Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D05
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: 63323194
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1953226 characters in sequence are not A, C, G, or T
File 28 of 199
Found at i:11740942 original size:25 final size:26
Alignment explanation
Indices: 11740912--11740961 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 26
11740902 TGTAACATCA
11740912 AACCCTGAACC-CAAAACTCAAACCG
1 AACCCTGAACCTCAAAACTCAAACCG
* *
11740937 AACCCTGAACCTTAAATCTCAAACC
1 AACCCTGAACCTCAAAACTCAAACC
11740962 CAAACCCAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 11 0.50
26 11 0.50
ACGTcount: A:0.42, C:0.38, G:0.06, T:0.14
Consensus pattern (26 bp):
AACCCTGAACCTCAAAACTCAAACCG
Found at i:11746154 original size:50 final size:50
Alignment explanation
Indices: 11746095--11746196 Score: 170
Period size: 50 Copynumber: 2.0 Consensus size: 50
11746085 TTTGCCAGCT
11746095 CAACATTAGCATCTACAAAAACAATTTAAAAA-ATCCACATGTATCCAGTC
1 CAACATTAGCATCTACAAAAACAA-TTAAAAATATCCACATGTATCCAGTC
* *
11746145 CAACATTAGCATCTGCTAAAACAATTAAAAATATCCACATGTATCCAGTC
1 CAACATTAGCATCTACAAAAACAATTAAAAATATCCACATGTATCCAGTC
11746195 CA
1 CA
11746197 CCTTGTTGAG
Statistics
Matches: 49, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
49 7 0.14
50 42 0.86
ACGTcount: A:0.44, C:0.25, G:0.07, T:0.25
Consensus pattern (50 bp):
CAACATTAGCATCTACAAAAACAATTAAAAATATCCACATGTATCCAGTC
Found at i:11750693 original size:137 final size:138
Alignment explanation
Indices: 11750440--11750715 Score: 423
Period size: 137 Copynumber: 2.0 Consensus size: 138
11750430 AAAACAGCTA
* *
11750440 AAAATTGAAATCAATTATGGAATGCGTTACATTCAAAATAACAATAAACAAAATATGGATATAAC
1 AAAATTGAAATCAATTATGGAATGAGTTACATTCAAAATAACAATAAACAAAAGATGGATATAAC
* * * *
11750505 ACTAGCTACAAAAGTAATTACCAATATCATGTGGTAACAAGTCCACCTGAAAGTG-AGATATGAA
66 ACTAACTACAAAAGTAATTAACAATATCATGTAGTAACAAGTCCACATGAAAGTGCA-ATATGAA
*
11750569 AGATATGCC
130 AGACATGCC
* *
11750578 AAAA-TGAAATCATTTATGGCATGAGTTACATTCAAAATAACAAT-AACAAAAGATGGATATAAC
1 AAAATTGAAATCAATTATGGAATGAGTTACATTCAAAATAACAATAAACAAAAGATGGATATAAC
*
11750641 ACTAACTACAAAAGTAATTTAACAATATCATGTAGTAACAAGTTCACATGAAAGTGCAATATGAA
66 ACTAACTACAAAAGTAA-TTAACAATATCATGTAGTAACAAGTCCACATGAAAGTGCAATATGAA
11750706 AGACATGCC
130 AGACATGCC
11750715 A
1 A
11750716 TTTTCTGAAA
Statistics
Matches: 126, Mismatches: 10, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
136 34 0.27
137 87 0.69
138 5 0.04
ACGTcount: A:0.47, C:0.14, G:0.14, T:0.25
Consensus pattern (138 bp):
AAAATTGAAATCAATTATGGAATGAGTTACATTCAAAATAACAATAAACAAAAGATGGATATAAC
ACTAACTACAAAAGTAATTAACAATATCATGTAGTAACAAGTCCACATGAAAGTGCAATATGAAA
GACATGCC
Found at i:11753617 original size:23 final size:24
Alignment explanation
Indices: 11753572--11753618 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
11753562 CACTTGATTT
* *
11753572 TATAATTTTTTAATTCATTAAATAA
1 TATAATTTTATAATT-ATAAAATAA
11753597 TATAATTTTATAATT-TAAAATA
1 TATAATTTTATAATTATAAAATA
11753619 TTTTTACTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 6 0.30
25 14 0.70
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (24 bp):
TATAATTTTATAATTATAAAATAA
Found at i:11757810 original size:576 final size:576
Alignment explanation
Indices: 11756718--11757872 Score: 2301
Period size: 576 Copynumber: 2.0 Consensus size: 576
11756708 ACAACCATCA
11756718 TTTATATGATTAAACATGGCTTTTAAAAAGTACCTTCTGGACTGTTATTTGTTGCCCTTTTTGCA
1 TTTATATGATTAAACATGGCTTTTAAAAAGTACCTTCTGGACTGTTATTTGTTGCCCTTTTTGCA
11756783 GAAACGTCAATATATATGCATGCAAGCTTGTGTGAATTGGCTGTGATAATAATCCTTTTCATTTA
66 GAAACGTCAATATATATGCATGCAAGCTTGTGTGAATTGGCTGTGATAATAATCCTTTTCATTTA
11756848 TGGTTCTCTGATTTCAGGGACTACCGTGGATTGTGTATCCTTAGCATTGTCTGGGGCAGTGCTCT
131 TGGTTCTCTGATTTCAGGGACTACCGTGGATTGTGTATCCTTAGCATTGTCTGGGGCAGTGCTCT
11756913 CATGGTCGAAGCCTCTCCTGGTTAGGCTTTCATCCTGATTTCTATGAATTAAAATACAAATTTGT
196 CATGGTCGAAGCCTCTCCTGGTTAGGCTTTCATCCTGATTTCTATGAATTAAAATACAAATTTGT
11756978 TTTTAACCACTTCCTGACTTCATGAAATTTCCAGGTGATTAGTGGAATAAACCGGGGGAGAAGCT
261 TTTTAACCACTTCCTGACTTCATGAAATTTCCAGGTGATTAGTGGAATAAACCGGGGGAGAAGCT
11757043 ATGGTCATAATAAGTTTTTTAACACGCCTGCACGATAATACTAATTGAATTTTCTTTGATTGTAG
326 ATGGTCATAATAAGTTTTTTAACACGCCTGCACGATAATACTAATTGAATTTTCTTTGATTGTAG
11757108 CAGGTGGGAATATTACCCTCTTGATTCACTCTTCTAATAGATGGTATAAATTTTGCTTTGAATAT
391 CAGGTGGGAATATTACCCTCTTGATTCACTCTTCTAATAGATGGTATAAATTTTGCTTTGAATAT
11757173 TTTAACGCCTTTTGCTCAGCTTCATTCATATGTTATTATTGTTTTATCATGTTAATTTACCATCA
456 TTTAACGCCTTTTGCTCAGCTTCATTCATATGTTATTATTGTTTTATCATGTTAATTTACCATCA
11757238 ATCCTCTTTGCTCTTCCTTGGATGATAAGTGTATTTATGATGTGTAATATACCAGG
521 ATCCTCTTTGCTCTTCCTTGGATGATAAGTGTATTTATGATGTGTAATATACCAGG
11757294 TTTATATGATTAAACATGGCTTTTAAAAAGTACCTTCTGGACTGTTATTTGTTGCCCTTTTTGCA
1 TTTATATGATTAAACATGGCTTTTAAAAAGTACCTTCTGGACTGTTATTTGTTGCCCTTTTTGCA
*
11757359 GAAACGTCAATATATATGCATGCAAGCTTGTGTGAATTTGCTGTGATAATAATCCTTTTCATTTA
66 GAAACGTCAATATATATGCATGCAAGCTTGTGTGAATTGGCTGTGATAATAATCCTTTTCATTTA
11757424 TGGTTCTCTGATTTCAGGGACTACCGTGGATTGTGTATCCTTAGCATTGTCTGGGGCAGTGCTCT
131 TGGTTCTCTGATTTCAGGGACTACCGTGGATTGTGTATCCTTAGCATTGTCTGGGGCAGTGCTCT
11757489 CATGGTCGAAGCCTCTCCTGGTTAGGCTTTCATCCTGATTTCTATGAATTAAAATACAAATTTGT
196 CATGGTCGAAGCCTCTCCTGGTTAGGCTTTCATCCTGATTTCTATGAATTAAAATACAAATTTGT
11757554 TTTTAACCACTTCCTGACTTCATGAAATTTCCAGGTGATTAGTGGAATAAACCGGGGGAGAAGCT
261 TTTTAACCACTTCCTGACTTCATGAAATTTCCAGGTGATTAGTGGAATAAACCGGGGGAGAAGCT
11757619 ATGGTCATAATAAGTTTTTTAACACGCCTGCACGATAATACTAATTGAATTTTCTTTGATTGTAG
326 ATGGTCATAATAAGTTTTTTAACACGCCTGCACGATAATACTAATTGAATTTTCTTTGATTGTAG
11757684 CAGGTGGGAATATTACCCTCTTGATTCACTCTTCTAATAGATGGTATAAATTTTGCTTTGAATAT
391 CAGGTGGGAATATTACCCTCTTGATTCACTCTTCTAATAGATGGTATAAATTTTGCTTTGAATAT
11757749 TTTAACGCCTTTTGCTCAGCTTCATTCATATGTTATTATTGTTTTATCATGTTAATTTACCATCA
456 TTTAACGCCTTTTGCTCAGCTTCATTCATATGTTATTATTGTTTTATCATGTTAATTTACCATCA
11757814 ATCCTCTTTGCTCTTCCTTGGATGATAAGTGTATTTATGATGTGTAATATACCAGG
521 ATCCTCTTTGCTCTTCCTTGGATGATAAGTGTATTTATGATGTGTAATATACCAGG
11757870 TTT
1 TTT
11757873 TCCTCGGGTG
Statistics
Matches: 578, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
576 578 1.00
ACGTcount: A:0.25, C:0.17, G:0.18, T:0.40
Consensus pattern (576 bp):
TTTATATGATTAAACATGGCTTTTAAAAAGTACCTTCTGGACTGTTATTTGTTGCCCTTTTTGCA
GAAACGTCAATATATATGCATGCAAGCTTGTGTGAATTGGCTGTGATAATAATCCTTTTCATTTA
TGGTTCTCTGATTTCAGGGACTACCGTGGATTGTGTATCCTTAGCATTGTCTGGGGCAGTGCTCT
CATGGTCGAAGCCTCTCCTGGTTAGGCTTTCATCCTGATTTCTATGAATTAAAATACAAATTTGT
TTTTAACCACTTCCTGACTTCATGAAATTTCCAGGTGATTAGTGGAATAAACCGGGGGAGAAGCT
ATGGTCATAATAAGTTTTTTAACACGCCTGCACGATAATACTAATTGAATTTTCTTTGATTGTAG
CAGGTGGGAATATTACCCTCTTGATTCACTCTTCTAATAGATGGTATAAATTTTGCTTTGAATAT
TTTAACGCCTTTTGCTCAGCTTCATTCATATGTTATTATTGTTTTATCATGTTAATTTACCATCA
ATCCTCTTTGCTCTTCCTTGGATGATAAGTGTATTTATGATGTGTAATATACCAGG
Found at i:11763588 original size:12 final size:13
Alignment explanation
Indices: 11763571--11763607 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
11763561 GAACCGGACA
11763571 CGAACCGAA-CTC
1 CGAACCGAAGCTC
11763583 CGAACC-AAGCTC
1 CGAACCGAAGCTC
*
11763595 CGAACCGTAGCTC
1 CGAACCGAAGCTC
11763608 TGATGCCACT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
11 2 0.09
12 15 0.68
13 5 0.23
ACGTcount: A:0.30, C:0.41, G:0.19, T:0.11
Consensus pattern (13 bp):
CGAACCGAAGCTC
Found at i:11774074 original size:16 final size:15
Alignment explanation
Indices: 11774053--11774082 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
11774043 AGTAAAAGTT
11774053 AATTTAATTATTGATG
1 AATTTAATT-TTGATG
11774069 AATTTAATTTTGAT
1 AATTTAATTTTGAT
11774083 ACTCAAATAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.37, C:0.00, G:0.10, T:0.53
Consensus pattern (15 bp):
AATTTAATTTTGATG
Found at i:11777674 original size:70 final size:70
Alignment explanation
Indices: 11777573--11777713 Score: 264
Period size: 70 Copynumber: 2.0 Consensus size: 70
11777563 TTCTAACTTT
*
11777573 TTTTTTACATAACTATAGGTGTCTTCGTTCATTTTATAGTGTTAATATAATCTTCTTTTAACCAG
1 TTTTTTACATAACTATAGGTGTCTTCATTCATTTTATAGTGTTAATATAATCTTCTTTTAACCAG
11777638 AATGA
66 AATGA
*
11777643 TTTTTTACATAACTATAGGTGTCTTCATTCATTTTATAGTGTTAATATAATCTTCTTTTAACCGG
1 TTTTTTACATAACTATAGGTGTCTTCATTCATTTTATAGTGTTAATATAATCTTCTTTTAACCAG
11777708 AATGA
66 AATGA
11777713 T
1 T
11777714 GTTCACGTAA
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
70 69 1.00
ACGTcount: A:0.28, C:0.13, G:0.11, T:0.48
Consensus pattern (70 bp):
TTTTTTACATAACTATAGGTGTCTTCATTCATTTTATAGTGTTAATATAATCTTCTTTTAACCAG
AATGA
Found at i:11780428 original size:21 final size:21
Alignment explanation
Indices: 11780402--11780442 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
11780392 ATCTGCTCAA
* *
11780402 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
11780423 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
11780443 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:11783488 original size:17 final size:18
Alignment explanation
Indices: 11783453--11783506 Score: 65
Period size: 18 Copynumber: 3.0 Consensus size: 18
11783443 ATTTAAAATT
11783453 TATTTAAAAATACAAAAA
1 TATTTAAAAATACAAAAA
*
11783471 TATTTCAAAATA-AAAAA
1 TATTTAAAAATACAAAAA
**
11783488 TATTATAAAGTTACAAAAA
1 TATT-TAAAAATACAAAAA
11783507 CAATATAAAC
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
17 9 0.30
18 16 0.53
19 5 0.17
ACGTcount: A:0.63, C:0.06, G:0.02, T:0.30
Consensus pattern (18 bp):
TATTTAAAAATACAAAAA
Found at i:11783732 original size:25 final size:26
Alignment explanation
Indices: 11783682--11783733 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
11783672 GTAAACTTTG
* *
11783682 ATTTATAAAGTTTTAAAAATATTAAA
1 ATTTATAAAGTTTAAAAAATAGTAAA
*
11783708 ATTTCTAAA-TTTAAAAAATAGTAAA
1 ATTTATAAAGTTTAAAAAATAGTAAA
11783733 A
