTTCTTCTCAGAAACTAATCAGCCAGGAAAGCTGAAACTTGTGTGGAAGCATCCTCAGG
*
1342649 TAGTGTAGATACAAAGT
66 TAGTGTAGATTCAAAGT
1342666 ATGTATTATG
Statistics
Matches: 1958, Mismatches: 198, Indels: 135
0.85 0.09 0.06
Matches are distributed among these distances:
147 1 0.00
148 51 0.03
149 73 0.04
152 3 0.00
156 1 0.00
157 1 0.00
162 3 0.00
163 7 0.00
164 246 0.13
165 528 0.27
166 605 0.31
167 154 0.08
168 143 0.07
169 11 0.01
170 8 0.00
171 123 0.06
ACGTcount: A:0.34, C:0.16, G:0.23, T:0.27
Consensus pattern (165 bp):
AAAAATCTTCTTCTCAGAAACTAATCAGCCAGGAAAGCTGAAACTTGTGTGGAAGCATCCTCAGG
TAGTGTAGATTCAAAGTTGTGAAAATCATGACCCCAGGGGTAGGGTGGGGCCACAATGGGGGATC
GAAGTTTAACATAGGAATATATAGAGTAAATCTTT
Found at i:1340509 original size:13 final size:13
Alignment explanation
Indices: 1340491--1340516 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1340481 GAAACTTGTG
1340491 TGAAAGCATCCTC
1 TGAAAGCATCCTC
1340504 TGAAAGCATCCTC
1 TGAAAGCATCCTC
1340517 ATGACCCCCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.31, G:0.15, T:0.23
Consensus pattern (13 bp):
TGAAAGCATCCTC
Found at i:1340636 original size:149 final size:148
Alignment explanation
Indices: 1340367--1340648 Score: 426
Period size: 149 Copynumber: 1.9 Consensus size: 148
1340357 ATTGTGAAAA
* * * *
1340367 TCATGATCCCCAGTGGTAGGATGGGGCCACAATGGGGCATTGAAGTTTAACATAGCAATATATAA
1 TCATGACCCCCAGGGGTAGGATGGGGCCACAATGGGGCATCGAAGCTTAACATAGCAATATATAA
1340432 ATAAATCTTTAAAAATCTTCTTCTCAGAAACTAATCAGCCAAGAAAGCTGAAACTTGTGTGAAAG
66 ATAAATCTTTAAAAATCTTCTTCTCAGAAACTAATCAGCCAAGAAAGCTGAAACTTGTGTGAAAG
1340497 CATCCTCTGAAAGCATCC
131 CATCCTCTGAAAGCATCC
* *
1340515 TCATGACCCCCAGGGGTAGGGTGGGGCC-CTAATGAGGG-GTCGAAGCTTAACATATG-AATATA
1 TCATGACCCCCAGGGGTAGGATGGGGCCAC-AATG-GGGCATCGAAGCTTAACATA-GCAATATA
* * *
1340577 TAGAGTAAATCTTTAAAAATCTTCTTCTCAGAAACTAATCAGCTAGGAAAGCTGAAACTTGTGTG
63 TA-AATAAATCTTTAAAAATCTTCTTCTCAGAAACTAATCAGCCAAGAAAGCTGAAACTTGTGTG
1340642 AAAGCAT
127 AAAGCAT
1340649 TCTCAGGTAG
Statistics
Matches: 121, Mismatches: 9, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
147 1 0.01
148 50 0.41
149 70 0.58
ACGTcount: A:0.35, C:0.18, G:0.21, T:0.26
Consensus pattern (148 bp):
TCATGACCCCCAGGGGTAGGATGGGGCCACAATGGGGCATCGAAGCTTAACATAGCAATATATAA
ATAAATCTTTAAAAATCTTCTTCTCAGAAACTAATCAGCCAAGAAAGCTGAAACTTGTGTGAAAG
CATCCTCTGAAAGCATCC
Found at i:1342261 original size:331 final size:330
Alignment explanation
Indices: 1340515--1342665 Score: 2818
Period size: 331 Copynumber: 6.5 Consensus size: 330
1340505 GAAAGCATCC
* * *
1340515 TCATGACCCCCAGGGGTAGGGTGGGGCC-CTAATGAGGGGTCG-AAGCTTAACATATGAATATAT
1 TCATGACCCCTAGGGGTAGGGTGGGGCCAC-AATG-GGGGTCGAAAGTTTAACATAGGAATATAT
*
1340578 AGAGTAAATCTTTAAAAATCTTCTTCTCAGAAACTAATCAGCTAGGAAAGCTGAAACTTGTGTGA
64 AGAGTAAATCTTTAAAAATCTTCTTCTCAGAAACTAATCAGCCAGGAAAGCTGAAACTTGTGTGA
* * * *
1340643 AAGCATTCTCAGGTAGTGTAAATTCAAAATTGTGAAAATCATGATCCCCAG-GGGTAGGATGGGG
129 AAGCATCCTCAGGTAGTGTAGATTCAAAGTTGTGAAAATCATGA-CCCC-GCGGGTAGGGTGGGG
* * * * *
1340707 CCACAATGGGGGGGGTCGAAGTTTTACATAGGAATATACTGAGTAAATCTTTAAAAGTTTTCCTC
192 CCACAAT--GGGGGATCGAAGTTTTACATAAGAATATA-TGAGTAAATCTTTAAAAATCTTCTTC
* * *
1340772 TCAAAAACTAATCAGCCAGGAAAGCTGAAACTTGTGTGAAAGCATCCTCTGGTAGTGTAGATTCA
254 TCAGAAACTAATCAGCCAGGAAAGCTGAAACTTGTGTGGAAGCATCCTCAGGTAGTGTAGATTCA
*
1340837 CAGTTGTGAAAA
319 AAGTTGTGAAAA
* * *
1340849 TCATGACCCC-CGGGTGTAGGGTGGGGCCACAATGGGGCATTG-AAGTTTTAA-ATAGGAATATA
1 TCATGACCCCTAGGG-GTAGGGTGGGGCCACAATGGGG-GTCGAAAG-TTTAACATAGGAATATA
* * *
1340911 TAGAGTAAATCTTTAAAAATCTTTTTCTCAGAAACAAATCAGCCAGGAAAGCTGACACTTGTGTG
63 TAGAGTAAATCTTTAAAAATCTTCTTCTCAGAAACTAATCAGCCAGGAAAGCTGAAACTTGTGTG
* * * *
1340976 GAAGCATCCTCAGGTAGTGTAGATTCAAAGTTGTGAAAATCATGGCCCCCGGGGGTAGAGTGGGG
128 AAAGCATCCTCAGGTAGTGTAGATTCAAAGTTGTGAAAATCAT-GACCCCGCGGGTAGGGTGGGG
* *
1341041 CCACAATGGGGTG-TCGAAGTTTAACATAGGAATATATAGAGTAAATCTTTAAAAATCTTCTTCT
192 CCACAATGGGG-GATCGAAGTTTTACATAAGAATATAT-GAGTAAATCTTTAAAAATCTTCTTCT
* * * * * *
1341105 CAGAAACTAACCAGCCAGGAAAGCTGAAACTTGTTTGGAAGCATTCTAATGTAGTGTAAATTCAA
255 CAGAAACTAATCAGCCAGGAAAGCTGAAACTTGTGTGGAAGCATCCTCAGGTAGTGTAGATTCAA
1341170 AGTTGTGAAAA
320 AGTTGTGAAAA
* * *
1341181 TCATGACCCCTGGGGGTAGGGTGGGACCACAATGGGGGGAGGGGTC-AAAGTTTAACATATGAAT
1 TCATGACCCCTAGGGGTAGGGTGGGGCCACAAT-----G-GGGGTCGAAAGTTTAACATAGGAAT
* * *
1341245 ATATAGAGTAAATCTTTAAAAATCTTTTTCTCATAAACTGATCAGCCAGGAAAGCTGAAACTTGT
60 ATATAGAGTAAATCTTTAAAAATCTTCTTCTCAGAAACTAATCAGCCAGGAAAGCTGAAACTTGT
* * * *
1341310 GTGAAAGCAACCTCAGGTAGTGTATATACAAAGTTGTGAAAATCATGACCCCGCGAGTAGGGT-G
125 GTGAAAGCATCCTCAGGTAGTGTAGATTCAAAGTTGTGAAAATCATGACCCCGCGGGTAGGGTGG
* * *
1341374 GGCCACAATGGGGGATCGAAATTTTACATAAGAATATATGGAGTAAATCTTTAAAAGTCTTTTTC
190 GGCCACAATGGGGGATCGAAGTTTTACATAAGAATATAT-GAGTAAATCTTTAAAAATCTTCTTC
* * *
1341439 TCATG-AACCATATGA-CCAGGAAAGCTGAAACTTGTGTGGAAGCATCCTCAGTTAGTGTAGATT
254 TCA-GAAACTA-ATCAGCCAGGAAAGCTGAAACTTGTGTGGAAGCATCCTCAGGTAGTGTAGATT
1341502 CAAAGTTGTGAAAA
317 CAAAGTTGTGAAAA
* * *
1341516 TCATGACCCCCAGGGGTAGGGTGGGGCCACAATGAGGGATCG-AAGTTTAACATAGCAATATATA
1 TCATGACCCCTAGGGGTAGGGTGGGGCCACAATG-GGGGTCGAAAGTTTAACATAGGAATATATA
* * *
1341580 GA-TAAATCTTTAAAAATCTTCTCCTCAGAAACTAATCAGCCAGGAAAGCTGTAACTTGTGTGGA
65 GAGTAAATCTTTAAAAATCTTCTTCTCAGAAACTAATCAGCCAGGAAAGCTGAAACTTGTGTGAA
*
1341644 AGCATCCTCAGTTAGTGTAGATTCAAAGTTGTGAAAATCATGACCCC-CAGGGGTAGGGTGGGGC
130 AGCATCCTCAGGTAGTGTAGATTCAAAGTTGTGAAAATCATGACCCCGC--GGGTAGGGTGGGGC
* * *
1341708 CACAATGAGGGATCGAAGTTTAACAT-AGCAATATAT-AGATAAATCTTTAAAAATCTTCTCCTC
193 CACAATGGGGGATCGAAGTTTTACATAAG-AATATATGAG-TAAATCTTTAAAAATCTTCTTCTC
*
1341771 AGAAACTAATCAGCCAGGAAAGCTGTAACTTGTGTGGAAGCATCCTCAGGTAGTGTAGATTCAAA
256 AGAAACTAATCAGCCAGGAAAGCTGAAACTTGTGTGGAAGCATCCTCAGGTAGTGTAGATTCAAA
1341836 GTTGTGAAAA
321 GTTGTGAAAA
* * *
1341846 TCATGACCCCTTGGGGTAGGGTAGGGCCACAATTGGGGGTC-AAAGTTTAACATATGAATATATA
1 TCATGACCCCTAGGGGTAGGGTGGGGCCACAA-TGGGGGTCGAAAGTTTAACATAGGAATATATA
* ** *
1341910 GAGTAACTCTTTAAAAATCTTCTTCTCTTAAACTGATCAGCCAGGAAAGCTGAAACTTGTGTGAA
65 GAGTAAATCTTTAAAAATCTTCTTCTCAGAAACTAATCAGCCAGGAAAGCTGAAACTTGTGTGAA
* * *
1341975 AGCAACCTCAGGTAGTGTAGATACAAAGTTGTGAAAATCATGACCCCGCGAGTAGGGT-GGGCCA
130 AGCATCCTCAGGTAGTGTAGATTCAAAGTTGTGAAAATCATGACCCCGCGGGTAGGGTGGGGCCA
* * *
1342039 CAATGGGGGGTCGAAATTTTACATAAGAATATATGAAGTAAATCTTTAAAAATTTTCTTCTCAGA
195 CAATGGGGGATCGAAGTTTTACATAAGAATATATG-AGTAAATCTTTAAAAATCTTCTTCTCAGA
** * * * * * *
1342104 AACTAATTGGACAGGAATGCTGATACCTGAGTGGAAGCATCCTCGGGTAGTGTTA-ATAT-AAAG
259 AACTAATCAGCCAGGAAAGCTGAAACTTGTGTGGAAGCATCCTCAGGTAGTG-TAGAT-TCAAAG
1342167 TTGTGAAAA
322 TTGTGAAAA
* * *
1342176 TCATGACCCCTTGGGGTAGGGTGGGGCCACAATGGGCGGTCGAAAATTTTACATAGGAATATATA
1 TCATGACCCCTAGGGGTAGGGTGGGGCCACAATGGG-GGTCGAAAGTTTAACATAGGAATATATA
* * * *
1342241 GAGTATATCTTTAAAAATCTTCTTCTCAGAAACTAATCAGTCAGGAAAGCTGACACTTGTGTGGA
65 GAGTAAATCTTTAAAAATCTTCTTCTCAGAAACTAATCAGCCAGGAAAGCTGAAACTTGTGTGAA
* * * * *
1342306 AGTATCCTCAGGTAGTGTAGATTCAAAGTTGTGAAAATAATGGCCCCTGGGGGTAGGGT-TGGCC
130 AGCATCCTCAGGTAGTGTAGATTCAAAGTTGTGAAAATCATGACCCC-GCGGGTAGGGTGGGGCC
* * *
1342370 ACAATGGGGCATTGAAGTTTTACATAGGAATATATTGAGTAAATCTTTAAAAATCTTCTTCTCAG
194 ACAATGGGGGATCGAAGTTTTACATAAGAATATA-TGAGTAAATCTTTAAAAATCTTCTTCTCAG
* * *
1342435 AAACTAATCAGCTAGGAAAGCTGAAACTTGTGTGGAAGCATCCTCAGGTAGTGTAGATTCATAGC
258 AAACTAATCAGCCAGGAAAGCTGAAACTTGTGTGGAAGCATCCTCAGGTAGTGTAGATTCAAAGT
1342500 TGTGAAAA
323 TGTGAAAA
* * ** * * *
1342508 TCATGGCCCC-CGGGTGTAGGGTACGGACAAAATGGGGGATC-AAAGTTTTACATAGGAATATAT
1 TCATGACCCCTAGGG-GTAGGGTGGGGCCACAATGGGGG-TCGAAAGTTTAACATAGGAATATAT
* *
1342571 AGAGTAAATCTTTAAAAATCTTCTTCTCAGAAACTAAACAGCCAGGAAAGCTGAAACTTGTGTAA
64 AGAGTAAATCTTTAAAAATCTTCTTCTCAGAAACTAATCAGCCAGGAAAGCTGAAACTTGTGTGA
*
1342636 AAGCATCCTCAGGTAGTGTAGATACAAAGT
129 AAGCATCCTCAGGTAGTGTAGATTCAAAGT
1342666 ATGTATTATG
Statistics
Matches: 1599, Mismatches: 173, Indels: 93
0.86 0.09 0.05
Matches are distributed among these distances:
328 1 0.00
329 142 0.09
330 309 0.19
331 376 0.24
332 297 0.19
333 13 0.01
334 165 0.10
335 157 0.10
336 21 0.01
337 115 0.07
338 3 0.00
ACGTcount: A:0.33, C:0.16, G:0.24, T:0.27
Consensus pattern (330 bp):
TCATGACCCCTAGGGGTAGGGTGGGGCCACAATGGGGGTCGAAAGTTTAACATAGGAATATATAG
AGTAAATCTTTAAAAATCTTCTTCTCAGAAACTAATCAGCCAGGAAAGCTGAAACTTGTGTGAAA
GCATCCTCAGGTAGTGTAGATTCAAAGTTGTGAAAATCATGACCCCGCGGGTAGGGTGGGGCCAC
AATGGGGGATCGAAGTTTTACATAAGAATATATGAGTAAATCTTTAAAAATCTTCTTCTCAGAAA
CTAATCAGCCAGGAAAGCTGAAACTTGTGTGGAAGCATCCTCAGGTAGTGTAGATTCAAAGTTGT
GAAAA
Found at i:1343453 original size:11 final size:11
Alignment explanation
