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 47 of 221
Found at i:13327123 original size:80 final size:79
Alignment explanation
Indices: 13327039--13327210 Score: 211
Period size: 79 Copynumber: 2.2 Consensus size: 79
13327029 GGACTAAGAT
* *
13327039 CCGAAGGCATTTGTGCTAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACT
1 CCGAAGGCATTTGTGCGAGATATCAAA-TCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACT
* *
13327103 AAATCCGGGTTAAGTC
64 AAAACCGGGCTAAGTC
* * * * * * *
13327119 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
*
13327184 AACCGGGCTATGTC
66 AACCGGGCTAAGTC
13327198 CCGAAGGCATTTG
1 CCGAAGGCATTTG
13327211 AACGAGGAGC
Statistics
Matches: 78, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
79 38 0.49
80 37 0.47
81 3 0.04
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
AACCGGGCTAAGTC
Found at i:13327190 original size:39 final size:39
Alignment explanation
Indices: 13326986--13327208 Score: 207
Period size: 40 Copynumber: 5.6 Consensus size: 39
13326976 TTGAATGCTG
* * * * * *
13326986 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTACTAAA
** * *
13327026 TCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGATAC-AAA
1 TCCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGTTACTAAA
* * *
13327065 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 -TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGTTACTAAA
*
13327106 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAA
* *
13327146 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
* * *
13327185 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
13327209 TGAACGAGGA
Statistics
Matches: 155, Mismatches: 21, Indels: 15
0.81 0.11 0.08
Matches are distributed among these distances:
39 40 0.26
40 104 0.67
41 11 0.07
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:13327228 original size:79 final size:80
Alignment explanation
Indices: 13327066--13327233 Score: 180
Period size: 79 Copynumber: 2.1 Consensus size: 80
13327056 AGATACAAAT
* * *
13327066 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGCCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** * *
13327131 GTGCGAGTTATTAAA
66 GAACGAGTGACTAAA
* * * * * *
13327146 TCCGGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGCCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
13327210 GAACGAG-GAGCTATA
66 GAACGAGTGA-CTAAA
13327225 TCC-GGTTAA
1 TCCGGGTTAA
13327234 ATCCGAAGCT
Statistics
Matches: 72, Mismatches: 15, Indels: 4
0.79 0.16 0.04
Matches are distributed among these distances:
78 6 0.08
79 48 0.67
80 18 0.25
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
TCCGGGTTAAGCCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGTGACTAAA
Found at i:13327246 original size:22 final size:23
Alignment explanation
Indices: 13327218--13327264 Score: 87
Period size: 22 Copynumber: 2.1 Consensus size: 23
13327208 TTGAACGAGG
13327218 AGCTATATCCGGTTAAAT-CCGA
1 AGCTATATCCGGTTAAATCCCGA
13327240 AGCTATATCCGGTTAAATCCCGA
1 AGCTATATCCGGTTAAATCCCGA
13327263 AG
1 AG
13327265 GTACGTGATT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 18 0.75
23 6 0.25
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.26
Consensus pattern (23 bp):
AGCTATATCCGGTTAAATCCCGA
Found at i:13329673 original size:12 final size:12
Alignment explanation
Indices: 13329652--13329682 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
13329642 TATTTGATTC
*
13329652 AAGAAGAAGAAG
1 AAGAAAAAGAAG
13329664 AAGAAAAAGAAG
1 AAGAAAAAGAAG
13329676 AAGAAAA
1 AAGAAAA
13329683 TAAAACAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (12 bp):
AAGAAAAAGAAG
Found at i:13336286 original size:37 final size:37
Alignment explanation
Indices: 13336170--13336286 Score: 100
Period size: 38 Copynumber: 3.1 Consensus size: 37
13336160 TAGATCTCCT
*
13336170 TAAATATGGTAACTTGATCACACATAAATTCTTCAAA
1 TAAATATGTTAACTTGATCACACATAAATTCTTCAAA
* * *
13336207 TAAAATCAT-TGAA--TGAT-ACTCA-ACAATATCATGTCCATA
1 T-AAAT-ATGTTAACTTGATCACACATA-AAT-TC-T-T-CAAA
13336246 TAAATATGTTAACTTGATCACACATAAATTCTTCAAA
1 TAAATATGTTAACTTGATCACACATAAATTCTTCAAA
13336283 TAAA
1 TAAA
13336287 ATCATTGAAT
Statistics
Matches: 61, Mismatches: 7, Indels: 24
0.66 0.08 0.26
Matches are distributed among these distances:
34 1 0.02
35 7 0.11
36 6 0.10
37 11 0.18
38 15 0.25
39 7 0.11
40 6 0.10
41 7 0.11
42 1 0.02
ACGTcount: A:0.44, C:0.16, G:0.07, T:0.32
Consensus pattern (37 bp):
TAAATATGTTAACTTGATCACACATAAATTCTTCAAA
Found at i:13336296 original size:76 final size:76
Alignment explanation
Indices: 13336170--13336324 Score: 283
Period size: 76 Copynumber: 2.0 Consensus size: 76
13336160 TAGATCTCCT
13336170 TAAATATGGTAACTTGATCACACATAAATTCTTCAAATAAAATCATTGAATGATACTCAACAATA
1 TAAATATGGTAACTTGATCACACATAAATTCTTCAAATAAAATCATTGAATGATACTCAACAATA
*
13336235 TCATGTCCATA
66 TCATATCCATA
* *
13336246 TAAATATGTTAACTTGATCACACATAAATTCTTCAAATAAAATCATTGAATGATATTCAACAATA
1 TAAATATGGTAACTTGATCACACATAAATTCTTCAAATAAAATCATTGAATGATACTCAACAATA
13336311 TCATATCCATA
66 TCATATCCATA
13336322 TAA
1 TAA
13336325 TTGTTCCTCA
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
76 76 1.00
ACGTcount: A:0.45, C:0.16, G:0.06, T:0.33
Consensus pattern (76 bp):
TAAATATGGTAACTTGATCACACATAAATTCTTCAAATAAAATCATTGAATGATACTCAACAATA
TCATATCCATA
Found at i:13337728 original size:14 final size:14
Alignment explanation
Indices: 13337711--13337740 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
13337701 AAAATACAAA
13337711 AAAAAAAAAAAAAG
1 AAAAAAAAAAAAAG
*
13337725 AAAAAAAGAAAAAG
1 AAAAAAAAAAAAAG
13337739 AA
1 AA
13337741 GAAGATCCGC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (14 bp):
AAAAAAAAAAAAAG
Found at i:13337728 original size:17 final size:17
Alignment explanation
Indices: 13337708--13337743 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
13337698 CTTAAAATAC
13337708 AAAAAAAAAAAAAAAAG
1 AAAAAAAAAAAAAAAAG
* *
13337725 AAAAAAAGAAAAAGAAG
1 AAAAAAAAAAAAAAAAG
13337742 AA
1 AA
13337744 GATCCGCATG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (17 bp):
AAAAAAAAAAAAAAAAG
Found at i:13337742 original size:9 final size:8
Alignment explanation
Indices: 13337709--13337743 Score: 52
Period size: 8 Copynumber: 4.2 Consensus size: 8
13337699 TTAAAATACA
*
13337709 AAAAAAAA
1 AAAAAAAG
13337717 AAAAAAAG
1 AAAAAAAG
13337725 AAAAAAAG
1 AAAAAAAG
13337733 AAAAAGAAG
1 AAAAA-AAG
13337742 AA
1 AA
13337744 GATCCGCATG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
8 20 0.80
9 5 0.20
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (8 bp):
AAAAAAAG
Found at i:13340164 original size:16 final size:16
Alignment explanation
Indices: 13340143--13340175 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
13340133 CCCAATGTAA
13340143 GTACGGGTTTGAATCC
1 GTACGGGTTTGAATCC
13340159 GTACGGGTTTGAATCC
1 GTACGGGTTTGAATCC
13340175 G
1 G
13340176 AAAGCTGGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.18, C:0.18, G:0.33, T:0.30
Consensus pattern (16 bp):
GTACGGGTTTGAATCC
Found at i:13342585 original size:2 final size:2
Alignment explanation
Indices: 13342578--13342602 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
13342568 GATTCGAGTA
13342578 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
13342603 CAAACATGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:13345527 original size:56 final size:56
Alignment explanation
Indices: 13345441--13345552 Score: 215
Period size: 56 Copynumber: 2.0 Consensus size: 56
13345431 TATCACACAA
13345441 ATCTTTCCTATTTCACTCTATTTTTACAAACTCCGCAGTGATGTATCTACTTAACC
1 ATCTTTCCTATTTCACTCTATTTTTACAAACTCCGCAGTGATGTATCTACTTAACC
*
13345497 ATCTTTCCTATTTCACTCTATTTTTACAAACTCCGTAGTGATGTATCTACTTAACC
1 ATCTTTCCTATTTCACTCTATTTTTACAAACTCCGCAGTGATGTATCTACTTAACC
13345553 CTCAACACGT
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 55 1.00
ACGTcount: A:0.25, C:0.26, G:0.07, T:0.42
Consensus pattern (56 bp):
ATCTTTCCTATTTCACTCTATTTTTACAAACTCCGCAGTGATGTATCTACTTAACC
Found at i:13355012 original size:29 final size:28
Alignment explanation
Indices: 13354938--13355165 Score: 242
Period size: 29 Copynumber: 7.8 Consensus size: 28
13354928 GCGTGCTAAA
* * *
13354938 CGATGGTTGAAACCATCCCTTTTCTTTAAT
1 CGATGGTCG-AACCATCCCTTTTC-ATATT
13354968 CGATGGTCGAAACCATCCCTTTTCATATT
1 CGATGGTCG-AACCATCCCTTTTCATATT
* *
13354997 CGATGGTCGAATCCATCCCTTTTTATTTT
1 CGATGGTCGAA-CCATCCCTTTTCATATT
* * *
13355026 CAATGGTTGTTACCATCCCTTTTCATATT
1 CGATGGTCG-AACCATCCCTTTTCATATT
* * *
13355055 CGATGGTTGTCACCATCCCTTTTTATATT
1 CGATGGTCG-AACCATCCCTTTTCATATT
13355084 CGATGGTC-ATCACCATCCCTTTTCATATT
1 CGATGGTCGA--ACCATCCCTTTTCATATT
*
13355113 CGATGGTCGTCACCATCCCTTTTCATATT
1 CGATGGTCG-AACCATCCCTTTTCATATT
*
13355142 CGATGGTCGTCACCATCCCTTTTC
1 CGATGGTCG-AACCATCCCTTTTC
13355166 TTTAATCGAT
Statistics
Matches: 175, Mismatches: 17, Indels: 13
0.85 0.08 0.06
Matches are distributed among these distances:
28 2 0.01
29 149 0.85
30 24 0.14
ACGTcount: A:0.19, C:0.28, G:0.13, T:0.40
Consensus pattern (28 bp):
CGATGGTCGAACCATCCCTTTTCATATT
Found at i:13355049 original size:58 final size:58
Alignment explanation
Indices: 13354949--13355165 Score: 301
Period size: 58 Copynumber: 3.7 Consensus size: 58
13354939 GATGGTTGAA
* * ** *
13354949 ACCATCCCTTTTCTTTAATCGATGGTCGAAACCATCCCTTTTCATATTCGATGGTCG-A
1 ACCATCCCTTTT-TATATTCGATGGTCGTCACCATCCCTTTTCATATTCGATGGTCGTC
* * * * *
13355007 ATCCATCCCTTTTTATTTTCAATGGTTGTTACCATCCCTTTTCATATTCGATGGTTGTC
1 A-CCATCCCTTTTTATATTCGATGGTCGTCACCATCCCTTTTCATATTCGATGGTCGTC
*
13355066 ACCATCCCTTTTTATATTCGATGGTCATCACCATCCCTTTTCATATTCGATGGTCGTC
1 ACCATCCCTTTTTATATTCGATGGTCGTCACCATCCCTTTTCATATTCGATGGTCGTC
*
13355124 ACCATCCCTTTTCATATTCGATGGTCGTCACCATCCCTTTTC
1 ACCATCCCTTTTTATATTCGATGGTCGTCACCATCCCTTTTC
13355166 TTTAATCGAT
Statistics
Matches: 140, Mismatches: 17, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
58 128 0.91
59 12 0.09
ACGTcount: A:0.19, C:0.29, G:0.12, T:0.41
Consensus pattern (58 bp):
ACCATCCCTTTTTATATTCGATGGTCGTCACCATCCCTTTTCATATTCGATGGTCGTC
Found at i:13355087 original size:87 final size:86
Alignment explanation
Indices: 13354940--13355165 Score: 292
Period size: 87 Copynumber: 2.6 Consensus size: 86
13354930 GTGCTAAACG
* * * **