1 A
11783734 ATTAGTTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 15 0.65
26 8 0.35
ACGTcount: A:0.56, C:0.02, G:0.04, T:0.38
Consensus pattern (26 bp):
ATTTATAAAGTTTAAAAAATAGTAAA
Found at i:11783734 original size:26 final size:26
Alignment explanation
Indices: 11783682--11783736 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 26
11783672 GTAAACTTTG
* *
11783682 ATTTATAAAGTTTTAAAAATATTAAA
1 ATTTATAAAGTTTAAAAAATATAAAA
*
11783708 ATTTCTAAA-TTTAAAAAATAGTAAAA
1 ATTTATAAAGTTTAAAAAATA-TAAAA
11783734 ATT
1 ATT
11783737 AGTTTTTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 10 0.40
26 15 0.60
ACGTcount: A:0.55, C:0.02, G:0.04, T:0.40
Consensus pattern (26 bp):
ATTTATAAAGTTTAAAAAATATAAAA
Found at i:11796327 original size:31 final size:31
Alignment explanation
Indices: 11796289--11796347 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
11796279 CTTCTTCTGT
*
11796289 ATCTCTTCCTTGCTGATCCCACACATCAGCA
1 ATCTCTTCCTTGCTAATCCCACACATCAGCA
11796320 ATCTCTTCCTTGCTAATCCCACACATCA
1 ATCTCTTCCTTGCTAATCCCACACATCA
11796348 ACAAGGGTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.24, C:0.39, G:0.07, T:0.31
Consensus pattern (31 bp):
ATCTCTTCCTTGCTAATCCCACACATCAGCA
Found at i:11801832 original size:4 final size:4
Alignment explanation
Indices: 11801825--11801866 Score: 59
Period size: 4 Copynumber: 10.5 Consensus size: 4
11801815 AGATAGAAAC
*
11801825 AGAA AGAA AGAA AGAA AGAA AGAAA AGAA A-AA GGAA AGAA AG
1 AGAA AGAA AGAA AGAA AGAA AG-AA AGAA AGAA AGAA AGAA AG
11801867 GAAGGAGAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
3 2 0.06
4 28 0.82
5 4 0.12
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (4 bp):
AGAA
Found at i:11801877 original size:20 final size:20
Alignment explanation
Indices: 11801833--11801877 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
11801823 ACAGAAAGAA
11801833 AGAAA-GAAAGAAAGAAAAG
1 AGAAAGGAAAGAAAGAAAAG
* * *
11801852 AAAAAGGAAAGAAAGGAAGG
1 AGAAAGGAAAGAAAGAAAAG
11801872 AGAAAG
1 AGAAAG
11801878 CCACGACCTT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 4 0.19
20 17 0.81
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (20 bp):
AGAAAGGAAAGAAAGAAAAG
Found at i:11817654 original size:21 final size:21
Alignment explanation
Indices: 11817615--11817654 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
11817605 GCCCCTCGGT
* * *
11817615 TTTTTTTTTCCATTGTTTTTC
1 TTTTTCTTTCCACTATTTTTC
11817636 TTTTTCTTTCCACTATTTT
1 TTTTTCTTTCCACTATTTT
11817655 ACTTGCTTTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.07, C:0.17, G:0.03, T:0.72
Consensus pattern (21 bp):
TTTTTCTTTCCACTATTTTTC
Found at i:11829548 original size:20 final size:21
Alignment explanation
Indices: 11829523--11829576 Score: 83
Period size: 20 Copynumber: 2.6 Consensus size: 21
11829513 AACAGCGGTG
*
11829523 GCGGTGAGATTAGTTACT-TA
1 GCGGTGAGATTAGGTACTGTA
*
11829543 GCGGTGAGATTGGGTACTGTA
1 GCGGTGAGATTAGGTACTGTA
11829564 GCGGTGAGATTAG
1 GCGGTGAGATTAG
11829577 AAACAATGGT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 16 0.53
21 14 0.47
ACGTcount: A:0.22, C:0.09, G:0.39, T:0.30
Consensus pattern (21 bp):
GCGGTGAGATTAGGTACTGTA
Found at i:11829890 original size:22 final size:22
Alignment explanation
Indices: 11829839--11829890 Score: 52
Period size: 22 Copynumber: 2.3 Consensus size: 22
11829829 TTTTATAGTT
*
11829839 ATAATTAAATATTTTTTATAACA
1 ATAA-TAAATATTATTTATAACA
* *
11829862 ATTATAAATATTATTT-TCACAA
1 ATAATAAATATTATTTATAAC-A
11829884 ATAATAA
1 ATAATAA
11829891 CATTATACTT
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
21 3 0.12
22 18 0.75
23 3 0.12
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (22 bp):
ATAATAAATATTATTTATAACA
Found at i:11833242 original size:64 final size:64
Alignment explanation
Indices: 11833141--11833287 Score: 285
Period size: 64 Copynumber: 2.3 Consensus size: 64
11833131 ATGTTATATT
11833141 AGTTCGAATCCTCTAATTTTGATTGAATTAATAAGGTTAGAAATTTGAGAATTTTAAAATCTTA
1 AGTTCGAATCCTCTAATTTTGATTGAATTAATAAGGTTAGAAATTTGAGAATTTTAAAATCTTA
*
11833205 AGTTCGAATCCTTTAATTTTGATTGAATTAATAAGGTTAGAAATTTGAGAATTTTAAAATCTTA
1 AGTTCGAATCCTCTAATTTTGATTGAATTAATAAGGTTAGAAATTTGAGAATTTTAAAATCTTA
11833269 AGTTCGAATCCTCTAATTT
1 AGTTCGAATCCTCTAATTT
11833288 AAATACTATA
Statistics
Matches: 81, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
64 81 1.00
ACGTcount: A:0.36, C:0.09, G:0.14, T:0.41
Consensus pattern (64 bp):
AGTTCGAATCCTCTAATTTTGATTGAATTAATAAGGTTAGAAATTTGAGAATTTTAAAATCTTA
Found at i:11833939 original size:15 final size:15
Alignment explanation
Indices: 11833919--11833950 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
11833909 TGTAAGTTTC
11833919 TTAGAAATAAAATGA
1 TTAGAAATAAAATGA
*
11833934 TTAGAAATAAGATGA
1 TTAGAAATAAAATGA
11833949 TT
1 TT
11833951 GGGGAAATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.16, T:0.31
Consensus pattern (15 bp):
TTAGAAATAAAATGA
Found at i:11834633 original size:379 final size:379
Alignment explanation
Indices: 11833934--11834678 Score: 1427
Period size: 379 Copynumber: 2.0 Consensus size: 379
11833924 AATAAAATGA
11833934 TTAGAAATAAGATGATTGGGGAAATTTGGGTCAAAATTGAGGAAAAAGCAGTAAAGATAATCCTG
1 TTAGAAATAAGATGATTGGGGAAATTTGGGTCAAAATTGAGGAAAAAGCAGTAAAGATAATCCTG
11833999 GGAAGTGAATGAGAAACTTCCCAATCCAGGTGTTGAATGCAACAGTTTTTTCCTTTGAAATGAAC
66 GGAAGTGAATGAGAAACTTCCCAATCCAGGTGTTGAATGCAACAGTTTTTTCCTTTGAAATGAAC
* *
11834064 GACCGAAAGAGTGAGCTCTTTTTTTTCCTTCTTGTTGTTTATTTAATTTGTGCTTTCTTTGCTTC
131 GACCGAAAGAGTGAGCTCTTTTTTTTCCTTATTGTTGTTGATTTAATTTGTGCTTTCTTTGCTTC
*
11834129 TTTTCATTTGGTTAACGAATCTCTGAATCTTTTCATTTGATTTAATTTGTGCTTTCTTCGCTTTT
196 TTTTCATTTGGTTAACGAATCTCTGAATCTTTTCATTTAATTTAATTTGTGCTTTCTTCGCTTTT
11834194 TTTCATTTGGTTTGATTTATCCTCTCCCTCTCTCTTTGTCTCACACATATGCACATCAACAGACG
261 TTTCATTTGGTTTGATTTATCCTCTCCCTCTCTCTTTGTCTCACACATATGCACATCAACAGACG
*
11834259 CAATTGTGTGTTCATCTCTTGTTTTCATTATAATTTATTGCATTTGTAAGTTTC
326 CAATTGTGTGTTCATCTCTTGTTCTCATTATAATTTATTGCATTTGTAAGTTTC
*
11834313 TTAGAAATAAGATGATTGGGGAAATTTGGGTCAAAATTGAGGAAAAAGCAGTGAAGATAATCCTG
1 TTAGAAATAAGATGATTGGGGAAATTTGGGTCAAAATTGAGGAAAAAGCAGTAAAGATAATCCTG
*
11834378 GGAAGTGAATGGGAAACTTCCCAATCCAGGTGTTGAATGCAACAGTTTTTTCCTTTGAAATGAAC
66 GGAAGTGAATGAGAAACTTCCCAATCCAGGTGTTGAATGCAACAGTTTTTTCCTTTGAAATGAAC
11834443 GACCGAAAGAGTGAGCTCTTTTTTTTCCTTATTGTTGTTGATTTAATTTGTGCTTTCTTTGCTTC
131 GACCGAAAGAGTGAGCTCTTTTTTTTCCTTATTGTTGTTGATTTAATTTGTGCTTTCTTTGCTTC
11834508 TTTTCATTTGGTTAACGAATCTCTGAATCTTTTCATTTAATTTAATTTGTGCTTTCTTCGCTTTT
196 TTTTCATTTGGTTAACGAATCTCTGAATCTTTTCATTTAATTTAATTTGTGCTTTCTTCGCTTTT
*
11834573 TTTCATTTGGTTTGATTTATCCTCTCCCTCTCTCTTTGTCTCACACATATGCACATCAACAGATG
261 TTTCATTTGGTTTGATTTATCCTCTCCCTCTCTCTTTGTCTCACACATATGCACATCAACAGACG
11834638 CAATTGTGTGTTCATCTCTTGTTCTCATTATAATTTATTGC
326 CAATTGTGTGTTCATCTCTTGTTCTCATTATAATTTATTGC
11834679 TATTGAATGC
Statistics
Matches: 359, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
379 359 1.00
ACGTcount: A:0.25, C:0.16, G:0.17, T:0.42
Consensus pattern (379 bp):
TTAGAAATAAGATGATTGGGGAAATTTGGGTCAAAATTGAGGAAAAAGCAGTAAAGATAATCCTG
GGAAGTGAATGAGAAACTTCCCAATCCAGGTGTTGAATGCAACAGTTTTTTCCTTTGAAATGAAC
GACCGAAAGAGTGAGCTCTTTTTTTTCCTTATTGTTGTTGATTTAATTTGTGCTTTCTTTGCTTC
TTTTCATTTGGTTAACGAATCTCTGAATCTTTTCATTTAATTTAATTTGTGCTTTCTTCGCTTTT
TTTCATTTGGTTTGATTTATCCTCTCCCTCTCTCTTTGTCTCACACATATGCACATCAACAGACG
CAATTGTGTGTTCATCTCTTGTTCTCATTATAATTTATTGCATTTGTAAGTTTC
Found at i:11849490 original size:44 final size:44
Alignment explanation
Indices: 11849428--11849527 Score: 173
Period size: 44 Copynumber: 2.3 Consensus size: 44
11849418 TATGGATTGA
* *
11849428 GAGAAAACAACACCGATGGTGTTGTTGAGAAAGAATGATAAAGT
1 GAGAAAACGAGACCGATGGTGTTGTTGAGAAAGAATGATAAAGT
*
11849472 GAGAAAACGAGACTGATGGTGTTGTTGAGAAAGAATGATAAAGT
1 GAGAAAACGAGACCGATGGTGTTGTTGAGAAAGAATGATAAAGT
11849516 GAGAAAACGAGA
1 GAGAAAACGAGA
11849528 AAATATGTAA
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 53 1.00
ACGTcount: A:0.44, C:0.07, G:0.30, T:0.19
Consensus pattern (44 bp):
GAGAAAACGAGACCGATGGTGTTGTTGAGAAAGAATGATAAAGT
Found at i:11849528 original size:22 final size:22
Alignment explanation
Indices: 11849459--11849528 Score: 54
Period size: 22 Copynumber: 3.2 Consensus size: 22
11849449 TTGTTGAGAA
11849459 AGAATGATAAAGTGAGAAAACG
1 AGAATGATAAAGTGAGAAAACG
* *** * *
11849481 AGACTGATGGTGTTGTTGAGAA--
1 AGAATGATAAAG-TG-AGAAAACG
11849503 AGAATGATAAAGTGAGAAAACG
1 AGAATGATAAAGTGAGAAAACG
11849525 AGAA
1 AGAA
11849529 AATATGTAAA
Statistics
Matches: 32, Mismatches: 12, Indels: 8
0.62 0.23 0.15
Matches are distributed among these distances:
20 4 0.12
21 2 0.06
22 20 0.62
23 2 0.06
24 4 0.12
ACGTcount: A:0.47, C:0.04, G:0.30, T:0.19
Consensus pattern (22 bp):
AGAATGATAAAGTGAGAAAACG
Found at i:11849703 original size:24 final size:23
Alignment explanation
Indices: 11849670--11849715 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
11849660 TAGGAAAACA
11849670 TTTTCTAAAAAATAAAAGTGATG
1 TTTTCTAAAAAATAAAAGTGATG
11849693 TTTTCTAAAAAATAAAAGTGATG
1 TTTTCTAAAAAATAAAAGTGATG
11849716 AATTAAACTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.48, C:0.04, G:0.13, T:0.35
Consensus pattern (23 bp):
TTTTCTAAAAAATAAAAGTGATG
Found at i:11854412 original size:13 final size:13
Alignment explanation
Indices: 11854368--11854470 Score: 62
Period size: 13 Copynumber: 7.8 Consensus size: 13
11854358 TTTAGCAATA
11854368 CTTTTGAAAAGTG
1 CTTTTGAAAAGTG
** * * *
11854381 CAGTGGAAAAATA
1 CTTTTGAAAAGTG
*
11854394 CTTTTGAGAAGTG
1 CTTTTGAAAAGTG
11854407 CTTTTGAAAAGTTTG
1 CTTTTGAAAAG--TG
* * **
11854422 GTGTCAAAAAGTG
1 CTTTTGAAAAGTG
* * *
11854435 CATTTGAAAAATA
1 CTTTTGAAAAGTG
*
11854448 CTTTTGAGAAGTG
1 CTTTTGAAAAGTG
11854461 CTTTTGAAAA
1 CTTTTGAAAA
11854471 ATTTGAGTGT
Statistics
