Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 44 of 356
Found at i:14382943 original size:5 final size:5
Alignment explanation
Indices: 14382935--14382965 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
14382925 TTACTATGAC
14382935 TATTT TATTT TATTT TATTT TATTT TATTT T
1 TATTT TATTT TATTT TATTT TATTT TATTT T
14382966 TATGAGTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TATTT
Found at i:14383088 original size:48 final size:48
Alignment explanation
Indices: 14383032--14383128 Score: 185
Period size: 48 Copynumber: 2.0 Consensus size: 48
14383022 AGATAAAGAC
*
14383032 TATGTTTTTCAAATGATTAAATTAGCAAATTCATGATTTTGATTTGAA
1 TATGTTTTTCAAATGATTAAATTAGCAAATTCATGATTATGATTTGAA
14383080 TATGTTTTTCAAATGATTAAATTAGCAAATTCATGATTATGATTTGAA
1 TATGTTTTTCAAATGATTAAATTAGCAAATTCATGATTATGATTTGAA
14383128 T
1 T
14383129 TTGAGTATTA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.36, C:0.06, G:0.12, T:0.45
Consensus pattern (48 bp):
TATGTTTTTCAAATGATTAAATTAGCAAATTCATGATTATGATTTGAA
Found at i:14394210 original size:132 final size:132
Alignment explanation
Indices: 14393968--14394234 Score: 365
Period size: 132 Copynumber: 2.0 Consensus size: 132
14393958 TTGCCTCGCC
* * * *
14393968 TTAGAAAACACGAGTGAAATTTCAAAGGAATATTTGATTATTTTGAACAAACGGGAAATTGCAAC
1 TTAGAAAACACGAGTGAAATTTAAAAGGAACATTCGATTATTTTGAACAAACGAGAAATTGCAAC
* * *
14394033 CCAGCACGATAGGGTACGACTCCCCGAATTGCCAAACATCAAACATTTCCTTCGTTTTAAAGAGT
66 CCAGCACGATAGGGCACGACTCCCCGAATTGCCAAACATCAAACATTGCCTTCGTTTTAAAGAAT
14394098 TT
131 TT
* * *
14394100 TTAGAAAACATGAGTGAAATTCTAAAAGG-ACATTCGATTATTTTGAGCAAACGAGAGATTGCAA
1 TTAGAAAACACGAGTGAAATT-TAAAAGGAACATTCGATTATTTTGAACAAACGAGAAATTGCAA
* * *** * *
14394164 CCTAGCACGATAGGGCACGATTTTGCGAATTGCCAAATATCGAACATTGCCTTCGTTTTAAAGAA
65 CCCAGCACGATAGGGCACGACTCCCCGAATTGCCAAACATCAAACATTGCCTTCGTTTTAAAGAA
14394229 TTT
130 TTT
14394232 TTA
1 TTA
14394235 AATGAATAAT
Statistics
Matches: 117, Mismatches: 17, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
132 111 0.95
133 6 0.05
ACGTcount: A:0.36, C:0.17, G:0.18, T:0.28
Consensus pattern (132 bp):
TTAGAAAACACGAGTGAAATTTAAAAGGAACATTCGATTATTTTGAACAAACGAGAAATTGCAAC
CCAGCACGATAGGGCACGACTCCCCGAATTGCCAAACATCAAACATTGCCTTCGTTTTAAAGAAT
TT
Found at i:14404147 original size:17 final size:17
Alignment explanation
Indices: 14404125--14404157 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
14404115 TTATAAAATG
14404125 ATATCAAATCAAAGTTC
1 ATATCAAATCAAAGTTC
*
14404142 ATATCAGATCAAAGTT
1 ATATCAAATCAAAGTT
14404158 TACATGTAAA
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:0.45, C:0.15, G:0.09, T:0.30
Consensus pattern (17 bp):
ATATCAAATCAAAGTTC
Found at i:14405668 original size:148 final size:148
Alignment explanation
Indices: 14405476--14405765 Score: 463
Period size: 148 Copynumber: 2.0 Consensus size: 148
14405466 GTATTCTTTT
* * *
14405476 AATTGGCCAGGACTATGGATAATGTGATAGAAAGAGTCCATAAAATAATTTCTCATGGTAAACAC
1 AATTGGCCAGGACCATGAATAATGTGATAGAAAGAGTCCATAAAATAATTTCTCATAGTAAACAC
* *
14405541 ATTAATTTATAACTATACTTCCAAAAAAGACTAGTGAGACTTAAAATGGCAGTTTTAAAACATTT
66 ATTAATTTACAACTATACTTCCAAAAAAGACTAGTGAGACTTAAAATGGCAGTTTTAAAACATTC
*
14405606 GAAATGTAACTTTCATGA
131 GAAATATAACTTTCATGA
* * * * *
14405624 AATTGGGCAGGACCATGAATGATGTGGTGGAAATAGTCCATAAAATAATTTCTCATAGTAAACAC
1 AATTGGCCAGGACCATGAATAATGTGATAGAAAGAGTCCATAAAATAATTTCTCATAGTAAACAC
* *
14405689 ATTAATTTACAACTATACTTCTAAAAAAGACTGGTGAGACTTAAAATGGCAGTTTTAAAACATTC
66 ATTAATTTACAACTATACTTCCAAAAAAGACTAGTGAGACTTAAAATGGCAGTTTTAAAACATTC
14405754 GAAATATAACTT
131 GAAATATAACTT
14405766 CCATTAAAGT
Statistics
Matches: 129, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
148 129 1.00
ACGTcount: A:0.41, C:0.13, G:0.16, T:0.30
Consensus pattern (148 bp):
AATTGGCCAGGACCATGAATAATGTGATAGAAAGAGTCCATAAAATAATTTCTCATAGTAAACAC
ATTAATTTACAACTATACTTCCAAAAAAGACTAGTGAGACTTAAAATGGCAGTTTTAAAACATTC
GAAATATAACTTTCATGA
Found at i:14407085 original size:6 final size:6
Alignment explanation
Indices: 14407074--14407139 Score: 53
Period size: 6 Copynumber: 10.7 Consensus size: 6
14407064 ATAAGTCTAA
* * * *
14407074 AAAAAT AAAAAT AAAACAACT AAGAAT AAAAAT AAACAT AAACAT AAACAT
1 AAAAAT AAAAAT -AAA-AA-T AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
*
14407125 -AAAAT AAAAAG AAAA
1 AAAAAT AAAAAT AAAA
14407140 CAAATAAAAT
Statistics
Matches: 51, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
5 4 0.08
6 37 0.73
7 5 0.10
8 4 0.08
9 1 0.02
ACGTcount: A:0.76, C:0.08, G:0.03, T:0.14
Consensus pattern (6 bp):
AAAAAT
Found at i:14409225 original size:19 final size:17
Alignment explanation
Indices: 14409179--14409217 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 17
14409169 AAATTACATC
*
14409179 AAATCAAAATTCATGTT
1 AAATCAAAATTCAAGTT
14409196 AAATCAAAATTCAAGTGT
1 AAATCAAAATTCAAGT-T
14409214 AAAT
1 AAAT
14409218 TTAAAATTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 15 0.75
18 5 0.25
ACGTcount: A:0.51, C:0.10, G:0.08, T:0.31
Consensus pattern (17 bp):
AAATCAAAATTCAAGTT
Found at i:14410664 original size:2 final size:2
Alignment explanation
Indices: 14410657--14410694 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
14410647 GCCATCTGTT
14410657 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
14410695 ATATCAATAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:14417359 original size:4 final size:4
Alignment explanation
Indices: 14417343--14417393 Score: 72
Period size: 4 Copynumber: 13.5 Consensus size: 4
14417333 TAATTACTTT
*
14417343 TTTA TTT- TTTA TTTA -TT- TTTG TTTA TTTA TTTA TTTA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
14417388 TTTA TT
1 TTTA TT
14417394 ATTATTATTT
Statistics
Matches: 43, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
3 7 0.16
4 36 0.84
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:14417379 original size:12 final size:11
Alignment explanation
Indices: 14417343--14417403 Score: 70
Period size: 12 Copynumber: 5.3 Consensus size: 11
14417333 TAATTACTTT
14417343 TTTATTTTTTA
1 TTTATTTTTTA
*
14417354 TTTA-TTTTTG
1 TTTATTTTTTA
14417364 TTTATTTATTTA
1 TTTATTT-TTTA
14417376 TTTATTTATTTA
1 TTTATTT-TTTA
14417388 TTTATTATTATTA
1 TTTATT-TT-TTA
14417401 TTT
1 TTT
14417404 TAAAAAAACT
Statistics
Matches: 44, Mismatches: 2, Indels: 6
0.85 0.04 0.12
Matches are distributed among these distances:
10 9 0.20
11 6 0.14
12 22 0.50
13 7 0.16
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.77
Consensus pattern (11 bp):
TTTATTTTTTA
Found at i:14418141 original size:19 final size:19
Alignment explanation
Indices: 14418119--14418220 Score: 86
Period size: 19 Copynumber: 5.3 Consensus size: 19
14418109 GCACATAAGT
*
14418119 GCTAAAGGGAAGCCCGAAG
1 GCTAAACGGAAGCCCGAAG
*
14418138 GCT-AACTGAAGCACAC-AAG
1 GCTAAACGGAAGC-C-CGAAG
*
14418157 TGCTAAAGGGAAGCCCGAAG
1 -GCTAAACGGAAGCCCGAAG
*
14418177 GCT-AACTGAAGCACAC-AAG
1 GCTAAACGGAAGC-C-CGAAG
14418196 TGCTAAACGGAAGCCCGAAG
1 -GCTAAACGGAAGCCCGAAG
14418216 GCTAA
1 GCTAA
14418221 CTGAAGCTCA
Statistics
Matches: 66, Mismatches: 7, Indels: 20
0.71 0.08 0.22
Matches are distributed among these distances:
18 14 0.21
19 21 0.32
20 16 0.24
21 15 0.23
ACGTcount: A:0.38, C:0.24, G:0.28, T:0.10
Consensus pattern (19 bp):
GCTAAACGGAAGCCCGAAG
Found at i:14418161 original size:39 final size:39
Alignment explanation
Indices: 14418089--14418227 Score: 244
Period size: 39 Copynumber: 3.6 Consensus size: 39
14418079 ATTTTAATCT
* *
14418089 GAAGCCCGAAGTCTAACT-AAGCACATAAGTGCTAAAGG
1 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAAGG
14418127 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAAGG
1 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAAGG
*
14418166 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAAGG
14418205 GAAGCCCGAAGGCTAACTGAAGC
1 GAAGCCCGAAGGCTAACTGAAGC
14418228 TCATCAGAGC
Statistics
Matches: 97, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
38 17 0.18
39 80 0.82
ACGTcount: A:0.38, C:0.24, G:0.27, T:0.12
Consensus pattern (39 bp):
GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAAGG
Found at i:14420588 original size:3 final size:3
Alignment explanation
Indices: 14420580--14420612 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
14420570 ATGTTGCAAA
14420580 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
14420613 GCGCTGTAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
CAT
Found at i:14423689 original size:25 final size:25
Alignment explanation
Indices: 14423655--14423710 Score: 78
Period size: 25 Copynumber: 2.2 Consensus size: 25
14423645 GGGTTTCACA
* *
14423655 AGCTTCTCGACTAA-TGGCTCTCTTG
1 AGCTTCTCGA-TAATTGGCTCGCATG
14423680 AGCTTCTCGATAATTGGCTCGCATG
1 AGCTTCTCGATAATTGGCTCGCATG
14423705 AGCTTC
1 AGCTTC
14423711 CTGATTTATG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
24 3 0.11
25 25 0.89
ACGTcount: A:0.18, C:0.27, G:0.21, T:0.34
Consensus pattern (25 bp):
AGCTTCTCGATAATTGGCTCGCATG
Found at i:14425942 original size:5 final size:5
Alignment explanation
Indices: 14425932--14425962 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
14425922 TTATCATACC
14425932 TATTT TATTT TATTT TATTT TATTT TATTT T
1 TATTT TATTT TATTT TATTT TATTT TATTT T
14425963 TAGTTTTCCC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TATTT
Found at i:14426646 original size:31 final size:31
Alignment explanation
Indices: 14426611--14426679 Score: 104
Period size: 31 Copynumber: 2.2 Consensus size: 31
14426601 GGGCGTGTGG
14426611 GCCACA-CGGACGTGTGGACCCACACAAGCAT
1 GCCACATCGGA-GTGTGGACCCACACAAGCAT
* *
14426642 GCCACATGGGAGTGTGGACCCACACAGGCAT
1 GCCACATCGGAGTGTGGACCCACACAAGCAT
14426673 GCCACAT
1 GCCACAT
14426680 GGGCGTGCGG
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
31 32 0.91
32 3 0.09
ACGTcount: A:0.28, C:0.33, G:0.28, T:0.12
Consensus pattern (31 bp):
GCCACATCGGAGTGTGGACCCACACAAGCAT
Found at i:14426680 original size:31 final size:31
Alignment explanation
Indices: 14426622--14426682 Score: 113
Period size: 31 Copynumber: 2.0 Consensus size: 31
14426612 CCACACGGAC
14426622 GTGTGGACCCACACAAGCATGCCACATGGGA
1 GTGTGGACCCACACAAGCATGCCACATGGGA
*
14426653 GTGTGGACCCACACAGGCATGCCACATGGG
1 GTGTGGACCCACACAAGCATGCCACATGGG