13354940 ATGGTTGAAACCATCCCTTTTCTTTAATCGATGGTCGAAACCATCCCTTTTCATATTCGATGGTC
1 ATGGTTGTAACCATCCCTTTTC-ATATTCGATGGTCGTCACCATCCCTTTTCATATTCGATGGTC
* *
13355005 GA-ATCCATCCCTTTTTATTTTCA
65 -ATA-CCATCCCTTTTCATATTCA
* * *
13355028 ATGGTTGTTACCATCCCTTTTCATATTCGATGGTTGTCACCATCCCTTTTTATATTCGATGGTCA
1 ATGGTTGTAACCATCCCTTTTCATATTCGATGGTCGTCACCATCCCTTTTCATATTCGATGGTCA
*
13355093 TCACCATCCCTTTTCATATTCG
66 T-ACCATCCCTTTTCATATTCA
* *
13355115 ATGGTCGTCACCATCCCTTTTCATATTCGATGGTCGTCACCATCCCTTTTC
1 ATGGTTGTAACCATCCCTTTTCATATTCGATGGTCGTCACCATCCCTTTTC
13355166 TTTAATCGAT
Statistics
Matches: 121, Mismatches: 15, Indels: 5
0.86 0.11 0.04
Matches are distributed among these distances:
86 1 0.01
87 99 0.82
88 21 0.17
ACGTcount: A:0.19, C:0.27, G:0.13, T:0.40
Consensus pattern (86 bp):
ATGGTTGTAACCATCCCTTTTCATATTCGATGGTCGTCACCATCCCTTTTCATATTCGATGGTCA
TACCATCCCTTTTCATATTCA
Found at i:13372902 original size:25 final size:25
Alignment explanation
Indices: 13372873--13372932 Score: 86
Period size: 25 Copynumber: 2.4 Consensus size: 25
13372863 CTAGATTATG
13372873 CCACAAAGGCAACATACA-AAGTACA
1 CCACAAAGGCAACATACAGAA-TACA
* *
13372898 CCACAAAGGTAACATACAGAATACG
1 CCACAAAGGCAACATACAGAATACA
13372923 CCACAAAGGC
1 CCACAAAGGC
13372933 CAAATAGAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
25 29 0.94
26 2 0.06
ACGTcount: A:0.48, C:0.28, G:0.15, T:0.08
Consensus pattern (25 bp):
CCACAAAGGCAACATACAGAATACA
Found at i:13379460 original size:27 final size:27
Alignment explanation
Indices: 13379368--13379517 Score: 144
Period size: 27 Copynumber: 5.5 Consensus size: 27
13379358 ATATTGAGCC
* *
13379368 CGCACACTCAGTGCTATACA-A-TCAAAT
1 CGCACACTTAGTGC-A-ACATAGTCAATT
* * *
13379395 CGCACACTTAGTGCTACATAGTTAGACT
1 CGCACACTTAGTGCAACATAGTCA-ATT
** *
13379423 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCAACATAGTCAATT
* * *
13379450 CGCACACTTAGTGCATCATATTCATTT
1 CGCACACTTAGTGCAACATAGTCAATT
13379477 CGCACACTTAGTGCAACATAGTCGAA-T
1 CGCACACTTAGTGCAACATAGTC-AATT
13379504 CGCACACTTAGTGC
1 CGCACACTTAGTGC
13379518 TGTACAATTT
Statistics
Matches: 102, Mismatches: 17, Indels: 8
0.80 0.13 0.06
Matches are distributed among these distances:
25 3 0.03
26 1 0.01
27 75 0.74
28 23 0.23
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCAACATAGTCAATT
Found at i:13387472 original size:27 final size:27
Alignment explanation
Indices: 13387380--13387529 Score: 144
Period size: 27 Copynumber: 5.5 Consensus size: 27
13387370 ATATTGAGCC
* *
13387380 CGCACACTCAGTGCTATACA-A-TCAAAT
1 CGCACACTTAGTGC-A-ACATAGTCAATT
* * *
13387407 CGCACACTTAGTGCTACATAGTTAGACT
1 CGCACACTTAGTGCAACATAGTCA-ATT
** *
13387435 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCAACATAGTCAATT
* * *
13387462 CGCACACTTAGTGCATCATATTCATTT
1 CGCACACTTAGTGCAACATAGTCAATT
13387489 CGCACACTTAGTGCAACATAGTCGAA-T
1 CGCACACTTAGTGCAACATAGTC-AATT
13387516 CGCACACTTAGTGC
1 CGCACACTTAGTGC
13387530 TGTACAATTT
Statistics
Matches: 102, Mismatches: 17, Indels: 8
0.80 0.13 0.06
Matches are distributed among these distances:
25 3 0.03
26 1 0.01
27 75 0.74
28 23 0.23
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCAACATAGTCAATT
Found at i:13393779 original size:54 final size:54
Alignment explanation
Indices: 13393692--13393815 Score: 160
Period size: 54 Copynumber: 2.3 Consensus size: 54
13393682 GTGTATATTT
* * *
13393692 CACACGGCCTAAGACATGGCCATGTGCATCAAGTCAATGAGTTATACGGTCTAG
1 CACACGGCCTGAGACATGGCCATGTGCATCAAGTCAAAGAGTTACACGGTCTAG
* * * *
13393746 CACACGGCCTGCGACATGGTCGTGTGTCA-CAAGTCAAAGAGTTACACGGTCTGG
1 CACACGGCCTGAGACATGGCCATGTG-CATCAAGTCAAAGAGTTACACGGTCTAG
*
13393800 CACACGGCCTGTGACA
1 CACACGGCCTGAGACA
13393816 CAATCGTGTG
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
54 59 0.97
55 2 0.03
ACGTcount: A:0.27, C:0.27, G:0.27, T:0.20
Consensus pattern (54 bp):
CACACGGCCTGAGACATGGCCATGTGCATCAAGTCAAAGAGTTACACGGTCTAG
Found at i:13399293 original size:23 final size:23
Alignment explanation
Indices: 13399266--13399316 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
13399256 AACTTCAACC
*
13399266 TGAACTCGACTCGATCCAACCCA
1 TGAACTCGACTCGATCCAACCAA
*
13399289 TGAACTCGACTCGTTCCAACCAA
1 TGAACTCGACTCGATCCAACCAA
13399312 TGAAC
1 TGAAC
13399317 ACCTCTAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.31, C:0.35, G:0.14, T:0.20
Consensus pattern (23 bp):
TGAACTCGACTCGATCCAACCAA
Found at i:13401367 original size:34 final size:34
Alignment explanation
Indices: 13401329--13401401 Score: 101
Period size: 34 Copynumber: 2.1 Consensus size: 34
13401319 AGAACAAAAC
*
13401329 CAATGATGCAAAAAGAAACCAGATATGATGTCTA
1 CAATGATGCAAAAAGAAACCAAATATGATGTCTA
*** *
13401363 CAATGATGCAATCTGAAACCAAATATGATGTTTA
1 CAATGATGCAAAAAGAAACCAAATATGATGTCTA
13401397 CAATG
1 CAATG
13401402 TTGCTTCAAC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.44, C:0.15, G:0.16, T:0.25
Consensus pattern (34 bp):
CAATGATGCAAAAAGAAACCAAATATGATGTCTA
Found at i:13404460 original size:34 final size:35
Alignment explanation
Indices: 13404416--13404482 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
13404406 CAGTAAAATA
*
13404416 TTTTCCGTAAAATGATTT-CGGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACGGGAAAATATTTTAC
* *
13404450 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACGGGAAAATATTTT
13404483 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.31, C:0.09, G:0.15, T:0.45
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACGGGAAAATATTTTAC
Found at i:13408552 original size:27 final size:24
Alignment explanation
Indices: 13408494--13408553 Score: 68
Period size: 26 Copynumber: 2.4 Consensus size: 24
13408484 ATTTTAGACG
*
13408494 TATTTTAAATATAGATTTTTTTAT
1 TATTATAAATATAGATTTTTTTAT
13408518 T-TTAATAACATATAAGATTTTTTATAT
1 TATT-ATAA-ATAT-AGATTTTTT-TAT
13408545 TATTATAAA
1 TATTATAAA
13408554 AATATGAGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
23 2 0.07
24 4 0.13
25 4 0.13
26 10 0.33
27 8 0.27
28 2 0.07
ACGTcount: A:0.40, C:0.02, G:0.03, T:0.55
Consensus pattern (24 bp):
TATTATAAATATAGATTTTTTTAT
Found at i:13408618 original size:31 final size:32
Alignment explanation
Indices: 13408583--13408646 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 32
13408573 GAAACTATAA
* *
13408583 TGAACTTGGACAATA-TTTGTCCAAATACATT
1 TGAACCTGGACAACATTTTGTCCAAATACATT
* *
13408614 TGAACCTGGACAACATTTTGTCCAGATTCATT
1 TGAACCTGGACAACATTTTGTCCAAATACATT
13408646 T
1 T
13408647 TAGACAGGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
31 13 0.46
32 15 0.54
ACGTcount: A:0.31, C:0.19, G:0.14, T:0.36
Consensus pattern (32 bp):
TGAACCTGGACAACATTTTGTCCAAATACATT
Found at i:13410021 original size:24 final size:24
Alignment explanation
Indices: 13409994--13410040 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
13409984 CAGTGTAAAG
* *
13409994 TCACAGCCATGTGACAGTTCTTAA
1 TCACAGCCATGCGACAATTCTTAA
13410018 TCACAGCCATGCGACAATTCTTA
1 TCACAGCCATGCGACAATTCTTA
13410041 TCTATAAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.28
Consensus pattern (24 bp):
TCACAGCCATGCGACAATTCTTAA
Found at i:13410455 original size:24 final size:23
Alignment explanation
Indices: 13410424--13410469 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 23
13410414 AAAATTATGT
* *
13410424 TATGATATGTATGCGTGAATATA
1 TATGATATATATGCATGAATATA
*
13410447 TATGTATATATGTGCATGAATAT
1 TATG-ATATATATGCATGAATAT
13410470 GATTACTGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 4 0.21
24 15 0.79
ACGTcount: A:0.35, C:0.04, G:0.20, T:0.41
Consensus pattern (23 bp):
TATGATATATATGCATGAATATA
Found at i:13412222 original size:106 final size:106
Alignment explanation
Indices: 13412034--13412243 Score: 312
Period size: 106 Copynumber: 2.0 Consensus size: 106
13412024 AAAAGAAAAT
* * * * **
13412034 ATTAAAAATATGAAAACATAATGTTTCTTCTCCATTTTTGTTTTGTTCTTCACCGAACCTCTATG
1 ATTAAAAATATGAAAACATAATGTTTCTTCACCATTTTTATTTTGTTCTTCACCAAACCTCCAAA
* **
13412099 GAAGTATATTCATGGTTCGGTTATGCCTAAATCCTTGCAAG
66 GAAGTATATTCAAGGTTCGACTATGCCTAAATCCTTGCAAG
* *
13412140 ATTAAAAATATGAAAGCATAATGTTTCTTCACCATTTTTATTTTGTTCTTCACTAAACCTCCAAA
1 ATTAAAAATATGAAAACATAATGTTTCTTCACCATTTTTATTTTGTTCTTCACCAAACCTCCAAA
*
13412205 GAAGTATATTCAAGGTTCGACTATGCTTAAATCCTTGCA
66 GAAGTATATTCAAGGTTCGACTATGCCTAAATCCTTGCA
13412244 TGGTAAGCTC
Statistics
Matches: 92, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
106 92 1.00
ACGTcount: A:0.31, C:0.18, G:0.12, T:0.39
Consensus pattern (106 bp):
ATTAAAAATATGAAAACATAATGTTTCTTCACCATTTTTATTTTGTTCTTCACCAAACCTCCAAA
GAAGTATATTCAAGGTTCGACTATGCCTAAATCCTTGCAAG
Found at i:13413132 original size:35 final size:35
Alignment explanation
Indices: 13413081--13413180 Score: 137
Period size: 35 Copynumber: 2.9 Consensus size: 35
13413071 TACTCTCTAT
*
13413081 TTAGCGTGTTTTGGTTGGATTAGCTCTTATGAGCA
1 TTAGCGTGTTATGGTTGGATTAGCTCTTATGAGCA
* *
13413116 TTGGCGTGTTACGGTTGGATTAGCTCTTATGAGCA
1 TTAGCGTGTTATGGTTGGATTAGCTCTTATGAGCA
* * * *
13413151 TTAACATGTTATGGTTCGATTGGCTCTTAT
1 TTAGCGTGTTATGGTTGGATTAGCTCTTAT
13413181 AAAAATCTAG
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
35 56 1.00
ACGTcount: A:0.18, C:0.13, G:0.27, T:0.42
Consensus pattern (35 bp):
TTAGCGTGTTATGGTTGGATTAGCTCTTATGAGCA
Found at i:13422306 original size:12 final size:12
Alignment explanation
Indices: 13422290--13422336 Score: 51
Period size: 12 Copynumber: 3.8 Consensus size: 12
13422280 TTATAAAAAT
*
13422290 ATTATATTAATT
1 ATTATATTAATA
*
13422302 ATTATGTTAAATA
1 ATTATATT-AATA
13422315 ATTATAATT-ATA
1 ATTAT-ATTAATA
13422327 ATTATATTAA
1 ATTATATTAA
13422337 ATTACTAACC
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
11 3 0.10
12 16 0.55
13 8 0.28
14 2 0.07
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (12 bp):
ATTATATTAATA
Found at i:13422318 original size:25 final size:24
Alignment explanation
Indices: 13422286--13422338 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 24
13422276 TATGTTATAA
* *
13422286 AAATATTAT-ATTAATTATTATGTT
1 AAATATTATAATT-ATAATTATATT
13422310 AAATAATTATAATTATAATTATATT
1 AAAT-ATTATAATTATAATTATATT
13422335 AAAT
1 AAAT
13422339 TACTAACCCA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 4 0.16
25 18 0.72
26 3 0.12
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (24 bp):
AAATATTATAATTATAATTATATT