Matches: 60, Mismatches: 28, Indels: 4
0.65 0.30 0.04
Matches are distributed among these distances:
13 51 0.85
15 9 0.15
ACGTcount: A:0.36, C:0.08, G:0.22, T:0.34
Consensus pattern (13 bp):
CTTTTGAAAAGTG
Found at i:11854415 original size:26 final size:26
Alignment explanation
Indices: 11854364--11854472 Score: 96
Period size: 26 Copynumber: 4.1 Consensus size: 26
11854354 CTAGTTTAGC
* *
11854364 AATACTTTTGAAAAGTGCAGTGGAAA
1 AATACTTTTGAAAAGTGCATTTGAAA
* *
11854390 AATACTTTTGAGAAGTGCTTTTGAAA
1 AATACTTTTGAAAAGTGCATTTGAAA
* *
11854416 AGT--TTGGTGTCAAAAAGTGCATTTGAAA
1 AATACTT--T-T-GAAAAGTGCATTTGAAA
* *
11854444 AATACTTTTGAGAAGTGCTTTTGAAA
1 AATACTTTTGAAAAGTGCATTTGAAA
11854470 AAT
1 AAT
11854473 TTGAGTGTTT
Statistics
Matches: 65, Mismatches: 12, Indels: 12
0.73 0.13 0.13
Matches are distributed among these distances:
24 2 0.03
26 42 0.65
27 2 0.03
28 17 0.26
30 2 0.03
ACGTcount: A:0.38, C:0.07, G:0.21, T:0.34
Consensus pattern (26 bp):
AATACTTTTGAAAAGTGCATTTGAAA
Found at i:11854456 original size:54 final size:55
Alignment explanation
Indices: 11854374--11854480 Score: 180
Period size: 54 Copynumber: 2.0 Consensus size: 55
11854364 AATACTTTTG
*
11854374 AAAAGTGCAGTGGAAAAATACTTTTGAGAAGTGCTTTTGAAAAGTTTG-GTGTCA
1 AAAAGTGCAGTGGAAAAATACTTTTGAGAAGTGCTTTTGAAAAATTTGAGTGTCA
* *
11854428 AAAAGTGCATTTGAAAAATACTTTTGAGAAGTGCTTTTGAAAAATTTGAGTGT
1 AAAAGTGCAGTGGAAAAATACTTTTGAGAAGTGCTTTTGAAAAATTTGAGTGT
11854481 TTAGCATTGC
Statistics
Matches: 49, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
54 45 0.92
55 4 0.08
ACGTcount: A:0.36, C:0.07, G:0.23, T:0.34
Consensus pattern (55 bp):
AAAAGTGCAGTGGAAAAATACTTTTGAGAAGTGCTTTTGAAAAATTTGAGTGTCA
Found at i:11866596 original size:48 final size:48
Alignment explanation
Indices: 11866517--11866610 Score: 138
Period size: 48 Copynumber: 2.0 Consensus size: 48
11866507 AGGGAATTCT
* *
11866517 GTTGAATCCTTTATTGTTGCGAGTTGAGCTGACTTAGGCGTTTTTACG
1 GTTGAATCCATTATTGGTGCGAGTTGAGCTGACTTAGGCGTTTTTACG
11866565 GTTGAATCCATTATTGGTG-GAAGTT-AGGCTGACTTAGGCGTTTTTA
1 GTTGAATCCATTATTGGTGCG-AGTTGA-GCTGACTTAGGCGTTTTTA
11866611 AGCCAAGAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
47 2 0.05
48 40 0.95
ACGTcount: A:0.19, C:0.13, G:0.28, T:0.40
Consensus pattern (48 bp):
GTTGAATCCATTATTGGTGCGAGTTGAGCTGACTTAGGCGTTTTTACG
Found at i:11869110 original size:48 final size:48
Alignment explanation
Indices: 11869031--11869124 Score: 138
Period size: 48 Copynumber: 2.0 Consensus size: 48
11869021 AGGGAATTCT
* *
11869031 GTTGAATCCTTTATTGTTGCGAGTTGAGCTGACTTAGGCGTTTTTACG
1 GTTGAATCCATTATTGGTGCGAGTTGAGCTGACTTAGGCGTTTTTACG
11869079 GTTGAATCCATTATTGGTG-GAAGTT-AGGCTGACTTAGGCGTTTTTA
1 GTTGAATCCATTATTGGTGCG-AGTTGA-GCTGACTTAGGCGTTTTTA
11869125 AGCCAAGAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
47 2 0.05
48 40 0.95
ACGTcount: A:0.19, C:0.13, G:0.28, T:0.40
Consensus pattern (48 bp):
GTTGAATCCATTATTGGTGCGAGTTGAGCTGACTTAGGCGTTTTTACG
Found at i:11879406 original size:17 final size:16
Alignment explanation
Indices: 11879386--11879538 Score: 69
Period size: 17 Copynumber: 8.8 Consensus size: 16
11879376 TTAAAAAAAA
*
11879386 TTAATATGTTCAAAATT
1 TTAATATATT-AAAATT
*
11879403 TTAATATATTTAAATATA
1 TTAATATA-TTAAA-ATT
11879421 TTAAGTATATTAAAATT
1 TTAA-TATATTAAAATT
*
11879438 TTAA-ATTTTAAAATT
1 TTAATATATTAAAATT
* * *
11879453 GGTT-ATA-CTCAACATTTTCT
1 --TTAATATATTAA-A--AT-T
*
11879473 TTAACATATTTAAAATT
1 TTAATATA-TTAAAATT
11879490 TTAATATATTTAAAAATT
1 TTAATATA-TT-AAAATT
* *
11879508 TTAACTTTTTTAAAATT
1 TTAA-TATATTAAAATT
11879525 TTAAATATATTAAA
1 TT-AATATATTAAA
11879539 TATATTTTTT
Statistics
Matches: 104, Mismatches: 16, Indels: 32
0.68 0.11 0.21
Matches are distributed among these distances:
15 10 0.10
16 4 0.04
17 46 0.44
18 30 0.29
19 9 0.09
20 2 0.02
21 3 0.03
ACGTcount: A:0.44, C:0.05, G:0.03, T:0.49
Consensus pattern (16 bp):
TTAATATATTAAAATT
Found at i:11879578 original size:9 final size:9
Alignment explanation
Indices: 11879559--11879640 Score: 52
Period size: 9 Copynumber: 9.8 Consensus size: 9
11879549 TCTCTTTACC
11879559 TATTAAAATA
1 TATT-AAATA
11879569 TATTAAATA
1 TATTAAATA
11879578 TATTAAA-A
1 TATTAAATA
* *
11879586 T-TTCAATG
1 TATTAAATA
*
11879594 TATTTAA-A
1 TATTAAATA
11879602 -A--AAATA
1 TATTAAATA
*
11879608 TATTGAATA
1 TATTAAATA
11879617 TATTAAA-A
1 TATTAAATA
* *
11879625 TTTTTAATA
1 TATTAAATA
11879634 TATTAAA
1 TATTAAA
11879641 ATTTTAAAAT
Statistics
Matches: 54, Mismatches: 11, Indels: 15
0.68 0.14 0.19
Matches are distributed among these distances:
5 2 0.04
6 1 0.02
7 6 0.11
8 9 0.17
9 32 0.59
10 4 0.07
ACGTcount: A:0.52, C:0.01, G:0.02, T:0.44
Consensus pattern (9 bp):
TATTAAATA
Found at i:11879635 original size:17 final size:17
Alignment explanation
Indices: 11879613--11879645 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
11879603 AAATATATTG
11879613 AATATATTAAAATTTTT
1 AATATATTAAAATTTTT
11879630 AATATATTAAAATTTT
1 AATATATTAAAATTTT
11879646 AAAATTGGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
AATATATTAAAATTTTT
Found at i:11879640 original size:39 final size:39
Alignment explanation
Indices: 11879563--11879641 Score: 115
Period size: 39 Copynumber: 2.0 Consensus size: 39
11879553 TTTACCTATT
*
11879563 AAAATATATTAAATATATTAAAATTTCAATGTATTTAAA
1 AAAATATATTAAATATATTAAAATTTCAATATATTTAAA
* *
11879602 AAAATATATTGAATATATTAAAATTTTTAATATA-TTAAA
1 AAAATATATTAAATATATTAAAA-TTTCAATATATTTAAA
11879641 A
1 A
11879642 TTTTAAAATT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
39 28 0.78
40 8 0.22
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.42
Consensus pattern (39 bp):
AAAATATATTAAATATATTAAAATTTCAATATATTTAAA
Found at i:11879750 original size:17 final size:17
Alignment explanation
Indices: 11879728--11879761 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
11879718 TACTTAACCT
11879728 TTTTTAATATATTTAAA
1 TTTTTAATATATTTAAA
11879745 TTTTTAATATATTTAAA
1 TTTTTAATATATTTAAA
11879762 AAAATTAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
TTTTTAATATATTTAAA
Found at i:11879769 original size:61 final size:61
Alignment explanation
Indices: 11879613--11879769 Score: 196
Period size: 61 Copynumber: 2.6 Consensus size: 61
11879603 AAATATATTG
* *
11879613 AATATATTAAAATTTTTAATATA-TT-AAAATTTTAAAATTGGTTATAATTAACATTTTTT
1 AATATATTTAAATTTTTAATATATTTAAAAATATTAAAATTGGTTATAATTAACATTTTTT
* * * * *
11879672 AATATATTT--ATTTTTAAAAATATATCAAATATATTAAAATTGGTTATACTTAACCTTTTTT
1 AATATATTTAAATTTTT-AATATAT-TTAAAAATATTAAAATTGGTTATAATTAACATTTTTT
*
11879733 AATATATTTAAATTTTTAATATATTTAAAAAAATTAA
1 AATATATTTAAATTTTTAATATATTTAAAAATATTAA
11879770 TTTTTTTTAA
Statistics
Matches: 81, Mismatches: 11, Indels: 10
0.79 0.11 0.10
Matches are distributed among these distances:
57 6 0.07
58 5 0.06
59 8 0.10
60 1 0.01
61 49 0.60
62 6 0.07
63 6 0.07
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.49
Consensus pattern (61 bp):
AATATATTTAAATTTTTAATATATTTAAAAATATTAAAATTGGTTATAATTAACATTTTTT
Found at i:11879770 original size:35 final size:35
Alignment explanation
Indices: 11879731--11879801 Score: 90
Period size: 36 Copynumber: 2.0 Consensus size: 35
11879721 TTAACCTTTT
*
11879731 TTAA-TATATTTAAATTTTTAATATATTTAAAAAAA
1 TTAATTATATTTAAATTTTAAATATA-TTAAAAAAA
* * *
11879766 TTAATTTTTTTTAAATTTTAAATATATTAAGAAAA
1 TTAATTATATTTAAATTTTAAATATATTAAAAAAA
11879801 T
1 T
11879802 CTTTTTTGTC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
35 13 0.42
36 18 0.58
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (35 bp):
TTAATTATATTTAAATTTTAAATATATTAAAAAAA
Found at i:11879836 original size:13 final size:13
Alignment explanation
Indices: 11879818--11879842 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11879808 TGTCTTTACC
11879818 TATTAAATATATA
1 TATTAAATATATA
11879831 TATTAAATATAT
1 TATTAAATATAT
11879843 TAAAATTTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
TATTAAATATATA
Found at i:11882180 original size:21 final size:21
Alignment explanation
Indices: 11882117--11882189 Score: 60
Period size: 21 Copynumber: 3.5 Consensus size: 21
11882107 CAGAAATCTC
* *
11882117 CCCTCGTTCTTGCTGGTTTCT
1 CCCTCGTTTTTGCTAGTTTCT
* * * *
11882138 CCCT--TGTTTACTCGTTTGT
1 CCCTCGTTTTTGCTAGTTTCT
11882157 CCCTCGTTTTTGCTAGTTTCT
1 CCCTCGTTTTTGCTAGTTTCT
*
11882178 CCCCTCTTTTTT
1 -CCCTCGTTTTT
11882190 ACTTTGTTCT
Statistics
Matches: 39, Mismatches: 10, Indels: 5
0.72 0.19 0.09
Matches are distributed among these distances:
19 14 0.36
21 15 0.38
22 10 0.26
ACGTcount: A:0.03, C:0.32, G:0.14, T:0.52
Consensus pattern (21 bp):
CCCTCGTTTTTGCTAGTTTCT
Found at i:11884679 original size:6 final size:6
Alignment explanation
Indices: 11884668--11884723 Score: 60
Period size: 6 Copynumber: 9.2 Consensus size: 6
11884658 TATTGTTGAT
* * *
11884668 AATGGG AATGGG AATGGG AAATGGG AATGGG TAT-TG CATGGG AATGGG
1 AATGGG AATGGG AATGGG -AATGGG AATGGG AATGGG AATGGG AATGGG
11884716 AAATGGG A
1 -AATGGG A
11884724 GGAGGGCACG
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
5 3 0.07
6 27 0.64
7 12 0.29
ACGTcount: A:0.34, C:0.02, G:0.45, T:0.20
Consensus pattern (6 bp):
AATGGG
Found at i:11884692 original size:13 final size:13
Alignment explanation
Indices: 11884668--11884723 Score: 60
Period size: 13 Copynumber: 4.1 Consensus size: 13
11884658 TATTGTTGAT
11884668 AATGGG-AATGGG
1 AATGGGAAATGGG
11884680 AATGGGAAATGGG
1 AATGGGAAATGGG
*
11884693 AATGGGTATTGCATGGG
1 AATGGG-A---AATGGG
11884710 AATGGGAAATGGG
1 AATGGGAAATGGG
11884723 A
1 A
11884724 GGAGGGCACG
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
12 6 0.16
13 18 0.49
14 1 0.03
16 1 0.03
17 11 0.30
ACGTcount: A:0.34, C:0.02, G:0.45, T:0.20
Consensus pattern (13 bp):
AATGGGAAATGGG
Found at i:11884778 original size:60 final size:59
Alignment explanation
