Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A12
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 102106374
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3186644 characters in sequence are not A, C, G, or T
File 222 of 311
Found at i:75682290 original size:20 final size:21
Alignment explanation
Indices: 75682215--75682312 Score: 78
Period size: 22 Copynumber: 4.7 Consensus size: 21
75682205 CTAAATAATT
*
75682215 AATAATAAAATA-ATAA-TAA
1 AATAATAAAATATCTAATTAA
* *
75682234 AATAATAATAAAATAATAA-TAA
1 AATAATAA-AATAT-CTAATTAA
*
75682256 AATAATAAAATATCTCATTAA
1 AATAATAAAATATCTAATTAA
*
75682277 AATAAT-ATATATCTAATTAAA
1 AATAATAAAATATCTAATT-AA
*
75682298 TAATCATAAAATATC
1 -AATAATAAAATATC
75682313 ATCAACATCA
Statistics
Matches: 64, Mismatches: 8, Indels: 10
0.78 0.10 0.12
Matches are distributed among these distances:
19 8 0.12
20 15 0.23
21 15 0.23
22 20 0.31
23 6 0.09
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (21 bp):
AATAATAAAATATCTAATTAA
Found at i:75683519 original size:6 final size:6
Alignment explanation
Indices: 75683510--75683544 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
75683500 ACATACACAG
*
75683510 TCAGAT TCAGAT TCAGAT TCAGAC TCAGAT TCAGA
1 TCAGAT TCAGAT TCAGAT TCAGAT TCAGAT TCAGA
75683545 CTTAAGTCCT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (6 bp):
TCAGAT
Found at i:75686965 original size:28 final size:28
Alignment explanation
Indices: 75686912--75686994 Score: 123
Period size: 28 Copynumber: 3.0 Consensus size: 28
75686902 CACTTTGTGC
75686912 TATTCTGGTGTGTTTTGGATGGATTATAT
1 TATTCTGGTGTGTTTTGGA-GGATTATAT
*
75686941 TATTCTGGTGTGTTTGGGAGGATTATAT
1 TATTCTGGTGTGTTTTGGAGGATTATAT
* *
75686969 GATACTGGTGTGTTTTGGA-GATTATA
1 TATTCTGGTGTGTTTTGGAGGATTATA
75686995 CTGGTGTTTT
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
27 7 0.14
28 25 0.50
29 18 0.36
ACGTcount: A:0.19, C:0.04, G:0.30, T:0.47
Consensus pattern (28 bp):
TATTCTGGTGTGTTTTGGAGGATTATAT
Found at i:75686998 original size:22 final size:22
Alignment explanation
Indices: 75686970--75687028 Score: 104
Period size: 20 Copynumber: 2.8 Consensus size: 22
75686960 GGATTATATG
75686970 ATACTGGTGTGTTTTGGAGATT
1 ATACTGGTGTGTTTTGGAGATT
75686992 ATACT-G-GTGTTTTGGAGATT
1 ATACTGGTGTGTTTTGGAGATT
75687012 ATACTGGTGTGTTTTGG
1 ATACTGGTGTGTTTTGG
75687029 TTGGACATTT
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
20 19 0.54
21 2 0.06
22 14 0.40
ACGTcount: A:0.17, C:0.05, G:0.32, T:0.46
Consensus pattern (22 bp):
ATACTGGTGTGTTTTGGAGATT
Found at i:75687249 original size:23 final size:23
Alignment explanation
Indices: 75687219--75687305 Score: 94
Period size: 21 Copynumber: 4.0 Consensus size: 23
75687209 GCTTTACTGA
*
75687219 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCACCTTATGTGTCGTATT
* *
75687242 TCAGGCACCTTGTGTGTCGCA--
1 TCAGGCACCTTATGTGTCGTATT
* *
75687263 GCAGGCACCTCATGTGTCG--TT
1 TCAGGCACCTTATGTGTCGTATT
75687284 TCAGGCA-CTTATGTGTCGTATT
1 TCAGGCACCTTATGTGTCGTATT
75687306 CTGATCAGGT
Statistics
Matches: 52, Mismatches: 8, Indels: 9
0.75 0.12 0.13
Matches are distributed among these distances:
20 10 0.19
21 22 0.42
22 2 0.04
23 18 0.35
ACGTcount: A:0.16, C:0.23, G:0.25, T:0.36
Consensus pattern (23 bp):
TCAGGCACCTTATGTGTCGTATT
Found at i:75694970 original size:93 final size:93
Alignment explanation
Indices: 75694855--75695025 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
75694845 GCCCCTAAGT
75694855 GAACTCGGACTCAACTCAACGAGCTC-GAGCATTCGCATCCATAAATGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTCGGA-CATTCGCATCCATAAATGAACTCGGACTCAACTCA
75694919 ACGAGTTCGGATGCCTAGTTACATCTCAC
65 ACGAGTTCGGATGCCTAGTTACATCTCAC
* * *
75694948 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
75695013 CGAGTTCGGATGC
66 CGAGTTCGGATGC
75695026 TCAACCATCC
Statistics
Matches: 74, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
93 72 0.97
94 2 0.03
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:75695021 original size:46 final size:47
Alignment explanation
Indices: 75694850--75695022 Score: 221
Period size: 46 Copynumber: 3.7 Consensus size: 47
75694840 AACCCGCCCC
* *
75694850 TAAGTGAACTCGGACTCAACTCAACGAGCTC-GAGCATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGAGCATTTGCATCCA
* * *
75694896 TAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA-G-C-ATTTGCATCCA
* *
75694944 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGA-CATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGAGCATTTGCATCCA
75694989 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
75695023 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 11, Indels: 14
0.81 0.08 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 58 0.53
47 31 0.28
48 3 0.03
49 2 0.02
50 5 0.05
ACGTcount: A:0.31, C:0.28, G:0.20, T:0.22
Consensus pattern (47 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGAGCATTTGCATCCA
Found at i:75695479 original size:30 final size:30
Alignment explanation
Indices: 75695445--75695501 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
75695435 ATTTAATACG
75695445 AACTTTAAAAAAATTACACTTTTGCCCTTA
1 AACTTTAAAAAAATTACACTTTTGCCCTTA
*** *
75695475 AACTTTTGCATAATTACACTTTTGCCC
1 AACTTTAAAAAAATTACACTTTTGCCC
75695502 CTAGGCTCGG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.33, C:0.23, G:0.05, T:0.39
Consensus pattern (30 bp):
AACTTTAAAAAAATTACACTTTTGCCCTTA
Found at i:75699160 original size:24 final size:24
Alignment explanation
Indices: 75699133--75699178 Score: 76
Period size: 24 Copynumber: 1.9 Consensus size: 24
75699123 GTAAGGAGGG
75699133 GATAA-GGGAGAAGATTTAGGAGTT
1 GATAAGGGGAG-AGATTTAGGAGTT
75699157 GATAAGGGGAGAGATTTAGGAG
1 GATAAGGGGAGAGATTTAGGAG
75699179 CTAATCAAGG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
24 16 0.76
25 5 0.24
ACGTcount: A:0.37, C:0.00, G:0.41, T:0.22
Consensus pattern (24 bp):
GATAAGGGGAGAGATTTAGGAGTT
Found at i:75699188 original size:25 final size:25
Alignment explanation
Indices: 75699134--75699188 Score: 69
Period size: 24 Copynumber: 2.2 Consensus size: 25
75699124 TAAGGAGGGG
* *
75699134 ATAA-GGGAGAAGATTTAGGAGTTG
1 ATAAGGGGAGAAGATTTAGGAGCTA
75699158 ATAAGGGGAG-AGATTTAGGAGCTA
1 ATAAGGGGAGAAGATTTAGGAGCTA
75699182 ATCAAGG
1 AT-AAGG
75699189 AGCAAGAGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
24 18 0.67
25 9 0.33
ACGTcount: A:0.38, C:0.04, G:0.36, T:0.22
Consensus pattern (25 bp):
ATAAGGGGAGAAGATTTAGGAGCTA
Found at i:75700633 original size:27 final size:27
Alignment explanation
Indices: 75700595--75700701 Score: 144
Period size: 27 Copynumber: 4.0 Consensus size: 27
75700585 AGCGTCCTGA
* *
75700595 TGGCTATGCCACATTTATCTGATCTGG
1 TGGCTCTGCCACATTTATCTGTTCTGG
*
75700622 TGGCTCTGCCACATATATCTGTTCTGG
1 TGGCTCTGCCACATTTATCTGTTCTGG
* *
75700649 CGGCTCTGCCACAATTATCTGTTCTGG
1 TGGCTCTGCCACATTTATCTGTTCTGG
* *
75700676 TGACTCTGTCACA-TTATCTGTTCTGG
1 TGGCTCTGCCACATTTATCTGTTCTGG
75700702 GAGCCATGCT
Statistics
Matches: 71, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
26 13 0.18
27 58 0.82
ACGTcount: A:0.16, C:0.25, G:0.21, T:0.37
Consensus pattern (27 bp):
TGGCTCTGCCACATTTATCTGTTCTGG
Found at i:75706634 original size:25 final size:25
Alignment explanation
Indices: 75706606--75706659 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 25
75706596 TATATTTACT
*
75706606 TATAAATATATTTATATGTATATAG
1 TATAAATATATTTATATGTATATAA
** *
75706631 TATAGGTATATTTGTATGTATATAA
1 TATAAATATATTTATATGTATATAA
75706656 TATA
1 TATA
75706660 TATGAATATT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.41, C:0.00, G:0.11, T:0.48
Consensus pattern (25 bp):
TATAAATATATTTATATGTATATAA
Found at i:75706661 original size:27 final size:25
Alignment explanation
Indices: 75706612--75706659 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
75706602 TACTTATAAA
*
75706612 TATATTTATATGTATATAGTATAGG
1 TATATTTATATGTATATAATATAGG
*
75706637 TATATTTGTATGTATATAATATA
1 TATATTTATATGTATATAATATA
75706660 TATGAATATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.50
Consensus pattern (25 bp):
TATATTTATATGTATATAATATAGG
Found at i:75709264 original size:31 final size:33
Alignment explanation
Indices: 75709202--75709265 Score: 80
Period size: 31 Copynumber: 2.0 Consensus size: 33
75709192 ACTCTCCTTA
* *
75709202 ATTCGTTTACACCTATGTTCACATGGCAAGACT
1 ATTCGGTTACACCTATGTTCACATAGCAAGACT
75709235 ATTCGGTT-CACCT-TGTTCACACTAG-AAGACT
1 ATTCGGTTACACCTATGTTCACA-TAGCAAGACT
75709266 CTCAACATTC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
31 14 0.50
32 7 0.25
33 7 0.25
ACGTcount: A:0.27, C:0.25, G:0.16, T:0.33
Consensus pattern (33 bp):
ATTCGGTTACACCTATGTTCACATAGCAAGACT
Found at i:75710323 original size:11 final size:11
Alignment explanation
Indices: 75710307--75710346 Score: 62
Period size: 11 Copynumber: 3.5 Consensus size: 11
75710297 TATACAAGTT
75710307 AAAAAAAATTC
1 AAAAAAAATTC
75710318 AAAAAAAAATTC
1 -AAAAAAAATTC
*
75710330 AAAAAAAAATC
1 AAAAAAAATTC
75710341 AAAAAA
1 AAAAAA
75710347 TAAGTGATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
11 16 0.59
12 11 0.41
ACGTcount: A:0.80, C:0.07, G:0.00, T:0.12
Consensus pattern (11 bp):
AAAAAAAATTC
Found at i:75710324 original size:12 final size:12
Alignment explanation
Indices: 75710307--75710346 Score: 73
Period size: 12 Copynumber: 3.4 Consensus size: 12
75710297 TATACAAGTT
75710307 AAAAAAAATTCA
1 AAAAAAAATTCA
75710319 AAAAAAAATTCA
1 AAAAAAAATTCA
75710331 AAAAAAAA-TCA
1 AAAAAAAATTCA
75710342 AAAAA
1 AAAAA
75710347 TAAGTGATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
11 8 0.29
12 20 0.71
ACGTcount: A:0.80, C:0.07, G:0.00, T:0.12
Consensus pattern (12 bp):
AAAAAAAATTCA
Found at i:75715572 original size:19 final size:19
Alignment explanation
Indices: 75715548--75715587 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
75715538 AGCTCCCATG
75715548 TAGCTCCACACCAGCTCAT
1 TAGCTCCACACCAGCTCAT
* * *
75715567 TAGCTCGAGACTAGCTCAT
1 TAGCTCCACACCAGCTCAT
75715586 TA
1 TA
75715588 TCAGCTCATG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.25
Consensus pattern (19 bp):
TAGCTCCACACCAGCTCAT
Found at i:75722280 original size:24 final size:25
Alignment explanation
Indices: 75722245--75722295 Score: 77
Period size: 24 Copynumber: 2.1 Consensus size: 25
75722235 ATACATGTTC
75722245 ATAATATATAAAACATACACATAAT
1 ATAATATATAAAACATACACATAAT
**
75722270 ATAATAT-TAAAACATTTACATAAT
1 ATAATATATAAAACATACACATAAT
75722294 AT
1 AT
75722296 GTACACACAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 17 0.71
25 7 0.29
ACGTcount: A:0.57, C:0.10, G:0.00, T:0.33
Consensus pattern (25 bp):
ATAATATATAAAACATACACATAAT
Found at i:75722392 original size:21 final size:21
Alignment explanation
Indices: 75722368--75722407 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
75722358 AAGATATACT
*
75722368 TATATAAATATATATTAAAGA
1 TATATAAATATATAATAAAGA
*
75722389 TATATACATATATAATAAA
1 TATATAAATATATAATAAA
75722408 ATACATGAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.38
Consensus pattern (21 bp):
TATATAAATATATAATAAAGA
Found at i:75722474 original size:30 final size:27
Alignment explanation
Indices: 75722429--75722487 Score: 73
Period size: 30 Copynumber: 2.1 Consensus size: 27
75722419 ATATGATATT
* *
75722429 TAATATATACGTAATATGTATAGTTAAAA
1 TAATATATACATAATATATATA--TAAAA
75722458 TAATAATATACATAATATATATATAAAA
1 TAAT-ATATACATAATATATATATAAAA
75722486 TA
1 TA
75722488 CACATACTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
28 7 0.26
29 4 0.15
30 16 0.59
ACGTcount: A:0.54, C:0.03, G:0.05, T:0.37
Consensus pattern (27 bp):
TAATATATACATAATATATATATAAAA
Found at i:75722487 original size:22 final size:23
Alignment explanation
Indices: 75722457--75722500 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
75722447 TATAGTTAAA
*
75722457 ATAATAATATACATAATATATAT
1 ATAATAATACACATAATATATAT
*
75722480 ATAA-AATACACATACTATATA
1 ATAATAATACACATAATATATA
75722501 CGTATATAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.57, C:0.09, G:0.00, T:0.34
Consensus pattern (23 bp):
ATAATAATACACATAATATATAT
Found at i:75724871 original size:54 final size:54
Alignment explanation
Indices: 75724791--75725024 Score: 414
Period size: 54 Copynumber: 4.3 Consensus size: 54
75724781 GAAAAGTAGA
*
75724791 TTTTGAAAAACAGAAATTAAAGGGCTCAACTCACCTCTCGCAATATGAGTTGAT
1 TTTTGAAAAACAGAAATTAAAAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
75724845 TTTTGAAAAACAGAAATTAAAAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
1 TTTTGAAAAACAGAAATTAAAAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
*
75724899 TTTTGAAAAATAGAAATTAAAAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
1 TTTTGAAAAACAGAAATTAAAAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
* *
75724953 TTTTGAAAAACAGAAATTAAAATGCTCAACTCACCTCTCGCAATATGAGTCGAT
1 TTTTGAAAAACAGAAATTAAAAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
**
75725007 TTTTGGCAAACAGAAATT
1 TTTTGAAAAACAGAAATT
75725025 GAAATTACCT
Statistics
