Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D13
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: 64892201
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 176 of 221
Found at i:52484240 original size:62 final size:63
Alignment explanation
Indices: 52484139--52484259 Score: 176
Period size: 62 Copynumber: 1.9 Consensus size: 63
52484129 CCCACATGGA
** *
52484139 CTGGACACACGCCCATGTCTCTGGCTTGTGTAACTCTAATTC-CGAACAGTGAGTTACACGGC
1 CTGGACACACGCCCATGTCTCTGGCCCGTGTAACTCTAATTCACAAACAGTGAGTTACACGGC
52484201 CTGGACACACGCCCATGTC-CTTGGCCCGTGTAAAC-CTAATTCACAAACAGTGAGTTACA
1 CTGGACACACGCCCATGTCTC-TGGCCCGTGT-AACTCTAATTCACAAACAGTGAGTTACA
52484260 TAGCCTGTCA
Statistics
Matches: 53, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
61 1 0.02
62 34 0.64
63 18 0.34
ACGTcount: A:0.26, C:0.30, G:0.21, T:0.24
Consensus pattern (63 bp):
CTGGACACACGCCCATGTCTCTGGCCCGTGTAACTCTAATTCACAAACAGTGAGTTACACGGC
Found at i:52489490 original size:6 final size:6
Alignment explanation
Indices: 52489479--52489505 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
52489469 TCTATTATTA
52489479 TGATTT TGATTT TGATTT TGATTT TGA
1 TGATTT TGATTT TGATTT TGATTT TGA
52489506 AAATTTTAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.19, T:0.63
Consensus pattern (6 bp):
TGATTT
Found at i:52494682 original size:13 final size:13
Alignment explanation
Indices: 52494664--52494694 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
52494654 CACTCAATCG
52494664 GTTAATGTATCAT
1 GTTAATGTATCAT
52494677 GTTAATGTATCAT
1 GTTAATGTATCAT
52494690 GTTAA
1 GTTAA
52494695 AAAATAGTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.32, C:0.06, G:0.16, T:0.45
Consensus pattern (13 bp):
GTTAATGTATCAT
Found at i:52494742 original size:24 final size:24
Alignment explanation
Indices: 52494714--52494768 Score: 101
Period size: 24 Copynumber: 2.3 Consensus size: 24
52494704 TAGACTAATT
52494714 GGTTAATGTATCATGTTAACAATC
1 GGTTAATGTATCATGTTAACAATC
*
52494738 GGTTAATGTATCATGTTAGCAATC
1 GGTTAATGTATCATGTTAACAATC
52494762 GGTTAAT
1 GGTTAAT
52494769 CAAAACAATT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.31, C:0.11, G:0.20, T:0.38
Consensus pattern (24 bp):
GGTTAATGTATCATGTTAACAATC
Found at i:52495103 original size:10 final size:10
Alignment explanation
Indices: 52495088--52495112 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
52495078 CTAATAGAGA
52495088 TTGTTTATTT
1 TTGTTTATTT
52495098 TTGTTTATTT
1 TTGTTTATTT
52495108 TTGTT
1 TTGTT
52495113 AATTGCACTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.08, C:0.00, G:0.12, T:0.80
Consensus pattern (10 bp):
TTGTTTATTT
Found at i:52495626 original size:15 final size:15
Alignment explanation
Indices: 52495587--52495626 Score: 64
Period size: 16 Copynumber: 2.7 Consensus size: 15
52495577 CCATTTTTGA
52495587 TTTTTT-AAATTAAT
1 TTTTTTAAAATTAAT
52495601 TTTATTTAAAATTAAT
1 TTT-TTTAAAATTAAT
52495617 TTTTTTAAAA
1 TTTTTTAAAA
52495627 AATATAATAC
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
14 3 0.12
15 10 0.42
16 11 0.46
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
TTTTTTAAAATTAAT
Found at i:52503962 original size:39 final size:39
Alignment explanation
Indices: 52503919--52504094 Score: 230
Period size: 39 Copynumber: 4.5 Consensus size: 39
52503909 TCCACTTTTG
* *
52503919 AGCATATATCTCATTACACATATAATCACATAACACTT-A
1 AGCATATATCTCAATACTCATATAATCACATAACA-TTCA
* * *
52503958 AGCATATATCACAATACTCATATAATTACATAACGTTCA
1 AGCATATATCTCAATACTCATATAATCACATAACATTCA
* * *
52503997 AGCACATATCGCAATACTCATATGATCACATAACATTCA
1 AGCATATATCTCAATACTCATATAATCACATAACATTCA
52504036 AGCATATATCGT-AATACTCATATAATCACATAACATTCA
1 AGCATATATC-TCAATACTCATATAATCACATAACATTCA
* *
52504075 AGCATATGTCGCAATACTCA
1 AGCATATATCTCAATACTCA
52504095 AAAACATGTT
Statistics
Matches: 119, Mismatches: 15, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
38 2 0.02
39 117 0.98
ACGTcount: A:0.42, C:0.23, G:0.06, T:0.29
Consensus pattern (39 bp):
AGCATATATCTCAATACTCATATAATCACATAACATTCA
Found at i:52521279 original size:20 final size:20
Alignment explanation
Indices: 52521256--52521293 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
52521246 AATACATACT
52521256 TATATATTTTTAT-TATATCC
1 TATA-ATTTTTATATATATCC
52521276 TATAATTTTTATATATAT
1 TATAATTTTTATATATAT
52521294 ATGTACATAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (20 bp):
TATAATTTTTATATATATCC
Found at i:52523897 original size:45 final size:44
Alignment explanation
Indices: 52523846--52524015 Score: 156
Period size: 45 Copynumber: 3.9 Consensus size: 44
52523836 ACGATTTTCG
*
52523846 ATATGTGTTTTCGTGTAAGACCACGTCTGGGAC-GATGGCATCGAT
1 ATATGTGATTTCGTGTAAGACCACGTCTGGGACAG-TGGCATCG-T
* * * *
52523891 ATATGTGATTACGTGTAAGACCATGTCTAGGACATTGGCATCGT
1 ATATGTGATTTCGTGTAAGACCACGTCTGGGACAGTGGCATCGT
* *
52523935 AT-T-TGA-TTCGTGTAAGACC-CTGTCCGGGGCAGTGGCATCG-
1 ATATGTGATTTCGTGTAAGACCAC-GTCTGGGACAGTGGCATCGT
* ** *
52523975 ATATGAGATAGCATGTAAGACCACGTCTGGGAC-GTTGGCAT
1 ATATGTGATTTCGTGTAAGACCACGTCTGGGACAG-TGGCAT
52524016 TGTTCGATAT
Statistics
Matches: 101, Mismatches: 17, Indels: 16
0.75 0.13 0.12
Matches are distributed among these distances:
40 2 0.02
41 28 0.28
42 6 0.06
43 24 0.24
44 4 0.04
45 37 0.37
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.29
Consensus pattern (44 bp):
ATATGTGATTTCGTGTAAGACCACGTCTGGGACAGTGGCATCGT
Found at i:52527265 original size:13 final size:12
Alignment explanation
Indices: 52527235--52527265 Score: 53
Period size: 12 Copynumber: 2.5 Consensus size: 12
52527225 TTTCTTAAAC
52527235 TTTAAAAAAGTA
1 TTTAAAAAAGTA
52527247 TTTAAAAAAGTA
1 TTTAAAAAAGTA
52527259 TTGTAAA
1 TT-TAAA
52527266 TATGTTGTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 14 0.78
13 4 0.22
ACGTcount: A:0.55, C:0.00, G:0.10, T:0.35
Consensus pattern (12 bp):
TTTAAAAAAGTA
Found at i:52528558 original size:3 final size:3
Alignment explanation
Indices: 52528550--52528584 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
52528540 ATTAACAAAT
* *
52528550 TTA TTA TTA CTA TCA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
52528585 TGTTCATTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:52528933 original size:19 final size:19
Alignment explanation
Indices: 52528909--52528955 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
52528899 AACGTCTCCT
*
52528909 TTTGCATT-CATTTCATGCA
1 TTTGCATTACATTGCAT-CA
52528928 TTTGCATTACATTGCATCA
1 TTTGCATTACATTGCATCA
*
52528947 TATGCATTA
1 TTTGCATTA
52528956 GATTTTCACG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.26, C:0.19, G:0.11, T:0.45
Consensus pattern (19 bp):
TTTGCATTACATTGCATCA
Found at i:52530223 original size:17 final size:18
Alignment explanation
Indices: 52530201--52530237 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
52530191 TTATTCTTTT
52530201 ATTCTTTCATCCA-AATC
1 ATTCTTTCATCCATAATC
*
52530218 ATTCTTTCATTCATAATC
1 ATTCTTTCATCCATAATC
52530236 AT
1 AT
52530238 ATTGTACATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.30, C:0.24, G:0.00, T:0.46
Consensus pattern (18 bp):
ATTCTTTCATCCATAATC
Found at i:52530950 original size:8 final size:9
Alignment explanation
Indices: 52530931--52531003 Score: 75
Period size: 9 Copynumber: 8.3 Consensus size: 9
52530921 TCAGACTCAA
52530931 AAAAAAATTC
1 AAAAAAA-TC
52530941 -AAAAAATC
1 AAAAAAATC
52530949 AAAAAAATC
1 AAAAAAATC
52530958 AAAAAAATC
1 AAAAAAATC
52530967 AAAAAAA--
1 AAAAAAATC
52530974 AAAACAAA--
1 AAAA-AAATC
*
52530982 AATAAAAATA
1 AA-AAAAATC
52530992 AAAAAAATC
1 AAAAAAATC
52531001 AAA
1 AAA
52531004 GTCAAAAATA
Statistics
Matches: 57, Mismatches: 1, Indels: 11
0.83 0.01 0.16
Matches are distributed among these distances:
7 4 0.07
8 10 0.18
9 41 0.72
10 2 0.04
ACGTcount: A:0.81, C:0.08, G:0.00, T:0.11
Consensus pattern (9 bp):
AAAAAAATC
Found at i:52530964 original size:12 final size:12
Alignment explanation
Indices: 52530958--52530998 Score: 57
Period size: 12 Copynumber: 3.4 Consensus size: 12
52530948 CAAAAAAATC
52530958 AAAAAAATCAAA
1 AAAAAAATCAAA
*
52530970 AAAAAAAACAAA
1 AAAAAAATCAAA
52530982 AATAAAAAT-AAA
1 AA-AAAAATCAAA
52530994 AAAAA
1 AAAAA
52530999 TCAAAGTCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
11 3 0.12
12 18 0.69
13 5 0.19
ACGTcount: A:0.88, C:0.05, G:0.00, T:0.07
Consensus pattern (12 bp):
AAAAAAATCAAA
Found at i:52531025 original size:6 final size:6
Alignment explanation
Indices: 52531016--52531063 Score: 73
Period size: 6 Copynumber: 8.3 Consensus size: 6
52531006 CAAAAATAGG
*
52531016 AGAAAA AGAAAA A-AAAG A-AAAA AGAAAA AGAAAA AGAAAA AGAAAA
1 AGAAAA AGAAAA AGAAAA AGAAAA AGAAAA AGAAAA AGAAAA AGAAAA
52531062 AG
1 AG
52531064 GAGAGGTCAA
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
5 8 0.21
6 31 0.79
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (6 bp):
AGAAAA
Found at i:52531935 original size:17 final size:18
Alignment explanation
Indices: 52531902--52531942 Score: 66
Period size: 17 Copynumber: 2.3 Consensus size: 18
52531892 AAAAAACTTA
52531902 AAAAATGAATGAAAAAATG
1 AAAAATGAA-GAAAAAATG
52531921 AAAAATGAA-AAAAAATG
1 AAAAATGAAGAAAAAATG
52531938 AAAAA
1 AAAAA
52531943 GTAAAAATAG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 13 0.59
19 9 0.41
ACGTcount: A:0.76, C:0.00, G:0.12, T:0.12
Consensus pattern (18 bp):
AAAAATGAAGAAAAAATG
Found at i:52533259 original size:44 final size:44
Alignment explanation
Indices: 52533211--52533745 Score: 197
Period size: 44 Copynumber: 12.2 Consensus size: 44
52533201 AGACACAAAC
*
52533211 CTTGCCTCTCTCGATTGTGATAGAGCTGGTTGAGGACAAAAGAT
1 CTTGCCTCTCTCGATTGTGATAGAGCTGGTTGAAGACAAAAGAT
* * * *
52533255 CTTGCCT-TC-CTGCA-T-TGATAGCGAAGCAGGTCGAAGACACAA-AC
1 CTTGCCTCTCTC-G-ATTGTGATA--G-AGCTGGTTGAAGACAAAAGAT
* *
52533299 CTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACAAAAGAT
1 CTTGCCTCTCTCGATTGTGATAGAGCTGGTTGAAGACAAAAGAT
** * * * *
52533343 CTTGCCT-TC-CTGCATTGACA-ACGAAGCAGGTCGAAGACACAA-AC
1 CTTGCCTCTCTC-G-ATTGTGATA-G-AGCTGGTTGAAGACAAAAGAT
* * * ** * **
52533387 CTTGCCTCCCTCGTTTGT-AGCAGAGCTGGTCAAAGATAGCAGAT
1 CTTGCCTCTCTCGATTGTGA-TAGAGCTGGTTGAAGACAAAAGAT
** ** * ** * *
52533431 CTTGCCT-TC-CTGCATTGACAGCGAAGCAGGTCAAAGACACAA-AC
1 CTTGCCTCTCTC-G-ATTGTGATAG-AGCTGGTTGAAGACAAAAGAT
* * *
52533475 CTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACAACAGAT
1 CTTGCCTCTCTCGATTGTGATAGAGCTGGTTGAAGACAAAAGAT
** ** * * * *
52533519 CTTGCCT-TC-CTGCATTGACAGCGAAGCAGGTCGAAGACACAA-AC
1 CTTGCCTCTCTC-G-ATTGTGATAG-AGCTGGTTGAAGACAAAAGAT
* * * * *
52533563 CTTGTCTCTCTCGGTTGTAATGGAGCTGGTTGAAGACAATAGAT
1 CTTGCCTCTCTCGATTGTGATAGAGCTGGTTGAAGACAAAAGAT
* ** ** * * * *
52533607 CTTGCCTTTCT-GCATTGACAGCGAAGCAGGTCGAAGACACAA-AC
1 CTTGCCTCTCTCG-ATTGTGATAG-AGCTGGTTGAAGACAAAAGAT
* * * *
52533651 CTTGCCTCTCTCGGTTGTGATGGAGCTGATTGAAGACAAAAGAC
1 CTTGCCTCTCTCGATTGTGATAGAGCTGGTTGAAGACAAAAGAT
* * * * **
52533695 CTTGCCTCTCTCGGTTGTGATGGAGCTGGTTAAAGATAGCAGAT
1 CTTGCCTCTCTCGATTGTGATAGAGCTGGTTGAAGACAAAAGAT
52533739 CTTGCCT
1 CTTGCCT
52533746 TCCCGTACTA
Statistics
Matches: 357, Mismatches: 98, Indels: 72
0.68 0.19 0.14
Matches are distributed among these distances:
42 9 0.03
43 83 0.23
44 171 0.48
45 86 0.24
46 8 0.02
ACGTcount: A:0.26, C:0.24, G:0.25, T:0.26
Consensus pattern (44 bp):
CTTGCCTCTCTCGATTGTGATAGAGCTGGTTGAAGACAAAAGAT
Found at i:52533306 original size:88 final size:88
Alignment explanation
