Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr3
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: 36364294
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2168405 characters in sequence are not A, C, G, or T
File 82 of 91
Found at i:30911374 original size:30 final size:31
Alignment explanation
Indices: 30911309--30911379 Score: 83
Period size: 31 Copynumber: 2.3 Consensus size: 31
30911299 GAGTAAAATT
* **
30911309 AATTATTAAATAAAAAAATTATTATTTGATT
1 AATTATTAAAGAAAAAAATTATTATTTGAAG
*
30911340 AATTATTAAAGAAAAAACTTA-T-TTTGAGAG
1 AATTATTAAAGAAAAAAATTATTATTTGA-AG
30911370 AATTATTAAA
1 AATTATTAAA
30911380 AATATATATA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
29 5 0.14
30 11 0.31
31 19 0.54
ACGTcount: A:0.52, C:0.01, G:0.07, T:0.39
Consensus pattern (31 bp):
AATTATTAAAGAAAAAAATTATTATTTGAAG
Found at i:30924407 original size:5 final size:5
Alignment explanation
Indices: 30924397--30924424 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
30924387 GGTCTTCTTT
30924397 CCCAA CCCAA CCCAA CCCAA CCCAA CCC
1 CCCAA CCCAA CCCAA CCCAA CCCAA CCC
30924425 TCAGCCTAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.36, C:0.64, G:0.00, T:0.00
Consensus pattern (5 bp):
CCCAA
Found at i:30935965 original size:3 final size:3
Alignment explanation
Indices: 30935959--30935987 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
30935949 TTGTTGTTGT
30935959 TGA TGA TGA TGA TGA TGA TGA TGA TGA TG
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TG
30935988 GTGAGAATAA
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:0.31, C:0.00, G:0.34, T:0.34
Consensus pattern (3 bp):
TGA
Found at i:30936177 original size:26 final size:26
Alignment explanation
Indices: 30936142--30936192 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 26
30936132 TCTATATGAG
30936142 CTTTTTCC-TTG-TAGCTTTTCTTTTC
1 CTTTTTCCTTTGCT-GCTTTTCTTTTC
30936167 CTTTTCTCCTTTGCTGCTTTTCTTTT
1 CTTTT-TCCTTTGCTGCTTTTCTTTT
30936193 TTCTAATGGG
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
25 5 0.22
26 3 0.13
27 14 0.61
28 1 0.04
ACGTcount: A:0.02, C:0.25, G:0.08, T:0.65
Consensus pattern (26 bp):
CTTTTTCCTTTGCTGCTTTTCTTTTC
Found at i:30937361 original size:3 final size:3
Alignment explanation
Indices: 30937353--30937384 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
30937343 TCCGGCTCCT
30937353 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
30937385 TTTAAAAAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:30940380 original size:37 final size:37
Alignment explanation
Indices: 30940330--30940408 Score: 158
Period size: 37 Copynumber: 2.1 Consensus size: 37
30940320 TCAACATGTA
30940330 AGTTATAGAGAATGCTAGTTCTCGTAATAGTATATGG
1 AGTTATAGAGAATGCTAGTTCTCGTAATAGTATATGG
30940367 AGTTATAGAGAATGCTAGTTCTCGTAATAGTATATGG
1 AGTTATAGAGAATGCTAGTTCTCGTAATAGTATATGG
30940404 AGTTA
1 AGTTA
30940409 GGTTGATCCC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 42 1.00
ACGTcount: A:0.33, C:0.08, G:0.24, T:0.35
Consensus pattern (37 bp):
AGTTATAGAGAATGCTAGTTCTCGTAATAGTATATGG
Found at i:30949591 original size:20 final size:21
Alignment explanation
Indices: 30949563--30949621 Score: 66
Period size: 23 Copynumber: 2.8 Consensus size: 21
30949553 AGTACTGAAA
* *
30949563 TTTTAAAATAATTTT-TCAAC
1 TTTTTAAATAATTTTAACAAC
30949583 TTTTTAAATACATTTTCAACAAC
1 TTTTTAAATA-ATTTT-AACAAC
*
30949606 TTTTTATATAATTTTA
1 TTTTTAAATAATTTTA
30949622 GTAATTTAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
20 9 0.27
21 6 0.18
22 5 0.15
23 13 0.39
ACGTcount: A:0.37, C:0.10, G:0.00, T:0.53
Consensus pattern (21 bp):
TTTTTAAATAATTTTAACAAC
Found at i:30953601 original size:21 final size:20
Alignment explanation
Indices: 30953564--30953602 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
30953554 CTACCAAATA
*
30953564 TTATAATATTAACATATAAG