14426683 CGTGCGGGTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.26, C:0.30, G:0.31, T:0.13
Consensus pattern (31 bp):
GTGTGGACCCACACAAGCATGCCACATGGGA
Found at i:14430238 original size:9 final size:9
Alignment explanation
Indices: 14430224--14430260 Score: 58
Period size: 9 Copynumber: 4.1 Consensus size: 9
14430214 TATAGTTTGA
14430224 TATTCGAAT
1 TATTCGAAT
14430233 TATTCGAAT
1 TATTCGAAT
14430242 TATTC-AAGT
1 TATTCGAA-T
14430251 TATTCGAAT
1 TATTCGAAT
14430260 T
1 T
14430261 GGAGAACTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
8 2 0.08
9 22 0.85
10 2 0.08
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:14430334 original size:18 final size:18
Alignment explanation
Indices: 14430311--14430345 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
14430301 ATTCTAGTTG
14430311 ACTCAAATAACTCGATTA
1 ACTCAAATAACTCGATTA
*
14430329 ACTCAAATAACTTGATT
1 ACTCAAATAACTCGATT
14430346 CGTTTAACTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.43, C:0.20, G:0.06, T:0.31
Consensus pattern (18 bp):
ACTCAAATAACTCGATTA
Found at i:14430698 original size:20 final size:18
Alignment explanation
Indices: 14430673--14430716 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 18
14430663 CGGGCTGAGG
14430673 ACACGGGCGTGTCCAGATCC
1 ACACGGGCGTGT-CAGA-CC
* *
14430693 ACACGGGTGTGTGAGACC
1 ACACGGGCGTGTCAGACC
14430711 ACACGG
1 ACACGG
14430717 CCTACCCACA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 8 0.36
19 3 0.14
20 11 0.50
ACGTcount: A:0.23, C:0.30, G:0.34, T:0.14
Consensus pattern (18 bp):
ACACGGGCGTGTCAGACC
Found at i:14431037 original size:21 final size:22
Alignment explanation
Indices: 14430977--14431037 Score: 56
Period size: 21 Copynumber: 2.8 Consensus size: 22
14430967 GGTGTTACAG
* *
14430977 TTTAGGGTTTAGATATTTATGAT
1 TTTAGGGTTTAGGT-TTTAGGAT
*
14431000 TTTAGTG-TTAGAG-TTTAGGA-
1 TTTAGGGTTTAG-GTTTTAGGAT
14431020 TTTAGGGTTTAGGTTTTA
1 TTTAGGGTTTAGGTTTTA
14431038 AGGCTAAAGT
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
20 7 0.23
21 14 0.45
22 4 0.13
23 6 0.19
ACGTcount: A:0.23, C:0.00, G:0.26, T:0.51
Consensus pattern (22 bp):
TTTAGGGTTTAGGTTTTAGGAT
Found at i:14431083 original size:7 final size:7
Alignment explanation
Indices: 14431062--14431247 Score: 69
Period size: 7 Copynumber: 26.7 Consensus size: 7
14431052 GTGATAATAT
14431062 TTTAA-G
1 TTTAAGG
*
14431068 TTTAGGG
1 TTTAAGG
14431075 TTTAAGG
1 TTTAAGG
14431082 TTTAAGG
1 TTTAAGG
14431089 TTT-AGG
1 TTTAAGG
* *
14431095 ATTAGGG
1 TTTAAGG
* *
14431102 TTTATGAT
1 TTTAAG-G
*
14431110 TTTATAGT
1 TTTA-AGG
**
14431118 TTTATAAT
1 TTTA-AGG
*
14431126 TTTATGG
1 TTTAAGG
14431133 TTT-AGTG
1 TTTAAG-G
*
14431140 TTTAGGG
1 TTTAAGG
*
14431147 TTTATGG
1 TTTAAGG
14431154 TTT-AGG
1 TTTAAGG
14431160 TTTAA-G
1 TTTAAGG
*
14431166 TTTAGGG
1 TTTAAGG
*
14431173 TTTAATG
1 TTTAAGG
*
14431180 TTTTAGG
1 TTTAAGG
* *
14431187 TTGATGG
1 TTTAAGG
*
14431194 TTTAGGG
1 TTTAAGG
*
14431201 TTT-ATG
1 TTTAAGG
* *
14431207 TTTTATG
1 TTTAAGG
*
14431214 TTTATGG
1 TTTAAGG
*
14431221 TTTAGAGT
1 TTTA-AGG
*
14431229 TTTAGGG
1 TTTAAGG
*
14431236 TTTAGGG
1 TTTAAGG
14431243 TTTAA
1 TTTAA
14431248 AGTTAAATAA
Statistics
Matches: 134, Mismatches: 36, Indels: 19
0.71 0.19 0.10
Matches are distributed among these distances:
6 24 0.18
7 87 0.65
8 22 0.16
9 1 0.01
ACGTcount: A:0.21, C:0.00, G:0.27, T:0.52
Consensus pattern (7 bp):
TTTAAGG
Found at i:14431084 original size:14 final size:14
Alignment explanation
Indices: 14431062--14431247 Score: 98
Period size: 13 Copynumber: 13.4 Consensus size: 14
14431052 GTGATAATAT
14431062 TTTAA-GTTTAGGG
1 TTTAAGGTTTAGGG
*
14431075 TTTAAGGTTTAAGG
1 TTTAAGGTTTAGGG
*
14431089 TTT-AGGATTAGGG
1 TTTAAGGTTTAGGG
* * * *
14431102 TTTATGATTTTATAGT
1 TTTAAG-GTTTA-GGG
** *
14431118 TTTATAATTTTATGG
1 TTTA-AGGTTTAGGG
14431133 TTT-AGTGTTTAGGG
1 TTTAAG-GTTTAGGG
*
14431147 TTTATGGTTTA-GG
1 TTTAAGGTTTAGGG
14431160 TTTAA-GTTTAGGG
1 TTTAAGGTTTAGGG
*
14431173 TTTAATGTTTTA-GG
1 TTTAA-GGTTTAGGG
* *
14431187 TTGATGGTTTAGGG
1 TTTAAGGTTTAGGG
* * *
14431201 TTTATGTTTTA-TG
1 TTTAAGGTTTAGGG
* *
14431214 TTTATGGTTTAGAGT
1 TTTAAGGTTTAG-GG
*
14431229 TTTAGGGTTTAGGG
1 TTTAAGGTTTAGGG
14431243 TTTAA
1 TTTAA
14431248 AGTTAAATAA
Statistics
Matches: 130, Mismatches: 30, Indels: 25
0.70 0.16 0.14
Matches are distributed among these distances:
12 5 0.04
13 46 0.35
14 46 0.35
15 23 0.18
16 10 0.08
ACGTcount: A:0.21, C:0.00, G:0.27, T:0.52
Consensus pattern (14 bp):
TTTAAGGTTTAGGG
Found at i:14431127 original size:16 final size:16
Alignment explanation
Indices: 14431102--14431135 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
14431092 AGGATTAGGG
*
14431102 TTTATGATTTTATAGT
1 TTTATAATTTTATAGT
*
14431118 TTTATAATTTTATGGT
1 TTTATAATTTTATAGT
14431134 TT
1 TT
14431136 AGTGTTTAGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.24, C:0.00, G:0.12, T:0.65
Consensus pattern (16 bp):
TTTATAATTTTATAGT
Found at i:14431182 original size:40 final size:41
Alignment explanation
Indices: 14431126--14431209 Score: 109
Period size: 40 Copynumber: 2.1 Consensus size: 41
14431116 GTTTTATAAT
* * *
14431126 TTTATGGTTTAGTG-TTTAGGGTTTATGGTTTA-GGTTTAAG
1 TTTAGGGTTTAATGTTTTA-GGTTGATGGTTTAGGGTTTAAG
*
14431166 TTTAGGGTTTAATGTTTTAGGTTGATGGTTTAGGGTTTATG
1 TTTAGGGTTTAATGTTTTAGGTTGATGGTTTAGGGTTTAAG
14431207 TTT
1 TTT
14431210 TATGTTTATG
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
40 24 0.63
41 14 0.37
ACGTcount: A:0.17, C:0.00, G:0.30, T:0.54
Consensus pattern (41 bp):
TTTAGGGTTTAATGTTTTAGGTTGATGGTTTAGGGTTTAAG
Found at i:14432797 original size:33 final size:32
Alignment explanation
Indices: 14432760--14432838 Score: 86
Period size: 33 Copynumber: 2.4 Consensus size: 32
14432750 TGGTCTAACC
* * *
14432760 ATGGTCTTACGTTCACGATGCCATAACCCAGTT
1 ATGGTCTTACATTCA-AATGCCATAACCCAGCT
* * *
14432793 ATGGTCTTTTCATTGAAATGCCATAGCCCAGCT
1 ATGGTC-TTACATTCAAATGCCATAACCCAGCT
14432826 ATGGTCTTACATT
1 ATGGTCTTACATT
14432839 TATCACTTTT
Statistics
Matches: 38, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
32 6 0.16
33 26 0.68
34 6 0.16
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.34
Consensus pattern (32 bp):
ATGGTCTTACATTCAAATGCCATAACCCAGCT
Found at i:14435856 original size:18 final size:18
Alignment explanation
Indices: 14435835--14435891 Score: 64
Period size: 18 Copynumber: 3.2 Consensus size: 18
14435825 AAAGGGAAAG
14435835 AAAGAAAAGGAGAAAAAA
1 AAAGAAAAGGAGAAAAAA
*
14435853 AAAGAAAAGGA-AAAAGGA
1 AAAGAAAAGGAGAAAA-AA
*
14435871 AAA-AAGAGAGAGAAAAAA
1 AAAGAAAAG-GAGAAAAAA
14435889 AAA
1 AAA
14435892 ACTCCTATGC
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
17 8 0.24
18 21 0.64
19 4 0.12
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (18 bp):
AAAGAAAAGGAGAAAAAA
Found at i:14435861 original size:23 final size:22
Alignment explanation
Indices: 14435831--14435875 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
14435821 AATAAAAGGG
*
14435831 AAAGAAA-GAAAAGGAGAAAAAA
1 AAAGAAAGGAAAAAG-GAAAAAA
14435853 AAAGAAAAGGAAAAAGGAAAAAA
1 AAAG-AAAGGAAAAAGGAAAAAA
14435876 GAGAGAGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 4 0.20
23 10 0.50
24 6 0.30
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (22 bp):
AAAGAAAGGAAAAAGGAAAAAA
Found at i:14435887 original size:34 final size:33
Alignment explanation
Indices: 14435812--14435891 Score: 90
Period size: 33 Copynumber: 2.3 Consensus size: 33
14435802 AGTAGCTTGG
* *
14435812 GAAAGAAAAAATAAAAGGGAAAGAAAGAAAAGGA
1 GAAA-AAAAAAGAAAAGGAAAAGAAAGAAAAGGA
14435846 GAAAAAAAAAGAAAAGGAAAAAGGAAA-AAAGAGAGA
1 GAAAAAAAAAGAAAAGG-AAAA-GAAAGAAA-AG-GA
14435882 GAAAAAAAAA
1 GAAAAAAAAA
14435892 ACTCCTATGC
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
33 12 0.30
34 10 0.25
35 6 0.15
36 12 0.30
ACGTcount: A:0.75, C:0.00, G:0.24, T:0.01
Consensus pattern (33 bp):
GAAAAAAAAAGAAAAGGAAAAGAAAGAAAAGGA
Found at i:14437492 original size:23 final size:25
Alignment explanation
Indices: 14437466--14437512 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
14437456 TATCATTCAT
*
14437466 TTCATTATAT-CA-ATATTTTATGC
1 TTCATCATATCCATATATTTTATGC
*
14437489 TTCATCATTTCCATATATTTTATG
1 TTCATCATATCCATATATTTTATG
14437513 TATATTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 8 0.40
24 2 0.10
25 10 0.50
ACGTcount: A:0.28, C:0.15, G:0.04, T:0.53
Consensus pattern (25 bp):
TTCATCATATCCATATATTTTATGC
Found at i:14437835 original size:46 final size:46
Alignment explanation
Indices: 14437783--14437965 Score: 260
Period size: 46 Copynumber: 4.0 Consensus size: 46
14437773 TTCCATAGTG
* * *
14437783 TCTTTCAACTATGGTCTTACACATTTTC-TGTCATGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACA-TTTCATATCAGGTTGCCATGGTA
** * * * *
14437829 TCTTTCAACCATGGTCTTATTCTTTTCATGTCACGTTGTCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
*
14437875 TCTTTCAACCATGGTCTTACACATCTCATATCAGGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
14437921 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGT
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGT
14437966 CTTACACACA
Statistics
Matches: 122, Mismatches: 14, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
45 4 0.03
46 118 0.97
ACGTcount: A:0.21, C:0.23, G:0.15, T:0.40
Consensus pattern (46 bp):
TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
Found at i:14437981 original size:68 final size:68
Alignment explanation
Indices: 14437906--14438033 Score: 247
Period size: 68 Copynumber: 1.9 Consensus size: 68
14437896 CATCTCATAT
*
14437906 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTCTTAC
1 CAGGTTGCCATGGTAGCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTCTTAC
14437971 ACA
66 ACA
14437974 CAGGTTGCCATGGTAGCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGT
1 CAGGTTGCCATGGTAGCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGT
14438034 ATCTTTCAAC
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
68 59 1.00
ACGTcount: A:0.23, C:0.24, G:0.20, T:0.34
Consensus pattern (68 bp):
CAGGTTGCCATGGTAGCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTCTTAC
ACA
Found at i:14438027 original size:46 final size:46
Alignment explanation
Indices: 14437974--14438068 Score: 181