Indices: 52533153--52533701 Score: 877
Period size: 88 Copynumber: 6.2 Consensus size: 88
52533143 AACAGATCAG
*
52533153 TGAAGACAACAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
1 TGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
* *
52533218 CTCTCGATTGTGATAGAGCTGGT
66 CTCTCGGTTGTGATGGAGCTGGT
* *
52533241 TGAGGACAAAAGATCTTGCCTTCCTGCATTGATAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
1 TGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
52533306 CTCTCGGTTGTGATGGAGCTGGT
66 CTCTCGGTTGTGATGGAGCTGGT
*
52533329 TGAAGACAAAAGATCTTGCCTTCCTGCATTGACAACGAAGCAGGTCGAAGACACAAACCTTGCCT
1 TGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
* *
52533394 CCCTCGTTTGT-A-GCAGAGCTGGT
66 CTCTCGGTTGTGATG--GAGCTGGT
** * ** *
52533417 CAAAGATAGCAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCAAAGACACAAACCTTGCCT
1 TGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
52533482 CTCTCGGTTGTGATGGAGCTGGT
66 CTCTCGGTTGTGATGGAGCTGGT
* *
52533505 TGAAGACAACAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGTCT
1 TGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
*
52533570 CTCTCGGTTGTAATGGAGCTGGT
66 CTCTCGGTTGTGATGGAGCTGGT
* *
52533593 TGAAGACAATAGATCTTGCCTTTCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
1 TGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
*
52533658 CTCTCGGTTGTGATGGAGCTGAT
66 CTCTCGGTTGTGATGGAGCTGGT
*
52533681 TGAAGACAAAAGACCTTGCCT
1 TGAAGACAAAAGATCTTGCCT
52533702 CTCTCGGTTG
Statistics
Matches: 424, Mismatches: 33, Indels: 8
0.91 0.07 0.02
Matches are distributed among these distances:
86 1 0.00
87 1 0.00
88 420 0.99
89 1 0.00
90 1 0.00
ACGTcount: A:0.27, C:0.24, G:0.25, T:0.24
Consensus pattern (88 bp):
TGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
CTCTCGGTTGTGATGGAGCTGGT
Found at i:52533788 original size:176 final size:172
Alignment explanation
Indices: 52533153--52533819 Score: 620
Period size: 176 Copynumber: 3.8 Consensus size: 172
52533143 AACAGATCAG
*
52533153 TGAAGACAACAGATCTTGCCTTCCTGCA-T-TGACAGCGAAGCAGGTCGAAGACACAAACCTTGC
1 TGAAGACAAAAGATCTTGCCTTCCTG-ATTGTGA-AG-G-AGCAGGTCGAAGACACAAACCTTGC
* ** ** * * ** *
52533216 CTCTCTCGAT-TGTGATAGAGCTGGTTGAGGACAAAAGATCTTGCCTTCCTGCATTGATAGCGAA
62 CT-TCCCG-TCTAAGCGA-AGCTGGTCGAAGACACTAGATCTTGCCTTCCTGCATTGACAGCGAA
52533280 GCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGT
124 GCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGT
** *
52533329 TGAAGACAAAAGATCTTGCCTTCCTGCATTGACAACGAAGCAGGTCGAAGACACAAACCTTGCCT
1 TGAAGACAAAAGATCTTGCCTTCCTG-ATTGTGAA-GGAGCAGGTCGAAGACACAAACCTTGCCT
* * * * *
52533394 CCCTCGTTTGTAGC-AGAGCTGGTCAAAGATAGC-AGATCTTGCCTTCCTGCATTGACAGCGAAG
64 TCC-CGTCT-AAGCGA-AGCTGGTCGAAGACA-CTAGATCTTGCCTTCCTGCATTGACAGCGAAG
*
52533457 CAGGTCAAAGACACAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGT
125 CAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGT
* *
52533505 TGAAGACAACAGATCTTGCCTTCCTGCA-T-TGACAGCGAAGCAGGTCGAAGACACAAACCTTGT
1 TGAAGACAAAAGATCTTGCCTTCCTG-ATTGTGA-AG-G-AGCAGGTCGAAGACACAAACCTTGC
* * * * *
52533568 CTCTCTCGGTTGTAATG-G-AGCTGGTTGAAGACAATAGATCTTGCCTTTCTGCATTGACAGCGA
62 CT-TC-CCG-TCTAA-GCGAAGCTGGTCGAAGACACTAGATCTTGCCTTCCTGCATTGACAGCGA
*
52533631 AGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGAT
123 AGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGT
* * * * ** * * *
52533681 TGAAGACAAAAGACCTTGCC-TCTCTCGGTTGTGATGGAGCTGGTTAAAGATAGCAGATCTTGCC
1 TGAAGACAAAAGATCTTGCCTTC-CT-GATTGTGAAGGAGCAGGTCGAAGACA-CAAACCTTGCC
* * * *
52533745 TTCCCGTACTAACGGCGAAGC-GGATCGAAGACACTAG-TCTTGCCTTCCTGTACTCATAGCGAA
63 TTCCCGT-CTAA--GCGAAGCTGG-TCGAAGACACTAGATCTTGCCTTCCTGCATTGACAGCGAA
*
52533808 GCAGATCGAAGA
124 GCAGGTCGAAGA
52533820 AACCATAGTT
Statistics
Matches: 411, Mismatches: 54, Indels: 52
0.79 0.10 0.10
Matches are distributed among these distances:
173 1 0.00
174 7 0.02
175 20 0.05
176 351 0.85
177 23 0.06
178 9 0.02
ACGTcount: A:0.27, C:0.24, G:0.25, T:0.24
Consensus pattern (172 bp):
TGAAGACAAAAGATCTTGCCTTCCTGATTGTGAAGGAGCAGGTCGAAGACACAAACCTTGCCTTC
CCGTCTAAGCGAAGCTGGTCGAAGACACTAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTC
GAAGACACAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGT
Found at i:52533882 original size:45 final size:45
Alignment explanation
Indices: 52533831--52534013 Score: 177
Period size: 50 Copynumber: 3.8 Consensus size: 45
52533821 ACCATAGTTT
*
52533831 GCAGTTAAAGAGATTGAAGCTACAACAGCGGATCTTGCTTCCCTG
1 GCAGTTAAAGAGATTGAAGCTACAACAGCGGATCTTACTTCCCTG
* * * *
52533876 GCAGTTAAAGATATTGAAGCTACAATAGCGGATCTTATTTTCCTAGCGTT
1 GCAGTTAAAGAGATTGAAGCTACAACAGCGGATCTTA-CTTCC---C-TG
** *
52533926 GCAGTGGAACAGATTGAAGCTACAACAGCGGATCTTACTTCCCTG
1 GCAGTTAAAGAGATTGAAGCTACAACAGCGGATCTTACTTCCCTG
* * *
52533971 ACATTGCAATTAAAAAGATTGAAGCTACAACAGCAGATCTTAC
1 -----GCAGTTAAAGAGATTGAAGCTACAACAGCGGATCTTAC
52534014 CCCCTTGACG
Statistics
Matches: 111, Mismatches: 17, Indels: 15
0.78 0.12 0.10
Matches are distributed among these distances:
45 35 0.32
46 5 0.05
49 5 0.05
50 66 0.59
ACGTcount: A:0.33, C:0.20, G:0.21, T:0.26
Consensus pattern (45 bp):
GCAGTTAAAGAGATTGAAGCTACAACAGCGGATCTTACTTCCCTG
Found at i:52534030 original size:100 final size:95
Alignment explanation
Indices: 52533841--52534034 Score: 237
Period size: 100 Copynumber: 2.0 Consensus size: 95
52533831 GCAGTTAAAG
* * * * * *
52533841 AGATTGAAGCTACAACAGCGGATCTTGCTTCCCTGGCAGTTAAAGATATTGAAGCTACAATAGCG
1 AGATTGAAGCTACAACAGCGGATCTTACTTCCCTGGCAATTAAAAAGATTGAAGCTACAACAGCA
***
52533906 GATCTTATTTTCCTAGCGTTGCAGTGGAAC
66 GATCTTATCCCCCTAGCGTTGCAGTGGAAC
52533936 AGATTGAAGCTACAACAGCGGATCTTACTTCCCTGACATTGCAATTAAAAAGATTGAAGCTACAA
1 AGATTGAAGCTACAACAGCGGATCTTACTTCCCTG-----GCAATTAAAAAGATTGAAGCTACAA
*
52534001 CAGCAGATCTTA-CCCCCTTGACGTTGCAGTGGAA
61 CAGCAGATCTTATCCCCCTAG-CGTTGCAGTGGAA
52534035 TAGAATAAAA
Statistics
Matches: 83, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
95 34 0.41
99 4 0.05
100 45 0.54
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.26
Consensus pattern (95 bp):
AGATTGAAGCTACAACAGCGGATCTTACTTCCCTGGCAATTAAAAAGATTGAAGCTACAACAGCA
GATCTTATCCCCCTAGCGTTGCAGTGGAAC
Found at i:52548322 original size:54 final size:54
Alignment explanation
Indices: 52548258--52548367 Score: 202
Period size: 54 Copynumber: 2.0 Consensus size: 54
52548248 ACATAAATGC
52548258 ACAACATAACCCGCATAAAAGATACACCAAATTGCATCCCAAACATTGCATATA
1 ACAACATAACCCGCATAAAAGATACACCAAATTGCATCCCAAACATTGCATATA
* *
52548312 ACAACATAACCTGCATAAAAGATACACCAAATTGCATCCCAAACATTGGATATA
1 ACAACATAACCCGCATAAAAGATACACCAAATTGCATCCCAAACATTGCATATA
52548366 AC
1 AC
52548368 CATTACCAAA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.46, C:0.26, G:0.08, T:0.19
Consensus pattern (54 bp):
ACAACATAACCCGCATAAAAGATACACCAAATTGCATCCCAAACATTGCATATA
Found at i:52550329 original size:22 final size:22
Alignment explanation
Indices: 52550285--52550329 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
52550275 CTAGTCGTTA
* * *
52550285 CACCATGCTTTAATGTGATGAC
1 CACCATGATTTAATGTCACGAC
*
52550307 CACCATGATTTCATGTCACGAC
1 CACCATGATTTAATGTCACGAC
52550329 C
1 C
52550330 TGAGTTGTTG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.27, C:0.29, G:0.16, T:0.29
Consensus pattern (22 bp):
CACCATGATTTAATGTCACGAC
Found at i:52550948 original size:43 final size:43
Alignment explanation
Indices: 52550886--52551231 Score: 448
Period size: 42 Copynumber: 8.1 Consensus size: 43
52550876 TGCGGCGTTT
** *
52550886 TTTTTCCCACAAACGCCGCTATAGATCCGGACCTTTAGTGGCGC
1 TTTTT-CCACAAACGCCGCTATAGATCAAGACCTTTAGCGGCGC
* **
52550930 TTTTTCCACAAACGCCGCTATAGATCATGACCTTTAGCGATGC
1 TTTTTCCACAAACGCCGCTATAGATCAAGACCTTTAGCGGCGC
* * * *
52550973 -TTTTACACAAACGCCGCTATAGCTCAGGATCTTTAGCGGCGC
1 TTTTTCCACAAACGCCGCTATAGATCAAGACCTTTAGCGGCGC
* * *
52551015 TTTTT-TACAAACGCCGGTATAGATCAAGACATTTAGCGGCGC
1 TTTTTCCACAAACGCCGCTATAGATCAAGACCTTTAGCGGCGC
*
52551057 TTTTT-TACAAACGCCGCTATAGATCAAGACCTTTAGCGGCGC
1 TTTTTCCACAAACGCCGCTATAGATCAAGACCTTTAGCGGCGC
*
52551099 TTTTTTCACAAACGCCGCTATAGATCAAGACCTTTAGCGGCGC
1 TTTTTCCACAAACGCCGCTATAGATCAAGACCTTTAGCGGCGC
* * *
52551142 -TTTTCTCACAAACGCCGCTATAGATCATGATCTTTAGCGACGC
1 TTTTTC-CACAAACGCCGCTATAGATCAAGACCTTTAGCGGCGC
* * *
52551185 TTTTTTTCACAAACGCCGCTATAGCTCAAGACCTTTAGCGACGC
1 -TTTTTCCACAAACGCCGCTATAGATCAAGACCTTTAGCGGCGC
52551229 TTT
1 TTT
52551232 GATTACAAAC
Statistics
Matches: 269, Mismatches: 28, Indels: 11
0.87 0.09 0.04
Matches are distributed among these distances:
42 116 0.43
43 110 0.41
44 39 0.14
45 4 0.01
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.29
Consensus pattern (43 bp):
TTTTTCCACAAACGCCGCTATAGATCAAGACCTTTAGCGGCGC
Found at i:52551007 original size:42 final size:42
Alignment explanation
Indices: 52550893--52551248 Score: 462
Period size: 43 Copynumber: 8.3 Consensus size: 42
52550883 TTTTTTTTCC
** *
52550893 CACAAACGCCGCTATAGATCCGGACCTTTAGTGGCGCTTTTT
1 CACAAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTT
* ** *
52550935 CCACAAACGCCGCTATAGATCATGACCTTTAGCGATGCTTTTA
1 -CACAAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTT
* * *
52550978 CACAAACGCCGCTATAGCTCAGGATCTTTAGCGGCGCTTTTT
1 CACAAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTT
* * *
52551020 TACAAACGCCGGTATAGATCAAGACATTTAGCGGCGCTTTTT
1 CACAAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTT
*
52551062 TACAAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTTT
1 CACAAACGCCGCTATAGATCAAGACCTTTAGCGGCGC-TTTTT
52551105 CACAAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCT
1 CACAAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTT-T
* * *
52551148 CACAAACGCCGCTATAGATCATGATCTTTAGCGACGCTTTTTTT
1 CACAAACGCCGCTATAGATCAAGACCTTTAGCGGCGC--TTTTT
* *
52551192 CACAAACGCCGCTATAGCTCAAGACCTTTAGCGACGCTTTGATT
1 CACAAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTT--TT
*
52551236 -ACAAACGTCGCTA
1 CACAAACGCCGCTA
52551249 AAAATATCGT
Statistics
Matches: 279, Mismatches: 28, Indels: 12
0.87 0.09 0.04
Matches are distributed among these distances:
42 114 0.41
43 124 0.44
44 37 0.13
45 4 0.01
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.28
Consensus pattern (42 bp):
CACAAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTT
Found at i:52551008 original size:85 final size:85
Alignment explanation
Indices: 52550893--52551248 Score: 491
Period size: 85 Copynumber: 4.2 Consensus size: 85
52550883 TTTTTTTTCC
* * * *
52550893 CACAAACGCCGCTATAGATCCGGACCTTTAGTGGCGCTTTTTCCACAAACGCCGCTATAGATCAT
1 CACAAACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTTTCACAAACGCCGCTATAGATCAA
* *
52550958 GACCTTTAGCGATGCTTTTA
66 GACCTTTAGCGACGCTTTTT
* * *
52550978 CACAAACGCCGCTATAGCTCAGGATCTTTAGCGGCGCTTTTTT-ACAAACGCCGGTATAGATCAA
1 CACAAACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTTTCACAAACGCCGCTATAGATCAA
* *
52551042 GACATTTAGCGGCGCTTTTT
66 GACCTTTAGCGACGCTTTTT
* *
52551062 TACAAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTTTCACAAACGCCGCTATAGATCAA
1 CACAAACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTTTCACAAACGCCGCTATAGATCAA
*
52551127 GACCTTTAGCGGCGCTTTTCT
66 GACCTTTAGCGACGCTTTT-T
* * * *
52551148 CACAAACGCCGCTATAGATCATGATCTTTAGCGACGCTTTTTTTCACAAACGCCGCTATAGCTCA
1 CACAAACGCCGCTATAGATCAGGACCTTTAGCGGCGC-TTTTTTCACAAACGCCGCTATAGATCA
52551213 AGACCTTTAGCGACGCTTTGATT
65 AGACCTTTAGCGACGCTTT--TT
*
52551236 -ACAAACGTCGCTA
1 CACAAACGCCGCTA
52551249 AAAATATCGT
Statistics