1 TTATAATATTAAAATATAAG
*
30953584 TTATATTATTTAAAATATA
1 TTATAATA-TTAAAATATA
30953603 TAACTTATCA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (20 bp):
TTATAATATTAAAATATAAG
Found at i:30958965 original size:22 final size:22
Alignment explanation
Indices: 30958940--30958982 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
30958930 ATTTGTAGGT
*
30958940 ATTGTGTAATTAATTTTTAGAC
1 ATTGTGTAACTAATTTTTAGAC
* *
30958962 ATTGTGTGACTGATTTTTAGA
1 ATTGTGTAACTAATTTTTAGA
30958983 TATTACGTGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.28, C:0.05, G:0.19, T:0.49
Consensus pattern (22 bp):
ATTGTGTAACTAATTTTTAGAC
Found at i:30958992 original size:22 final size:22
Alignment explanation
Indices: 30958952--30958998 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
30958942 TGTGTAATTA
**
30958952 ATTTTTAGACATTGTGTGACTG
1 ATTTTTAGACATTACGTGACTG
* *
30958974 ATTTTTAGATATTACGTGATTG
1 ATTTTTAGACATTACGTGACTG
30958996 ATT
1 ATT
30958999 GATATAACAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.26, C:0.06, G:0.19, T:0.49
Consensus pattern (22 bp):
ATTTTTAGACATTACGTGACTG
Found at i:30959068 original size:23 final size:23
Alignment explanation
Indices: 30959025--30959068 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
30959015 AGTAGTTCGT
* * *
30959025 AGGTATTGCGTTACTGGTTAGTA
1 AGGTATTGCGTGAATGATTAGTA
30959048 AGGTATTGCGTGAATGATTAG
1 AGGTATTGCGTGAATGATTAG
30959069 AAATGCATTA
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:0.25, C:0.07, G:0.32, T:0.36
Consensus pattern (23 bp):
AGGTATTGCGTGAATGATTAGTA
Found at i:30959091 original size:23 final size:23
Alignment explanation
Indices: 30959065--30959108 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
30959055 GCGTGAATGA
*
30959065 TTAGAAATGCATTATGTGACTAG
1 TTAGAAAGGCATTATGTGACTAG
* *
30959088 TTAGAAAGGTATTTTGTGACT
1 TTAGAAAGGCATTATGTGACT
30959109 TAGGTATTAC
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:0.32, C:0.07, G:0.23, T:0.39
Consensus pattern (23 bp):
TTAGAAAGGCATTATGTGACTAG
Found at i:30959161 original size:22 final size:21
Alignment explanation
Indices: 30959136--30959189 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
30959126 TTAGTCATGT
*
30959136 AATGTCTAAAACTCAGTTATAC
1 AATGTCTAAAA-TCAGTTACAC
*
30959158 AATGCCTAAAATCAGTTACAC
1 AATGTCTAAAATCAGTTACAC
*
30959179 AATATCTAAAA
1 AATGTCTAAAA
30959190 ACTAGAGAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
21 18 0.64
22 10 0.36
ACGTcount: A:0.46, C:0.19, G:0.07, T:0.28
Consensus pattern (21 bp):
AATGTCTAAAATCAGTTACAC
Found at i:30959249 original size:22 final size:22
Alignment explanation
Indices: 30959224--30959275 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 22
30959214 CGTAATGCAT
* *
30959224 AAAAATCAATCTCACAATACCC
1 AAAAATCAATCACACAATACCA
* * *
30959246 AAAAATTAATGACACAATACTA
1 AAAAATCAATCACACAATACCA
30959268 AAAAATCA
1 AAAAATCA
30959276 GTAATACAAT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.58, C:0.21, G:0.02, T:0.19
Consensus pattern (22 bp):
AAAAATCAATCACACAATACCA
Found at i:30965819 original size:2 final size:2
Alignment explanation
Indices: 30965812--30965848 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
30965802 TACCAATTGA
30965812 AT AT AT AT AT AT 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 AT AT AT AT AT AT A
30965849 GTGTTATAGC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:30973332 original size:45 final size:45
Alignment explanation
Indices: 30973257--30973351 Score: 120
Period size: 45 Copynumber: 2.1 Consensus size: 45
30973247 AACTAACAAC
* * * * * *
30973257 ATTT-AGTTATAAGTGTTTACTTGTTTGAAAATAGAAATATAAGA
1 ATTTGAGTTATAAGAGCTTACTTGCTCGAAAATAAAAATATAAAA
*
30973301 ATTTGAGTTATAAGAGCTTATTTGCTCGAAAATAAAAATATAAAA
1 ATTTGAGTTATAAGAGCTTACTTGCTCGAAAATAAAAATATAAAA
30973346 ATTTGA
1 ATTTGA