Indices: 1343437--1343461 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
1343427 TTTTAAATAA
1343437 TAATATATCGT
1 TAATATATCGT
1343448 TAATATATCGT
1 TAATATATCGT
1343459 TAA
1 TAA
1343462 CATCGCTGGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.44
Consensus pattern (11 bp):
TAATATATCGT
Found at i:1344468 original size:166 final size:166
Alignment explanation
Indices: 1343960--1345166 Score: 1823
Period size: 166 Copynumber: 7.2 Consensus size: 166
1343950 AAAGAATCAT
* *
1343960 CTGGCTGATTAGTTTCTGAGAAGAAGATTTTAAAAGATTTACTCTATATATTCCTTTGTAAAACT
1 CTGGCTGATTAGTTTCTGAGAAGAAGATTTTTAAAGATTTACTCTATATATTCCTATGTAAAAC-
** * * ** *
1344025 TTAACCCCCCCCCCCCCAATGTGGCCTCACCCTACCCCAAGGGATCATG-TTTTCACAACTTTGA
65 TT------CGACCCCCCATTGTGGCCCCACCCTACCCCTGGGGGTCATGATTTTCACAACTTTGA
** *
1344089 ATCTACACTACCTGAGGATATTTCAACACAAGTTTCAGCTTTC
124 ATCTACACTACCTGAGGATGCTTCCACACAAGTTTCAGCTTTC
* *
1344132 CTGGCTGTTTAGTTTCTGAGAAGAAGATTTTTAAAGATTTACTCTATATATTCCTATGTACAACT
1 CTGGCTGATTAGTTTCTGAGAAGAAGATTTTTAAAGATTTACTCTATATATTCCTATGTAAAACT
* *
1344197 TCGACCCCCCATTGT-GCCTCACCCTAACCCTGGGGGTCATGATTTTCACAACTTTGAATCTACA
66 TCGACCCCCCATTGTGGCCCCACCCTACCCCTGGGGGTCATGATTTTCACAACTTTGAATCTACA
* *
1344261 CTGCCTGAGGATGCTTCCACACGAGTTTCAGCTTTC
131 CTACCTGAGGATGCTTCCACACAAGTTTCAGCTTTC
*
1344297 CTGGCTGATTAGTTTCTGAGAAGAAGATTTTCAAAGATTTACTCTATATATTCCTATGTAAAACT
1 CTGGCTGATTAGTTTCTGAGAAGAAGATTTTTAAAGATTTACTCTATATATTCCTATGTAAAACT
*
1344362 TCGACCCCCCATTGTGGCCCCACCCTAACCCTGGGGGTCATGATTTTCACAACTTTGAATCTACA
66 TCGACCCCCCATTGTGGCCCCACCCTACCCCTGGGGGTCATGATTTTCACAACTTTGAATCTACA
* *
1344427 CTGCCTCAGGATGCTTCCACACAAGTTTCAGCTTTC
131 CTACCTGAGGATGCTTCCACACAAGTTTCAGCTTTC
* *
1344463 CTGGCTGATTAATTTCTGAGAAGAAGAATTTTAAAGATTTACTCTATATATTCCTATGTAAAACT
1 CTGGCTGATTAGTTTCTGAGAAGAAGATTTTTAAAGATTTACTCTATATATTCCTATGTAAAACT
* * ** * * * *
1344528 TCGACCCTCCATTGT-GCCGCACCCTACCCCCAGGGATCATGATTTTCAGAACTTTAAATCTGCA
66 TCGACCCCCCATTGTGGCCCCACCCTACCCCTGGGGGTCATGATTTTCACAACTTTGAATCTACA
*
1344592 CTACCTGAGGATGCTTCCACATAAGTTTCAGCTTTC
131 CTACCTGAGGATGCTTCCACACAAGTTTCAGCTTTC
* * *
1344628 CTGGCTGATTAGTTTCTGCGAAGAAGATTTTCAAAGATTTACTCTTTATATTCCTATGTAAAACT
1 CTGGCTGATTAGTTTCTGAGAAGAAGATTTTTAAAGATTTACTCTATATATTCCTATGTAAAACT
1344693 TCGACCCCCCATTGTGGCCCCACCCTACCCCTGGGGGTCATGATTTTCACAACTTTGAATCTACA
66 TCGACCCCCCATTGTGGCCCCACCCTACCCCTGGGGGTCATGATTTTCACAACTTTGAATCTACA
* *
1344758 CTACCTCAGGATGCTTCCACACAAGTTGCAGCTTTC
131 CTACCTGAGGATGCTTCCACACAAGTTTCAGCTTTC
1344794 CTGGCTGATTAGTTTCTGAGAAGAAGATTTTTAAAGATTTACTCTATATATTCCTATGTAAAACT
1 CTGGCTGATTAGTTTCTGAGAAGAAGATTTTTAAAGATTTACTCTATATATTCCTATGTAAAACT
* * *
1344859 TCGACCCCCCATTGTGGCCCCACCCTACATCC-AGGGGTCATGAATTTCACAACTTTGAATCTAC
66 TCGACCCCCCATTGTGGCCCCACCCTAC-CCCTGGGGGTCATGATTTTCACAACTTTGAATCTAC
*
1344923 ACTACCTGAGGATGCTTCCACACCAGTTTCAGCTTTC
130 ACTACCTGAGGATGCTTCCACACAAGTTTCAGCTTTC
*
1344960 CTGGCTGATTAGTTACTGAGAAGAAGATTTTTAAAGATTTACTCTATATATTCCTATGTAAAACT
1 CTGGCTGATTAGTTTCTGAGAAGAAGATTTTTAAAGATTTACTCTATATATTCCTATGTAAAACT
* * *
1345025 TCGACCCCCCATTGTGGCCCCACCCTACCCCCGGAGGTCATGAATTTCACAACTTTGAATCTACA
66 TCGACCCCCCATTGTGGCCCCACCCTACCCCTGGGGGTCATGATTTTCACAACTTTGAATCTACA
*
1345090 CTACCTGAGGATGCTTCCACACAAGTTTCAGCTTTA
131 CTACCTGAGGATGCTTCCACACAAGTTTCAGCTTTC
* * *
1345126 CTGGCT-TTGTGGTTTTTTGAGAAGAAGATTTTTGAAA-ATTT
1 CTGGCTGAT-TAG-TTTCTGAGAAGAAGATTTTT-AAAGATTT
1345167 CTCGAAATTT
Statistics
Matches: 955, Mismatches: 72, Indels: 21
0.91 0.07 0.02
Matches are distributed among these distances:
164 22 0.02
165 292 0.31
166 552 0.58
167 24 0.03
168 3 0.00
171 2 0.00
172 60 0.06
ACGTcount: A:0.26, C:0.25, G:0.16, T:0.33
Consensus pattern (166 bp):
CTGGCTGATTAGTTTCTGAGAAGAAGATTTTTAAAGATTTACTCTATATATTCCTATGTAAAACT
TCGACCCCCCATTGTGGCCCCACCCTACCCCTGGGGGTCATGATTTTCACAACTTTGAATCTACA
CTACCTGAGGATGCTTCCACACAAGTTTCAGCTTTC
Found at i:1344570 original size:331 final size:331
Alignment explanation
Indices: 1343960--1345166 Score: 1853
Period size: 331 Copynumber: 3.6 Consensus size: 331
1343950 AAAGAATCAT
* *
1343960 CTGGCTGATTAGTTTCTGAGAAGAAGATTTTAAAAGATTTACTCTATATATTCCTTTGTAAAACT
1 CTGGCTGATTAGTTTCTGAGAAGAAGATTTTCAAAGATTTACTCTATATATTCCTATGTAAAAC-
** * * ** *
1344025 TTAACCCCCCCCCCCCCAATGTGGCCTCACCCTACCCCAAGGGATCATG-TTTTCACAACTTTGA
65 TT------CGACCCCCCATTGTGGCCCCACCCTACCCCTGGGGGTCATGATTTTCACAACTTTGA
* ** * *
1344089 ATCTACACTACCTGAGGATATTTCAACACAAGTTTCAGCTTTCCTGGCTGTTTAGTTTCTGAGAA
124 ATCTACACTACCTCAGGATGCTTCCACACAAGTTTCAGCTTTCCTGGCTGATTAGTTTCTGAGAA
* *
1344154 GAAGATTTTTAAAGATTTACTCTATATATTCCTATGTACAACTTCGACCCCCCATTGTGCCTCAC
189 GAAGATTTTTAAAGATTTACTCTATATATTCCTATGTAAAACTTCGACCCCCCATTGTGCCCCAC
* ** * *
1344219 CCTAACCCTGGGGGTCATGATTTTCACAACTTTGAATCTACACTGCCTGAGGATGCTTCCACACG
254 CCTACCCCCAGGGGTCATGATTTTCACAACTTTGAATCTACACTACCTGAGGATGCTTCCACACA
1344284 AGTTTCAGCTTTC
319 AGTTTCAGCTTTC
1344297 CTGGCTGATTAGTTTCTGAGAAGAAGATTTTCAAAGATTTACTCTATATATTCCTATGTAAAACT
1 CTGGCTGATTAGTTTCTGAGAAGAAGATTTTCAAAGATTTACTCTATATATTCCTATGTAAAACT
*
1344362 TCGACCCCCCATTGTGGCCCCACCCTAACCCTGGGGGTCATGATTTTCACAACTTTGAATCTACA
66 TCGACCCCCCATTGTGGCCCCACCCTACCCCTGGGGGTCATGATTTTCACAACTTTGAATCTACA
* * *
1344427 CTGCCTCAGGATGCTTCCACACAAGTTTCAGCTTTCCTGGCTGATTAATTTCTGAGAAGAAGAAT
131 CTACCTCAGGATGCTTCCACACAAGTTTCAGCTTTCCTGGCTGATTAGTTTCTGAGAAGAAGATT
* *
1344492 TTTAAAGATTTACTCTATATATTCCTATGTAAAACTTCGACCCTCCATTGTGCCGCACCCTACCC
196 TTTAAAGATTTACTCTATATATTCCTATGTAAAACTTCGACCCCCCATTGTGCCCCACCCTACCC
* * * * *
1344557 CCAGGGATCATGATTTTCAGAACTTTAAATCTGCACTACCTGAGGATGCTTCCACATAAGTTTCA
261 CCAGGGGTCATGATTTTCACAACTTTGAATCTACACTACCTGAGGATGCTTCCACACAAGTTTCA
1344622 GCTTTC
326 GCTTTC
* *
1344628 CTGGCTGATTAGTTTCTGCGAAGAAGATTTTCAAAGATTTACTCTTTATATTCCTATGTAAAACT
1 CTGGCTGATTAGTTTCTGAGAAGAAGATTTTCAAAGATTTACTCTATATATTCCTATGTAAAACT
1344693 TCGACCCCCCATTGTGGCCCCACCCTACCCCTGGGGGTCATGATTTTCACAACTTTGAATCTACA
66 TCGACCCCCCATTGTGGCCCCACCCTACCCCTGGGGGTCATGATTTTCACAACTTTGAATCTACA
*
1344758 CTACCTCAGGATGCTTCCACACAAGTTGCAGCTTTCCTGGCTGATTAGTTTCTGAGAAGAAGATT
131 CTACCTCAGGATGCTTCCACACAAGTTTCAGCTTTCCTGGCTGATTAGTTTCTGAGAAGAAGATT
*
1344823 TTTAAAGATTTACTCTATATATTCCTATGTAAAACTTCGACCCCCCATTGTGGCCCCACCCTACA
196 TTTAAAGATTTACTCTATATATTCCTATGTAAAACTTCGACCCCCCATTGT-GCCCCACCCTACC
* * *
1344888 TCCAGGGGTCATGAATTTCACAACTTTGAATCTACACTACCTGAGGATGCTTCCACACCAGTTTC
260 CCCAGGGGTCATGATTTTCACAACTTTGAATCTACACTACCTGAGGATGCTTCCACACAAGTTTC
1344953 AGCTTTC
325 AGCTTTC
* *
1344960 CTGGCTGATTAGTTACTGAGAAGAAGATTTTTAAAGATTTACTCTATATATTCCTATGTAAAACT
1 CTGGCTGATTAGTTTCTGAGAAGAAGATTTTCAAAGATTTACTCTATATATTCCTATGTAAAACT
* * *
1345025 TCGACCCCCCATTGTGGCCCCACCCTACCCCCGGAGGTCATGAATTTCACAACTTTGAATCTACA
66 TCGACCCCCCATTGTGGCCCCACCCTACCCCTGGGGGTCATGATTTTCACAACTTTGAATCTACA
* * * * *
1345090 CTACCTGAGGATGCTTCCACACAAGTTTCAGCTTTACTGGCT-TTGTGGTTTTTTGAGAAGAAGA
131 CTACCTCAGGATGCTTCCACACAAGTTTCAGCTTTCCTGGCTGAT-TAG-TTTCTGAGAAGAAGA
1345154 TTTTTGAAA-ATTT
194 TTTTT-AAAGATTT
1345167 CTCGAAATTT
Statistics
Matches: 803, Mismatches: 62, Indels: 14
0.91 0.07 0.02
Matches are distributed among these distances:
330 33 0.04
331 441 0.55
332 239 0.30
333 23 0.03
334 3 0.00
336 2 0.00
337 62 0.08
ACGTcount: A:0.26, C:0.25, G:0.16, T:0.33
Consensus pattern (331 bp):
CTGGCTGATTAGTTTCTGAGAAGAAGATTTTCAAAGATTTACTCTATATATTCCTATGTAAAACT
TCGACCCCCCATTGTGGCCCCACCCTACCCCTGGGGGTCATGATTTTCACAACTTTGAATCTACA
CTACCTCAGGATGCTTCCACACAAGTTTCAGCTTTCCTGGCTGATTAGTTTCTGAGAAGAAGATT
TTTAAAGATTTACTCTATATATTCCTATGTAAAACTTCGACCCCCCATTGTGCCCCACCCTACCC
CCAGGGGTCATGATTTTCACAACTTTGAATCTACACTACCTGAGGATGCTTCCACACAAGTTTCA
GCTTTC
Found at i:1345027 original size:497 final size:497
Alignment explanation
Indices: 1343960--1345157 Score: 1866
Period size: 497 Copynumber: 2.4 Consensus size: 497
1343950 AAAGAATCAT
* *
1343960 CTGGCTGATTAGTTTCTGAGAAGAAGATTTTAAAAGATTTACTCTATATATTCCTTTGTAAAACT
1 CTGGCTGATTAGTTTCTGAGAAGAAGATTTTTAAAGATTTACTCTATATATTCCTATGTAAAAC-
** * * *
1344025 TTAACCCCCCCCCCCCCAATGTGGCCTCACCCTACCCCAAGGGATCATG-TTTTCACAACTTTGA
65 TT------CGACCCCCCATTGTGGCCCCACCCTACCCCCAGGGATCATGATTTTCACAACTTTGA
** * *
1344089 ATCTACACTACCTGAGGATATTTCAACACAAGTTTCAGCTTTCCTGGCTGTTTAGTTTCTGAGAA
124 ATCTACACTACCTGAGGATGCTTCCACACAAGTTTCAGCTTTCCTGGCTGATTAGTTTCTGAGAA
* * *
1344154 GAAGATTTTTAAAGATTTACTCTATATATTCCTATGTACAACTTCGACCCCCCATTGTGCCTCAC
189 GAAGATTTTCAAAGATTTACTCTATATATTCCTATGTAAAACTTCGACCCCCCATTGTGCCCCAC
* * *
1344219 CCTAACCCTGGGGGTCATGATTTTCACAACTTTGAATCTACACTGCCTGAGGATGCTTCCACACG
254 CCTAACCCTGGGGGTCATGATTTTCACAACTTTGAATCTACACTACCTCAGGATGCTTCCACACA