Matches: 242, Mismatches: 24, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
84 74 0.31
85 76 0.31
86 34 0.14
87 56 0.23
88 1 0.00
89 1 0.00
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.28
Consensus pattern (85 bp):
CACAAACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTTTCACAAACGCCGCTATAGATCAA
GACCTTTAGCGACGCTTTTT
Found at i:52555788 original size:16 final size:17
Alignment explanation
Indices: 52555769--52555815 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 17
52555759 AAGAGGACTG
*
52555769 GAAGCAATCA-ATGATT
1 GAAGAAATCAGATGATT
52555785 GAAGAAATCAGGATGATT
1 GAAGAAATCA-GATGATT
*
52555803 GAAAAGAATCAGA
1 GAAGA-AATCAGA
52555816 CCTGGAGTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
16 9 0.35
18 12 0.46
19 5 0.19
ACGTcount: A:0.49, C:0.09, G:0.23, T:0.19
Consensus pattern (17 bp):
GAAGAAATCAGATGATT
Found at i:52555814 original size:19 final size:18
Alignment explanation
Indices: 52555779--52555814 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
52555769 GAAGCAATCA
*
52555779 ATGATTGAAGAAATCAGG
1 ATGATTGAAAAAATCAGG
52555797 ATGATTGAAAAGAATCAG
1 ATGATTGAAAA-AATCAG
52555815 ACCTGGAGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.47, C:0.06, G:0.25, T:0.22
Consensus pattern (18 bp):
ATGATTGAAAAAATCAGG
Found at i:52563239 original size:47 final size:47
Alignment explanation
Indices: 52563185--52563277 Score: 141
Period size: 47 Copynumber: 2.0 Consensus size: 47
52563175 ATCAAGCTCA
* * * *
52563185 CCTAGAAGGCTAAATGGAACTCGCCAGGTAAAGTATAAGTAAATCCG
1 CCTAGAAGCCTAAATGGAACTCACCAGGTAAAGCATAAATAAATCCG
*
52563232 CCTAGAAGCCTAAATGGAGCTCACCAGGTAAAGCATAAATAAATCC
1 CCTAGAAGCCTAAATGGAACTCACCAGGTAAAGCATAAATAAATCC
52563278 AAATTATACT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 41 1.00
ACGTcount: A:0.40, C:0.22, G:0.20, T:0.18
Consensus pattern (47 bp):
CCTAGAAGCCTAAATGGAACTCACCAGGTAAAGCATAAATAAATCCG
Found at i:52569208 original size:114 final size:114
Alignment explanation
Indices: 52569010--52569435 Score: 466
Period size: 114 Copynumber: 3.7 Consensus size: 114
52569000 GTTTACTACC
** * * * * *
52569010 AAGCGCCGCAAAAGCTCTTATCCAAAACGCAGCGCTTTGGTCTTGATGTATAGTAGCCTTAGTGG
1 AAGCGCCGC-AAATTTCTTAACCAAAACGCAGAGCTTTGGTCTTGAGGTATATTAGCATTAGTGG
* *
52569075 CGCTTATATTCAAACGCCGCTAAAGTATAGTATTAGCGGCGAGTACTGAA
65 CGCTTATATTAAAACGCCGCTAAAGAATAGTATTAGCGGCGAGTACTGAA
* *
52569125 AAGCGCCGCAATATTTCTTAACCAAAACGCAGAG-TTTGGTCTTGAGGTACATTAGGATTAGTGG
1 AAGCGCCGCAA-ATTTCTTAACCAAAACGCAGAGCTTTGGTCTTGAGGTATATTAGCATTAGTGG
* * * ** * *
52569189 CGCTTAT-TTAAAAACGCCGCTAACGCATAGTAGTAGCGGCGCTTATTGTA
65 CGCTTATATT-AAAACGCCGCTAAAGAATAGTATTAGCGGCGAGTACTGAA
* * * * * * * *
52569239 AAGCGTCGCAAA-ATATTAACCAAAACGCAGCGCTTTGGTCTTGATGTATACTACCAGTAGTGGC
1 AAGCGCCGCAAATTTCTTAACCAAAACGCAGAGCTTTGGTCTTGAGGTATATTAGCATTAGTGGC
* ** * *
52569303 ACTTATATTAAAACGCTACTAAAGAATAGTATTAGCAGCGAGTAGTGAA
66 GCTTATATTAAAACGCCGCTAAAGAATAGTATTAGCGGCGAGTACTGAA
* *
52569352 AAGCGCCGCAAGATTTCTTAACCAAAACGCAGAG-TTTGGTCTTGCGGTATATTAGGATTAGTGG
1 AAGCGCCGCAA-ATTTCTTAACCAAAACGCAGAGCTTTGGTCTTGAGGTATATTAGCATTAGTGG
*
52569416 CGCTTAT-TGGAAAACGCCGC
65 CGCTTATAT-TAAAACGCCGC
52569436 AAAATATTAA
Statistics
Matches: 252, Mismatches: 52, Indels: 15
0.79 0.16 0.05
Matches are distributed among these distances:
112 17 0.07
113 74 0.29
114 117 0.46
115 44 0.17
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.27
Consensus pattern (114 bp):
AAGCGCCGCAAATTTCTTAACCAAAACGCAGAGCTTTGGTCTTGAGGTATATTAGCATTAGTGGC
GCTTATATTAAAACGCCGCTAAAGAATAGTATTAGCGGCGAGTACTGAA
Found at i:52569543 original size:188 final size:188
Alignment explanation
Indices: 52569226--52569623 Score: 679
Period size: 188 Copynumber: 2.1 Consensus size: 188
52569216 TAGTAGTAGC
* * *
52569226 GGCGCTTATTGTAAAGCGTCGCAAAATATTAACCAAAACGCAGCGCTTTGGTCTTGATGTATACT
1 GGCGCTTATTGGAAAACGCCGCAAAATATTAACCAAAACGCAGCGCTTTGGTCTTGATGTATACT
52569291 ACCAGTAGTGGCACTTATATTAAAACGCTACTAAAGAATAGTATTAGCAGCGAGTAGTGAAAAGC
66 ACCAGTAGTGGCACTTATATTAAAACGCTACTAAAGAATAGTATTAGCAGCGAGTAGTGAAAAGC
* * * *
52569356 GCCGCAAGATTTCTTAACCAAAACGCAGAGTTTGGTCTTGCGGTATATTAGGATTAGT
131 GCAGCAAGATTTCTTAACCAAAACGCAGAGTTTGGTCTTGAGGTACATTACGATTAGT
52569414 GGCGCTTATTGGAAAACGCCGCAAAATATTAACCAAAACGCAGCGCTTTGGTCTTGATGTATACT
1 GGCGCTTATTGGAAAACGCCGCAAAATATTAACCAAAACGCAGCGCTTTGGTCTTGATGTATACT
* * * *
52569479 AGCAGTAGTGGCGCTTATATTAAAACGCTGCTAAAGAATAGTATTAGCGGCGAGTAGTGAAAAGC
66 ACCAGTAGTGGCACTTATATTAAAACGCTACTAAAGAATAGTATTAGCAGCGAGTAGTGAAAAGC
*
52569544 GCAGCAATATTTCTTAACCAAAACGCAGAGTTTGGTCTTGAGGTACATTACGATTAGT
131 GCAGCAAGATTTCTTAACCAAAACGCAGAGTTTGGTCTTGAGGTACATTACGATTAGT
*
52569602 GGCGCTTATTTGAAAACGCCGC
1 GGCGCTTATTGGAAAACGCCGC
52569624 TAAAGCATAG
Statistics
Matches: 197, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
188 197 1.00
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.27
Consensus pattern (188 bp):
GGCGCTTATTGGAAAACGCCGCAAAATATTAACCAAAACGCAGCGCTTTGGTCTTGATGTATACT
ACCAGTAGTGGCACTTATATTAAAACGCTACTAAAGAATAGTATTAGCAGCGAGTAGTGAAAAGC
GCAGCAAGATTTCTTAACCAAAACGCAGAGTTTGGTCTTGAGGTACATTACGATTAGT
Found at i:52569734 original size:113 final size:112
Alignment explanation
Indices: 52569408--52569758 Score: 413
Period size: 113 Copynumber: 3.1 Consensus size: 112
52569398 GTATATTAGG
* *
52569408 ATTAGTGGCGCTTATTGGAAAA-CGCCGCAAAATATTAACCAAAACGCAGCGCTTTGGTCTTGAT
1 ATTAGCGGCGCTTATT-GAAAAGCGCCGCAAAACATTAACCAAAACGCAGCGCTTTGGTCTTGAT
* * * *
52569472 GTATACTAGCAGTAGTGGCGCTTATATTAAAACGCTGCTAAAGAATAGT
65 GTATACTACCAGTTGTGGCGCTTAT-TTAAAACGCCGCTAAAGCATAGT
** * * * *
52569521 ATTAGCGGCGAGTAGTGAAAAGCGCAGCAATATTTC-TTAACCAAAACGCAGAG-TTTGGTCTTG
1 ATTAGCGGCGCTTATTGAAAAGCGCCGCAA-A--ACATTAACCAAAACGCAGCGCTTTGGTCTTG
* * * *
52569584 AGGTACATTACGA-TTAGTGGCGCTTATTTGAAAACGCCGCTAAAGCATAGT
63 ATGTATACTACCAGTT-GTGGCGCTTATTT-AAAACGCCGCTAAAGCATAGT
*
52569635 ATTAGCGGCGCTTATTGTAAAGCGCCGCAAAACATTAACCAAAACGCAGCGCTTTGGTCTTGATG
1 ATTAGCGGCGCTTATTGAAAAGCGCCGCAAAACATTAACCAAAACGCAGCGCTTTGGTCTTGATG
* * * *
52569700 TATACTACCAGTTGTGGCGCTTATGGTAAAACGCCGGTAAAACATATT
66 TATACTACCAGTTGTGGCGCTTAT-TTAAAACGCCGCTAAAGCATAGT
52569748 ATTAGCGGCGC
1 ATTAGCGGCGC
52569759 GTTGTGGGAA
Statistics
Matches: 197, Mismatches: 31, Indels: 20
0.79 0.12 0.08
Matches are distributed among these distances:
111 1 0.01
112 21 0.11
113 82 0.42
114 77 0.39
115 16 0.08
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.26
Consensus pattern (112 bp):
ATTAGCGGCGCTTATTGAAAAGCGCCGCAAAACATTAACCAAAACGCAGCGCTTTGGTCTTGATG
TATACTACCAGTTGTGGCGCTTATTTAAAACGCCGCTAAAGCATAGT
Found at i:52569811 original size:17 final size:17
Alignment explanation
Indices: 52569780--52569829 Score: 84
Period size: 17 Copynumber: 3.0 Consensus size: 17
52569770 CGCCGCTAGA
*
52569780 TTATTATAT-ATGTAGT
1 TTATTATATAATGTAGG
52569796 TTATTATATAATGTAGG
1 TTATTATATAATGTAGG
52569813 TTATTATATAATGTAGG
1 TTATTATATAATGTAGG
52569830 AAATAGGATA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
16 9 0.28
17 23 0.72
ACGTcount: A:0.34, C:0.00, G:0.16, T:0.50
Consensus pattern (17 bp):
TTATTATATAATGTAGG
Found at i:52569882 original size:7 final size:7
Alignment explanation
Indices: 52569870--52569945 Score: 64
Period size: 7 Copynumber: 10.9 Consensus size: 7
52569860 TTGAATTCTA
52569870 GTTTAGG
1 GTTTAGG
*
52569877 GTTTAGA
1 GTTTAGG
52569884 GTTTAGG
1 GTTTAGG
52569891 GTTTAGG
1 GTTTAGG
*
52569898 GTTTACG
1 GTTTAGG
* *
52569905 ATGTA-G
1 GTTTAGG
*
52569911 GTTTAGT
1 GTTTAGG
**
52569918 GTTTTTG
1 GTTTAGG
52569925 GTTTAGG
1 GTTTAGG
*
52569932 GTTTGAGA
1 GTTT-AGG
52569940 GTTTAG
1 GTTTAG
52569946 TGATTAAGGT
Statistics
Matches: 53, Mismatches: 14, Indels: 4
0.75 0.20 0.06
Matches are distributed among these distances:
6 4 0.08
7 43 0.81
8 6 0.11
ACGTcount: A:0.17, C:0.01, G:0.36, T:0.46
Consensus pattern (7 bp):
GTTTAGG
Found at i:52572568 original size:26 final size:26
Alignment explanation
Indices: 52572509--52572890 Score: 531
Period size: 26 Copynumber: 15.2 Consensus size: 26
52572499 AATCTTGTCG
*
52572509 ACATAATACAT-TTAACTTACATTACTT
1 ACATAATACATAATAACTTACA--ACTT
52572536 ACATAATACATAATAACTTACAACTT
1 ACATAATACATAATAACTTACAACTT
*
52572562 ACATAATACAT-TTAACTTACAACTT
1 ACATAATACATAATAACTTACAACTT
* *
52572587 ACATAATAC---AT---TT--GACTG
1 ACATAATACATAATAACTTACAACTT
*
52572605 ACATAATACATT-TAACTTACAACTT
1 ACATAATACATAATAACTTACAACTT
*
52572630 ACACAATACATAATAACTTACAACTT
1 ACATAATACATAATAACTTACAACTT
52572656 ACATAATACATAATAACTTACAACTT
1 ACATAATACATAATAACTTACAACTT
*
52572682 ACACAATACATAATAACTTACAACTT
1 ACATAATACATAATAACTTACAACTT
52572708 ACATAATACATAATAACTTACAACTT
1 ACATAATACATAATAACTTACAACTT
* *
52572734 ACATAATACAT-TTAACTTGCAACTT
1 ACATAATACATAATAACTTACAACTT
*
52572759 ACACAATACATAATAACTTACAACTT
1 ACATAATACATAATAACTTACAACTT
52572785 ACATAATACATAATAACTTACAACTT
1 ACATAATACATAATAACTTACAACTT
*
52572811 ACATAATACAT-TTAACTTACAACTT
1 ACATAATACATAATAACTTACAACTT
* *
52572836 ACACAATACAT-TTAACTTACAACTT
1 ACATAATACATAATAACTTACAACTT
52572861 ACATAATACATAATAACTTACAACTT
1 ACATAATACATAATAACTTACAACTT
52572887 ACAT
1 ACAT
52572891 TTAACTTACA
Statistics
Matches: 321, Mismatches: 22, Indels: 25
0.87 0.06 0.07
Matches are distributed among these distances:
18 12 0.04
20 3 0.01
23 3 0.01
25 104 0.32
26 179 0.56
27 11 0.03
28 9 0.03
ACGTcount: A:0.47, C:0.20, G:0.01, T:0.32
Consensus pattern (26 bp):
ACATAATACATAATAACTTACAACTT
Found at i:52572580 original size:18 final size:18
Alignment explanation
Indices: 52572509--52572625 Score: 64
Period size: 18 Copynumber: 6.2 Consensus size: 18
52572499 AATCTTGTCG
52572509 ACATAATACATTTAACTT
1 ACATAATACATTTAACTT
*
52572527 ACATTACTTACA--TAA--T
1 ACA-TA-ATACATTTAACTT
*
52572543 ACATAATA-ACTTACAACTT
1 ACATAATACA-TT-TAACTT
52572562 ACATAATACATTTAACTTACAACTT
1 ACATAATACATTTAAC-T------T
* *
52572587 ACATAATACATTTGACTG
1 ACATAATACATTTAACTT
52572605 ACATAATACATTTAACTT
1 ACATAATACATTTAACTT
52572623 ACA
1 ACA
52572626 ACTTACACAA
Statistics
Matches: 75, Mismatches: 8, Indels: 32
0.65 0.07 0.28
Matches are distributed among these distances:
13 1 0.01
14 2 0.03
15 2 0.03
16 4 0.05
17 2 0.03
18 28 0.37
19 14 0.19
20 5 0.07
24 1 0.01
25 16 0.21
ACGTcount: A:0.44, C:0.19, G:0.02, T:0.35
Consensus pattern (18 bp):
ACATAATACATTTAACTT
Found at i:52572736 original size:19 final size:19
Alignment explanation
Indices: 52572662--52572792 Score: 65
Period size: 19 Copynumber: 7.5 Consensus size: 19
52572652 ACTTACATAA
52572662 TACATAATAACTTACAACT
1 TACATAATAACTTACAACT
* * *
52572681 TACACAAT-ACATAATAACT
1 TACATAATAAC-TTACAACT
*
52572700 TAC-----AACTTACATA-A
1 TACATAATAACTTACA-ACT
52572714 TACATAATAACTTACAACT
1 TACATAATAACTTACAACT
*
52572733 TACATAAT-ACATT-TAACT
1 TACATAATAAC-TTACAACT
* * *
52572751 TGCA-ACTTAC--ACAA--
1 TACATAATAACTTACAACT
52572765 TACATAATAACTTACAACT
1 TACATAATAACTTACAACT
52572784 TACATAATA
1 TACATAATA
52572793 CATAATAACT
Statistics
Matches: 81, Mismatches: 14, Indels: 34
0.63 0.11 0.26
Matches are distributed among these distances:
14 9 0.11
15 7 0.09
16 2 0.02
17 6 0.07
18 14 0.17
19 43 0.53
ACGTcount: A:0.48, C:0.21, G:0.01, T:0.31
Consensus pattern (19 bp):
TACATAATAACTTACAACT
Found at i:52572766 original size:77 final size:76
Alignment explanation
Indices: 52572609--52572890 Score: 492
Period size: 77 Copynumber: 3.7 Consensus size: 76
52572599 TGACTGACAT
* * *