Found at i:13422521 original size:40 final size:39
Alignment explanation
Indices: 13422441--13422526 Score: 111
Period size: 39 Copynumber: 2.2 Consensus size: 39
13422431 AAAAATTATA
*
13422441 TTTAATACAATAAAATACTTATAATATTTATTTGTATTT
1 TTTAATACAATAAAATACTTATAATATTTATTAGTATTT
* * *
13422480 TTTAATACAATAAAA-ATTTATTATATTTATGGTAGTGTTT
1 TTTAATACAATAAAATACTTATAATATTTAT--TAGTATTT
13422520 TTTAATA
1 TTTAATA
13422527 TAAACAATTT
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
38 13 0.32
39 15 0.37
40 13 0.32
ACGTcount: A:0.40, C:0.03, G:0.06, T:0.51
Consensus pattern (39 bp):
TTTAATACAATAAAATACTTATAATATTTATTAGTATTT
Found at i:13424785 original size:23 final size:22
Alignment explanation
Indices: 13424743--13424784 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
13424733 TTTTAGTAAA
13424743 AGGGAAAAACTTGGATTTTTAT
1 AGGGAAAAACTTGGATTTTTAT
13424765 AGGGAAAAAACTT-GATTTTT
1 AGGG-AAAAACTTGGATTTTT
13424785 TTTTACTGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.38, C:0.05, G:0.21, T:0.36
Consensus pattern (22 bp):
AGGGAAAAACTTGGATTTTTAT
Found at i:13426203 original size:15 final size:15
Alignment explanation
Indices: 13426185--13426233 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
13426175 ATAATTATTT
13426185 TTATTTTATTTTAAA
1 TTATTTTATTTTAAA
* *
13426200 TTATATTATATTAAA
1 TTATTTTATTTTAAA
* *
13426215 ATATTTAATTTTAAA
1 TTATTTTATTTTAAA
13426230 TTAT
1 TTAT
13426234 ATTTTGAAAT
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
TTATTTTATTTTAAA
Found at i:13426252 original size:32 final size:30
Alignment explanation
Indices: 13426186--13426274 Score: 115
Period size: 32 Copynumber: 2.9 Consensus size: 30
13426176 TAATTATTTT
* *
13426186 TATTTTATTTTAAATTATATTATATTAAAA
1 TATTTTATTTTAAATTATATTTTAATAAAA
*
13426216 TATTTAATTTTAAATTATATTTTGAAATAAAA
1 TATTTTATTTTAAATTATATTTT--AATAAAA
* *
13426248 TATTTTATATTAAATTATATTTAAATA
1 TATTTTATTTTAAATTATATTTTAATA
13426275 TTTAAATATT
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
30 25 0.49
32 26 0.51
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (30 bp):
TATTTTATTTTAAATTATATTTTAATAAAA
Found at i:13426277 original size:8 final size:8
Alignment explanation
Indices: 13426264--13426293 Score: 60
Period size: 8 Copynumber: 3.8 Consensus size: 8
13426254 ATATTAAATT
13426264 ATATTTAA
1 ATATTTAA
13426272 ATATTTAA
1 ATATTTAA
13426280 ATATTTAA
1 ATATTTAA
13426288 ATATTT
1 ATATTT
13426294 TATTTTTATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (8 bp):
ATATTTAA
Found at i:13428379 original size:32 final size:32
Alignment explanation
Indices: 13428317--13428381 Score: 85
Period size: 33 Copynumber: 2.0 Consensus size: 32
13428307 ACATACATAT
*
13428317 ATATATATCCATCATACATTTTTATAATATAA
1 ATATATATCCATCATAAATTTTTATAATATAA
* *
13428349 ATATATATTCGTCTATAAATTTTTATATATATA
1 ATATATATCCATC-ATAAATTTTTATA-ATATA
13428382 TGTACATAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 11 0.39
33 12 0.43
34 5 0.18
ACGTcount: A:0.42, C:0.09, G:0.02, T:0.48
Consensus pattern (32 bp):
ATATATATCCATCATAAATTTTTATAATATAA
Found at i:13428694 original size:27 final size:26
Alignment explanation
Indices: 13428645--13428695 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 26
13428635 TAAATATATT
*
13428645 TTTTTATTTTATAATTTTCATATACA
1 TTTTTATTTTATAAATTTCATATACA
13428671 TTTTTATTTTCATATAATTT-ATATA
1 TTTTTATTTT-ATA-AATTTCATATA
13428696 TATACCTACA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 10 0.45
27 8 0.36
28 4 0.18
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.63
Consensus pattern (26 bp):
TTTTTATTTTATAAATTTCATATACA
Found at i:13428955 original size:5 final size:5
Alignment explanation
Indices: 13428945--13428970 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
13428935 TTTGTTTATG
13428945 TATTT TATTT TATTT TATTT TATTT T
1 TATTT TATTT TATTT TATTT TATTT T
13428971 GATGGTTGCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TATTT
Found at i:13440654 original size:49 final size:49
Alignment explanation
Indices: 13440584--13440714 Score: 226
Period size: 49 Copynumber: 2.7 Consensus size: 49
13440574 GAGCCATAAT
13440584 TTTTATCTCCCTGAAGTTGCAGTGGAGCAAATTGAAGACCGACTACAAA
1 TTTTATCTCCCTGAAGTTGCAGTGGAGCAAATTGAAGACCGACTACAAA
*
13440633 TTTTATCTCCCTGAAGTTGCAGTGGAGCAAATTGAAGACCGGCTACAAA
1 TTTTATCTCCCTGAAGTTGCAGTGGAGCAAATTGAAGACCGACTACAAA
* * *
13440682 TCTTATTTCCCTGAAGTTGCAGTGGAACAAATT
1 TTTTATCTCCCTGAAGTTGCAGTGGAGCAAATT
13440715 AAAGCTAAAT
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
49 78 1.00
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.29
Consensus pattern (49 bp):
TTTTATCTCCCTGAAGTTGCAGTGGAGCAAATTGAAGACCGACTACAAA
Found at i:13442549 original size:30 final size:29
Alignment explanation
Indices: 13442482--13442558 Score: 102
Period size: 29 Copynumber: 2.7 Consensus size: 29
13442472 CACATACATA
* * *
13442482 TATATATATCTATATCCATCATACATTTT
1 TATATATATATATATACATCATAAATTTT
13442511 TATA-ATATATATATACATCTATAAATTTT
1 TATATATATATATATACATC-ATAAATTTT
*
13442540 TATATATATATATGTACAT
1 TATATATATATATATACAT
13442559 AATTACATAT
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 13 0.31
29 16 0.38
30 13 0.31
ACGTcount: A:0.40, C:0.10, G:0.01, T:0.48
Consensus pattern (29 bp):
TATATATATATATATACATCATAAATTTT
Found at i:13442813 original size:34 final size:32
Alignment explanation
Indices: 13442754--13442821 Score: 84
Period size: 34 Copynumber: 2.0 Consensus size: 32
13442744 GTATCCCTTT
13442754 TATAAATATACATACACGTACATATTTTTATTTA
1 TATAAATATACATACAC-TACATATTTTT-TTTA
*
13442788 TATAAATATATATACA-TACTTATATTTTTTTTA
1 TATAAATATACATACACTAC--ATATTTTTTTTA
13442821 T
1 T
13442822 TTTATAATTT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
32 3 0.10
33 5 0.16
34 23 0.74
ACGTcount: A:0.40, C:0.09, G:0.01, T:0.50
Consensus pattern (32 bp):
TATAAATATACATACACTACATATTTTTTTTA
Found at i:13442864 original size:27 final size:26
Alignment explanation
Indices: 13442815--13442865 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 26
13442805 ACTTATATTT
*
13442815 TTTTTATTTTATAATTTTCATATACA
1 TTTTTATTTTATAAATTTCATATACA
13442841 TTTTTATTTTCATATAATTT-ATATA
1 TTTTTATTTT-ATA-AATTTCATATA
13442866 TATACCTACA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 10 0.45
27 8 0.36
28 4 0.18
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.63
Consensus pattern (26 bp):
TTTTTATTTTATAAATTTCATATACA
Found at i:13445310 original size:42 final size:43
Alignment explanation
Indices: 13445153--13445311 Score: 198
Period size: 43 Copynumber: 3.7 Consensus size: 43
13445143 AGCACCGCTT
* * * * **
13445153 AAGAACATGACCTTTAGCGGTGC-TTTACCCATAAACGCCGTTA
1 AAGATCATGACATTTAGCGGCGCTTTTA-TCATAAACGCCACTA
*
13445196 AAGATCATGACATTTAGCGGCAG-TTTTATCTTAAACGCCACTA
1 AAGATCATGACATTTAGCGGC-GCTTTTATCATAAACGCCACTA
*
13445239 AAGATCATGACATTTAGCGACGCTTTTATCATAAACGCCACTA
1 AAGATCATGACATTTAGCGGCGCTTTTATCATAAACGCCACTA
*
13445282 AAGATC-TGACCTTTAGCGGCGCTTTTATCA
1 AAGATCATGACATTTAGCGGCGCTTTTATCA
13445312 CAAATGCCGC
Statistics
Matches: 102, Mismatches: 11, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
42 23 0.23
43 74 0.73
44 5 0.05
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.29
Consensus pattern (43 bp):
AAGATCATGACATTTAGCGGCGCTTTTATCATAAACGCCACTA
Found at i:13450066 original size:7 final size:7
Alignment explanation
Indices: 13450054--13450245 Score: 63
Period size: 7 Copynumber: 26.9 Consensus size: 7
13450044 ACTAATTAAT
13450054 CTAAACC
1 CTAAACC
13450061 CTAAACC
1 CTAAACC
* *
13450068 CTTATCC
1 CTAAACC
13450075 CTTAAACC
1 C-TAAACC
* *
13450083 CTGAATC
1 CTAAACC
* *
13450090 ATAAAAC
1 CTAAACC
* *
13450097 ATAAATC
1 CTAAACC
*
13450104 ATAAACCC
1 CTAAA-CC
13450112 CT-AACC
1 CTAAACC
*
13450118 TCTAATCC
1 -CTAAACC
13450126 CTAAACC
1 CTAAACC
*
13450133 TTAAACTC
1 CTAAAC-C
13450141 C--AACC
1 CTAAACC
13450146 CTTAAACC
1 C-TAAACC
*
13450154 TTAAACC
1 CTAAACC
*
13450161 AT-AACC
1 CTAAACC
*
13450167 CATAATCC
1 C-TAAACC
13450175 CTAAACC
1 CTAAACC
*
13450182 CATAATCC
1 C-TAAACC
*
13450190 ATAAACC
1 CTAAACC
*
13450197 TTAAA--
1 CTAAACC
*
13450202 ATAGTAACTC
1 CTA--AAC-C
13450212 CTAAACC
1 CTAAACC
*
13450219 TTAAACC
1 CTAAACC
*
13450226 TTAAACC
1 CTAAACC
*
13450233 ATAAACC
1 CTAAACC
13450240 CTAAAC
1 CTAAAC
13450246 TATAATGATA
Statistics
Matches: 139, Mismatches: 30, Indels: 32
0.69 0.15 0.16
Matches are distributed among these distances:
5 4 0.03
6 9 0.06
7 97 0.70
8 27 0.19
10 2 0.01
ACGTcount: A:0.43, C:0.33, G:0.01, T:0.23
Consensus pattern (7 bp):
CTAAACC
Found at i:13450166 original size:21 final size:21
Alignment explanation
Indices: 13450127--13450250 Score: 99
Period size: 21 Copynumber: 5.8 Consensus size: 21
13450117 CTCTAATCCC
* *
13450127 TAAACCTTAAACTC-CAACCCT
1 TAAACCTTAAAC-CATAACCCA
13450148 TAAACCTTAAACCATAACCCA
1 TAAACCTTAAACCATAACCCA
* * *
13450169 TAATCCCTAAACCCATAATCCA
1 TAAACCTTAAA-CCATAACCCA
**
13450191 TAAACCTTAAAATAGTAACTCC-
1 TAAACCTTAAACCA-TAAC-CCA
* *
13450213 TAAACCTTAAACCTTAAACCA
1 TAAACCTTAAACCATAACCCA
* *
13450234 TAAACCCTAAACTATAA
1 TAAACCTTAAACCATAA
13450251 TGATAATTAA
Statistics
Matches: 81, Mismatches: 17, Indels: 10
0.75 0.16 0.09
Matches are distributed among these distances:
20 3 0.04
21 44 0.54
22 32 0.40
23 2 0.02
ACGTcount: A:0.45, C:0.31, G:0.01, T:0.23
Consensus pattern (21 bp):
TAAACCTTAAACCATAACCCA
Found at i:13450183 original size:15 final size:15
Alignment explanation
Indices: 13450159--13450196 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
13450149 AAACCTTAAA
13450159 CCAT-AACCCATAAT
1 CCATAAACCCATAAT
*
13450173 CCCTAAACCCATAAT
1 CCATAAACCCATAAT
13450188 CCATAAACC
1 CCATAAACC
13450197 TTAAAATAGT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 3 0.14
15 18 0.86
ACGTcount: A:0.42, C:0.39, G:0.00, T:0.18
Consensus pattern (15 bp):
CCATAAACCCATAAT
Found at i:13450232 original size:14 final size:14
Alignment explanation
Indices: 13450054--13450250 Score: 80
Period size: 14 Copynumber: 13.8 Consensus size: 14
13450044 ACTAATTAAT
*
13450054 CTAAACCCTAAACC
1 CTAAACCATAAACC
** *
13450068 CTTATCCCTTAAACC
1 C-TAAACCATAAACC
* * *
13450083 CTGAATCATAAAAC
1 CTAAACCATAAACC
* *
13450097 ATAAATCATAAACCC
1 CTAAACCATAAA-CC
* *
13450112 CT-AACCTCTAATCC