*
1344284 AGTTTCAGCTTTCCTGGCTGATTAGTTTCTGAGAAGAAGATTTTCAAAGATTTACTCTATATATT
319 AGTTGCAGCTTTCCTGGCTGATTAGTTTCTGAGAAGAAGATTTTCAAAGATTTACTCTATATATT
* *
1344349 CCTATGTAAAACTTCGACCCCCCATTGTGGCCCCACCCTAACCCTGGGGGTCATGATTTTCACAA
384 CCTATGTAAAACTTCGACCCCCCATTGTGGCCCCACCCTAACCCTAGGGGTCATGAATTTCACAA
*
1344414 CTTTGAATCTACACTGCCTCAGGATGCTTCCACACAAGTTTCAGCTTTC
449 CTTTGAATCTACACTACCTCAGGATGCTTCCACACAAGTTTCAGCTTTC
* *
1344463 CTGGCTGATTAATTTCTGAGAAGAAGAATTTTAAAGATTTACTCTATATATTCCTATGTAAAACT
1 CTGGCTGATTAGTTTCTGAGAAGAAGATTTTTAAAGATTTACTCTATATATTCCTATGTAAAACT
* * * * *
1344528 TCGACCCTCCATTGT-GCCGCACCCTACCCCCAGGGATCATGATTTTCAGAACTTTAAATCTGCA
66 TCGACCCCCCATTGTGGCCCCACCCTACCCCCAGGGATCATGATTTTCACAACTTTGAATCTACA
* *
1344592 CTACCTGAGGATGCTTCCACATAAGTTTCAGCTTTCCTGGCTGATTAGTTTCTGCGAAGAAGATT
131 CTACCTGAGGATGCTTCCACACAAGTTTCAGCTTTCCTGGCTGATTAGTTTCTGAGAAGAAGATT
* *
1344657 TTCAAAGATTTACTCTTTATATTCCTATGTAAAACTTCGACCCCCCATTGTGGCCCCACCCTACC
196 TTCAAAGATTTACTCTATATATTCCTATGTAAAACTTCGACCCCCCATTGT-GCCCCACCCTAAC
1344722 CCTGGGGGTCATGATTTTCACAACTTTGAATCTACACTACCTCAGGATGCTTCCACACAAGTTGC
260 CCTGGGGGTCATGATTTTCACAACTTTGAATCTACACTACCTCAGGATGCTTCCACACAAGTTGC
*
1344787 AGCTTTCCTGGCTGATTAGTTTCTGAGAAGAAGATTTTTAAAGATTTACTCTATATATTCCTATG
325 AGCTTTCCTGGCTGATTAGTTTCTGAGAAGAAGATTTTCAAAGATTTACTCTATATATTCCTATG
*
1344852 TAAAACTTCGACCCCCCATTGTGGCCCCACCCTACATCC-AGGGGTCATGAATTTCACAACTTTG
390 TAAAACTTCGACCCCCCATTGTGGCCCCACCCTA-ACCCTAGGGGTCATGAATTTCACAACTTTG
* *
1344916 AATCTACACTACCTGAGGATGCTTCCACACCAGTTTCAGCTTTC
454 AATCTACACTACCTCAGGATGCTTCCACACAAGTTTCAGCTTTC
*
1344960 CTGGCTGATTAGTTACTGAGAAGAAGATTTTTAAAGATTTACTCTATATATTCCTATGTAAAACT
1 CTGGCTGATTAGTTTCTGAGAAGAAGATTTTTAAAGATTTACTCTATATATTCCTATGTAAAACT
* *
1345025 TCGACCCCCCATTGTGGCCCCACCCTACCCCC-GGAGGTCATGAATTTCACAACTTTGAATCTAC
66 TCGACCCCCCATTGTGGCCCCACCCTACCCCCAGG-GATCATGATTTTCACAACTTTGAATCTAC
* * * *
1345089 ACTACCTGAGGATGCTTCCACACAAGTTTCAGCTTTACTGGCT-TTGTGGTTTTTTGAGAAGAAG
130 ACTACCTGAGGATGCTTCCACACAAGTTTCAGCTTTCCTGGCTGAT-TAG-TTTCTGAGAAGAAG
1345153 ATTTT
193 ATTTT
1345158 TGAAAATTTC
Statistics
Matches: 637, Mismatches: 51, Indels: 18
0.90 0.07 0.03
Matches are distributed among these distances:
495 24 0.04
496 136 0.21
497 313 0.49
498 85 0.13
499 17 0.03
502 2 0.00
503 60 0.09
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.33
Consensus pattern (497 bp):
CTGGCTGATTAGTTTCTGAGAAGAAGATTTTTAAAGATTTACTCTATATATTCCTATGTAAAACT
TCGACCCCCCATTGTGGCCCCACCCTACCCCCAGGGATCATGATTTTCACAACTTTGAATCTACA
CTACCTGAGGATGCTTCCACACAAGTTTCAGCTTTCCTGGCTGATTAGTTTCTGAGAAGAAGATT
TTCAAAGATTTACTCTATATATTCCTATGTAAAACTTCGACCCCCCATTGTGCCCCACCCTAACC
CTGGGGGTCATGATTTTCACAACTTTGAATCTACACTACCTCAGGATGCTTCCACACAAGTTGCA
GCTTTCCTGGCTGATTAGTTTCTGAGAAGAAGATTTTCAAAGATTTACTCTATATATTCCTATGT
AAAACTTCGACCCCCCATTGTGGCCCCACCCTAACCCTAGGGGTCATGAATTTCACAACTTTGAA
TCTACACTACCTCAGGATGCTTCCACACAAGTTTCAGCTTTC
Found at i:1345340 original size:4 final size:4
Alignment explanation
Indices: 1345331--1345377 Score: 51
Period size: 4 Copynumber: 12.0 Consensus size: 4
1345321 AAAGTTTATG
* * * *
1345331 GACA GACA GACA GACG GACG GACA GACG GACA GACG GAC- GACA GACA
1 GACA GACA GACA GACA GACA GACA GACA GACA GACA GACA GACA GACA
1345378 AAATGTGATC
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
3 3 0.08
4 34 0.92
ACGTcount: A:0.40, C:0.26, G:0.34, T:0.00
Consensus pattern (4 bp):
GACA
Found at i:1345355 original size:20 final size:20
Alignment explanation
Indices: 1345330--1345377 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 20
1345320 AAAAGTTTAT
1345330 GGACAGACAGACAGACGGAC
1 GGACAGACAGACAGACGGAC
*
1345350 GGACAGACGGACAGACGGAC
1 GGACAGACAGACAGACGGAC
1345370 -GACAGACA
1 GGACAGACA
1345378 AAATGTGATC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
19 7 0.27
20 19 0.73
ACGTcount: A:0.40, C:0.25, G:0.35, T:0.00
Consensus pattern (20 bp):
GGACAGACAGACAGACGGAC
Found at i:1355695 original size:2 final size:2
Alignment explanation
Indices: 1355690--1355755 Score: 132
Period size: 2 Copynumber: 33.0 Consensus size: 2
1355680 TGTGTGCGTG
1355690 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1355732 TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC
1355756 ATAATAAATA
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 64 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:1362911 original size:31 final size:31
Alignment explanation
Indices: 1362876--1363114 Score: 361
Period size: 31 Copynumber: 7.7 Consensus size: 31
1362866 TATCATACCA
1362876 AAGTCGATAGATTTAAGCAAAACTCACACCT
1 AAGTCGATAGATTTAAGCAAAACTCACACCT
*
1362907 AAGTCGATAGATTTAAGCAGAACTCACACCT
1 AAGTCGATAGATTTAAGCAAAACTCACACCT
* *
1362938 AAGTCGATAGATTTAAGCAAAACTTAGACCT
1 AAGTCGATAGATTTAAGCAAAACTCACACCT
* * * *
1362969 GAGTTGATAGATTTAAGCAAAACCCACACTT
1 AAGTCGATAGATTTAAGCAAAACTCACACCT
*
1363000 GAGTCGATAGATTTAAGCAAAACTCACACCT
1 AAGTCGATAGATTTAAGCAAAACTCACACCT
* * * *
1363031 GAGTCCATAGATTTAAGAAAAACTCATACCT
1 AAGTCGATAGATTTAAGCAAAACTCACACCT
*
1363062 AAGTCGATAGATTTAAGCAGAACTCACACCT
1 AAGTCGATAGATTTAAGCAAAACTCACACCT
1363093 AAGTCGATAGATTTAAGCAAAA
1 AAGTCGATAGATTTAAGCAAAA
1363115 ATCATTATCA
Statistics
Matches: 186, Mismatches: 22, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 186 1.00
ACGTcount: A:0.41, C:0.20, G:0.15, T:0.24
Consensus pattern (31 bp):
AAGTCGATAGATTTAAGCAAAACTCACACCT
Found at i:1363698 original size:101 final size:97
Alignment explanation
Indices: 1363485--1363718 Score: 276
Period size: 101 Copynumber: 2.4 Consensus size: 97
1363475 CAGTAGACGG
*
1363485 CTTCACTCATCCCCATCAACTTCATGGATTCCTGGAATTATATCAAACCGTAAGATAAAGAATTA
1 CTTCACTCATCCCCATCAACTTCGTGGATTCCTGGAATTATATCAAACCGTAAGATAAAGAATTA
* * * *
1363550 CAGACTATTCTGTTCATTTTACTTATAGATGG
66 CAGACAATTCTGTCCAATTTACTTATAGATGA
* * * *
1363582 TTTCACTCATCCCCATTAACTTCGTGGATTCCTGGAATTATAT-ATTGTACCGTGATA-AGTATA
1 CTTCACTCATCCCCATCAACTTCGTGGATTCCTGGAATTATATCA---AACCGT-A-AGA-TAAA
*
1363645 GAATTGA-AGACAATTGTGTCCAATTTACTTATAGATGA
60 GAATT-ACAGACAATTCTGTCCAATTTACTTATAGATGA
* *
1363683 CTTCACTCATTCCCATCAACTTCGTGGATTCTTGGA
1 CTTCACTCATCCCCATCAACTTCGTGGATTCCTGGA
1363719 GTCATAGGTA
Statistics
Matches: 116, Mismatches: 14, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
96 1 0.01
97 40 0.34
99 5 0.04
100 2 0.02
101 67 0.58
102 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.14, T:0.35
Consensus pattern (97 bp):
CTTCACTCATCCCCATCAACTTCGTGGATTCCTGGAATTATATCAAACCGTAAGATAAAGAATTA
CAGACAATTCTGTCCAATTTACTTATAGATGA
Found at i:1365050 original size:2 final size:2
Alignment explanation
Indices: 1365043--1365085 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
1365033 TTCAGCCTCC
1365043 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1365085 A
1 A
1365086 TTAATATATA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:1367420 original size:2 final size:2
Alignment explanation
Indices: 1367413--1367442 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
1367403 AAAATTTTGA
1367413 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1367443 ATTTATTGAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:1369063 original size:20 final size:20
Alignment explanation
Indices: 1369038--1369204 Score: 124
Period size: 20 Copynumber: 8.2 Consensus size: 20
1369028 GTAATGCAGG
*
1369038 AATTTTCATTGGTATTGTAT
1 AATTTTCATTTGTATTGTAT
1369058 AATTTTCATTTGTATTGTAT
1 AATTTTCATTTGTATTGTAT
* *
1369078 AATTTT--TCTGGTATTCTAT
1 AATTTTCAT-TTGTATTGTAT
* * *
1369097 AATTCTCCATCTGCATTGTAT
1 AATT-TTCATTTGTATTGTAT
* * *
1369118 AATTTTCTATTCGCATTGCAT
1 AATTTTC-ATTTGTATTGTAT
* *
1369139 AATTTTCATTTGAAATGTAT
1 AATTTTCATTTGTATTGTAT
* * *
1369159 AAATTTTAATTCGTATTTTAT
1 -AATTTTCATTTGTATTGTAT
* *
1369180 AGA-TTCCATTTGTATTATAT
1 A-ATTTTCATTTGTATTGTAT
1369200 AATTT
1 AATTT
1369205 CTATAAATTA
Statistics
Matches: 114, Mismatches: 25, Indels: 16
0.74 0.16 0.10
Matches are distributed among these distances:
18 1 0.01
19 14 0.12
20 54 0.47
21 44 0.39
22 1 0.01
ACGTcount: A:0.28, C:0.10, G:0.10, T:0.53
Consensus pattern (20 bp):
AATTTTCATTTGTATTGTAT
Found at i:1369206 original size:81 final size:81
Alignment explanation
Indices: 1369038--1369208 Score: 181
Period size: 81 Copynumber: 2.1 Consensus size: 81
1369028 GTAATGCAGG
* * * * * *
1369038 AATTTTC-ATTGGTATTGTATAATTTTCATTTGTATTGTATAATTTTTCTGGTATTCTATAATTC
1 AATTTTCTATTCGCATTGCATAATTTTCATTTGAAATGTATAATTTTTCTCGTATTCTATAATTC
*
1369102 TCCATCTGCATTGTAT
66 TCCATCTGCATTATAT
*