52572609 AATACATTTAACTTACAACTTACACAATACATAATAACTTACAACTTACATAATACATAATAACT
1 AATACATATAACTTACAACTTACATAATACATAATAACTTACAACTTACATAATACAT-TTAACT
52572674 TACAACTTACAC
65 TACAACTTACAC
52572686 AATACATAATAACTTACAACTTACATAATACATAATAACTTACAACTTACATAATACATTTAACT
1 AATACAT-ATAACTTACAACTTACATAATACATAATAACTTACAACTTACATAATACATTTAACT
*
52572751 TGCAACTTACAC
65 TACAACTTACAC
52572763 AATACATAATAACTTACAACTTACATAATACATAATAACTTACAACTTACATAATACATTTAACT
1 AATACAT-ATAACTTACAACTTACATAATACATAATAACTTACAACTTACATAATACATTTAACT
52572828 TACAACTTACAC
65 TACAACTTACAC
*
52572840 AATACATTTAACTTACAACTTACATAATACATAATAACTTACAACTTACAT
1 AATACATATAACTTACAACTTACATAATACATAATAACTTACAACTTACAT
52572891 TTAACTTACA
Statistics
Matches: 198, Mismatches: 6, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
76 43 0.22
77 106 0.54
78 49 0.25
ACGTcount: A:0.48, C:0.21, G:0.00, T:0.31
Consensus pattern (76 bp):
AATACATATAACTTACAACTTACATAATACATAATAACTTACAACTTACATAATACATTTAACTT
ACAACTTACAC
Found at i:52572898 original size:11 final size:10
Alignment explanation
Indices: 52572882--52572935 Score: 55
Period size: 9 Copynumber: 5.7 Consensus size: 10
52572872 AATAACTTAC
52572882 AACTTACATTT
1 AACTTACA-TT
52572893 AACTTACA-T
1 AACTTACATT
52572902 AA--TACATTT
1 AACTTACA-TT
52572911 AACTTACA-T
1 AACTTACATT
52572920 AACTTACA-T
1 AACTTACATT
52572929 AACTTAC
1 AACTTAC
52572936 CATTGCAATT
Statistics
Matches: 39, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
7 4 0.10
9 23 0.59
11 12 0.31
ACGTcount: A:0.43, C:0.20, G:0.00, T:0.37
Consensus pattern (10 bp):
AACTTACATT
Found at i:52572919 original size:18 final size:18
Alignment explanation
Indices: 52572856--52572921 Score: 89
Period size: 18 Copynumber: 3.6 Consensus size: 18
52572846 TTTAACTTAC
*
52572856 AACTTACATAATACATAAT
1 AACTTACATAATACAT-TT
*
52572875 AACTTACA-ACTTACATTT
1 AACTTACATA-ATACATTT
52572893 AACTTACATAATACATTT
1 AACTTACATAATACATTT
52572911 AACTTACATAA
1 AACTTACATAA
52572922 CTTACATAAC
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
18 28 0.67
19 14 0.33
ACGTcount: A:0.47, C:0.18, G:0.00, T:0.35
Consensus pattern (18 bp):
AACTTACATAATACATTT
Found at i:52572931 original size:18 final size:18
Alignment explanation
Indices: 52572771--52572935 Score: 69
Period size: 18 Copynumber: 9.5 Consensus size: 18
52572761 ACAATACATA
52572771 ATAACTTAC--AACTTAC
1 ATAACTTACATAACTTAC
*
52572787 ATAATACATA-ATAACTTAC
1 AT-A-ACTTACATAACTTAC
52572806 --AACTTACATAA--TAC
1 ATAACTTACATAACTTAC
52572820 ATTTAACTTAC--AACTTAC
1 A--TAACTTACATAACTTAC
*
52572838 ACAA--TACATTTAACTTAC
1 ATAACTTACA--TAACTTAC
*
52572856 --AACTTACATAATACATA-
1 ATAACTTACAT-A-ACTTAC
52572873 ATAACTTAC--AACTTAC
1 ATAACTTACATAACTTAC
52572889 ATTTAACTTACATAA--TAC
1 A--TAACTTACATAACTTAC
52572907 ATTTAACTTACATAACTTAC
1 A--TAACTTACATAACTTAC
52572927 ATAACTTAC
1 ATAACTTAC
52572936 CATTGCAATT
Statistics
Matches: 116, Mismatches: 5, Indels: 54
0.66 0.03 0.31
Matches are distributed among these distances:
14 6 0.05
15 8 0.07
16 16 0.14
17 2 0.02
18 64 0.55
19 14 0.12
20 6 0.05
ACGTcount: A:0.45, C:0.21, G:0.00, T:0.34
Consensus pattern (18 bp):
ATAACTTACATAACTTAC
Found at i:52578412 original size:21 final size:21
Alignment explanation
Indices: 52578386--52578455 Score: 77
Period size: 21 Copynumber: 3.3 Consensus size: 21
52578376 CTACAACTTA
* *
52578386 AAGCAGAGGCGGAAGCGAGGG
1 AAGCAGAGGCTGCAGCGAGGG
* *
52578407 AAGCAGCGACTGCAGCGAGGG
1 AAGCAGAGGCTGCAGCGAGGG
* * *
52578428 AAGCGGAGGCTGCAGCAAGAG
1 AAGCAGAGGCTGCAGCGAGGG
52578449 AAGCAGA
1 AAGCAGA
52578456 ACAGAGCAAA
Statistics
Matches: 39, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.34, C:0.19, G:0.44, T:0.03
Consensus pattern (21 bp):
AAGCAGAGGCTGCAGCGAGGG
Found at i:52578699 original size:14 final size:14
Alignment explanation
Indices: 52578680--52578713 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
52578670 ATTGCTATTG
52578680 GTTGCTTTTGAAAT
1 GTTGCTTTTGAAAT
52578694 GTTGCTTTTGAAAT
1 GTTGCTTTTGAAAT
*
52578708 TTTGCT
1 GTTGCT
52578714 ACAGGAGGGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.18, C:0.09, G:0.21, T:0.53
Consensus pattern (14 bp):
GTTGCTTTTGAAAT
Found at i:52578833 original size:41 final size:42
Alignment explanation
Indices: 52578780--52579111 Score: 198
Period size: 42 Copynumber: 7.9 Consensus size: 42
52578770 GTTTTTGTAT
* * *
52578780 AAAAGCGCCACTAAAGAACATGTTCTTTTGCGGCGTTTG-TA
1 AAAAACGCCACTAAAGAACATGTTCTTTAGCGGCGTTTGAAA
* *
52578821 AAAAATGCCACTAAAGAACATGTTCTTTAGCGGCGATTAGAAA
1 AAAAACGCCACTAAAGAACATGTTCTTTAGCGGCG-TTTGAAA
* * ****
52578864 AAAAACGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTCCC
1 AAAAACGCCACTAAAGAACATGTTCTTTAGCGGCGTTTGAAA
** * * ****
52578906 TTAAGCGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTC
1 AAAAACGCCACTAAAGAACATGTTCTTTAGCGGCGTTTGAAA
** * * * * * ****
52578948 CTAAGCGCCGCTAAAGAACATGGTCTTTAGTGGCATTTTTTT
1 AAAAACGCCACTAAAGAACATGTTCTTTAGCGGCGTTTGAAA
* * ****
52578990 ACAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTT
1 AAAAACGCCACTAAAGAACATGTTCTTTAGCGGCGTTTGAAA
** * * * ****
52579032 CTAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTT
1 AAAAACGCCACTAAAGAACATGTTCTTTAGCGGCGTTTGAAA
** * * *
52579074 CTAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTT
1 AAAAACGCCACTAAAGAACATGTTCTTTAGCGGCGTTT
52579112 TTTTCTAAGC
Statistics
Matches: 255, Mismatches: 34, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
41 32 0.13
42 190 0.75
43 33 0.13
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (42 bp):
AAAAACGCCACTAAAGAACATGTTCTTTAGCGGCGTTTGAAA
Found at i:52578922 original size:126 final size:125
Alignment explanation
Indices: 52578782--52579107 Score: 357
Period size: 126 Copynumber: 2.6 Consensus size: 125
52578772 TTTTGTATAA
* * * *
52578782 AAGCGCCACTAAAGAACATGTTCTTTTGCGGCGTTTGTAAAAAATGCCACTAAAGAACATGTTCT
1 AAGCGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTGTAAAAAACGCCACTAAAGAACATGGTCT
52578847 TTAGCGGCGATTAGAAAAAAAACGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTCC-CTT
66 TTAGCGGC-ATTAGAAAAAAAACGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTCCTC-T
* *** * *
52578908 AAGCGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTCCTAAGCGCCGCTAAAGAACATGGTC
1 AAGCGCCGCTAAAGAACATGTTCTTTAGCGGCG-TTTGTAAAAAACGCCACTAAAGAACATGGTC
* ***** * * **
52578973 TTTAGTGGCATTTTTTTACAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTTCT
65 TTTAGCGGCATTAGAAAAAAAACGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTCCTCT
* * *** * * *
52579034 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGATC
1 AAGCGCCGCTAAAGAACATGTTCTTTAGCGGCG-TTTGTAAAAAACGCCACTAAAGAACATGGTC
52579099 TTTAGCGGC
65 TTTAGCGGC
52579108 GTTTTTTTCT
Statistics
Matches: 174, Mismatches: 24, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
126 142 0.82
127 32 0.18
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (125 bp):
AAGCGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTGTAAAAAACGCCACTAAAGAACATGGTCT
TTAGCGGCATTAGAAAAAAAACGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTCCTCT
Found at i:52578933 original size:42 final size:42
Alignment explanation
Indices: 52578869--52579155 Score: 443
Period size: 42 Copynumber: 6.8 Consensus size: 42
52578859 AGAAAAAAAA
**
52578869 CGCCGCTAAAGAACATGATCTTTAGCGGCG-TTTTCCCTTAAG
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTC-TAAG
* *
52578911 CGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTCCTAAG
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAG
* * * *
52578953 CGCCGCTAAAGAACATGGTCTTTAGTGGCATTTTTTTAC-AAA
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTT-CTAAG
*
52578995 CGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTTCTAAG
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAG
52579037 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAG
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAG
52579079 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAG
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAG
* *
52579121 CGCCGCTAAAGAACATGGTCTTTAACGGCGTTTTT
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTT
52579156 GTTTGTAAAC
Statistics
Matches: 228, Mismatches: 14, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
41 1 0.00
42 220 0.96
43 7 0.03
ACGTcount: A:0.24, C:0.22, G:0.21, T:0.33
Consensus pattern (42 bp):
CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAG
Found at i:52578957 original size:84 final size:82
Alignment explanation
Indices: 52578782--52579155 Score: 442
Period size: 84 Copynumber: 4.5 Consensus size: 82
52578772 TTTTGTATAA
* * * *** ** *
52578782 AAGCGCCACTAAAGAACATGTTCTTTTGCGGCGTTTGTAAAAAATGCCACTAAAGAACATGTTCT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTT-TTTTAAGCGCCGCTAAAGAACATGTTCT
*******
52578847 TTAGCGGCGATTAGAAAAA
65 TTAGCGGCG-TTTTTTTCT
* *
52578866 AAACGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTCCCTTAAGCGCCGCTAAAGAACATGTTC
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTT--TTTAAGCGCCGCTAAAGAACATGTTC
*
52578931 TTTAGCGGCGTTTTTTCCT
64 TTTAGCGGCGTTTTTTTCT
* * * *
52578950 AAGCGCCGCTAAAGAACATGGTCTTTAGTGGCATTTTTTTACAAACGCCGCTAAAGAACATGTTC
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTT--AAGCGCCGCTAAAGAACATGTTC
52579015 TTTAGCGGCGTTTTTTTCT
64 TTTAGCGGCGTTTTTTTCT
*
52579034 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGATC
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCG-TTTTTT-TAAGCGCCGCTAAAGAACATGTTC
52579099 TTTAGCGGCGTTTTTTTCT
64 TTTAGCGGCGTTTTTTTCT
* *
52579118 AAGCGCCGCTAAAGAACATGGTCTTTAACGGCGTTTTT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTT
52579156 GTTTGTAAAC
Statistics
Matches: 253, Mismatches: 31, Indels: 13
0.85 0.10 0.04
Matches are distributed among these distances:
82 2 0.01
83 6 0.02
84 208 0.82
85 36 0.14
86 1 0.00
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (82 bp):
AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTAAGCGCCGCTAAAGAACATGTTCTT
TAGCGGCGTTTTTTTCT
Found at i:52583604 original size:42 final size:42
Alignment explanation
Indices: 52583558--52583677 Score: 134
Period size: 42 Copynumber: 2.8 Consensus size: 42
52583548 TTCCGAGGTG
*
52583558 TGATTTCGTGTAAGACCATGTCTGGGACATTGGCATCG-TATA
1 TGATTTCGTGTAAGACCATGTCTGGGATA-TGGCATCGATATA
* * *
52583600 TGATTTCGTGTAAAACCCTGTCTAGGATAGTGGCATCGATATA
1 TGATTTCGTGTAAGACCATGTCTGGGATA-TGGCATCGATATA
* ** * *
52583643 TTATAACATGTAAGACCATATCTGGGATATGGCAT
1 TGATTTCGTGTAAGACCATGTCTGGGATATGGCAT
52583678 TGTACGAGCT
Statistics
Matches: 64, Mismatches: 13, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
42 39 0.61
43 25 0.39
ACGTcount: A:0.28, C:0.16, G:0.23, T:0.33
Consensus pattern (42 bp):
TGATTTCGTGTAAGACCATGTCTGGGATATGGCATCGATATA
Found at i:52584291 original size:49 final size:48
Alignment explanation
Indices: 52584219--52584353 Score: 189
Period size: 48 Copynumber: 2.8 Consensus size: 48
52584209 TGATGATAAG
*
52584219 ATGTTGTCCAAATTGGTGCTTAATTGCTATCCATTTTTTGAGCATATTA
1 ATGTTGTCCAAATTGGTGCTTAATTGCTGTCCATTTTTT-AGCATATTA
* * ** *
52584268 ATGTTGTCCAAATTGATGCTTAATTACTGTCTGTTTTTTAGTATATTA
1 ATGTTGTCCAAATTGGTGCTTAATTGCTGTCCATTTTTTAGCATATTA
* *
52584316 ATGCTGTCCAAATTGGTGCTTAAATGCTGTCCATTTTT
1 ATGTTGTCCAAATTGGTGCTTAATTGCTGTCCATTTTT
52584354 GTACAAATCA
Statistics
Matches: 74, Mismatches: 12, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
48 40 0.54
49 34 0.46