Indices: 11884705--11884895 Score: 237
Period size: 60 Copynumber: 3.2 Consensus size: 59
11884695 TGGGTATTGC
11884705 ATGGGAATGGGAAATGGGAGGAGGGCACGGTGGAAGAGGGGAATCGATGGAAGAGGGGAG
1 ATGGGAATGGGAAATGGGAGGAGGGCACGGTGGAAGAGGGGAAT-GATGGAAGAGGGGAG
* * * * * *
11884765 ATGGGAATGGGAAATGGGAGGACGGCATGGTGGAA-TGGGAAAT--TGGAA-TGGGTATTG
1 ATGGGAATGGGAAATGGGAGGAGGGCACGGTGGAAGAGGGGAATGATGGAAGAGGGGA--G
* *
11884822 CATGGGAATAGGAAATGGGAGGAGGGAACGGTGGAAGAGGGGAATGATGGAAGAGGGGAG
1 -ATGGGAATGGGAAATGGGAGGAGGGCACGGTGGAAGAGGGGAATGATGGAAGAGGGGAG
11884882 ATGGGAGATGGGAA
1 ATGGGA-ATGGGAA
11884896 TGGAGAAATT
Statistics
Matches: 108, Mismatches: 15, Indels: 16
0.78 0.11 0.12
Matches are distributed among these distances:
55 4 0.04
56 5 0.05
57 1 0.01
58 31 0.29
59 18 0.17
60 40 0.37
61 5 0.05
62 4 0.04
ACGTcount: A:0.32, C:0.04, G:0.50, T:0.14
Consensus pattern (59 bp):
ATGGGAATGGGAAATGGGAGGAGGGCACGGTGGAAGAGGGGAATGATGGAAGAGGGGAG
Found at i:11884872 original size:16 final size:16
Alignment explanation
Indices: 11884853--11884897 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
11884843 GAGGGAACGG
11884853 TGGAAGAGGGGAATGA
1 TGGAAGAGGGGAATGA
11884869 TGGAAGAGGGG-A-GA
1 TGGAAGAGGGGAATGA
* *
11884883 TGGGAGATGGGAATG
1 TGGAAGAGGGGAATG
11884898 GAGAAATTGC
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
14 11 0.44
15 2 0.08
16 12 0.48
ACGTcount: A:0.33, C:0.00, G:0.53, T:0.13
Consensus pattern (16 bp):
TGGAAGAGGGGAATGA
Found at i:11884893 original size:118 final size:118
Alignment explanation
Indices: 11884678--11884895 Score: 393
Period size: 118 Copynumber: 1.8 Consensus size: 118
11884668 AATGGGAATG
* *
11884678 GGAATGGGAAATGGGAATGGGTATTGCATGGGAATGGGAAATGGGAGGAGGGCACGGTGGAAGAG
1 GGAATGGGAAATGGGAATGGGTATTGCATGGGAATAGGAAATGGGAGGAGGGAACGGTGGAAGAG
11884743 GGGAATCGATGGAAGAGGGGAGATGGGAATGGGAAATGGGAGGACGGCATGGT
66 GGGAATCGATGGAAGAGGGGAGATGGGAATGGGAAATGGGAGGACGGCATGGT
*
11884796 GGAATGGGAAATTGGAATGGGTATTGCATGGGAATAGGAAATGGGAGGAGGGAACGGTGGAAGAG
1 GGAATGGGAAATGGGAATGGGTATTGCATGGGAATAGGAAATGGGAGGAGGGAACGGTGGAAGAG
11884861 GGGAAT-GATGGAAGAGGGGAGATGGGAGATGGGAA
66 GGGAATCGATGGAAGAGGGGAGATGGGA-ATGGGAA
11884896 TGGAGAAATT
Statistics
Matches: 96, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
117 21 0.22
118 75 0.78
ACGTcount: A:0.32, C:0.04, G:0.50, T:0.15
Consensus pattern (118 bp):
GGAATGGGAAATGGGAATGGGTATTGCATGGGAATAGGAAATGGGAGGAGGGAACGGTGGAAGAG
GGGAATCGATGGAAGAGGGGAGATGGGAATGGGAAATGGGAGGACGGCATGGT
Found at i:11884894 original size:14 final size:14
Alignment explanation
Indices: 11884853--11884899 Score: 51
Period size: 14 Copynumber: 3.3 Consensus size: 14
11884843 GAGGGAACGG
11884853 TGGAAGAGGGGAATGA
1 TGGAAGAGGGG-A-GA
11884869 TGGAAGAGGGGAGA
1 TGGAAGAGGGGAGA
* *
11884883 TGGGAGATGGGA-A
1 TGGAAGAGGGGAGA
11884896 TGGA
1 TGGA
11884900 GAAATTGCAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
13 4 0.14
14 12 0.43
15 1 0.04
16 11 0.39
ACGTcount: A:0.34, C:0.00, G:0.53, T:0.13
Consensus pattern (14 bp):
TGGAAGAGGGGAGA
Found at i:11891232 original size:17 final size:17
Alignment explanation
Indices: 11891197--11891235 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
11891187 TTTTTTGGAG
*
11891197 TTTTATATTCTAATATA
1 TTTTATATTCAAATATA
* *
11891214 TTTTATATTGAAATTTA
1 TTTTATATTCAAATATA
11891231 TTTTA
1 TTTTA
11891236 AATATATAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.62
Consensus pattern (17 bp):
TTTTATATTCAAATATA
Found at i:11891255 original size:23 final size:23
Alignment explanation
Indices: 11891225--11891318 Score: 78
Period size: 22 Copynumber: 4.3 Consensus size: 23
11891215 TTTATATTGA
11891225 AATT-TAT-TTTAAATATATAA-
1 AATTATATATTTAAATATATAAT
*
11891245 AATTATATATTTAAATTTATAAT
1 AATTATATATTTAAATATATAAT
* * *
11891268 GATTATAT-TTT-AAT-TCTTAT
1 AATTATATATTTAAATATATAAT
11891288 AGATTATATATTTAAAT-TA-AAT
1 A-ATTATATATTTAAATATATAAT
11891310 AATTGATAT
1 AATT-ATAT
11891319 TAATTATTTA
Statistics
Matches: 60, Mismatches: 7, Indels: 12
0.76 0.09 0.15
Matches are distributed among these distances:
20 8 0.13
21 16 0.27
22 25 0.42
23 11 0.18
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.51
Consensus pattern (23 bp):
AATTATATATTTAAATATATAAT
Found at i:11892115 original size:3 final size:3
Alignment explanation
Indices: 11892107--11892134 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
11892097 TTCATCGTTC
11892107 TCA TCA TCA TCA TCA TCA TCA TCA TCA T
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA T
11892135 TTCCATCTCC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.32, G:0.00, T:0.36
Consensus pattern (3 bp):
TCA
Found at i:11894944 original size:20 final size:20
Alignment explanation
Indices: 11894911--11894970 Score: 61
Period size: 20 Copynumber: 3.0 Consensus size: 20
11894901 TGAAAAATAA
*
11894911 TAAAATAAATAAATAATACAT
1 TAAATTAAA-AAATAATACAT
*
11894932 TAAATTAAAAAATAATTC-T
1 TAAATTAAAAAATAATACAT
*
11894951 TAATTTTAAAAAATAA-ACAT
1 TAA-ATTAAAAAATAATACAT
11894971 AATTATCTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
19 5 0.15
20 20 0.61
21 8 0.24
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (20 bp):
TAAATTAAAAAATAATACAT
Found at i:11908136 original size:20 final size:20
Alignment explanation
Indices: 11908111--11908160 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
11908101 TGGCTTAAAA
11908111 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
11908131 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
11908148 GTGGTAGTGGATT
1 TTGGTAGTGGATT
11908161 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:11912765 original size:20 final size:20
Alignment explanation
Indices: 11912740--11912789 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
11912730 TGGCTTAAAA
11912740 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
11912760 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
11912777 GTGGTAGTGGATT
1 TTGGTAGTGGATT
11912790 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:11915307 original size:17 final size:17
Alignment explanation
Indices: 11915285--11915317 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
11915275 CGAAACCCTG
11915285 AGTTTGTTCTGTTTTCT
1 AGTTTGTTCTGTTTTCT
*
11915302 AGTTTGTTCTTTTTTC
1 AGTTTGTTCTGTTTTC
11915318 CTTCTTTTTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.06, C:0.12, G:0.15, T:0.67
Consensus pattern (17 bp):
AGTTTGTTCTGTTTTCT
Found at i:11930066 original size:4 final size:4
Alignment explanation
Indices: 11930057--11930095 Score: 51
Period size: 4 Copynumber: 9.8 Consensus size: 4
11930047 TATCTATATC
* * *
11930057 ACAT ACAT ACAC GCAT ACAT ACAT ACAT GCAT ACAT ACA
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACA
11930096 GCATATCTGC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.46, C:0.28, G:0.05, T:0.21
Consensus pattern (4 bp):
ACAT
Found at i:11930078 original size:16 final size:16
Alignment explanation
Indices: 11930057--11930095 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
11930047 TATCTATATC
11930057 ACATACATACACGCAT
1 ACATACATACACGCAT
*
11930073 ACATACATACATGCAT
1 ACATACATACACGCAT
11930089 ACATACA
1 ACATACA
11930096 GCATATCTGC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.46, C:0.28, G:0.05, T:0.21
Consensus pattern (16 bp):
ACATACATACACGCAT
Found at i:11939262 original size:12 final size:12
Alignment explanation
Indices: 11939245--11939269 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
11939235 TTTTTATGGT
11939245 ATTCTTATTTTC
1 ATTCTTATTTTC
11939257 ATTCTTATTTTC
1 ATTCTTATTTTC
11939269 A
1 A
11939270 AACATAGAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.20, C:0.16, G:0.00, T:0.64
Consensus pattern (12 bp):
ATTCTTATTTTC
Found at i:11946148 original size:23 final size:26
Alignment explanation
Indices: 11946117--11946175 Score: 81
Period size: 27 Copynumber: 2.4 Consensus size: 26
11946107 TGTGATAATT
11946117 ATTG-ATTGAAAG-GTG-GAAAA-TG
1 ATTGAATTGAAAGTGTGAGAAAAGTG
11946139 ATTGAATTGAAAGTGTGAGAAAATGTG
1 ATTGAATTGAAAGTGTGAGAAAA-GTG
11946166 ATTGAATTGA
1 ATTGAATTGA
11946176 GAATTATATG
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
22 4 0.12
23 8 0.25
24 3 0.09
25 5 0.16
27 12 0.38
ACGTcount: A:0.41, C:0.00, G:0.29, T:0.31
Consensus pattern (26 bp):
ATTGAATTGAAAGTGTGAGAAAAGTG
Found at i:11946379 original size:37 final size:39
Alignment explanation
Indices: 11946320--11946415 Score: 108
Period size: 39 Copynumber: 2.5 Consensus size: 39
11946310 CGGATAGATT
* * * *
11946320 CGATGAGGTACTGGGTACCAACT-TT-CTTCG-GCTTTGC
1 CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTAT-C
* *
11946357 CGATGAGACACTGGGTGTCAACTATTGCTTCGAACTATC
1 CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTATC
11946396 CGATGAGGCACTGGGTGCCA
1 CGATGAGGCACTGGGTGCCA
11946416 TTCTGGTGTG
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
37 19 0.40
38 2 0.04
39 24 0.50
40 3 0.06
ACGTcount: A:0.21, C:0.24, G:0.28, T:0.27
Consensus pattern (39 bp):
CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTATC
Found at i:11952425 original size:28 final size:29
Alignment explanation
Indices: 11952394--11952449 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 29
11952384 TATTATTATT
*
11952394 TATATAAATATATAAATTA-ATTATAAAG
1 TATATAAATAAATAAATTACATTATAAAG
* * *
11952422 TATATTATTAAATTAATTACATTATAAA
1 TATATAAATAAATAAATTACATTATAAA
11952450 TATTATATTA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
28 15 0.65
29 8 0.35
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.43
Consensus pattern (29 bp):
TATATAAATAAATAAATTACATTATAAAG
Found at i:11953217 original size:3 final size:3
Alignment explanation
Indices: 11953209--11953238 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
11953199 GTGAGGTAAG