1 CTAAACC-ATAAACC
*
13450126 CTAAACCTTAAACTC
1 CTAAACCATAAAC-C
* *
13450141 C-AACCCTTAAACC
1 CTAAACCATAAACC
*
13450154 TTAAACCAT-AACC
1 CTAAACCATAAACC
* *
13450167 CATAATCCCTAAACC
1 C-TAAACCATAAACC
*
13450182 CATAATCCATAAACC
1 C-TAAACCATAAACC
*
13450197 TTAAA--ATAGTAACTC
1 CTAAACCATA--AAC-C
*
13450212 CTAAACCTTAAACC
1 CTAAACCATAAACC
*
13450226 TTAAACCATAAACC
1 CTAAACCATAAACC
*
13450240 CTAAACTATAA
1 CTAAACCATAA
13450251 TGATAATTAA
Statistics
Matches: 136, Mismatches: 34, Indels: 26
0.69 0.17 0.13
Matches are distributed among these distances:
12 3 0.02
13 5 0.04
14 78 0.57
15 48 0.35
17 2 0.01
ACGTcount: A:0.43, C:0.32, G:0.01, T:0.23
Consensus pattern (14 bp):
CTAAACCATAAACC
Found at i:13450730 original size:40 final size:40
Alignment explanation
Indices: 13450686--13450823 Score: 188
Period size: 40 Copynumber: 3.5 Consensus size: 40
13450676 TTTGGTCAAC
*
13450686 CTATAGCGGGATTTTTTAAAAAGCGCCGCTAATGCTCGAT
1 CTATAGCGGCATTTTTTAAAAAGCGCCGCTAATGCTCGAT
* * * *
13450726 CTATAGCAGCATTTTTTGAAAAA-CGCCTCTACTGTTCGAT
1 CTATAGCGGCATTTTTT-AAAAAGCGCCGCTAATGCTCGAT
* * *
13450766 CTATAGCGGCATTTTTCAAAAAGTGCCGCTAATGCTCAAT
1 CTATAGCGGCATTTTTTAAAAAGCGCCGCTAATGCTCGAT
13450806 CTATAGCGGCATTTTTTA
1 CTATAGCGGCATTTTTTA
13450824 TCCAAACTCT
Statistics
Matches: 83, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 5 0.06
40 73 0.88
41 5 0.06
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (40 bp):
CTATAGCGGCATTTTTTAAAAAGCGCCGCTAATGCTCGAT
Found at i:13457458 original size:39 final size:40
Alignment explanation
Indices: 13457401--13457479 Score: 97
Period size: 39 Copynumber: 2.0 Consensus size: 40
13457391 ATTTACATGG
* * * * *
13457401 TAATCACATTCACTTTTAAGCCTATATCACATTACACATA
1 TAATCACATTAACATTTAAACATATATCACAATACACATA
*
13457441 TAATCACA-TAACATTTAAACATATATCACAATACTCATA
1 TAATCACATTAACATTTAAACATATATCACAATACACATA
13457480 AACATATTTA
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
39 25 0.76
40 8 0.24
ACGTcount: A:0.43, C:0.23, G:0.01, T:0.33
Consensus pattern (40 bp):
TAATCACATTAACATTTAAACATATATCACAATACACATA
Found at i:13458126 original size:85 final size:85
Alignment explanation
Indices: 13457965--13458226 Score: 454
Period size: 85 Copynumber: 3.1 Consensus size: 85
13457955 GAGAAAACTT
* * *
13457965 ACACTCAGAATTTAGAGTAGGGGTTTAAGCTACTACT-GATTACCAATTAACACATTAAATCGTG
1 ACACTCAGAATTTAGAGTAGGGGTTTAGGCTACTACTAAATTACCAATTAACACATTGAATCGTG
* *
13458029 ACAACAAGCAGCTATTCTAA
66 TCCACAAGCAGCTATTCTAA
*
13458049 ACACTCGGAATTTAGAGTAGGGGTTTAGGCTACTACTAAATTACCAATTAACACATTGAATCGTG
1 ACACTCAGAATTTAGAGTAGGGGTTTAGGCTACTACTAAATTACCAATTAACACATTGAATCGTG
13458114 TCCACAAGCAGCTATTCTAA
66 TCCACAAGCAGCTATTCTAA
13458134 ACACTCAGAATTTAGAGTAGGGGTTTAGGCTACTACTAAATTACCAATTAACACATTGAATCGTG
1 ACACTCAGAATTTAGAGTAGGGGTTTAGGCTACTACTAAATTACCAATTAACACATTGAATCGTG
*
13458199 TCCACAAGCAACTATTCTAA
66 TCCACAAGCAGCTATTCTAA
13458219 ACACTCAG
1 ACACTCAG
13458227 CAATACGCTT
Statistics
Matches: 169, Mismatches: 8, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
84 35 0.21
85 134 0.79
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.27
Consensus pattern (85 bp):
ACACTCAGAATTTAGAGTAGGGGTTTAGGCTACTACTAAATTACCAATTAACACATTGAATCGTG
TCCACAAGCAGCTATTCTAA
Found at i:13464272 original size:16 final size:17
Alignment explanation
Indices: 13464251--13464284 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
13464241 ACATTCACTT
13464251 TTAAACATAT-ATCACA
1 TTAAACATATAATCACA
13464267 TTAAACATATAATCACA
1 TTAAACATATAATCACA
13464284 T
1 T
13464285 AACATTTAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.50, C:0.18, G:0.00, T:0.32
Consensus pattern (17 bp):
TTAAACATATAATCACA
Found at i:13469764 original size:35 final size:35
Alignment explanation
Indices: 13469718--13469790 Score: 94
Period size: 35 Copynumber: 2.1 Consensus size: 35
13469708 AAGAAACAAC
* * *
13469718 CAAATGATGCAAAAAGAAA-CCATATATGGTGTTTA
1 CAAATAATGCAAAAAGAAACCCA-ATATGATGTCTA
*
13469753 CAAATAATGCAATAAGAAACCCAATATGATGTCTA
1 CAAATAATGCAAAAAGAAACCCAATATGATGTCTA
13469788 CAA
1 CAA
13469791 TGTTGGAAGA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
35 30 0.91
36 3 0.09
ACGTcount: A:0.48, C:0.15, G:0.14, T:0.23
Consensus pattern (35 bp):
CAAATAATGCAAAAAGAAACCCAATATGATGTCTA
Found at i:13477463 original size:23 final size:23
Alignment explanation
Indices: 13477430--13477473 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
13477420 AAAGAAATTT
* **
13477430 AACAAAGTACGCTGCAAGGGCCA
1 AACAAAATACGCCACAAGGGCCA
13477453 AACAAAATACGCCACAAGGGC
1 AACAAAATACGCCACAAGGGC
13477474 ATCCTACAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.43, C:0.27, G:0.23, T:0.07
Consensus pattern (23 bp):
AACAAAATACGCCACAAGGGCCA
Found at i:13483986 original size:23 final size:23
Alignment explanation
Indices: 13483962--13484005 Score: 67
Period size: 21 Copynumber: 2.0 Consensus size: 23
13483952 AATATTAGAA
13483962 TAAT-ATTTTAAA-TAAAA-AAT
1 TAATAATTTTAAATTAAAATAAT
13483982 TAATAATTTTAAATTAAAATAAT
1 TAATAATTTTAAATTAAAATAAT
13484005 T
1 T
13484006 TGCTTTATCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 4 0.19
21 8 0.38
22 5 0.24
23 4 0.19
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (23 bp):
TAATAATTTTAAATTAAAATAAT
Found at i:13487829 original size:20 final size:22
Alignment explanation
Indices: 13487786--13487829 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
13487776 TAACTTATGC
*
13487786 AGCAAAATTAATGTAATAAGAT
1 AGCAAAATTAATGTAATAAAAT
*
13487808 AGCAAAATT-ATG-GATAAAAT
1 AGCAAAATTAATGTAATAAAAT
13487828 AG
1 AG
13487830 GCTTGGATTC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 8 0.40
21 3 0.15
22 9 0.45
ACGTcount: A:0.55, C:0.05, G:0.16, T:0.25
Consensus pattern (22 bp):
AGCAAAATTAATGTAATAAAAT
Found at i:13488815 original size:17 final size:18
Alignment explanation
Indices: 13488795--13488830 Score: 63
Period size: 19 Copynumber: 1.9 Consensus size: 18
13488785 GCACTAAGAT
13488795 AAAAATGTAATGACAATAA
1 AAAAATGTAATGACAAT-A
13488814 AAAAATGTAATGACAAT
1 AAAAATGTAATGACAAT
13488831 GTATACTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.61, C:0.06, G:0.11, T:0.22
Consensus pattern (18 bp):
AAAAATGTAATGACAATA
Found at i:13489309 original size:18 final size:21
Alignment explanation
Indices: 13489267--13489316 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
13489257 TTATCTTTTT
*
13489267 CAGCAACTTCTTCTTCTTCAG
1 CAGCAACTTCCTCTTCTTCAG
*
13489288 CAGCAACTTCCTCTTCTACAG
1 CAGCAACTTCCTCTTCTTCAG
13489309 CA-CAACTT
1 CAGCAACTT
13489317 TCTTCTCAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
20 6 0.22
21 21 0.78
ACGTcount: A:0.24, C:0.36, G:0.08, T:0.32
Consensus pattern (21 bp):
CAGCAACTTCCTCTTCTTCAG
Found at i:13489320 original size:18 final size:19
Alignment explanation
Indices: 13489267--13489322 Score: 60
Period size: 21 Copynumber: 2.8 Consensus size: 19
13489257 TTATCTTTTT
*
13489267 CAGCAACTTCTTCTTCTTCAG
1 CAGCAAC-T-TTCTTCTACAG
13489288 CAGCAACTTCCTCTTCTACAG
1 CAGCAACTT--TCTTCTACAG
13489309 CA-CAACTTTCTTCT
1 CAGCAACTTTCTTCT
13489323 CAACAATAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
18 6 0.19
19 1 0.03
20 7 0.22
21 18 0.56
ACGTcount: A:0.21, C:0.36, G:0.07, T:0.36
Consensus pattern (19 bp):
CAGCAACTTTCTTCTACAG
Found at i:13492869 original size:12 final size:12
Alignment explanation
Indices: 13492852--13492876 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
13492842 GGTACAATGA
13492852 CTAAACATGCAT
1 CTAAACATGCAT
13492864 CTAAACATGCAT
1 CTAAACATGCAT
13492876 C
1 C
13492877 GTTAAAGAAG
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:0.40, C:0.28, G:0.08, T:0.24
Consensus pattern (12 bp):
CTAAACATGCAT
Found at i:13495805 original size:45 final size:45
Alignment explanation
Indices: 13495746--13495836 Score: 155
Period size: 45 Copynumber: 2.0 Consensus size: 45
13495736 GTCGTGCACG
* *
13495746 GGATCCGGAAAGCCATCGTCGATCGATGTAGCATAAAATGGTGCA
1 GGATCCGGAAAGCCACCGTCGATCGATGTAGCATAAAACGGTGCA
*
13495791 GGATCCGGAAAGCCACCGTCGATCGATGTAGCATGAAACGGTGCA
1 GGATCCGGAAAGCCACCGTCGATCGATGTAGCATAAAACGGTGCA
13495836 G
1 G
13495837 AGTGCTAAGG
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.30, C:0.22, G:0.31, T:0.18
Consensus pattern (45 bp):
GGATCCGGAAAGCCACCGTCGATCGATGTAGCATAAAACGGTGCA
Found at i:13500995 original size:11 final size:12
Alignment explanation
Indices: 13500979--13501020 Score: 54
Period size: 12 Copynumber: 3.7 Consensus size: 12
13500969 ATGAGTGCAG
13500979 ATCCAAAA-AAA
1 ATCCAAAACAAA
13500990 ATCCAAAACAAA
1 ATCCAAAACAAA
13501002 AT-CAAAATCAAA
1 ATCCAAAA-CAAA
13501014 AT-CAAAA
1 ATCCAAAA
13501021 TTAAAAAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
11 13 0.45
12 16 0.55
ACGTcount: A:0.69, C:0.19, G:0.00, T:0.12
Consensus pattern (12 bp):
ATCCAAAACAAA
Found at i:13501009 original size:6 final size:6
Alignment explanation
Indices: 13500987--13501026 Score: 55
Period size: 6 Copynumber: 6.7 Consensus size: 6
13500977 AGATCCAAAA
*
13500987 AAAATCC AAAA-C AAAATC AAAATC AAAATC AAAATT AAAA
1 AAAAT-C AAAATC AAAATC AAAATC AAAATC AAAATC AAAA
13501027 AAAAAGAAGA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
5 5 0.16
6 22 0.71
7 4 0.13
ACGTcount: A:0.70, C:0.15, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAATC
Found at i:13501047 original size:44 final size:44
Alignment explanation
Indices: 13500999--13501091 Score: 127
Period size: 44 Copynumber: 2.1 Consensus size: 44
13500989 AATCCAAAAC
*
13500999 AAAATCAAAATCAAAATCAAAATTAAA-AAAAAAGAAGA-AAGAGA
1 AAAATCAAAATCAAAATCAAAATGAAAGAAAAAAG-AGATAAG-GA
*
13501043 AAAATCAAAATCAAAGTCAAAATGAAATGAAAAAAGAGATAAGGA
1 AAAATCAAAATCAAAATCAAAATGAAA-GAAAAAAGAGATAAGGA
13501088 AAAA
1 AAAA
13501092 AGGAAAAAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
44 25 0.57
45 9 0.20
46 10 0.23
ACGTcount: A:0.70, C:0.06, G:0.12, T:0.12
Consensus pattern (44 bp):
AAAATCAAAATCAAAATCAAAATGAAAGAAAAAAGAGATAAGGA
Found at i:13501902 original size:20 final size:19
Alignment explanation
Indices: 13501878--13501923 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 19
13501868 ACCAATTCAA
*
13501878 AAAAAAAAGAGATGAAAAATT
1 AAAAAAAA-A-ATGAAAAAGT
13501899 AAAATAAAAAATGAAAAAGT
1 AAAA-AAAAAATGAAAAAGT
13501919 AAAAA