Period size: 46 Copynumber: 2.1 Consensus size: 46
14437964 GTCTTACACA
14437974 CAGGTTGCCATGGTAGCTTTCAACCATGGTCTTACACATTTCATAT
1 CAGGTTGCCATGGTAGCTTTCAACCATGGTCTTACACATTTCATAT
*
14438020 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CAGGTTGCCATGGTAGCTTTCAACCATGGTCTTACACATTTCATAT
14438066 CAG
1 CAG
14438069 AGAGCACACT
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.24, C:0.24, G:0.17, T:0.35
Consensus pattern (46 bp):
CAGGTTGCCATGGTAGCTTTCAACCATGGTCTTACACATTTCATAT
Found at i:14438068 original size:114 final size:114
Alignment explanation
Indices: 14437863--14438068 Score: 385
Period size: 114 Copynumber: 1.8 Consensus size: 114
14437853 TTCATGTCAC
* *
14437863 GTTGTCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGTTGCCATGGTATCTTTCA
1 GTTGCCATGGTAGCTTTCAACCATGGTCTTACACATCTCATATCAGGTTGCCATGGTATCTTTCA
14437928 ACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTCTTACACACAG
66 ACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTCTTACACACAG
*
14437977 GTTGCCATGGTAGCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCA
1 GTTGCCATGGTAGCTTTCAACCATGGTCTTACACATCTCATATCAGGTTGCCATGGTATCTTTCA
14438042 ACCATGGTCTTACACATTTCATATCAG
66 ACCATGGTCTTACACATTTCATATCAG
14438069 AGAGCACACT
Statistics
Matches: 89, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
114 89 1.00
ACGTcount: A:0.24, C:0.24, G:0.17, T:0.35
Consensus pattern (114 bp):
GTTGCCATGGTAGCTTTCAACCATGGTCTTACACATCTCATATCAGGTTGCCATGGTATCTTTCA
ACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTCTTACACACAG
Found at i:14442278 original size:16 final size:16
Alignment explanation
Indices: 14442228--14442278 Score: 57
Period size: 19 Copynumber: 2.9 Consensus size: 16
14442218 ATGGAAATAT
*
14442228 AATCTTTAAGTATATGC
1 AATCTTGAAG-ATATGC
14442245 AATCTTAGATATGATATGC
1 AATCTT-GA-A-GATATGC
14442264 AATCTTGAAGATATG
1 AATCTTGAAGATATG
14442279 ATCTTGTAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
16 6 0.20
17 7 0.23
18 3 0.10
19 13 0.43
20 1 0.03
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.37
Consensus pattern (16 bp):
AATCTTGAAGATATGC
Found at i:14442297 original size:22 final size:21
Alignment explanation
Indices: 14442239--14442280 Score: 70
Period size: 19 Copynumber: 2.1 Consensus size: 21
14442229 ATCTTTAAGT
14442239 ATATGCAATCTT--AGATATG
1 ATATGCAATCTTGAAGATATG
14442258 ATATGCAATCTTGAAGATATG
1 ATATGCAATCTTGAAGATATG
14442279 AT
1 AT
14442281 CTTGTAATCT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 12 0.57
21 9 0.43
ACGTcount: A:0.38, C:0.10, G:0.17, T:0.36
Consensus pattern (21 bp):
ATATGCAATCTTGAAGATATG
Found at i:14445198 original size:28 final size:28
Alignment explanation
Indices: 14445167--14445220 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
14445157 GTATGGATTA
14445167 TAATTAGATTATTTGGTAAGAATAAAAT
1 TAATTAGATTATTTGGTAAGAATAAAAT
* * *
14445195 TAATTATATTGTTTGGTAGGAATAAA
1 TAATTAGATTATTTGGTAAGAATAAA
14445221 TTTTAAATAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.43, C:0.00, G:0.17, T:0.41
Consensus pattern (28 bp):
TAATTAGATTATTTGGTAAGAATAAAAT
Found at i:14448372 original size:210 final size:210
Alignment explanation
Indices: 14447824--14448496 Score: 1208
Period size: 210 Copynumber: 3.2 Consensus size: 210
14447814 GTCCAACTAG
*
14447824 ATATTACTGAATCTGCTAATACATACTTCATCCGGATAAAGTATGCATTATTAAAATTAAATTAA
1 ATATTACTAAATCTGCTAATACATACTTCATCCGGATAAAGTATGCATTATTAAAATTAAATTAA
14447889 AATATTAAATAAGAAATAAAATTATAAAACAATATGTTATTTGGAAAATAACTATTATTGTAATG
66 AATATTAAATAAGAAATAAAATTATAAAACAATATGTTATTTGGAAAATAACTATTATTGTAATG
14447954 AGATACATGTTTTATTAGGTATAAGTATTTAAAATTTTGTTTTTGTAATGTGATACATGCGTAAA
131 AGATACATGTTTTATTAGGTATAAGTATTTAAAATTTTGTTTTTGTAATGTGATACATGCGT-AA
14448019 TATATATATATATAATC
195 -ATATATATATATAATC
* * * *
14448036 ATATTAGTGAAA-CTGCTAATGCGTACTTCATTCGGATAAAGTATGCATTATTAAAATTAAATTA
1 ATATTACT-AAATCTGCTAATACATACTTCATCCGGATAAAGTATGCATTATTAAAATTAAATTA
* *
14448100 AAATATTAAATAAGAAATAAAATTATAAAACAATATGTTATTTGGAAAATAACAACTATTGTAAT
65 AAATATTAAATAAGAAATAAAATTATAAAACAATATGTTATTTGGAAAATAACTATTATTGTAAT
14448165 GAGATACATGTTTTATTAGGTATAAGTATTTAAAATTTTGTTTTTGTAATGTGATACATGCGTAA
130 GAGATACATGTTTTATTAGGTATAAGTATTTAAAATTTTGTTTTTGTAATGTGATACATGCGTAA
14448230 ATATATATATATAATC
195 ATATATATATATAATC
14448246 ATATTACTAAATCTGCTAATACATACTTCATCCGGATAAAGTATGCATTATTAAAATTAAATTAA
1 ATATTACTAAATCTGCTAATACATACTTCATCCGGATAAAGTATGCATTATTAAAATTAAATTAA
14448311 AATATTAAATAAGAAATAAAATTATAAAACAATATGTTATTTGGAAAATAACTATTATTGTAATG
66 AATATTAAATAAGAAATAAAATTATAAAACAATATGTTATTTGGAAAATAACTATTATTGTAATG
14448376 AGATACATGTTTTATTAGGTATAAGTATTTAAAATTTTGTTTTTGTAATGTGATACATGCGT-AA
131 AGATACATGTTTTATTAGGTATAAGTATTTAAAATTTTGTTTTTGTAATGTGATACATGCGTAAA
14448440 -ATATATATATAATC
196 TATATATATATAATC
* * *
14448454 ATATTAGTGAATCTGCTAATACATACTTCATCCGGATGAAGTA
1 ATATTACTAAATCTGCTAATACATACTTCATCCGGATAAAGTA
14448497 CGTATTAGCA
Statistics
Matches: 443, Mismatches: 16, Indels: 8
0.95 0.03 0.02
Matches are distributed among these distances:
208 54 0.12
209 5 0.01
210 198 0.45
211 2 0.00
212 182 0.41
213 2 0.00
ACGTcount: A:0.42, C:0.08, G:0.12, T:0.38
Consensus pattern (210 bp):
ATATTACTAAATCTGCTAATACATACTTCATCCGGATAAAGTATGCATTATTAAAATTAAATTAA
AATATTAAATAAGAAATAAAATTATAAAACAATATGTTATTTGGAAAATAACTATTATTGTAATG
AGATACATGTTTTATTAGGTATAAGTATTTAAAATTTTGTTTTTGTAATGTGATACATGCGTAAA
TATATATATATAATC
Found at i:14448670 original size:31 final size:29
Alignment explanation
Indices: 14448601--14448674 Score: 94
Period size: 29 Copynumber: 2.5 Consensus size: 29
14448591 AGAAAATAAT
**
14448601 AACATAAGTGACTAAAACGTAACATTTCA
1 AACATAAGTGACTAAAACGTAACATGGCA
*
14448630 AACATAAGTGACTAAAATGTAACATGAGGCA
1 AACATAAGTGACTAAAACGTAACAT--GGCA
*
14448661 AACAAAAGTGACTA
1 AACATAAGTGACTA
14448675 TTTTTGTAGT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
29 24 0.62
31 15 0.38
ACGTcount: A:0.50, C:0.15, G:0.15, T:0.20
Consensus pattern (29 bp):
AACATAAGTGACTAAAACGTAACATGGCA
Found at i:14450731 original size:96 final size:96
Alignment explanation
Indices: 14450563--14450756 Score: 271
Period size: 96 Copynumber: 2.0 Consensus size: 96
14450553 TCGCTTCTTT
*
14450563 TTGCTCCACTTAGCCCTCTTGGCTTCGACTTTACCCTTACTCGAACCAAGCTTCTTGGGCTCCTT
1 TTGCTCCACTTAGCCCTCTTGGCTTCGACTTTACCCTTACTCGAACCAAGCTTCTTGGGCTCCGT
* * * *
14450628 GTCTGCTCCATCGTTCCCTTCGATGACAGAC
66 ATCTGCTCCATCATTCCCATCGATAACAGAC
* * * * * *
14450659 TTGCTCCTCTTTGCCCTCTTGGCTTCGGCTTTTCCCTTGCTCGAACCAAGCTTCTTGGGCTTCGT
1 TTGCTCCACTTAGCCCTCTTGGCTTCGACTTTACCCTTACTCGAACCAAGCTTCTTGGGCTCCGT
* *
14450724 ATTTGCTCGATCATTCCCATCGATAACAGAC
66 ATCTGCTCCATCATTCCCATCGATAACAGAC
14450755 TT
1 TT
14450757 CCTCGGACAC
Statistics
Matches: 85, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
96 85 1.00
ACGTcount: A:0.14, C:0.34, G:0.17, T:0.36
Consensus pattern (96 bp):
TTGCTCCACTTAGCCCTCTTGGCTTCGACTTTACCCTTACTCGAACCAAGCTTCTTGGGCTCCGT
ATCTGCTCCATCATTCCCATCGATAACAGAC
Found at i:14458900 original size:25 final size:26
Alignment explanation
Indices: 14458867--14458921 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 26
14458857 ACGTTGTTTC
*
14458867 TAAATTTAAATTTTTTAAAT-CTATT
1 TAAAATTAAATTTTTTAAATGCTATT
* *
14458892 TAAAATTAATTTTTTTAGATGCTATT
1 TAAAATTAAATTTTTTAAATGCTATT
14458918 TAAA
1 TAAA
14458922 TGTTTCTAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
25 17 0.65
26 9 0.35
ACGTcount: A:0.40, C:0.04, G:0.04, T:0.53
Consensus pattern (26 bp):
TAAAATTAAATTTTTTAAATGCTATT
Found at i:14459411 original size:56 final size:55
Alignment explanation
Indices: 14459305--14459433 Score: 131
Period size: 56 Copynumber: 2.3 Consensus size: 55
14459295 TACGATAAAG
*
14459305 GGGTGTCGGCCAT-TAGTGTGCCAAAACCTAAAAAAAAATTTTGAAAAAAAATATA
1 GGGTGTCAGCCATCTAGTGTGCCAAAACCTAAAAAAAAATTTTGAAAAAAAA-ATA
* * **
14459360 TGGGTGTCTGCCATCTAGTGT-CCAAAACCTCAAAAATTA-TTT-AATAGAAAAAATA
1 -GGGTGTCAGCCATCTAGTGTGCCAAAACCTAAAAAAAAATTTTGAA-A-AAAAAATA
*
14459415 GTGGTGCCAGCCATCTAGT
1 G-GGTGTCAGCCATCTAGT
14459434 CCTCATAACC
Statistics
Matches: 63, Mismatches: 6, Indels: 9
0.81 0.08 0.12
Matches are distributed among these distances:
54 3 0.05
55 22 0.35
56 32 0.51
57 6 0.10
ACGTcount: A:0.39, C:0.16, G:0.19, T:0.26
Consensus pattern (55 bp):
GGGTGTCAGCCATCTAGTGTGCCAAAACCTAAAAAAAAATTTTGAAAAAAAAATA
Found at i:14462582 original size:50 final size:50
Alignment explanation
Indices: 14462474--14462657 Score: 235
Period size: 50 Copynumber: 3.7 Consensus size: 50
14462464 CTAGTACGCA
* * *
14462474 TAGTAGCCTACACTTAGTACTACACATGCGACC-AATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAATTATCCGGTACACG
** * *
14462523 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAATTATCCGGTACACG
* * * * *
14462573 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAA-TTATCCGGTACACG
*
14462624 TAGTAGCCTGCACTTGGTACTACACACGTGACCT
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCT
14462658 CACAATAGAT
Statistics
Matches: 115, Mismatches: 18, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
49 30 0.26
50 46 0.40
51 39 0.34
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.25
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCTAATTATCCGGTACACG
Found at i:14462647 original size:101 final size:99
Alignment explanation
Indices: 14462474--14462657 Score: 278
Period size: 101 Copynumber: 1.8 Consensus size: 99
14462464 CTAGTACGCA
* *
14462474 TAGTAGCCTACACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCCTGCACTTA
1 TAGTAGCCTACACTTAGTACTACACACGCGACCAATTATCCGGTACACATAGTAGCCTGCACTTA
14462539 GTACTACACACGTGACCTAACCATCTGATACACG
66 GTACTACACACGTGACCTAACCATCTGATACACG
* * * * *
14462573 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCATAGTAGCCTGCACT
1 TAGTAGCCTACACTTAGTACTACACACGCGA-CCAA-TTATCCGGTACACATAGTAGCCTGCACT
*
14462638 TGGTACTACACACGTGACCT
64 TAGTACTACACACGTGACCT
14462658 CACAATAGAT
Statistics
Matches: 75, Mismatches: 8, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
99 28 0.37
100 3 0.04
101 44 0.59
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.25
Consensus pattern (99 bp):
TAGTAGCCTACACTTAGTACTACACACGCGACCAATTATCCGGTACACATAGTAGCCTGCACTTA
GTACTACACACGTGACCTAACCATCTGATACACG
Found at i:14469862 original size:32 final size:33