11953209 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
11953239 GAGTGGGAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:11953651 original size:37 final size:39
Alignment explanation
Indices: 11953592--11953687 Score: 108
Period size: 39 Copynumber: 2.5 Consensus size: 39
11953582 CGGATAGATT
* * * *
11953592 CGATGAGGTACTGGGTACCAACT-TT-CTTCG-GCTTTGC
1 CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTAT-C
* *
11953629 CGATGAGACACTGGGTGTCAACTATTGCTTCGAACTATC
1 CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTATC
11953668 CGATGAGGCACTGGGTGCCA
1 CGATGAGGCACTGGGTGCCA
11953688 TTCTGGTGTG
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
37 19 0.40
38 2 0.04
39 24 0.50
40 3 0.06
ACGTcount: A:0.21, C:0.24, G:0.28, T:0.27
Consensus pattern (39 bp):
CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTATC
Found at i:11968847 original size:25 final size:26
Alignment explanation
Indices: 11968813--11968861 Score: 91
Period size: 25 Copynumber: 1.9 Consensus size: 26
11968803 AAGTCATCTC
11968813 CAGTTAGATTAC-TTCAAAATGCTGA
1 CAGTTAGATTACTTTCAAAATGCTGA
11968838 CAGTTAGATTACTTTCAAAATGCT
1 CAGTTAGATTACTTTCAAAATGCT
11968862 TTCCAGATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 12 0.52
26 11 0.48
ACGTcount: A:0.35, C:0.16, G:0.14, T:0.35
Consensus pattern (26 bp):
CAGTTAGATTACTTTCAAAATGCTGA
Found at i:11979136 original size:31 final size:31
Alignment explanation
Indices: 11979096--11979155 Score: 111
Period size: 31 Copynumber: 1.9 Consensus size: 31
11979086 AGTAATGAAA
11979096 AACTAGTCCTAAGACAAATAATAAATAAAAG
1 AACTAGTCCTAAGACAAATAATAAATAAAAG
*
11979127 AACTGGTCCTAAGACAAATAATAAATAAA
1 AACTAGTCCTAAGACAAATAATAAATAAA
11979156 TCACTTTAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.57, C:0.13, G:0.10, T:0.20
Consensus pattern (31 bp):
AACTAGTCCTAAGACAAATAATAAATAAAAG
Found at i:11979693 original size:41 final size:41
Alignment explanation
Indices: 11979647--11979730 Score: 168
Period size: 41 Copynumber: 2.0 Consensus size: 41
11979637 AATCCACATA
11979647 ATTATCTTTTTATCGATAATGTTTGTAAGTAAATATTTATC
1 ATTATCTTTTTATCGATAATGTTTGTAAGTAAATATTTATC
11979688 ATTATCTTTTTATCGATAATGTTTGTAAGTAAATATTTATC
1 ATTATCTTTTTATCGATAATGTTTGTAAGTAAATATTTATC
11979729 AT
1 AT
11979731 CCTTGGTGAC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.32, C:0.07, G:0.10, T:0.51
Consensus pattern (41 bp):
ATTATCTTTTTATCGATAATGTTTGTAAGTAAATATTTATC
Found at i:11993775 original size:21 final size:21
Alignment explanation
Indices: 11993728--11993768 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
11993718 GTATCAACAT
11993728 ATTGAACCGGCTAAAAAATCA
1 ATTGAACCGGCTAAAAAATCA
* *
11993749 ATTGAACTGGCTGAAAAATC
1 ATTGAACCGGCTAAAAAATC
11993769 GGTTGAATCG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.44, C:0.17, G:0.17, T:0.22
Consensus pattern (21 bp):
ATTGAACCGGCTAAAAAATCA
Found at i:12003062 original size:7 final size:7
Alignment explanation
Indices: 12003052--12003083 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
12003042 TAAAATATAA
12003052 ATATTCT
1 ATATTCT
12003059 ATATTCT
1 ATATTCT
12003066 ATATTCT
1 ATATTCT
*
12003073 ATATTTT
1 ATATTCT
12003080 ATAT
1 ATAT
12003084 ATTGGGTTGG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.31, C:0.09, G:0.00, T:0.59
Consensus pattern (7 bp):
ATATTCT
Found at i:12005887 original size:14 final size:14
Alignment explanation
Indices: 12005868--12005896 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
12005858 ACAGTGAGAC
12005868 GTTTCTACTGCACT
1 GTTTCTACTGCACT
12005882 GTTTCTACTGCACT
1 GTTTCTACTGCACT
12005896 G
1 G
12005897 GACAGTCTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.14, C:0.28, G:0.17, T:0.41
Consensus pattern (14 bp):
GTTTCTACTGCACT
Found at i:12006102 original size:22 final size:22
Alignment explanation
Indices: 12006074--12006146 Score: 114
Period size: 21 Copynumber: 3.4 Consensus size: 22
12006064 CAAAACAACA
12006074 GTTTCTCCCTTCGTTCTTGCTG
1 GTTTCTCCCTTCGTTCTTGCTG
12006096 GTTTCTCCCTT-GTTCTTGCTG
1 GTTTCTCCCTTCGTTCTTGCTG
* *
12006117 GTTTGTCCC-TCGTTTTTGCTG
1 GTTTCTCCCTTCGTTCTTGCTG
12006138 GTTTCTCCC
1 GTTTCTCCC
12006147 CTCTTTTTTG
Statistics
Matches: 47, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
20 1 0.02
21 35 0.74
22 11 0.23
ACGTcount: A:0.00, C:0.30, G:0.19, T:0.51
Consensus pattern (22 bp):
GTTTCTCCCTTCGTTCTTGCTG
Found at i:12006165 original size:22 final size:22
Alignment explanation
Indices: 12006074--12006158 Score: 102
Period size: 21 Copynumber: 4.0 Consensus size: 22
12006064 CAAAACAACA
* *
12006074 GTTTCTCCCTTCGTTCTTGCTG
1 GTTTCTCCCCTCGTTTTTGCTG
* *
12006096 GTTTCT-CCCTTGTTCTTGCTG
1 GTTTCTCCCCTCGTTTTTGCTG
*
12006117 GTTTGT-CCCTCGTTTTTGCTG
1 GTTTCTCCCCTCGTTTTTGCTG
*
12006138 GTTTCTCCCCTCTTTTTTGCT
1 GTTTCTCCCCTCGTTTTTGCT
12006159 TTGTTCTTGG
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
21 36 0.65
22 19 0.35
ACGTcount: A:0.00, C:0.29, G:0.18, T:0.53
Consensus pattern (22 bp):
GTTTCTCCCCTCGTTTTTGCTG
Found at i:12008714 original size:31 final size:31
Alignment explanation
Indices: 12008676--12008863 Score: 270
Period size: 36 Copynumber: 5.8 Consensus size: 31
12008666 TGCACTGTAT
12008676 TAGTGTATTTTAAAAATAAAAAATATATATG
1 TAGTGTATTTTAAAAATAAAAAATATATATG
*
12008707 TAATGTATTTTAAAAATAAAAAA-ATATATG
1 TAGTGTATTTTAAAAATAAAAAATATATATG
12008737 TAGTGTATTTTAAAAATAAAATAAAATATATATATG
1 TAGTGTATTTTAAAAAT---A-AAAA-ATATATATG
12008773 TAGTGTATTTTAAAAATAAAATAAAATATATATATG
1 TAGTGTATTTTAAAAAT---A-AAAA-ATATATATG
12008809 TAGTGTATTTTAAAAATAAAAAATATATATG
1 TAGTGTATTTTAAAAATAAAAAATATATATG
12008840 TAGTGTATTTTAAAAATAAAAAAT
1 TAGTGTATTTTAAAAATAAAAAAT
12008864 TTAGTTTATA
Statistics
Matches: 149, Mismatches: 2, Indels: 12
0.91 0.01 0.07
Matches are distributed among these distances:
30 23 0.15
31 55 0.37
32 4 0.03
33 2 0.01
34 4 0.03
35 1 0.01
36 60 0.40
ACGTcount: A:0.53, C:0.00, G:0.09, T:0.38
Consensus pattern (31 bp):
TAGTGTATTTTAAAAATAAAAAATATATATG
Found at i:12008885 original size:67 final size:63
Alignment explanation
Indices: 12008676--12008863 Score: 272
Period size: 67 Copynumber: 2.9 Consensus size: 63
12008666 TGCACTGTAT
*
12008676 TAGTGTATTTTAAAAATAAAAAATATATATGTAATGTATTTTAAAAATAAAAAA-A-TATATG
1 TAGTGTATTTTAAAAATAAAAAATATATATGTAGTGTATTTTAAAAATAAAAAATATTATATG
12008737 TAGTGTATTTTAAAAATAAAATAAAATATATATATGTAGTGTATTTTAAAAATAAAATAAAATAT
1 TAGTGTATTTTAAAAAT---A-AAAA-ATATATATGTAGTGTATTTTAAAAAT--AA-AAAATAT
12008802 ATATATG
58 -TATATG
12008809 TAGTGTATTTTAAAAATAAAAAATATATATGTAGTGTATTTTAAAAATAAAAAAT
1 TAGTGTATTTTAAAAATAAAAAATATATATGTAGTGTATTTTAAAAATAAAAAAT
12008864 TTAGTTTATA
Statistics
Matches: 115, Mismatches: 1, Indels: 19
0.85 0.01 0.14
Matches are distributed among these distances:
61 17 0.15
64 6 0.05
65 6 0.05
66 25 0.22
67 26 0.23
68 6 0.05
69 5 0.04
70 1 0.01
72 23 0.20
ACGTcount: A:0.53, C:0.00, G:0.09, T:0.38
Consensus pattern (63 bp):
TAGTGTATTTTAAAAATAAAAAATATATATGTAGTGTATTTTAAAAATAAAAAATATTATATG
Found at i:12012498 original size:29 final size:30
Alignment explanation
Indices: 12012439--12012496 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
12012429 TCCGAGCCTT
*
12012439 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
12012469 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
12012497 AGAGTCGAGG
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:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:12012726 original size:13 final size:13
Alignment explanation
Indices: 12012708--12012739 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
12012698 TTTCCAGCAA
12012708 TTATGAATTTATT
1 TTATGAATTTATT
12012721 TTATGAATTTATT
1 TTATGAATTTATT
*
12012734 TGATGA
1 TTATGA
12012740 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:12012947 original size:50 final size:50
Alignment explanation
Indices: 12012834--12013075 Score: 297
Period size: 50 Copynumber: 4.7 Consensus size: 50
12012824 ATTTGGGTAA
* * *
12012834 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
12012890 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
12012940 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
12012990 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
12013040 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
12013076 TTTGGCATGT
Statistics
Matches: 166, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.55
51 29 0.17
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.23
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:12013023 original size:100 final size:103
Alignment explanation
Indices: 12012834--12013083 Score: 364
Period size: 100 Copynumber: 2.4 Consensus size: 103
12012824 ATTTGGGTAA
12012834 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
12012899 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
12012940 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
12013002 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
12013040 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
12013084 GTTATTATCA
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 51 0.38
101 39 0.29
105 2 0.02
106 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:12020087 original size:29 final size:30
Alignment explanation
Indices: 12020028--12020085 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
12020018 TCCGAGCCTT
*
12020028 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
12020058 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
12020086 AGAGTCGAGG
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:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:12020315 original size:13 final size:13
Alignment explanation
Indices: 12020297--12020328 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
12020287 TTTCCAGCAA