30973352 TTCAATATAA
Statistics
Matches: 43, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
44 4 0.09
45 39 0.91
ACGTcount: A:0.43, C:0.04, G:0.15, T:0.38
Consensus pattern (45 bp):
ATTTGAGTTATAAGAGCTTACTTGCTCGAAAATAAAAATATAAAA
Found at i:30976057 original size:73 final size:75
Alignment explanation
Indices: 30975980--30976121 Score: 216
Period size: 75 Copynumber: 1.9 Consensus size: 75
30975970 AAACCTATTC
* * * **
30975980 TTATAAATATGTATTTATTAAATGATGATC-TTTGAAATA-TTTTTATTATAATTATTAGTAAGA
1 TTATAAATATGTATTCATCAAATAATGATCATTAAAAATATTTTTTATTATAATTATTAGTAAGA
30976043 TTTAAACCTA
66 TTTAAACCTA
*
30976053 TTATAAATGTGTATTCATCAAATAATGATCATTAAAAATATTTTTTATTATAATTATTAGTAAGA
1 TTATAAATATGTATTCATCAAATAATGATCATTAAAAATATTTTTTATTATAATTATTAGTAAGA
30976118 TTTA
66 TTTA
30976122 TTCCATTTAT
Statistics
Matches: 61, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
73 26 0.43
74 7 0.11
75 28 0.46
ACGTcount: A:0.41, C:0.04, G:0.08, T:0.47
Consensus pattern (75 bp):
TTATAAATATGTATTCATCAAATAATGATCATTAAAAATATTTTTTATTATAATTATTAGTAAGA
TTTAAACCTA
Found at i:30976473 original size:14 final size:14
Alignment explanation
Indices: 30976454--30976482 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
30976444 TAAGTATAAA
30976454 TTTTAAAAATATTT
1 TTTTAAAAATATTT
30976468 TTTTAAAAATATTT
1 TTTTAAAAATATTT
30976482 T
1 T
30976483 ACTATAAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
TTTTAAAAATATTT
Found at i:30976721 original size:15 final size:15
Alignment explanation
Indices: 30976703--30976746 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
30976693 GTAATTACAG
30976703 GTAATGTGATTGCAA
1 GTAATGTGATTGCAA
*
30976718 GTAATGTAATTGCAA
1 GTAATGTGATTGCAA
* *
30976733 GCAACGTGATTGCA
1 GTAATGTGATTGCA
30976747 GATAAAATAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.34, C:0.11, G:0.25, T:0.30
Consensus pattern (15 bp):
GTAATGTGATTGCAA
Found at i:30976726 original size:30 final size:30
Alignment explanation
Indices: 30976690--30976746 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
30976680 TTTATAATGC
* * *
30976690 AATGTAATTACAGGTAATGTGATTGCAAGT
1 AATGTAATTACAAGCAACGTGATTGCAAGT
*
30976720 AATGTAATTGCAAGCAACGTGATTGCA
1 AATGTAATTACAAGCAACGTGATTGCA
30976747 GATAAAATAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.37, C:0.11, G:0.23, T:0.30
Consensus pattern (30 bp):
AATGTAATTACAAGCAACGTGATTGCAAGT
Found at i:30976991 original size:32 final size:32
Alignment explanation
Indices: 30976955--30977046 Score: 121
Period size: 32 Copynumber: 2.8 Consensus size: 32
30976945 AATATAGTTT
* *
30976955 TAATATCATATATTTTATTTTTATTTTTATTA
1 TAATATTATATATTTTATTTTTATTTTTAATA
*
30976987 TAATATTATATATTTTATTTTCATTTTTAATA
1 TAATATTATATATTTTATTTTTATTTTTAATA
* * *
30977019 TAATTTTTTATATTATATATTTTATTTT
1 TAATATTATATATTTTAT-TTTTATTTT
30977047 AATTTCTTTT
Statistics
Matches: 52, Mismatches: 7, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
32 44 0.85
33 8 0.15
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (32 bp):
TAATATTATATATTTTATTTTTATTTTTAATA
Found at i:30977105 original size:24 final size:25
Alignment explanation
Indices: 30977072--30977122 Score: 61
Period size: 24 Copynumber: 2.1 Consensus size: 25
30977062 TATTATATAA
*
30977072 ATTTTAATTTCTTATATT-TTATTTT
1 ATTTTAATTTCTTA-ATTCTTATATT
*
30977097 ATTTT-ATTTTTTAATTCTTATATT
1 ATTTTAATTTCTTAATTCTTATATT
30977121 AT
1 AT
30977123 ATATTTTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 3 0.13
24 15 0.65
25 5 0.22
ACGTcount: A:0.25, C:0.04, G:0.00, T:0.71
Consensus pattern (25 bp):
ATTTTAATTTCTTAATTCTTATATT
Found at i:30977120 original size:55 final size:57
Alignment explanation
Indices: 30977019--30977125 Score: 141
Period size: 55 Copynumber: 1.9 Consensus size: 57
30977009 ATTTTTAATA
* *
30977019 TAATTTTTTATATTATATATTTTATTTTAATTTCTTTTAGCTATATTATATAAATTT