Alignment explanation
Indices: 14469818--14469886 Score: 122
Period size: 32 Copynumber: 2.1 Consensus size: 33
14469808 ATTTCAATAG
*
14469818 TTATGAAATAACTTATAATGTCTAGGAAAAGTA
1 TTATGAAATAACTTAAAATGTCTAGGAAAAGTA
14469851 TTAT-AAATAACTTAAAATGTCTAGGAAAAGTA
1 TTATGAAATAACTTAAAATGTCTAGGAAAAGTA
14469883 TTAT
1 TTAT
14469887 CTTAATTGAG
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 31 0.89
33 4 0.11
ACGTcount: A:0.46, C:0.06, G:0.13, T:0.35
Consensus pattern (33 bp):
TTATGAAATAACTTAAAATGTCTAGGAAAAGTA
Found at i:14471044 original size:35 final size:35
Alignment explanation
Indices: 14470972--14471367 Score: 445
Period size: 35 Copynumber: 11.3 Consensus size: 35
14470962 GTGCGAAATT
* *
14470972 TAGGTATGGTAT-AACCATACCGAGTTGTGAAATG
1 TAGGTATGGTATCATCCATACCGAGTTGTGAAACG
* * * * * *
14471006 TAGGTATGGCATCGTCCATACTGAGCTATGATACG
1 TAGGTATGGTATCATCCATACCGAGTTGTGAAACG
* *
14471041 TAGGTATGGTATTAACCATACCGAGTTGTGAAACG
1 TAGGTATGGTATCATCCATACCGAGTTGTGAAACG
* * * *
14471076 TAGGTATGGTATTAACCATACCGAGATGTGAAACA
1 TAGGTATGGTATCATCCATACCGAGTTGTGAAACG
* *
14471111 TAGGTATGGTATCATCCATACCGAGTTGTGACATG
1 TAGGTATGGTATCATCCATACCGAGTTGTGAAACG
* *
14471146 TAGGTATGGTATCATCCATATCGAGTTGTGAAATG
1 TAGGTATGGTATCATCCATACCGAGTTGTGAAACG
* *
14471181 TAGGTATGGTATCATCCATACCGAGTTGAGAAATG
1 TAGGTATGGTATCATCCATACCGAGTTGTGAAACG
* **
14471216 TAGGTATGGTATTATCCATACTAAGTTGTGAAACG
1 TAGGTATGGTATCATCCATACCGAGTTGTGAAACG
* *
14471251 TAGGTATGGTATCATCCATACCGAGTTGAGAAATG
1 TAGGTATGGTATCATCCATACCGAGTTGTGAAACG
* * * ** *
14471286 TAGGTATGGTGTTATCCATACTGAGTTAAGAAATG
1 TAGGTATGGTATCATCCATACCGAGTTGTGAAACG
* * * * *
14471321 TAGGTATCGCAT-TTCCCATATCGAGTTGTGAAATG
1 TAGGTATGGTATCAT-CCATACCGAGTTGTGAAACG
14471356 TAGGTATGGTAT
1 TAGGTATGGTAT
14471368 TTCAATGAGG
Statistics
Matches: 308, Mismatches: 52, Indels: 3
0.85 0.14 0.01
Matches are distributed among these distances:
34 12 0.04
35 296 0.96
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.31
Consensus pattern (35 bp):
TAGGTATGGTATCATCCATACCGAGTTGTGAAACG
Found at i:14471069 original size:70 final size:70
Alignment explanation
Indices: 14470972--14471368 Score: 503
Period size: 70 Copynumber: 5.7 Consensus size: 70
14470962 GTGCGAAATT
* * ** * *
14470972 TAGGTATGGTAT-AACCATACCGAGTTGTGAAATGTAGGTATGGCATCGTCCATACTGAGCTATG
1 TAGGTATGGTATCATCCATACCGAGTTGTGAAATGTAGGTATGGTATTATCCATACTGAGTTGTG
*
14471036 ATACG
66 AAACG
* * * * * *
14471041 TAGGTATGGTATTAACCATACCGAGTTGTGAAACGTAGGTATGGTATTAACCATACCGAGATGTG
1 TAGGTATGGTATCATCCATACCGAGTTGTGAAATGTAGGTATGGTATTATCCATACTGAGTTGTG
*
14471106 AAACA
66 AAACG
* *
14471111 TAGGTATGGTATCATCCATACCGAGTTGTGACATGTAGGTATGGTATCATCCATA-TCGAGTTGT
1 TAGGTATGGTATCATCCATACCGAGTTGTGAAATGTAGGTATGGTATTATCCATACT-GAGTTGT
*
14471175 GAAATG
65 GAAACG
* *
14471181 TAGGTATGGTATCATCCATACCGAGTTGAGAAATGTAGGTATGGTATTATCCATACTAAGTTGTG
1 TAGGTATGGTATCATCCATACCGAGTTGTGAAATGTAGGTATGGTATTATCCATACTGAGTTGTG
14471246 AAACG
66 AAACG
* * **
14471251 TAGGTATGGTATCATCCATACCGAGTTGAGAAATGTAGGTATGGTGTTATCCATACTGAGTTAAG
1 TAGGTATGGTATCATCCATACCGAGTTGTGAAATGTAGGTATGGTATTATCCATACTGAGTTGTG
*
14471316 AAATG
66 AAACG
* * * *
14471321 TAGGTATCGCAT-TTCCCATATCGAGTTGTGAAATGTAGGTATGGTATT
1 TAGGTATGGTATCAT-CCATACCGAGTTGTGAAATGTAGGTATGGTATT
14471369 TCAATGAGGA
Statistics
Matches: 288, Mismatches: 36, Indels: 7
0.87 0.11 0.02
Matches are distributed among these distances:
69 13 0.05
70 274 0.95
71 1 0.00
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.31
Consensus pattern (70 bp):
TAGGTATGGTATCATCCATACCGAGTTGTGAAATGTAGGTATGGTATTATCCATACTGAGTTGTG
AAACG
Found at i:14474851 original size:17 final size:18
Alignment explanation
Indices: 14474824--14474857 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
14474814 AATAAAGTTC
14474824 AAAATATAAAAACAAAAT
1 AAAATATAAAAACAAAAT
*
14474842 AAAA-ATAAAAATAAAA
1 AAAATATAAAAACAAAA
14474858 AAAGCATAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.82, C:0.03, G:0.00, T:0.15
Consensus pattern (18 bp):
AAAATATAAAAACAAAAT
Found at i:14477977 original size:30 final size:30
Alignment explanation
Indices: 14477920--14477977 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
14477910 CACAGGATGC
* *
14477920 CACATGGGCATGTGGCTAGCCTATGTGGCT
1 CACACGGGCATGTGGCTAGCCCATGTGGCT
*
14477950 CACACGGGCATGT-GCTCAGCCCGTGTGG
1 CACACGGGCATGTGGCT-AGCCCATGTGG
14477978 AAATGGTCTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 3 0.12
30 21 0.88
ACGTcount: A:0.16, C:0.28, G:0.34, T:0.22
Consensus pattern (30 bp):
CACACGGGCATGTGGCTAGCCCATGTGGCT
Found at i:14478649 original size:42 final size:41
Alignment explanation
Indices: 14478528--14478649 Score: 136
Period size: 43 Copynumber: 2.9 Consensus size: 41
14478518 AATTATACCA
* * ***
14478528 ATGCCATATCCCATATATGGTCTTATATAGGGCCTCATATCG
1 ATGCCATATCCCAGATATGGTCTTACAT-GAATCTCATATCG
* * *
14478570 ATGCCAATAGCCCAGCTATGGTCTTACACGAATTCTCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACATGAA-TCTCATATCG
14478613 ATGCCATATCCCAGATATGGTCTTACATGTAATCTCA
1 ATGCCATATCCCAGATATGGTCTTACATG-AATCTCA
14478650 ACTAACTCTA
Statistics
Matches: 66, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
42 32 0.48
43 34 0.52
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.31
Consensus pattern (41 bp):
ATGCCATATCCCAGATATGGTCTTACATGAATCTCATATCG
Found at i:14482619 original size:34 final size:34
Alignment explanation
Indices: 14482565--14482692 Score: 143
Period size: 35 Copynumber: 3.7 Consensus size: 34
14482555 TCAATGGCAA
14482565 AGTTGTGAAACGTAGGTATGGTATCATCCATACTG
1 AGTTGTGAAACGTAGGTATGGTAT-ATCCATACTG
*
14482600 AGTTGTGAAA-GTAGGTATGGTATTATCCATACTA
1 AGTTGTGAAACGTAGGTATGGTA-TATCCATACTG
* * * *
14482634 AGTTAAT-AAACGTAGGTATGGCATTTCCCATACCG
1 AGTT-GTGAAACGTAGGTATGGTATAT-CCATACTG
* *
14482669 AGTTGTAAAATGTAGGTATGGTAT
1 AGTTGTGAAACGTAGGTATGGTAT
14482693 TTCAATGAGG
Statistics
Matches: 79, Mismatches: 9, Indels: 10
0.81 0.09 0.10
Matches are distributed among these distances:
34 31 0.39
35 48 0.61
ACGTcount: A:0.31, C:0.12, G:0.24, T:0.33
Consensus pattern (34 bp):
AGTTGTGAAACGTAGGTATGGTATATCCATACTG
Found at i:14488807 original size:15 final size:15
Alignment explanation
Indices: 14488787--14488824 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
14488777 CAAAACATGC
*
14488787 ATATATTACATATTT
1 ATATATAACATATTT
*
14488802 ATATATAATATATTT
1 ATATATAACATATTT
14488817 ATATATAA
1 ATATATAA
14488825 ACAAAACACA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (15 bp):
ATATATAACATATTT
Found at i:14488921 original size:27 final size:27
Alignment explanation
Indices: 14488891--14488942 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
14488881 AATGCCATTT
* *
14488891 AGGATTTTAAAATAGAAATTCAAACAC
1 AGGATTTGAAAATAAAAATTCAAACAC
* *
14488918 AGGATTTGCAAATAAAAATTGAAAC
1 AGGATTTGAAAATAAAAATTCAAAC
14488943 GCAACAATGA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.52, C:0.10, G:0.13, T:0.25
Consensus pattern (27 bp):
AGGATTTGAAAATAAAAATTCAAACAC
Found at i:14491284 original size:12 final size:12
Alignment explanation
Indices: 14491267--14491298 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
14491257 TAGTTAGAAA
14491267 AAGAAATTATTG
1 AAGAAATTATTG
14491279 AAGAAATTATTG
1 AAGAAATTATTG
14491291 AAGAAATT
1 AAGAAATT
14491299 GGGTAAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.53, C:0.00, G:0.16, T:0.31
Consensus pattern (12 bp):
AAGAAATTATTG
Found at i:14502852 original size:20 final size:20
Alignment explanation
Indices: 14502827--14502891 Score: 64
Period size: 20 Copynumber: 3.4 Consensus size: 20
14502817 AAAATGATAA
14502827 AAAAATTGATTTAATCCTTT
1 AAAAATTGATTTAATCCTTT
** **
14502847 AAAAATT-ATAAAGAT--TAA
1 AAAAATTGATTTA-ATCCTTT
14502865 AAAAATTGATTTAATCCTTT
1 AAAAATTGATTTAATCCTTT
14502885 AAAAATT
1 AAAAATT
14502892 ATAAAGATAT
Statistics
Matches: 33, Mismatches: 8, Indels: 8
0.67 0.16 0.16
Matches are distributed among these distances:
18 10 0.30
19 6 0.18
20 17 0.52
ACGTcount: A:0.51, C:0.06, G:0.05, T:0.38
Consensus pattern (20 bp):
AAAAATTGATTTAATCCTTT
Found at i:14502875 original size:38 final size:38
Alignment explanation
Indices: 14502824--14502899 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
14502814 CTAAAAATGA
14502824 TAAAAAAATTGATTTAATCCTTTAAAAATTATAAAGAT
1 TAAAAAAATTGATTTAATCCTTTAAAAATTATAAAGAT
14502862 TAAAAAAATTGATTTAATCCTTTAAAAATTATAAAGAT
1 TAAAAAAATTGATTTAATCCTTTAAAAATTATAAAGAT
14502900 ATAGACAATT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.53, C:0.05, G:0.05, T:0.37
Consensus pattern (38 bp):
TAAAAAAATTGATTTAATCCTTTAAAAATTATAAAGAT
Found at i:14504489 original size:21 final size:21
Alignment explanation
Indices: 14504465--14504514 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
14504455 TGACTTTAGG
14504465 TTGATTAATTGAAGTTTCTTT
1 TTGATTAATTGAAGTTTCTTT
14504486 TTGATTAATTGAAGTTTCTTT
1 TTGATTAATTGAAGTTTCTTT
*
14504507 TTAATTAA
1 TTGATTAA
14504515 GACCTCTATT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.28, C:0.04, G:0.12, T:0.56
Consensus pattern (21 bp):
TTGATTAATTGAAGTTTCTTT
Found at i:14506083 original size:127 final size:127
Alignment explanation
Indices: 14505915--14506143 Score: 386
Period size: 127 Copynumber: 1.8 Consensus size: 127
14505905 CATGCATTGA
* * *
14505915 AATTTTAAAAGGATATTCGGTTATTTGGTCAAACGCTAAATCGAAACCCAGCACGTTAGGGCACG
1 AATTTTAAAAGGATATTCGGTCATTTGGTCAAACGCAAAATCGAAACCCAGCACGTTAGAGCACG
*
14505980 ATTTCTCGAATTTCCAAACATAAAATATTGCCTTGTTTTTTAATTGAAGAAAACACAGACAG
66 ATTTCTCGAATTTCCAAACACAAAATATTGCCTTGTTTTTTAATTGAAGAAAACACAGACAG
* * *
14506042 AATTTTAAAAGGGTATTTGGTCATTTGGTCAAACGGAAAATCGAAACCCAGCACGTTAGAGCACG
1 AATTTTAAAAGGATATTCGGTCATTTGGTCAAACGCAAAATCGAAACCCAGCACGTTAGAGCACG
*
14506107 ATTTCTCGAATTTCCAAACACGAAATATTGCCTTGTT
66 ATTTCTCGAATTTCCAAACACAAAATATTGCCTTGTT
14506144 CTCGAAATGT
Statistics
Matches: 94, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
127 94 1.00
ACGTcount: A:0.35, C:0.18, G:0.17, T:0.30
Consensus pattern (127 bp):
AATTTTAAAAGGATATTCGGTCATTTGGTCAAACGCAAAATCGAAACCCAGCACGTTAGAGCACG
ATTTCTCGAATTTCCAAACACAAAATATTGCCTTGTTTTTTAATTGAAGAAAACACAGACAG
Found at i:14506560 original size:15 final size:15
Alignment explanation