Matches: 173, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 173 1.00
ACGTcount: A:0.38, C:0.18, G:0.15, T:0.29
Consensus pattern (54 bp):
TTTTGAAAAACAGAAATTAAAAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
Found at i:75725103 original size:14 final size:14
Alignment explanation
Indices: 75725084--75725118 Score: 70
Period size: 14 Copynumber: 2.5 Consensus size: 14
75725074 GTTGACTTTT
75725084 TTGAAAAACAGAAA
1 TTGAAAAACAGAAA
75725098 TTGAAAAACAGAAA
1 TTGAAAAACAGAAA
75725112 TTGAAAA
1 TTGAAAA
75725119 TACCTCAGCG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.63, C:0.06, G:0.14, T:0.17
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:75725165 original size:89 final size:89
Alignment explanation
Indices: 75725014--75725279 Score: 448
Period size: 89 Copynumber: 3.0 Consensus size: 89
75725004 GATTTTTGGC
* *
75725014 AAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
1 AAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
75725079 CTTTTTTGAAAAACAGAAATTGAA
66 CTTTTTTGAAAAACAGAAATTGAA
*
75725103 AAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTTTCGCAATATGAGTTGA
1 AAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
* *
75725168 CTTTTTTGAAGAGCAGAAATTGAA
66 CTTTTTTGAAAAACAGAAATTGAA
* *
75725192 AAACAGAAATTGAAAATACCTCAGCGTGCCTTGAGGCTCAACTCACCTCTCACAATATGAGTTGA
1 AAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
75725257 --TTTTTGAAAAACAGAAATT-AA
66 CTTTTTTGAAAAACAGAAATTGAA
75725278 AA
1 AA
75725280 GGCTCAACTC
Statistics
Matches: 167, Mismatches: 10, Indels: 3
0.93 0.06 0.02
Matches are distributed among these distances:
86 4 0.02
87 17 0.10
89 146 0.87
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.26
Consensus pattern (89 bp):
AAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
CTTTTTTGAAAAACAGAAATTGAA
Found at i:75725198 original size:14 final size:14
Alignment explanation
Indices: 75725181--75725207 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
75725171 TTTTGAAGAG
75725181 CAGAAATTGAAAAA
1 CAGAAATTGAAAAA
75725195 CAGAAATTGAAAA
1 CAGAAATTGAAAA
75725208 TACCTCAGCG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.63, C:0.07, G:0.15, T:0.15
Consensus pattern (14 bp):
CAGAAATTGAAAAA
Found at i:75725288 original size:54 final size:54
Alignment explanation
Indices: 75725225--75725370 Score: 247
Period size: 54 Copynumber: 2.7 Consensus size: 54
75725215 GCGTGCCTTG
75725225 AGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTGAAAAACAGAAATTAAA
1 AGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTGAAAAACAGAAATTAAA
* *
75725279 AGGCTCAACTCACCTCTCACAATGTGAATTGATTTTTGAAAAACAGAAATTAAA
1 AGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTGAAAAACAGAAATTAAA
* * *
75725333 ATGCTCAACTCACCTCTCGCAATATGAGTCGATTTTTG
1 AGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTG
75725371 GCAAATAGAA
Statistics
Matches: 85, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 85 1.00
ACGTcount: A:0.36, C:0.21, G:0.14, T:0.29
Consensus pattern (54 bp):
AGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTGAAAAACAGAAATTAAA
Found at i:75725381 original size:54 final size:54
Alignment explanation
Indices: 75725227--75725388 Score: 243
Period size: 54 Copynumber: 3.0 Consensus size: 54
75725217 GTGCCTTGAG
*
75725227 GCTCAACTCACCTCTCACAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAG
1 GCTCAACTCACCTCTCACAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAT
* *
75725281 GCTCAACTCACCTCTCACAATGTGAATTGATTTTTGAAAAACAGAAATTAAAAT
1 GCTCAACTCACCTCTCACAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAT
* * ** * *
75725335 GCTCAACTCACCTCTCGCAATATGAGTCGATTTTTGGCAAATAGAAATTGAAAT
1 GCTCAACTCACCTCTCACAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAT
75725389 TACCTCAGCG
Statistics
Matches: 97, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 97 1.00
ACGTcount: A:0.38, C:0.19, G:0.14, T:0.29
Consensus pattern (54 bp):
GCTCAACTCACCTCTCACAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAT
Found at i:75725462 original size:14 final size:14
Alignment explanation
Indices: 75725443--75725477 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
75725433 GTTGACTTTT
*
75725443 TTGAAAAGCAGAAA
1 TTGAAAAACAGAAA
75725457 TTGAAAAACAGAAA
1 TTGAAAAACAGAAA
75725471 TTGAAAA
1 TTGAAAA
75725478 TACCTCAGCG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.60, C:0.06, G:0.17, T:0.17
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:75725580 original size:73 final size:73
Alignment explanation
Indices: 75725457--75725617 Score: 277
Period size: 73 Copynumber: 2.2 Consensus size: 73
75725447 AAAGCAGAAA
75725457 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGA
75725522 GTTGATTT
66 GTTGATTT
* * *
75725530 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAGCTCACCTCTCGTAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGA
75725595 GTTGATTT
66 GTTGATTT
**
75725603 TTTCAAAACAGAAAT
1 TTGAAAAACAGAAAT
75725618 AAAAACATCA
Statistics
Matches: 83, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
73 83 1.00
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.27
Consensus pattern (73 bp):
TTGAAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTT
Found at i:75726489 original size:15 final size:17
Alignment explanation
Indices: 75726469--75726510 Score: 63
Period size: 15 Copynumber: 2.6 Consensus size: 17
75726459 TTGATCTCCC
75726469 TTTTTCTTTTT-T-TCT
1 TTTTTCTTTTTCTCTCT
75726484 TTTTTCTTTTTCTCTCT
1 TTTTTCTTTTTCTCTCT
75726501 TTTTT-TTTTT
1 TTTTTCTTTTT
75726511 AAAAAAAATG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
15 11 0.44
16 6 0.24
17 8 0.32
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (17 bp):
TTTTTCTTTTTCTCTCT
Found at i:75734686 original size:34 final size:34
Alignment explanation
Indices: 75734643--75734710 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
75734633 TATTGTGCCT
75734643 CTTAACTTTTTATTTTCCAAATGGAGGTCCTTTA
1 CTTAACTTTTTATTTTCCAAATGGAGGTCCTTTA
*
75734677 CTTAACTTTTTATTTTCCAGATGGAGGTCCTTTA
1 CTTAACTTTTTATTTTCCAAATGGAGGTCCTTTA
75734711 AGTCATTTCT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.22, C:0.18, G:0.13, T:0.47
Consensus pattern (34 bp):
CTTAACTTTTTATTTTCCAAATGGAGGTCCTTTA
Found at i:75738017 original size:24 final size:25
Alignment explanation
Indices: 75737982--75738032 Score: 77
Period size: 24 Copynumber: 2.1 Consensus size: 25
75737972 ATACATGTTC
75737982 ATAATATATAAAACATACACATAAT
1 ATAATATATAAAACATACACATAAT
**
75738007 ATAATAT-TAAAACATTTACATAAT
1 ATAATATATAAAACATACACATAAT
75738031 AT
1 AT
75738033 GTACACACAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 17 0.71
25 7 0.29
ACGTcount: A:0.57, C:0.10, G:0.00, T:0.33
Consensus pattern (25 bp):
ATAATATATAAAACATACACATAAT
Found at i:75738129 original size:21 final size:21
Alignment explanation
Indices: 75738105--75738144 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
75738095 AAGATATACT
*
75738105 TATATAAATATATATTAAAGA
1 TATATAAATATATAATAAAGA
*
75738126 TATATACATATATAATAAA
1 TATATAAATATATAATAAA
75738145 ATACATGAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.38
Consensus pattern (21 bp):
TATATAAATATATAATAAAGA
Found at i:75738221 original size:20 final size:21
Alignment explanation
Indices: 75738193--75738234 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
75738183 GTATAGTAAA
*
75738193 ATAATAATATACATAATATAT
1 ATAATAATACACATAATATAT
*
75738214 ATAA-AATACACATACTATAT
1 ATAATAATACACATAATATAT
75738234 A
1 A
75738235 CGTATATAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.57, C:0.10, G:0.00, T:0.33
Consensus pattern (21 bp):
ATAATAATACACATAATATAT
Found at i:75738507 original size:26 final size:27
Alignment explanation
Indices: 75738446--75738508 Score: 69
Period size: 26 Copynumber: 2.4 Consensus size: 27
75738436 AAAAAAGTCG
*
75738446 ATACGTACAAATATATACATATACATAT
1 ATACGTA-AAACATATACATATACATAT
*
75738474 ATAC-TAAAACATATATATATA-ATA-
1 ATACGTAAAACATATACATATACATAT
75738498 ATAACGTAAAA
1 AT-ACGTAAAA
75738509 AATAACAAGA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
24 2 0.06
25 5 0.16
26 18 0.58
27 2 0.06
28 4 0.13
ACGTcount: A:0.56, C:0.11, G:0.03, T:0.30
Consensus pattern (27 bp):
ATACGTAAAACATATACATATACATAT
Found at i:75740061 original size:24 final size:24
Alignment explanation
Indices: 75740028--75740088 Score: 63
Period size: 24 Copynumber: 2.5 Consensus size: 24
75740018 TGCGGTTTGC
75740028 AATTGAAATTGATTG-ATTTAGTATGT
1 AATTG-AATTGATTGAATTTA-TAT-T
* *
75740054 GA-TGAATTTATTGAATTTATATT
1 AATTGAATTGATTGAATTTATATT
75740077 AATTGAATTGAT
1 AATTGAATTGAT
75740089 ATATATATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
23 2 0.07
24 19 0.66
25 7 0.24
26 1 0.03
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.48
Consensus pattern (24 bp):
AATTGAATTGATTGAATTTATATT
Found at i:75740083 original size:15 final size:16
Alignment explanation
Indices: 75740062--75740110 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 16
75740052 GTGATGAATT
75740062 TATTGAATTTATATTA
1 TATTGAATTTATATTA
75740078 -ATTGAATTGATATATATA
1 TATTGAATT--TATAT-TA
*
75740096 TATTGAATATATATT
1 TATTGAATTTATATT
75740111 GATTATTTGA
Statistics
Matches: 28, Mismatches: 1, Indels: 8
0.76 0.03 0.22
Matches are distributed among these distances:
15 8 0.29
16 1 0.04
17 10 0.36
18 2 0.07
19 7 0.25
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (16 bp):
TATTGAATTTATATTA
Found at i:75740093 original size:19 final size:19
Alignment explanation
Indices: 75740071--75740125 Score: 53
Period size: 19 Copynumber: 2.9 Consensus size: 19
75740061 TTATTGAATT
75740071 TATATTAATTGAATTGATA
1 TATATTAATTGAATTGATA
75740090 TATA-TATATTGAA-T-ATA
1 TATATTA-ATTGAATTGATA
*
75740107 TATTGATTATTTGAATTGA
1 TA-T-ATTAATTGAATTGA
75740126 ATTGAATATT
Statistics
Matches: 29, Mismatches: 1, Indels: 10
0.73 0.03 0.25
Matches are distributed among these distances:
17 5 0.17
18 4 0.14
19 16 0.55
20 3 0.10
21 1 0.03
ACGTcount: A:0.40, C:0.00, G:0.11, T:0.49
Consensus pattern (19 bp):
TATATTAATTGAATTGATA
Found at i:75742920 original size:30 final size:30
Alignment explanation
Indices: 75742886--75742942 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
75742876 CCAAAATTTT
*
75742886 ACAATTTTCTTTGAAAATTTTAATTAACCC
1 ACAATTTTCTTTAAAAATTTTAATTAACCC
* *
75742916 ACAATTTTTTTTAAAAATTTTCATTAA
1 ACAATTTTCTTTAAAAATTTTAATTAA
75742943 ACCTTTCTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.39, C:0.12, G:0.02, T:0.47
Consensus pattern (30 bp):
ACAATTTTCTTTAAAAATTTTAATTAACCC
Found at i:75743169 original size:22 final size:22
Alignment explanation
Indices: 75743124--75743169 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 22
75743114 ATTTTAAAAA
75743124 AATTTAAACTCGTAAATTTCATC
1 AATTTAAACTCG-AAATTTCATC
*
75743147 AATTTAAAGCTCG-AATTTTATC
1 AATTTAAA-CTCGAAATTTCATC
75743169 A
1 A
75743170 TTGCCATATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 9 0.43
23 8 0.38
24 4 0.19
ACGTcount: A:0.39, C:0.15, G:0.07, T:0.39
Consensus pattern (22 bp):
AATTTAAACTCGAAATTTCATC
Found at i:75746442 original size:11 final size:11
Alignment explanation
Indices: 75746428--75746472 Score: 54
Period size: 11 Copynumber: 3.9 Consensus size: 11
75746418 AGATAAATAT
75746428 TATTTTATTAA
1 TATTTTATTAA
*
75746439 TATTTTAATGAGA
1 TATTTT-ATTA-A
*
75746452 TATTTTACTAA
1 TATTTTATTAA
75746463 TATTTTATTA
1 TATTTTATTA
75746473 TAAATAGCTA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
11 16 0.57
12 5 0.18
13 7 0.25
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.58
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:75752457 original size:52 final size:49
Alignment explanation
Indices: 75752395--75752555 Score: 152
Period size: 46 Copynumber: 3.3 Consensus size: 49
75752385 TGTGATTTCC
75752395 GTATAAGACCATAGCTGGGCTATGGCTTCGGAGAAATGTGATATGTGCTACT
1 GTATAAGACCATAGCTGGGCTATGGCTTC-GAG--ATGTGATATGTGCTACT
* * * * * *
75752447 GTATAAGACCATATCTGGGATATGGCATC-AG-TGTGATACGTGAT-CC
1 GTATAAGACCATAGCTGGGCTATGGCTTCGAGATGTGATATGTGCTACT
* *
75752493 GTGTAAGACCATGGCTGGGCTATGGCTTCG-GTATGTGATATGTGACTA-T
1 GTATAAGACCATAGCTGGGCTATGGCTTCGAG-ATGTGATATGTG-CTACT
**
75752542 GTGCAAGACCATAG
1 GTATAAGACCATAG
75752556 TTTTACTATG
Statistics
Matches: 88, Mismatches: 16, Indels: 13
0.75 0.14 0.11
Matches are distributed among these distances:
46 26 0.30
47 11 0.12
48 10 0.11
49 13 0.15
50 2 0.02
52 26 0.30
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (49 bp):
GTATAAGACCATAGCTGGGCTATGGCTTCGAGATGTGATATGTGCTACT
Found at i:75759358 original size:3 final size:3
Alignment explanation
Indices: 75759350--75759381 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
75759340 TAAACTAAAC
75759350 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
75759382 AGGTAATAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:75759740 original size:15 final size:15
Alignment explanation
Indices: 75759722--75759771 Score: 61
Period size: 15 Copynumber: 3.4 Consensus size: 15
75759712 GAATATTTAA