1 TAATTTCTTATATTATATATTTTATTTTAATTTCTTTAAGCTATATTATATAAATTT
*
30977076 TAATTTCTTATATT-T-TATTTTATTTT-ATTT-TTTAATTCTTATATTATATA
1 TAATTTCTTATATTATATATTTTATTTTAATTTCTTTAA-GC-TATATTATATA
30977126 TTTTATTGTA
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
53 4 0.09
54 5 0.11
55 22 0.49
56 1 0.02
57 13 0.29
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.65
Consensus pattern (57 bp):
TAATTTCTTATATTATATATTTTATTTTAATTTCTTTAAGCTATATTATATAAATTT
Found at i:30977155 original size:33 final size:33
Alignment explanation
Indices: 30977073--30977156 Score: 95
Period size: 33 Copynumber: 2.6 Consensus size: 33
30977063 ATTATATAAA
*
30977073 TTTTAATTTCTTATATT-T-TATTTTATTTTATT
1 TTTTAA-TTCTTATATTATATATTTTATTTAATT
30977105 TTTTAATTCTTATATTATATATTTTATTGTAATGT
1 TTTTAATTCTTATATTATATATTTTATT-TAAT-T
*
30977140 TTTTTATT-TTA-ATTATA
1 TTTTAATTCTTATATTATA
30977157 ACATTACAAA
Statistics
Matches: 46, Mismatches: 2, Indels: 7
0.84 0.04 0.13
Matches are distributed among these distances:
31 10 0.22
32 7 0.15
33 15 0.33
34 6 0.13
35 8 0.17
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.69
Consensus pattern (33 bp):
TTTTAATTCTTATATTATATATTTTATTTAATT
Found at i:30977360 original size:67 final size:67
Alignment explanation
Indices: 30977240--30977366 Score: 155
Period size: 67 Copynumber: 1.9 Consensus size: 67
30977230 ATGTAACGTA
* * *
30977240 ATTGCATTGGTTTTGAATTACAATCACATTATATCCCTTGACTATAATATGATTACATTGCAATA
1 ATTGCATTAGTTTTGAATTACAATCACATTACATCACTTGACTATAATATGATTACATTGCAATA
30977305 TG
66 TG
* ** * * * * *
30977307 ATTGCATTAGTTTTGGATTGTAATCACATTACATCATTTGATTGTAATGTGATTGCATTG
1 ATTGCATTAGTTTTGAATTACAATCACATTACATCACTTGACTATAATATGATTACATTG
30977367 TAATCTTACA
Statistics
Matches: 49, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
67 49 1.00
ACGTcount: A:0.30, C:0.13, G:0.15, T:0.43
Consensus pattern (67 bp):
ATTGCATTAGTTTTGAATTACAATCACATTACATCACTTGACTATAATATGATTACATTGCAATA
TG
Found at i:30979029 original size:6 final size:6
Alignment explanation
Indices: 30979018--30979043 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
30979008 ATATATATTA
30979018 AAATTT AAATTT AAATTT AAATTT AA
1 AAATTT AAATTT AAATTT AAATTT AA
30979044 TTAAGATATG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (6 bp):
AAATTT
Found at i:30981630 original size:16 final size:16
Alignment explanation
Indices: 30981609--30981640 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
30981599 TATAGAAGAC
30981609 TTTTATTAAAAATATT
1 TTTTATTAAAAATATT
*
30981625 TTTTATTATAAATATT
1 TTTTATTAAAAATATT
30981641 AATAAAATTT
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):
TTTTATTAAAAATATT
Found at i:30984168 original size:13 final size:13
Alignment explanation
Indices: 30984150--30984176 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
30984140 CATGACCTTG
30984150 ACTCGCATACAAA
1 ACTCGCATACAAA
30984163 ACTCGCATACAAA
1 ACTCGCATACAAA
30984176 A
1 A
30984177 TATATCGATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.30, G:0.07, T:0.15
Consensus pattern (13 bp):
ACTCGCATACAAA
Found at i:30988970 original size:2 final size:2
Alignment explanation
Indices: 30988963--30988990 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
30988953 AAAAGTACCA
30988963 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
30988991 TATGTTTTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:31007424 original size:2 final size:2
Alignment explanation
Indices: 31007417--31007442 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
31007407 AACCCCCACT
31007417 TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC
31007443 GTGTACGTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:31009746 original size:21 final size:20
Alignment explanation
Indices: 31009712--31009751 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