Indices: 14506529--14506576 Score: 62
Period size: 16 Copynumber: 3.1 Consensus size: 15
14506519 TAAAAATGAT
*
14506529 AATAAATAAAT-TTAA
1 AATAAAT-AATGTAAA
14506544 AATAAATAATGTAAAA
1 AATAAATAATGT-AAA
14506560 AATAAATAATGTAAA
1 AATAAATAATGTAAA
14506575 AA
1 AA
14506577 GTAGTTTTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
14 3 0.10
15 13 0.43
16 14 0.47
ACGTcount: A:0.69, C:0.00, G:0.04, T:0.27
Consensus pattern (15 bp):
AATAAATAATGTAAA
Found at i:14506563 original size:16 final size:16
Alignment explanation
Indices: 14506542--14506576 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
14506532 AAATAAATTT
14506542 AAAATAAATAATGTAA
1 AAAATAAATAATGTAA
14506558 AAAATAAATAATGTAA
1 AAAATAAATAATGTAA
14506574 AAA
1 AAA
14506577 GTAGTTTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.23
Consensus pattern (16 bp):
AAAATAAATAATGTAA
Found at i:14506864 original size:31 final size:29
Alignment explanation
Indices: 14506795--14506864 Score: 79
Period size: 31 Copynumber: 2.3 Consensus size: 29
14506785 AGAATAATAG
*
14506795 ATATAAAAAAAACTGAAATAAACTATATA
1 ATATAAAAAAAACTAAAATAAACTATATA
14506824 ATACGTAAAAAAAATCTAAAATAAA-TAATATA
1 ATA--TAAAAAAAA-CTAAAATAAACT-ATATA
14506856 TATATAAAA
1 -ATATAAAA
14506865 TTTTAGAATA
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
29 3 0.09
31 15 0.43
32 14 0.40
33 3 0.09
ACGTcount: A:0.66, C:0.06, G:0.03, T:0.26
Consensus pattern (29 bp):
ATATAAAAAAAACTAAAATAAACTATATA
Found at i:14506875 original size:28 final size:27
Alignment explanation
Indices: 14506842--14506906 Score: 78
Period size: 28 Copynumber: 2.3 Consensus size: 27
14506832 AAAAAATCTA
*
14506842 AAATAAATAATATATATATAAA-ATTTT
1 AAATAAATAACATATATA-AAATATTTT
*
14506869 AGAATAAATAACGTATATAAAATTATTTT
1 A-AATAAATAACATATATAAAA-TATTTT
14506898 AAATAAATA
1 AAATAAATA
14506907 GTAAAACAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
27 4 0.12
28 23 0.70
29 6 0.18
ACGTcount: A:0.58, C:0.02, G:0.03, T:0.37
Consensus pattern (27 bp):
AAATAAATAACATATATAAAATATTTT
Found at i:14506966 original size:27 final size:27
Alignment explanation
Indices: 14506936--14506992 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
14506926 ACATTACATT
14506936 AAAACAAGTTAAAATAAATAATATATA
1 AAAACAAGTTAAAATAAATAATATATA
* * * **
14506963 AAAATAATTTAAAATGAATGGTATATA
1 AAAACAAGTTAAAATAAATAATATATA
14506990 AAA
1 AAA
14506993 TATTTTTTAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.63, C:0.02, G:0.07, T:0.28
Consensus pattern (27 bp):
AAAACAAGTTAAAATAAATAATATATA
Found at i:14514546 original size:27 final size:27
Alignment explanation
Indices: 14514515--14514567 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
14514505 TTTTATTCTT
*
14514515 TCCATACAAATAATTATTTTAGATTCC
1 TCCATACAAATAATTATTTCAGATTCC
* * *
14514542 TCCATGCGAGTAATTATTTCAGATTC
1 TCCATACAAATAATTATTTCAGATTC
14514568 TTTCAAATCA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.32, C:0.19, G:0.09, T:0.40
Consensus pattern (27 bp):
TCCATACAAATAATTATTTCAGATTCC
Found at i:14518861 original size:52 final size:52
Alignment explanation
Indices: 14518711--14518862 Score: 146
Period size: 52 Copynumber: 2.9 Consensus size: 52
14518701 GATATCATAC
* ** *
14518711 CGATGCCATATCCCAAATATGGTCTTATACGGAATCAAATTATCAC-TTCCCAA
1 CGATGCCATAGCCCAGCTATGGTCTTATACGGAA-CACA-TATCACATTCCCAA
* * * * * *
14518764 TGATGCCATAGCCCAGCTATGGTCTTATACGGGAATACGTGTCACATT-GCAC
1 CGATGCCATAGCCCAGCTATGGTCTTATAC-GGAACACATATCACATTCCCAA
* *
14518816 CGATTCCATAGCCTAGCTATGGTCTTATACGGAAGCACATATCACAT
1 CGATGCCATAGCCCAGCTATGGTCTTATACGGAA-CACATATCACAT
14518863 CTTTTCCGCC
Statistics
Matches: 80, Mismatches: 16, Indels: 7
0.78 0.16 0.07
Matches are distributed among these distances:
51 4 0.05
52 43 0.54
53 29 0.36
54 4 0.05
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.28
Consensus pattern (52 bp):
CGATGCCATAGCCCAGCTATGGTCTTATACGGAACACATATCACATTCCCAA
Found at i:14523776 original size:133 final size:133
Alignment explanation
Indices: 14523538--14524697 Score: 1684
Period size: 133 Copynumber: 8.7 Consensus size: 133
14523528 GAGGTAGCAA
* ** * *
14523538 TGGAGTAGATCGAAGACAGCGAATCTTATC-TCCCTGAGGTAGTAAGGGAGCAGATTTAAGCTAC
1 TGGAGCAGATCGAAGATGGCGAATCTTATCTTCCC-GAGGTAGTAGGGGAGCAGATTTAAGCCAC
* * * * * * *
14523602 TAGCCTTGTCTCCCTG-AGCAGC-AGTAGAGCAAGGCTGAAGATTGTAGATCTTATCTCCCTAAG
65 CAGTCTTATCTTCCTGAAGTAGCAAG-GGAGC-AGACTGAAGATTGTAGATCTTATCTCCCTAAG
14523665 CAGTAG
128 CAGTAG
** * **
14523671 TGGAGCAGATCGAAGATAACAAATCTTATCTTATCGAGGTAGTAGGGGAGCAGATTTAAGCCACC
1 TGGAGCAGATCGAAGATGGCGAATCTTATCTTCCCGAGGTAGTAGGGGAGCAGATTTAAGCCACC
*
14523736 ATTCTTATCTTCCTGAAGTAGCAAGGGAGCAGACTGAAGATTGTAGATCTTATCTCCCTAAGCAG
66 AGTCTTATCTTCCTGAAGTAGCAAGGGAGCAGACTGAAGATTGTAGATCTTATCTCCCTAAGCAG
14523801 TAG
131 TAG
* * *
14523804 TGGAGCAAATCGAAGATGGCGAATCTTATCTTCCTGAGGTAGTAGGGGAGCAGATTTAAACCACC
1 TGGAGCAGATCGAAGATGGCGAATCTTATCTTCCCGAGGTAGTAGGGGAGCAGATTTAAGCCACC
* *
14523869 AGTCTTATCTTCCAGAAGTAGCAAGGGAGCAGACTGAAAATTGTAGATCTTATCTCCCTAAGCAG
66 AGTCTTATCTTCCTGAAGTAGCAAGGGAGCAGACTGAAGATTGTAGATCTTATCTCCCTAAGCAG
14523934 TAG
131 TAG
*
14523937 TGGAGCAGATCGAAGATGGCGAATCTTATCTTCCCGAGGTAGTAGTGGAGCAGA-TTAAGCCACC
1 TGGAGCAGATCGAAGATGGCGAATCTTATCTTCCCGAGGTAGTAGGGGAGCAGATTTAAGCCACC
*
14524001 AGTCTTATCTTCCTGAAATAGCAAGGGAGCAGACTGAAGATTGTAGATCTTATCTCCCTAAGCAG
66 AGTCTTATCTTCCTGAAGTAGCAAGGGAGCAGACTGAAGATTGTAGATCTTATCTCCCTAAGCAG
14524066 TAG
131 TAG
* * *
14524069 TAGAGCAGATCAAAGATGGCGAATCTTATCTTTCCGAGGTAGTAGGGGAGCAGATTTAAGCCACC
1 TGGAGCAGATCGAAGATGGCGAATCTTATCTTCCCGAGGTAGTAGGGGAGCAGATTTAAGCCACC
* * *
14524134 AGTCTTATCTTCCAGAAGTAGCAAGGGAGCAGATTGAAGATTGTAGATCTTATCTCCCTAAGTAG
66 AGTCTTATCTTCCTGAAGTAGCAAGGGAGCAGACTGAAGATTGTAGATCTTATCTCCCTAAGCAG
14524199 TAG
131 TAG
*
14524202 TGGAGCAGATCGAAGATGGCGAATCTTATCTTCCCAAGGTAGTAGGGGAGCAGATTTAAGCCACC
1 TGGAGCAGATCGAAGATGGCGAATCTTATCTTCCCGAGGTAGTAGGGGAGCAGATTTAAGCCACC
* * * *
14524267 AGTCTTATCTTTCAGAAGTAGCAATGGAGCAGACTGAGGATTGTAGATCTTATCTCCCTAAGCAG
66 AGTCTTATCTTCCTGAAGTAGCAAGGGAGCAGACTGAAGATTGTAGATCTTATCTCCCTAAGCAG
14524332 TAG
131 TAG
* * *
14524335 TGGAGCAGATCGAATATGGCGAATCTTATCTTCCCGAGGTAGTAGAGGAGTAGATTTAAGCCACC
1 TGGAGCAGATCGAAGATGGCGAATCTTATCTTCCCGAGGTAGTAGGGGAGCAGATTTAAGCCACC
*
14524400 AGTCTTATCTTCCTGAAGTAGCAAGGGAGCAGACTAAAGATTGTAGATCTTATCTCCCTAAGCAG
66 AGTCTTATCTTCCTGAAGTAGCAAGGGAGCAGACTGAAGATTGTAGATCTTATCTCCCTAAGCAG
14524465 TAG
131 TAG
* *
14524468 TGGAGCAGATCAAAGATGGCGAATCTTATCTTCCCGAAGTAGTAGGGGAGCAGATTTAAGCCACC
1 TGGAGCAGATCGAAGATGGCGAATCTTATCTTCCCGAGGTAGTAGGGGAGCAGATTTAAGCCACC
* * * *
14524533 AGTCTTATCTTCTTGAAATAGCAAGGGAGCAGACTGAATATTGTAGATCTTATCTCTCTGAA-CA
66 AGTCTTATCTTCCTGAAGTAGCAAGGGAGCAGACTGAAGATTGTAGATCTTATCTCCCT-AAGCA
** *
14524597 ACAC
130 GTAG
* * * * * * * * *
14524601 TGAAGTAGATCAAATATGGCGAATCTTATCTTCCCGAGGTAGTAGCGGACCAAATTGAAGCCACT
1 TGGAGCAGATCGAAGATGGCGAATCTTATCTTCCCGAGGTAGTAGGGGAGCAGATTTAAGCCACC
* * *
14524666 AGCCTTATCTCCCTGAAGTTGC-AGTGGAGCAG
66 AGTCTTATCTTCCTGAAGTAGCAAG-GGAGCAG
14524698 GTTGAAATCA
Statistics
Matches: 934, Mismatches: 87, Indels: 12
0.90 0.08 0.01
Matches are distributed among these distances:
132 126 0.13
133 793 0.85
134 13 0.01
135 2 0.00
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (133 bp):
TGGAGCAGATCGAAGATGGCGAATCTTATCTTCCCGAGGTAGTAGGGGAGCAGATTTAAGCCACC
AGTCTTATCTTCCTGAAGTAGCAAGGGAGCAGACTGAAGATTGTAGATCTTATCTCCCTAAGCAG
TAG
Found at i:14531970 original size:68 final size:63
Alignment explanation
Indices: 14531895--14532101 Score: 209
Period size: 67 Copynumber: 3.1 Consensus size: 63
14531885 CATCATGTGT
*
14531895 ACAAGAGAGCTACGAGACATTATGATATAGCTAGGTCGCATGGGTGATACTATGTGTACACCATG
1 ACAAGAGAGCTACGAG--A-TAT-AT-TAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATG
14531960 TAG
61 TAG
* * * * * *
14531963 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGT
1 ACAAGAGAGCTACGAGATATAT-TAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGT
14532028 AG
62 AG
* * * * *
14532030 ACAAGAGAGCTACGAGATAAATTGGCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-G
1 ACAAGAGAGCTACGAGATATATTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAG
14532092 TACAAGAGAG
1 -ACAAGAGAG
14532102 GCAAGATTAT
Statistics
Matches: 116, Mismatches: 19, Indels: 13
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 18 0.16
64 24 0.21
65 3 0.03
66 23 0.20
67 32 0.28
68 15 0.13
ACGTcount: A:0.31, C:0.16, G:0.29, T:0.23
Consensus pattern (63 bp):
ACAAGAGAGCTACGAGATATATTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAG
Found at i:14541851 original size:32 final size:30
Alignment explanation
Indices: 14541811--14541883 Score: 94
Period size: 31 Copynumber: 2.4 Consensus size: 30
14541801 CGGCCACTAT
14541811 ATTATTAAAAAATTTTATTTTAAGTCACTGA
1 ATTATTAAAAAATTTTA-TTTAAGTCACTGA
*
14541842 ATTATTTAAAAAATTTTATTTGAGTCACT-A
1 ATTA-TTAAAAAATTTTATTTAAGTCACTGA
*
14541872 GATTGTTAAAAA
1 -ATTATTAAAAA
14541884 TAAAATAAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
30 8 0.21
31 17 0.45
32 13 0.34
ACGTcount: A:0.42, C:0.05, G:0.08, T:0.44
Consensus pattern (30 bp):
ATTATTAAAAAATTTTATTTAAGTCACTGA
Found at i:14543145 original size:19 final size:19
Alignment explanation
Indices: 14543109--14543145 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
14543099 TAATTAGACT
* *
14543109 TTAATTAAGTGAATTTAGC
1 TTAATTAAGAGAAATTAGC
14543128 TTAATTAAGAGAAATTAG
1 TTAATTAAGAGAAATTAG
14543146 GAAAAAATGC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.43, C:0.03, G:0.16, T:0.38
Consensus pattern (19 bp):
TTAATTAAGAGAAATTAGC
Found at i:14543741 original size:12 final size:12
Alignment explanation
Indices: 14543724--14543751 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
14543714 TAAAAGATAT
14543724 TTATTATAATTA
1 TTATTATAATTA
14543736 TTATTATAATTA
1 TTATTATAATTA
14543748 TTAT
1 TTAT
14543752 CATTATTAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (12 bp):
TTATTATAATTA
Found at i:14544347 original size:13 final size:13
Alignment explanation
Indices: 14544329--14544353 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14544319 TGATTGAAAA
14544329 ATGAATTAAATAT
1 ATGAATTAAATAT
14544342 ATGAATTAAATA
1 ATGAATTAAATA
14544354 AAAGTGAATT