75759722 TTTGATTTTATGAAT
1 TTTGATTTTATGAAT
75759737 TTTGATATATT-T-AA-
1 TTTGAT-T-TTATGAAT
75759751 TTTGATTTTATGAAT
1 TTTGATTTTATGAAT
75759766 TTTGAT
1 TTTGAT
75759772 ATGATAAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 10
0.75 0.00 0.25
Matches are distributed among these distances:
12 2 0.07
13 2 0.07
14 8 0.27
15 14 0.47
16 2 0.07
17 2 0.07
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (15 bp):
TTTGATTTTATGAAT
Found at i:75759749 original size:29 final size:29
Alignment explanation
Indices: 75759714--75759773 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
75759704 GATTTTGTGA
75759714 ATATTTAATTTGATTTTATGAATTTTGAT
1 ATATTTAATTTGATTTTATGAATTTTGAT
75759743 ATATTTAATTTGATTTTATGAATTTTGAT
1 ATATTTAATTTGATTTTATGAATTTTGAT
75759772 AT
1 AT
75759774 GATAAATATG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.10, T:0.58
Consensus pattern (29 bp):
ATATTTAATTTGATTTTATGAATTTTGAT
Found at i:75759766 original size:14 final size:14
Alignment explanation
Indices: 75759720--75759767 Score: 55
Period size: 14 Copynumber: 3.4 Consensus size: 14
75759710 GTGAATATTT
75759720 AATTTGATTTTATG
1 AATTTGATTTTATG
75759734 AATTTTGATATATT-T-
1 AA-TTTGAT-T-TTATG
75759749 AATTTGATTTTATG
1 AATTTGATTTTATG
75759763 AATTT
1 AATTT
75759768 TGATATGATA
Statistics
Matches: 29, Mismatches: 0, Indels: 10
0.74 0.00 0.26
Matches are distributed among these distances:
12 2 0.07
13 2 0.07
14 13 0.45
15 8 0.28
16 2 0.07
17 2 0.07
ACGTcount: A:0.31, C:0.00, G:0.10, T:0.58
Consensus pattern (14 bp):
AATTTGATTTTATG
Found at i:75761644 original size:18 final size:18
Alignment explanation
Indices: 75761621--75761658 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
75761611 AAGGTAAGTG
75761621 AACTGAATTGATCATGCA
1 AACTGAATTGATCATGCA
*
75761639 AACTGAATTGGTCATGCA
1 AACTGAATTGATCATGCA
75761657 AA
1 AA
75761659 TTTAATGGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.39, C:0.16, G:0.18, T:0.26
Consensus pattern (18 bp):
AACTGAATTGATCATGCA
Found at i:75766781 original size:42 final size:42
Alignment explanation
Indices: 75766669--75766824 Score: 179
Period size: 42 Copynumber: 3.7 Consensus size: 42
75766659 TACCATACCA
* * *** *
75766669 ATGCCATATCCTAGATATAGTCTTACA-TGGGATCTCGTATCG
1 ATGCCATATCCCAGATATGGTCTTACACAAAG-TCTCATATCG
* *
75766711 ATGCCAATAGCCCAGCTATGGTCTTACACAAAGTCTCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACACAAAGTCTCATATCG
* * *
75766754 ATGCCATATCCTAGATATGGTCTTACACGAAGTCTCATATTG
1 ATGCCATATCCCAGATATGGTCTTACACAAAGTCTCATATCG
*
75766796 ATGTCATATCCCAGATATGGTCTTACACA
1 ATGCCATATCCCAGATATGGTCTTACACA
75766825 TAGTTTCAGT
Statistics
Matches: 96, Mismatches: 16, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
42 63 0.66
43 32 0.33
44 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.31
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACAAAGTCTCATATCG
Found at i:75768887 original size:19 final size:20
Alignment explanation
Indices: 75768860--75768907 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 20
75768850 GTTGGTAAAT
*
75768860 ACATGTGTA-ATAATAATAA
1 ACATATGTATATAATAATAA
*
75768879 ACATATGTATTTAATAATAA
1 ACATATGTATATAATAATAA
75768899 A-ATATGTAT
1 ACATATGTAT
75768908 TGCTTATTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
19 16 0.62
20 10 0.38
ACGTcount: A:0.50, C:0.04, G:0.08, T:0.38
Consensus pattern (20 bp):
ACATATGTATATAATAATAA
Found at i:75768908 original size:19 final size:20
Alignment explanation
Indices: 75768870--75768908 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
75768860 ACATGTGTAA
75768870 TAATAATAAACATATGTATT
1 TAATAATAAACATATGTATT
75768890 TAATAATAAA-ATATGTATT
1 TAATAATAAACATATGTATT
75768909 GCTTATTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.51, C:0.03, G:0.05, T:0.41
Consensus pattern (20 bp):
TAATAATAAACATATGTATT
Found at i:75769056 original size:16 final size:15
Alignment explanation
Indices: 75769031--75769062 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
75769021 AAACAGGGGG
75769031 AAAAAGAAAGAAAGA
1 AAAAAGAAAGAAAGA
75769046 AAAAGAGAAAGAAAGA
1 AAAA-AGAAAGAAAGA
75769062 A
1 A
75769063 GGAGAAAGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (15 bp):
AAAAAGAAAGAAAGA
Found at i:75769768 original size:15 final size:15
Alignment explanation
Indices: 75769748--75769799 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
75769738 TGTTGAATTT
75769748 ATTGAATTTATATTG
1 ATTGAATTTATATTG
*
75769763 ATTGAATTGGTATATATAT
1 ATTGAATT--TATAT-T-G
*
75769782 ATTGAATATATATTG
1 ATTGAATTTATATTG
75769797 ATT
1 ATT
75769800 ATTTGAATTG
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 11 0.37
16 1 0.03
17 10 0.33
18 1 0.03
19 7 0.23
ACGTcount: A:0.37, C:0.00, G:0.13, T:0.50
Consensus pattern (15 bp):
ATTGAATTTATATTG
Found at i:75769840 original size:29 final size:28
Alignment explanation
Indices: 75769782--75769845 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 28
75769772 GTATATATAT
*
75769782 ATTGAATATATATTGATTATTTGAATTGA
1 ATTGAATATATATTGA-TATTTGAAGTGA
*
75769811 ATTGAATATATGTTG-TATTTGAAAAGTGA
1 ATTGAATATATATTGATATTTG--AAGTGA
75769840 ATTGAA
1 ATTGAA
75769846 ACCCTATTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
27 6 0.19
29 25 0.81
ACGTcount: A:0.39, C:0.00, G:0.17, T:0.44
Consensus pattern (28 bp):
ATTGAATATATATTGATATTTGAAGTGA
Found at i:75770054 original size:40 final size:40
Alignment explanation
Indices: 75769932--75770070 Score: 133
Period size: 40 Copynumber: 3.5 Consensus size: 40
75769922 ACTTCGAGTC
*
75769932 GATGAGACACTGGGTGTCAATTTATTACTTCGGATTAAT-T
1 GATGAGACACTGGGTGTCAAATTATTACTTCGGATT-ATCT
* * * * * *
75769972 CGATGAGGCACTGGATG-CCAA-T-TTACTTCGGTTTAGCC
1 -GATGAGACACTGGGTGTCAAATTATTACTTCGGATTATCT
* *
75770010 GATGAGACACTAGGTGTCAAATTATTACTTCGAATTATCT
1 GATGAGACACTGGGTGTCAAATTATTACTTCGGATTATCT
* *
75770050 GATGAGGCACTGGGTGCCAAA
1 GATGAGACACTGGGTGTCAAA
75770071 CTGGTGTGTT
Statistics
Matches: 76, Mismatches: 18, Indels: 9
0.74 0.17 0.09
Matches are distributed among these distances:
37 14 0.18
38 14 0.18
39 2 0.03
40 32 0.42
41 14 0.18
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.31
Consensus pattern (40 bp):
GATGAGACACTGGGTGTCAAATTATTACTTCGGATTATCT
Found at i:75772255 original size:35 final size:35
Alignment explanation
Indices: 75772209--75772276 Score: 118
Period size: 35 Copynumber: 1.9 Consensus size: 35
75772199 GTACTAGAAG
* *
75772209 ATATGTTGCGAGCCTGTATTGTTAATCTCGAAGCT
1 ATATGTTGCGAGCATGTATAGTTAATCTCGAAGCT
75772244 ATATGTTGCGAGCATGTATAGTTAATCTCGAAG
1 ATATGTTGCGAGCATGTATAGTTAATCTCGAAG
75772277 TTAGCTGGGA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.26, C:0.15, G:0.24, T:0.35
Consensus pattern (35 bp):
ATATGTTGCGAGCATGTATAGTTAATCTCGAAGCT
Found at i:75773181 original size:46 final size:46
Alignment explanation
Indices: 75773129--75773219 Score: 123
Period size: 47 Copynumber: 2.0 Consensus size: 46
75773119 TTTCAGCCCA
*
75773129 GCTATTTAGTTTGTAGG-CC-CATTTTATGTTTCATTTTGATTTTGGG
1 GCTATTTAGTTTGT-GGACCACA-TTTACGTTTCATTTTGATTTTGGG
*
75773175 GCTATTTAGTTTGTGGACCTACATTTACGTTTTATTTTGATTTTG
1 GCTATTTAGTTTGTGGACC-ACATTTACGTTTCATTTTGATTTTG
75773220 AGCAGATTAA
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
45 2 0.05
46 16 0.40
47 20 0.50
48 2 0.05
ACGTcount: A:0.16, C:0.11, G:0.20, T:0.53
Consensus pattern (46 bp):
GCTATTTAGTTTGTGGACCACATTTACGTTTCATTTTGATTTTGGG
Found at i:75780455 original size:26 final size:24
Alignment explanation
Indices: 75780396--75780455 Score: 59
Period size: 24 Copynumber: 2.4 Consensus size: 24
75780386 AAACGTACAT
* *
75780396 AAAAATATATACATAAAAAATTAC
1 AAAAATATAAAAATAAAAAATTAC
*
75780420 -AAAATAATAAAAATAATAATATGTAC
1 AAAAAT-ATAAAAATAA-AAAAT-TAC
75780446 AAAAATATAA
1 AAAAATATAA
75780456 TATACATATA
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
23 5 0.17
24 8 0.28
25 4 0.14
26 7 0.24
27 5 0.17
ACGTcount: A:0.68, C:0.05, G:0.02, T:0.25
Consensus pattern (24 bp):
AAAAATATAAAAATAAAAAATTAC
Found at i:75781970 original size:84 final size:83
Alignment explanation
Indices: 75781866--75783807 Score: 772
Period size: 73 Copynumber: 24.9 Consensus size: 83
75781856 AAAATTGGAA
* * **
75781866 AACAGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGTCTCTCGCAATACGAGTTG
1 AACAGAAATTGAAAATACCTCAGCATGT--CCTGAGGCTCAACTCACCTCTCGCAATACGAGTTG
75781931 -ATTTTTTATTTTTTTTGAC
64 AATTTTTTATTTTTTTTGAC
*
75781950 AACAGAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAA
1 AACAGAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGAA
*** *
75782015 TTTTTTTGAAAAATATAAATTT-AA
66 -TTTTTT-----AT-TTTTTTTGAC
* * * * * *
75782039 AAGCAGAAATTGAAATTA-CTCAACGTG-CCTTGAGGCTCAACTTACCTCTCGCAGTATGAGTTG
1 AA-CAGAAATTGAAAATACCTCAGCATGTCC-TGAGGCTCAACTCACCTCTCGCAATACGAGTTG
75782102 --------A--TTTTTTGA-
64 AATTTTTTATTTTTTTTGAC
* * * * *
75782111 AAAAAAAATTGAAAATACCTCAACGCATGTCTTGAGGCTCAACTCA--TTTCGCAATATGAGTTG
1 AACAGAAATTGAAAATACCTC-A-GCATGTCCTGAGGCTCAACTCACCTCTCGCAATACGAGTTG
75782174 --------A---TTTTTGAC
64 AATTTTTTATTTTTTTTGAC
* *
75782183 AACAGAAATTGAAATTACCTCAGC--GTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG-A
1 AACAGAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGAA
75782245 ------A-TTTTTTTGA-
66 TTTTTTATTTTTTTTGAC
* * *
75782255 AA-AGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAA
1 AACAGAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGAA
* ***
75782319 TTTTTTTGAAAAATATAAATTGA-
66 -TTTTTT-----ATTTTTTTTGAC
* * * *
75782342 AA-ATGAAATTGAAATTACCT-AACGTG-CCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
1 AACA-GAAATTGAAAATACCTCAGCATGTCC-TGAGGCTCAACTCACCTCTCGCAATACGAGTTG
*
75782404 --------A-TTTTTTTGAA
64 AATTTTTTATTTTTTTTGAC
** *
75782415 AGACA-AAATTG-AAATACCTCAGCATGTCCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
1 A-ACAGAAATTGAAAATACCTCAGCATGTCC-TGAGGCTCAACTCACCTCTCGCAATACGAGTTG
75782478 --------A--TTTTTTGAC
64 AATTTTTTATTTTTTTTGAC
* * *
75782488 AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAA
1 AACAGAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGAA
* * ** *
75782553 TTTTTGAAAAATATTAATTGAA
66 TTTTT----TATTTTTTTTGAC
* * *
75782575 AAGCAGAAATTGAAATTACCTCA-CGTG-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG-
1 AA-CAGAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGA
75782637 -------A----TTTTGAC
65 ATTTTTTATTTTTTTTGAC
* ** * *
75782645 AAACAGAAATTG-AAATACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGTAATATGAGTTG-
1 -AACAGAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGA
* ** *** * *
75782708 ATTTTTGAAAAATAGATTAAA
65 ATTTTT--TATTTTTTTTGAC
* * * * *
75782729 ACACAAAAATTGACAATACCTCAGCGTG-CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTG-
1 A-ACAGAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGA
*
75782792 -------A---TTTTTGAA
65 ATTTTTTATTTTTTTTGAC
* *
75782801 AAAAGAAATTGAAAATACCTCAG--TGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG-A
1 AACAGAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGAA
* ** ***
75782863 TTTTTGAAAACATAAATTG--
66 TTTTT---TATTTTTTTTGAC
* * * * ** *
75782882 AACAGAAATTGAAACTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG-A
1 AACAGAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGAA
***
75782946 ---TTT-TTTTTAAAGAC
66 TTTTTTATTTTTTTTGAC
* ** *
75782960 -A-A-AAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG--
1 AACAGAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGAA
*
75783020 ------A-TTTTTTTGAA
66 TTTTTTATTTTTTTTGAC
* * ** *
75783031 AAGAAAAATTGAAAATACCTCAGCATGT-CTGAGGCTCAACTCATTTCTCGCAATATGAGTTG-A
1 AACAGAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGAA
75783094 -----T-TTTTTTTT-AC
66 TTTTTTATTTTTTTTGAC
* * *
75783105 AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAA
1 AACAGAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGAA
* *** *
75783170 TTTTTTGAAAAATATAAATTGAA
66 TTTTTT-----ATTTTTTTTGAC
* * * *
75783193 AAGCAGAAATTGAAATTACCTCAACGTG-CCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
1 AA-CAGAAATTGAAAATACCTCAGCATGTCC-TGAGGCTCAACTCACCTCTCGCAATACGAGTTG
75783257 --------A---TTTTTGAC
64 AATTTTTTATTTTTTTTGAC
* * ** * *
75783266 AAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGTAATATGAGTTG-
1 -AACAGAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGA
* ** *** *
75783330 ATTTTTGAAAAATAGATTGAA
65 ATTTTT--TATTTTTTTTGAC
* * * * * * *
75783351 ACACAAAAATTGACAATACTTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTG-
1 A-ACAGAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGA
* *
75783415 ATTTTTGA---------AA
65 ATTTTTTATTTTTTTTGAC
* *
75783425 AACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG-A
1 AACAGAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGAA
* ** ***
75783489 TTTTTGAAAAACATAAATTG--
66 TTTTT----TATTTTTTTTGAC
* * * * ** *
75783509 AACAGAAATTGAAACTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG-A
1 AACAGAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGAA
***
75783573 -TTTTT-TTTTTAAAGAC