1369118 AATTTTCTATTCGCATTGCATAATTTTCATTTGAAATGTATAAATTTTAAT-TCGTATTTTATAG
1 AATTTTCTATTCGCATTGCATAATTTTCATTTGAAATGTAT-AATTTT--TCTCGTATTCTATA-
* *
1369182 A-T-TCCATTTGTATTATAT
62 ATTCTCCATCTGCATTATAT
1369200 AA-TTTCTAT
1 AATTTTCTAT
1369209 AAATTACCTT
Statistics
Matches: 76, Mismatches: 10, Indels: 9
0.80 0.11 0.09
Matches are distributed among these distances:
80 7 0.09
81 35 0.46
82 21 0.28
83 11 0.14
84 2 0.03
ACGTcount: A:0.27, C:0.11, G:0.09, T:0.53
Consensus pattern (81 bp):
AATTTTCTATTCGCATTGCATAATTTTCATTTGAAATGTATAATTTTTCTCGTATTCTATAATTC
TCCATCTGCATTATAT
Found at i:1371265 original size:25 final size:26
Alignment explanation
Indices: 1371213--1371266 Score: 65
Period size: 25 Copynumber: 2.1 Consensus size: 26
1371203 AATCAAAAAT
* *
1371213 ATACATAGTAAGTATCCACCGCATAC
1 ATACATAGTAAGTATCCACCACAGAC
* *
1371239 ATACAT-GTAAGTATCTACTACAGAC
1 ATACATAGTAAGTATCCACCACAGAC
1371264 ATA
1 ATA
1371267 AATATCCGCT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
25 18 0.75
26 6 0.25
ACGTcount: A:0.41, C:0.22, G:0.11, T:0.26
Consensus pattern (26 bp):
ATACATAGTAAGTATCCACCACAGAC
Found at i:1372681 original size:2 final size:2
Alignment explanation
Indices: 1372674--1372718 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
1372664 ATGCATTCAC
1372674 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1372716 AG A
1 AG A
1372719 TGAATGAACA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:1376620 original size:2 final size:2
Alignment explanation
Indices: 1376615--1376646 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
1376605 TGTGTGTATG
*
1376615 TA TA TA TA TA TA TA TA TA TA TG TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1376647 NNNNNNNNNN
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1377512 original size:2 final size:2
Alignment explanation
Indices: 1377505--1377568 Score: 128
Period size: 2 Copynumber: 32.0 Consensus size: 2
1377495 ATAAAATTAC
1377505 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1377547 AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG
1377569 NNNNNNNNNN
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 62 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:1379888 original size:4 final size:4
Alignment explanation
Indices: 1379879--1379923 Score: 54
Period size: 4 Copynumber: 10.8 Consensus size: 4
1379869 AAAAGTGTGT
* *
1379879 AGAC AGAC AGAC AGAC AGAC GGAC AGAC ACTGTC AGAC AGAC AGA
1 AGAC AGAC AGAC AGAC AGAC AGAC AGAC A--GAC AGAC AGAC AGA
1379924 TGAGAACGTG
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
4 32 0.91
6 3 0.09
ACGTcount: A:0.44, C:0.24, G:0.27, T:0.04
Consensus pattern (4 bp):
AGAC
Found at i:1385767 original size:36 final size:36
Alignment explanation
Indices: 1385639--1385860 Score: 168
Period size: 36 Copynumber: 6.2 Consensus size: 36
1385629 ATAATCAGTA
* *
1385639 ACAGTAACCAAATGTAATAGCTAT-T-TGTAGAGGTC
1 ACAGTAACCAAATGTAATAGCTATCTGTTTCG-GGTC
* * * * *
1385674 ACA-TAAACCAACTGTAAT-GACCATTTATTTTGGGTC
1 ACAGT-AACCAAATGTAATAG-CTATCTGTTTCGGGTC
*
1385710 ACAATAACCAAATGTAATAGCTATCTGTTTCGGGTC
1 ACAGTAACCAAATGTAATAGCTATCTGTTTCGGGTC
* * *
1385746 ACAGTAACCAACTGTAATAGCTATATCTGTTTTGGATC
1 ACAGTAACCAAATGTAATAGC--TATCTGTTTCGGGTC
* * ***
1385784 ACAGT-ACCAAATGTAACAACTATCTGTAGGGGGTC
1 ACAGTAACCAAATGTAATAGCTATCTGTTTCGGGTC
* * * *
1385819 ACAGTAACCAACTGTTACAGCTATCTG-TACTGGGTC
1 ACAGTAACCAAATGTAATAGCTATCTGTTTC-GGGTC
1385855 ACAGTA
1 ACAGTA
1385861 TCGATCTGTA
Statistics
Matches: 151, Mismatches: 26, Indels: 19
0.77 0.13 0.10
Matches are distributed among these distances:
34 2 0.01
35 34 0.23
36 80 0.53
37 17 0.11
38 18 0.12
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.29
Consensus pattern (36 bp):
ACAGTAACCAAATGTAATAGCTATCTGTTTCGGGTC
Found at i:1385818 original size:73 final size:73
Alignment explanation
Indices: 1385639--1385982 Score: 265
Period size: 73 Copynumber: 4.8 Consensus size: 73
1385629 ATAATCAGTA
* * * * * * *
1385639 ACAGTAACCAAATGTAATAGCTATTTGTA-GAGGTCACA-TAAACCAACTGTAATGACCATT-TA
1 ACAGTAACCAAATGTAACAACTATCTGTATGGGGTCACAGT-AACCAACTGTAA-CAGC-TTATC
1385701 T-T-TTGGGTC
63 TGTATTGGGTC
* * * * * *
1385710 ACAATAACCAAATGTAATAGCTATCTGTTTCGGGTCACAGTAACCAACTGTAATAGCTATATCTG
1 ACAGTAACCAAATGTAACAACTATCTGTATGGGGTCACAGTAACCAACTGTAACAGCT-TATCTG
* *
1385775 TTTTGGATC
65 TATTGGGTC
* *
1385784 ACAGT-ACCAAATGTAACAACTATCTGTAGGGGGTCACAGTAACCAACTGTTACAGC-TATCTGT
1 ACAGTAACCAAATGTAACAACTATCTGTATGGGGTCACAGTAACCAACTGTAACAGCTTATCTGT
*
1385847 ACTGGGTC
66 ATTGGGTC
* * ** * * * * *
1385855 ACAGTATCGATCTGTAACAATTTTCTGGACAGGGGTCACAGTAACCAACTGTTACAG-TTATCTG
1 ACAGTAACCAAATGTAACAACTATCTGTA-TGGGGTCACAGTAACCAACTGTAACAGCTTATCTG
**
1385919 -AAGGGTGTC
65 TATTGG-GTC
* * * * *
1385928 TCAGTAACCAATTGTAACAACTATCTGTATTGGTTCACAGTTACCAACTGTAACA
1 ACAGTAACCAAATGTAACAACTATCTGTATGGGGTCACAGTAACCAACTGTAACA
1385983 ACTTCAACTT
Statistics
Matches: 220, Mismatches: 43, Indels: 19
0.78 0.15 0.07
Matches are distributed among these distances:
70 1 0.00
71 46 0.21
72 61 0.28
73 102 0.46
74 10 0.05
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.30
Consensus pattern (73 bp):
ACAGTAACCAAATGTAACAACTATCTGTATGGGGTCACAGTAACCAACTGTAACAGCTTATCTGT
ATTGGGTC
Found at i:1385953 original size:36 final size:35
Alignment explanation
Indices: 1385741--1385985 Score: 168
Period size: 36 Copynumber: 6.8 Consensus size: 35
1385731 TATCTGTTTC
* * ***
1385741 GGGTCACAGTAACCAACTGTAATAGCTATATCTGTTTT
1 GGGTCACAGTAACCAACTGTAACAAC--TATCTG-AAG
* * *
1385779 GGATCACAGT-ACCAAATGTAACAACTATCTGTAGG
1 GGGTCACAGTAACCAACTGTAACAACTATCTG-AAG
* * **
1385814 GGGTCACAGTAACCAACTGTTACAGCTATCTGTACT
1 GGGTCACAGTAACCAACTGTAACAACTATCTG-AAG
* * * * *
1385850 GGGTCACAGTATCGATCTGTAACAATTTTCTGGACAG
1 GGGTCACAGTAACCAACTGTAACAACTATCT-GA-AG
* **
1385887 GGGTCACAGTAACCAACTGTTACAGTTATCTGAAG
1 GGGTCACAGTAACCAACTGTAACAACTATCTGAAG
* * **
1385922 GGTGTCTCAGTAACCAATTGTAACAACTATCTGTATT
1 GG-GTCACAGTAACCAACTGTAACAACTATCTG-AAG
* *
1385959 GGTTCACAGTTACCAACTGTAACAACT
1 GGGTCACAGTAACCAACTGTAACAACT
1385986 TCAACTTCAG
Statistics
Matches: 163, Mismatches: 39, Indels: 12
0.76 0.18 0.06
Matches are distributed among these distances:
35 20 0.12
36 93 0.57
37 41 0.25
38 9 0.06
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.29
Consensus pattern (35 bp):
GGGTCACAGTAACCAACTGTAACAACTATCTGAAG
Found at i:1385979 original size:109 final size:108
Alignment explanation
Indices: 1385782--1385983 Score: 253
Period size: 109 Copynumber: 1.9 Consensus size: 108
1385772 CTGTTTTGGA
* * *
1385782 TCACAGTACCAAATGTAACAACTATCTGTAGGGGGTCACAGTAACCAACTGTTACAGCTATCTGT
1 TCACAGTACCAAATGTAACAACTATCTGAAGGGGGTCACAGTAACCAACTGTAACAACTATCTGT
* *
1385847 ACTGGGTCACAGTATCGATCTGTAACAATTTTCTGGACAGGGG
66 ACTGGGTCACAGTATCCAACTGTAACAATTTTCTGGACAGGGG
* * ** * * *
1385890 TCACAGTAACCAACTGTTACAGTTATCTGAAGGGTGTCTCAGTAACCAATTGTAACAACTATCTG
1 TCACAGT-ACCAAATGTAACAACTATCTGAAGGGGGTCACAGTAACCAACTGTAACAACTATCTG
* *
1385955 TATTGGTTCACAGT-TACCAACTGTAACAA
65 TACTGGGTCACAGTAT-CCAACTGTAACAA
1385984 CTTCAACTTC
Statistics
Matches: 78, Mismatches: 14, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
108 8 0.10
109 70 0.90
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.28
Consensus pattern (108 bp):
TCACAGTACCAAATGTAACAACTATCTGAAGGGGGTCACAGTAACCAACTGTAACAACTATCTGT
ACTGGGTCACAGTATCCAACTGTAACAATTTTCTGGACAGGGG
Found at i:1387083 original size:22 final size:24
Alignment explanation
Indices: 1387038--1387085 Score: 73
Period size: 22 Copynumber: 2.1 Consensus size: 24
1387028 ATACTACTAA
*
1387038 CTGGGTTTACTCTCTGTGTCCACT
1 CTGGGTTTACTCTCTGGGTCCACT
1387062 CTGGGTTTACT-T-TGGGTCCACT
1 CTGGGTTTACTCTCTGGGTCCACT
1387084 CT
1 CT
1387086 AACCCAGGGT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 11 0.48
23 1 0.04
24 11 0.48
ACGTcount: A:0.08, C:0.27, G:0.23, T:0.42
Consensus pattern (24 bp):
CTGGGTTTACTCTCTGGGTCCACT
Found at i:1387188 original size:59 final size:59
Alignment explanation
Indices: 1387111--1387780 Score: 948
Period size: 59 Copynumber: 11.3 Consensus size: 59
1387101 TATATCAGAA
* * * *
1387111 GGGTGTCACAGTATTTATCTGTATGTGATTACATTAACCAACTGCAACATTTATCTGTT
1 GGGTGTCTCAGTAATTATCTGTATGGGATTACATTAACCAACTGCAACAGTTATCTGTT
* * *
1387170 GGGTGTCACAGCAATTATCTGTATGGGATTACATTAACCAAATGCAACAGTTATCTGTT
1 GGGTGTCTCAGTAATTATCTGTATGGGATTACATTAACCAACTGCAACAGTTATCTGTT
* * * * * *
1387229 GGCTGTCTCATTAATTATCTGAATGGGATAACGTATTTACCAAATGCAACAGTTATCTGTT
1 GGGTGTCTCAGTAATTATCTGTATGGGATTAC--ATTAACCAACTGCAACAGTTATCTGTT
* * *