12020297 TTATGAATTTATT
1 TTATGAATTTATT
12020310 TTATGAATTTATT
1 TTATGAATTTATT
*
12020323 TGATGA
1 TTATGA
12020329 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:12020536 original size:50 final size:50
Alignment explanation
Indices: 12020423--12020665 Score: 290
Period size: 50 Copynumber: 4.7 Consensus size: 50
12020413 ATTTGGGTAA
* * *
12020423 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
12020479 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
12020529 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
12020579 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACAC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCAC-CGA-GACG
**
12020630 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
12020666 TTTGGCATGT
Statistics
Matches: 166, Mismatches: 18, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
50 87 0.52
51 5 0.03
52 30 0.18
53 3 0.02
55 2 0.01
56 39 0.23
ACGTcount: A:0.27, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:12020612 original size:100 final size:104
Alignment explanation
Indices: 12020423--12020673 Score: 359
Period size: 100 Copynumber: 2.4 Consensus size: 104
12020413 ATTTGGGTAA
12020423 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
12020488 CTGTAAGACCATGTCTGGGACATGGCATGGGCAC-CGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACAC-ATCACG
* * *
12020529 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
12020591 TAAGACCATGTCTGGGACATGGCATGGGCACACATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACACATCACG
* *
12020630 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
12020674 GTTATTATCA
Statistics
Matches: 133, Mismatches: 8, Indels: 11
0.88 0.05 0.07
Matches are distributed among these distances:
100 46 0.35
101 8 0.06
102 37 0.28
105 2 0.02
106 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (104 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACACATCACG
Found at i:12027580 original size:29 final size:30
Alignment explanation
Indices: 12027527--12027583 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
12027517 TCCGAGCCTT
*
12027527 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
12027557 GGGGC-AAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
12027584 AAGTCGAGGC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 19 0.79
30 5 0.21
ACGTcount: A:0.40, C:0.04, G:0.25, T:0.32
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:12027806 original size:13 final size:13
Alignment explanation
Indices: 12027788--12027819 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
12027778 TTTCCAGCAA
12027788 TTATGAATTTATT
1 TTATGAATTTATT
12027801 TTATGAATTTATT
1 TTATGAATTTATT
*
12027814 TGATGA
1 TTATGA
12027820 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:12028040 original size:50 final size:51
Alignment explanation
Indices: 12027918--12028148 Score: 251
Period size: 51 Copynumber: 4.5 Consensus size: 51
12027908 GTAAAGAGAT
* *
12027918 CCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCGTAAGATC-ATGAGAGTC
1 CCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CCG--AGAACGA-GAG-GTC
*
12027973 CCCTGTAAGACCATGTCTGGGAC-TGGCATGGGCACCGAGAACGAGAGGTC
1 CCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGAACGAGAGGTC
* * *
12028023 CCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG-ATGAGAGGTC
1 CCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGAACGAGAGGTC
* * ** **
12028073 CCCTATAAGACCACTGTCTGGGACATGGCATGGGCACC-ATCACGAGA--AA
1 CCATGTAAGACCA-TGTCTGGGACATGGCATGGGCACCGAGAACGAGAGGTC
12028122 CCATGT-AGACCATGTCTGGGACATGGC
1 CCATGTAAGACCATGTCTGGGACATGGC
12028149 TTTGGCATGT
Statistics
Matches: 155, Mismatches: 17, Indels: 16
0.82 0.09 0.09
Matches are distributed among these distances:
47 15 0.10
48 6 0.04
49 4 0.03
50 46 0.30
51 48 0.31
52 1 0.01
53 3 0.02
54 10 0.06
55 22 0.14
ACGTcount: A:0.26, C:0.25, G:0.30, T:0.19
Consensus pattern (51 bp):
CCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGAACGAGAGGTC
Found at i:12028056 original size:105 final size:100
Alignment explanation
Indices: 12027918--12028156 Score: 315
Period size: 105 Copynumber: 2.4 Consensus size: 100
12027908 GTAAAGAGAT
*
12027918 CCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCGTAAGATCATGAGAGTCCCCTGTAAGA
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCG--AGATCA-GAG-GTCCCCTATAAGA
**
12027983 CCA-TGTCTGGGAC-TGGCATGGGCACCGAGAACGAGAGGTC
62 CCACTGTCTGGGACATGGCATGGGCACC-AGAACGAGA--AA
* *
12028023 CCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CCGAGATGAGAGGTCCCCTATAAGACCAC
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCGAGATCAGAGGTCCCCTATAAGACCAC
**
12028087 TGTCTGGGACATGGCATGGGCACCATCACGAGAAA
66 TGTCTGGGACATGGCATGGGCACCAGAACGAGAAA
*
12028122 CCATGT-AGACCATGTCTGGGACATGGCTTTGGCAT
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
12028157 GTTATTATTC
Statistics
Matches: 123, Mismatches: 8, Indels: 12
0.86 0.06 0.08
Matches are distributed among these distances:
98 27 0.22
99 6 0.05
100 15 0.12
101 20 0.16
102 18 0.15
104 3 0.02
105 34 0.28
ACGTcount: A:0.26, C:0.24, G:0.30, T:0.21
Consensus pattern (100 bp):
CCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCGAGATCAGAGGTCCCCTATAAGACCAC
TGTCTGGGACATGGCATGGGCACCAGAACGAGAAA
Found at i:12028091 original size:51 final size:50
Alignment explanation
Indices: 12027921--12028110 Score: 247
Period size: 50 Copynumber: 3.7 Consensus size: 50
12027911 AAGAGATCCA
* *
12027921 TGTAAGACCATGTCTGGGACATGGCATTGGCATCCGTAAGATCATGAGAGTCCCC
1 TGTAAGACCATGTCTGGGACATGGCATGGGCA-CCG--AGATGA-GAG-GTCCCC
* *
12027976 TGTAAGACCATGTCTGGGAC-TGGCATGGGCACCGAGAACGAGAGGTCCCA
1 TGTAAGACCATGTCTGGGACATGGCATGGGCACCGAG-ATGAGAGGTCCCC
* *
12028026 TGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCC
1 TGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATGAGAGGTCCCC
*
12028076 TATAAGACCACTGTCTGGGACATGGCATGGGCACC
1 TGTAAGACCA-TGTCTGGGACATGGCATGGGCACC
12028111 ATCACGAGAA
Statistics
Matches: 121, Mismatches: 11, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
50 45 0.37
51 41 0.34
52 2 0.02
53 3 0.02
54 10 0.08
55 20 0.17
ACGTcount: A:0.25, C:0.24, G:0.31, T:0.20
Consensus pattern (50 bp):
TGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATGAGAGGTCCCC
Found at i:12032930 original size:3 final size:3
Alignment explanation
Indices: 12032922--12033111 Score: 71
Period size: 3 Copynumber: 63.7 Consensus size: 3
12032912 AGTTGTTTCT
* **
12032922 TGC TGC TGC TGC TGC TG- TGGC TGC TGT TG- TG- TAAT TGC TGC TGC
1 TGC TGC TGC TGC TGC TGC T-GC TGC TGC TGC TGC T-GC TGC TGC TGC
* * * * * * ** ** **
12032966 TGT TGC AGC TGT TGT TGC TGA TGA TGC AAC TGC TGC TGC AAC TGC AAC
1 TGC TGC TGC TGC TGC TGC TGC TGC TGC TGC TGC TGC TGC TGC TGC TGC
* * * * ** **
12033014 TGT TGC TGT TGT TGT TGC TGC TGC TGC TGC TGC TGC AAC TGC AAC TGC
1 TGC TGC TGC TGC TGC TGC TGC TGC TGC TGC TGC TGC TGC TGC TGC TGC
* * *** **
12033062 TGC TGT TGT TGC TGC TGC AAT TGC AAC TGC TGC TGC TGC TGC TGC TGC
1 TGC TGC TGC TGC TGC TGC TGC TGC TGC TGC TGC TGC TGC TGC TGC TGC
12033110 TG
1 TG
12033112 GTTCATGTAA
Statistics
Matches: 135, Mismatches: 48, Indels: 8
0.71 0.25 0.04
Matches are distributed among these distances:
2 4 0.03
3 129 0.96
4 2 0.01
ACGTcount: A:0.10, C:0.24, G:0.30, T:0.36
Consensus pattern (3 bp):
TGC
Found at i:12033063 original size:30 final size:30
Alignment explanation
Indices: 12033029--12033109 Score: 135
Period size: 30 Copynumber: 2.7 Consensus size: 30
12033019 CTGTTGTTGT
12033029 TGCTGCTGCTGCTGCTGCTGCAACTGCAAC
1 TGCTGCTGCTGCTGCTGCTGCAACTGCAAC
* * *
12033059 TGCTGCTGTTGTTGCTGCTGCAATTGCAAC
1 TGCTGCTGCTGCTGCTGCTGCAACTGCAAC
12033089 TGCTGCTGCTGCTGCTGCTGC
1 TGCTGCTGCTGCTGCTGCTGC
12033110 TGGTTCATGT
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 46 1.00
ACGTcount: A:0.10, C:0.30, G:0.28, T:0.32
Consensus pattern (30 bp):
TGCTGCTGCTGCTGCTGCTGCAACTGCAAC
Found at i:12033092 original size:45 final size:45
Alignment explanation
Indices: 12032998--12033094 Score: 131
Period size: 45 Copynumber: 2.2 Consensus size: 45
12032988 GATGCAACTG
* * ** **
12032998 CTGCTGCAACTGCAACTGTTGCTGTTGTTGTTGCTGCTGCTGCTG
1 CTGCTGCAACTGCAACTGCTGCTGTTGTTGCTGCTGCAACTGCAA
*
12033043 CTGCTGCAACTGCAACTGCTGCTGTTGTTGCTGCTGCAATTGCAA
1 CTGCTGCAACTGCAACTGCTGCTGTTGTTGCTGCTGCAACTGCAA
12033088 CTGCTGC
1 CTGCTGC
12033095 TGCTGCTGCT
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.12, C:0.27, G:0.27, T:0.34
Consensus pattern (45 bp):
CTGCTGCAACTGCAACTGCTGCTGTTGTTGCTGCTGCAACTGCAA
Found at i:12033107 original size:45 final size:43
Alignment explanation
Indices: 12032973--12033111 Score: 129
Period size: 45 Copynumber: 3.1 Consensus size: 43
12032963 TGCTGTTGCA
* *
12032973 GCTGTTGTTGCTGATG-ATGCAACTGCTGCTGCAACTGCAACTGTT
1 GCTGTTGTTGCTGCTGCATGCAACTGCTGCTG---CTGCAACTGCT
* **
12033018 GCTGTTGTTGTTGCTGC-TGCTGCTGCTGCTGCAACTGCAACTGCT
1 GCTGTTGTTGCTGCTGCATGCAACTGCTGCTG---CTGCAACTGCT
**
12033063 GCTGTTGTTGCTGCTGCAATTGCAACTGCTGCTGCTGCTGCTGCT
1 GCTGTTGTTGCTGCTGC-A-TGCAACTGCTGCTGCTGCAACTGCT
12033108 GCTG
1 GCTG
12033112 GTTCATGTAA
Statistics
Matches: 80, Mismatches: 10, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
45 68 0.85
48 12 0.15
ACGTcount: A:0.12, C:0.25, G:0.29, T:0.35
Consensus pattern (43 bp):
GCTGTTGTTGCTGCTGCATGCAACTGCTGCTGCTGCAACTGCT
Found at i:12033598 original size:18 final size:18
Alignment explanation
Indices: 12033575--12033609 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
12033565 TCCTCTGCAT
12033575 TTGCTGCTGCTGCTGTGG
1 TTGCTGCTGCTGCTGTGG
12033593 TTGCTGCTGCTGCTGTG
1 TTGCTGCTGCTGCTGTG
12033610 CAATTGCCGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.00, C:0.23, G:0.37, T:0.40
Consensus pattern (18 bp):
TTGCTGCTGCTGCTGTGG