66 TTTTTTATTTTTTTTGAC
* ** *
75783589 -A-A-AAATTGAAAATACCTCAGCATGT-CTTAGGCTCAACTCATTTCTCGCAATATGAGTTG--
1 AACAGAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGAA
*
75783648 ------A-TTTTTTTGAA
66 TTTTTTATTTTTTTTGAC
* * ** *
75783659 AGACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG-
1 A-ACAGAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGA
75783723 A----TT-TTTTTTTTGAC
65 ATTTTTTATTTTTTTTGAC
* * * *
75783737 AACAGAAATTGAAATTACCTCAGCGTGTCCTAAGGCTCAACTCACCTCTCGCAATATGAGTTGAA
1 AACAGAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGAA
75783802 TTTTTT
66 TTTTTT
75783808 TGAAAAATAT
Statistics
Matches: 1519, Mismatches: 174, Indels: 332
0.75 0.09 0.16
Matches are distributed among these distances:
68 17 0.01
69 11 0.01
70 75 0.05
71 101 0.07
72 66 0.04
73 260 0.17
74 148 0.10
75 130 0.09
76 38 0.03
77 77 0.05
78 15 0.01
79 1 0.00
80 4 0.00
81 21 0.01
82 35 0.02
83 46 0.03
84 135 0.09
85 78 0.05
86 38 0.03
87 62 0.04
88 43 0.03
89 100 0.07
90 18 0.01
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.31
Consensus pattern (83 bp):
AACAGAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGAA
TTTTTTATTTTTTTTGAC
Found at i:75782080 original size:89 final size:88
Alignment explanation
Indices: 75781813--75782114 Score: 261
Period size: 89 Copynumber: 3.5 Consensus size: 88
75781803 GCGTGAGCCA
* *** * *
75781813 AGGCTCAACTCACCTCTCGCAAT-TGAG-TCATTTTTT-AAAGGCAAAAATTGGAAAA-CAGAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAATATAAATT-TAAAAGCAGAAA
** *
75781874 TTGAAAATACCTCGGCGTGTGACCTG
65 TTGAAAATACCTCAACATGT--CCTG
** * *** *
75781900 AGGCTCAACTCGTCTCTCGCAATACGAGTTGATTTTTT-----AT-TTTTTTTGACAA-CAGAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAATATAAATTT-AAAAGCAGAAA
*
75781958 TTGAAAATACCTCAGCATGTCCTG
65 TTGAAAATACCTCAACATGTCCTG
75781982 AGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTTTGAAAAATATAAATTTAAAAGCAGAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTG-A-TTTTTTGAAAAATATAAATTTAAAAGCAGAA
* *
75782047 ATTGAAATTA-CTCAACGTG-CCTTG
64 ATTGAAAATACCTCAACATGTCC-TG
* *
75782071 AGGCTCAACTTACCTCTCGCAGTATGAGTTGATTTTTTGAAAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAA
75782115 AAAATTGAAA
Statistics
Matches: 176, Mismatches: 26, Indels: 26
0.77 0.11 0.11
Matches are distributed among these distances:
82 32 0.18
83 1 0.01
84 35 0.20
87 33 0.19
88 6 0.03
89 51 0.29
90 18 0.10
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (88 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAATATAAATTTAAAAGCAGAAAT
TGAAAATACCTCAACATGTCCTG
Found at i:75782297 original size:73 final size:72
Alignment explanation
Indices: 75782043--75783180 Score: 834
Period size: 73 Copynumber: 15.0 Consensus size: 72
75782033 ATTTAAAAGC
* * *
75782043 AGAAATTGAAATTA-CTCAACGTG-CCTTGAGGCTCAACTTACCTCTCGCAGTATGAGTTGA-TT
1 AGAAATTGAAATTACCTCAGCGTGTCC-TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
75782105 TTTTGAAAA
65 TTTTG-AAA
* * * * *
75782114 AAAAATTGAAAATACCTCAACGCATGTCTTGAGGCTCAACTCA--TTTCGCAATATGAGTTGA--
1 AGAAATTGAAATTACCTC-A-GCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
75782175 TTTTTGACAA
64 TTTTTGA-AA
75782185 CAGAAATTGAAATTACCTCAGC--GTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATT
1 -AGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG-ATT
75782248 TTTTTGAAA
64 TTTTTGAAA
75782257 AGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTT
1 AGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG-ATTT
75782322 TTTTGAAAAATATAA
65 TTTTG------A-AA
*
75782337 ATTGAAAATGAAATTGAAATTACCT-AACGTG-CCTTGAGGCTCAACTCACCTCTCGCAATATGA
1 A--G------AAATTGAAATTACCTCAGCGTGTCC-TGAGGCTCAACTCACCTCTCGCAATATGA
75782400 GTTGATTTTTTTGAAA
57 GTTGATTTTTTTGAAA
* * **
75782416 GACAAAATTGAAA-TACCTCAGCATGTCCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA-
1 -A-GAAATTGAAATTACCTCAGCGTGTCC-TGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
75782479 TTTTTTGACAA
63 TTTTTTGA-AA
*
75782490 CAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-AT
1 -AGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
75782554 TTTTGAAAA
65 TTTTG-AAA
* ** * *
75782563 ATATTAATTGAAAAGCAGAAATTGAAATTA-CCTCACGTGCCTGAGGCTCAACTCACCTCTCGCA
1 AGA--AATT--------GAAATT-ACCTCAGCGT---GT-CCTGAGGCTCAACTCACCTCTCGCA
***
75782627 ATATGAGTTGA-TTTTGACAAA
51 ATATGAGTTGATTTTTTTGAAA
** *
75782648 CAGAAATTGAAA-TACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGTAATATGAGTTGA--T
1 -AGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
75782710 TTTTGAAA
65 TTTTGAAA
** *** * * *
75782718 A-ATAGATT-AAA--ACACAAAAATTGACAATACCTCAGCGTGCCCGAGGCTCAACTCACCTCTC
1 AGA-A-ATTGAAATTAC-CTCAGCGTG----T-CCT--GAG-GCTC-A---AC---TCACCTCTC
***
75782779 GCAATATGAGTTGATTTTTGAAAAA
48 GCAATATGAGTTGATTTTTTTGAAA
*
75782804 AGAAATTGAAAATACCTCA--GTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 AGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
**
75782867 TGAAAACATAAATTGAA
66 T-------T---TGAAA
* * * **
75782884 CAGAAATTGAAACTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTT
1 -AGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TT
*
75782949 TTTTTAAAGA
64 TTTTTGAA-A
* * * * **
75782959 CAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTT
1 -AGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
75783024 TTTTGAAA
65 TTTTGAAA
* * **
75783032 AGAAAAATTGAAAATACCTCAGCATGT-CTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATT
1 AG--AAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-T
*
75783096 TTTTTTTACAA
63 TTTTTTGA-AA
*
75783107 CAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATT
1 -AGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
75783172 TTTTGAAA
65 TTTTGAAA
75783180 A
1 A
75783181 ATATAAATTG
Statistics
Matches: 881, Mismatches: 89, Indels: 193
0.76 0.08 0.17
Matches are distributed among these distances:
68 20 0.02
69 9 0.01
70 56 0.06
71 76 0.09
72 48 0.05
73 164 0.19
74 149 0.17
75 98 0.11
76 9 0.01
77 7 0.01
78 3 0.00
79 3 0.00
80 10 0.01
81 20 0.02
82 9 0.01
83 40 0.05
84 29 0.03
85 10 0.01
86 63 0.07
87 41 0.05
88 17 0.02
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.31
Consensus pattern (72 bp):
AGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
TTTGAAA
Found at i:75782658 original size:70 final size:72
Alignment explanation
Indices: 75782570--75783194 Score: 496
Period size: 75 Copynumber: 8.3 Consensus size: 72
75782560 AAAATATTAA
*
75782570 TTGAAAAGCAGAAATTGAAATTACCTCA-CGTG-CCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAA-CAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
75782633 GTTGA-TT
65 GTTGATTT
** *
75782640 TTGACAAACAGAAATTG-AAATACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGTAATATGA
1 TTGA-AAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
75782704 GTTGATTT
65 GTTGATTT
* * * *** * * * * *
75782712 TTGAAAA-ATAGATT-AAAACACAAAAATTGACAAT-ACCTCAGCGTGCCCGAGGCTCAACTCAC
1 TTGAAAACAGAAATTGAAAATAC-CTCA--G-C-GTGTCCT--GAG-GCTC-A---AC---TCAC
75782774 CTCTCGCAATATGAGTTGATTT
51 CTCTCGCAATATGAGTTGATTT
*
75782796 TTGAAAAAAGAAATTGAAAATACCTCA--GTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
75782859 TTGATTT
66 TTGATTT
* * * **
75782866 TTGAAAACATAAATTGAACAGAAATTGAAACTACCTCAACGTGTCTTGAGGCTCAACTCATTTCT
1 TTG--------AA---AACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCT
75782931 CGCAATATGAGTTGATTTTT
55 CGCAATATGAGTTGA--TTT
* * * * **
75782951 TTTAAAGACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
1 TTGAAA-ACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
75783016 GTTGATTTTT
65 GTTGA--TTT
* * * **
75783026 TTGAAAAGAAAAATTGAAAATACCTCAGCATGT-CTGAGGCTCAACTCATTTCTCGCAATATGAG
1 TTGAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
75783090 TTGATTTTTT
66 TTGA---TTT
* * *
75783100 TTTACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
75783165 TTGAATTTT
66 TTG-A-TTT
* *
75783174 TTGAAAAATATAAATTGAAAA
1 TTG-AAAACAGAAATTGAAAA
75783195 GCAGAAATTG
Statistics
Matches: 457, Mismatches: 55, Indels: 81
0.77 0.09 0.14
Matches are distributed among these distances:
69 9 0.02
70 56 0.12
71 40 0.09
72 6 0.01
73 36 0.08
74 69 0.15
75 115 0.25
76 4 0.01
77 8 0.02
78 5 0.01
79 1 0.00
80 3 0.01
81 21 0.05
83 37 0.08
84 30 0.07
85 11 0.02
86 6 0.01
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (72 bp):
TTGAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
TTGATTT
Found at i:75783010 original size:75 final size:75
Alignment explanation
Indices: 75782731--75783808 Score: 685
Period size: 75 Copynumber: 13.9 Consensus size: 75
75782721 AGATTAAAAC
* ** **
75782731 ACAAAAATTGACAATACCTCAGCGTG-CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--
1 ACAAAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATT
*
75782793 TTTTTGAAA-
66 TTTTTTAAAG
* **
75782802 A-AAGAAATTGAAAATACCTCA--GTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
1 ACAA-AAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAT
**
75782864 TTTTGAAAACATAAATTG
65 TTTT-----TTTAAA--G
* * *
75782882 AACAGAAATTGAAACTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAT
1 -ACAAAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAT
75782947 TTTTTTTAAAG
65 TTTTTTTAAAG
*
75782958 ACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATT
1 ACAAAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATT
*
75783023 TTTTTGAAA-
66 TTTTTTAAAG
* *
75783032 AGAAAAATTGAAAATACCTCAGCATGTC-TGAGGCTCAACTCATTTCTCGCAATATGAGTTGATT
1 ACAAAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA-T
*
75783096 TTTTTTTACA-
65 TTTTTTTAAAG
* * * ** *
75783106 ACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAAT
1 ACAAAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATT
* *
75783171 TTTTTGAAAA
66 TTTTTTAAAG
* * * ** *** ** * * * * * *
75783181 ATATAAATTG-AAA-AGCAGAAATTGAAATT-A-CCTCAACGTGCCTTGAGGCTCAACTCACCTC
1 ACAAAAATTGAAAATACCTCAGCGTG-TCTTGAGGCTCAAC-T-CATT-----TC-TCGCA-ATA
* * ** **
75783242 TCGCAATATGAGTTGATTT-TTG
56 T-G-AGT-TGATTTTTTTTAAAG
* * *
75783264 ACAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGTAATATGAGTT
1 AC--A-A-AAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTT
***
75783329 GATTTTTGAAAAATAG
62 GATTTTT-TTTAA-AG
* * ** * * * * * *
75783345 ATTGAAACA-CAAAAATTGACAAT-A-C-T-TC-AGCGTGCCCCGAGGCTCAACTCACCTCTCGC
1 A--CAAAAATTGAAAA-T-AC-CTCAGCGTGTCTTGAG-G-CTC-A-ACTC-A-T---TTCTCGC
* *
75783404 AATATGAGTTGA--TTTTTGAAAA
52 AATATGAGTTGATTTTTTTTAAAG
* * **
75783426 ACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
1 ACAAAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATT
**
75783491 TTTGAAAAACATAAATTG
66 TTT------TTTAAA--G
* * *
75783509 AACAGAAATTGAAACTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAT
1 -ACAAAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA-
75783574 TTTTTTTTTAAAG
64 -TTTTTTTTAAAG
*
75783587 ACAAAAATTGAAAATACCTCAGCATGTCTT-AGGCTCAACTCATTTCTCGCAATATGAGTTGATT
1 ACAAAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATT
*
75783651 TTTTTGAAAG
66 TTTTTTAAAG
*
75783661 ACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATT
1 ACAAAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA--
*
75783726 TTTTTTTTGACA-
64 TTTTTTTT-AAAG
* * * * ** *
75783738 ACAGAAATTGAAATTACCTCAGCGTGTCCTAAGGCTCAACTCACCTCTCGCAATATGAGTTGAAT
1 ACAAAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATT
75783803 TTTTTT
66 TTTTTT
75783809 GAAAAATATA
Statistics
Matches: 789, Mismatches: 138, Indels: 156
0.73 0.13 0.14
Matches are distributed among these distances:
69 3 0.00
70 37 0.05
71 17 0.02
72 9 0.01
73 60 0.08
74 113 0.14
75 151 0.19
76 35 0.04
77 97 0.12
78 24 0.03
79 15 0.02
80 22 0.03
81 34 0.04
82 9 0.01
83 50 0.06
84 65 0.08
85 18 0.02
86 5 0.01
87 6 0.01
88 6 0.01
89 7 0.01
90 6 0.01
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.31
Consensus pattern (75 bp):
ACAAAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATT
TTTTTTAAAG
Found at i:75783024 original size:158 final size:154
Alignment explanation
Indices: 75782419--75783966 Score: 1686
Period size: 158 Copynumber: 9.9 Consensus size: 154
75782409 TTTGAAAGAC
* * **
75782419 AAAATTGAAATACCTCAGCATGTCCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTT
1 AAAATTGAAATACCTCAACGTGT-CTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
* *
75782484 TGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
65 TGAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
75782549 TGAATTTTTGAAAAATATTAATTGAAAAGCA
130 TG-ATTTTTGAAAAATA--AATTG--AA-CA
* *
75782580 GAAATTGAAATTACCTC-ACGTG-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTT
1 AAAATTGAAA-TACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
** *
75782641 TGACAAACAGAAATTG-AAATACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGTAATATGAG
65 TGA-AAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
* *
75782705 TTGATTTTTGAAAAATAGATTAAAACACA
129 TTGATTTTTGAAAAATAAATT--GA-ACA
* **
75782734 AAAATTGACAATACCTCAGCGTG-CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTT
1 AAAATTGA-AATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
*
75782797 TGAAAAAAGAAATTGAAAATACCTCA--GTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
65 TGAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
75782860 TGATTTTTGAAAACATAAATTGAACA
130 TGATTTTTGAAAA-ATAAATTGAACA
* **
75782886 GAAATTGAAACTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTT
1 AAAATTGAAA-TACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTT
* * * * **
75782951 TTTAAAGACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
64 TTGAAA-ACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
* * *
75783016 GTTGATTTTT-----TTGAA---AAGA
128 GTTGATTTTTGAAAAATAAATTGAACA
* * **
75783035 AAAATTGAAAATACCTCAGCATGTC-TGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTT
1 AAAATTG-AAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTT
* * *
75783099 TTTTACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
63 TTTGAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
75783164 GTTGAATTTTTTGAAAAATATAAATTGAAAAGCA
128 GTTG-A-TTTTTG-AAAA-ATAAATTG--AA-CA
* *
75783198 GAAATTGAAATTACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTT
1 AAAATTGAAA-TACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
* ** *
75783262 TGACAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGTAATATGAG
65 TGA-AAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
*
75783327 TTGATTTTTGAAAAATAGATTGAAACACA
129 TTGATTTTTGAAAAATAAATTG--A-ACA
* * * **
75783356 AAAATTGACAATACTTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTT
1 AAAATTGA-AATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
75783420 TGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
65 TG-AAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
75783485 TTGATTTTTGAAAAACATAAATTGAACA
129 TTGATTTTTG-AAAA-ATAAATTGAACA
* **
75783513 GAAATTGAAACTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTT
1 AAAATTGAAA-TACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA---TT
* * * * **
75783578 TTTTTAAAGACAAAAATTGAAAATACCTCAGCATGT-CTTAGGCTCAACTCATTTCTCGCAATAT
62 TTTTGAAA-ACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATAT
*
75783642 GAGTTGATTTTT-----TTGAAA--G-ACA
126 GAGTTGATTTTTGAAAAAT-AAATTGAACA
* * **
75783664 AAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTT
1 AAAATTG-AAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA----T
* * *
75783729 TTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTAAGGCTCAACTCACCTCTCGCAATAT
61 TTTTTGAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATAT
*
75783794 GAGTTGAATTTTTTTGAAAAATATAAATTTAAAAGCA
126 GAGTTG-A--TTTTTG-AAAA-ATAAA-TT-GAA-CA
* * * * *
75783831 AAAATTAAAATTACCTCAACGTGCCTTGAGGCTCAACTTACCCCTCGCAGTATGAGTTGATTTTT
1 AAAATTGAAA-TACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTT
* *
75783896 TTGAAAAGCAGAAATTGAAAATACCTCA----GTCTTGAAGCTCAACTCACCTCTCGCAATATGA
64 TTGAAAA-CAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
75783957 GTTGATTTTT
128 GTTGATTTTT
75783967 TTGAAACAGA
Statistics
Matches: 1202, Mismatches: 115, Indels: 143
0.82 0.08 0.10
Matches are distributed among these distances:
148 90 0.07
149 32 0.03
150 8 0.01
151 82 0.07
152 70 0.06
153 35 0.03
154 69 0.06
155 72 0.06
156 51 0.04
157 108 0.09
158 195 0.16
159 45 0.04
160 54 0.04
161 86 0.07
162 72 0.06
163 18 0.01
164 43 0.04
165 19 0.02
166 4 0.00
167 49 0.04
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.31
Consensus pattern (154 bp):
AAAATTGAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
GAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
GATTTTTGAAAAATAAATTGAACA
Found at i:75783477 original size:543 final size:528
Alignment explanation
Indices: 75781940--75783806 Score: 1896
Period size: 543 Copynumber: 3.4 Consensus size: 528
75781930 GATTTTTTAT
* * **
75781940 TTTTTTTGACAACAGAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAAT
1 TTTTTTTGAAAACAAAAATTGAAAATACCTCAGCATGT-CTGAGGCTCAACTCATTTCTCGCAAT
*
75782005 ATGAGTTGAATTTTTTTGAAAAATATAAATTTAAAAGCAGAAATTGAAATTA-CTCAACGTG-CC
65 ATGAGTTG-A---TTTT------T-T---TTTAAAA-CAGAAATTGAAATTACCTCAGCGTGTCC
* * *
75782068 TTGAGGCTCAACTTACCTCTCGCAGTATGAGTTGATTTTTTG--A---AAAA-A-AAATTGAAAA
115 -TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGTTATTGAAAACAGAAATTGAAAT
* *
75782126 TACCTCAACGCATGTCTTGAGGCTCAACTCA--TTTCGCAATATGAGTTGATTTTTGAC-AACAG
179 TACCTCAACG--TGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAG
*
75782188 AAATTGAAATTACCTCAGC--GTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTT-
242 AAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
75782250 ----T--TTGAAAAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAAT
307 AAAATAATTGAAAA-AAATTGAAA-TACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAAT
* *
75782309 ATGAGTTGAATTTTTTTGAAAAATATAAATTGAAAATGAAATTGAAATTACCT-AACGTG-CCTT
370 ATGAGTTG-A--TTTTTG------A-AAA-T-AACA-GAAATTGAAAATACCTCAACGTGTCC-T
*
75782372 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGAC-AAAATTG-AAATACCTC
421 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTAAAGACAAAAATTGAAAATACCTC
75782435 AGCATGTCCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
486 AGCATGT-CTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
* * * * **
75782479 -TTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAAT
1 TTTTTTTGAAAACAAAAATTGAAAATACCTCAGCATGT-CTGAGGCTCAACTCATTTCTCGCAAT
75782543 ATGAGTTGAATTTTTGAAAAATATTAATTGAAAAGCAGAAATTGAAATTACCTCA-CGTG-CCTG
65 ATGAGTTG-A-TTTT------T-TT--TT-AAAA-CAGAAATTGAAATTACCTCAGCGTGTCCTG
*
75782606 AGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTG--A---CAAACAGAAATTGAAA-TAC
117 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGTTATTGAAAACAGAAATTGAAATTAC
* ** * *
75782663 CTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGTAATATGAGTTGATTTTTGAAAAATAGATTAA
182 CTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTT------T-G---AC
* *
75782728 AACACAAAAATTGACAA-TACCTCAGCGTG-CCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
236 AA-ACAGAAATTGA-AATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
75782791 GATTTTTGAAAA-AA--G----AAATTGAAAATACCTCA--GTGTCCTGAGGCTCAACTCACCTC
299 GATTTTTGAAAATAATTGAAAAAAATTG-AAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTC
* *
75782847 TCGCAATATGAGTTGATTTTTGAAAACATAAATTGAACAGAAATTGAAACTACCTCAACGTGTCT
363 TCGCAATATGAGTTGATTTTTG-----A-AAA-T-AACAGAAATTGAAAATACCTCAACGTGTCC
**
75782912 TGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTAAAGACAAAAATTGAAAATACCT
420 TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTAAAGACAAAAATTGAAAATACCT
75782977 CAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
485 CAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
*
75783021 TTTTTTTGAAAAGAAAAATTGAAAATACCTCAGCATGTCTGAGGCTCAACTCATTTCTCGCAATA
1 TTTTTTTGAAAACAAAAATTGAAAATACCTCAGCATGTCTGAGGCTCAACTCATTTCTCGCAATA
*
75783086 TGAGTTGATTTTTTTTTACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACC
66 TGAGTTGATTTTTTTTTAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACC
75783151 TCTCGCAATATGAGTTGAATTTTTTGAAAAATATAAATTGAAAAGCAGAAATTGAAATTACCTCA
131 TCTCGCAATATGAGTTG-ATTTTTTG-----T-T--ATTGAAAA-CAGAAATTGAAATTACCTCA
75783216 ACGTG-CCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATTGAA
186 ACGTGTCC-TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATTGAA
** *
75783280 ATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGTAATATGAGTTGATTTTTGAAAAATAG
250 ATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG-AAAATA-
* * *
75783345 ATTGAAACACAAAAATTGACAATACTTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATG
313 ATTG--A-A-AAAAATTGA-AATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
*
75783410 AGTTGATTTTTG-AAA-AACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTC
373 AGTTGATTTTTGAAAATAACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTC
** * * * *
75783473 TCGCAATATGAGTTGATTTTTGAAAAACATAAATTGAACAGAAATTGAAACTACCTCAACGTGTC
438 TCGCAATATGAGTTGATTTTT------TTTAAA--G-ACAAAAATTGAAAATACCTCAGCATGTC
75783538 TTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
494 TTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
* *
75783573 TTTTTTTTTTAAAGACAAAAATTGAAAATACCTCAGCATGTCTTAGGCTCAACTCATTTCTCGCA
1 --TTTTTTTGAAA-ACAAAAATTGAAAATACCTCAGCATGTCTGAGGCTCAACTCATTTCTCGCA
* * * * *
75783638 ATATGAGTTGA-TTTTTTTGAAAGACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACT
63 ATATGAGTTGATTTTTTTTTAAA-ACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACT
** * *
75783702 CATTTCTCGCAATATGAGTTGATTTTTT-TT-TTGACAACAGAAATTGAAATTACCTCAGCGTGT
127 CACCTCTCGCAATATGAGTTGATTTTTTGTTATTGAAAACAGAAATTGAAATTACCTCAACGTGT
*
75783765 CCTAAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTT
192 CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG-ATTTTT
75783807 TTGAAAAATA
Statistics
Matches: 1170, Mismatches: 67, Indels: 177
0.83 0.05 0.13
Matches are distributed among these distances:
529 20 0.02
530 7 0.01
531 37 0.03
532 19 0.02
533 12 0.01
534 32 0.03
535 47 0.04
536 42 0.04
537 26 0.02
538 113 0.10
539 4 0.00
540 20 0.02
541 70 0.06
542 84 0.07
543 169 0.14
544 16 0.01
545 40 0.03
546 4 0.00
547 36 0.03
548 63 0.05
549 47 0.04
550 1 0.00
551 15 0.01
552 60 0.05
553 44 0.04
554 26 0.02
555 116 0.10
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.31
Consensus pattern (528 bp):
TTTTTTTGAAAACAAAAATTGAAAATACCTCAGCATGTCTGAGGCTCAACTCATTTCTCGCAATA
TGAGTTGATTTTTTTTTAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACC
TCTCGCAATATGAGTTGATTTTTTGTTATTGAAAACAGAAATTGAAATTACCTCAACGTGTCCTG
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATTGAAATTACCTCAGC
GTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAATAATTGAAAAAAATT
GAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAATA
ACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
TTTTTTAAAGACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATA
TGAGTTGA
Found at i:75783654 original size:77 final size:76
Alignment explanation
Indices: 75783510--75783812 Score: 389
Period size: 77 Copynumber: 4.0 Consensus size: 76
75783500 CATAAATTGA
* * **
75783510 ACAGAAATTGAAACTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATT
1 ACAGAAATTGAAAATACCTCAGCGTGTCTT-AGGCTCAACTCACCTCTCGCAATATGAGTTGATT
*
75783575 TTTTTTTTAAAG
65 TTTTTTTGAAAG
* * **
75783587 ACAAAAATTGAAAATACCTCAGCATGTCTTAGGCTCAACTCATTTCTCGCAATATGAGTTGA--T
1 ACAGAAATTGAAAATACCTCAGCGTGTCTTAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
75783650 TTTTTTGAAAG
66 TTTTTTGAAAG
* * **
75783661 ACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATT
1 ACAGAAATTGAAAATACCTCAGCGTGTCTT-AGGCTCAACTCACCTCTCGCAATATGAGTTGA-T
*
75783726 TTTTTTTTGACA-
64 TTTTTTTTGAAAG
* * *
75783738 ACAGAAATTGAAATTACCTCAGCGTGTCCTAAGGCTCAACTCACCTCTCGCAATATGAGTTGA-A
1 ACAGAAATTGAAAATACCTCAGCGTGT-CTTAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
75783802 TTTTTTTGAAA
65 TTTTTTTGAAA
75783813 AATATAAATT
Statistics
Matches: 207, Mismatches: 14, Indels: 12
0.89 0.06 0.05
Matches are distributed among these distances:
74 41 0.20
75 42 0.20
76 32 0.15
77 80 0.39
78 12 0.06
ACGTcount: A:0.32, C:0.19, G:0.15, T:0.34
Consensus pattern (76 bp):
ACAGAAATTGAAAATACCTCAGCGTGTCTTAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
TTTTTTGAAAG
Found at i:75783918 original size:242 final size:237
Alignment explanation
Indices: 75782188--75783968 Score: 1435
Period size: 234 Copynumber: 7.6 Consensus size: 237
75782178 TTGACAACAG
*
75782188 AAATTGAAATTACCTCAGCGT-CC-TGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTT
1 AAATTGAAAATACCTCAGCGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTG-ATTTTT
* * *
75782251 TTG-AAA--AGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
65 TTGAAAAGCAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
*
75782313 GTTGAATTTTTTTGAAAAATATAAATTGA-AA-ATGAAATTGAAATTACCT-AACGTG-CCTTGA
130 GTTG-A-TTTTTT------T-T---TTGACAACA-GAAATTGAAATTACCTCAGCGTGTCC-TGA
** * *
75782374 GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT-----T-TGA---AAGA-C-A
181 GGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTGAAAATATAATTTAAAAGCAA
* **
75782420 AAATTG-AAATACCTCAGCATGTCCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA-TTTT
1 AAATTGAAAATACCTCAGCGTG-CCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
* * * *
75782483 TTGACAA-CAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
65 TTGAAAAGCAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
*
75782547 GTTGAATTTTTGAAAAATATTAATTGAAAAGCAGAAATTGAAATTACCTCA-CGTG-CCTGAGGC
130 GTTG-ATTTTT------T-TT--TTGACAA-CAGAAATTGAAATTACCTCAGCGTGTCCTGAGGC
** * *
75782610 TCAACTCACCTCTCGCAATATGAGTTGA-TTTTG--------A---CAAA-CAG
184 TCAACTCATTTCTCGCAATATGAGTTGATTTTTGAAAATATAATTTAAAAGCAA
** *
75782651 AAATTG-AAATACCTCAGCGTGTCC-TGAGGCTCAACTCATTTCTCGTAATATGAGTTGATTTTT
1 AAATTGAAAATACCTCAGCGTG-CCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