1387290 GGGTGTCACAGCAATTATCTGTATGGGATTACATTAACCATCTGCAACAGTTATCTGTT
1 GGGTGTCTCAGTAATTATCTGTATGGGATTACATTAACCAACTGCAACAGTTATCTGTT
* * * *
1387349 GGGTGTCACAGCAGTTATCTGTATGGGATTACATTAACCAAATGCAACAGTTATCTGTT
1 GGGTGTCTCAGTAATTATCTGTATGGGATTACATTAACCAACTGCAACAGTTATCTGTT
*
1387408 GGGTGTCTCAGTAATTATCTGTATGGGATTACATATTAACCAAATGCAACAGTTATCTGTT
1 GGGTGTCTCAGTAATTATCTGTATGGGATTAC--ATTAACCAACTGCAACAGTTATCTGTT
* * *
1387469 GGGTGTCTCAATAATTATCTGTATGGGATTACATTAACGAAATGCAACAGTTATCTGTT
1 GGGTGTCTCAGTAATTATCTGTATGGGATTACATTAACCAACTGCAACAGTTATCTGTT
1387528 GGGTGTCTCAGTAATTATCTGTATGGGATTACATATTAACCAACTGCAACAGTTATCTGTT
1 GGGTGTCTCAGTAATTATCTGTATGGGATTAC--ATTAACCAACTGCAACAGTTATCTGTT
* * * *
1387589 GGGTGTCTCAATAATTATCTGAATGGGATAACATTTACCAACTGCAACAGTTATCTGTT
1 GGGTGTCTCAGTAATTATCTGTATGGGATTACATTAACCAACTGCAACAGTTATCTGTT
* * * * *
1387648 AGGTGTCTCATTAATTATCTGAATGGGATAACATTTACCAACTGCAACAGTTATCTGTT
1 GGGTGTCTCAGTAATTATCTGTATGGGATTACATTAACCAACTGCAACAGTTATCTGTT
1387707 GGGTGTCTCAGTAATTATCTGTATGGGATTACATATTAACCAACTGCAACAGTTATCTGTT
1 GGGTGTCTCAGTAATTATCTGTATGGGATTAC--ATTAACCAACTGCAACAGTTATCTGTT
*
1387768 --GTGTCTCACTAAT
1 GGGTGTCTCAGTAAT
1387781 NNNNNNNNNN
Statistics
Matches: 559, Mismatches: 44, Indels: 16
0.90 0.07 0.03
Matches are distributed among these distances:
59 369 0.66
61 190 0.34
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (59 bp):
GGGTGTCTCAGTAATTATCTGTATGGGATTACATTAACCAACTGCAACAGTTATCTGTT
Found at i:1387367 original size:120 final size:118
Alignment explanation
Indices: 1387111--1387780 Score: 948
Period size: 120 Copynumber: 5.6 Consensus size: 118
1387101 TATATCAGAA
* * * * *
1387111 GGGTGTCACAGTATTTATCTGTATGTGATTACATTAACCAACTGCAACATTTATCTGTTGGGTGT
1 GGGTGTCTCAGTAATTATCTGTATGGGATTACATTAACCAAATGCAACAGTTATCTGTTGGGTGT
* * *
1387176 CACAGCAATTATCTGTATGGGATTACATTAACCAAATGCAACAGTTATCTGTT
66 CTCAGTAATTATCTGTATGGGATTACATTAACCAACTGCAACAGTTATCTGTT
* * * * *
1387229 GGCTGTCTCATTAATTATCTGAATGGGATAACGTATTTACCAAATGCAACAGTTATCTGTTGGGT
1 GGGTGTCTCAGTAATTATCTGTATGGGATTAC--ATTAACCAAATGCAACAGTTATCTGTTGGGT
* * *
1387294 GTCACAGCAATTATCTGTATGGGATTACATTAACCATCTGCAACAGTTATCTGTT
64 GTCTCAGTAATTATCTGTATGGGATTACATTAACCAACTGCAACAGTTATCTGTT
* * *
1387349 GGGTGTCACAGCAGTTATCTGTATGGGATTACATTAACCAAATGCAACAGTTATCTGTTGGGTGT
1 GGGTGTCTCAGTAATTATCTGTATGGGATTACATTAACCAAATGCAACAGTTATCTGTTGGGTGT
*
1387414 CTCAGTAATTATCTGTATGGGATTACATATTAACCAAATGCAACAGTTATCTGTT
66 CTCAGTAATTATCTGTATGGGATTAC--ATTAACCAACTGCAACAGTTATCTGTT
* *
1387469 GGGTGTCTCAATAATTATCTGTATGGGATTACATTAACGAAATGCAACAGTTATCTGTTGGGTGT
1 GGGTGTCTCAGTAATTATCTGTATGGGATTACATTAACCAAATGCAACAGTTATCTGTTGGGTGT
1387534 CTCAGTAATTATCTGTATGGGATTACATATTAACCAACTGCAACAGTTATCTGTT
66 CTCAGTAATTATCTGTATGGGATTAC--ATTAACCAACTGCAACAGTTATCTGTT
* * * * * *
1387589 GGGTGTCTCAATAATTATCTGAATGGGATAACATTTACCAACTGCAACAGTTATCTGTTAGGTGT
1 GGGTGTCTCAGTAATTATCTGTATGGGATTACATTAACCAAATGCAACAGTTATCTGTTGGGTGT
* * * *
1387654 CTCATTAATTATCTGAATGGGATAACATTTACCAACTGCAACAGTTATCTGTT
66 CTCAGTAATTATCTGTATGGGATTACATTAACCAACTGCAACAGTTATCTGTT
*
1387707 GGGTGTCTCAGTAATTATCTGTATGGGATTACATATTAACCAACTGCAACAGTTATCTGTT--GT
1 GGGTGTCTCAGTAATTATCTGTATGGGATTAC--ATTAACCAAATGCAACAGTTATCTGTTGGGT
*
1387770 GTCTCACTAAT
64 GTCTCAGTAAT
1387781 NNNNNNNNNN
Statistics
Matches: 501, Mismatches: 45, Indels: 12
0.90 0.08 0.02
Matches are distributed among these distances:
118 148 0.30
120 353 0.70
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (118 bp):
GGGTGTCTCAGTAATTATCTGTATGGGATTACATTAACCAAATGCAACAGTTATCTGTTGGGTGT
CTCAGTAATTATCTGTATGGGATTACATTAACCAACTGCAACAGTTATCTGTT
Found at i:1387417 original size:179 final size:179
Alignment explanation
Indices: 1387111--1387780 Score: 999
Period size: 179 Copynumber: 3.7 Consensus size: 179
1387101 TATATCAGAA
* * *
1387111 GGGTGTCACAGTATTTATCTGTATGTGATTACATTAACCAACTGCAACATTTATCTGTTGGGTGT
1 GGGTGTCACAGTAATTATCTGTATGGGATTACATTAACCAACTGCAACAGTTATCTGTTGGGTGT
* *
1387176 CACAGCAATTATCTGTATGGGATTAC-ATTAACCAAATGCAACAGTTATCTGTTGGCTGTCTCAT
66 CACAGCAATTATCTGTATGGGATTACAATTAACCAAATGCAACAGTTATCTGTTGGGTGTCTCAA
1387240 TAATTATCTGAATGGGATAACGTATTTACCAAATGCAACAGTTATCTGTT
131 TAATTATCTGAATGGGATAAC-TATTTACCAAATGCAACAGTTATCTGTT
* *
1387290 GGGTGTCACAGCAATTATCTGTATGGGATTACATTAACCATCTGCAACAGTTATCTGTTGGGTGT
1 GGGTGTCACAGTAATTATCTGTATGGGATTACATTAACCAACTGCAACAGTTATCTGTTGGGTGT
* *
1387355 CACAGCAGTTATCTGTATGGGATTAC-ATTAACCAAATGCAACAGTTATCTGTTGGGTGTCTCAG
66 CACAGCAATTATCTGTATGGGATTACAATTAACCAAATGCAACAGTTATCTGTTGGGTGTCTCAA
* * *
1387419 TAATTATCTGTATGGGATTACATATTAACCAAATGCAACAGTTATCTGTT
131 TAATTATCTGAATGGGATAAC-TATTTACCAAATGCAACAGTTATCTGTT
* * * *
1387469 GGGTGTCTCAATAATTATCTGTATGGGATTACATTAACGAAATGCAACAGTTATCTGTTGGGTGT
1 GGGTGTCACAGTAATTATCTGTATGGGATTACATTAACCAACTGCAACAGTTATCTGTTGGGTGT
* * *
1387534 CTCAGTAATTATCTGTATGGGATTACATATTAACCAACTGCAACAGTTATCTGTTGGGTGTCTCA
66 CACAGCAATTATCTGTATGGGATTACA-ATTAACCAAATGCAACAGTTATCTGTTGGGTGTCTCA
*
1387599 ATAATTATCTGAATGGGATAAC-ATTTACCAACTGCAACAGTTATCTGTT
130 ATAATTATCTGAATGGGATAACTATTTACCAAATGCAACAGTTATCTGTT
* * * * * *
1387648 AGGTGTCTCATTAATTATCTGAATGGGATAACATTTACCAACTGCAACAGTTATCTGTTGGGTGT
1 GGGTGTCACAGTAATTATCTGTATGGGATTACATTAACCAACTGCAACAGTTATCTGTTGGGTGT
* * *
1387713 CTCAGTAATTATCTGTATGGGATTACATATTAACCAACTGCAACAGTTATCTGTT--GTGTCTCA
66 CACAGCAATTATCTGTATGGGATTACA-ATTAACCAAATGCAACAGTTATCTGTTGGGTGTCTCA
*
1387776 CTAAT
130 ATAAT
1387781 NNNNNNNNNN
Statistics
Matches: 454, Mismatches: 35, Indels: 6
0.92 0.07 0.01
Matches are distributed among these distances:
177 12 0.03
179 387 0.85
181 55 0.12
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (179 bp):
GGGTGTCACAGTAATTATCTGTATGGGATTACATTAACCAACTGCAACAGTTATCTGTTGGGTGT
CACAGCAATTATCTGTATGGGATTACAATTAACCAAATGCAACAGTTATCTGTTGGGTGTCTCAA
TAATTATCTGAATGGGATAACTATTTACCAAATGCAACAGTTATCTGTT
Found at i:1388422 original size:59 final size:59
Alignment explanation
Indices: 1388330--1388774 Score: 647
Period size: 59 Copynumber: 7.6 Consensus size: 59
1388320 NNNNNNNNNN
1388330 ACCAAATGCAACAGTTATCTGTTGGGTGTCTCAGTAATTATCTGTATGGGATTACATTA
1 ACCAAATGCAACAGTTATCTGTTGGGTGTCTCAGTAATTATCTGTATGGGATTACATTA
1388389 ACCAAATGCAACAGTTATCTGTTGGGTGTCTCAGTAATTATCTGTATGGGATTACATTA
1 ACCAAATGCAACAGTTATCTGTTGGGTGTCTCAGTAATTATCTGTATGGGATTACATTA
* * *
1388448 ACCAAATGCAACAG---T-TG-T--CTGTCTCATTAATTATCTGTATGGGATTACATTT
1 ACCAAATGCAACAGTTATCTGTTGGGTGTCTCAGTAATTATCTGTATGGGATTACATTA
* *
1388500 ACCAACTGCAACAGTTATCTGTTGGGTGTCTCATTAATTATCTGTATGGGATTACATTA
1 ACCAAATGCAACAGTTATCTGTTGGGTGTCTCAGTAATTATCTGTATGGGATTACATTA
*
1388559 ACCAAATGCAACAGTTATCTGTTGGGTGTCTCATTAATTATCTGTATGGGATTACATTA
1 ACCAAATGCAACAGTTATCTGTTGGGTGTCTCAGTAATTATCTGTATGGGATTACATTA
* * * *
1388618 ACCAAATGAAACAGTTGTCTGTTGGGTGTCTCGGTAATTATCTGTATGGGATTACATTT
1 ACCAAATGCAACAGTTATCTGTTGGGTGTCTCAGTAATTATCTGTATGGGATTACATTA
* *
1388677 ACCAACA-GCAACAGTTATCTGTAGGGTGTCTCCA-TAATTATCTGTTTGGGATTACATTGATTA
1 ACCAA-ATGCAACAGTTATCTGTTGGGTGTCT-CAGTAATTATCTGTATGGGATTAC----ATTA
* *
1388740 ACCAACTGCAACAGTTATCTGTTTGGTGTCTCAGT
1 ACCAAATGCAACAGTTATCTGTTGGGTGTCTCAGT
1388775 GATCAATTGT
Statistics
Matches: 350, Mismatches: 21, Indels: 26
0.88 0.05 0.07
Matches are distributed among these distances:
52 44 0.13
54 1 0.00
55 3 0.01
56 3 0.01
57 1 0.00
59 263 0.75
60 2 0.01
62 2 0.01
63 31 0.09
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.36
Consensus pattern (59 bp):
ACCAAATGCAACAGTTATCTGTTGGGTGTCTCAGTAATTATCTGTATGGGATTACATTA
Found at i:1388618 original size:170 final size:170
Alignment explanation
Indices: 1388330--1388774 Score: 676
Period size: 170 Copynumber: 2.5 Consensus size: 170
1388320 NNNNNNNNNN
*
1388330 ACCAAATGCAACAGTTATCTGTTGGGTGTCTCAGTAATTATCTGTATGGGATTACATTAACCAAA
1 ACCAACTGCAACAGTTATCTGTTGGGTGTCTCA-TAATTATCTGTATGGGATTACATTAACCAAA
*
1388395 TGCAACAGTTATCTGTTGGGTGTCTCAGTAATTATCTGTATGGGATTACATTAACCAAATGCAAC
65 TGCAACAGTTATCTGTTGGGTGTCTCAGTAATTATCTGTATGGGATTACATTAACCAAATGAAAC
*
1388460 AGTTGTC-TGTCTCATTAATTATCTGTATGGGATTACATTT
130 AGTTGTCGTGTCTCAGTAATTATCTGTATGGGATTACATTT
1388500 ACCAACTGCAACAGTTATCTGTTGGGTGTCTCATTAATTATCTGTATGGGATTACATTAACCAAA
1 ACCAACTGCAACAGTTATCTGTTGGGTGTCTCA-TAATTATCTGTATGGGATTACATTAACCAAA
*
1388565 TGCAACAGTTATCTGTTGGGTGTCTCATTAATTATCTGTATGGGATTACATTAACCAAATGAAAC
65 TGCAACAGTTATCTGTTGGGTGTCTCAGTAATTATCTGTATGGGATTACATTAACCAAATGAAAC
*
1388630 AGTTGTCTGTTGGGTGTCTCGGTAATTATCTGTATGGGATTACATTT
130 AGTTGTC------GTGTCTCAGTAATTATCTGTATGGGATTACATTT
* * *
1388677 ACCAACAGCAACAGTTATCTGTAGGGTGTCTCCATAATTATCTGTTTGGGATTACATTGATTAAC