ACGTcount: A:0.24, C:0.14, G:0.16, T:0.46
Consensus pattern (48 bp):
ATGTTGTCCAAATTGGTGCTTAATTGCTGTCCATTTTTTAGCATATTA
Found at i:52584367 original size:48 final size:48
Alignment explanation
Indices: 52584223--52584372 Score: 185
Period size: 48 Copynumber: 3.1 Consensus size: 48
52584213 GATAAGATGT
* *
52584223 TGTCCAAATTGGTGCTTAATTGCTATCCATTTTTTGAGCATATTAATGT
1 TGTCCAAATTGGTGCTTAATTGCTGTCCATTTTTT-AGCATATTAATGC
* * ** *
52584272 TGTCCAAATTGATGCTTAATTACTGTCTGTTTTTTAGTATATTAATGC
1 TGTCCAAATTGGTGCTTAATTGCTGTCCATTTTTTAGCATATTAATGC
* * *
52584320 TGTCCAAATTGGTGCTTAAATGCTGTCCATTTTTGTA-CAAATCAATGC
1 TGTCCAAATTGGTGCTTAATTGCTGTCCATTTTT-TAGCATATTAATGC
52584368 TGTCC
1 TGTCC
52584373 GAATGTTGTT
Statistics
Matches: 85, Mismatches: 15, Indels: 3
0.83 0.15 0.03
Matches are distributed among these distances:
48 53 0.62
49 32 0.38
ACGTcount: A:0.25, C:0.16, G:0.16, T:0.43
Consensus pattern (48 bp):
TGTCCAAATTGGTGCTTAATTGCTGTCCATTTTTTAGCATATTAATGC
Found at i:52588497 original size:18 final size:18
Alignment explanation
Indices: 52588474--52588519 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 18
52588464 ATTTAAATTG
*
52588474 CGGTCGCGGTCGCGTTTT
1 CGGTCGCGGTCGCGATTT
52588492 CGGTCGC-GTCGC-ATTT
1 CGGTCGCGGTCGCGATTT
52588508 --GTCGCGGTCGCG
1 CGGTCGCGGTCGCG
52588520 GACATAACGG
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
14 5 0.20
15 5 0.20
16 3 0.12
17 5 0.20
18 7 0.28
ACGTcount: A:0.02, C:0.30, G:0.39, T:0.28
Consensus pattern (18 bp):
CGGTCGCGGTCGCGATTT
Found at i:52591965 original size:38 final size:38
Alignment explanation
Indices: 52591892--52591968 Score: 93
Period size: 38 Copynumber: 2.0 Consensus size: 38
52591882 TGAAAGCGGC
* * *
52591892 GACTAGGACAAATGGAGAAGGAAAAAGAAGTGTAAAGA
1 GACTAGGACAAATAGAGAAGAAAAAAGAAGAGTAAAGA
* *
52591930 GACTAGGGCAAATAGAGAA-AAAAGAAGAGGAGTAAAGA
1 GACTAGGACAAATAGAGAAGAAAA-AAGAAGAGTAAAGA
52591968 G
1 G
52591969 TGAAAAATAA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
37 3 0.09
38 30 0.91
ACGTcount: A:0.53, C:0.05, G:0.32, T:0.09
Consensus pattern (38 bp):
GACTAGGACAAATAGAGAAGAAAAAAGAAGAGTAAAGA
Found at i:52595319 original size:22 final size:24
Alignment explanation
Indices: 52595280--52595323 Score: 74
Period size: 22 Copynumber: 1.9 Consensus size: 24
52595270 TAACAAAATG
52595280 ATCAATTTAATCTTTAATCTAATA
1 ATCAATTTAATCTTTAATCTAATA
52595304 ATCAATTT-A-CTTTAATCTAA
1 ATCAATTTAATCTTTAATCTAA
52595324 CATATATGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 11 0.55
23 1 0.05
24 8 0.40
ACGTcount: A:0.41, C:0.14, G:0.00, T:0.45
Consensus pattern (24 bp):
ATCAATTTAATCTTTAATCTAATA
Found at i:52609121 original size:44 final size:44
Alignment explanation
Indices: 52608921--52609501 Score: 259
Period size: 44 Copynumber: 13.2 Consensus size: 44
52608911 GCAACTTCAA
* * * *
52608921 GGAGATAGGATTAGTAGCTTCAATCTACTCCGCTGTAATCTCAG
1 GGAGATAAGATTACTAGCTTCAATCTGCTCCACTGTAATCTCAG
* * ** * * * *
52608965 GGAGATAAGATCTGA-AATTCTTCGGTTTGTTCCACTATAATCTTAG
1 GGAGATAAGAT-T-ACTA-GCTTCAATCTGCTCCACTGTAATCTCAG
* * * *
52609011 GGAGATAAGA-T-CT-GATGCAATCTACTCTACTGTAA-CTTCAG
1 GGAGATAAGATTACTAGCTTCAATCTGCTCCACTGTAATC-TCAG
* * * * * *
52609052 AGAGATAAGATCCT-TTA-CTTTAATCCGCTCTACTGTAATATCAG
1 GGAGATAAGAT--TACTAGCTTCAATCTGCTCCACTGTAATCTCAG
* * * *
52609096 GGAGATAGGATTACTAGCTTCAATCCGCTCCGCTGTAATCTCAA
1 GGAGATAAGATTACTAGCTTCAATCTGCTCCACTGTAATCTCAG
* * ** *
52609140 GGAGATAAGATCTGA-AATTCTTCGGTCTGTTCCACTGTAATCTCAG
1 GGAGATAAGAT-T-ACTA-GCTTCAATCTGCTCCACTGTAATCTCAG
* * * * * *
52609186 GGAGATAAGA--CCT-GATGCGATCTACTCTACTGTAA-CTTCAG
1 GGAGATAAGATTACTAGCTTCAATCTGCTCCACTGTAATC-TCAG
* * * * * *
52609227 AGAGATAAGATCATTTA-TTTTAATCCGCTCCACTGTAATCTCAG
1 GGAGATAAGATTA-CTAGCTTCAATCTGCTCCACTGTAATCTCAG
** * *
52609271 AAAGATAGGATTACTAGCTTTAATCTGCTCCACTGTAATCTCAG
1 GGAGATAAGATTACTAGCTTCAATCTGCTCCACTGTAATCTCAG
* * ** * *
52609315 GGAGATAAGATCTGAAATATCTTCGGTCTGTTCCACTGTAATCTCAA
1 GGAGATAAGAT-T--ACTAGCTTCAATCTGCTCCACTGTAATCTCAG
* * * *
52609362 GGAGAT-A-A-TACCT-GATGT-GATCTACTCTACTGTAA-CTTCAG
1 GGAGATAAGATTA-CTAGCT-TCAATCTGCTCCACTGTAATC-TCAG
* * * * *
52609403 AGAGATAAGATCCT-TTA-TTTCAATCCGCTCTACTGTAATCTCAG
1 GGAGATAAGAT--TACTAGCTTCAATCTGCTCCACTGTAATCTCAG
* * *
52609447 GGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAA
1 GGAGATAAGATTACTAGCTTCAATCTGCTCCACTGTAATCTCAG
52609491 GGAGATAAGAT
1 GGAGATAAGAT
52609502 CTGAAATATT
Statistics
Matches: 392, Mismatches: 106, Indels: 78
0.68 0.18 0.14
Matches are distributed among these distances:
40 3 0.01
41 75 0.19
42 5 0.01
43 9 0.02
44 197 0.50
45 8 0.02
46 64 0.16
47 31 0.08
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.31
Consensus pattern (44 bp):
GGAGATAAGATTACTAGCTTCAATCTGCTCCACTGTAATCTCAG
Found at i:52609413 original size:176 final size:175
Alignment explanation
Indices: 52608921--52609508 Score: 969
Period size: 175 Copynumber: 3.4 Consensus size: 175
52608911 GCAACTTCAA
* * *
52608921 GGAGATAGGATTAGTAGCTTCAATCTACTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCT
1 GGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAAGGAGATAAGATCTGAAATTCT
* * * * *
52608986 TCGGTTTGTTCCACTATAATCTTAGGGAGATAAGATCTGATGCAATCTACTCTACTGTAACTTCA
66 TCGGTCTGTTCCACTGTAATCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCA
* *
52609051 GAGAGATAAGATCCTTTACTTTAATCCGCTCTACTGTAATATCAG
131 GAGAGATAAGATCCTTTATTTTAATCCGCTCTACTGTAATCTCAG
*
52609096 GGAGATAGGATTACTAGCTTCAATCCGCTCCGCTGTAATCTCAAGGAGATAAGATCTGAAATTCT
1 GGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAAGGAGATAAGATCTGAAATTCT
52609161 TCGGTCTGTTCCACTGTAATCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCA
66 TCGGTCTGTTCCACTGTAATCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCA
* *
52609226 GAGAGATAAGATCATTTATTTTAATCCGCTCCACTGTAATCTCAG
131 GAGAGATAAGATCCTTTATTTTAATCCGCTCTACTGTAATCTCAG
** * * *
52609271 AAAGATAGGATTACTAGCTTTAATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAATATC
1 GGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAAGGAGATAAGATCTGAAAT-TC
* * *
52609336 TTCGGTCTGTTCCACTGTAATCTCAAGGAGATAATACCTGATGTGATCTACTCTACTGTAACTTC
65 TTCGGTCTGTTCCACTGTAATCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTC
*
52609401 AGAGAGATAAGATCCTTTATTTCAATCCGCTCTACTGTAATCTCAG
130 AGAGAGATAAGATCCTTTATTTTAATCCGCTCTACTGTAATCTCAG
52609447 GGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAAGGAGATAAGATCTGAAAT
1 GGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAAGGAGATAAGATCTGAAAT
52609509 ATTCACTAAT
Statistics
Matches: 382, Mismatches: 30, Indels: 1
0.92 0.07 0.00
Matches are distributed among these distances:
175 218 0.57
176 164 0.43
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.31
Consensus pattern (175 bp):
GGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAAGGAGATAAGATCTGAAATTCT
TCGGTCTGTTCCACTGTAATCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCA
GAGAGATAAGATCCTTTATTTTAATCCGCTCTACTGTAATCTCAG
Found at i:52617633 original size:19 final size:19
Alignment explanation
Indices: 52617609--52617652 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
52617599 AATAATCTTA
* *
52617609 AATGCATATG-ATGACATG
1 AATGCAGATGCATGAAATG
52617627 TAATGCAGATGCATGAAATG
1 -AATGCAGATGCATGAAATG
52617647 AATGCA
1 AATGCA
52617653 AAAAAAACGT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.41, C:0.11, G:0.23, T:0.25
Consensus pattern (19 bp):
AATGCAGATGCATGAAATG
Found at i:52628238 original size:46 final size:46
Alignment explanation
Indices: 52628171--52628258 Score: 176
Period size: 46 Copynumber: 1.9 Consensus size: 46
52628161 GTGCAATACA
52628171 TGTCCATTTCATGAAACTAACTTCCCTAATTGGTTAAGTATTGAAT
1 TGTCCATTTCATGAAACTAACTTCCCTAATTGGTTAAGTATTGAAT
52628217 TGTCCATTTCATGAAACTAACTTCCCTAATTGGTTAAGTATT
1 TGTCCATTTCATGAAACTAACTTCCCTAATTGGTTAAGTATT
52628259 AATAGAATAG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 42 1.00
ACGTcount: A:0.30, C:0.18, G:0.12, T:0.40
Consensus pattern (46 bp):
TGTCCATTTCATGAAACTAACTTCCCTAATTGGTTAAGTATTGAAT
Found at i:52629484 original size:17 final size:19
Alignment explanation
Indices: 52629424--52629506 Score: 64
Period size: 20 Copynumber: 4.3 Consensus size: 19
52629414 GTAATATTCT
52629424 ATATATATAATTTAATAAATA
1 ATATATAT-ATTTAA-AAATA
* *
52629445 A-A-A-ATATATAAAATTA
1 ATATATATATTTAAAAATA
* *
52629461 TTAAATATTAATTTAAAAATA
1 ATATATA-T-ATTTAAAAATA
52629482 ATATATATTATTTAAAAATA
1 ATATATA-TATTTAAAAATA
52629502 ATATA
1 ATATA
52629507 AGACCAAGCC
Statistics
Matches: 50, Mismatches: 7, Indels: 11
0.74 0.10 0.16
Matches are distributed among these distances:
16 4 0.08
17 6 0.12
18 3 0.06
19 2 0.04
20 18 0.36
21 17 0.34
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (19 bp):
ATATATATATTTAAAAATA
Found at i:52629496 original size:20 final size:21
Alignment explanation
Indices: 52629465--52629506 Score: 77
Period size: 20 Copynumber: 2.0 Consensus size: 21
52629455 AAATTATTAA
52629465 ATATTAATTTAAAAATAATAT
1 ATATTAATTTAAAAATAATAT
52629486 ATATT-ATTTAAAAATAATAT
1 ATATTAATTTAAAAATAATAT
52629506 A
1 A
52629507 AGACCAAGCC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 16 0.76
21 5 0.24
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (21 bp):
ATATTAATTTAAAAATAATAT
Found at i:52630309 original size:17 final size:17
Alignment explanation
Indices: 52630287--52630320 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
52630277 ATCCACTAAT
*
52630287 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
52630304 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
52630321 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:52634947 original size:17 final size:17
Alignment explanation
Indices: 52634925--52634958 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
52634915 ATCCACTAAT
*
52634925 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
52634942 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
52634959 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:52641170 original size:38 final size:38
Alignment explanation
Indices: 52641115--52641211 Score: 115
Period size: 38 Copynumber: 2.6 Consensus size: 38
52641105 GTTAACCTTT
* *
52641115 ATAACACC-GACAATAAGCCTGCTAGACACTAAGCCTAA
1 ATAACACCAG-CACTAAGCCTGCTAGACACAAAGCCTAA
* * *
52641153 ATAACACCAGCACTAAGCCTACTAGGCACAAAGCCTGA
1 ATAACACCAGCACTAAGCCTGCTAGACACAAAGCCTAA
* *
52641191 ATAACACCAACACAAAGCCTG
1 ATAACACCAGCACTAAGCCTG
52641212 AATAACACCG
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
38 49 0.98
39 1 0.02
ACGTcount: A:0.42, C:0.31, G:0.13, T:0.13
Consensus pattern (38 bp):
ATAACACCAGCACTAAGCCTGCTAGACACAAAGCCTAA
Found at i:52641207 original size:22 final size:22
Alignment explanation
Indices: 52641179--52641233 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
52641169 GCCTACTAGG
52641179 CACAAAGCCTGAATAACACCAA
1 CACAAAGCCTGAATAACACCAA
*
52641201 CACAAAGCCTGAATAACACCGA
1 CACAAAGCCTGAATAACACCAA
*
52641223 CACTAAGCCTG
1 CACAAAGCCTG
52641234 CTAGGCACAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.44, C:0.33, G:0.13, T:0.11
Consensus pattern (22 bp):
CACAAAGCCTGAATAACACCAA
Found at i:52641238 original size:60 final size:60
Alignment explanation
Indices: 52641140--52641256 Score: 182
Period size: 60 Copynumber: 1.9 Consensus size: 60
52641130 AGCCTGCTAG
*
52641140 ACACTAAGCCTAAATAACACCAGCACTAAGCCTACTAGGCACAAAGCCTGAATAACACCA
1 ACACAAAGCCTAAATAACACCAGCACTAAGCCTACTAGGCACAAAGCCTGAATAACACCA