* * * * * **
75782714 GAAAAATAGATTAAAACACAAAAATTGACAATACCTCAGCGTG-CCCGAGGCTCAACTCACCTCT
65 ------T---TGAAAA-GCAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCACCTCT
* * *
75782778 CGCAATATGAGTTGA-----TTTTTGAAAAAAGAAATTGAAAATACCTCA--GTGTCCTGAGGCT
120 CGCAATATGAGTTGATTTTTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCT
** * * * *
75782836 CAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACATAAATT-GAA-CAG
185 CAACTCATTTCTCGCAATATGAGTTGATTTTTGAAAATATAATTTAAAAGCAA
* * * **
75782887 AAATTGAAACTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTT
1 AAATTGAAAATACCTCAGCGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
* * **
75782952 T-TAAAGACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
66 TGAAAAG-CAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
* * * * *
75783016 GTTGA---TTTTTTTGAAAAGAAAAATTGAAAATACCTCAGCATGT-CTGAGGCTCAACTCATTT
130 GTTGATTTTTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTT
* *
75783077 CTCGCAATATGAGTTGA-TTTT-----T-T--TTTACAA-CAG
195 CTCGCAATATGAGTTGATTTTTGAAAATATAATTTAAAAGCAA
*
75783110 AAATTGAAATTACCTCAGCGTGTCC-TGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTT
1 AAATTGAAAATACCTCAGCGTG-CCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTG-A---T
* * * *
75783174 TTGAAAAATATAAATTGAAAAGCAGAAATTGAAATTACCTCAACGTGCCTTGAGGCTCAACTCAC
61 TT------T-T---TTGAAAAGCAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCAC
75783239 CTCTCGCAATATGAGTTGA-----TTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCTG
116 CTCTCGCAATATGAGTTGATTTTTTTTTTGAC-AACAGAAATTGAAATTACCTCAGCGTGTCCTG
* *
75783299 AGGCTCAACTCATTTCTCGTAATATGAGTTGATTTTTGAAAA-ATAGATTGAAACA-CAA
180 AGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTGAAAATATA-ATTTAAA-AGCAA
* * **
75783357 AAATTGACAATACTTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTT
1 AAATTGAAAATACCTCAGCGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
* * *
75783420 TGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
66 TGAAAAGCAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCACCTCTCGCAATATGAG
** * * *
75783485 TTGATTTTTGAAAAACATAAATTG--AACAGAAATTGAAACTACCTCAACGTGTCTTGAGGCTCA
131 TTGATTTTT--------T-TTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCA
75783548 ACTCATTTCTCGCAATATGAGTTGATTTTT-----T-T--TTT-AAAGACAA
187 ACTCATTTCTCGCAATATGAGTTGATTTTTGAAAATATAATTTAAAAG-CAA
* * **
75783591 AAATTGAAAATACCTCAGCATGTCTT-AGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTT
1 AAATTGAAAATACCTCAGCGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
* **
75783655 TG-AAAGACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
66 TGAAAAG-CAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
* **
75783719 GTTGATTTTTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTAAGGCTCAACTCACCT
130 GTTGATTTTTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTT
75783784 CTCGCAATATGAGTTGAATTTTTTTGAAAAATATAAATTTAAAAGCAA
195 CTCGCAATATGAGTTG-A--TTTTTG-AAAATAT-AATTTAAAAGCAA
* * * *
75783832 AAATT-AAAATTACCTCAACGTGCCTTGAGGCTCAACTTACCCCTCGCAGTATGAGTTGATTTTT
1 AAATTGAAAA-TACCTCAGCGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
*
75783896 TTGAAAAGCAGAAATTGAAAATACCT---CA-GTCTTGAAGCTCAACTCACCTCTCGCAATATGA
65 TTGAAAAGCAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
75783957 GTTGATTTTTTT
130 GTTGATTTTTTT
75783969 GAAACAGAAA
Statistics
Matches: 1318, Mismatches: 111, Indels: 234
0.79 0.07 0.14
Matches are distributed among these distances:
222 2 0.00
223 56 0.04
224 6 0.00
225 54 0.04
226 15 0.01
227 30 0.02
228 92 0.07
229 2 0.00
230 69 0.05
231 143 0.11
232 27 0.02
233 80 0.06
234 148 0.11
235 78 0.06
236 36 0.03
237 145 0.11
238 51 0.04
239 3 0.00
240 9 0.01
241 59 0.04
242 143 0.11
243 5 0.00
244 1 0.00
245 3 0.00
246 7 0.01
247 54 0.04
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.31
Consensus pattern (237 bp):
AAATTGAAAATACCTCAGCGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
TGAAAAGCAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCACCTCTCGCAATATGAG
TTGATTTTTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTC
TCGCAATATGAGTTGATTTTTGAAAATATAATTTAAAAGCAA
Found at i:75783950 original size:71 final size:74
Alignment explanation
Indices: 75783824--75783984 Score: 208
Period size: 71 Copynumber: 2.2 Consensus size: 74
75783814 ATATAAATTT
* * * *
75783824 AAAAGCAAAAATTAAAATTACCTCAACGTGCCTTGAGGCTCAACTTACCCCTCGCAGTATGAGTT
1 AAAAGCAGAAATTAAAATTACCTCAACGT-CCTTGAAGCTCAACTCACCCCTCGCAATATGAGTT
75783889 GATTTTTTTG
65 GATTTTTTTG
*
75783899 AAAAGCAGAAATTGAAAA-TACCTC-A-GT-CTTGAAGCTCAACTCACCTCTCGCAATATGAGTT
1 AAAAGCAGAAATT-AAAATTACCTCAACGTCCTTGAAGCTCAACTCACCCCTCGCAATATGAGTT
75783960 GATTTTTTTG
65 GATTTTTTTG
*
75783970 -AAA-CAGAAATAAAAA
1 AAAAGCAGAAATTAAAA
75783985 CATCAAAATA
Statistics
Matches: 79, Mismatches: 6, Indels: 9
0.84 0.06 0.10
Matches are distributed among these distances:
68 4 0.05
69 7 0.09
70 3 0.04
71 40 0.51
73 2 0.03
74 1 0.01
75 18 0.23
76 4 0.05
ACGTcount: A:0.37, C:0.19, G:0.15, T:0.29
Consensus pattern (74 bp):
AAAAGCAGAAATTAAAATTACCTCAACGTCCTTGAAGCTCAACTCACCCCTCGCAATATGAGTTG
ATTTTTTTG
Found at i:75786379 original size:25 final size:24
Alignment explanation
Indices: 75786334--75786413 Score: 79
Period size: 25 Copynumber: 3.2 Consensus size: 24
75786324 GTCATTAGGG
* *
75786334 TTACCGATTCTAGCTCTTATGAGC
1 TTACCGATACTAGCTCGTATGAGC
75786358 TTACCGATACTCAGCTCGTATGAGC
1 TTACCGATACT-AGCTCGTATGAGC
* * * * *
75786383 TTGCCAATATTTAGCTCGGAGGAGC
1 TTACCGATA-CTAGCTCGTATGAGC
75786408 TTACCG
1 TTACCG
75786414 TTTATCGCTT
Statistics
Matches: 45, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
24 10 0.22
25 34 0.76
26 1 0.02
ACGTcount: A:0.23, C:0.25, G:0.21, T:0.31
Consensus pattern (24 bp):
TTACCGATACTAGCTCGTATGAGC
Found at i:75800785 original size:10 final size:10
Alignment explanation
Indices: 75800770--75800987 Score: 76
Period size: 10 Copynumber: 22.3 Consensus size: 10
75800760 TTTTCTCATA
75800770 AAAAATTATT
1 AAAAATTATT
*
75800780 AAAAATAATT
1 AAAAATTATT
75800790 ATAAAATTA-T
1 A-AAAATTATT
75800800 AAAAA-TA-T
1 AAAAATTATT
*
75800808 AAAATTTATT
1 AAAAATTATT
*
75800818 --AAA-CATT
1 AAAAATTATT
*
75800825 AAAAA-TAAT
1 AAAAATTATT
75800834 -AAAATTCA-T
1 AAAAATT-ATT
*
75800843 ATAAACTTA-T
1 A-AAAATTATT
75800853 AAAAATT-TT
1 AAAAATTATT
75800862 AAAAACATATATT
1 -AAAA-AT-TATT
75800875 AAAAATCTA--
1 AAAAAT-TATT
*
75800884 ATAAATT-TT
1 AAAAATTATT
75800893 AATAAATTA-T
1 AA-AAATTATT
75800903 AAAAATT-TT
1 AAAAATTATT
**
75800912 ATAAAATTAAA
1 A-AAAATTATT
**
75800923 AAAAACACATT
1 AAAAA-TTATT
*
75800934 TAAAA-TATT
1 AAAAATTATT
* *
75800943 CAAAATTTTAT
1 AAAAATTAT-T
75800954 AAAAATGTA-T
1 AAAAAT-TATT
75800964 AAAAATTATT
1 AAAAATTATT
75800974 AAAAATTATAT
1 AAAAATTAT-T
75800985 AAA
1 AAA
75800988 CATATAAAAA
Statistics
Matches: 157, Mismatches: 24, Indels: 53
0.67 0.10 0.23
Matches are distributed among these distances:
7 3 0.02
8 14 0.09
9 41 0.26
10 58 0.37
11 33 0.21
12 6 0.04
13 2 0.01
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (10 bp):
AAAAATTATT
Found at i:75800799 original size:8 final size:8
Alignment explanation
Indices: 75800786--75800856 Score: 63
Period size: 8 Copynumber: 8.2 Consensus size: 8
75800776 TATTAAAAAT
75800786 AATTATAA
1 AATTATAA
75800794 AATTATAA
1 AATTATAA
*
75800802 AAATATAA
1 AATTATAA
75800810 AATTTATTAA
1 AA-TTA-TAA
75800820 ACATTA-AA
1 A-ATTATAA
*
75800828 AATAATAA
1 AATTATAA
75800836 AATTCATATA
1 AATT-ATA-A
75800846 AACTTATAA
1 AA-TTATAA
75800855 AA
1 AA
75800857 ATTTTAAAAA
Statistics
Matches: 52, Mismatches: 4, Indels: 13
0.75 0.06 0.19
Matches are distributed among these distances:
7 3 0.06
8 25 0.48
9 8 0.15
10 13 0.25
11 3 0.06
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.34
Consensus pattern (8 bp):
AATTATAA
Found at i:75800829 original size:26 final size:29
Alignment explanation
Indices: 75800789--75800858 Score: 89
Period size: 26 Copynumber: 2.6 Consensus size: 29
75800779 TAAAAATAAT
*
75800789 TATAAA-ATTATAAAAAT-ATAAAATTTA
1 TATAAACATTATAAAAATAATAAAATTCA
75800816 T-TAAACA-T-TAAAAATAATAAAATTCA
1 TATAAACATTATAAAAATAATAAAATTCA
75800842 TATAAAC-TTATAAAAAT
1 TATAAACATTATAAAAAT
75800859 TTTAAAAACA
Statistics
Matches: 37, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
25 7 0.19
26 15 0.41
27 8 0.22
28 7 0.19
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.34
Consensus pattern (29 bp):
TATAAACATTATAAAAATAATAAAATTCA
Found at i:75800903 original size:50 final size:51
Alignment explanation
Indices: 75800822--75800917 Score: 135
Period size: 50 Copynumber: 1.9 Consensus size: 51
75800812 TTTATTAAAC
75800822 ATTAAAAATAATAAAATTCATATAAACTTATAAAAATTTTA-AAAACATAT
1 ATTAAAAATAATAAAATTCATATAAACTTATAAAAATTTTATAAAACATAT
* *
75800872 ATTAAAAATCTAATAAATTTTA-ATAAA-TTATAAAAATTTTATAAAA
1 ATTAAAAA--TAATAAAATTCATATAAACTTATAAAAATTTTATAAAA
75800918 TTAAAAAAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
50 22 0.54
51 9 0.22
52 10 0.24
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.36
Consensus pattern (51 bp):
ATTAAAAATAATAAAATTCATATAAACTTATAAAAATTTTATAAAACATAT
Found at i:75800924 original size:18 final size:17
Alignment explanation
Indices: 75800873--75800925 Score: 61
Period size: 19 Copynumber: 2.9 Consensus size: 17
75800863 AAAACATATA
*
75800873 TTAAAAATCTAATAAATT
1 TTAAAAAT-TAAAAAATT
75800891 TTAATAAATTATAAAAATT
1 TTAA-AAATTA-AAAAATT
75800910 TTATAAAATTAAAAAA
1 TTA-AAAATTAAAAAA
75800926 AACACATTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
18 11 0.35
19 19 0.61
20 1 0.03
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (17 bp):
TTAAAAATTAAAAAATT
Found at i:75800972 original size:19 final size:20
Alignment explanation
Indices: 75800950--75800997 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
75800940 ATTCAAAATT
75800950 TTATAAAAATGTATA-AAA-A
1 TTATAAAAAT-TATATAAACA
75800969 TTATTAAAAATTATATAAACA
1 TTA-TAAAAATTATATAAACA
75800990 -TATAAAAA
1 TTATAAAAA
75800998 ATCATAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
19 13 0.50
20 12 0.46
21 1 0.04
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.33
Consensus pattern (20 bp):
TTATAAAAATTATATAAACA
Found at i:75800977 original size:9 final size:9
Alignment explanation
Indices: 75800950--75801007 Score: 55
Period size: 10 Copynumber: 6.0 Consensus size: 9
75800940 ATTCAAAATT
75800950 TTATAAAAA
1 TTATAAAAA
75800959 TGTATAAAAA
1 T-TATAAAAA
75800969 TTATTAAAAA
1 TTA-TAAAAA
75800979 TTATATAAACA
1 TTATA-AAA-A
75800990 -TATAAAAAA
1 TTAT-AAAAA
*
75800999 TCATAAAAA
1 TTATAAAAA
75801008 AATAAACTAG
Statistics
Matches: 42, Mismatches: 1, Indels: 12
0.76 0.02 0.22
Matches are distributed among these distances:
9 11 0.26
10 29 0.69
11 2 0.05
ACGTcount: A:0.64, C:0.03, G:0.02, T:0.31
Consensus pattern (9 bp):
TTATAAAAA
Found at i:75801005 original size:29 final size:31
Alignment explanation
Indices: 75800935--75801008 Score: 80
Period size: 31 Copynumber: 2.5 Consensus size: 31
75800925 AAACACATTT
* * *
75800935 AAAAT-ATTCAAAATTTTATAAAAATGTATA
1 AAAATCATTAAAAATTATATAAAAATATATA
* *
75800965 AAAATTATTAAAAATTATATAAACATATA-A
1 AAAATCATTAAAAATTATATAAAAATATATA
*
75800995 AAAATCATAAAAAA
1 AAAATCATTAAAAA
75801009 ATAAACTAGA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
30 18 0.49
31 19 0.51
ACGTcount: A:0.64, C:0.04, G:0.01, T:0.31
Consensus pattern (31 bp):
AAAATCATTAAAAATTATATAAAAATATATA
Found at i:75801786 original size:20 final size:20
Alignment explanation
Indices: 75801748--75801784 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 20
75801738 AAAAAAAATT
75801748 AATTTCTTTCCTATTTTTAC
1 AATTTCTTTCCTATTTTTAC
*
75801768 AATTT-TTTTCTATTTTT
1 AATTTCTTTCCTATTTTT
75801785 TATTTTTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 11 0.69
20 5 0.31
ACGTcount: A:0.19, C:0.14, G:0.00, T:0.68
Consensus pattern (20 bp):
AATTTCTTTCCTATTTTTAC
Found at i:75805870 original size:16 final size:16
Alignment explanation
Indices: 75805846--75805881 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
75805836 AGTTTAGATA
*
75805846 TTATTTTATTTTTATC
1 TTATCTTATTTTTATC
*
75805862 TTATCTTATTTTTATT
1 TTATCTTATTTTTATC
75805878 TTAT
1 TTAT
75805882 TTTGAAATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.19, C:0.06, G:0.00, T:0.75
Consensus pattern (16 bp):
TTATCTTATTTTTATC
Found at i:75809497 original size:26 final size:26
Alignment explanation
Indices: 75809462--75809512 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
75809452 AATGTGAAAG
*
75809462 GGGGTTGCTATGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
75809488 GGGGTTGCTAAGTGCTGATTCCCCG
1 GGGGTTGCTAAGTGCTGATTCCCCG
75809513 GTTCATTGGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.12, C:0.24, G:0.35, T:0.29
Consensus pattern (26 bp):
GGGGTTGCTAAGTGCTGATTCCCCGA
Found at i:75809511 original size:101 final size:103
Alignment explanation
Indices: 75809386--75809606 Score: 349
Period size: 103 Copynumber: 2.2 Consensus size: 103