1 ACCAACTGCAACAGTTATCTGTTGGGTGTCT-CATAATTATCTGTATGGGATTAC----ATTAAC
* *
1388742 CAACTGCAACAGTTATCTGTTTGGTGTCTCAGT
61 CAAATGCAACAGTTATCTGTTGGGTGTCTCAGT
1388775 GATCAATTGT
Statistics
Matches: 251, Mismatches: 12, Indels: 13
0.91 0.04 0.05
Matches are distributed among these distances:
170 133 0.53
177 80 0.32
178 2 0.01
181 36 0.14
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.36
Consensus pattern (170 bp):
ACCAACTGCAACAGTTATCTGTTGGGTGTCTCATAATTATCTGTATGGGATTACATTAACCAAAT
GCAACAGTTATCTGTTGGGTGTCTCAGTAATTATCTGTATGGGATTACATTAACCAAATGAAACA
GTTGTCGTGTCTCAGTAATTATCTGTATGGGATTACATTT
Found at i:1389391 original size:76 final size:76
Alignment explanation
Indices: 1389303--1389501 Score: 211
Period size: 76 Copynumber: 2.6 Consensus size: 76
1389293 GTTATATATA
* * * *
1389303 TATATATATGTAATGGATTACATTAACCAATTGTAACAATTATCTGTATTGG-GTCACAGTAACC
1 TATATATCTGTAATGGATTACATTAACCAACTGTAACAATTATCTGTA-AGGAGGCACAGTAACC
* *
1389367 AAGTGTTACAGT
65 AAATGTAACAGT
* * *** * * * **
1389379 TATATATCTGTAATGGATTGCAATAACTGGCCGTCACAATTACCTGTAAGGAGGCACAGTAATTA
1 TATATATCTGTAATGGATTACATTAACCAACTGTAACAATTATCTGTAAGGAGGCACAGTAACCA
1389444 AATGTAACAGT
66 AATGTAACAGT
* * *
1389455 TATATATCTGTTATGGATCACATTAATCAACTGTAACAATTATCTGT
1 TATATATCTGTAATGGATTACATTAACCAACTGTAACAATTATCTGT
1389502 CAAGAGTCAC
Statistics
Matches: 95, Mismatches: 27, Indels: 2
0.77 0.22 0.02
Matches are distributed among these distances:
75 2 0.02
76 93 0.98
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.34
Consensus pattern (76 bp):
TATATATCTGTAATGGATTACATTAACCAACTGTAACAATTATCTGTAAGGAGGCACAGTAACCA
AATGTAACAGT
Found at i:1389697 original size:113 final size:109
Alignment explanation
Indices: 1389450--1389732 Score: 440
Period size: 113 Copynumber: 2.5 Consensus size: 109
1389440 ATTAAATGTA
* * * * *
1389450 ACAGTTATATATCTGTTATGGATCACATTAATCAACTGTAACAATTATCTGTCAAGAGTCACCAG
1 ACAGTTTTATATCTGTAATGGATCACATTAACCAACTGTAACAATTATCTGTTAGGAGTCACCAG
1389515 ATGTAACAGTTATTTATGTTATGCGATTACTTTAACCATCTGTC
66 ATGTAACAGTTATTTATGTTATGCGATTACTTTAACCATCTGTC
*
1389559 ACAGTTTTATATCCGTAATGGATCACATTAACCAACTGTAACAATTATCTGTTAGGAGTCACCAG
1 ACAGTTTTATATCTGTAATGGATCACATTAACCAACTGTAACAATTATCTGTTAGGAGTCACCAG
*
1389624 ATGTAACAGTTATAAATTTATGTTATGGGATTACTTTAACCATCTGTC
66 ATGTAACAG-T-T--ATTTATGTTATGCGATTACTTTAACCATCTGTC
*
1389672 ACAGTTTTATATCTGTAATGGATCACATTAACCAACTGTGACAATTATATCTGTTAGGAGT
1 ACAGTTTTATATCTGTAATGGATCACATTAACCAACTGTAACAA-T-TATCTGTTAGGAGT
1389733 TACATTATCA
Statistics
Matches: 159, Mismatches: 9, Indels: 6
0.91 0.05 0.03
Matches are distributed among these distances:
109 68 0.43
110 1 0.01
111 1 0.01
113 74 0.47
114 1 0.01
115 14 0.09
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.36
Consensus pattern (109 bp):
ACAGTTTTATATCTGTAATGGATCACATTAACCAACTGTAACAATTATCTGTTAGGAGTCACCAG
ATGTAACAGTTATTTATGTTATGCGATTACTTTAACCATCTGTC
Found at i:1390362 original size:12 final size:12
Alignment explanation
Indices: 1390345--1390370 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
1390335 GGTCAAATTA
1390345 AACATGGCCTGG
1 AACATGGCCTGG
1390357 AACATGGCCTGG
1 AACATGGCCTGG
1390369 AA
1 AA
1390371 ATATTCTCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.23, G:0.31, T:0.15
Consensus pattern (12 bp):
AACATGGCCTGG
Found at i:1395868 original size:165 final size:165
Alignment explanation
Indices: 1394727--1395982 Score: 1698
Period size: 166 Copynumber: 7.6 Consensus size: 165
1394717 GTATTTTTAA
* * * * *** *
1394727 AAAAATCTTCTTCTCAAAAAGTATTTGGCCTGAAAAGCTTAAACTT-GTGTGGAGGCATCCTCAG
1 AAAAATCTTCTTCTCAAAAACTATTAGGCCAGAAAAGCTCAAA-TTAAAATGGAAGCATCCTCAG
* * *
1394791 GTAGTGTAGATTCAAGTTTGTCCAAATCATTGTCCCC-GGGGTAAGGGTGGGGCCACAATTGGGG
65 GTAGTGTAGATTCAAGTTTGTTCAAATCATGGTCCCCGGGGGT-AGGGTGGGGCCACAATGGGGG
* *
1394855 GATAAATTTTTATACAGGAATATATAGAGAAAATCTTT
129 GAT-AATTTTTACATAGGAATATATAGAGAAAATCTTT
* * * *
1394893 TAAAATCTTCTTCTCAAAAACTATTTGGCCAGGAAAGCTCAAATTCAAATGGAAGCATCCTCAGG
1 AAAAATCTTCTTCTCAAAAACTATTAGGCCAGAAAAGCTCAAATTAAAATGGAAGCATCCTCAGG
* * *
1394958 TAGTGTAGATTCAAGTTTGTCCAAATCATGGTCCCCGGGTGTAGGGTGGGGCCACAATAGGGGGA
66 TAGTGTAGATTCAAGTTTGTTCAAATCATGGTCCCCGGGGGTAGGGTGGGGCCACAATGGGGGGA
* *
1395023 TTATGTTTTACATAGGAATATGTAGAGAAAATCTTT
131 TAAT-TTTTACATAGGAATATATAGAGAAAATCTTT
* * * *
1395059 AAAAACCCTCTTCTCAAAAACTATTAAGCCAGAAAAGCTCAAATTCAAATGGAAGCATCCTCAGG
1 AAAAATCTTCTTCTCAAAAACTATTAGGCCAGAAAAGCTCAAATTAAAATGGAAGCATCCTCAGG
* * *
1395124 TATTGTAGATTCAAGTATGTTCAAATCATGGTCCCCGGGGGTAGGGTGGGGCCACAATAGGGGGA
66 TAGTGTAGATTCAAGTTTGTTCAAATCATGGTCCCCGGGGGTAGGGTGGGGCCACAATGGGGGGA
*
1395189 TTATTTTTTACATAGGAATATATAGAGAAAATCTTT
131 -TAATTTTTACATAGGAATATATAGAGAAAATCTTT
* * *
1395225 AAAAGTCTTCTTCTCAAATATTATTAGGCCAGAAAAGCTCAAATTAAAATGGAAGCATCCTCAGG
1 AAAAATCTTCTTCTCAAAAACTATTAGGCCAGAAAAGCTCAAATTAAAATGGAAGCATCCTCAGG
* *
1395290 TAGTGTAGATTCAAGATTGTTCAAATCATGGTTCCCGGGGGTAGGGTGGGGCCACAATGGGGGGA
66 TAGTGTAGATTCAAGTTTGTTCAAATCATGGTCCCCGGGGGTAGGGTGGGGCCACAATGGGGGGA
* *
1395355 TCAAGTTTTACATAGGAATATATAGAGAAAATCTTA
131 T-AATTTTTACATAGGAATATATAGAGAAAATCTTT
* * * * *
1395391 AAAAATCCTCTTCTCAAAAACTATAAGGCAAGGAAAGCTCAAATTCAAATGGAAGCATCCTCAGG
1 AAAAATCTTCTTCTCAAAAACTATTAGGCCAGAAAAGCTCAAATTAAAATGGAAGCATCCTCAGG
* * * * *
1395456 TAGTGTAGATTCAAGTTTGTCCAAATCATGTTCCCTGGGTGTAGGGTGGGGCCACAAT-AGGGGA
66 TAGTGTAGATTCAAGTTTGTTCAAATCATGGTCCCCGGGGGTAGGGTGGGGCCACAATGGGGGGA
* *
1395520 TTATGTTTTACATAGGAATATGTAGAGAAAATCTTT
131 TAAT-TTTTACATAGGAATATATAGAGAAAATCTTT
* * **
1395556 AAAAATCTTCTTCTC-AAATCTATAAGGCCAGAAAAGCTCAAA-TAAAATGGAAGCATCAGCAGG
1 AAAAATCTTCTTCTCAAAAACTATTAGGCCAGAAAAGCTCAAATTAAAATGGAAGCATCCTCAGG
* *
1395619 TAGTGTAGATTCAAGTTTGTTCAAATCATGGTCCCCGTGGGTAGGGTGGGGCCACATTGGGGGGA
66 TAGTGTAGATTCAAGTTTGTTCAAATCATGGTCCCCGGGGGTAGGGTGGGGCCACAATGGGGGGA
*
1395684 TCAAGTTTTACATAGGAATATATAGAGAAAATCTTT
131 T-AATTTTTACATAGGAATATATAGAGAAAATCTTT
* * * * *
1395720 AAAAATCTTCTGCTCAAAAACTATCAGGCCAGAAAAGCTCAAATTAAAATGGGAGCATCTTCAGA
1 AAAAATCTTCTTCTCAAAAACTATTAGGCCAGAAAAGCTCAAATTAAAATGGAAGCATCCTCAGG
* *
1395785 TAGTGTAGATTCAAGTTTGTTCAAATCATGGTCCCTGGGGGTA-GGTGGGGCCACATTGGGGGGA
66 TAGTGTAGATTCAAGTTTGTTCAAATCATGGTCCCCGGGGGTAGGGTGGGGCCACAATGGGGGGA
* *
1395849 TAAATTTTTATACAGGAATATATAGAGAAAATCTTT
131 T-AATTTTTACATAGGAATATATAGAGAAAATCTTT
* *** * *
1395885 AAAAATCTTCTTCTCAAAAACTATTAGGCCA-AGAAAGCTTAAATTGGCATGTAACCATCCTCAG
1 AAAAATCTTCTTCTCAAAAACTATTAGGCCAGA-AAAGCTCAAATTAAAATGGAAGCATCCTCAG
* * * *
1395949 ATATTGTAGATTTAAGTTTGTTCAAATCGTGGTC
65 GTAGTGTAGATTCAAGTTTGTTCAAATCATGGTC
1395983 TTTGGGAAAA
Statistics
Matches: 973, Mismatches: 106, Indels: 23
0.88 0.10 0.02
Matches are distributed among these distances:
163 70 0.07
164 76 0.08
165 216 0.22
166 605 0.62
167 6 0.01
ACGTcount: A:0.34, C:0.16, G:0.22, T:0.28
Consensus pattern (165 bp):
AAAAATCTTCTTCTCAAAAACTATTAGGCCAGAAAAGCTCAAATTAAAATGGAAGCATCCTCAGG
TAGTGTAGATTCAAGTTTGTTCAAATCATGGTCCCCGGGGGTAGGGTGGGGCCACAATGGGGGGA
TAATTTTTACATAGGAATATATAGAGAAAATCTTT
Found at i:1398983 original size:17 final size:17
Alignment explanation
Indices: 1398961--1398996 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
1398951 CCTGTAGGCT
*
1398961 GCTGTAGGCTTGGTGAG
1 GCTGTAGGCTGGGTGAG
*
1398978 GCTGTAGGGTGGGTGAG
1 GCTGTAGGCTGGGTGAG
1398995 GC
1 GC
1398997 ATGCATTTCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.11, C:0.11, G:0.53, T:0.25
Consensus pattern (17 bp):
GCTGTAGGCTGGGTGAG
Found at i:1409162 original size:21 final size:21
Alignment explanation
Indices: 1409123--1409168 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
1409113 AACAGGAAGA
* *
1409123 TGAAATCAAACACATCATTTC
1 TGAAATCAAACACACCATTGC
* *
1409144 TGAAATCACACAGACCATTGC
1 TGAAATCAAACACACCATTGC
1409165 TGAA
1 TGAA
1409169 CTAAAGACGT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.41, C:0.24, G:0.11, T:0.24
Consensus pattern (21 bp):
TGAAATCAAACACACCATTGC
Found at i:1412575 original size:2 final size:2
Alignment explanation
Indices: 1412568--1412605 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
1412558 GGATCAGGCG
1412568 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1412606 GGGTAGGGGG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:1422338 original size:26 final size:26
Alignment explanation
Indices: 1422302--1422353 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
1422292 ACTGTTTCAT
1422302 GTATCTATATCATCCAGTCTGACACC
1 GTATCTATATCATCCAGTCTGACACC
* *
1422328 GTATCTTTATCATCCAGTCTGTCACC
1 GTATCTATATCATCCAGTCTGACACC