Found at i:12041154 original size:14 final size:14
Alignment explanation
Indices: 12041135--12041165 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
12041125 CTACCTCCGT
12041135 CCTCCACCGATCCA
1 CCTCCACCGATCCA
*
12041149 CCTCCACCGGTCCA
1 CCTCCACCGATCCA
12041163 CCT
1 CCT
12041166 TCGGTCCTCC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.16, C:0.58, G:0.10, T:0.16
Consensus pattern (14 bp):
CCTCCACCGATCCA
Found at i:12044090 original size:16 final size:19
Alignment explanation
Indices: 12044065--12044116 Score: 63
Period size: 18 Copynumber: 2.8 Consensus size: 19
12044055 TAAAAATAAT
*
12044065 TTAAA-ATATAAAAATTTA
1 TTAAATATATATAAATTTA
12044083 TTAATATATATATAAATTTA
1 TTAA-ATATATATAAATTTA
*
12044103 TT-AATATATGTAAA
1 TTAAATATATATAAA
12044117 AACAACTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
18 14 0.47
19 2 0.07
20 14 0.47
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (19 bp):
TTAAATATATATAAATTTA
Found at i:12044099 original size:20 final size:20
Alignment explanation
Indices: 12044070--12044118 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 20
12044060 ATAATTTAAA
12044070 ATATAAAAATTTATTAATAT
1 ATATAAAAATTTATTAATAT
*
12044090 ATATATAAATTTATTAATAT
1 ATATAAAAATTTATTAATAT
*
12044110 ATGTAAAAA
1 ATATAAAAA
12044119 CAACTTTTCC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (20 bp):
ATATAAAAATTTATTAATAT
Found at i:12044171 original size:32 final size:33
Alignment explanation
Indices: 12044130--12044216 Score: 90
Period size: 33 Copynumber: 2.7 Consensus size: 33
12044120 AACTTTTCCG
**
12044130 GAAAATATTTT-CAGGAAATCTGTCAAACAGC-A
1 GAAAATATTTTACAGGAAATCAATCAAACA-CTA
*
12044162 GAAAATATTTTACACGG-ATTCAATCAAACACTA
1 GAAAATATTTTACA-GGAAATCAATCAAACACTA
* *
12044195 GAAAATATTTTCCAGTAAATCA
1 GAAAATATTTTACAGGAAATCA
12044217 TTTTACAGAA
Statistics
Matches: 45, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
32 13 0.29
33 30 0.67
34 2 0.04
ACGTcount: A:0.45, C:0.16, G:0.11, T:0.28
Consensus pattern (33 bp):
GAAAATATTTTACAGGAAATCAATCAAACACTA
Found at i:12044233 original size:20 final size:20
Alignment explanation
Indices: 12044208--12044247 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
12044198 AATATTTTCC
*
12044208 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
12044228 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
12044248 TCATTTTATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:12044253 original size:34 final size:35
Alignment explanation
Indices: 12044196--12044262 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
12044186 CAAACACTAG
*
12044196 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
12044231 AAAACATTTTCCAG-AAATCATTTTATAGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
12044263 CATTTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.48, C:0.12, G:0.07, T:0.33
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:12044254 original size:14 final size:14
Alignment explanation
Indices: 12044231--12044270 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
12044221 ACAGAAAAGT
*
12044231 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
12044245 AAATCATTTTATAG
1 AAAACATTTTACAG
12044259 AAAACATTTTAC
1 AAAACATTTTAC
12044271 TGCCAATCAA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.45, C:0.15, G:0.05, T:0.35
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:12046044 original size:22 final size:22
Alignment explanation
Indices: 12046019--12046061 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
12046009 GTATTCATAT
* *
12046019 TATTTATAAATTTTATTTAAAA
1 TATTAATAAATTTTAATTAAAA
*
12046041 TATTAATATATTTTAATTAAA
1 TATTAATAAATTTTAATTAAA
12046062 CATAAATTAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (22 bp):
TATTAATAAATTTTAATTAAAA
Found at i:12049995 original size:24 final size:24
Alignment explanation
Indices: 12049968--12050017 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
12049958 CCTTGAAGAT
12049968 TTTAGTTCAACTTATGTCTGATTC
1 TTTAGTTCAACTTATGTCTGATTC
*
12049992 TTTAGTTCAACTTGTGTCTGATTC
1 TTTAGTTCAACTTATGTCTGATTC
12050016 TT
1 TT
12050018 CGTTCAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.18, C:0.16, G:0.14, T:0.52
Consensus pattern (24 bp):
TTTAGTTCAACTTATGTCTGATTC
Found at i:12056740 original size:22 final size:22
Alignment explanation
Indices: 12056712--12056782 Score: 80
Period size: 22 Copynumber: 3.4 Consensus size: 22
12056702 TTCTAAAATT
12056712 TTATTATTTTAAAAATATTTTA
1 TTATTATTTTAAAAATATTTTA
*
12056734 TTATTATTTTAAAAA-A--TCA
1 TTATTATTTTAAAAATATTTTA
*
12056753 ATATTTATTTT-AAAATATTTT-
1 TTA-TTATTTTAAAAATATTTTA
12056774 TTATTATTT
1 TTATTATTT
12056783 GATTATTTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
19 8 0.20
20 14 0.34
21 3 0.07
22 16 0.39
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.59
Consensus pattern (22 bp):
TTATTATTTTAAAAATATTTTA
Found at i:12056760 original size:23 final size:21
Alignment explanation
Indices: 12056711--12056761 Score: 57
Period size: 23 Copynumber: 2.3 Consensus size: 21
12056701 CTTCTAAAAT
* *
12056711 TTTATTATTTTAAAAATATTT
1 TTTATTATTTTAAAAATAATA
12056732 TATTATTATTTTAAAAAATCAATA
1 T-TTATTATTTT-AAAAAT-AATA
12056756 TTTATT
1 TTTATT
12056762 TTAAAATATT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
21 1 0.04
22 10 0.40
23 11 0.44
24 3 0.12
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (21 bp):
TTTATTATTTTAAAAATAATA
Found at i:12056780 original size:20 final size:20
Alignment explanation
Indices: 12056710--12056782 Score: 76
Period size: 20 Copynumber: 3.5 Consensus size: 20
12056700 ACTTCTAAAA
12056710 TTTTATTATTTTAAAAATATT
1 TTTTATTATTTT-AAAATATT
*
12056731 TTATTATTATTTTAAAA-AAT
1 TT-TTATTATTTTAAAATATT
***
12056751 CAATATTTATTTTAAAATATT
1 TTTTA-TTATTTTAAAATATT
12056772 TTTTATTATTT
1 TTTTATTATTT
12056783 GATTATTTTT
Statistics
Matches: 41, Mismatches: 8, Indels: 7
0.73 0.14 0.12
Matches are distributed among these distances:
19 2 0.05
20 19 0.46
21 10 0.24
22 10 0.24
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.60
Consensus pattern (20 bp):
TTTTATTATTTTAAAATATT
Found at i:12056817 original size:29 final size:29
Alignment explanation
Indices: 12056754--12056818 Score: 73
Period size: 29 Copynumber: 2.3 Consensus size: 29
12056744 AAAAAATCAA
12056754 TATTTA-TTTTAAAATATTTTTTATTATT
1 TATTTATTTTTAAAATATTTTTTATTATT
* *
12056782 TGA-TTATTTTTATAAT-TTTTTTCGTTATT
1 T-ATTTATTTTTAAAATATTTTTT-ATTATT
12056811 TATTTATT
1 TATTTATT
12056819 GCTGATAGTA
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
28 11 0.35
29 20 0.65
ACGTcount: A:0.26, C:0.02, G:0.03, T:0.69
Consensus pattern (29 bp):
TATTTATTTTTAAAATATTTTTTATTATT
Found at i:12066268 original size:49 final size:49
Alignment explanation
Indices: 12066189--12066282 Score: 136
Period size: 49 Copynumber: 1.9 Consensus size: 49
12066179 AAAAAGAGAA
* * *
12066189 AAAAAAAGAAGAAGAAGAAGAAGAAGAAAGAAAGCAAAAACGTATTACC
1 AAAAAAAGAAGAAGAAAAAAAAGAAGAAAGAAAGCAAAAAAGTATTACC
*
12066238 AAAAAGAGAA-AAGAAAAAAAATGAAGAAAGAAAGCAAAAAAGTAT
1 AAAAAAAGAAGAAGAAAAAAAA-GAAGAAAGAAAGCAAAAAAGTAT
12066283 AATACAGCAT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
48 9 0.22
49 31 0.77
ACGTcount: A:0.69, C:0.05, G:0.19, T:0.06
Consensus pattern (49 bp):
AAAAAAAGAAGAAGAAAAAAAAGAAGAAAGAAAGCAAAAAAGTATTACC
Found at i:12069291 original size:19 final size:20
Alignment explanation
Indices: 12069264--12069301 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
12069254 ATTTCAATAT
*
12069264 TAATATAAAATTTTTAAAAA
1 TAATATAAAATATTTAAAAA
12069284 TAAT-TAAAATATTTAAAA
1 TAATATAAAATATTTAAAA
12069302 GAGTGGCTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (20 bp):
TAATATAAAATATTTAAAAA
Found at i:12072445 original size:58 final size:58
Alignment explanation
Indices: 12072380--12072497 Score: 236
Period size: 58 Copynumber: 2.0 Consensus size: 58
12072370 TATAGATGGA
12072380 ATGTCTGAATACAATATTCTTAGTTTATTACAACAAATGACAATGGTTTCAAATGTTT
1 ATGTCTGAATACAATATTCTTAGTTTATTACAACAAATGACAATGGTTTCAAATGTTT
12072438 ATGTCTGAATACAATATTCTTAGTTTATTACAACAAATGACAATGGTTTCAAATGTTT
1 ATGTCTGAATACAATATTCTTAGTTTATTACAACAAATGACAATGGTTTCAAATGTTT
12072496 AT
1 AT
12072498 AAAACCCAAA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 60 1.00
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.40
Consensus pattern (58 bp):
ATGTCTGAATACAATATTCTTAGTTTATTACAACAAATGACAATGGTTTCAAATGTTT
Found at i:12072480 original size:29 final size:29
Alignment explanation
Indices: 12072390--12072481 Score: 75
Period size: 29 Copynumber: 3.2 Consensus size: 29
12072380 ATGTCTGAAT
12072390 ACAATATTCTTAGTTTATTACAACAAATG
1 ACAATATTCTTAGTTTATTACAACAAATG
* ** **
12072419 ACAATGGTTTCAAATGTTTATGT-C--TGAAT-
1 ACAAT--ATTCTTA-GTTTAT-TACAACAAATG
12072448 ACAATATTCTTAGTTTATTACAACAAATG
1 ACAATATTCTTAGTTTATTACAACAAATG
12072477 ACAAT
1 ACAAT
12072482 GGTTTCAAAT
Statistics
Matches: 45, Mismatches: 10, Indels: 16
0.63 0.14 0.23
Matches are distributed among these distances:
25 1 0.02
26 7 0.16
27 4 0.09
28 3 0.07
29 15 0.33
30 3 0.07
31 4 0.09
32 7 0.16
33 1 0.02
ACGTcount: A:0.39, C:0.13, G:0.10, T:0.38
Consensus pattern (29 bp):
ACAATATTCTTAGTTTATTACAACAAATG
Found at i:12074436 original size:21 final size:22
Alignment explanation
Indices: 12074412--12074456 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
12074402 AGAAAAAGAA
*
12074412 AAATACAAAGAAG-AATAG-ATC
1 AAAT-CAAAAAAGAAATAGAATC
12074433 AAATCAAAAAAGAAATAGAATC
1 AAATCAAAAAAGAAATAGAATC
12074455 AA
1 AA
12074457 CAATTTGTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 7 0.33
21 9 0.43
22 5 0.24
ACGTcount: A:0.67, C:0.09, G:0.11, T:0.13
Consensus pattern (22 bp):
AAATCAAAAAAGAAATAGAATC
Found at i:12077317 original size:34 final size:34