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:0.56, C:0.00, G:0.08, T:0.36
Consensus pattern (13 bp):
ATGAATTAAATAT
Found at i:14544756 original size:23 final size:23
Alignment explanation
Indices: 14544730--14544829 Score: 100
Period size: 21 Copynumber: 4.5 Consensus size: 23
14544720 CAGGTATTTT
*
14544730 ATGTGTCGTATATCAGGCACTTA
1 ATGTGTCGTATATCAGGCACTTC
* * * *
14544753 ATGTGTCGTATTTCACGTACCTC
1 ATGTGTCGTATATCAGGCACTTC
* *
14544776 ATGTGTC--ATTTCAGGCGCTTC
1 ATGTGTCGTATATCAGGCACTTC
*
14544797 ATGTGTCGT-T-TCAGGCACTTT
1 ATGTGTCGTATATCAGGCACTTC
14544818 ATGTGTCGTATA
1 ATGTGTCGTATA
14544830 CTACTTCTGA
Statistics
Matches: 62, Mismatches: 11, Indels: 8
0.77 0.14 0.10
Matches are distributed among these distances:
21 35 0.56
22 2 0.03
23 25 0.40
ACGTcount: A:0.19, C:0.20, G:0.22, T:0.39
Consensus pattern (23 bp):
ATGTGTCGTATATCAGGCACTTC
Found at i:14547305 original size:15 final size:14
Alignment explanation
Indices: 14547278--14547322 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
14547268 TGTTAATATA
*
14547278 AAATTCATATAATG
1 AAATCCATATAATG
* *
14547292 AAATCTATTATAATA
1 AAATCCA-TATAATG
14547307 AAATCCATATAATG
1 AAATCCATATAATG
14547321 AA
1 AA
14547323 TCACAATTAT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
14 13 0.52
15 12 0.48
ACGTcount: A:0.53, C:0.09, G:0.04, T:0.33
Consensus pattern (14 bp):
AAATCCATATAATG
Found at i:14547307 original size:29 final size:31
Alignment explanation
Indices: 14547275--14547353 Score: 92
Period size: 29 Copynumber: 2.6 Consensus size: 31
14547265 AAATGTTAAT
*
14547275 ATAAAATTCATATAATGAAAT-CTATTAT-A
1 ATAAAATTCATATAATGAAATACAATTATAA
*
14547304 ATAAAATCCATATAATG-AATCACAATTATAAA
1 ATAAAATTCATATAATGAAAT-ACAATTAT-AA
*
14547336 AAAAAATTCATATAATGA
1 ATAAAATTCATATAATGA
14547354 TCATAATTAC
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
28 3 0.07
29 16 0.39
30 6 0.15
32 16 0.39
ACGTcount: A:0.56, C:0.09, G:0.04, T:0.32
Consensus pattern (31 bp):
ATAAAATTCATATAATGAAATACAATTATAA
Found at i:14548363 original size:11 final size:11
Alignment explanation
Indices: 14548347--14548380 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
14548337 TTATAATTTG
*
14548347 TTAAATAAAAC
1 TTAAATAAAAA
14548358 TTAAATAAAAA
1 TTAAATAAAAA
*
14548369 TAAAATAAAAA
1 TTAAATAAAAA
14548380 T
1 T
14548381 ACTATCATCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (11 bp):
TTAAATAAAAA
Found at i:14548701 original size:40 final size:40
Alignment explanation
Indices: 14548664--14548778 Score: 149
Period size: 40 Copynumber: 2.9 Consensus size: 40
14548654 TGGATGCATG
*
14548664 TGCGTGCCCTTGTTTGTACTTCGGTACCCCTGAATGCACA
1 TGCGTGCCCCTGTTTGTACTTCGGTACCCCTGAATGCACA
* * * *
14548704 TACGTGCCCCTATTTGTACTCCGGTACCCCTAAATGCACA
1 TGCGTGCCCCTGTTTGTACTTCGGTACCCCTGAATGCACA
* * * *
14548744 TGCATGCCCCTGTTTATACTTTGGTAACCCTGAAT
1 TGCGTGCCCCTGTTTGTACTTCGGTACCCCTGAAT
14548779 CAAATAGTAT
Statistics
Matches: 62, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 62 1.00
ACGTcount: A:0.19, C:0.30, G:0.18, T:0.32
Consensus pattern (40 bp):
TGCGTGCCCCTGTTTGTACTTCGGTACCCCTGAATGCACA
Found at i:14563936 original size:21 final size:20
Alignment explanation
Indices: 14563906--14563944 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
14563896 ATCTTTTCTT
*
14563906 TATTTTATATATATAAATAAA
1 TATTTCATATATA-AAATAAA
*
14563927 TATTTCATATTTAAAATA
1 TATTTCATATATAAAATA
14563945 GTAAAAATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (20 bp):
TATTTCATATATAAAATAAA
Found at i:14565100 original size:13 final size:13
Alignment explanation
Indices: 14565082--14565107 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
14565072 TAGGGACACG
14565082 CCCGTGTCCCAAA
1 CCCGTGTCCCAAA
14565095 CCCGTGTCCCAAA
1 CCCGTGTCCCAAA
14565108 ACCTGGACAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.46, G:0.15, T:0.15
Consensus pattern (13 bp):
CCCGTGTCCCAAA
Found at i:14566765 original size:46 final size:46
Alignment explanation
Indices: 14566698--14566873 Score: 209
Period size: 46 Copynumber: 3.8 Consensus size: 46
14566688 CAAGCCCCGC
*
14566698 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCAT
*
14566744 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATACCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--A-C--GTTCGCAT
* * *
14566794 -C-TCAA--GAACTCGGACTCAACTCAACGAGTTCGAACATTCGCAT
1 CCAT-AAGTGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCAT
*
14566837 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
14566874 TGCTCAACCA
Statistics
Matches: 112, Mismatches: 7, Indels: 22
0.79 0.05 0.16
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 4 0.04
45 2 0.02
46 64 0.57
47 26 0.23
48 1 0.01
49 4 0.04
50 3 0.03
51 3 0.03
ACGTcount: A:0.31, C:0.29, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCAT
Found at i:14566865 original size:93 final size:93
Alignment explanation
Indices: 14566706--14566874 Score: 293
Period size: 93 Copynumber: 1.8 Consensus size: 93
14566696 GCCCATAAGT
** *
14566706 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
14566771 CGAGCTCGGATACCTAGTTACATCTCAA
66 CGAGCTCGGATACCTAGTTACATCTCAA
*
14566799 GAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
14566864 CGAGTTCGGAT
66 CGAGCTCGGAT
14566875 GCTCAACCAT
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATACCTAGTTACATCTCAA
Found at i:14581702 original size:6 final size:7
Alignment explanation
Indices: 14581683--14581708 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
14581673 TAGAATATTG
14581683 GCAAAAA
1 GCAAAAA
14581690 GCAAAAA
1 GCAAAAA
14581697 GCAAAAA
1 GCAAAAA
14581704 GCAAA
1 GCAAA
14581709 TACAAAGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.69, C:0.15, G:0.15, T:0.00
Consensus pattern (7 bp):
GCAAAAA
Found at i:14589447 original size:42 final size:42
Alignment explanation
Indices: 14589308--14589467 Score: 130
Period size: 42 Copynumber: 3.8 Consensus size: 42
14589298 TCATGTTTAC
* * * * * *
14589308 TTTTTGTTTAGCTCTCA-AGAGCTTCTGTTTAACTCATATGAG
1 TTTTCGTTCAGCTCTCACA-AGCTTCTGTTCAACCCTTATGGG
* **
14589350 TTTCCGTTCAGCTCT-ATTGAGCTTCTGTAT-AACCCTTATGGG
1 TTTTCGTTCAGCTCTCA-CAAGCTTCTGT-TCAACCCTTATGGG
*
14589392 TTTTCGTTCAGCTCTTACAAGCTTCTGTTCAACCCTTATGGG
1 TTTTCGTTCAGCTCTCACAAGCTTCTGTTCAACCCTTATGGG
* * **
14589434 TATTT-TTTTAGCTCTCATGAGCTTCTGTTCAACC
1 T-TTTCGTTCAGCTCTCACAAGCTTCTGTTCAACC
14589468 TTCGGGCTTC
Statistics
Matches: 97, Mismatches: 15, Indels: 12
0.78 0.12 0.10
Matches are distributed among these distances:
41 2 0.02
42 90 0.93
43 5 0.05
ACGTcount: A:0.18, C:0.23, G:0.16, T:0.43
Consensus pattern (42 bp):
TTTTCGTTCAGCTCTCACAAGCTTCTGTTCAACCCTTATGGG
Found at i:14617665 original size:20 final size:20
Alignment explanation
Indices: 14617629--14617669 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
14617619 ATTAACAAGT
14617629 TGATTATGTCTTGGTTTGAA
1 TGATTATGTCTTGGTTTGAA
*
14617649 TGATTGATGT-TTTGTTTGAA
1 TGATT-ATGTCTTGGTTTGAA
14617669 T
1 T
14617670 TGTGGTGCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.20, C:0.02, G:0.24, T:0.54
Consensus pattern (20 bp):
TGATTATGTCTTGGTTTGAA
Found at i:14622787 original size:6 final size:6
Alignment explanation
Indices: 14622753--14622785 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
14622743 ATAACCAATC
*
14622753 TATTTA TATTTA TATTTA TATTTA TATGTA TAT
1 TATTTA TATTTA TATTTA TATTTA TATTTA TAT
14622786 GTTTTGATGC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (6 bp):
TATTTA
Found at i:14625965 original size:19 final size:19
Alignment explanation
Indices: 14625943--14625979 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
14625933 TTTTTATGAA
14625943 AATTTTGACATTTTAAAGG
1 AATTTTGACATTTTAAAGG
**
14625962 AATTTTGAGTTTTTAAAG
1 AATTTTGACATTTTAAAG
14625980 TACCATAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.35, C:0.03, G:0.16, T:0.46
Consensus pattern (19 bp):
AATTTTGACATTTTAAAGG
Found at i:14626121 original size:20 final size:22
Alignment explanation
Indices: 14626098--14626138 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
14626088 ATAATTTTAA
*
14626098 AAAATAGTTTT-T-AGTTTTTT
1 AAAATAATTTTATGAGTTTTTT
14626118 AAAATAATTTTATGAGTTTTT
1 AAAATAATTTTATGAGTTTTT
14626139 AGATTTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 10 0.56
21 1 0.06
22 7 0.39
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.56
Consensus pattern (22 bp):
AAAATAATTTTATGAGTTTTTT
Found at i:14635773 original size:29 final size:27
Alignment explanation
Indices: 14635730--14635805 Score: 68
Period size: 29 Copynumber: 2.8 Consensus size: 27
14635720 AAAATTAGAA
* *
14635730 AAAATTATAAAAAAATTTAGAAAAATT
1 AAAATTTTAATAAAATTTAGAAAAATT
*
14635757 ATTAAATTTTAATAAAAATATA-AAAAATT
1 A--AAATTTTAAT-AAAATTTAGAAAAATT
*
14635786 AAAA-TTTATTAAAA-TTAGAA
1 AAAATTTTAATAAAATTTAGAA
14635806 TTTTTTTATG
Statistics
Matches: 40, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
24 2 0.05
25 6 0.15
26 5 0.12
27 4 0.10
29 16 0.40
30 7 0.17
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (27 bp):
AAAATTTTAATAAAATTTAGAAAAATT
Found at i:14635787 original size:19 final size:19
Alignment explanation
Indices: 14635714--14635789 Score: 64
Period size: 21 Copynumber: 3.8 Consensus size: 19
14635704 GCCCCTACTC
*
14635714 TTATTAAAAATTAGAAAAAA
1 TTATAAAAAATTA-AAAAAA
*
14635734 TTATAAAAAAATTTAGAAAAA
1 TTAT-AAAAAA-TTAAAAAAA
* **
14635755 TTATTAAATTTTAATAAAAA
1 TTATAAAAAATTAA-AAAAA
14635775 -TATAAAAAATTAAAA
1 TTATAAAAAATTAAAA
14635790 TTTATTAAAA
Statistics
Matches: 44, Mismatches: 9, Indels: 8
0.72 0.15 0.13
Matches are distributed among these distances:
18 2 0.05
19 13 0.30
20 12 0.27
21 14 0.32
22 3 0.07
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (19 bp):
TTATAAAAAATTAAAAAAA
Found at i:14636057 original size:28 final size:27
Alignment explanation
Indices: 14636026--14636117 Score: 96
Period size: 28 Copynumber: 3.3 Consensus size: 27
14636016 TTTTACAAAA
* *
14636026 TTTATATTTCTTTACAATTTTTTATGAT
1 TTTATATAT-TTTATAATTTTTTATGAT
*
14636054 TTTATAAAATTTTATAATTTTTTTAT-AT
1 TTTAT-ATATTTTATAA-TTTTTTATGAT
*
14636082 TTCTATATATTTTATAATTTTTTACGAT
1 TT-TATATATTTTATAATTTTTTATGAT
*
14636110 TTTTTATA
1 TTTATATA
14636118 AAATTTTACA
Statistics