31009702 AAAAATAACT
* *
31009712 TTTAGAATTTTTTTGAATAG
1 TTTAGAACTTTTTTAAATAG
31009732 TTTAGAAACTTTTTTAAATA
1 TTTAG-AACTTTTTTAAATA
31009752 TTATGTCAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.35, C:0.03, G:0.10, T:0.53
Consensus pattern (20 bp):
TTTAGAACTTTTTTAAATAG
Found at i:31015119 original size:24 final size:24
Alignment explanation
Indices: 31015085--31015135 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
31015075 TCAGAAACTG
*
31015085 TACTACAAATTG-CTGCATTCTTAA
1 TACTACAAATTGTC-ACATTCTTAA
*
31015109 TACTACTAATTGTCACATTCTTAA
1 TACTACAAATTGTCACATTCTTAA
31015133 TAC
1 TAC
31015136 AAGCAGGAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 23 0.96
25 1 0.04
ACGTcount: A:0.33, C:0.22, G:0.06, T:0.39
Consensus pattern (24 bp):
TACTACAAATTGTCACATTCTTAA
Found at i:31019341 original size:35 final size:35
Alignment explanation
Indices: 31019244--31019347 Score: 109
Period size: 35 Copynumber: 3.0 Consensus size: 35
31019234 AACAATCAAG
* *
31019244 TGAAATACTATTTTATGTAGAATAACTAAAACAAA
1 TGAAATACTATTTTATGTAAAATAACTAAAATAAA
* * ** *
31019279 TGAAGTACTATTTTGTACAAAATAACTATAATAAA
1 TGAAATACTATTTTATGTAAAATAACTAAAATAAA
** * *
31019314 TGAAATGTTATTTTATGTAAAACAACTAGAATAA
1 TGAAATACTATTTTATGTAAAATAACTAAAATAA
31019348 GTAGAGTATT
Statistics
Matches: 54, Mismatches: 15, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
35 54 1.00
ACGTcount: A:0.49, C:0.08, G:0.10, T:0.34
Consensus pattern (35 bp):
TGAAATACTATTTTATGTAAAATAACTAAAATAAA
Found at i:31035918 original size:27 final size:27
Alignment explanation
Indices: 31035884--31035941 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 27
31035874 TTAACCATTG
* * *
31035884 GAAA-TGGATGGCTATCTTTATCCACC
1 GAAAGTGGATGGATATATTTACCCACC
*
31035910 GAAAGTGGATGGATATATTTACCCATC
1 GAAAGTGGATGGATATATTTACCCACC
31035937 GAAAG
1 GAAAG
31035942 ACCCACTGGA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
26 4 0.15
27 23 0.85
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.28
Consensus pattern (27 bp):
GAAAGTGGATGGATATATTTACCCACC
Found at i:31040508 original size:16 final size:16
Alignment explanation
Indices: 31040487--31040523 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
31040477 TCTTTCACTC
*
31040487 GATTTTTT-TTCATAA
1 GATTTTTTCTTAATAA
31040502 GATTTTTTCTTAATAA
1 GATTTTTTCTTAATAA
31040518 GATTTT
1 GATTTT
31040524 AACGAGACAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 8 0.40
16 12 0.60
ACGTcount: A:0.27, C:0.05, G:0.08, T:0.59
Consensus pattern (16 bp):
GATTTTTTCTTAATAA
Found at i:31042327 original size:2 final size:2
Alignment explanation
Indices: 31042320--31042345 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
31042310 ATAAAAATAA
31042320 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
31042346 TTTCATGATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:31042994 original size:2 final size:2
Alignment explanation
Indices: 31042987--31043061 Score: 127
Period size: 2 Copynumber: 38.5 Consensus size: 2
31042977 ATTCTAAAGC
*
31042987 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AN A-
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
31043027 AT AT AT AT AT 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 AT AT AT AT AT A
31043062 AATGATCGTG
Statistics
Matches: 70, Mismatches: 1, Indels: 4
0.93 0.01 0.05
Matches are distributed among these distances:
1 2 0.03
2 68 0.97
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:31044266 original size:87 final size:90
Alignment explanation
Indices: 31044162--31044342 Score: 253
Period size: 89 Copynumber: 2.0 Consensus size: 90
31044152 TTCATATCAT
* *
31044162 AATAGATAAGGAAAATATTTAA-TTTCAAAATTTT-AAAATATTTTATTTATTATATATTTAAAA
1 AATAAATAAGGAAAATATTTAATTTTCAAAATTTTAAAAATATTTTATATATTATATATTTAAAA
*
31044225 CATTAATTAATA-CAATCATTATGAG