1 AAAAA
13501924 TGGAGAGGCT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 1 0.04
20 13 0.57
21 5 0.22
22 4 0.17
ACGTcount: A:0.76, C:0.00, G:0.11, T:0.13
Consensus pattern (19 bp):
AAAAAAAAAATGAAAAAGT
Found at i:13503367 original size:100 final size:100
Alignment explanation
Indices: 13503193--13503877 Score: 992
Period size: 100 Copynumber: 6.8 Consensus size: 100
13503183 AATACCAATT
* * * *
13503193 TTACTTCCCAGGCGATGTAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACGT
1 TTACTTCCCAAGCGGTGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACAT
* * *
13503258 TGCAGTTAAACAGCTTAAAGCTACAACAGCAAATC
66 TGCAGTTAAAAAGATTAAAGCTACAACAGCGAATC
* ** * * * * *
13503293 CTACTTCCCTGGCGGTCCAGTGGAACAGATTAAAGCCATATCGGTGTATCTGGCTTCCTCGACAT
1 TTACTTCCCAAGCGGTGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACAT
13503358 TGCAGTTAAAAAGATTAAAGCTACAACAGCGAATC
66 TGCAGTTAAAAAGATTAAAGCTACAACAGCGAATC
* * * * *
13503393 TTACTCCCCAGGCGATGCAGTGGAACAGATTAAAGCCACCTCGGTGCATCTTGCTTCCCCGACAT
1 TTACTTCCCAAGCGGTGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACAT
* * *
13503458 TCCTGTTAAAAAGATTAAAGCTACAACAACGAATC
66 TGCAGTTAAAAAGATTAAAGCTACAACAGCGAATC
* *
13503493 TTACTCCCCAAGCGGTGCAGTGGAACAGATTAAAGCCACATTGGTGAATCTTGCTTCCCCGACAT
1 TTACTTCCCAAGCGGTGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACAT
*
13503558 TGCAGTTAAAAAGATTAAAGCTACAACAGGGAATC
66 TGCAGTTAAAAAGATTAAAGCTACAACAGCGAATC
**
13503593 TTACTTCCCTGGCGGTGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACAT
1 TTACTTCCCAAGCGGTGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACAT
* *
13503658 TGCAGTTGAAAAGATTAAAGCTACAACGGCGAATC
66 TGCAGTTAAAAAGATTAAAGCTACAACAGCGAATC
* * * * * * *
13503693 TTACTTCTCAAGTGATGCAGTAGAACAGATTAAAGCCACATCAGTGAATCTTGCTTTCCTGACAT
1 TTACTTCCCAAGCGGTGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACAT
13503758 TGCAGTTAAAAAGATTAAAGCTACAACAGCGAATC
66 TGCAGTTAAAAAGATTAAAGCTACAACAGCGAATC
* * * *
13503793 TTACTTCTCAAGCGGTGCAGCGGAACAGATTAACGCCACAACGGTGAATCTTGCTTCCCCGACAT
1 TTACTTCCCAAGCGGTGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACAT
*
13503858 TGCAGTTAAACAGATTAAAG
66 TGCAGTTAAAAAGATTAAAG
13503878 TTACGAGTTA
Statistics
Matches: 522, Mismatches: 63, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
100 522 1.00
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.24
Consensus pattern (100 bp):
TTACTTCCCAAGCGGTGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACAT
TGCAGTTAAAAAGATTAAAGCTACAACAGCGAATC
Found at i:13505278 original size:23 final size:20
Alignment explanation
Indices: 13505252--13505296 Score: 54
Period size: 23 Copynumber: 2.1 Consensus size: 20
13505242 ATATAGATCC
13505252 TTTTATTTTATTATATGATATTA
1 TTTTATTTT-TT-TATG-TATTA
*
13505275 TTTTATGTTTTTATGTATTA
1 TTTTATTTTTTTATGTATTA
13505295 TT
1 TT
13505297 ACTTATTTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 7 0.33
21 4 0.19
22 2 0.10
23 8 0.38
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.69
Consensus pattern (20 bp):
TTTTATTTTTTTATGTATTA
Found at i:13521053 original size:9 final size:9
Alignment explanation
Indices: 13521035--13521074 Score: 71
Period size: 9 Copynumber: 4.4 Consensus size: 9
13521025 AACGTGAAAT
*
13521035 TGTGACATG
1 TGTGATATG
13521044 TGTGATATG
1 TGTGATATG
13521053 TGTGATATG
1 TGTGATATG
13521062 TGTGATATG
1 TGTGATATG
13521071 TGTG
1 TGTG
13521075 TTAAGCTTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
9 30 1.00
ACGTcount: A:0.20, C:0.03, G:0.35, T:0.42
Consensus pattern (9 bp):
TGTGATATG
Found at i:13524675 original size:8 final size:8
Alignment explanation
Indices: 13524662--13524688 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
13524652 CTATATACTA
13524662 TTTTATAT
1 TTTTATAT
13524670 TTTTATAT
1 TTTTATAT
13524678 TTTTATAT
1 TTTTATAT
13524686 TTT
1 TTT
13524689 CGAGTAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (8 bp):
TTTTATAT
Found at i:13527563 original size:14 final size:14
Alignment explanation
Indices: 13527544--13527574 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
13527534 ATACTAATGC
13527544 TAGCAGTGAAACAA
1 TAGCAGTGAAACAA
*
13527558 TAGCAGTGAAATAA
1 TAGCAGTGAAACAA
13527572 TAG
1 TAG
13527575 ACTAAGTACT
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:0.48, C:0.10, G:0.23, T:0.19
Consensus pattern (14 bp):
TAGCAGTGAAACAA
Found at i:13532281 original size:21 final size:19
Alignment explanation
Indices: 13532240--13532282 Score: 50
Period size: 21 Copynumber: 2.2 Consensus size: 19
13532230 TGATTATATG
* *
13532240 TATTAATTAAAATATACTA
1 TATTAATTAAAATAAAATA
13532259 TATTATATTATAAATAAAATA
1 TATTA-ATTA-AAATAAAATA
13532280 TAT
1 TAT
13532283 AAGGAAGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 5 0.25
20 4 0.20
21 11 0.55
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (19 bp):
TATTAATTAAAATAAAATA
Found at i:13532563 original size:19 final size:19
Alignment explanation
Indices: 13532541--13532579 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
13532531 AAATAAAGCT
13532541 AAAGTACAACAACAAAACA
1 AAAGTACAACAACAAAACA
* * *
13532560 AAAGTAGACCAACAAGACA
1 AAAGTACAACAACAAAACA
13532579 A
1 A
13532580 CAACAAAGGC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.64, C:0.21, G:0.10, T:0.05
Consensus pattern (19 bp):
AAAGTACAACAACAAAACA
Found at i:13535839 original size:4 final size:4
Alignment explanation
Indices: 13535815--13535867 Score: 54
Period size: 4 Copynumber: 13.2 Consensus size: 4
13535805 AACTTGAGTC
* * * *
13535815 TTTA TTTA CTTA ATTA CTTA TTTA TTTG TTT- TTTA TTTTA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA -TTTA TTTA TTTA
13535863 TTTA T
1 TTTA T
13535868 GTACAAGCAA
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
3 3 0.07
4 35 0.83
5 4 0.10
ACGTcount: A:0.23, C:0.04, G:0.02, T:0.72
Consensus pattern (4 bp):
TTTA
Found at i:13536529 original size:28 final size:28
Alignment explanation
Indices: 13536489--13536542 Score: 99
Period size: 28 Copynumber: 1.9 Consensus size: 28
13536479 TATCCATACT
13536489 ATATGCACATGTTAAGGATGAGAAATTG
1 ATATGCACATGTTAAGGATGAGAAATTG
*
13536517 ATATGCATATGTTAAGGATGAGAAAT
1 ATATGCACATGTTAAGGATGAGAAAT
13536543 CGACTTCAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.41, C:0.06, G:0.24, T:0.30
Consensus pattern (28 bp):
ATATGCACATGTTAAGGATGAGAAATTG
Found at i:13538343 original size:26 final size:26
Alignment explanation
Indices: 13538314--13538363 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
13538304 GGGATTTGGG
13538314 TGTTTTATT-TTTTATTTTTTCCTTTT
1 TGTTTTATTCTTTT-TTTTTTCCTTTT
*
13538340 TGTTTTCTTCTTTTTTTTTTCCTT
1 TGTTTTATTCTTTTTTTTTTCCTT
13538364 ATGGCCGGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 18 0.82
27 4 0.18
ACGTcount: A:0.04, C:0.12, G:0.04, T:0.80
Consensus pattern (26 bp):
TGTTTTATTCTTTTTTTTTTCCTTTT
Found at i:13544464 original size:47 final size:47
Alignment explanation
Indices: 13544413--13544669 Score: 424
Period size: 47 Copynumber: 5.5 Consensus size: 47
13544403 TTATTCATTG
13544413 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
13544460 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
13544507 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
* **
13544554 GAAAGTGTATATATGTGATAAGGCCGAATGGCTAATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
* * * * * *
13544601 GAAAGTGTATATATGTGATAGGGCCGAGTGGCCAACGTGATGGATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
*
13544648 GAAAGTGTATAAATGTGATAAG
1 GAAAGTGTATATATGTGATAAG
13544670 TCCCGAAGGG
Statistics
Matches: 200, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 200 1.00
ACGTcount: A:0.33, C:0.08, G:0.31, T:0.29
Consensus pattern (47 bp):
GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
Found at i:13551586 original size:14 final size:14
Alignment explanation
Indices: 13551563--13551601 Score: 62
Period size: 14 Copynumber: 2.9 Consensus size: 14
13551553 ATATGCAGAA
13551563 ACAT-GAAATTAGG
1 ACATAGAAATTAGG
13551576 ACATAGAAATTAGG
1 ACATAGAAATTAGG
*
13551590 ACAAAGAAATTA
1 ACATAGAAATTA
13551602 TTAAAATGTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 4 0.17
14 20 0.83
ACGTcount: A:0.54, C:0.08, G:0.18, T:0.21
Consensus pattern (14 bp):
ACATAGAAATTAGG
Found at i:13559508 original size:3 final size:3
Alignment explanation
Indices: 13559500--13559528 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
13559490 CTTAAATAAA
13559500 AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
13559529 AGACAAAGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.31, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:13574199 original size:16 final size:16
Alignment explanation
Indices: 13574180--13574210 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
13574170 GCATTTTCAG
*
13574180 AAAACCTTGTTTTAGT
1 AAAACCATGTTTTAGT
13574196 AAAACCATGTTTTAG
1 AAAACCATGTTTTAG
13574211 CTAACGGTCG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.39
Consensus pattern (16 bp):
AAAACCATGTTTTAGT
Found at i:13580521 original size:110 final size:110
Alignment explanation
Indices: 13580287--13581031 Score: 944
Period size: 110 Copynumber: 6.7 Consensus size: 110
13580277 GATACATAAT
* ** * *
13580287 TTCATGTATCGTAATCTT-TCATTTCAATTCATACAATATCGAAGGCTACACCATGAATAT-AAG
1 TTCATGTATCGTGATCTTCT-ATTTTGATTCATACACTATCGAAGGCTACACCATGAATATAAAT
* *
13580350 CCAAACATATCATGCCATGGGTCTTAACCATATGGTCTTACACACA
65 ACAAACATATCATGCCATGGGTCTTAACCACATGGTCTTACACACA
* * *
13580396 TTCATTTATCGTGATCTTCTATTTCGATTCATACACTATCAAAGGCTACACCATGAATATAAATA
1 TTCATGTATCGTGATCTTCTATTTTGATTCATACACTATCGAAGGCTACACCATGAATATAAATA
* * * * **
13580461 CAAGCATATCATGCTATAGTTCTTAACCACATGGTCTTACATGCA
66 CAAACATATCATGCCATGGGTCTTAACCACATGGTCTTACACACA
* * * *
13580506 TTCATGTATCATGATCTACTGTTTTGATTCATACACTATCGAAGGCTACACCATGAATATAAGTA
1 TTCATGTATCGTGATCTTCTATTTTGATTCATACACTATCGAAGGCTACACCATGAATATAAATA
* * *
13580571 CAAACATATCATGCCATGGGTCTCAACCACATGGTGTTGCACACA
66 CAAACATATCATGCCATGGGTCTTAACCACATGGTCTTACACACA
* * * *
13580616 TTCATTTATCGTGATCTTCCATTTTGATTCATACACTACCAAAGGCTACACCATGAATATAAATA
1 TTCATGTATCGTGATCTTCTATTTTGATTCATACACTATCGAAGGCTACACCATGAATATAAATA
** * * * *
13580681 TGAACATATGATGCTATGGCTCTTAAACACATGGTCTTACACACA
66 CAAACATATCATGCCATGGGTCTTAACCACATGGTCTTACACACA