Alignment explanation
Indices: 12077256--12077430 Score: 147
Period size: 34 Copynumber: 5.1 Consensus size: 34
12077246 ATAATACCAA
* * *
12077256 AAATAATGTATAAACAGGAGAGGTTCCCTGCAAG
1 AAATAATGTGTAAACAGAAGAGATTCCCTGCAAG
* * *
12077290 AAATGATGTGTAAACATAAGAGATTCCCTGCAACA
1 AAATAATGTGTAAACAGAAGAGATTCCCTGCAA-G
* * *
12077325 AAATAATGCGTGAACAGGAA-AGATTCCATGCAAG
1 AAATAATGTGTAAACA-GAAGAGATTCCCTGCAAG
* * * * *
12077359 AAATGATTTGTGAACAGGAGAGATTCCCTGCAACA
1 AAATAATGTGTAAACAGAAGAGATTCCCTGCAA-G
* * *
12077394 AAATAATGCGTGAACAAGAA-ATATTCCCTGCAAG
1 AAATAATGTGTAAAC-AGAAGAGATTCCCTGCAAG
12077428 AAA
1 AAA
12077431 AGACAAGTGA
Statistics
Matches: 112, Mismatches: 24, Indels: 10
0.77 0.16 0.07
Matches are distributed among these distances:
33 2 0.02
34 56 0.50
35 49 0.44
36 5 0.04
ACGTcount: A:0.43, C:0.16, G:0.21, T:0.21
Consensus pattern (34 bp):
AAATAATGTGTAAACAGAAGAGATTCCCTGCAAG
Found at i:12077357 original size:35 final size:35
Alignment explanation
Indices: 12077310--12077431 Score: 156
Period size: 35 Copynumber: 3.5 Consensus size: 35
12077300 TAAACATAAG
12077310 AGATTCCCTGCAACAAAATAATGCGTGAACAGGAA
1 AGATTCCCTGCAACAAAATAATGCGTGAACAGGAA
* * * ** *
12077345 AGATTCCATGCAA-GAAATGATTTGTGAACAGGAG
1 AGATTCCCTGCAACAAAATAATGCGTGAACAGGAA
*
12077379 AGATTCCCTGCAACAAAATAATGCGTGAACAAGAA
1 AGATTCCCTGCAACAAAATAATGCGTGAACAGGAA
* *
12077414 ATATTCCCTGCAAGAAAA
1 AGATTCCCTGCAACAAAA
12077432 GACAAGTGAA
Statistics
Matches: 71, Mismatches: 15, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
34 28 0.39
35 43 0.61
ACGTcount: A:0.43, C:0.18, G:0.20, T:0.20
Consensus pattern (35 bp):
AGATTCCCTGCAACAAAATAATGCGTGAACAGGAA
Found at i:12077381 original size:69 final size:69
Alignment explanation
Indices: 12077268--12077430 Score: 245
Period size: 69 Copynumber: 2.4 Consensus size: 69
12077258 ATAATGTATA
* * *
12077268 AACAGGAGAGGTTCCCTGCAAGAAATGATGTGTAAACATAAGAGATTCCCTGCAACAAAATAATG
1 AACAGGAAAGATTCCCTGCAAGAAATGATGTGTAAACAGAAGAGATTCCCTGCAACAAAATAATG
12077333 CGTG
66 CGTG
* * * *
12077337 AACAGGAAAGATTCCATGCAAGAAATGATTTGTGAACAGGAGAGATTCCCTGCAACAAAATAATG
1 AACAGGAAAGATTCCCTGCAAGAAATGATGTGTAAACAGAAGAGATTCCCTGCAACAAAATAATG
12077402 CGTG
66 CGTG
* *
12077406 AACAAGAAATATTCCCTGCAAGAAA
1 AACAGGAAAGATTCCCTGCAAGAAA
12077431 AGACAAGTGA
Statistics
Matches: 84, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
69 84 1.00
ACGTcount: A:0.42, C:0.17, G:0.21, T:0.20
Consensus pattern (69 bp):
AACAGGAAAGATTCCCTGCAAGAAATGATGTGTAAACAGAAGAGATTCCCTGCAACAAAATAATG
CGTG
Found at i:12077694 original size:14 final size:13
Alignment explanation
Indices: 12077663--12077704 Score: 75
Period size: 13 Copynumber: 3.2 Consensus size: 13
12077653 TTTAAGTTTC
12077663 TAAGTTTTCAAAT
1 TAAGTTTTCAAAT
12077676 TAAGTTTTCAAACT
1 TAAGTTTTCAAA-T
12077690 TAAGTTTTCAAAT
1 TAAGTTTTCAAAT
12077703 TA
1 TA
12077705 CAAATATCTC
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
13 15 0.54
14 13 0.46
ACGTcount: A:0.38, C:0.10, G:0.07, T:0.45
Consensus pattern (13 bp):
TAAGTTTTCAAAT
Found at i:12094012 original size:60 final size:60
Alignment explanation
Indices: 12093945--12094060 Score: 146
Period size: 60 Copynumber: 1.9 Consensus size: 60
12093935 TTTAAATCTC
*
12093945 CAATATTTAT-ACATTTTATCAATTT-GATCATAAATCTAAAAGGTCAACAAATTTAACCTT
1 CAATATTTATAACA-TTTATCAATTTAGATCA-AAATCTAAAAAGTCAACAAATTTAACCTT
* * * * *
12094005 CAATATTTATAACATTTATCATTTTAGTTCAAATTCTAAAAATTCAATAAATTTAA
1 CAATATTTATAACATTTATCAATTTAGATCAAAATCTAAAAAGTCAACAAATTTAA
12094061 TTTTTAACAT
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
60 41 0.85
61 7 0.15
ACGTcount: A:0.43, C:0.13, G:0.03, T:0.41
Consensus pattern (60 bp):
CAATATTTATAACATTTATCAATTTAGATCAAAATCTAAAAAGTCAACAAATTTAACCTT
Found at i:12095915 original size:46 final size:46
Alignment explanation
Indices: 12095862--12096001 Score: 208
Period size: 46 Copynumber: 3.0 Consensus size: 46
12095852 CTATGGCAAA
* *
12095862 TTGTGAAAAGTAGGTATGGTGTTTTAGTGAAGAAAATCATACTGAG
1 TTGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAG
12095908 TTGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAG
1 TTGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAG
* * * * * *
12095954 TAGTGAAAAATAGGTATGATATTTCAGTGAAGGAAACCATATTGAG
1 TTGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAG
12096000 TT
1 TT
12096002 ATAGCATTGT
Statistics
Matches: 85, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 85 1.00
ACGTcount: A:0.36, C:0.06, G:0.26, T:0.31
Consensus pattern (46 bp):
TTGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAG
Found at i:12108335 original size:26 final size:25
Alignment explanation
Indices: 12108306--12108366 Score: 68
Period size: 26 Copynumber: 2.4 Consensus size: 25
12108296 TAAACTAAAA
* *
12108306 TTTTCAAAATACTTCTTACAAATACT
1 TTTTCAAAACACTTCTTAAAAATA-T
* * *
12108332 TTTTCACAGCACTTTTTAAAAATAT
1 TTTTCAAAACACTTCTTAAAAATAT
12108357 TTTTCAAAAC
1 TTTTCAAAAC
12108367 TATTGCTAAA
Statistics
Matches: 28, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
25 9 0.32
26 19 0.68
ACGTcount: A:0.38, C:0.18, G:0.02, T:0.43
Consensus pattern (25 bp):
TTTTCAAAACACTTCTTAAAAATAT
Found at i:12112896 original size:9 final size:9
Alignment explanation
Indices: 12112841--12112932 Score: 59
Period size: 9 Copynumber: 10.3 Consensus size: 9
12112831 TTGGTTTATT
*
12112841 TAATAATAA
1 TAATTATAA
*
12112850 TAATAATAA
1 TAATTATAA
12112859 TAA-TATAA
1 TAATTATAA
**
12112867 -AACCATAA
1 TAATTATAA
*
12112875 TAATGTTTAA
1 TAAT-TATAA
12112885 TAATTATAA
1 TAATTATAA
12112894 TAATTAT-A
1 TAATTATAA
12112902 TACA-TATAA
1 TA-ATTATAA
*
12112911 TATTTATATA
1 TAATTATA-A
12112921 TAACTTA-AA
1 TAA-TTATAA
12112930 TAA
1 TAA
12112933 AATCTTAAAT
Statistics
Matches: 67, Mismatches: 8, Indels: 16
0.74 0.09 0.18
Matches are distributed among these distances:
7 2 0.03
8 14 0.21
9 37 0.55
10 11 0.16
11 3 0.04
ACGTcount: A:0.55, C:0.04, G:0.01, T:0.39
Consensus pattern (9 bp):
TAATTATAA
Found at i:12113420 original size:46 final size:46
Alignment explanation
Indices: 12113352--12113490 Score: 219
Period size: 46 Copynumber: 3.0 Consensus size: 46
12113342 ACATTGCTAT
*
12113352 AACTCAGTATGGTTTTCTTCACGGAAATACCATACCTACTTTTTA-
1 AACTCAGTATGGTTTTCTTCACGGAAATACCATACCTACTTTTCAC
12113397 AGACTCAGTATGGTTTTCTTCACGGAAATACCATACCTACTTTTCAC
1 A-ACTCAGTATGGTTTTCTTCACGGAAATACCATACCTACTTTTCAC
* *
12113444 AACAT-AGTATGGTTTTCTTCACTGAAATACCATACCTACGTTTCAC
1 AAC-TCAGTATGGTTTTCTTCACGGAAATACCATACCTACTTTTCAC
12113490 A
1 A
12113491 CTTTGCCATG
Statistics
Matches: 88, Mismatches: 3, Indels: 5
0.92 0.03 0.05
Matches are distributed among these distances:
45 1 0.01
46 85 0.97
47 2 0.02
ACGTcount: A:0.29, C:0.24, G:0.12, T:0.35
Consensus pattern (46 bp):
AACTCAGTATGGTTTTCTTCACGGAAATACCATACCTACTTTTCAC
Found at i:12116121 original size:11 final size:11
Alignment explanation
Indices: 12116105--12116130 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
12116095 TAGAAGAGAC
12116105 GAAACAGGGGA
1 GAAACAGGGGA
12116116 GAAACAGGGGA
1 GAAACAGGGGA
12116127 GAAA
1 GAAA
12116131 GAAGAAAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.50, C:0.08, G:0.42, T:0.00
Consensus pattern (11 bp):
GAAACAGGGGA
Found at i:12116803 original size:6 final size:6
Alignment explanation
Indices: 12116786--12116834 Score: 71
Period size: 6 Copynumber: 8.2 Consensus size: 6
12116776 ATGTGAGGTA
* * *
12116786 AGTATT AATATT AGTATT AGTATT ATTATT AGTATT ATTATT AGTATT
1 AGTATT AGTATT AGTATT AGTATT AGTATT AGTATT AGTATT AGTATT
12116834 A
1 A
12116835 TTAAGATGAG
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 37 1.00
ACGTcount: A:0.37, C:0.00, G:0.10, T:0.53
Consensus pattern (6 bp):
AGTATT
Found at i:12116803 original size:12 final size:12
Alignment explanation
Indices: 12116788--12116837 Score: 82
Period size: 12 Copynumber: 4.2 Consensus size: 12
12116778 GTGAGGTAAG
* *
12116788 TATTAATATTAG
1 TATTAGTATTAT
12116800 TATTAGTATTAT
1 TATTAGTATTAT
12116812 TATTAGTATTAT
1 TATTAGTATTAT
12116824 TATTAGTATTAT
1 TATTAGTATTAT
12116836 TA
1 TA
12116838 AGATGAGTGG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 36 1.00
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (12 bp):
TATTAGTATTAT
Found at i:12116814 original size:3 final size:3
Alignment explanation
Indices: 12116788--12116837 Score: 55
Period size: 3 Copynumber: 16.7 Consensus size: 3
12116778 GTGAGGTAAG
* * * * *
12116788 TAT TAA TAT TAG TAT TAG TAT TAT TAT TAG TAT TAT TAT TAG TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
12116836 TA
1 TA
12116838 AGATGAGTGG
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (3 bp):
TAT
Found at i:12117015 original size:23 final size:26
Alignment explanation
Indices: 12116989--12117037 Score: 77
Period size: 23 Copynumber: 2.0 Consensus size: 26
12116979 ATTGCGGATT
12116989 AATTATTG-ATTGAAAA-GTG-GAAA
1 AATTATTGAATTGAAAATGTGAGAAA
12117012 AATTATTGAATTGAAAATGTGAGAAA
1 AATTATTGAATTGAAAATGTGAGAAA
12117038 TTGTGATTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 8 0.35
24 8 0.35
25 3 0.13
26 4 0.17
ACGTcount: A:0.49, C:0.00, G:0.20, T:0.31
Consensus pattern (26 bp):
AATTATTGAATTGAAAATGTGAGAAA
Found at i:12128328 original size:21 final size:21
Alignment explanation
Indices: 12128302--12128371 Score: 70
Period size: 23 Copynumber: 3.1 Consensus size: 21
12128292 AATGCTTTTA
* *
12128302 AAAAAATATATATTTATAGATAT
1 AAAAAATATA-A-ATATAAATAT
12128325 AAAAAATATAAATATAAATAT
1 AAAAAATATAAATATAAATAT
12128346 AAATAAA-ATAATAATATAAATAT
1 AAA-AAATAT-A-AATATAAATAT
12128369 AAA
1 AAA
12128372 TATTTATAAT
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
21 13 0.31
22 5 0.12
23 24 0.57
ACGTcount: A:0.67, C:0.00, G:0.01, T:0.31
Consensus pattern (21 bp):
AAAAAATATAAATATAAATAT
Done.