1422354 AGACAAAGTG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.23, C:0.31, G:0.12, T:0.35
Consensus pattern (26 bp):
GTATCTATATCATCCAGTCTGACACC
Found at i:1422886 original size:26 final size:26
Alignment explanation
Indices: 1422850--1422979 Score: 242
Period size: 26 Copynumber: 5.0 Consensus size: 26
1422840 ACTGTTTCAT
*
1422850 GTATCTATATCATCCAGTCTGACACC
1 GTATCTTTATCATCCAGTCTGACACC
1422876 GTATCTTTATCATCCAGTCTGACACC
1 GTATCTTTATCATCCAGTCTGACACC
1422902 GTATCTTTATCATCCAGTCTGACACC
1 GTATCTTTATCATCCAGTCTGACACC
1422928 GTATCTTTATCATCCAGTCTGACACC
1 GTATCTTTATCATCCAGTCTGACACC
*
1422954 GTATCTTTATCATCCAGTCTGTCACC
1 GTATCTTTATCATCCAGTCTGACACC
1422980 AGACAAAGTG
Statistics
Matches: 102, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 102 1.00
ACGTcount: A:0.23, C:0.31, G:0.12, T:0.35
Consensus pattern (26 bp):
GTATCTTTATCATCCAGTCTGACACC
Found at i:1424541 original size:13 final size:13
Alignment explanation
Indices: 1424523--1424548 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1424513 TAATTATAAT
1424523 TAATTCAATTTGA
1 TAATTCAATTTGA
1424536 TAATTCAATTTGA
1 TAATTCAATTTGA
1424549 GCATCTTCCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.08, G:0.08, T:0.46
Consensus pattern (13 bp):
TAATTCAATTTGA
Found at i:1431662 original size:17 final size:17
Alignment explanation
Indices: 1431640--1431672 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
1431630 TCGCATAGCC
1431640 CCCTAACTCCGTCACTA
1 CCCTAACTCCGTCACTA
1431657 CCCTAACTCCGTCACT
1 CCCTAACTCCGTCACT
1431673 TTCGGGAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.21, C:0.48, G:0.06, T:0.24
Consensus pattern (17 bp):
CCCTAACTCCGTCACTA
Found at i:1435195 original size:1 final size:1
Alignment explanation
Indices: 1435189--1435213 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
1435179 AACCCACTAT
1435189 CCCCCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCC
1435214 ACACACACAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:1.00, G:0.00, T:0.00
Consensus pattern (1 bp):
C
Found at i:1440925 original size:2 final size:2
Alignment explanation
Indices: 1440913--1440963 Score: 93
Period size: 2 Copynumber: 25.5 Consensus size: 2
1440903 CCTACCCCTG
*
1440913 GA GA GA AA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1440955 GA GA GA GA G
1 GA GA GA GA G
1440964 GGAGGGGTCC
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
GA
Found at i:1492534 original size:185 final size:184
Alignment explanation
Indices: 1492222--1492594 Score: 730
Period size: 185 Copynumber: 2.0 Consensus size: 184
1492212 CGAGCAAGTT
1492222 ATTTAAATTTTTTGGAAGTTGCAAACGAATGCGCTGTGGTTAAGACTCTAGAGTTGCTGATAAAT
1 ATTTAAATTTTTTGGAAGTTGCAAACGAATGCGCTGTGGTTAAGACTCTAGAGTTGCTGATAAAT
1492287 GTCTAATGAATGCTGTAACCGTTATAAAAAATAAAGAAGACACCATGTTGTTTCGTTTCCGCAGT
66 GTCTAATGAATGCTGTAACCGTTATAAAAAATAAAGAAGACACCATGTTGTTTCGTTTCCGCAGT
1492352 AAAACGAACGTAATATGTCTTAATGTATATATAGCGTTGATATAATTAGCATTA
131 AAAACGAACGTAATATGTCTTAATGTATATATAGCGTTGATATAATTAGCATTA
1492406 NATTTAAATTTTTTGGAAGTTGCAAACGAATGCGCTGTGGTTAAGACTCTAGAGTTGCTGATAAA
1 -ATTTAAATTTTTTGGAAGTTGCAAACGAATGCGCTGTGGTTAAGACTCTAGAGTTGCTGATAAA
1492471 TGTCTAATGAATGCTGTAACCGTTATAAAAAATAAAGAAGACACCATGTTGTTTCGTTTCCGCAG
65 TGTCTAATGAATGCTGTAACCGTTATAAAAAATAAAGAAGACACCATGTTGTTTCGTTTCCGCAG
1492536 TAAAACGAACGTAATATGTCTTAATGTATATATAGCGTTGATATAATTAGCATT-
130 TAAAACGAACGTAATATGTCTTAATGTATATATAGCGTTGATATAATTAGCATTA
1492590 ATTTA
1 ATTTA
1492595 TTAAGTAAAT
Statistics
Matches: 188, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
183 5 0.03
185 183 0.97
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.34
Consensus pattern (184 bp):
ATTTAAATTTTTTGGAAGTTGCAAACGAATGCGCTGTGGTTAAGACTCTAGAGTTGCTGATAAAT
GTCTAATGAATGCTGTAACCGTTATAAAAAATAAAGAAGACACCATGTTGTTTCGTTTCCGCAGT
AAAACGAACGTAATATGTCTTAATGTATATATAGCGTTGATATAATTAGCATTA
Found at i:1502890 original size:16 final size:16
Alignment explanation
Indices: 1502854--1502906 Score: 61
Period size: 16 Copynumber: 3.3 Consensus size: 16
1502844 CTTTCCTCTG
* *
1502854 TGTCCGTCAGTCCGTC
1 TGTCCGTCCGTCTGTC
* * *
1502870 CGTCCGTCTGTTTGTC
1 TGTCCGTCCGTCTGTC
1502886 TGTCCGTCCGTCTGTC
1 TGTCCGTCCGTCTGTC
1502902 TGTCC
1 TGTCC
1502907 CACTACAGTT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.02, C:0.36, G:0.25, T:0.38
Consensus pattern (16 bp):
TGTCCGTCCGTCTGTC
Found at i:1502892 original size:20 final size:20
Alignment explanation
Indices: 1502867--1502905 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
1502857 CCGTCAGTCC
*
1502867 GTCCGTCCGTCTGTTTGTCT
1 GTCCGTCCGTCTGTCTGTCT
1502887 GTCCGTCCGTCTGTCTGTC
1 GTCCGTCCGTCTGTCTGTC
1502906 CCACTACAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.00, C:0.33, G:0.26, T:0.41
Consensus pattern (20 bp):
GTCCGTCCGTCTGTCTGTCT
Found at i:1503669 original size:20 final size:20
Alignment explanation
Indices: 1503619--1503657 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
1503609 TACATCTGTG
*
1503619 AAACTATATTTCACGAATGT
1 AAACTATAGTTCACGAATGT
1503639 AAACTATAGTTCACGAATG
1 AAACTATAGTTCACGAATG
1503658 ATAATCATAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.41, C:0.15, G:0.13, T:0.31
Consensus pattern (20 bp):
AAACTATAGTTCACGAATGT
Found at i:1503961 original size:39 final size:40
Alignment explanation
Indices: 1503893--1503968 Score: 109
Period size: 39 Copynumber: 1.9 Consensus size: 40
1503883 GGATTGAAAA
* **
1503893 CTATAGTTAACGACGTTAATCTTTATTTCACATCTGTAAG
1 CTATAGTTAACGACGATAATCAATATTTCACATCTGTAAG
*
1503933 CTATAGTTAACG-CGATAATCAATATTTCACGTCTGT
1 CTATAGTTAACGACGATAATCAATATTTCACATCTGT
1503969 TAAAATACAT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
39 20 0.62
40 12 0.38
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.38
Consensus pattern (40 bp):
CTATAGTTAACGACGATAATCAATATTTCACATCTGTAAG
Found at i:1504727 original size:20 final size:20
Alignment explanation
Indices: 1504665--1504728 Score: 67
Period size: 20 Copynumber: 3.2 Consensus size: 20
1504655 CAGTGTTAAC
*
1504665 TATAGTTTACAGATGTGAAA
1 TATAGTTTATAGATGTGAAA
* * * * *
1504685 CATAGATTATCG-CGTGAAC
1 TATAGTTTATAGATGTGAAA
1504704 TATAGTTTATAGATGTGAAA
1 TATAGTTTATAGATGTGAAA
1504724 TATAG
1 TATAG
1504729 ATTAACGTCG
Statistics
Matches: 32, Mismatches: 11, Indels: 2
0.71 0.24 0.04
Matches are distributed among these distances:
19 14 0.44
20 18 0.56
ACGTcount: A:0.38, C:0.08, G:0.20, T:0.34
Consensus pattern (20 bp):
TATAGTTTATAGATGTGAAA
Found at i:1514741 original size:1 final size:1
Alignment explanation
Indices: 1514735--1514766 Score: 55
Period size: 1 Copynumber: 32.0 Consensus size: 1
1514725 CATCGGGGTT
*
1514735 GGGGGGGGGGGGGGGGGGGGGGGGGCGGGGGG
1 GGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG
1514767 CTGCATCCCC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
1 29 1.00
ACGTcount: A:0.00, C:0.03, G:0.97, T:0.00
Consensus pattern (1 bp):
G
Found at i:1538597 original size:17 final size:17
Alignment explanation
Indices: 1538575--1538608 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
1538565 GGAAATAATT
1538575 TATTTCAATAGTGGTTG
1 TATTTCAATAGTGGTTG
*
1538592 TATTTCAGTAGTGGTTG
1 TATTTCAATAGTGGTTG
1538609 CGACAGGTCG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.21, C:0.06, G:0.26, T:0.47
Consensus pattern (17 bp):
TATTTCAATAGTGGTTG
Found at i:1541826 original size:21 final size:21
Alignment explanation
Indices: 1541778--1541846 Score: 68
Period size: 21 Copynumber: 3.3 Consensus size: 21
1541768 TGCAATTTTC
* * *
1541778 TTGCTTGTCAACATAATTATG
1 TTGCATGTCAACATAAATATA
*
1541799 TTTCATGT-AGACATAAATATA
1 TTGCATGTCA-ACATAAATATA
* *
1541820 TTGCATGTCAACATAAGTATT
1 TTGCATGTCAACATAAATATA
1541841 TTGCAT
1 TTGCAT
1541847 ATCGAAACAT
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
20 1 0.03
21 37 0.95
22 1 0.03
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.41
Consensus pattern (21 bp):
TTGCATGTCAACATAAATATA
Found at i:1544679 original size:14 final size:15
Alignment explanation
Indices: 1544659--1544692 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
1544649 GATTAAATTA
1544659 TTTTTTTTATTACAG
1 TTTTTTTTATTACAG
1544674 TTTTTTTTATTACAG
1 TTTTTTTTATTACAG
1544689 TTTT
1 TTTT
1544693 AATAGATGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.18, C:0.06, G:0.06, T:0.71
Consensus pattern (15 bp):
TTTTTTTTATTACAG
Found at i:1547590 original size:4 final size:4
Alignment explanation
Indices: 1547583--1547766 Score: 313
Period size: 4 Copynumber: 47.0 Consensus size: 4
1547573 AGCATTTCTT