* * * *
13580726 TTCATGTATTGTGATCTACTATTTTGATTCATACACTATCGAAGGCTACACCATAAATATAAAAA
1 TTCATGTATCGTGATCTTCTATTTTGATTCATACACTATCGAAGGCTACACCATGAATATAAATA
* * *
13580791 CAAACATATCATGACATGGGTTTTAAACACATGGTCTTACACACA
66 CAAACATATCATGCCATGGGTCTTAACCACATGGTCTTACACACA
*
13580836 TTCATGTATCGTGATCTATC-ATTTCGATTCATACACTATCGAAGGCTACACCATGAATATAAAT
1 TTCATGTATCGTGATCT-TCTATTTTGATTCATACACTATCGAAGGCTACACCATGAATATAAAT
13580900 A-AAGACATATCATGCCATGGGTCTTAATCC-CATGGTCTTACACACA
65 ACAA-ACATATCATGCCATGGGTCTTAA-CCACATGGTCTTACACACA
* * *
13580946 TTCATGTATCGTGATCTGAC-ATTTTGATTCATACATTATTGAATCGAAGGTTACACCATGAATA
1 TTCATGTATCGTGATCT-TCTATTTTGATTCATAC---ACT--ATCGAAGGCTACACCATGAATA
**
13581010 TAAATACAGGCATATCATGCCA
60 TAAATACAAACATATCATGCCA
13581032 ATATGGTTAG
Statistics
Matches: 548, Mismatches: 77, Indels: 16
0.85 0.12 0.02
Matches are distributed among these distances:
109 55 0.10
110 449 0.82
111 2 0.00
113 2 0.00
115 39 0.07
116 1 0.00
ACGTcount: A:0.34, C:0.21, G:0.13, T:0.32
Consensus pattern (110 bp):
TTCATGTATCGTGATCTTCTATTTTGATTCATACACTATCGAAGGCTACACCATGAATATAAATA
CAAACATATCATGCCATGGGTCTTAACCACATGGTCTTACACACA
Found at i:13583404 original size:11 final size:12
Alignment explanation
Indices: 13583390--13583425 Score: 51
Period size: 11 Copynumber: 3.2 Consensus size: 12
13583380 TTTTAAATTG
13583390 TTAAATTTAT-A
1 TTAAATTTATAA
13583401 TT-AATTTATAA
1 TTAAATTTATAA
13583412 TTAAATTT-TAA
1 TTAAATTTATAA
13583423 TTA
1 TTA
13583426 TTTTAACAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
10 7 0.30
11 11 0.48
12 5 0.22
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (12 bp):
TTAAATTTATAA
Found at i:13590618 original size:22 final size:22
Alignment explanation
Indices: 13590590--13590634 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
13590580 ATTTCCTTTT
13590590 TAACCATTAAGCTAACGGCTCA
1 TAACCATTAAGCTAACGGCTCA
*
13590612 TAACCATTAAGCTAATGGCTCA
1 TAACCATTAAGCTAACGGCTCA
13590634 T
1 T
13590635 TCTTGTTACA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.36, C:0.24, G:0.13, T:0.27
Consensus pattern (22 bp):
TAACCATTAAGCTAACGGCTCA
Found at i:13599297 original size:28 final size:28
Alignment explanation
Indices: 13599253--13599330 Score: 81
Period size: 27 Copynumber: 2.8 Consensus size: 28
13599243 TATTTAGATT
* * *
13599253 TTATTTAGTTTTCTTTTTCTTTTTC-TTC
1 TTATTT-GTTTTATTTTTATTTTTCATAC
13599281 TTATTTGTATTTA-TTTTATTTTTCATAC
1 TTATTTGT-TTTATTTTTATTTTTCATAC
*
13599309 TTATATGTTTTA-TTTTATTTTT
1 TTATTTGTTTTATTTTTATTTTT
13599331 ATTTTTAACT
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
27 26 0.59
28 18 0.41
ACGTcount: A:0.15, C:0.08, G:0.04, T:0.73
Consensus pattern (28 bp):
TTATTTGTTTTATTTTTATTTTTCATAC
Found at i:13599320 original size:27 final size:27
Alignment explanation
Indices: 13599267--13599330 Score: 85
Period size: 27 Copynumber: 2.4 Consensus size: 27
13599257 TTAGTTTTCT
* * *
13599267 TTTTCTTTTTCTTCTTATTTGTATTTA
1 TTTTATTTTTCTACTTATATGTATTTA
13599294 TTTTATTTTTCATACTTATATGT-TTTA
1 TTTTATTTTTC-TACTTATATGTATTTA
13599321 TTTTATTTTT
1 TTTTATTTTT
13599331 ATTTTTAACT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
27 24 0.73
28 9 0.27
ACGTcount: A:0.16, C:0.08, G:0.03, T:0.73
Consensus pattern (27 bp):
TTTTATTTTTCTACTTATATGTATTTA
Found at i:13599357 original size:32 final size:33
Alignment explanation
Indices: 13599284--13599358 Score: 86
Period size: 33 Copynumber: 2.3 Consensus size: 33
13599274 TTTCTTCTTA
13599284 TTTGTATTTA-TTTTATTTTTCATACTTATATGT
1 TTTGT-TTTATTTTTATTTTTCATACTTATATGT
*
13599317 TTTATTTTATTTTTATTTTT-A-ACTT-TATTGT
1 TTTGTTTTATTTTTATTTTTCATACTTATA-TGT
13599348 TATTGTTTTAT
1 T-TTGTTTTAT
13599359 CAGTTGTTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
30 2 0.05
31 8 0.22
32 13 0.35
33 14 0.38
ACGTcount: A:0.20, C:0.04, G:0.05, T:0.71
Consensus pattern (33 bp):
TTTGTTTTATTTTTATTTTTCATACTTATATGT
Found at i:13601738 original size:49 final size:49
Alignment explanation
Indices: 13601655--13601749 Score: 145
Period size: 49 Copynumber: 1.9 Consensus size: 49
13601645 ATCTATTTAT
* *
13601655 AGGTTGAAAAACCTTATTCTAATCAATGTCAAATAGAAGCAGTGTAGTA
1 AGGTTGAAAAACCTTATTCTAATCAATATCAAATAGAAGAAGTGTAGTA
* * *
13601704 AGGTTGAAACACCTTATTCTAATTAATATTAAATAGAAGAAGTGTA
1 AGGTTGAAAAACCTTATTCTAATCAATATCAAATAGAAGAAGTGTA
13601750 CTTCTATATG
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
49 41 1.00
ACGTcount: A:0.42, C:0.11, G:0.17, T:0.31
Consensus pattern (49 bp):
AGGTTGAAAAACCTTATTCTAATCAATATCAAATAGAAGAAGTGTAGTA
Found at i:13609388 original size:26 final size:26
Alignment explanation
Indices: 13609359--13609414 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
13609349 CCAACACACC
13609359 GTATCGCAGCAAAGCTGCCAGTAACA
1 GTATCGCAGCAAAGCTGCCAGTAACA
*
13609385 GTATCGCAGCAAGGCTGCCAGTAACA
1 GTATCGCAGCAAAGCTGCCAGTAACA
13609411 GTAT
1 GTAT
13609415 ACTTCCTCCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.32, C:0.25, G:0.25, T:0.18
Consensus pattern (26 bp):
GTATCGCAGCAAAGCTGCCAGTAACA
Found at i:13615442 original size:30 final size:30
Alignment explanation
Indices: 13615408--13615469 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
13615398 TCTTTTTGAA
*
13615408 AATATTTACAAAAAGAGGCAT-CTAATTTTT
1 AATATTTACAAAAAGA-GCATCCAAATTTTT
13615438 AATATTTACAAAAAGAGCATCCAAATTTTT
1 AATATTTACAAAAAGAGCATCCAAATTTTT
13615468 AA
1 AA
13615470 AAATATTTCA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
29 4 0.13
30 26 0.87
ACGTcount: A:0.47, C:0.11, G:0.08, T:0.34
Consensus pattern (30 bp):
AATATTTACAAAAAGAGCATCCAAATTTTT
Found at i:13622510 original size:30 final size:33
Alignment explanation
Indices: 13622458--13622523 Score: 84
Period size: 30 Copynumber: 2.1 Consensus size: 33
13622448 TCAATATATG
*
13622458 TAATTATTTTTTATAATCTATATATATATGTATA
1 TAATTATTTTTTATAA-CTATATATACATGTATA
*
13622492 TAATTATTTTTT-T-A-TATATGTACATGTATA
1 TAATTATTTTTTATAACTATATATACATGTATA
13622522 TA
1 TA
13622524 TTCATATATT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
30 16 0.53
32 1 0.03
33 1 0.03
34 12 0.40
ACGTcount: A:0.36, C:0.03, G:0.05, T:0.56
Consensus pattern (33 bp):
TAATTATTTTTTATAACTATATATACATGTATA
Found at i:13622636 original size:20 final size:22
Alignment explanation
Indices: 13622613--13622664 Score: 56
Period size: 20 Copynumber: 2.5 Consensus size: 22
13622603 AAATACATAC
13622613 TTATATTTTTA-ACACATAT-T
1 TTATATTTTTATACACATATAT
* *
13622633 TTATA-ATTTATACATATATAT
1 TTATATTTTTATACACATATAT
13622654 TTATATATTTT
1 TTATAT-TTTT
13622665 TCTTTATTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
19 4 0.16
20 12 0.48
21 6 0.24
23 3 0.12
ACGTcount: A:0.37, C:0.06, G:0.00, T:0.58
Consensus pattern (22 bp):
TTATATTTTTATACACATATAT
Found at i:13629448 original size:117 final size:117
Alignment explanation
Indices: 13629255--13629537 Score: 354
Period size: 117 Copynumber: 2.4 Consensus size: 117
13629245 CTTATTTCCC
* * * * * * *
13629255 TGGCATTGTAACAGAGCAGATTGAAGCCACAACAGCGAATCTTATCTCCTTGGCGTTAAGACATG
1 TGGCATTATAGCAGAGCAGATTGAAGCCACAACGGTGAATCTTATCTCCCTGACATTAAGACATG
* *
13629320 GATTAGCTGAAGTGGAG-TGAATTGAAGCTGTGGGCAGTGAATCCTATCTCTT
66 GATTAGCTGAAGTGGAGCAG-ATTGAAGCTATGGGCAGTGAATCCTATCTCTT
* * * * *
13629372 TGGCATTATAGCAGAGCAGATTGAAGCCACGATGGTGAATCGTATCTCCCTGACATTAAGGCTTG
1 TGGCATTATAGCAGAGCAGATTGAAGCCACAACGGTGAATCTTATCTCCCTGACATTAAGACATG
* *
13629437 GATTAGTTGAAGTGGAGCAGATTGAAGCTATGGGCAGTGAGTCCTATCTCTT
66 GATTAGCTGAAGTGGAGCAGATTGAAGCTATGGGCAGTGAATCCTATCTCTT
* ** * *
13629489 TGGCATTACAGTGGCGCAGATTGAAACCACAACGGTGAATCTTA-CTCCC
1 TGGCATTATAGCAGAGCAGATTGAAGCCACAACGGTGAATCTTATCTCCC
13629538 CTGGCGGTGT
Statistics
Matches: 141, Mismatches: 24, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
116 5 0.04
117 135 0.96
118 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.27
Consensus pattern (117 bp):
TGGCATTATAGCAGAGCAGATTGAAGCCACAACGGTGAATCTTATCTCCCTGACATTAAGACATG
GATTAGCTGAAGTGGAGCAGATTGAAGCTATGGGCAGTGAATCCTATCTCTT
Found at i:13629559 original size:50 final size:50
Alignment explanation
Indices: 13629506--13629863 Score: 195
Period size: 50 Copynumber: 7.2 Consensus size: 50
13629496 ACAGTGGCGC
* * *
13629506 AGATTGAAACCACAACGGTGAATCTTACTCCCCTGGCGGTGTAGTGGAAC
1 AGATTGAAGCCACAACGGCGAATCTTACTCCCCTGGCGGTGTAGTGGAAA
** * * * ** ** ** ** * **
13629556 AGATTGAAGGTACGATGGTGAATCTTGTTTCCCC-AACATTACAATTAAAA
1 AGATTGAAGCCACAACGGCGAATCTT-ACTCCCCTGGCGGTGTAGTGGAAA
* * *
13629606 AGATTGAAGCCGCAACGGCG-ATCTTACTCCCCTGGCGATGTAGTGGAAT
1 AGATTGAAGCCACAACGGCGAATCTTACTCCCCTGGCGGTGTAGTGGAAA
* * ** ** ** * * **
13629655 AGATTGAAGCTACGACGGCGAATCTTGTTTCCCC-AACATTGCAATTAAAA
1 AGATTGAAGCCACAACGGCGAATCTT-ACTCCCCTGGCGGTGTAGTGGAAA
*
13629705 AGATTGAAGCCACAACGGCGAA-CTTACTCCCCTGGCGGTGTAGTGGAAC
1 AGATTGAAGCCACAACGGCGAATCTTACTCCCCTGGCGGTGTAGTGGAAA
* * * * ***** * * **
13629754 AGATTGAAGCTACGACGGTGAATCTTATTTCCCC-AAAATTGCAATTAAAA
1 AGATTGAAGCCACAACGGCGAATCTTA-CTCCCCTGGCGGTGTAGTGGAAA
* *
13629804 AGATTGAAGCCGCAACGGCGAATCTTACTCCCCTGGCGGTGTAGTGGAAT
1 AGATTGAAGCCACAACGGCGAATCTTACTCCCCTGGCGGTGTAGTGGAAA
*
13629854 TGATTGAAGC
1 AGATTGAAGC
13629864 TACGACGGGA
Statistics
Matches: 208, Mismatches: 92, Indels: 16
0.66 0.29 0.05
Matches are distributed among these distances:
48 10 0.05
49 62 0.30
50 121 0.58
51 15 0.07
ACGTcount: A:0.30, C:0.22, G:0.24, T:0.24
Consensus pattern (50 bp):
AGATTGAAGCCACAACGGCGAATCTTACTCCCCTGGCGGTGTAGTGGAAA
Found at i:13629866 original size:199 final size:199
Alignment explanation
Indices: 13629506--13629929 Score: 717
Period size: 199 Copynumber: 2.1 Consensus size: 199
13629496 ACAGTGGCGC
* * *
13629506 AGATTGAAACCACAACGGTGAATCTTACTCCCCTGGCGGTGTAGTGGAACAGATTGAAGGTACGA
1 AGATTGAAGCCACAACGGCGAATCTTACTCCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACGA
* * *
13629571 TGGTGAATCTTGTTTCCCCAACATTACAATTAAAAAGATTGAAGCCGCAACGGCGATCTTACTCC
66 CGGTGAATCTTATTTCCCCAAAATTACAATTAAAAAGATTGAAGCCGCAACGGCGATCTTACTCC
*
13629636 CCTGGCGATGTAGTGGAATAGATTGAAGCTACGACGGCG-AATCTTGTTTCCCCAACATTGCAAT
131 CCTGGCGATGTAGTGGAATAGATTGAAGCTACGACGG-GAAATCTCGTTTCCCCAACATTGCAAT
13629700 TAAAA
195 TAAAA
13629705 AGATTGAAGCCACAACGGCGAA-CTTACTCCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACGA
1 AGATTGAAGCCACAACGGCGAATCTTACTCCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACGA
*
13629769 CGGTGAATCTTATTTCCCCAAAATTGCAATTAAAAAGATTGAAGCCGCAACGGCGAATCTTACTC
66 CGGTGAATCTTATTTCCCCAAAATTACAATTAAAAAGATTGAAGCCGCAACGGCG-ATCTTACTC
* *
13629834 CCCTGGCGGTGTAGTGGAATTGATTGAAGCTACGACGGGAAATCTCGTTTCCCCAACATTGCAAT
130 CCCTGGCGATGTAGTGGAATAGATTGAAGCTACGACGGGAAATCTCGTTTCCCCAACATTGCAAT
13629899 TAAAA
195 TAAAA
*
13629904 AGATTGAAGCCGCAACGGCGAATCTT
1 AGATTGAAGCCACAACGGCGAATCTT
13629930 GCAATTAAAA
Statistics
Matches: 211, Mismatches: 11, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
198 93 0.44
199 115 0.55
200 3 0.01
ACGTcount: A:0.31, C:0.22, G:0.23, T:0.24
Consensus pattern (199 bp):
AGATTGAAGCCACAACGGCGAATCTTACTCCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACGA
CGGTGAATCTTATTTCCCCAAAATTACAATTAAAAAGATTGAAGCCGCAACGGCGATCTTACTCC
CCTGGCGATGTAGTGGAATAGATTGAAGCTACGACGGGAAATCTCGTTTCCCCAACATTGCAATT
AAAA
Found at i:13629878 original size:100 final size:100
Alignment explanation
Indices: 13629506--13629929 Score: 683
Period size: 99 Copynumber: 4.3 Consensus size: 100
13629496 ACAGTGGCGC
* * * *
13629506 AGATTGAAACCACAACGGTGAATCTTACTCCCCTGGCGGTGTAGTGGAACAGATTGAAGGTACGA
1 AGATTGAAGCCGCAACGGCGAATCTTACTCCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACGA
* *
13629571 TGGTGAATCTTGTTTCCCCAACATTACAATTAAAA
66 CGGTGAATCTTGTTTCCCCAACATTGCAATTAAAA
* *
13629606 AGATTGAAGCCGCAACGGCG-ATCTTACTCCCCTGGCGATGTAGTGGAATAGATTGAAGCTACGA
1 AGATTGAAGCCGCAACGGCGAATCTTACTCCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACGA
*
13629670 CGGCGAATCTTGTTTCCCCAACATTGCAATTAAAA
66 CGGTGAATCTTGTTTCCCCAACATTGCAATTAAAA
*
13629705 AGATTGAAGCCACAACGGCGAA-CTTACTCCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACGA
1 AGATTGAAGCCGCAACGGCGAATCTTACTCCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACGA
* *
13629769 CGGTGAATCTTATTTCCCCAAAATTGCAATTAAAA
66 CGGTGAATCTTGTTTCCCCAACATTGCAATTAAAA
**
13629804 AGATTGAAGCCGCAACGGCGAATCTTACTCCCCTGGCGGTGTAGTGGAATTGATTGAAGCTACGA
1 AGATTGAAGCCGCAACGGCGAATCTTACTCCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACGA
*
13629869 CGG-GAAATCTCGTTTCCCCAACATTGCAATTAAAA
66 CGGTG-AATCTTGTTTCCCCAACATTGCAATTAAAA
13629904 AGATTGAAGCCGCAACGGCGAATCTT
1 AGATTGAAGCCGCAACGGCGAATCTT
13629930 GCAATTAAAA
Statistics
Matches: 300, Mismatches: 21, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
99 186 0.62
100 114 0.38
ACGTcount: A:0.31, C:0.22, G:0.23, T:0.24
Consensus pattern (100 bp):
AGATTGAAGCCGCAACGGCGAATCTTACTCCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACGA
CGGTGAATCTTGTTTCCCCAACATTGCAATTAAAA
Found at i:13629939 original size:36 final size:36
Alignment explanation
Indices: 13629892--13629965 Score: 148
Period size: 36 Copynumber: 2.1 Consensus size: 36
13629882 TTCCCCAACA
13629892 TTGCAATTAAAAAGATTGAAGCCGCAACGGCGAATC
1 TTGCAATTAAAAAGATTGAAGCCGCAACGGCGAATC
13629928 TTGCAATTAAAAAGATTGAAGCCGCAACGGCGAATC
1 TTGCAATTAAAAAGATTGAAGCCGCAACGGCGAATC
13629964 TT
1 TT
13629966 ACTCCCCTGG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.38, C:0.19, G:0.22, T:0.22
Consensus pattern (36 bp):
TTGCAATTAAAAAGATTGAAGCCGCAACGGCGAATC
Found at i:13630015 original size:50 final size:50
Alignment explanation
Indices: 13629940--13630099 Score: 142
Period size: 50 Copynumber: 3.2 Consensus size: 50
13629930 GCAATTAAAA
*
13629940 AGATTGAAGCCGCAACGGCGAATCTTACTCCCCTGGCAGTGTAGTGGAAC
1 AGATTGAAGCCACAACGGCGAATCTTACTCCCCTGGCAGTGTAGTGGAAC
* * ** * *** * * ** *
13629990 AGATTGAAGCTACGACGGCGAATCTTGTTTCTCC-AATATTGTAATTAAAA
1 AGATTGAAGCCACAACGGCGAATCTT-ACTCCCCTGGCAGTGTAGTGGAAC
* * * *
13630040 AGATTGAAGCCGCAACGGCGAATCTTACTTCCTTGGCAGTATAGTGGAAC
1 AGATTGAAGCCACAACGGCGAATCTTACTCCCCTGGCAGTGTAGTGGAAC
13630090 AGATTGAAGC
1 AGATTGAAGC
13630100 TATGACGGTG
Statistics
Matches: 77, Mismatches: 31, Indels: 4
0.69 0.28 0.04
Matches are distributed among these distances:
49 2 0.03
50 71 0.92
51 4 0.05
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.25
Consensus pattern (50 bp):
AGATTGAAGCCACAACGGCGAATCTTACTCCCCTGGCAGTGTAGTGGAAC
Found at i:13630036 original size:136 final size:136
Alignment explanation
Indices: 13629792--13630065 Score: 469
Period size: 136 Copynumber: 2.0 Consensus size: 136
13629782 TTCCCCAAAA
* **
13629792 TTGCAATTAAAAAGATTGAAGCCGCAACGGCGAATCTTACTCCCCTGGCGGTGTAGTGGAATTGA
1 TTGCAATTAAAAAGATTGAAGCCGCAACGGCGAATCTTACTCCCCTGGCAGTGTAGTGGAACAGA
13629857 TTGAAGCTACGACGGGAAATCTCGTTTCCCCAACATTGCAATTAAAAAGATTGAAGCCGCAACGG
66 TTGAAGCTACGACGGGAAATCTCGTTTCCCCAACATTGCAATTAAAAAGATTGAAGCCGCAACGG
13629922 CGAATC
131 CGAATC
13629928 TTGCAATTAAAAAGATTGAAGCCGCAACGGCGAATCTTACTCCCCTGGCAGTGTAGTGGAACAGA
1 TTGCAATTAAAAAGATTGAAGCCGCAACGGCGAATCTTACTCCCCTGGCAGTGTAGTGGAACAGA
* * * *
13629993 TTGAAGCTACGACGGCG-AATCTTGTTTCTCCAATATTGTAATTAAAAAGATTGAAGCCGCAACG
66 TTGAAGCTACGACGG-GAAATCTCGTTTCCCCAACATTGCAATTAAAAAGATTGAAGCCGCAACG
13630057 GCGAATC
130 GCGAATC
13630064 TT
1 TT
13630066 ACTTCCTTGG
Statistics
Matches: 130, Mismatches: 7, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
136 129 0.99
137 1 0.01
ACGTcount: A:0.32, C:0.21, G:0.23, T:0.24
Consensus pattern (136 bp):
TTGCAATTAAAAAGATTGAAGCCGCAACGGCGAATCTTACTCCCCTGGCAGTGTAGTGGAACAGA
TTGAAGCTACGACGGGAAATCTCGTTTCCCCAACATTGCAATTAAAAAGATTGAAGCCGCAACGG
CGAATC
Found at i:13630107 original size:100 final size:100
Alignment explanation
Indices: 13629932--13630120 Score: 333
Period size: 100 Copynumber: 1.9 Consensus size: 100
13629922 CGAATCTTGC
*
13629932 AATTAAAAAGATTGAAGCCGCAACGGCGAATCTTACTCCCCTGGCAGTGTAGTGGAACAGATTGA
1 AATTAAAAAGATTGAAGCCGCAACGGCGAATCTTACTCCCCTGGCAGTATAGTGGAACAGATTGA
13629997 AGCTACGACGGCGAATCTTGTTTCTCCAATATTGT
66 AGCTACGACGGCGAATCTTGTTTCTCCAATATTGT
* *
13630032 AATTAAAAAGATTGAAGCCGCAACGGCGAATCTTACTTCCTTGGCAGTATAGTGGAACAGATTGA
1 AATTAAAAAGATTGAAGCCGCAACGGCGAATCTTACTCCCCTGGCAGTATAGTGGAACAGATTGA
* *
13630097 AGCTATGACGGTGAATCTTGTTTC
66 AGCTACGACGGCGAATCTTGTTTC
13630121 CCGACATATC
Statistics
Matches: 84, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
100 84 1.00
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (100 bp):
AATTAAAAAGATTGAAGCCGCAACGGCGAATCTTACTCCCCTGGCAGTATAGTGGAACAGATTGA
AGCTACGACGGCGAATCTTGTTTCTCCAATATTGT
Found at i:13630122 original size:236 final size:235
Alignment explanation
Indices: 13629693--13630122 Score: 700
Period size: 236 Copynumber: 1.8 Consensus size: 235
13629683 TTCCCCAACA
*
13629693 TTGCAATTAAAAAGATTGAAGCCACAACGGCGAACTTACTCCCCTGGCGGTGTAGTGGAACAGAT
1 TTGCAATTAAAAAGATTGAAGCCACAACGGCGAACTTACTCCCCTGGCAGTGTAGTGGAACAGAT
*
13629758 TGAAGCTACGACGGTGAATCTTATTTCCCCAAAATTGCAATTAAAAAGATTGAAGCCGCAACGGC
66 TGAAGCTACGACGGCGAATCTTATTTCCCCAAAATTGCAATTAAAAAGATTGAAGCCGCAACGGC
* * **
13629823 GAATCTTACTCCCCTGGCGGTGTAGTGGAATTGATTGAAGCTACGACGGGAAATCTCGTTTCCCC
131 GAATCTTACTCCCCTGGCAGTATAGTGGAACAGATTGAAGCTACGACGGGAAATCTCGTTTCCCC
13629888 AACATTGCAATTAAAAAGATTGAAGCCGCAACGGCGAATC
196 AACATTGCAATTAAAAAGATTGAAGCCGCAACGGCGAATC
*
13629928 TTGCAATTAAAAAGATTGAAGCCGCAACGGCGAATCTTACTCCCCTGGCAGTGTAGTGGAACAGA
1 TTGCAATTAAAAAGATTGAAGCCACAACGGCGAA-CTTACTCCCCTGGCAGTGTAGTGGAACAGA
* * * *
13629993 TTGAAGCTACGACGGCGAATCTTGTTTCTCCAATATTGTAATTAAAAAGATTGAAGCCGCAACGG
65 TTGAAGCTACGACGGCGAATCTTATTTCCCCAAAATTGCAATTAAAAAGATTGAAGCCGCAACGG
* * * *
13630058 CGAATCTTACTTCCTTGGCAGTATAGTGGAACAGATTGAAGCTATGACGGTG-AATCTTGTTTCC
130 CGAATCTTACTCCCCTGGCAGTATAGTGGAACAGATTGAAGCTACGACGG-GAAATCTCGTTTCC
13630122 C
194 C
13630123 GACATATCAG
Statistics
Matches: 178, Mismatches: 15, Indels: 3
0.91 0.08 0.02
Matches are distributed among these distances:
235 33 0.19
236 144 0.81
237 1 0.01
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.25
Consensus pattern (235 bp):
TTGCAATTAAAAAGATTGAAGCCACAACGGCGAACTTACTCCCCTGGCAGTGTAGTGGAACAGAT
TGAAGCTACGACGGCGAATCTTATTTCCCCAAAATTGCAATTAAAAAGATTGAAGCCGCAACGGC
GAATCTTACTCCCCTGGCAGTATAGTGGAACAGATTGAAGCTACGACGGGAAATCTCGTTTCCCC
AACATTGCAATTAAAAAGATTGAAGCCGCAACGGCGAATC
Found at i:13630450 original size:45 final size:45
Alignment explanation
Indices: 13630327--13630450 Score: 151
Period size: 45 Copynumber: 2.8 Consensus size: 45
13630317 GTCATATCAG
* * **
13630327 GTCTTATCACCCTGAAGTTGCAGAGGAGCTA-ACCCAAGAAAGTGA
1 GTCTTATCACCCTGAAATTGCAGAGGAGC-AGACTCAAGAAAGCAA
* *
13630372 GTCTTATCTCCCTGAAATTGCAGTGGAGCAGACTCAAGAAAGCAA
1 GTCTTATCACCCTGAAATTGCAGAGGAGCAGACTCAAGAAAGCAA
* * *
13630417 GTCTTATCCCCCTGAAATTGCAGCGGGGCAGACT
1 GTCTTATCACCCTGAAATTGCAGAGGAGCAGACT
13630451 GAATAAGCAA
Statistics
Matches: 69, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 1 0.01
45 68 0.99
ACGTcount: A:0.30, C:0.24, G:0.24, T:0.22
Consensus pattern (45 bp):
GTCTTATCACCCTGAAATTGCAGAGGAGCAGACTCAAGAAAGCAA
Found at i:13664925 original size:34 final size:34
Alignment explanation
Indices: 13664850--13664927 Score: 93
Period size: 34 Copynumber: 2.3 Consensus size: 34
13664840 GAACAAAACC
* *
13664850 AAATGATGCAAAATGAAACCAGATACGATGTCTA
1 AAATGATGCAAAACGAAACCAAATACGATGTCTA
* * * * *
13664884 CAGTGATGCAATACGAAACCAAATATGATGTTTA
1 AAATGATGCAAAACGAAACCAAATACGATGTCTA
13664918 AAATGATGCA
1 AAATGATGCA
13664928 TGACATGAGT
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.45, C:0.14, G:0.18, T:0.23
Consensus pattern (34 bp):
AAATGATGCAAAACGAAACCAAATACGATGTCTA
Found at i:13665835 original size:42 final size:42
Alignment explanation
Indices: 13665776--13665862 Score: 174
Period size: 42 Copynumber: 2.1 Consensus size: 42
13665766 TTGTAGCATC
13665776 AGCAATACATAAGAGGCATAGTTGAAATGATATTCTGACAAT
1 AGCAATACATAAGAGGCATAGTTGAAATGATATTCTGACAAT
13665818 AGCAATACATAAGAGGCATAGTTGAAATGATATTCTGACAAT
1 AGCAATACATAAGAGGCATAGTTGAAATGATATTCTGACAAT
13665860 AGC
1 AGC
13665863 CTAACCTTGC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.43, C:0.13, G:0.20, T:0.25
Consensus pattern (42 bp):
AGCAATACATAAGAGGCATAGTTGAAATGATATTCTGACAAT
Found at i:13668376 original size:19 final size:19
Alignment explanation
Indices: 13668354--13668418 Score: 58
Period size: 19 Copynumber: 3.2 Consensus size: 19
13668344 GCATCTCGCG
13668354 CTGACGTGGACGCGATTTC
1 CTGACGTGGACGCGATTTC
* * * *
13668373 CTGACGCGTACCCTGATATCGC
1 CTGACGTGGACGC-GAT-T-TC
13668395 GCTGACGTGGACGCGATTTC
1 -CTGACGTGGACGCGATTTC
13668415 CTGA
1 CTGA
13668419 AAAAGGGACC