* * *
52641200 ACACAAAGCCTGAATAACACC-GACACTAAGCCTGCTAGGCACAAATCCTGAATAACA
1 ACACAAAGCCTAAATAACACCAG-CACTAAGCCTACTAGGCACAAAGCCTGAATAACA
52641257 GTATAGCTCA
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
59 1 0.02
60 51 0.98
ACGTcount: A:0.43, C:0.31, G:0.13, T:0.14
Consensus pattern (60 bp):
ACACAAAGCCTAAATAACACCAGCACTAAGCCTACTAGGCACAAAGCCTGAATAACACCA
Found at i:52641513 original size:17 final size:17
Alignment explanation
Indices: 52641471--52641513 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
52641461 AATAAGTACT
52641471 TCTAAAATTCAATTTAA
1 TCTAAAATTCAATTTAA
* * *
52641488 TCCATAATTCAATTTTA
1 TCTAAAATTCAATTTAA
*
52641505 TGTAAAATT
1 TCTAAAATT
52641514 ACTATTTTCC
Statistics
Matches: 20, Mismatches: 6, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.42, C:0.12, G:0.02, T:0.44
Consensus pattern (17 bp):
TCTAAAATTCAATTTAA
Found at i:52645680 original size:20 final size:20
Alignment explanation
Indices: 52645648--52645685 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
52645638 ATAAAATATA
52645648 TATATAAAATCATAAAAACT
1 TATATAAAATCATAAAAACT
52645668 TATA-AAAATTCATAAAAA
1 TATATAAAA-TCATAAAAA
52645686 ATAGAAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.63, C:0.08, G:0.00, T:0.29
Consensus pattern (20 bp):
TATATAAAATCATAAAAACT
Found at i:52645693 original size:19 final size:19
Alignment explanation
Indices: 52645653--52645694 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
52645643 ATATATATAT
* *
52645653 AAAATCATAAAAACTTATA
1 AAAATCATAAAAACATAGA
52645672 AAAATTCATAAAAA-ATAGA
1 AAAA-TCATAAAAACATAGA
52645691 AAAA
1 AAAA
52645695 AAAGGCACTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 11 0.55
20 9 0.45
ACGTcount: A:0.69, C:0.07, G:0.02, T:0.21
Consensus pattern (19 bp):
AAAATCATAAAAACATAGA
Found at i:52646252 original size:18 final size:18
Alignment explanation
Indices: 52646231--52646276 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
52646221 TGGTTTTTCA
* *
52646231 AATTTTATAGATTTATAT
1 AATTTTATAAAATTATAT
*
52646249 AATTTTAAAAAATTATAT
1 AATTTTATAAAATTATAT
*
52646267 AAATTTATAA
1 AATTTTATAA
52646277 CCTTCTTTTT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (18 bp):
AATTTTATAAAATTATAT
Found at i:52656709 original size:12 final size:12
Alignment explanation
Indices: 52656692--52656717 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
52656682 ATACATGTAT
52656692 TTGTCACTTCAA
1 TTGTCACTTCAA
52656704 TTGTCACTTCAA
1 TTGTCACTTCAA
52656716 TT
1 TT
52656718 ATCTTTGTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.23, G:0.08, T:0.46
Consensus pattern (12 bp):
TTGTCACTTCAA
Found at i:52656904 original size:25 final size:27
Alignment explanation
Indices: 52656876--52656934 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 27
52656866 ATTTGGGAAT
*
52656876 GCTCAT-ACGAGCACATA-AATAAGAA
1 GCTCATCACGAGCACATATAACAAGAA
* *
52656901 GCTCTCTCTCGAGCACATATAACAAGAA
1 GCTC-ATCACGAGCACATATAACAAGAA
52656929 GCTCAT
1 GCTCAT
52656935 GTAAGCCATA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
25 4 0.15
26 1 0.04
27 11 0.41
28 11 0.41
ACGTcount: A:0.39, C:0.25, G:0.15, T:0.20
Consensus pattern (27 bp):
GCTCATCACGAGCACATATAACAAGAA
Found at i:52657063 original size:24 final size:24
Alignment explanation
Indices: 52657011--52657065 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 24
52657001 AAACTTATGC
* **
52657011 GAGCCAATAACGGGTAGCTCCGAA
1 GAGCCATTAACGGAAAGCTCCGAA
*
52657035 GAGCCATTAACGGAAAGCTCCGGA
1 GAGCCATTAACGGAAAGCTCCGAA
*
52657059 TAGCCAT
1 GAGCCAT
52657066 ATATTGGAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.33, C:0.25, G:0.27, T:0.15
Consensus pattern (24 bp):
GAGCCATTAACGGAAAGCTCCGAA
Found at i:52664158 original size:12 final size:12
Alignment explanation
Indices: 52664141--52664166 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
52664131 ATACATGTAT
52664141 TTGTCACTTCAA
1 TTGTCACTTCAA
52664153 TTGTCACTTCAA
1 TTGTCACTTCAA
52664165 TT
1 TT
52664167 ATCTTTATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.23, G:0.08, T:0.46
Consensus pattern (12 bp):
TTGTCACTTCAA
Found at i:52666531 original size:13 final size:13
Alignment explanation
Indices: 52666513--52666544 Score: 57
Period size: 12 Copynumber: 2.5 Consensus size: 13
52666503 ATTTTATAGT
52666513 ATTAAAATTTTTA
1 ATTAAAATTTTTA
52666526 ATT-AAATTTTTA
1 ATTAAAATTTTTA
52666538 ATTAAAA
1 ATTAAAA
52666545 GTATAAAGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 12 0.67
13 6 0.33
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
ATTAAAATTTTTA
Found at i:52666615 original size:3 final size:3
Alignment explanation
Indices: 52666607--52666646 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
52666597 TTTTCTTTCC
*
52666607 TCT TCT TCT TCT TCT TCT TTT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
52666647 ACACCGAATG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (3 bp):
TCT
Found at i:52666726 original size:13 final size:13
Alignment explanation
Indices: 52666708--52666740 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
52666698 GCTTTGGGTC
52666708 TTCAATTGGTTAG
1 TTCAATTGGTTAG
52666721 TTCAATTGGTTAG
1 TTCAATTGGTTAG
52666734 TTCAATT
1 TTCAATT
52666741 TAGTCATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.24, C:0.09, G:0.18, T:0.48
Consensus pattern (13 bp):
TTCAATTGGTTAG
Found at i:52668490 original size:37 final size:37
Alignment explanation
Indices: 52668449--52668538 Score: 128
Period size: 37 Copynumber: 2.4 Consensus size: 37
52668439 CTATTGATCC
*
52668449 TACTGAATGAAGCTCAATTGAGCAAATCTTA-TCATTA
1 TACTGAATGAAGCTCAATTGAGCAAATCGTACT-ATTA
* *
52668486 TACTGAATGAAGCTAAATTGAGTAAATCGTACTATTA
1 TACTGAATGAAGCTCAATTGAGCAAATCGTACTATTA
*
52668523 TACTGAATGAAACTCA
1 TACTGAATGAAGCTCA
52668539 GGCGAGGGGA
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
37 46 0.98
38 1 0.02
ACGTcount: A:0.40, C:0.14, G:0.14, T:0.31
Consensus pattern (37 bp):
TACTGAATGAAGCTCAATTGAGCAAATCGTACTATTA
Found at i:52685118 original size:6 final size:6
Alignment explanation
Indices: 52685107--52685145 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
52685097 TTTTGTTGTA
* *
52685107 TTTTAT TTTTAT TTTTAT TTTTAT GTTTAT TGTTAT TTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTT
52685146 CTTCTATTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.15, C:0.00, G:0.05, T:0.79
Consensus pattern (6 bp):
TTTTAT
Found at i:52686660 original size:13 final size:13
Alignment explanation
Indices: 52686631--52686671 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
52686621 CCAATGCATG
52686631 ATTATTTATG-G-
1 ATTATTTATGAGA
52686642 ATTATTT-TGAGA
1 ATTATTTATGAGA
52686654 TATTATTTATGAGA
1 -ATTATTTATGAGA
52686668 ATTA
1 ATTA
52686672 CAAATTGAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
10 2 0.08
11 8 0.31
13 11 0.42
14 5 0.19
ACGTcount: A:0.34, C:0.00, G:0.15, T:0.51
Consensus pattern (13 bp):
ATTATTTATGAGA
Found at i:52686974 original size:30 final size:30
Alignment explanation
Indices: 52686938--52686995 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
52686928 TTTCCAGGTT
*
52686938 CCACACGAGCTGGCCACACACCCGTGTGAG
1 CCACACGAGCTGGCCACACACCCATGTGAG
* *
52686968 CCACACGGGCTGGCCACACGCCCATGTG
1 CCACACGAGCTGGCCACACACCCATGTG
52686996 TTAGCCCGTG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.21, C:0.41, G:0.28, T:0.10
Consensus pattern (30 bp):
CCACACGAGCTGGCCACACACCCATGTGAG
Found at i:52697234 original size:22 final size:21
Alignment explanation
Indices: 52697204--52697261 Score: 80
Period size: 22 Copynumber: 2.7 Consensus size: 21
52697194 GAATGGTATC
52697204 TACAAATCAAATCTCTAAGAT
1 TACAAATCAAATCTCTAAGAT
*
52697225 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCAAATC-TCTAAGAT
*
52697248 TACATATCAAATCT
1 TACAAATCAAATCT
52697262 ACGATTGCAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
21 4 0.12
22 17 0.53
23 11 0.34
ACGTcount: A:0.45, C:0.19, G:0.03, T:0.33
Consensus pattern (21 bp):
TACAAATCAAATCTCTAAGAT
Found at i:52707984 original size:189 final size:186
Alignment explanation
Indices: 52707664--52708042 Score: 686
Period size: 189 Copynumber: 2.0 Consensus size: 186
52707654 GAAAATTTTC
52707664 TACTTGAAACCTTTGTTTAGATGGTTTTTGCACATGAATTATGAGTGTGTGCATGCATGTGAGAA
1 TACTTGAAACCTTTGTTTAGATGGTTTTTGCACATGAATTATGAGTGTGTGCATGCATGTGAGAA
* *
52707729 TTGATGGAATCAAAAGCGGGAATATTTTGTTAGTTGAGCTCTGAATTATTGACTTGCAATTATCA
66 TTGATGGAACCAAAAGCGGGAATATTTTGTTAGTTGAGCTCTGAATTATAGACTTGCAATTATCA
52707794 TTATTGACTTAAGATATAAGTGATATTAAGAAGCCTAACATATTTCTTCTAAGGGTCTT
131 TTATTGACTTAAGATATAAGTGATATTAAGAAGCCTAACATA--T-TTCTAAGGGTCTT
*
52707853 TACTTGAAACCTTTGTTTAGATGGTTTTTGCACATGAATTTTGAGTGTGTGCATGCATGTGAGAA
1 TACTTGAAACCTTTGTTTAGATGGTTTTTGCACATGAATTATGAGTGTGTGCATGCATGTGAGAA
*
52707918 TTGATGGAACCAAAAGGGGGAATATTTTGTTAGTTGAGCTCTGAATTATAGACTTGCAATTATCA
66 TTGATGGAACCAAAAGCGGGAATATTTTGTTAGTTGAGCTCTGAATTATAGACTTGCAATTATCA
*
52707983 TTATTGACTTAAGATATAAGTGATATTAAGAAGCCTGACATATTTCTAAGGGTCTT
131 TTATTGACTTAAGATATAAGTGATATTAAGAAGCCTAACATATTTCTAAGGGTCTT
52708039 TACT
1 TACT
52708043 GTCTAGCTCT
Statistics
Matches: 185, Mismatches: 5, Indels: 3
0.96 0.03 0.02
Matches are distributed among these distances:
186 17 0.09
187 1 0.01
189 167 0.90
ACGTcount: A:0.30, C:0.11, G:0.21, T:0.38
Consensus pattern (186 bp):
TACTTGAAACCTTTGTTTAGATGGTTTTTGCACATGAATTATGAGTGTGTGCATGCATGTGAGAA
TTGATGGAACCAAAAGCGGGAATATTTTGTTAGTTGAGCTCTGAATTATAGACTTGCAATTATCA
TTATTGACTTAAGATATAAGTGATATTAAGAAGCCTAACATATTTCTAAGGGTCTT
Found at i:52715697 original size:25 final size:26
Alignment explanation
Indices: 52715660--52715715 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 26
52715650 AACTTAAGTG
*
52715660 AAAATAAAAATAA-AAATATATTTA-T
1 AAAATAAAAATAATAAA-ATATTGATT
**
52715685 AAAATAATGATAATAAAATATTGATT
1 AAAATAAAAATAATAAAATATTGATT
52715711 AAAAT
1 AAAAT
52715716 GGCAAAATTA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
25 17 0.65
26 9 0.35
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (26 bp):
AAAATAAAAATAATAAAATATTGATT
Found at i:52717928 original size:30 final size:30
Alignment explanation
Indices: 52717894--52717951 Score: 116
Period size: 30 Copynumber: 1.9 Consensus size: 30
52717884 CATATGGATG
52717894 ATCTCATCATGGTTCTGCAAAGTTTCAAAC
1 ATCTCATCATGGTTCTGCAAAGTTTCAAAC
52717924 ATCTCATCATGGTTCTGCAAAGTTTCAA
1 ATCTCATCATGGTTCTGCAAAGTTTCAA
52717952 GCAATGGCAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.34
Consensus pattern (30 bp):
ATCTCATCATGGTTCTGCAAAGTTTCAAAC
Found at i:52733631 original size:16 final size:16
Alignment explanation
Indices: 52733610--52733645 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
52733600 TTTGGTTCGC
52733610 TGTATTGGATTAAAGG
1 TGTATTGGATTAAAGG
*
52733626 TGTATTGGATTAGAGG
1 TGTATTGGATTAAAGG
52733642 TGTA
1 TGTA
52733646 ATAACAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.28, C:0.00, G:0.33, T:0.39
Consensus pattern (16 bp):
TGTATTGGATTAAAGG
Found at i:52733902 original size:18 final size:17
Alignment explanation
Indices: 52733881--52733915 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
52733871 TTATTATTAA
*
52733881 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
52733899 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
52733916 TCTTATAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:52734052 original size:156 final size:157