75809376 TGTATATAAA
** * *
75809386 AGGGGTTGCTGTGTGCTGATTCCCCGATTTATGGGTGGTG-ATGTGCG-TGATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCAAGTGCGAT-ATCCACCATATCTT
75809449 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATT-CCCCG
65 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
* *
75809487 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGC-AAGTGCGATATCCACCATATCTT
75809552 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
65 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
75809591 AGGGGTTGCTAAGTGC
1 AGGGGTTGCTAAGTGC
75809607 GATATCCATT
Statistics
Matches: 110, Mismatches: 6, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
101 35 0.32
103 53 0.48
104 22 0.20
ACGTcount: A:0.18, C:0.19, G:0.32, T:0.31
Consensus pattern (103 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCAAGTGCGATATCCACCATATCTTT
GAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:75809656 original size:70 final size:70
Alignment explanation
Indices: 75809525--75809674 Score: 230
Period size: 70 Copynumber: 2.1 Consensus size: 70
75809515 TCATTGGTGG
* *
75809525 TGCTAAGTGCGATATCCACCATATCTTTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAA-GTGAAAAGGGGTTGCTATGTGCTGATTCCCCC
75809590 GAGGGGT
65 GA-GGGT
***
75809597 TGCTAAGTGCGATATCCATTGTATATTTGAAA-TGAAAAGGGGTTGCTATGTGCTGATTCCCCCG
1 TGCTAAGTGCGATATCCACCATATATTTGAAAGTGAAAAGGGGTTGCTATGTGCTGATTCCCCCG
75809661 AGGGT
66 AGGGT
75809666 TGCTAAGTG
1 TGCTAAGTG
75809675 ATGATTCCCC
Statistics
Matches: 73, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
69 13 0.18
70 32 0.44
72 28 0.38
ACGTcount: A:0.23, C:0.17, G:0.29, T:0.31
Consensus pattern (70 bp):
TGCTAAGTGCGATATCCACCATATATTTGAAAGTGAAAAGGGGTTGCTATGTGCTGATTCCCCCG
AGGGT
Found at i:75817032 original size:27 final size:27
Alignment explanation
Indices: 75816990--75817041 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
75816980 GAAATGTGAA
*
75816990 AGGGGTTGTTATGTGCTGATTCCCCCG
1 AGGGGTTGTTAAGTGCTGATTCCCCCG
75817017 AGGGGTTGTTAAGTGCTGATTCCCC
1 AGGGGTTGTTAAGTGCTGATTCCCC
75817042 GGTTCATTGG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.13, C:0.21, G:0.33, T:0.33
Consensus pattern (27 bp):
AGGGGTTGTTAAGTGCTGATTCCCCCG
Found at i:75817072 original size:102 final size:99
Alignment explanation
Indices: 75816917--75817133 Score: 303
Period size: 103 Copynumber: 2.2 Consensus size: 99
75816907 TGTATATAAA
** * *
75816917 AGGGGTTGCTGTGTGCTGATTCCCGATTTATGGTGGTGCTATGTGCGTGATCCA-CATATCTTTG
1 AGGGGTTGCTAAGTGCTGATTCCCGATTCATGGTGGTGCTAAGTGCGTGATCCACCATATCTTTG
*
75816981 AAATGTGAAAGGGGTTGTTATGTGCTGATTCCCCCG
66 AAATGTGAAAGGGGTTGCTATGTGCTGATT--CCCG
* *
75817017 AGGGGTTGTTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATT-CCCGATTCA-TGGTGGTGCTAAGTGCG-TGATCCACCATATCT
*
75817081 TTGAAATGTGAAGGGGGTTGCTATGTGCTGATTCCCG
63 TTGAAATGTGAAAGGGGTTGCTATGTGCTGATTCCCG
75817118 AGGGGTTGCTAAGTGC
1 AGGGGTTGCTAAGTGC
75817134 GATATCCATT
Statistics
Matches: 104, Mismatches: 9, Indels: 7
0.87 0.08 0.06
Matches are distributed among these distances:
100 18 0.17
101 26 0.25
102 21 0.20
103 39 0.38
ACGTcount: A:0.18, C:0.17, G:0.32, T:0.33
Consensus pattern (99 bp):
AGGGGTTGCTAAGTGCTGATTCCCGATTCATGGTGGTGCTAAGTGCGTGATCCACCATATCTTTG
AAATGTGAAAGGGGTTGCTATGTGCTGATTCCCG
Found at i:75817187 original size:69 final size:69
Alignment explanation
Indices: 75817055--75817201 Score: 208
Period size: 69 Copynumber: 2.1 Consensus size: 69
75817045 TCATTGGTGG
* * *
75817055 TGCTAAGTGCGATATCCACCATATCTTTGAAATGTGAAGGGGGTTGCTATGTGCTGATTCCCGAG
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGTTGCTATGTGCTGATTCCCGAG
75817120 GGGT
66 GGGT
***
75817124 TGCTAAGTGCGATATCCATTGTATATTTG-AATG-AAAAGGGGTTGCTATGTGCTGATTCCCCCG
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGTTGCTATGTGCTGATT--CCCG
75817187 AGGGGT
64 AGGGGT
75817193 TGCTAAGTG
1 TGCTAAGTG
75817202 ATGATTCCCC
Statistics
Matches: 70, Mismatches: 6, Indels: 4
0.88 0.08 0.05
Matches are distributed among these distances:
67 22 0.31
68 4 0.06
69 44 0.63
ACGTcount: A:0.22, C:0.16, G:0.30, T:0.31
Consensus pattern (69 bp):
TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGTTGCTATGTGCTGATTCCCGAG
GGGT
Found at i:75817206 original size:27 final size:27
Alignment explanation
Indices: 75817160--75817211 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
75817150 TTGAATGAAA
* *
75817160 AGGGGTTGCTATGTGCTGATTCCCCCG
1 AGGGGTTGCTAAGTGATGATTCCCCCG
75817187 AGGGGTTGCTAAGTGATGATTCCCC
1 AGGGGTTGCTAAGTGATGATTCCCC
75817212 GATTCAGTGG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.15, C:0.23, G:0.33, T:0.29
Consensus pattern (27 bp):
AGGGGTTGCTAAGTGATGATTCCCCCG
Found at i:75819454 original size:9 final size:8
Alignment explanation
Indices: 75819430--75819459 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
75819420 CACTAGAGAC
75819430 CAGTGTTA
1 CAGTGTTA
75819438 CAGTGTTA
1 CAGTGTTA
75819446 CATGTGTTA
1 CA-GTGTTA
75819455 CAGTG
1 CAGTG
75819460 AGTCCCGGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 13 0.62
9 8 0.38
ACGTcount: A:0.23, C:0.13, G:0.27, T:0.37
Consensus pattern (8 bp):
CAGTGTTA
Found at i:75819588 original size:22 final size:23
Alignment explanation
Indices: 75819545--75819617 Score: 114
Period size: 23 Copynumber: 3.3 Consensus size: 23
75819535 AGTGTATTGA
75819545 TCAGTGGTAGCTTCGGCTACATT
1 TCAGTGGTAGCTTCGGCTACATT
75819568 TCAGTGGTAGCTTC-GCTACA-T
1 TCAGTGGTAGCTTCGGCTACATT
* *
75819589 ACAGTGGTAGCTTCGGCTACATA
1 TCAGTGGTAGCTTCGGCTACATT
75819612 TCAGTG
1 TCAGTG
75819618 TGGCACTTAT
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
21 14 0.31
22 12 0.27
23 19 0.42
ACGTcount: A:0.21, C:0.22, G:0.26, T:0.32
Consensus pattern (23 bp):
TCAGTGGTAGCTTCGGCTACATT
Found at i:75826560 original size:18 final size:17
Alignment explanation
Indices: 75826527--75826565 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
75826517 TTGTATAAAT
75826527 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
75826545 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
75826562 TGTG
1 TGTG
75826566 GAAGGAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:75826805 original size:23 final size:23
Alignment explanation
Indices: 75826778--75826853 Score: 143
Period size: 23 Copynumber: 3.3 Consensus size: 23
75826768 CAGTGTTATG
75826778 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
75826801 TTCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
75826824 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
75826847 ATCAGTG
1 ATCAGTG
75826854 TGGCACTTAT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 51 1.00
ACGTcount: A:0.21, C:0.21, G:0.26, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:75830769 original size:18 final size:18
Alignment explanation
Indices: 75830746--75830780 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
75830736 AAAAAGGTTA
75830746 TAAAAAATATTAAAAATT
1 TAAAAAATATTAAAAATT
*
75830764 TAAAAAATTTTAAAAAT
1 TAAAAAATATTAAAAAT
75830781 GTATTAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (18 bp):
TAAAAAATATTAAAAATT
Found at i:75830828 original size:21 final size:20
Alignment explanation
Indices: 75830767--75830915 Score: 92
Period size: 20 Copynumber: 7.4 Consensus size: 20
75830757 AAAAATTTAA
* *
75830767 AAAATTTTAAAAAT-GTATT
1 AAAATTGTAAAAATATTATT
* *
75830786 AAAAATGTAAATA-ATTATT
1 AAAATTGTAAAAATATTATT
75830805 AAATATTGTCAAAAATATT-TT
1 AAA-ATTGT-AAAAATATTATT
*
75830826 AAAATTGTAAAAAAATTATT
1 AAAATTGTAAAAATATTATT
* * *
75830846 AAAATTATAAAAAAAATCATTT
1 AAAATTGT-AAAAATATTA-TT
* *
75830868 AAATTTGTTAAAA-ATTATT
1 AAAATTGTAAAAATATTATT
** *
75830887 AACAACAGTAAATA-ATTATT
1 AA-AATTGTAAAAATATTATT
75830907 AAAAATTGT
1 -AAAATTGT
75830916 GAAATTTCTA
Statistics
Matches: 101, Mismatches: 20, Indels: 17
0.73 0.14 0.12
Matches are distributed among these distances:
19 29 0.29
20 37 0.37
21 24 0.24
22 11 0.11
ACGTcount: A:0.55, C:0.03, G:0.05, T:0.38
Consensus pattern (20 bp):
AAAATTGTAAAAATATTATT
Found at i:75830849 original size:10 final size:10
Alignment explanation
Indices: 75830746--75830913 Score: 71
Period size: 10 Copynumber: 16.8 Consensus size: 10
75830736 AAAAAGGTTA
*
75830746 TAAAAAATAT
1 TAAAAATTAT
75830756 TAAAAATT-T
1 TAAAAATTAT
*
75830765 AAAAAATT-T
1 TAAAAATTAT
75830774 TAAAAATGTAT
1 TAAAAAT-TAT
75830785 TAAAAATGTA-
1 TAAAAAT-TAT
*
75830795 -AATAATTAT
1 TAAAAATTAT
* *
75830804 TAAATATTGT
1 TAAAAATTAT
*
75830814 CAAAAA-TATT
1 TAAAAATTA-T
* *
75830824 TTAAAATTGT
1 TAAAAATTAT
*
75830834 AAAAAAATTAT
1 -TAAAAATTAT
75830845 T-AAAATTAT
1 TAAAAATTAT
* *
75830854 AAAAAAAATCAT
1 --TAAAAATTAT
* * *
75830866 TTAAATTTGT
1 TAAAAATTAT
75830876 TAAAAATTAT
1 TAAAAATTAT
* * *
75830886 TAACAA-CAG
1 TAAAAATTAT
75830895 TAAATAATTAT
1 TAAA-AATTAT
75830906 TAAAAATT
1 TAAAAATT
75830914 GTGAAATTTC
Statistics
Matches: 113, Mismatches: 33, Indels: 24
0.66 0.19 0.14
Matches are distributed among these distances:
8 2 0.02
9 33 0.29
10 47 0.42
11 24 0.21
12 7 0.06
ACGTcount: A:0.57, C:0.02, G:0.04, T:0.37
Consensus pattern (10 bp):
TAAAAATTAT
Found at i:75830860 original size:41 final size:40
Alignment explanation
Indices: 75830775--75830888 Score: 113
Period size: 40 Copynumber: 2.8 Consensus size: 40
75830765 AAAAAATTTT
* * * * * *
75830775 AAAAATGTATTAAAAATGTAAATAATTATTAAATATTGTC
1 AAAAATATTTTAAAATTGTAAAAAATTATTAAATATTATA
75830815 AAAAATATTTTAAAATTGTAAAAAAATTATTAAA-ATTATA
1 AAAAATATTTTAAAATTGT-AAAAAATTATTAAATATTATA
* * *
75830855 AAAAAAATCATTTAAATTTGTTAAAAATTATTAA
1 AAAAATAT--TTTAAAATTGTAAAAAATTATTAA
75830889 CAACAGTAAA
Statistics
Matches: 62, Mismatches: 9, Indels: 5
0.82 0.12 0.07
Matches are distributed among these distances:
40 27 0.44
41 25 0.40
42 10 0.16
ACGTcount: A:0.56, C:0.02, G:0.04, T:0.38
Consensus pattern (40 bp):
AAAAATATTTTAAAATTGTAAAAAATTATTAAATATTATA
Found at i:75830967 original size:20 final size:19
Alignment explanation
Indices: 75830930--75831075 Score: 102
Period size: 20 Copynumber: 7.5 Consensus size: 19
75830920 TTTCTAATTA
*
75830930 AATAATTTTTTACAATTTTTT
1 AATAA-TTTTT-CAAATTTTT
*
75830951 AATAATTATTTCAATTTTTT
1 AATAATT-TTTCAAATTTTT
*
75830971 AAATAA-TTTTCAAAATTTT
1 -AATAATTTTTCAAATTTTT
* *
75830990 AATAATTTTTACAAAGTTTA
1 AATAATTTTT-CAAATTTTT
*
75831010 AATAATGTTT--AATTTTT
1 AATAATTTTTCAAATTTTT
* *
75831027 AATAATTTTT-AAAATTTA
1 AATAATTTTTCAAATTTTT
* * *
75831045 AAAATATTTTTAAAAATATTT
1 AATA-ATTTTT-CAAATTTTT
75831066 AATAATTTTT
1 AATAATTTTT
75831076 TACAATATTT
Statistics
Matches: 102, Mismatches: 15, Indels: 17
0.76 0.11 0.13
Matches are distributed among these distances:
17 14 0.14
18 13 0.13
19 20 0.20
20 34 0.33
21 21 0.21
ACGTcount: A:0.42, C:0.03, G:0.01, T:0.53
Consensus pattern (19 bp):
AATAATTTTTCAAATTTTT
Found at i:75830979 original size:18 final size:18
Alignment explanation
Indices: 75830942--75830997 Score: 51
Period size: 19 Copynumber: 3.0 Consensus size: 18
75830932 TAATTTTTTA
*
75830942 CAATTTTTTAATAATTATTT
1 CAATTTTTT-A-AATAATTT
75830962 CAATTTTTTAAATAATTTT
1 CAATTTTTTAAATAA-TTT
**
75830981 CAAAATTTT-AATAATTT
1 CAATTTTTTAAATAATTT
75830998 TTACAAAGTT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
17 3 0.09
18 9 0.28
19 11 0.34
20 9 0.28
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.55
Consensus pattern (18 bp):
CAATTTTTTAAATAATTT
Found at i:75830999 original size:10 final size:10
Alignment explanation
Indices: 75830930--75831075 Score: 78
Period size: 10 Copynumber: 15.0 Consensus size: 10
75830920 TTTCTAATTA
75830930 AATAATTTTT
1 AATAATTTTT
* *
75830940 TACAATTTTTT
1 AATAA-TTTTT
75830951 AATAATTATTT
1 AATAATT-TTT
75830962 CAAT--TTTTT
1 -AATAATTTTT
*
75830971 AAATAATTTTC
1 -AATAATTTTT
75830982 AA-AA-TTTT
1 AATAATTTTT
75830990 AATAATTTTT
1 AATAATTTTT
* *
75831000 ACA-AAGTTTA
1 A-ATAATTTTT
*
75831010 AATAA-TGTT
1 AATAATTTTT
75831019 --TAATTTTT
1 AATAATTTTT
75831027 AATAATTTTT
1 AATAATTTTT
*
75831037 AA-AA-TTTA
1 AATAATTTTT
*
75831045 AAAATATTTTT
1 AATA-ATTTTT
* *
75831056 AAAAATATTT
1 AATAATTTTT
75831066 AATAATTTTT
1 AATAATTTTT
75831076 TACAATATTT
Statistics
Matches: 104, Mismatches: 17, Indels: 30
0.69 0.11 0.20
Matches are distributed among these distances:
7 3 0.03
8 13 0.12
9 16 0.15
10 46 0.44
11 23 0.22
12 3 0.03
ACGTcount: A:0.42, C:0.03, G:0.01, T:0.53
Consensus pattern (10 bp):
AATAATTTTT
Found at i:75831058 original size:12 final size:12
Alignment explanation
Indices: 75831041--75831065 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
75831031 ATTTTTAAAA
75831041 TTTAAAAATATT
1 TTTAAAAATATT
75831053 TTTAAAAATATT
1 TTTAAAAATATT
75831065 T
1 T
75831066 AATAATTTTT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
TTTAAAAATATT
Found at i:75834659 original size:45 final size:46
Alignment explanation
Indices: 75834496--75834670 Score: 207
Period size: 45 Copynumber: 3.8 Consensus size: 46
75834486 TGGTTGAGCA
* * *
75834496 TCCGAACTCGTTGAGGTGAGTCTGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * *
75834542 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---G
75834587 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
*
75834635 -CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
75834671 CGGGTTACAT
Statistics
Matches: 110, Mismatches: 10, Indels: 19
0.79 0.07 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 38 0.35
46 27 0.25
47 29 0.26
48 3 0.03
50 4 0.04
51 3 0.03
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:75842115 original size:47 final size:47
Alignment explanation
Indices: 75841997--75842166 Score: 192
Period size: 47 Copynumber: 3.7 Consensus size: 47
75841987 GGATGGTTGA
*
75841997 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGA-GGATGCGAAT
* *
75842045 G--TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA-GATG-TAACT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGAGGATGCGAA-T
* * *
75842088 AGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGATGCGAAC
1 --GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGAGGATGCGAAT
*
75842137 GC--CCGAGCTCGTTGAGTTGAGTCCGAGTTC
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTC
75842167 TTATGGGCGG
Statistics
Matches: 106, Mismatches: 8, Indels: 19
0.80 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 30 0.28
46 29 0.27
47 31 0.29
48 3 0.03
49 4 0.04
50 2 0.02
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (47 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGAGGATGCGAAT
Found at i:75854471 original size:21 final size:21
Alignment explanation
Indices: 75854445--75854484 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
75854435 CAAAACAATG
*
75854445 TAGTTTTGTCTTTTAACTTGA
1 TAGTTTTGACTTTTAACTTGA
75854466 TAGTTTTGACTTTTAACTT
1 TAGTTTTGACTTTTAACTT
75854485 TAGAAAAGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.10, G:0.12, T:0.57
Consensus pattern (21 bp):
TAGTTTTGACTTTTAACTTGA
Found at i:75854848 original size:19 final size:18
Alignment explanation
Indices: 75854813--75854861 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
75854803 TTTTTAAAAA
*
75854813 TATAAATA-TTAGAATTT
1 TATAAATATTTTGAATTT
75854830 CTATAAATATTTTGAATTT
1 -TATAAATATTTTGAATTT
*
75854849 TAAAAATTATTTT
1 TATAAA-TATTTT
75854862 CAAATTTTGA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
18 13 0.48
19 14 0.52
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (18 bp):
TATAAATATTTTGAATTT
Found at i:75854869 original size:20 final size:21
Alignment explanation
Indices: 75854844--75854882 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
75854834 AAATATTTTG
75854844 AATTTTAAAAATTA-TTTTCA
1 AATTTTAAAAATTACTTTTCA
*
75854864 AATTTTGAAAATTACTTTT
1 AATTTTAAAAATTACTTTT
75854883 ATTTTTTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.41, C:0.05, G:0.03, T:0.51
Consensus pattern (21 bp):
AATTTTAAAAATTACTTTTCA
Found at i:75858744 original size:20 final size:19
Alignment explanation
Indices: 75858701--75858737 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
75858691 ATCCAAACAT
75858701 CAGAAAAGTAAATCATTTC
1 CAGAAAAGTAAATCATTTC
75858720 CAGAAAAGTAAATCATTT
1 CAGAAAAGTAAATCATTT
75858738 TCTAGAATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.49, C:0.14, G:0.11, T:0.27
Consensus pattern (19 bp):
CAGAAAAGTAAATCATTTC
Found at i:75859535 original size:2 final size:2
Alignment explanation
Indices: 75859523--75859558 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
75859513 GATTACAGTT
*
75859523 TA TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
75859559 AAGATAGGGA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:75867013 original size:5 final size:5
Alignment explanation
Indices: 75867003--75867030 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
75866993 TTGTGTGTTC
75867003 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
75867031 TTCACAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:75876438 original size:24 final size:25
Alignment explanation
Indices: 75876392--75876438 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
75876382 TGGCTCTCAT
*
75876392 GAGCTTCCCATTATATAGTTCTTGC
1 GAGCTTCCCATTATATAGCTCTTGC
75876417 GAGCTTCCCATTA-ATAGCTCTT
1 GAGCTTCCCATTATATAGCTCTT
75876439 CAGAGCATCC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 8 0.38
25 13 0.62
ACGTcount: A:0.21, C:0.26, G:0.15, T:0.38
Consensus pattern (25 bp):
GAGCTTCCCATTATATAGCTCTTGC
Found at i:75876444 original size:24 final size:25
Alignment explanation
Indices: 75876384--75876449 Score: 75
Period size: 24 Copynumber: 2.7 Consensus size: 25
75876374 TTTATATTTG
75876384 GCTC-TCATGAGCTTCCCATTATATA
1 GCTCTTCA-GAGCTTCCCATTATATA
*
75876409 GTTCTTGC-GAGCTTCCCATTA-ATA
1 GCTCTT-CAGAGCTTCCCATTATATA
*
75876433 GCTCTTCAGAGCATCCC
1 GCTCTTCAGAGCTTCCC
75876450 GATTGATTGT
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
23 1 0.03
24 16 0.46
25 16 0.46
26 1 0.03
27 1 0.03
ACGTcount: A:0.21, C:0.30, G:0.15, T:0.33
Consensus pattern (25 bp):
GCTCTTCAGAGCTTCCCATTATATA
Found at i:75884595 original size:21 final size:21
Alignment explanation
Indices: 75884529--75884596 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
75884519 TCATGAGAGC
* *
75884529 TAAACAGAAACCCATAAGGGT
1 TAAACGGAAACCCATAAAGGT
* * * * * * *
75884550 TGAATGGAAGCTCGTAAAAGC
1 TAAACGGAAACCCATAAAGGT
75884571 TAAACGGAAACCCATAAAGGT
1 TAAACGGAAACCCATAAAGGT
75884592 TAAAC
1 TAAAC
75884597 AAAAGCTTAA
Statistics
Matches: 31, Mismatches: 16, Indels: 0
0.66 0.34 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.46, C:0.18, G:0.21, T:0.16
Consensus pattern (21 bp):
TAAACGGAAACCCATAAAGGT
Found at i:75884665 original size:42 final size:42
Alignment explanation
Indices: 75884510--75884655 Score: 132
Period size: 42 Copynumber: 3.5 Consensus size: 42
75884500 CCGAAGGCTG
** *
75884510 AACAGAAGCTCATGAGAGCTAAACAGAAACCCATAAGGGTTG
1 AACAGAAGCTCAAAAGAGCTAAACAGAAACCCATAAGGGTTA
** * * *
75884552 AATGGAAGCTCGTAAA-AGCTAAACGGAAACCCATAAAGGTTA
1 AACAGAAGCTC-AAAAGAGCTAAACAGAAACCCATAAGGGTTA
* * *** * * *
75884594 AACAAAAGCTTAAAAGTTTTGAATAGAAACCTATAAGGGTTA
1 AACAGAAGCTCAAAAGAGCTAAACAGAAACCCATAAGGGTTA
75884636 AACAGAAGCTCAAAAGAGCT
1 AACAGAAGCTCAAAAGAGCT
75884656 GAATGGAAAC
Statistics
Matches: 76, Mismatches: 26, Indels: 4
0.72 0.25 0.04
Matches are distributed among these distances:
41 3 0.04
42 72 0.95
43 1 0.01
ACGTcount: A:0.46, C:0.16, G:0.21, T:0.18
Consensus pattern (42 bp):
AACAGAAGCTCAAAAGAGCTAAACAGAAACCCATAAGGGTTA
Found at i:75893232 original size:11 final size:11
Alignment explanation
Indices: 75893206--75893270 Score: 62
Period size: 11 Copynumber: 6.1 Consensus size: 11
75893196 ATTTTGATAT
75893206 ACATGATATG-
1 ACATGATATGC
75893216 ACATGATATGC
1 ACATGATATGC
75893227 ACATGATATG-
1 ACATGATATGC
** *
75893237 TTATGAGATGC
1 ACATGATATGC
*
75893248 ACATGATATAC
1 ACATGATATGC
* *
75893259 TCATTATATGC
1 ACATGATATGC
75893270 A
1 A
75893271 TGGGTTGGGT
Statistics
Matches: 42, Mismatches: 11, Indels: 3
0.75 0.20 0.05
Matches are distributed among these distances:
10 17 0.40
11 25 0.60
ACGTcount: A:0.37, C:0.14, G:0.17, T:0.32
Consensus pattern (11 bp):
ACATGATATGC
Found at i:75893232 original size:21 final size:21
Alignment explanation
Indices: 75893206--75893256 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
75893196 ATTTTGATAT
*
75893206 ACATGATATGACATGATATGC
1 ACATGATATGACATGAGATGC
**
75893227 ACATGATATGTTATGAGATGC
1 ACATGATATGACATGAGATGC
75893248 ACATGATAT
1 ACATGATAT
75893257 ACTCATTATA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.31
Consensus pattern (21 bp):
ACATGATATGACATGAGATGC
Found at i:75893268 original size:32 final size:31
Alignment explanation
Indices: 75893208--75893268 Score: 77
Period size: 32 Copynumber: 1.9 Consensus size: 31
75893198 TTTGATATAC
* *
75893208 ATGATATGACATGATATGCACATGATATGTT
1 ATGAGATGACATGATATACACATGATATGTT
* *
75893239 ATGAGATGCACATGATATACTCATTATATG
1 ATGAGATG-ACATGATATACACATGATATG
75893269 CATGGGTTGG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
31 7 0.28
32 18 0.72
ACGTcount: A:0.36, C:0.11, G:0.18, T:0.34
Consensus pattern (31 bp):
ATGAGATGACATGATATACACATGATATGTT
Found at i:75893340 original size:25 final size:25
Alignment explanation
Indices: 75893302--75893373 Score: 81
Period size: 25 Copynumber: 2.9 Consensus size: 25
75893292 GGAGGAAGTG
* * **
75893302 CAAAAAGGGATTTGCCTTAGTTTAC
1 CAAAAAGAGCTTTGCCCCAGTTTAC
* *
75893327 CGAAAAGAGCTTTGCCCCAGTTTAT
1 CAAAAAGAGCTTTGCCCCAGTTTAC
*
75893352 CAAAAAGGGCTTTGCCCCAGTT
1 CAAAAAGAGCTTTGCCCCAGTT
75893374 ATTAAAAGAG
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (25 bp):
CAAAAAGAGCTTTGCCCCAGTTTAC
Found at i:75893386 original size:24 final size:25
Alignment explanation
Indices: 75893320--75893386 Score: 77
Period size: 25 Copynumber: 2.7 Consensus size: 25
75893310 GATTTGCCTT
*
75893320 AGTTTACCGAAAAGA-GCTTTGCCCC
1 AGTTTATC-AAAAGAGGCTTTGCCCC
75893345 AGTTTATCAAAA-AGGGCTTTGCCCC
1 AGTTTATCAAAAGA-GGCTTTGCCCC
*
75893370 AG-TTATTAAAAGAGGCT
1 AGTTTATCAAAAGAGGCT
75893387 AGGCCTCCGG
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
23 1 0.03
24 16 0.43
25 20 0.54
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (25 bp):
AGTTTATCAAAAGAGGCTTTGCCCC
Found at i:75893659 original size:30 final size:31
Alignment explanation
Indices: 75893592--75893669 Score: 106
Period size: 31 Copynumber: 2.5 Consensus size: 31
75893582 CGCTTACAGT
* *
75893592 AAAGGCTTCGGCCCAGTGATTTGAATTTTGA
1 AAAGGCTTCGGCCCAGTGATTTAAATTATGA
75893623 AAAGGCTTCGGCCCAGTG-TTGTAAATTATG-
1 AAAGGCTTCGGCCCAGTGATT-TAAATTATGA
*
75893653 AAAGGCTTCAGCCCAGT
1 AAAGGCTTCGGCCCAGT
75893670 ATATGTCGAG
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
30 18 0.42
31 25 0.58
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.28
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATTTAAATTATGA
Found at i:75895057 original size:6 final size:6
Alignment explanation
Indices: 75895039--75895086 Score: 69
Period size: 6 Copynumber: 8.0 Consensus size: 6
75895029 TAAGTCTAAT
* * *
75895039 AAAATA ACAATA AACATA AAAATA GAAATA AAAATA AAAATA AAAATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
75895087 GAATAAATGG
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.77, C:0.04, G:0.02, T:0.17
Consensus pattern (6 bp):
AAAATA
Found at i:75895062 original size:12 final size:11
Alignment explanation
Indices: 75895036--75895093 Score: 71
Period size: 12 Copynumber: 5.0 Consensus size: 11
75895026 AAATAAGTCT
*
75895036 AATAAAATAAC
1 AATAAAATAAA
75895047 AATAAACATAAA
1 AATAAA-ATAAA
75895059 AATAGAAATAAA
1 AATA-AAATAAA
75895071 AATAAAAATAAA
1 AAT-AAAATAAA
*
75895083 AATAGAATAAA
1 AATAAAATAAA
75895094 TGGACTCAAT
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
11 13 0.31
12 26 0.62
13 3 0.07
ACGTcount: A:0.76, C:0.03, G:0.03, T:0.17
Consensus pattern (11 bp):
AATAAAATAAA
Found at i:75895062 original size:18 final size:17
Alignment explanation
Indices: 75895039--75895093 Score: 65
Period size: 18 Copynumber: 3.1 Consensus size: 17
75895029 TAAGTCTAAT
*
75895039 AAAATAACAATAAACATA
1 AAAATAAAAATAAA-ATA
*
75895057 AAAATAGAAATAAAAATA
1 AAAATAAAAAT-AAAATA
*
75895075 AAAATAAAAATAGAATA
1 AAAATAAAAATAAAATA
75895092 AA
1 AA
75895094 TGGACTCAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
17 7 0.22
18 22 0.69
19 3 0.09
ACGTcount: A:0.76, C:0.04, G:0.04, T:0.16
Consensus pattern (17 bp):
AAAATAAAAATAAAATA
Found at i:75900753 original size:41 final size:43
Alignment explanation
Indices: 75900655--75900809 Score: 167
Period size: 41 Copynumber: 3.6 Consensus size: 43
75900645 ATATCGTACA
* * *
75900655 ATGCCAAC-GTCCCAGACGTGGTCTTACATGTAATCACATATCG
1 ATGCC-ACTGTCCCAGACATGGTCTTACACGTAATCAAATATCG
*
75900698 ATGCCACTGTCCCAGACAAGGTCTTACACG-AATCAAATA-CG
1 ATGCCACTGTCCCAGACATGGTCTTACACGTAATCAAATATCG
* *
75900739 ATGCTGA-TGTCCCAGACATGGTCTTACACATAATCACATATATCG
1 ATGC-CACTGTCCCAGACATGGTCTTACACGTAATCA-A-ATATCG
*
75900784 ATGCCAAC-GTCCCAGACGTGGTCTTA
1 ATGCC-ACTGTCCCAGACATGGTCTTA
75900810 TAGGAGAACA
Statistics
Matches: 95, Mismatches: 9, Indels: 14
0.81 0.08 0.12
Matches are distributed among these distances:
41 27 0.28
42 16 0.17
43 25 0.26
44 3 0.03
45 24 0.25
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.25
Consensus pattern (43 bp):
ATGCCACTGTCCCAGACATGGTCTTACACGTAATCAAATATCG
Found at i:75904483 original size:46 final size:46
Alignment explanation
Indices: 75904348--75904483 Score: 211
Period size: 46 Copynumber: 3.0 Consensus size: 46
75904338 TTTGACATGA
* * * * *
75904348 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TATCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
75904394 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
75904440 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
75904484 AGAGCACACT
Statistics
Matches: 84, Mismatches: 5, Indels: 2
0.92 0.05 0.02
Matches are distributed among these distances:
45 4 0.05
46 80 0.95
ACGTcount: A:0.23, C:0.24, G:0.14, T:0.40
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Done.