Matches: 54, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
27 12 0.22
28 29 0.54
29 13 0.24
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.64
Consensus pattern (27 bp):
TTTATATATTTTATAATTTTTTATGAT
Found at i:14636076 original size:10 final size:10
Alignment explanation
Indices: 14636026--14636118 Score: 54
Period size: 10 Copynumber: 9.7 Consensus size: 10
14636016 TTTTACAAAA
14636026 TTTAT-ATTT
1 TTTATAATTT
*
14636035 CTTTACAATTT
1 -TTTATAATTT
*
14636046 TTTATGA--T
1 TTTATAATTT
**
14636054 TTTATAAAAT
1 TTTATAATTT
14636064 TTTATAATTT
1 TTTATAATTT
14636074 TTT-T-ATATT
1 TTTATAAT-TT
* *
14636083 TCTAT-ATAT
1 TTTATAATTT
14636092 TTTATAATTT
1 TTTATAATTT
**
14636102 TTTACGATTT
1 TTTATAATTT
14636112 TTTATAA
1 TTTATAA
14636119 AATTTTACAA
Statistics
Matches: 63, Mismatches: 14, Indels: 12
0.71 0.16 0.13
Matches are distributed among these distances:
8 9 0.14
9 10 0.16
10 40 0.63
11 4 0.06
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.63
Consensus pattern (10 bp):
TTTATAATTT
Found at i:14636076 original size:20 final size:20
Alignment explanation
Indices: 14636053--14636135 Score: 64
Period size: 20 Copynumber: 4.2 Consensus size: 20
14636043 TTTTTTATGA
14636053 TTTTATAAAATTTTATAATT
1 TTTTATAAAATTTTATAATT
* *
14636073 TTTT-T-ATATTTCTAT-ATA
1 TTTTATAAAATTT-TATAATT
** **
14636091 TTTTATAATTTTTTACGATT
1 TTTTATAAAATTTTATAATT
*
14636111 TTTTATAAAATTTTACAAATT
1 TTTTATAAAATTTTA-TAATT
14636132 TTTT
1 TTTT
14636136 TTATATATTT
Statistics
Matches: 49, Mismatches: 9, Indels: 9
0.73 0.13 0.13
Matches are distributed among these distances:
18 11 0.22
19 7 0.14
20 24 0.49
21 7 0.14
ACGTcount: A:0.33, C:0.04, G:0.01, T:0.63
Consensus pattern (20 bp):
TTTTATAAAATTTTATAATT
Found at i:14636183 original size:16 final size:16
Alignment explanation
Indices: 14636162--14636193 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
14636152 CGATTTATAT
*
14636162 ATATTTATAATTTTTA
1 ATATTTAAAATTTTTA
14636178 ATATTTAAAATTTTTA
1 ATATTTAAAATTTTTA
14636194 TTAAAATTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
ATATTTAAAATTTTTA
Found at i:14636421 original size:90 final size:89
Alignment explanation
Indices: 14636270--14636472 Score: 250
Period size: 90 Copynumber: 2.3 Consensus size: 89
14636260 ATAAAAGCAA
* * * *
14636270 GGGCTTAATTAAAATTTTTTT--AAAGTTTGAGGGTCTTTTTGATACATTTTGAAAGTTCAAGTA
1 GGGCTTAATT--ACTTTTTTTGAAAAGTTTGAGAGCCTTTTTGATACATTTTGAAAATTCAAGTA
* **
14636333 CCCAATTGAGTG-CAAAAAAATTTAG
64 CCCAAATGAGTGCCAAAAAAAAATAG
*
14636358 GGGCTTAATTACTTTTTTTTGAAAAGATTTGAGAGCCTTTTTGATGCATTTTGAAAATTCAAGTA
1 GGGCTTAATTAC-TTTTTTTGAAAAG-TTTGAGAGCCTTTTTGATACATTTTGAAAATTCAAGTA
14636423 CCCAAATGAGTGCCAAAAAAAAATAG
64 CCCAAATGAGTGCCAAAAAAAAATAG
** *
14636449 AAGCTTAATTGCTTTTTTTGAAAA
1 GGGCTTAATTACTTTTTTTGAAAA
14636473 AAATTGTGAG
Statistics
Matches: 99, Mismatches: 11, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
86 1 0.01
87 7 0.07
88 10 0.10
89 4 0.04
90 57 0.58
91 20 0.20
ACGTcount: A:0.35, C:0.10, G:0.17, T:0.37
Consensus pattern (89 bp):
GGGCTTAATTACTTTTTTTGAAAAGTTTGAGAGCCTTTTTGATACATTTTGAAAATTCAAGTACC
CAAATGAGTGCCAAAAAAAAATAG
Found at i:14639615 original size:15 final size:15
Alignment explanation
Indices: 14639564--14639611 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
14639554 TTACACCATG
*
14639564 TTATATTTTAGTTAT
1 TTATATTTTAATTAT
* *
14639579 TTATATTTGAAATA-
1 TTATATTTTAATTAT
*
14639593 TTATGTTTTAATTAT
1 TTATATTTTAATTAT
14639608 TTAT
1 TTAT
14639612 GTTTATTATG
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
14 11 0.42
15 15 0.58
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.62
Consensus pattern (15 bp):
TTATATTTTAATTAT
Found at i:14639622 original size:24 final size:24
Alignment explanation
Indices: 14639591--14639638 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
14639581 ATATTTGAAA
*
14639591 TATTATGTTTTAATTATTTATGTT
1 TATTATGTTTTAATTACTTATGTT
14639615 TATTATGTTTTAATTACTTATGTT
1 TATTATGTTTTAATTACTTATGTT
14639639 ATCGTATTGT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.25, C:0.02, G:0.08, T:0.65
Consensus pattern (24 bp):
TATTATGTTTTAATTACTTATGTT
Found at i:14639875 original size:6 final size:6
Alignment explanation
Indices: 14639864--14639891 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
14639854 TTTAACCCAT
14639864 AAAAGA AAAAGA AAAAGA AAAAGA AAAA
1 AAAAGA AAAAGA AAAAGA AAAAGA AAAA
14639892 AGAACGCGAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (6 bp):
AAAAGA
Found at i:14642544 original size:144 final size:144
Alignment explanation
Indices: 14642284--14642564 Score: 526
Period size: 144 Copynumber: 2.0 Consensus size: 144
14642274 CACCTATTTG
14642284 GTTTGAAGGTTCTAATGTCAAATATTACCCTTTGTCTGAAAAAACTCATTGTCAAGGGCTTTTTG
1 GTTTGAAGGTTCTAATGTCAAATATTACCCTTTGTCTGAAAAAACTCATTGTCAAGGGCTTTTTG
*
14642349 TTTAGCATTACACCATGTTACCGGAACTAGGGCCTGAAGTTTATTCTCATGAATGGTTAGCAATC
66 TTTAGCATTACACCATGTTACCGGAACTAGGGCCTGAAGTTTATTCTCATGAAGGGTTAGCAATC
14642414 CTTTGGCCCGAACA
131 CTTTGGCCCGAACA
* * *
14642428 GTTTGAAGGTTCTAATGTCAAATATTACCTTTTGTCTGTAAAAGCTCATTGTCAAGGGCTTTTTG
1 GTTTGAAGGTTCTAATGTCAAATATTACCCTTTGTCTGAAAAAACTCATTGTCAAGGGCTTTTTG
14642493 TTTAGCATTACACCATGTTACCGGAACTAGGGCCTGAAGTTTATTCTCATGAAGGGTTAGCAATC
66 TTTAGCATTACACCATGTTACCGGAACTAGGGCCTGAAGTTTATTCTCATGAAGGGTTAGCAATC
14642558 CTTTGGC
131 CTTTGGC
14642565 GTGAATAGTT
Statistics
Matches: 133, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
144 133 1.00
ACGTcount: A:0.26, C:0.19, G:0.20, T:0.35
Consensus pattern (144 bp):
GTTTGAAGGTTCTAATGTCAAATATTACCCTTTGTCTGAAAAAACTCATTGTCAAGGGCTTTTTG
TTTAGCATTACACCATGTTACCGGAACTAGGGCCTGAAGTTTATTCTCATGAAGGGTTAGCAATC
CTTTGGCCCGAACA
Found at i:14646917 original size:65 final size:65
Alignment explanation
Indices: 14646813--14646943 Score: 262
Period size: 65 Copynumber: 2.0 Consensus size: 65
14646803 ATTGCTATAA
14646813 CCCAAAAAGAAAACATAGACAAAAGTTAGTGATTTTTCCATAAAACCCATGAATTTGTAAACCCC
1 CCCAAAAAGAAAACATAGACAAAAGTTAGTGATTTTTCCATAAAACCCATGAATTTGTAAACCCC
14646878 CCCAAAAAGAAAACATAGACAAAAGTTAGTGATTTTTCCATAAAACCCATGAATTTGTAAACCCC
1 CCCAAAAAGAAAACATAGACAAAAGTTAGTGATTTTTCCATAAAACCCATGAATTTGTAAACCCC
14646943 C
1 C
14646944 GTTTGAAAAG
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
65 66 1.00
ACGTcount: A:0.44, C:0.22, G:0.11, T:0.23
Consensus pattern (65 bp):
CCCAAAAAGAAAACATAGACAAAAGTTAGTGATTTTTCCATAAAACCCATGAATTTGTAAACCCC
Found at i:14650196 original size:7 final size:7
Alignment explanation
Indices: 14650177--14650236 Score: 50
Period size: 7 Copynumber: 8.0 Consensus size: 7
14650167 AAAATTTCAA
14650177 AAAATAT
1 AAAATAT
14650184 -AAATAT
1 AAAATAT
14650190 AAAATATT
1 AAAATA-T
**
14650198 TTAATAT
1 AAAATAT
14650205 AATTTAATAT
1 AA---AATAT
14650215 AAAAATAT
1 -AAAATAT
14650223 AAAATAT
1 AAAATAT
14650230 AAAATAT
1 AAAATAT
14650237 TTTATATTTA
Statistics
Matches: 43, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
6 6 0.14
7 20 0.47
8 10 0.23
10 5 0.12
11 2 0.05
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (7 bp):
AAAATAT
Found at i:14656916 original size:17 final size:17
Alignment explanation
Indices: 14656896--14656960 Score: 53
Period size: 17 Copynumber: 3.6 Consensus size: 17
14656886 TTTTAATTAC
*
14656896 TGTTATTATTATATTTT
1 TGTTATTATTATATTTA
*
14656913 TGTTA-TACTTATATATA
1 TGTTATTA-TTATATTTA
14656930 TGTATATTATATATATTATA
1 TGT-TATTAT-TATATT-TA
14656950 TAG-TATTATTA
1 T-GTTATTATTA
14656961 ATAGTTATAC
Statistics
Matches: 39, Mismatches: 3, Indels: 11
0.74 0.06 0.21
Matches are distributed among these distances:
16 2 0.05
17 15 0.38
18 5 0.13
19 13 0.33
20 3 0.08
21 1 0.03
ACGTcount: A:0.34, C:0.02, G:0.06, T:0.58
Consensus pattern (17 bp):
TGTTATTATTATATTTA
Found at i:14657415 original size:24 final size:24
Alignment explanation
Indices: 14657369--14657415 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
14657359 CCTTAATACT
* *
14657369 ATATCATTTTTATTTTTATTTTTC
1 ATATCATTCTTATGTTTATTTTTC
14657393 ATATCA-TCTTATGTTTATGTTTT
1 ATATCATTCTTATGTTTAT-TTTT
14657416 TAAAACTATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 10 0.50
24 10 0.50
ACGTcount: A:0.21, C:0.09, G:0.04, T:0.66
Consensus pattern (24 bp):
ATATCATTCTTATGTTTATTTTTC
Found at i:14657626 original size:3 final size:3
Alignment explanation
Indices: 14657613--14657724 Score: 52
Period size: 3 Copynumber: 37.3 Consensus size: 3
14657603 TTCCTATCCT
* ** * * *
14657613 TTA TATA TTA TTA TTG TTA TTA ACA TACA TTA TTA TTA TCA AT- TTA
1 TTA T-TA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA
* * * *
14657659 CTA TTAA TT- TTA CTT- TTA TTA TTA CTA CTA -TA TTA TTA TTA TTG
1 TTA TT-A TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
14657703 TCA TTA TCA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA T
14657725 CATATTTATA
Statistics
Matches: 82, Mismatches: 19, Indels: 16
0.70 0.16 0.14
Matches are distributed among these distances:
2 7 0.09
3 64 0.78
4 11 0.13
ACGTcount: A:0.33, C:0.08, G:0.02, T:0.57
Consensus pattern (3 bp):
TTA
Found at i:14657778 original size:3 final size:3
Alignment explanation
Indices: 14657770--14657798 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
14657760 ATTTTTTACC
14657770 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
14657799 ACATATCCTT
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:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:14657963 original size:3 final size:3
Alignment explanation
Indices: 14657955--14658010 Score: 62
Period size: 3 Copynumber: 18.3 Consensus size: 3
14657945 TATCTCTAAC
14657955 TAT TAT TAT TAT T-T TAT ATAT ATAT TAT TAT CTA- TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT -TAT -TAT TAT TAT -TAT TAT TAT TAT TAT
*
14658001 TAC TAT TAT T
1 TAT TAT TAT T
14658011 CTTTATTGTC
Statistics
Matches: 47, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
2 4 0.09
3 34 0.72
4 9 0.19
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:14661582 original size:16 final size:17
Alignment explanation
Indices: 14661560--14661594 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
14661550 ACTTAGATTG
* *
14661560 AAAAAATAATTTAATTT
1 AAAAATTAATTAAATTT
14661577 AAAAATTAATTAAATTT