Alignment explanation
Indices: 52733768--52734083 Score: 562
Period size: 156 Copynumber: 2.0 Consensus size: 157
52733758 TAGAATACCC
*
52733768 TTAGCATAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
* * ** *
52733833 TTATCAGTAATAAATTTTTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
52733898 TATATAATTTAATAAAATTCTT-ATAA
131 TATATAATTTAATAAAATTCTTAATAA
*
52733924 TTAGCAGAAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
52733989 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
52734054 TATATAATTTAATAAAATTCTTAATAA
131 TATATAATTTAATAAAATTCTTAATAA
52734081 TTA
1 TTA
52734084 ATATTCTTAT
Statistics
Matches: 152, Mismatches: 7, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
156 145 0.95
157 7 0.05
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.48
Consensus pattern (157 bp):
TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
TATATAATTTAATAAAATTCTTAATAA
Found at i:52734054 original size:16 final size:16
Alignment explanation
Indices: 52734017--52734058 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
52734007 TTAATCATAT
*
52734017 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
52734033 TT-AAATATATTATAA
1 TTAAAATATATTATAA
52734048 TTAAAATATAT
1 TTAAAATATAT
52734059 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:52734065 original size:14 final size:15
Alignment explanation
Indices: 52734026--52734067 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
52734016 TTTAAACATA
*
52734026 ATTATTATTAAATAT
1 ATTATAATTAAATAT
52734041 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
52734055 A-TATAATTTAATA
1 ATTATAATTAAATA
52734068 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:52734117 original size:61 final size:60
Alignment explanation
Indices: 52734052--52734239 Score: 174
Period size: 61 Copynumber: 3.1 Consensus size: 60
52734042 TTATAATTAA
52734052 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATACGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATA-GAATTTACTCAAATCAT
* * * * * * * *
52734113 AATATATGATACT-GTAAAA-T-AT-A-AATTAACATAATTATTATTA-AATATA-TTATAATTA
1 AATATATAAT-TTAATAAAATTCTTAATAATT-A-AT-ATTCTTA-TAGAATTTACTCA-AATCA
*
52734171 A
60 T
52734172 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATA-GAATTTACTCAAATCAT
52734233 AATATAT
1 AATATAT
52734240 GATACTGTAA
Statistics
Matches: 95, Mismatches: 18, Indels: 28
0.67 0.13 0.20
Matches are distributed among these distances:
57 4 0.04
58 5 0.05
59 28 0.29
60 14 0.15
61 35 0.37
62 5 0.05
63 4 0.04
ACGTcount: A:0.48, C:0.07, G:0.02, T:0.43
Consensus pattern (60 bp):
AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATAGAATTTACTCAAATCAT
Found at i:52734154 original size:120 final size:121
Alignment explanation
Indices: 52734015--52734305 Score: 491
Period size: 120 Copynumber: 2.4 Consensus size: 121
52734005 ATTTAATCAT
*
52734015 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
52734080 ATTAATATTCTTATACGAATTTACTCAAATCATAATATATGATACTGTAAAAT-ATAA
66 ATTAATATTCTTATACGAATTTACTCAAATCATAATATATGATACTGT-AAATGA-AA
52734137 A-TT-AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
*
52734200 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAATGAAA
66 ATTAATATTCTTATACGAATTTACTCAAATCATAATATATGATACTGTAAATGAAA
* * *
52734256 ATTTGAA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAA
1 ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAA
52734306 AATAATTATA
Statistics
Matches: 162, Mismatches: 4, Indels: 8
0.93 0.02 0.05
Matches are distributed among these distances:
119 7 0.04
120 150 0.93
121 4 0.02
122 1 0.01
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.43
Consensus pattern (121 bp):
ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
ATTAATATTCTTATACGAATTTACTCAAATCATAATATATGATACTGTAAATGAAA
Found at i:52734185 original size:14 final size:15
Alignment explanation
Indices: 52734136--52734187 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
52734126 GTAAAATATA
52734136 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
52734151 TATTAAATATATTAT
1 AATTAAATATATTAT
52734166 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
52734179 AATTTAATA
1 AATTAAATA
52734188 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:52734311 original size:44 final size:45
Alignment explanation
Indices: 52734255--52734379 Score: 112
Period size: 47 Copynumber: 2.8 Consensus size: 45
52734245 TGTAAATGAA
* *
52734255 AATTTGAAATAATTAA-TATTAAATATATTTTAATTAAAATATAT
1 AATTTAAAATAATTAACTATTAAATATATTTTAATGAAAATATAT
* * ** *
52734299 GATTTAAAATAATTATAACTAATAAATTATATTTT-ATGAATTTGTAT
1 AATTTAAAATAA-T-TAACTATTAAA-TATATTTTAATGAAAATATAT
* * *
52734346 AATTTAAAATAA-TAATTATTACATATAATTTAAT
1 AATTTAAAATAATTAACTATTAAATATATTTTAAT
52734380 AATTAATATT
Statistics
Matches: 64, Mismatches: 12, Indels: 10
0.74 0.14 0.12
Matches are distributed among these distances:
43 7 0.11
44 20 0.31
45 1 0.02
46 3 0.05
47 25 0.39
48 8 0.12
ACGTcount: A:0.50, C:0.02, G:0.03, T:0.46
Consensus pattern (45 bp):
AATTTAAAATAATTAACTATTAAATATATTTTAATGAAAATATAT
Found at i:52734337 original size:120 final size:118
Alignment explanation
Indices: 52734020--52734341 Score: 417
Period size: 120 Copynumber: 2.7 Consensus size: 118
52734010 ATCATATTTA
*
52734020 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCT--TAATAATT
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTATAATAATAATT
52734083 AATATTCTTATACGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 -ATATT-TTAT--GAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
*
52734140 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCT--TAATAATT
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTATAATAATAATT
52734203 AATATTCTTATATGAATTTACTCAAATCATAATATATGATACTGT-AAATGA-AAATTT
66 -ATA-T-TT-TATGAATTTACTCAAATCATAATATATGATACTGTAAAAT-ATAAA-TT
* * *
52734260 GAA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAA-AATAATTATAACTAATA
1 -AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAA-AATTATAA-TAAT-
52734323 AATTATATTTTATGAATTT
62 AATTATATTTTATGAATTT
52734342 GTATAATTTA
Statistics
Matches: 187, Mismatches: 4, Indels: 22
0.88 0.02 0.10
Matches are distributed among these distances:
119 9 0.05
120 156 0.83
121 6 0.03
122 5 0.03
123 7 0.04
124 4 0.02
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.43
Consensus pattern (118 bp):
AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTATAATAATAATT
ATATTTTATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
Found at i:52734389 original size:24 final size:25
Alignment explanation
Indices: 52734343--52734390 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
52734333 TATGAATTTG
52734343 TATAATTTAAAATAATAATTATTACA
1 TATAATTTAAAAT-ATAATTATTACA
52734369 TATAATTTAATAAT-TAA-TATTA
1 TATAATTTAA-AATATAATTATTA
52734391 AATTTCATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 5 0.24
25 3 0.14
26 10 0.48
27 3 0.14
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (25 bp):
TATAATTTAAAATATAATTATTACA
Found at i:52734442 original size:92 final size:90
Alignment explanation
Indices: 52734255--52734526 Score: 279
Period size: 92 Copynumber: 3.0 Consensus size: 90
52734245 TGTAAATGAA
* * * * *
52734255 AATTTGAAATAATTAATATTAAATATATTTTAATTA-AAATATATGATTT-A-AAATAAT-TATA
1 AATTTAAAATAATTAATATTAAATATAATTTAA-TAGTAATATATAATTTCATAAA-ACTCT-TA
* *
52734316 ACTAATAAATTATATTT-TATGAATTTGTAT
63 A-TAATAAATT-T-TTTATATGAATTTATAC
* * *
52734346 AATTTAAAATAA-TAATTATTACATATAATTTAATAATTAATAT-TAAATTTCATAAAACTCTTG
1 AATTTAAAATAATTAA-TATTAAATATAATTTAAT-AGTAATATAT-AATTTCATAAAACTCTTA
52734409 ATAATAAATTTTCTTATATGAATTTATAC
63 ATAATAAATTTT-TTATATGAATTTATAC
* *
52734438 AATTTAAAATAATTAATATTAAATATAATTTAATAGTGATATATAATTTCATAAAATTCTTAATA
1 AATTTAAAATAATTAATATTAAATATAATTTAATAGTAATATATAATTTCATAAAACTCTTAATA
52734503 ATAAAATGTTTTTATATGAATTTA
66 AT-AAAT-TTTTTATATGAATTTA
52734527 CTAAAATCAA
Statistics
Matches: 154, Mismatches: 14, Indels: 25
0.80 0.07 0.13
Matches are distributed among these distances:
90 5 0.03
91 58 0.38
92 76 0.49
93 11 0.07
94 4 0.03
ACGTcount: A:0.48, C:0.03, G:0.04, T:0.45
Consensus pattern (90 bp):
AATTTAAAATAATTAATATTAAATATAATTTAATAGTAATATATAATTTCATAAAACTCTTAATA
ATAAATTTTTTATATGAATTTATAC
Found at i:52744556 original size:12 final size:12
Alignment explanation
Indices: 52744521--52744559 Score: 51
Period size: 12 Copynumber: 3.1 Consensus size: 12
52744511 ACTTAATCAC
52744521 TTTAATATTAAA
1 TTTAATATTAAA
*
52744533 TTCATTATATTAAA
1 TT--TAATATTAAA
52744547 TTTAATATTAAA
1 TTTAATATTAAA
52744559 T
1 T
52744560 CTTATTAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
12 12 0.52
14 11 0.48
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (12 bp):
TTTAATATTAAA
Found at i:52747320 original size:21 final size:21
Alignment explanation
Indices: 52747294--52747458 Score: 156
Period size: 21 Copynumber: 7.9 Consensus size: 21
52747284 GTACATCATT
*
52747294 AACAGAAACTCTTAAGAGTTG
1 AACAGAAACTCATAAGAGTTG
*
52747315 AACAGAAGCTCATAAGAGTTG
1 AACAGAAACTCATAAGAGTTG
*
52747336 AACAAAAACTCATAAGAGTTG
1 AACAGAAACTCATAAGAGTTG
** * *
52747357 AACA-AAAGCTTGTAAGAGCTA
1 AACAGAAA-CTCATAAGAGTTG
* * * *
52747378 AACAAAAACTCGTATGAGTTA
1 AACAGAAACTCATAAGAGTTG
* * *
52747399 AATAGGAACT-AGTAAGAGCTG
1 AACAGAAACTCA-TAAGAGTTG
52747420 AACAGAAACTCATAAGAGTTG
1 AACAGAAACTCATAAGAGTTG
52747441 AACA-AAAGCTCATAAGAG
1 AACAGAAA-CTCATAAGAG
52747459 CTAAACTGAA
Statistics
Matches: 118, Mismatches: 21, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
20 6 0.05
21 108 0.92
22 4 0.03
ACGTcount: A:0.47, C:0.14, G:0.19, T:0.19
Consensus pattern (21 bp):
AACAGAAACTCATAAGAGTTG
Found at i:52747358 original size:42 final size:42
Alignment explanation
Indices: 52747294--52747460 Score: 185
Period size: 42 Copynumber: 4.0 Consensus size: 42
52747284 GTACATCATT
* * * *
52747294 AACAGAAACTCTTAAGAGTTGAACAGAAGCTCATAAGAGTTG
1 AACAAAAACTCATAAGAGTTGAACAAAAGCTCATAAGAGCTG
** *
52747336 AACAAAAACTCATAAGAGTTGAACAAAAGCTTGTAAGAGCTA
1 AACAAAAACTCATAAGAGTTGAACAAAAGCTCATAAGAGCTG
* * * * *
52747378 AACAAAAACTCGTATGAGTTAAATAGGAA-CT-AGTAAGAGCTG
1 AACAAAAACTCATAAGAGTTGAACA-AAAGCTCA-TAAGAGCTG
*
52747420 AACAGAAACTCATAAGAGTTGAACAAAAGCTCATAAGAGCT
1 AACAAAAACTCATAAGAGTTGAACAAAAGCTCATAAGAGCT
52747461 AAACTGAAAG
Statistics
Matches: 101, Mismatches: 20, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
41 2 0.02
42 96 0.95
43 3 0.03
ACGTcount: A:0.47, C:0.14, G:0.19, T:0.20
Consensus pattern (42 bp):
AACAAAAACTCATAAGAGTTGAACAAAAGCTCATAAGAGCTG
Found at i:52749671 original size:15 final size:15
Alignment explanation
Indices: 52749630--52749663 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
52749620 GCTATGCATG
52749630 TAAAGTATAAAAGACA
1 TAAA-TATAAAAGACA
*
52749646 TAAATACAAAAGACA
1 TAAATATAAAAGACA
52749661 TAA
1 TAA
52749664 TAGTAAAATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.65, C:0.09, G:0.09, T:0.18
Consensus pattern (15 bp):
TAAATATAAAAGACA
Found at i:52754388 original size:27 final size:25
Alignment explanation
Indices: 52754341--52754433 Score: 82
Period size: 25 Copynumber: 3.6 Consensus size: 25
52754331 ATTCAGGAGT
*
52754341 GCTCATATGAGTACATA-AACGGAAA
1 GCTCATATGAG-CCATATAACGGAAA
* *
52754366 GCTCTCTCTCGAGCCATATAAC-GAGAA
1 GCTC-ATAT-GAGCCATATAACGGA-AA
* *
52754393 GCTCATATGAGCCATGTAACGGGAA
1 GCTCATATGAGCCATATAACGGAAA
*