66 CATTAAATAATATC-ATCATTATGAG
* * *
31044250 AATAAATAA-GAAAATATTTAATTTTTAAATTTTTAAAAATATTTTATATATTATATATTTAAGA
1 AATAAATAAGGAAAATATTTAATTTTCAAAATTTTAAAAATATTTTATATATTATATATTTAAAA
* *
31044314 CATTAAATCATATCATTATTATGAG
66 CATTAAATAATATCATCATTATGAG
31044339 AATA
1 AATA
31044343 TGAATTGTGC
Statistics
Matches: 82, Mismatches: 8, Indels: 5
0.86 0.08 0.05
Matches are distributed among these distances:
87 12 0.15
88 18 0.22
89 51 0.62
90 1 0.01
ACGTcount: A:0.48, C:0.04, G:0.05, T:0.43
Consensus pattern (90 bp):
AATAAATAAGGAAAATATTTAATTTTCAAAATTTTAAAAATATTTTATATATTATATATTTAAAA
CATTAAATAATATCATCATTATGAG
Found at i:31046686 original size:10 final size:10
Alignment explanation
Indices: 31046671--31046748 Score: 87
Period size: 10 Copynumber: 8.2 Consensus size: 10
31046661 CCATTTTGTC
31046671 CATATATATA
1 CATATATATA
31046681 C--ATATAT-
1 CATATATATA
31046688 -ATATATATA
1 CATATATATA
31046697 CATATATAT-
1 CATATATATA
31046706 -ATATATATA
1 CATATATATA
31046715 CATATATATA
1 CATATATATA
*
31046725 TATATATACATA
1 CATATAT--ATA
31046737 CATATATATA
1 CATATATATA
31046747 CA
1 CA
31046749 CTTTTTAAAT
Statistics
Matches: 58, Mismatches: 2, Indels: 16
0.76 0.03 0.21
Matches are distributed among these distances:
8 20 0.34
10 29 0.50
12 9 0.16
ACGTcount: A:0.50, C:0.09, G:0.00, T:0.41
Consensus pattern (10 bp):
CATATATATA
Found at i:31046689 original size:4 final size:4
Alignment explanation
Indices: 31046672--31046746 Score: 105
Period size: 4 Copynumber: 18.8 Consensus size: 4
31046662 CATTTTGTCC
* * *
31046672 ATAT ATAT ACAT ATAT ATAT ATAT ACAT ATAT ATAT ATAT ATAC ATAT
1 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT
* *
31046720 ATAT ATAT ATAT ACAT ACAT ATAT ATA
1 ATAT ATAT ATAT ATAT ATAT ATAT ATA
31046747 CACTTTTTAA
Statistics
Matches: 63, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
4 63 1.00
ACGTcount: A:0.51, C:0.07, G:0.00, T:0.43
Consensus pattern (4 bp):
ATAT
Found at i:31046695 original size:18 final size:18
Alignment explanation
Indices: 31046672--31046746 Score: 127
Period size: 18 Copynumber: 4.3 Consensus size: 18
31046662 CATTTTGTCC
31046672 ATATATATAC--ATATAT
1 ATATATATACATATATAT
31046688 ATATATATACATATATAT
1 ATATATATACATATATAT
31046706 ATATATATACATATATAT
1 ATATATATACATATATAT
*
31046724 ATATATATACATACATAT
1 ATATATATACATATATAT
31046742 ATATA
1 ATATA
31046747 CACTTTTTAA
Statistics
Matches: 56, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
16 10 0.18
18 46 0.82
ACGTcount: A:0.51, C:0.07, G:0.00, T:0.43
Consensus pattern (18 bp):
ATATATATACATATATAT
Found at i:31058026 original size:16 final size:16
Alignment explanation
Indices: 31058005--31058035 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
31057995 TAAATTTTAA
31058005 TAAAATATTAATATTT
1 TAAAATATTAATATTT
31058021 TAAAATATTAATATT
1 TAAAATATTAATATT
31058036 AAATTATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
TAAAATATTAATATTT
Found at i:31058040 original size:40 final size:41
Alignment explanation
Indices: 31057995--31058078 Score: 118
Period size: 41 Copynumber: 2.1 Consensus size: 41
31057985 TACTTGATTC
* *
31057995 TAAATT-TTAATAAAATATTAATATTTTAAAATATTAA-TAT
1 TAAATTATAAATAAAATATTAATA-TTTAAAATATCAATTAT
*
31058035 TAAATTATAAATAAAATATTAATATTTAAATTATCAATTAT
1 TAAATTATAAATAAAATATTAATATTTAAAATATCAATTAT
31058076 TAA
1 TAA
31058079 TAAAATAAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
40 17 0.44
41 22 0.56
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (41 bp):
TAAATTATAAATAAAATATTAATATTTAAAATATCAATTAT
Found at i:31058064 original size:19 final size:19
Alignment explanation
Indices: 31057998--31058065 Score: 75
Period size: 19 Copynumber: 3.4 Consensus size: 19
31057988 TTGATTCTAA
*
31057998 ATTTTAATAAAATATTAAT
1 ATTTAAATAAAATATTAAT
*
31058017 ATTTTAAAATATTAATATTAA-
1 A-TTT-AAATA-AAATATTAAT
31058038 ATTATAAATAAAATATTAAT