1 AAAAATTAATTAAATTT
14661594 A
1 A
14661595 TTTTAAATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
AAAAATTAATTAAATTT
Found at i:14663085 original size:49 final size:49
Alignment explanation
Indices: 14662976--14663093 Score: 139
Period size: 49 Copynumber: 2.4 Consensus size: 49
14662966 TTAGATGCAT
* * *
14662976 GAGAGAGCTTGCGAAAAGTAAAAATTATAACCTTACTCCTAGACGCATA
1 GAGAGAGCTTACGAAAAGTAAAAATTATAACCCTACTCCTAGACACATA
* * * *
14663025 G-GGGAGGCTTACGGAAAGTAAAAATTATAACCCTGCTCCTAGACATATA
1 GAGAGA-GCTTACGAAAAGTAAAAATTATAACCCTACTCCTAGACACATA
* *
14663074 GAGAGAACTTACAAAAAGTA
1 GAGAGAGCTTACGAAAAGTA
14663094 GTAATAATGG
Statistics
Matches: 56, Mismatches: 11, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
48 3 0.05
49 50 0.89
50 3 0.05
ACGTcount: A:0.42, C:0.17, G:0.20, T:0.21
Consensus pattern (49 bp):
GAGAGAGCTTACGAAAAGTAAAAATTATAACCCTACTCCTAGACACATA
Found at i:14663328 original size:195 final size:194
Alignment explanation
Indices: 14662995--14663352 Score: 490
Period size: 195 Copynumber: 1.8 Consensus size: 194
14662985 TGCGAAAAGT
* * * *
14662995 AAAAATTATAACCTTACTCCTAGACGCATAGGGGAGGCTTACGGAAAGTAAAAATTATAACCCTG
1 AAAAATTATAACCCTACTCCTAAACGCATAGGGGAGGCTTACAGAAAGAAAAAATTATAACCCTG
* * *
14663060 CTCCTAGACATATAGAGAGAACTTACAAAAAGTAGTAATAATGGCCCTGCTCTCAGATTCATGAA
66 CTCCTAGACACATAGAGAGAACTTACAAAAAGTAATAATAATGGCCCTGCTCTCAGATGCATG-A
* *
14663125 GGAGGCTTA-TGAGAAGTAGTAATAATGGCCCTACTCCCATACTCATAGGGGGATACGAAAATTA
130 GGAGGCTTACGGA-AAGTAATAATAATGGCCCTACTCCCATACTCATAGGGGGATACGAAAATTA
14663189 A
194 A
* **
14663190 AAAAATTATAACCCTACTCCTAAACGCATAGGGGAGGCTTATAGAAAGAAAAAAAATTATAACTT
1 AAAAATTATAACCCTACTCCTAAACGCATAGGGGAGGCTTACAGAAAG--AAAAAATTATAACCC
* * * *
14663255 TGCTCTTAGACACATAGGGAGAATTTACAAAAAGTAATAATAATGGCACC-GCTC-CATATGCAT
64 TGCTCCTAGACACATAGAGAGAACTTACAAAAAGTAATAATAATGGC-CCTGCTCTCAGATGCAT
14663318 G-GGAAGGCTTACGGAAAGTAATAATAATGGCCCTA
128 GAGG-AGGCTTACGGAAAGTAATAATAATGGCCCTA
14663353 TTCCAAGATG
Statistics
Matches: 142, Mismatches: 16, Indels: 10
0.85 0.10 0.06
Matches are distributed among these distances:
194 2 0.01
195 70 0.49
196 10 0.07
197 58 0.41
198 2 0.01
ACGTcount: A:0.40, C:0.18, G:0.19, T:0.23
Consensus pattern (194 bp):
AAAAATTATAACCCTACTCCTAAACGCATAGGGGAGGCTTACAGAAAGAAAAAATTATAACCCTG
CTCCTAGACACATAGAGAGAACTTACAAAAAGTAATAATAATGGCCCTGCTCTCAGATGCATGAG
GAGGCTTACGGAAAGTAATAATAATGGCCCTACTCCCATACTCATAGGGGGATACGAAAATTAA
Found at i:14663440 original size:49 final size:48
Alignment explanation
Indices: 14663279--14663482 Score: 146
Period size: 49 Copynumber: 4.2 Consensus size: 48
14663269 TAGGGAGAAT
* * * **
14663279 TTACAAAAAGTAATAATAATGGCACC-GCTCCATATGCAT--GGGAAGGC
1 TTACGAAAAGTAGTAATAATGGC-CCTGCTCCAAACACATGAGGGAA-GC
* * ** ** * *
14663326 TTACGGAAAGTAATAATAATGGCCCTATTCCAAGATGCATTG-GAGGAGGT
1 TTACGAAAAGTAGTAATAATGGCCCTGCTCCAA-ACACA-TGAG-GGAAGC
* * * *
14663376 TTACAAAAAGTAGTAATAATGGCCTTGCTCGTAAACACATGGGGGAAGC
1 TTACGAAAAGTAGTAATAATGGCCCTGCTC-CAAACACATGAGGGAAGC
** *
14663425 TTACGAAAAGTAGTAATAATGGCCCTGCTCCAAATGCATGAGGGAAGT
1 TTACGAAAAGTAGTAATAATGGCCCTGCTCCAAACACATGAGGGAAGC
14663473 TTACGAAAAG
1 TTACGAAAAG
14663483 AATAAAAATA
Statistics
Matches: 125, Mismatches: 25, Indels: 13
0.77 0.15 0.08
Matches are distributed among these distances:
46 2 0.02
47 25 0.20
48 28 0.22
49 35 0.28
50 30 0.24
51 5 0.04
ACGTcount: A:0.37, C:0.16, G:0.24, T:0.23
Consensus pattern (48 bp):
TTACGAAAAGTAGTAATAATGGCCCTGCTCCAAACACATGAGGGAAGC
Found at i:14668123 original size:20 final size:19
Alignment explanation
Indices: 14668098--14668147 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
14668088 GAATTGTTAG
14668098 AAATCAAAGCAT-TTAACTTC
1 AAATCAAAG-ATATTAAC-TC
*
14668118 AAATCAGAGATATTAACTC
1 AAATCAAAGATATTAACTC
*
14668137 AAATCATAGAT
1 AAATCAAAGAT
14668148 TCATGTCTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
19 14 0.52
20 13 0.48
ACGTcount: A:0.48, C:0.16, G:0.08, T:0.28
Consensus pattern (19 bp):
AAATCAAAGATATTAACTC
Found at i:14668140 original size:19 final size:20
Alignment explanation
Indices: 14668110--14668147 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
14668100 ATCAAAGCAT
14668110 TTAACTTCAAATCAGAGATA
1 TTAACTTCAAATCAGAGATA
*
14668130 TTAAC-TCAAATCATAGAT
1 TTAACTTCAAATCAGAGAT
14668148 TCATGTCTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.45, C:0.16, G:0.08, T:0.32
Consensus pattern (20 bp):
TTAACTTCAAATCAGAGATA
Found at i:14669114 original size:26 final size:26
Alignment explanation
Indices: 14669084--14669134 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
14669074 ACATCCCTCC
14669084 TTACTGTCCACCCTCACATCAAATGT
1 TTACTGTCCACCCTCACATCAAATGT
*
14669110 TTACTGTCCACCCTCACATTAAATG
1 TTACTGTCCACCCTCACATCAAATG
14669135 AACTTCTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.27, C:0.33, G:0.08, T:0.31
Consensus pattern (26 bp):
TTACTGTCCACCCTCACATCAAATGT
Found at i:14671279 original size:29 final size:30
Alignment explanation
Indices: 14671211--14671279 Score: 68
Period size: 30 Copynumber: 2.3 Consensus size: 30
14671201 GCCCTTCAAC
* * * *
14671211 TTTTTTATATTTATACTTTAATCCCTTAAA
1 TTTTTTATATTTACACTTGAATCACTAAAA
** *
14671241 TTTTAAATATTTACACTTGGATCAC-AAAA
1 TTTTTTATATTTACACTTGAATCACTAAAA
14671270 TTTTTTATAT
1 TTTTTTATAT
14671280 CTTTACTATT
Statistics
Matches: 30, Mismatches: 9, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
29 11 0.37
30 19 0.63
ACGTcount: A:0.33, C:0.12, G:0.03, T:0.52
Consensus pattern (30 bp):
TTTTTTATATTTACACTTGAATCACTAAAA
Found at i:14673173 original size:24 final size:24
Alignment explanation
Indices: 14673146--14673194 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
14673136 AAAAATTAAT
14673146 TACATGTGTATAAAGTATAATACA
1 TACATGTGTATAAAGTATAATACA
14673170 TACATGTGTATAAAGTATAATACA
1 TACATGTGTATAAAGTATAATACA
14673194 T
1 T
14673195 GTAATACCCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.45, C:0.08, G:0.12, T:0.35
Consensus pattern (24 bp):
TACATGTGTATAAAGTATAATACA
Found at i:14673687 original size:18 final size:20
Alignment explanation
Indices: 14673645--14673681 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
14673635 ATATTTTATG
*
14673645 ATTA-TTTAATTAGATATAT
1 ATTATTTTAATGAGATATAT
14673664 ATTATTTTAATGAGATAT
1 ATTATTTTAATGAGATAT
14673682 TTTATTATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (20 bp):
ATTATTTTAATGAGATATAT
Found at i:14673699 original size:11 final size:11
Alignment explanation
Indices: 14673678--14673716 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
14673668 TTTTAATGAG
14673678 ATATT-TTATT
1 ATATTATTATT
14673688 ATATTATTATT
1 ATATTATTATT
*
14673699 ATTTTATTATT
1 ATATTATTATT
14673710 A-ATTATT
1 ATATTATT
14673717 TAGTATAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
10 10 0.38
11 16 0.62
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (11 bp):
ATATTATTATT
Found at i:14675851 original size:16 final size:15
Alignment explanation
Indices: 14675813--14675842 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
14675803 AAATGTGTAA
14675813 GACCATGGTTGAAAG
1 GACCATGGTTGAAAG
14675828 GACCATGGTTGAAAG
1 GACCATGGTTGAAAG
14675843 ATACCATGGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.13, G:0.33, T:0.20
Consensus pattern (15 bp):
GACCATGGTTGAAAG
Found at i:14675895 original size:46 final size:46
Alignment explanation
Indices: 14675828--14676037 Score: 296
Period size: 46 Copynumber: 4.6 Consensus size: 46
14675818 TGGTTGAAAG
*
14675828 GACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAA
1 GACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGAGTAA
*
14675874 GACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAA
1 GACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGAGTAA
* **
14675920 GACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGAACAA
1 GACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGAGTAA
** * *
14675966 GACCATGGTTGAAAGATACCATGGCAATATGACA-GAAAATAAGTAA
1 GACCATGGTTGAAAGATACCATGGCAACCTGATATG-AAATGAGTAA
* * *
14676012 GACCATAGTTGAAAGACACTATGGCA
1 GACCATGGTTGAAAGATACCATGGCA
14676038 TCATGTCAAA
Statistics
Matches: 150, Mismatches: 13, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
45 1 0.01
46 149 0.99
ACGTcount: A:0.40, C:0.15, G:0.23, T:0.21
Consensus pattern (46 bp):
GACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGAGTAA
Found at i:14678963 original size:11 final size:11
Alignment explanation
Indices: 14678942--14678980 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
14678932 TTTTAATGAG
14678942 ATATT-TTATT
1 ATATTATTATT
14678952 ATATTATTATT
1 ATATTATTATT
*
14678963 ATTTTATTATT
1 ATATTATTATT
14678974 A-ATTATT
1 ATATTATT
14678981 TAGTATAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
10 10 0.38
11 16 0.62
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (11 bp):
ATATTATTATT
Found at i:14681116 original size:16 final size:15
Alignment explanation
Indices: 14681078--14681107 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
14681068 AAATGTATAA
14681078 GACCATGGTTGAAAG
1 GACCATGGTTGAAAG
14681093 GACCATGGTTGAAAG
1 GACCATGGTTGAAAG
14681108 ATACCATGGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.13, G:0.33, T:0.20
Consensus pattern (15 bp):
GACCATGGTTGAAAG
Found at i:14681160 original size:46 final size:46
Alignment explanation
Indices: 14681093--14681261 Score: 223
Period size: 46 Copynumber: 3.7 Consensus size: 46
14681083 TGGTTGAAAG
* *
14681093 GACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAA
1 GACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGAGTAA
* **
14681139 GACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGAACAA
1 GACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGAGTAA
* *
14681185 GACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAATAAGTAA
1 GACCATGGTTGAAAGATACCATGGCAACATGATATG-AAATGAGTAA
* * * *
14681231 GACCATAGTTGAAAGACACTATGGCATCATG
1 GACCATGGTTGAAAGATACCATGGCAACATG
14681262 TCAAAGATAA
Statistics
Matches: 109, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
45 1 0.01
46 108 0.99
ACGTcount: A:0.40, C:0.16, G:0.23, T:0.21
Consensus pattern (46 bp):
GACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGAGTAA
Done.