52754418 GCTCATAAGAGCCATA
1 GCTCATATGAGCCATA
52754434 ATTAGGAAGC
Statistics
Matches: 54, Mismatches: 9, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
25 31 0.57
26 11 0.20
27 12 0.22
ACGTcount: A:0.35, C:0.23, G:0.22, T:0.20
Consensus pattern (25 bp):
GCTCATATGAGCCATATAACGGAAA
Found at i:52754412 original size:25 final size:25
Alignment explanation
Indices: 52754376--52754433 Score: 89
Period size: 25 Copynumber: 2.3 Consensus size: 25
52754366 GCTCTCTCTC
*
52754376 GAGCCATATAACGAGAAGCTCATAT
1 GAGCCATATAACGAGAAGCTCATAA
* *
52754401 GAGCCATGTAACGGGAAGCTCATAA
1 GAGCCATATAACGAGAAGCTCATAA
52754426 GAGCCATA
1 GAGCCATA
52754434 ATTAGGAAGC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.38, C:0.21, G:0.24, T:0.17
Consensus pattern (25 bp):
GAGCCATATAACGAGAAGCTCATAA
Found at i:52757659 original size:10 final size:10
Alignment explanation
Indices: 52757640--52757669 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
52757630 AACAAGCTAC
*
52757640 AAAAGTAAAA
1 AAAAGAAAAA
52757650 AAAAGAAAAA
1 AAAAGAAAAA
52757660 AAAAGAAAAA
1 AAAAGAAAAA
52757670 GAGAAGAAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.87, C:0.00, G:0.10, T:0.03
Consensus pattern (10 bp):
AAAAGAAAAA
Found at i:52761531 original size:12 final size:12
Alignment explanation
Indices: 52761514--52761555 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
52761504 CTTGACATTA
52761514 AATAAATAATGG
1 AATAAATAATGG
**
52761526 AATAAA-ACATTA
1 AATAAATA-ATGG
52761538 AATAAATAATGG
1 AATAAATAATGG
52761550 AATAAA
1 AATAAA
52761556 ACATACCTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
11 1 0.04
12 22 0.92
13 1 0.04
ACGTcount: A:0.64, C:0.02, G:0.10, T:0.24
Consensus pattern (12 bp):
AATAAATAATGG
Found at i:52761535 original size:24 final size:24
Alignment explanation
Indices: 52761508--52761559 Score: 104
Period size: 24 Copynumber: 2.2 Consensus size: 24
52761498 ACGGTTCTTG
52761508 ACATTAAATAAATAATGGAATAAA
1 ACATTAAATAAATAATGGAATAAA
52761532 ACATTAAATAAATAATGGAATAAA
1 ACATTAAATAAATAATGGAATAAA
52761556 ACAT
1 ACAT
52761560 ACCTTACAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.62, C:0.06, G:0.08, T:0.25
Consensus pattern (24 bp):
ACATTAAATAAATAATGGAATAAA
Found at i:52763227 original size:22 final size:23
Alignment explanation
Indices: 52763184--52763229 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
52763174 AAAAATGCTA
*
52763184 AAAATCATTTAAAATTATAAAAT
1 AAAATAATTTAAAATTATAAAAT
*
52763207 AAAATAATTTAAATTTA-AAAAT
1 AAAATAATTTAAAATTATAAAAT
52763229 A
1 A
52763230 TATATTAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 6 0.29
23 15 0.71
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (23 bp):
AAAATAATTTAAAATTATAAAAT
Found at i:52767574 original size:17 final size:18
Alignment explanation
Indices: 52767540--52767581 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 18
52767530 TAAACAAATA
*
52767540 TATATT-TATTTGTGATT
1 TATATTGTATTTGTCATT
52767557 TATATTGTATTTG-CATT
1 TATATTGTATTTGTCATT
52767574 TAT-TTGTA
1 TATATTGTA
52767582 AATTCTTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 5 0.22
17 12 0.52
18 6 0.26
ACGTcount: A:0.24, C:0.02, G:0.12, T:0.62
Consensus pattern (18 bp):
TATATTGTATTTGTCATT
Found at i:52768310 original size:97 final size:94
Alignment explanation
Indices: 52768128--52768325 Score: 324
Period size: 97 Copynumber: 2.1 Consensus size: 94
52768118 GGGTGGGATC
* *
52768128 CCACCTATCACTCCTTACATTCTCCACGTGGCATTCATCTACATTCTCACCTATGCTAGCCCTTC
1 CCACCTATCACTCCTTACATTCTCCACGTGGCATTCATCTACATTCCCACCTATGCTAGCCCTCC
*
52768193 AACTCCGCACACACACAATAAAAAACAAA
66 AACTACGCACACACACAATAAAAAACAAA
52768222 CCACCTATCACTCCTTACATTCTCCACGTGGCATTCATCTAACACATTCCCACCTATGCTAGCCC
1 CCACCTATCACTCCTTACATTCTCCACGTGGCATTCATCT---ACATTCCCACCTATGCTAGCCC
* *
52768287 TCCAACTACTCACACACACAATAAAAAACAAC
63 TCCAACTACGCACACACACAATAAAAAACAAA
52768319 CCACCTA
1 CCACCTA
52768326 CTTCATATCC
Statistics
Matches: 96, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
94 40 0.42
97 56 0.58
ACGTcount: A:0.32, C:0.39, G:0.06, T:0.23
Consensus pattern (94 bp):
CCACCTATCACTCCTTACATTCTCCACGTGGCATTCATCTACATTCCCACCTATGCTAGCCCTCC
AACTACGCACACACACAATAAAAAACAAA
Found at i:52769635 original size:2 final size:2
Alignment explanation
Indices: 52769630--52769660 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
52769620 AAAAAATATT
52769630 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
52769661 ATATATATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:52772029 original size:2 final size:2
Alignment explanation
Indices: 52772022--52772051 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
52772012 CTTCTTGTTC
52772022 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
52772052 ATTTGTCTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:52780617 original size:42 final size:42
Alignment explanation
Indices: 52780519--52780618 Score: 155
Period size: 42 Copynumber: 2.4 Consensus size: 42
52780509 CTATATGAAC
* * *
52780519 GGCACTAAGTGTGCAAAACTAAAATGACGATGTTGATTAATG
1 GGCACTAAGTGTGCGAAACTAAAATGACGATGTTGAATAACG
* *
52780561 GGCACTAAGTGTGCGAAATTAAAATGATGATGTTGAATAACG
1 GGCACTAAGTGTGCGAAACTAAAATGACGATGTTGAATAACG
52780603 GGCACTAAGTGTGCGA
1 GGCACTAAGTGTGCGA
52780619 TACCGAGAGC
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 53 1.00
ACGTcount: A:0.36, C:0.12, G:0.27, T:0.25
Consensus pattern (42 bp):
GGCACTAAGTGTGCGAAACTAAAATGACGATGTTGAATAACG
Found at i:52783305 original size:47 final size:47
Alignment explanation
Indices: 52783227--52783559 Score: 531
Period size: 47 Copynumber: 7.1 Consensus size: 47
52783217 CCCTTCGGGA
* * ** * * * *
52783227 CTTATCACATTTATGCACTTTCACACCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
***
52783274 CCCGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
52783321 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
52783368 CTTATTACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
52783415 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
52783462 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
52783509 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
52783556 CTTA
1 CTTA
52783560 CTATCATTTC
Statistics
Matches: 267, Mismatches: 19, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 267 1.00
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.31
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:52790881 original size:88 final size:88
Alignment explanation
Indices: 52790732--52790907 Score: 334
Period size: 88 Copynumber: 2.0 Consensus size: 88
52790722 TAGAATTGAA
*
52790732 AATGAGGTATCGAAACCTCAAACTCATAAATCGAGCCATAAATATTTTTAGAAATATTTATAGAA
1 AATGAGGTATCGAAACCTCAAACTCATAAATCGAGCCATAAATACTTTTAGAAATATTTATAGAA
52790797 TGTCATTGAGTTGGTATTAAAGT
66 TGTCATTGAGTTGGTATTAAAGT
*
52790820 AATGAGGTATCGAAACCTCAAACTCATAAATCGAGCCATAAATACTTTTAGAAATATTTATAGAG
1 AATGAGGTATCGAAACCTCAAACTCATAAATCGAGCCATAAATACTTTTAGAAATATTTATAGAA
52790885 TGTCATTGAGTTGGTATTAAAGT
66 TGTCATTGAGTTGGTATTAAAGT
52790908 TTCGTTAGAA
Statistics
Matches: 86, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
88 86 1.00
ACGTcount: A:0.39, C:0.12, G:0.16, T:0.32
Consensus pattern (88 bp):
AATGAGGTATCGAAACCTCAAACTCATAAATCGAGCCATAAATACTTTTAGAAATATTTATAGAA
TGTCATTGAGTTGGTATTAAAGT
Found at i:52792036 original size:51 final size:50
Alignment explanation
Indices: 52791960--52792109 Score: 197
Period size: 51 Copynumber: 3.1 Consensus size: 50
52791950 TCTTCTGATC
*
52791960 AGTGACAAGTGATAAGTGGTAGCTTTAGCTGCACTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGT-ACA
52792011 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGT--A
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTACA
* * *
52792059 A-T---AAGGGATAAGTGGTAGC-TCAGCTACACTTATCTAATCAGTAACA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGT-ACA
52792105 AGTGA
1 AGTGA
52792110 TAGCTACACT
Statistics
Matches: 89, Mismatches: 4, Indels: 14
0.83 0.04 0.13
Matches are distributed among these distances:
43 21 0.24
44 16 0.18
46 2 0.02
47 2 0.02
48 2 0.02
51 46 0.52
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.29
Consensus pattern (50 bp):
AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTACA
Found at i:52792093 original size:43 final size:44
Alignment explanation
Indices: 52792015--52792111 Score: 142
Period size: 43 Copynumber: 2.2 Consensus size: 44
52792005 GTGACAAGTG
* * *
52792015 ACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTA
1 ACAAGGGATAAGTGGTAGCTTCAGCTACACTTATCTAATCAGTA
*
52792059 ATAAGGGATAAGTGGTAGC-TCAGCTACACTTATCTAATCAGTA
1 ACAAGGGATAAGTGGTAGCTTCAGCTACACTTATCTAATCAGTA
*
52792102 ACAAGTGATA
1 ACAAGGGATA
52792112 GCTACACTTA
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
43 30 0.64
44 17 0.36
ACGTcount: A:0.35, C:0.15, G:0.21, T:0.29
Consensus pattern (44 bp):
ACAAGGGATAAGTGGTAGCTTCAGCTACACTTATCTAATCAGTA
Found at i:52792118 original size:31 final size:31
Alignment explanation
Indices: 52792080--52792142 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
52792070 GTGGTAGCTC
*
52792080 AGCTACACTTATCTAATCAGTAACAAGTGAT
1 AGCTACACTTATCTAATCAGTAACAAGAGAT
* *
52792111 AGCTACACTTATCTGATCAGTGACAAGAGAT
1 AGCTACACTTATCTAATCAGTAACAAGAGAT
52792142 A
1 A
52792143 AATGATAAGT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.38, C:0.19, G:0.16, T:0.27
Consensus pattern (31 bp):
AGCTACACTTATCTAATCAGTAACAAGAGAT
Found at i:52795280 original size:27 final size:27
Alignment explanation
Indices: 52795231--52795282 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
52795221 AAAACCCAAA
*
52795231 AAAAGAAACGTGCTCTCCTAGTAGACG
1 AAAAGAAACGTGCTATCCTAGTAGACG
*
52795258 AAAAGAGACGTGCTAT-CTAAGTAGA
1 AAAAGAAACGTGCTATCCT-AGTAGA
52795283 TGATTTTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 2 0.09
27 20 0.91
ACGTcount: A:0.40, C:0.17, G:0.23, T:0.19
Consensus pattern (27 bp):
AAAAGAAACGTGCTATCCTAGTAGACG
Found at i:52795860 original size:29 final size:28
Alignment explanation
Indices: 52795818--52795905 Score: 86
Period size: 29 Copynumber: 3.0 Consensus size: 28
52795808 ACGCTTTCTA
52795818 TTCTATTAATGCACTTCAATGCCATTTTG
1 TTCTA-TAATGCACTTCAATGCCATTTTG
* * * *
52795847 TTCTACTAAAGCACTTCGATGTCATTCTG
1 TTCTA-TAATGCACTTCAATGCCATTTTG
* * *
52795876 TTCTGATATTGCACTTCAGTGCCACTTTG
1 TTCT-ATAATGCACTTCAATGCCATTTTG
52795905 T
1 T
52795906 GTTGTTATTG
Statistics
Matches: 46, Mismatches: 12, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
29 45 0.98
30 1 0.02
ACGTcount: A:0.22, C:0.23, G:0.14, T:0.42
Consensus pattern (28 bp):
TTCTATAATGCACTTCAATGCCATTTTG
Found at i:52796878 original size:3 final size:3
Alignment explanation
Indices: 52796870--52796915 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
52796860 ATTAAAAAAG
52796870 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
52796916 AAGAGTTAGT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:52799152 original size:15 final size:17
Alignment explanation
Indices: 52799132--52799169 Score: 62
Period size: 15 Copynumber: 2.4 Consensus size: 17
52799122 ATAATAAATT
52799132 ATTTTAAT-AATTA-TA
1 ATTTTAATAAATTACTA
52799147 ATTTTAATAAATTACTA
1 ATTTTAATAAATTACTA
52799164 ATTTTA
1 ATTTTA
52799170 TTTTAATAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 8 0.38
16 5 0.24
17 8 0.38
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (17 bp):
ATTTTAATAAATTACTA
Done.