Statistics
Matches: 34, Mismatches: 8, Indels: 8
0.68 0.16 0.16
Matches are distributed among these distances:
19 14 0.41
20 4 0.12
21 2 0.06
22 4 0.12
23 10 0.29
ACGTcount: A:0.17, C:0.29, G:0.29, T:0.25
Consensus pattern (19 bp):
CTGACGTGGACGCGATTTC
Found at i:13669575 original size:22 final size:22
Alignment explanation
Indices: 13669550--13669631 Score: 64
Period size: 22 Copynumber: 3.8 Consensus size: 22
13669540 ATAAGTACTT
*
13669550 TTTAATAATTTTTTTTTTTTAA
1 TTTAATAATTTTATTTTTTTAA
* * *
13669572 TTT-ATAA--TAATTATGTTAA
1 TTTAATAATTTTATTTTTTTAA
*
13669591 TTTAATCATTTTCA-TTTTTTAA
1 TTTAATAATTTT-ATTTTTTTAA
*
13669613 TTTAATCATTTTCATTTTT
1 TTTAATAATTTT-ATTTTT
13669632 CTAAGCATTA
Statistics
Matches: 47, Mismatches: 8, Indels: 9
0.73 0.12 0.14
Matches are distributed among these distances:
19 11 0.23
20 3 0.06
21 4 0.09
22 24 0.51
23 5 0.11
ACGTcount: A:0.29, C:0.05, G:0.01, T:0.65
Consensus pattern (22 bp):
TTTAATAATTTTATTTTTTTAA
Found at i:13670383 original size:20 final size:20
Alignment explanation
Indices: 13670358--13670404 Score: 94
Period size: 20 Copynumber: 2.4 Consensus size: 20
13670348 TAGTAGAGAG
13670358 AAATCATGATACGTGTCAAC
1 AAATCATGATACGTGTCAAC
13670378 AAATCATGATACGTGTCAAC
1 AAATCATGATACGTGTCAAC
13670398 AAATCAT
1 AAATCAT
13670405 TGACAAAGGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.43, C:0.19, G:0.13, T:0.26
Consensus pattern (20 bp):
AAATCATGATACGTGTCAAC
Found at i:13671946 original size:23 final size:24
Alignment explanation
Indices: 13671894--13671946 Score: 56
Period size: 23 Copynumber: 2.2 Consensus size: 24
13671884 GTCTATAAAT
* *
13671894 ATCAATTAGAAGAAGATCTAAGGA
1 ATCACTTAGAAGAAGATCTAAGAA
*
13671918 AGCACTTAG-AGAAGAT-TGAAGAA
1 ATCACTTAGAAGAAGATCT-AAGAA
13671941 ATCACT
1 ATCACT
13671947 CGAAGAACAC
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
22 1 0.04
23 16 0.67
24 7 0.29
ACGTcount: A:0.47, C:0.11, G:0.21, T:0.21
Consensus pattern (24 bp):
ATCACTTAGAAGAAGATCTAAGAA
Found at i:13689859 original size:19 final size:18
Alignment explanation
Indices: 13689823--13689862 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
13689813 TTTCCACTCA
*
13689823 TTTCTTTTTCAACTTCTC
1 TTTCTTTTTCAACATCTC
*
13689841 TTTCTTTTTCCACAATCTC
1 TTTCTTTTTCAAC-ATCTC
13689860 TTT
1 TTT
13689863 GTTTGTTGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.12, C:0.28, G:0.00, T:0.60
Consensus pattern (18 bp):
TTTCTTTTTCAACATCTC
Found at i:13690946 original size:14 final size:14
Alignment explanation
Indices: 13690927--13690963 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
13690917 CTTCTTCTTC
13690927 TTTTTTTCACGAAA
1 TTTTTTTCACGAAA
*
13690941 TTTTTTTCACGAAT
1 TTTTTTTCACGAAA
13690955 TTTTTTTCA
1 TTTTTTTCA
13690964 ACTTGATATC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.22, C:0.14, G:0.05, T:0.59
Consensus pattern (14 bp):
TTTTTTTCACGAAA
Found at i:13691021 original size:11 final size:12
Alignment explanation
Indices: 13691004--13691058 Score: 58
Period size: 12 Copynumber: 4.6 Consensus size: 12
13690994 GAAACTAAAT
*
13691004 TTTTTTTTTGAA
1 TTTTTTTTAGAA
* *
13691016 TTTTTTTTCGATT
1 TTTTTTTTAGA-A
*
13691029 TTTTTTTTAAAA
1 TTTTTTTTAGAA
13691041 TTTTTTTT-GAA
1 TTTTTTTTAGAA
13691052 TTTTTTT
1 TTTTTTT
13691059 CGAAGATGCT
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
11 9 0.25
12 18 0.50
13 9 0.25
ACGTcount: A:0.16, C:0.02, G:0.05, T:0.76
Consensus pattern (12 bp):
TTTTTTTTAGAA
Found at i:13691029 original size:24 final size:24
Alignment explanation
Indices: 13691002--13691058 Score: 80
Period size: 24 Copynumber: 2.4 Consensus size: 24
13690992 TGGAAACTAA
*
13691002 ATTTTTTTTTT-GAATTTTTTTTCG
1 ATTTTTTTTTTAAAATTTTTTTT-G
13691026 ATTTTTTTTTTAAAATTTTTTTTG
1 ATTTTTTTTTTAAAATTTTTTTTG
*
13691050 AATTTTTTT
1 ATTTTTTTT
13691059 CGAAGATGCT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
24 20 0.67
25 10 0.33
ACGTcount: A:0.18, C:0.02, G:0.05, T:0.75
Consensus pattern (24 bp):
ATTTTTTTTTTAAAATTTTTTTTG
Found at i:13701190 original size:3 final size:3
Alignment explanation
Indices: 13701184--13701220 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
13701174 CAAATCATCA
*
13701184 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCA TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
13701221 GCATGTTTGG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.03, C:0.32, G:0.00, T:0.65
Consensus pattern (3 bp):
TCT
Found at i:13702415 original size:29 final size:29
Alignment explanation
Indices: 13702354--13702416 Score: 74
Period size: 28 Copynumber: 2.1 Consensus size: 29
13702344 TATACATATC
* *
13702354 TTTTTAGTTTATGCATCAATTATTTCGGTA
1 TTTTTAG-TTATGCATCAATCATTTCGCTA
*
13702384 TTTTTAG-TATGCATCCATCATTTCGTCTA
1 TTTTTAGTTATGCATCAATCATTTCG-CTA
13702413 TTTT
1 TTTT
13702417 GATATATTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
28 16 0.55
29 6 0.21
30 7 0.24
ACGTcount: A:0.21, C:0.14, G:0.11, T:0.54
Consensus pattern (29 bp):
TTTTTAGTTATGCATCAATCATTTCGCTA
Found at i:13704499 original size:4 final size:4
Alignment explanation
Indices: 13704490--13704542 Score: 97
Period size: 4 Copynumber: 13.2 Consensus size: 4
13704480 AAGATGAAGG
*
13704490 TTTA TTTA TTTA TATA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
13704538 TTTA T
1 TTTA T
13704543 AATCAATGAA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
4 47 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:13706601 original size:22 final size:23
Alignment explanation
Indices: 13706576--13706635 Score: 63
Period size: 22 Copynumber: 2.7 Consensus size: 23
13706566 TGGACTGAAT
13706576 ATAAAAATTTAAACTAAAT-AAA
1 ATAAAAATTTAAACTAAATAAAA
*
13706598 ATAAATAA-ATAAA-TAAATAAAA
1 ATAAA-AATTTAAACTAAATAAAA
*
13706620 ATAAAACTTTACAACT
1 ATAAAAATTTA-AACT
13706636 TGGGCCACTT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
21 6 0.20
22 19 0.63
23 4 0.13
24 1 0.03
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.27
Consensus pattern (23 bp):
ATAAAAATTTAAACTAAATAAAA
Found at i:13706603 original size:4 final size:4
Alignment explanation
Indices: 13706585--13706618 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
13706575 TATAAAAATT
13706585 TAAA CTAAA TAAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA -TAAA T-AAA TAAA TAAA TAAA TAAA TAAA
13706619 AATAAAACTT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 20 0.71
5 8 0.29
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (4 bp):
TAAA
Found at i:13708023 original size:23 final size:22
Alignment explanation
Indices: 13707971--13708023 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
13707961 TCCACGTCTT
*
13707971 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
13707993 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
13708016 TTTCTTTT
1 TTTCTTTT
13708024 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:13732423 original size:25 final size:25
Alignment explanation
Indices: 13732281--13732442 Score: 77
Period size: 25 Copynumber: 6.6 Consensus size: 25
13732271 AGCGAGCATG
* **
13732281 TAATCGGGAAGCTCTTTCGAGCCAT
1 TAATCGGGAAGCTCGTAAGAGCCAT
*
13732306 ATAATC-GGAAGCTCATGT-A-AGCCACG
1 -TAATCGGGAAGCTC--GTAAGAGCCA-T
* * *
13732332 TAAT-AGGAAGCTCATAAGAG-CAA
1 TAATCGGGAAGCTCGTAAGAGCCAT
* * ** *
13732355 TAATCGGGAAGTTCATGCGAGCCAA
1 TAATCGGGAAGCTCGTAAGAGCCAT
* *
13732380 T-ATCAGGTAGCTTCG-AAGAGCCAT
1 TAATCGGGAAGC-TCGTAAGAGCCAT
13732404 TAATCGGGAAGCTCGTAAGAGCCAT
1 TAATCGGGAAGCTCGTAAGAGCCAT
* * *
13732429 AAATTGGGATGCTC
1 TAATCGGGAAGCTC
13732443 ATAATAGCTA
Statistics
Matches: 104, Mismatches: 21, Indels: 23
0.70 0.14 0.16
Matches are distributed among these distances:
23 5 0.05
24 32 0.31
25 61 0.59
26 5 0.05
27 1 0.01
ACGTcount: A:0.33, C:0.20, G:0.25, T:0.22
Consensus pattern (25 bp):
TAATCGGGAAGCTCGTAAGAGCCAT
Found at i:13732529 original size:24 final size:24
Alignment explanation
Indices: 13732478--13732529 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
13732468 GTGAGAGTCA
*
13732478 AATATCAGGAAGCTCAAGAGTGCC
1 AATATCAGGAAGCTCAAGAGAGCC
* * *
13732502 AATATCAGGATGCTCACGAGAGCT
1 AATATCAGGAAGCTCAAGAGAGCC
13732526 AATA
1 AATA
13732530 ACTGGACGCT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.19, G:0.23, T:0.19
Consensus pattern (24 bp):
AATATCAGGAAGCTCAAGAGAGCC
Found at i:13739998 original size:25 final size:24
Alignment explanation
Indices: 13739871--13740034 Score: 107
Period size: 25 Copynumber: 6.7 Consensus size: 24
13739861 GTCATAATCG
* **
13739871 GGAAGCTCATGCGAGCCAATATTG
1 GGAAGCTCATGAGAGCCAATATCA
* * *
13739895 GGTAGCTC-TGAAGAGCCATTAATCG
1 GGAAGCTCATG-AGAGCCAAT-ATCA
* * *
13739920 GGAAGCTCGTAAGAGCCATATGTC-
1 GGAAGCTCATGAGAGCCA-ATATCA
* * * * *
13739944 GAGATGCTCATAAGAGCTAAATAACG
1 G-GAAGCTCATGAGAGC-CAATATCA
*
13739970 GGAAGCTCATGAGAGCCAAATATTA
1 GGAAGCTCATGAGAGCC-AATATCA
*
13739995 GGAAGCTCAAGAGAGCCAATATCA
1 GGAAGCTCATGAGAGCCAATATCA
*
13740019 GGATGCTCATGAGAGC
1 GGAAGCTCATGAGAGC
13740035 TACTAACAGG
Statistics
Matches: 109, Mismatches: 23, Indels: 16
0.74 0.16 0.11
Matches are distributed among these distances:
23 2 0.02
24 35 0.32
25 68 0.62
26 4 0.04
ACGTcount: A:0.34, C:0.19, G:0.27, T:0.20
Consensus pattern (24 bp):
GGAAGCTCATGAGAGCCAATATCA
Found at i:13740003 original size:50 final size:49
Alignment explanation
Indices: 13739849--13740034 Score: 159
Period size: 49 Copynumber: 3.8 Consensus size: 49
13739839 ATGTAACGGA
* * * *
13739849 AAGCTCATAGGAGTC-ATAATCGGGAAGCTCATGCGAGCCAATATTGGG
1 AAGCTCATAAGAGCCAATAATCGGGAAGCTCATGAGAGCCAATATTAGG
* * * * *
13739897 TAGCTC-TGAAGAGCCATTAATCGGGAAGCTCGTAAGAGCC-ATATGTCGAG
1 AAGCTCAT-AAGAGCCAATAATCGGGAAGCTCATGAGAGCCAATAT-TAG-G
* *
13739947 ATGCTCATAAGAGCTAAATAA-CGGGAAGCTCATGAGAGCCAAATATTAGG
1 AAGCTCATAAGAGC-CAATAATCGGGAAGCTCATGAGAGCC-AATATTAGG
* *
13739997 AAGCTCA-AGAGAGCCAAT-ATCAGGATGCTCATGAGAGC
1 AAGCTCATA-AGAGCCAATAATCGGGAAGCTCATGAGAGC
13740035 TACTAACAGG
Statistics
Matches: 109, Mismatches: 19, Indels: 19
0.74 0.13 0.13
Matches are distributed among these distances:
47 1 0.01
48 15 0.14
49 42 0.39
50 40 0.37
51 7 0.06
52 4 0.04
ACGTcount: A:0.34, C:0.19, G:0.27, T:0.20
Consensus pattern (49 bp):
AAGCTCATAAGAGCCAATAATCGGGAAGCTCATGAGAGCCAATATTAGG
Done.