1 ATT-TAAATAAAATATTAAT
31058058 ATTTAAAT
1 ATTTAAAT
31058066 TATCAATTAT
Statistics
Matches: 41, Mismatches: 3, Indels: 10
0.76 0.06 0.19
Matches are distributed among these distances:
19 14 0.34
20 13 0.32
21 6 0.15
22 8 0.20
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
ATTTAAATAAAATATTAAT
Found at i:31058199 original size:49 final size:49
Alignment explanation
Indices: 31058146--31058317 Score: 172
Period size: 49 Copynumber: 3.5 Consensus size: 49
31058136 CATAATATCA
* * *
31058146 TTTAAATTAGATAAACAA-TATTAATAATTAAATCATCAATTATTAATAT
1 TTTAAA-TAAATAAACAATTATTAATATTTAAATAATCAATTATTAATAT
* * * * * *
31058195 TTTAAATAAATTACCAATTATTAATATTTAAAAAATTAATCA-CAATAAT
1 TTTAAATAAATAAACAATTATTAATATTTAAATAATCAATTATTAAT-AT
* *
31058244 ATTTAAATTAAATAAA-AA-TATTAATATTTAAATTATCTATTATTAATAT
1 -TTTAAA-TAAATAAACAATTATTAATATTTAAATAATCAATTATTAATAT
*
31058293 TTTAAATAAATAATCAATTATTAAT
1 TTTAAATAAATAAACAATTATTAAT
31058318 TTCCAAAAAT
Statistics
Matches: 98, Mismatches: 18, Indels: 14
0.75 0.14 0.11
Matches are distributed among these distances:
47 7 0.07
48 19 0.19
49 55 0.56
50 11 0.11
51 6 0.06
ACGTcount: A:0.52, C:0.05, G:0.01, T:0.42
Consensus pattern (49 bp):
TTTAAATAAATAAACAATTATTAATATTTAAATAATCAATTATTAATAT
Found at i:31058212 original size:27 final size:26
Alignment explanation
Indices: 31058174--31058317 Score: 119
Period size: 27 Copynumber: 5.7 Consensus size: 26
31058164 TATTAATAAT
*
31058174 TAAATCATCAATTATTAATATTTTAAA
1 TAAATTATCAATTATTAATA-TTTAAA
*
31058201 TAAATTACCAATTATTAATATTTAAA
1 TAAATTATCAATTATTAATATTTAAA
31058227 -AAATTAATCACA--A-TAATATTTAAA
1 TAAATT-ATCA-ATTATTAATATTTAAA
* *
31058251 TTAAA-TA-AAAATATTAATA-TT---
1 -TAAATTATCAATTATTAATATTTAAA
*
31058272 TAAATTATCTATTATTAATATTTTAAA
1 TAAATTATCAATTATTAATA-TTTAAA
*
31058299 TAAATAATCAATTATTAAT
1 TAAATTATCAATTATTAAT
31058318 TTCCAAAAAT
Statistics
Matches: 94, Mismatches: 9, Indels: 28
0.72 0.07 0.21
Matches are distributed among these distances:
20 4 0.04
21 2 0.02
22 10 0.11
23 1 0.01
24 17 0.18
25 12 0.13
26 12 0.13
27 36 0.38
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (26 bp):
TAAATTATCAATTATTAATATTTAAA
Found at i:31058278 original size:25 final size:24
Alignment explanation
Indices: 31058125--31058276 Score: 87
Period size: 25 Copynumber: 6.2 Consensus size: 24
31058115 AATAAATTAA
* *
31058125 AAATAAATAAACATAAT-ATCATTT
1 AAATAAATAAAAATATTAAT-ATTT
* *
31058149 AAATTAGATAAACAATATTAATAATT
1 AAA-TAAATAAA-AATATTAATATTT
* * *
31058175 AAAT-CAT-CAATTATTAATATTTT
1 AAATAAATAAAAATATTAATA-TTT
* *
31058198 AAATAAATTACCAATTATTAATATTT
1 AAATAAA-TA-AAAATATTAATATTT
** * *
31058224 AAA-AAATTAATCACAATAATATTT
1 AAATAAA-TAAAAATATTAATATTT
31058248 AAATTAAATAAAAATATTAATATTT
1 AAA-TAAATAAAAATATTAATATTT
31058273 AAAT
1 AAAT
31058277 TATCTATTAT
Statistics
Matches: 99, Mismatches: 19, Indels: 20
0.72 0.14 0.14
Matches are distributed among these distances:
22 9 0.09
23 7 0.07
24 19 0.19
25 31 0.31
26 19 0.19
27 14 0.14
ACGTcount: A:0.55, C:0.06, G:0.01, T:0.38
Consensus pattern (24 bp):
AAATAAATAAAAATATTAATATTT
Found at i:31058326 original size:98 final size:99
Alignment explanation
Indices: 31058145--31058327 Score: 280
Period size: 98 Copynumber: 1.9 Consensus size: 99
31058135 ACATAATATC
* *
31058145 ATTTAAATTAGATAAACAATATTAATAATTAAATCATCAATTATTAATATTTTAAATAAATTACC
1 ATTTAAATTAAATAAACAATATTAATAATTAAATCATCAATTATTAATATTTTAAATAAATAACC
*
31058210 AATTATTAATATTTAAAAAATTAATCACAATAAT
66 AATTATTAATATTCAAAAAATTAATCACAATAAT
* * * *
31058244 ATTTAAATTAAATAAA-AATATTAATATTTAAATTATCTATTATTAATATTTTAAATAAATAATC
1 ATTTAAATTAAATAAACAATATTAATAATTAAATCATCAATTATTAATATTTTAAATAAATAACC
*
31058308 AATTATTAAT-TTCCAAAAAT
66 AATTATTAATATTCAAAAAAT
31058328 AAAANNNNNN
Statistics
Matches: 76, Mismatches: 8, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