1547583 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
*
1547631 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TACA T-G- TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
* *
1547677 TAGA TACA T-G- TAGA TAGA TAGA TAGA TAGA AAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1547723 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1547767 GAGAGAGAGA
Statistics
Matches: 170, Mismatches: 6, Indels: 8
0.92 0.03 0.04
Matches are distributed among these distances:
2 2 0.01
3 2 0.01
4 166 0.98
ACGTcount: A:0.49, C:0.01, G:0.24, T:0.25
Consensus pattern (4 bp):
TAGA
Found at i:1556110 original size:164 final size:162
Alignment explanation
Indices: 1555881--1556370 Score: 554
Period size: 165 Copynumber: 3.0 Consensus size: 162
1555871 AAAGGGGTCA
* * * *
1555881 TAGTTTTTAACTAATATATATTGGAGTAGAGAGGAAGATTTTTCAAAGATTTCATACATTTTTAC
1 TAGTTTTTAACAAATATATATGGGAGT--AGA-GAAGA-TTTTCTAAGATTTAATACATTTTTAC
* *
1555946 TATATGACCATATTGGCCACACCCAAGAGCCTGAACTCCTGACCCAGGGGCATGAATTTCACAAT
62 TATATGACCATATTGGCC-CACCCTAGAGCCTGAACCCCT-ACCCAGGGGCATGAATTTCACAAT
** * * * *
1556011 TTTATTAGAGGGCCTCATGGACATCATAATCATGCATT
125 TTTGGTAGAGGGCTTCATAGACATCATAACCAGGCATT
* *
1556049 TAGTTTTTAACAAATATATATGGGAGTATA-ATAGATTTTCTAAGATTTAATACATTTTTACTAA
1 TAGTTTTTAACAAATATATATGGGAGTAGAGA-AGATTTTCTAAGATTTAATACATTTTTACTAT
* *
1556113 ATGGCCATATTGGCTCCACCCTAGAGCCTGAACCCCTATCCCAGGGATCATGAATTTCACAATTT
65 ATGACCATATTGGC-CCACCCTAGAGCCTGAACCCCTA-CCCAGGG-GCATGAATTTCACAATTT
* * * *
1556178 TGGTAGAGGGCTTAATTGACATTATAACCAGGGATT
127 TGGTAGAGGGCTTCATAGACATCATAACCAGGCATT
* ** *
1556214 TAGTTTTTAACAAATATTTATGGGAGTAGAGAAGAAGATACTAAGATTTAATACA-TTTTACTAT
1 TAGTTTTTAACAAATATATATGGGAGTAGAGAAG-ATTTTCTAAGATTTAATACATTTTTACTAT
* * * * *
1556278 AT-AGCAATATTGGCCCCACCCTATAGCCAGAACCCCTCCCCCAGGGGTCATGAATTTCACAACT
65 ATGA-CCATATTGG-CCCACCCTAGAGCCTGAACCCCT-ACCCAGGGG-CATGAATTTCACAATT
*
1556342 TTGGTAGAGGGCTTCATAAACATCATAAC
126 TTGGTAGAGGGCTTCATAGACATCATAAC
1556371 TACATATGTA
Statistics
Matches: 276, Mismatches: 36, Indels: 23
0.82 0.11 0.07
Matches are distributed among these distances:
163 1 0.00
164 66 0.24
165 163 0.59
166 21 0.08
168 25 0.09
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.32
Consensus pattern (162 bp):
TAGTTTTTAACAAATATATATGGGAGTAGAGAAGATTTTCTAAGATTTAATACATTTTTACTATA
TGACCATATTGGCCCACCCTAGAGCCTGAACCCCTACCCAGGGGCATGAATTTCACAATTTTGGT
AGAGGGCTTCATAGACATCATAACCAGGCATT
Found at i:1556928 original size:12 final size:12
Alignment explanation
Indices: 1556911--1556935 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1556901 GTATATCCGT
1556911 AAAAGTAATTTA
1 AAAAGTAATTTA
1556923 AAAAGTAATTTA
1 AAAAGTAATTTA
1556935 A
1 A
1556936 TTGTACTTTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.00, G:0.08, T:0.32
Consensus pattern (12 bp):
AAAAGTAATTTA
Found at i:1562684 original size:162 final size:162
Alignment explanation
Indices: 1562414--1562717 Score: 428
Period size: 162 Copynumber: 1.9 Consensus size: 162
1562404 CATGAGAACT
* * *
1562414 TGTCTGTTTAGAAGAACCTCACTTCTAATGATTTGAATCATTTTTCGTTGGTCTTCTCGCTCTGT
1 TGTCTGTTAAGAAGAAACTCACTTCTAATGATTTGAATCATTTTTCGCTGGTCTTCTCGCTCTGT
* * * *
1562479 TTCATCTCTTATATATAGTAAGGTATGTTTCCTGTGTTCCTTACCGACACAAGAGGAATGTAGCT
66 TTCATCTCTAATATATAGTAAGGTATGTTTCCTGTGCTCCTTACAGACACAAGAGGAAGGTAGCT
*
1562544 TACTTAGATCATTATGCTTCTTCATAATAACA
131 CACTTAGATCATTATGCTTCTTCATAATAACA
* * * * * *
1562576 TGTCTGTTAAGAAGAAACTCACTTTTATTGGTTTGAGTCATTTTTGGCTGGTCTTCTTGCTCTGT
1 TGTCTGTTAAGAAGAAACTCACTTCTAATGATTTGAATCATTTTTCGCTGGTCTTCTCGCTCTGT
* * * * * *
1562641 TTCATCTCTAATGTATAGTAATGTATGTTTTCTGTGCTCCTTACAGAGACAAGAGGCAGGTTGCT
66 TTCATCTCTAATATATAGTAAGGTATGTTTCCTGTGCTCCTTACAGACACAAGAGGAAGGTAGCT
1562706 CACTTAGATCAT
131 CACTTAGATCAT
1562718 GGTGCTTTTA
Statistics
Matches: 122, Mismatches: 20, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
162 122 1.00
ACGTcount: A:0.23, C:0.18, G:0.18, T:0.41
Consensus pattern (162 bp):
TGTCTGTTAAGAAGAAACTCACTTCTAATGATTTGAATCATTTTTCGCTGGTCTTCTCGCTCTGT
TTCATCTCTAATATATAGTAAGGTATGTTTCCTGTGCTCCTTACAGACACAAGAGGAAGGTAGCT
CACTTAGATCATTATGCTTCTTCATAATAACA
Found at i:1570815 original size:16 final size:16
Alignment explanation
Indices: 1570790--1570825 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
1570780 TCATAGTGAC
1570790 CAATAGGTAATACTAG
1 CAATAGGTAATACTAG
*
1570806 CAATATGTAATACTAG
1 CAATAGGTAATACTAG
1570822 CAAT
1 CAAT
1570826 TCAAGGTCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.44, C:0.14, G:0.14, T:0.28
Consensus pattern (16 bp):
CAATAGGTAATACTAG
Found at i:1577979 original size:21 final size:21
Alignment explanation
Indices: 1577953--1578010 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 21
1577943 TTTCAGATTC
**
1577953 GCACGAGCTCTCTTATACATT
1 GCACGAGCTCTCGCATACATT
*
1577974 GCACGAGCTCTCGCATACGTT
1 GCACGAGCTCTCGCATACATT
* *
1577995 GCACGAGGTCTTGCAT
1 GCACGAGCTCTCGCAT
1578011 TCGCTGCATG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.21, C:0.29, G:0.22, T:0.28
Consensus pattern (21 bp):
GCACGAGCTCTCGCATACATT
Found at i:1578018 original size:21 final size:21
Alignment explanation
Indices: 1577953--1578018 Score: 60
Period size: 21 Copynumber: 3.1 Consensus size: 21
1577943 TTTCAGATTC
** **
1577953 GCACGAGCTCTCTTATACATT
1 GCACGAGCTCTCGCATACGCT
*
1577974 GCACGAGCTCTCGCATACGTT
1 GCACGAGCTCTCGCATACGCT
* * *
1577995 GCACGAGGTCTTGCATTCGCT
1 GCACGAGCTCTCGCATACGCT
1578016 GCA
1 GCA
1578019 TGCGTTTTAG
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.20, C:0.30, G:0.23, T:0.27
Consensus pattern (21 bp):
GCACGAGCTCTCGCATACGCT
Found at i:1591214 original size:16 final size:16
Alignment explanation
Indices: 1591193--1591227 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
1591183 AACCGGGACG
1591193 TACTAAAGACCTGAAA
1 TACTAAAGACCTGAAA
*
1591209 TACTAATGACCTGAAA
1 TACTAAAGACCTGAAA
1591225 TAC
1 TAC
1591228 CGGAAATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.46, C:0.20, G:0.11, T:0.23
Consensus pattern (16 bp):
TACTAAAGACCTGAAA
Found at i:1591396 original size:18 final size:18
Alignment explanation
Indices: 1591373--1591417 Score: 74
Period size: 18 Copynumber: 2.5 Consensus size: 18
1591363 AAATACGAAA
1591373 GACCTGAAAATTT-AAATT
1 GACCTGAAAATTTCAAA-T
1591391 GACCTGAAAATTTCAAAT
1 GACCTGAAAATTTCAAAT
1591409 GACCTGAAA
1 GACCTGAAA
1591418 TTATATAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
18 23 0.88
19 3 0.12
ACGTcount: A:0.44, C:0.16, G:0.13, T:0.27
Consensus pattern (18 bp):
GACCTGAAAATTTCAAAT
Found at i:1591936 original size:12 final size:12
Alignment explanation
Indices: 1591919--1591944 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
1591909 CAAAATTATT
1591919 TTATTCTGTTAC
1 TTATTCTGTTAC
1591931 TTATTCTGTTAC
1 TTATTCTGTTAC
1591943 TT
1 TT
1591945 TCTATTATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.15, C:0.15, G:0.08, T:0.62
Consensus pattern (12 bp):
TTATTCTGTTAC
Found at i:1597972 original size:25 final size:25
Alignment explanation
Indices: 1597935--1597982 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
1597925 TAGTGTACTA
*
1597935 TATTGTATCATATGACATGAAACAG
1 TATTGTATCATATCACATGAAACAG
*
1597960 TATTGTAAT-ATATCATATGAAAC
1 TATTGT-ATCATATCACATGAAAC
1597983 GATGTTGTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 18 0.90
26 2 0.10
ACGTcount: A:0.42, C:0.10, G:0.12, T:0.35
Consensus pattern (25 bp):
TATTGTATCATATCACATGAAACAG
Found at i:1611506 original size:12 final size:11
Alignment explanation
Indices: 1611473--1611523 Score: 50
Period size: 12 Copynumber: 4.5 Consensus size: 11
1611463 TCCTGTGAGA
1611473 TTTATCTTATT
1 TTTATCTTATT
1611484 TTTA-CTATATT
1 TTTATCT-TATT
1611495 TTTATCATTATT
1 TTTATC-TTATT
* *
1611507 ATTATTATTATT
1 TTTA-TCTTATT
1611519 TTTAT
1 TTTAT
1611524 TATCAAAATT
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
10 2 0.06
11 13 0.39
12 16 0.48
13 2 0.06
ACGTcount: A:0.25, C:0.06, G:0.00, T:0.69
Consensus pattern (11 bp):
TTTATCTTATT
Found at i:1611509 original size:3 final size:3
Alignment explanation
Indices: 1611491--1611562 Score: 54
Period size: 3 Copynumber: 24.0 Consensus size: 3
1611481 ATTTTTACTA
* * * * * *
1611491 TAT TTT TAT CAT TAT TAT TAT TAT TAT TTT TAT TAT CAA AAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * *
1611539 TAA TAA TAT TTT TAT TAA TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT
1611563 GACGGGATCT
Statistics
Matches: 52, Mismatches: 17, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (3 bp):
TAT
Done.