97 8 0.11
98 53 0.70
99 15 0.20
ACGTcount: A:0.52, C:0.06, G:0.01, T:0.42
Consensus pattern (99 bp):
ATTTAAATTAAATAAACAATATTAATAATTAAATCATCAATTATTAATATTTTAAATAAATAACC
AATTATTAATATTCAAAAAATTAATCACAATAAT
Found at i:31058480 original size:25 final size:22
Alignment explanation
Indices: 31058420--31058594 Score: 83
Period size: 22 Copynumber: 7.9 Consensus size: 22
31058410 NNNNNNNNNN
* * *
31058420 ATTATTGATATTTTAATAATTATC
1 ATTATTAATATTTTAATTA-TA-A
31058444 ATTATTAATATTTTAATTATAA
1 ATTATTAATATTTTAATTATAA
** *
31058466 ATAAATATTAATATTGAAATTATCA
1 AT---TATTAATATTTTAATTATAA
**
31058491 ATTATTAATATTTTAAAAATAA
1 ATTATTAATATTTTAATTATAA
* *** *
31058513 A--A-TAAAATAACAATTA-ATC
1 ATTATTAATATTTTAATTATA-A
* *
31058532 A-TAATAATATTTAAATTAAATAA
1 ATTATTAATATTTTAATT--ATAA
* *
31058555 A-TATTAATATTTAAATTATTA
1 ATTATTAATATTTTAATTATAA
31058576 ATTATTAATATTTTAATTA
1 ATTATTAATATTTTAATTA
31058595 AATTCTATAT
Statistics
Matches: 115, Mismatches: 26, Indels: 22
0.71 0.16 0.13
Matches are distributed among these distances:
18 1 0.01
19 9 0.08
20 2 0.02
21 13 0.11
22 34 0.30
23 19 0.17
24 18 0.16
25 19 0.17
ACGTcount: A:0.50, C:0.02, G:0.01, T:0.46
Consensus pattern (22 bp):
ATTATTAATATTTTAATTATAA
Found at i:31058498 original size:47 final size:46
Alignment explanation
Indices: 31058432--31058594 Score: 157
Period size: 47 Copynumber: 3.7 Consensus size: 46
31058422 TATTGATATT
31058432 TTAATAATTATCATTATTAATATTTTAATTATAAATAAATATTAATA
1 TTAA-AATTATCATTATTAATATTTTAATTATAAATAAATATTAATA
*
31058479 TTGAAATTATCAATTATTAATATTTT-A--A-AAATAAA-A-TAA-A
1 TTAAAATTATC-ATTATTAATATTTTAATTATAAATAAATATTAATA
* * *
31058519 ATAACAATTAATCA-TAATAATA-TTTAAAT-TAAATAAATATTAATA
1 TTAA-AATT-ATCATTATTAATATTTTAATTATAAATAAATATTAATA
* *
31058564 TTTAAATTATTAATTATTAATATTTTAATTA
1 TTAAAATTA-TCATTATTAATATTTTAATTA
31058595 AATTCTATAT
Statistics
Matches: 93, Mismatches: 9, Indels: 28
0.72 0.07 0.22
Matches are distributed among these distances:
39 3 0.03
40 11 0.12
41 8 0.09
42 11 0.12
43 9 0.10
44 10 0.11
45 10 0.11
46 14 0.15
47 17 0.18
ACGTcount: A:0.52, C:0.02, G:0.01, T:0.45
Consensus pattern (46 bp):
TTAAAATTATCATTATTAATATTTTAATTATAAATAAATATTAATA
Found at i:31058576 original size:15 final size:15
Alignment explanation
Indices: 31058552--31058618 Score: 50
Period size: 15 Copynumber: 4.3 Consensus size: 15
31058542 TTAAATTAAA
31058552 TAAA-TATTAATATT
1 TAAATTATTAATATT
31058566 TAAATTATTAAT-TAT
1 TAAATTATTAATAT-T
31058581 TAATATT-TTAATTAAATT
1 TAA-ATTATTAA-T--ATT
*
31058599 CTATATTATTAATATT
1 -TAAATTATTAATATT
31058615 TAAA
1 TAAA
31058619 AATATAATAA
Statistics
Matches: 42, Mismatches: 2, Indels: 17
0.69 0.03 0.28
Matches are distributed among these distances:
14 5 0.12
15 18 0.43
16 7 0.17
18 5 0.12
19 7 0.17
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.52
Consensus pattern (15 bp):
TAAATTATTAATATT
Found at i:31058584 original size:22 final size:23
Alignment explanation
Indices: 31058536--31058618 Score: 96
Period size: 22 Copynumber: 3.5 Consensus size: 23
31058526 TTAATCATAA
* *
31058536 TAATATTTAAATTAAATAAATAT
1 TAATATTTAAATTAATTAATTAT
31058559 TAATATTTAAATT-ATTAATTAT
1 TAATATTTAAATTAATTAATTAT
*
31058581 TAATATTTTAATTAAATTCTATATTAT
1 TAATATTTAAATT-AA-T-TA-ATTAT
31058608 TAATATTTAAA
1 TAATATTTAAA
31058619 AATATAATAA
Statistics
Matches: 51, Mismatches: 4, Indels: 6
0.84 0.07 0.10
Matches are distributed among these distances:
22 19 0.37
23 13 0.25
24 1 0.02
25 1 0.02
26 2 0.04
27 15 0.29
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (23 bp):
TAATATTTAAATTAATTAATTAT
Found at i:31061362 original size:18 final size:18
Alignment explanation
Indices: 31061339--31061378 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
31061329 TCTGTTTTAG
31061339 TTGATATATTACTGCTGT
1 TTGATATATTACTGCTGT
31061357 TTGATATATTACTGCTGT
1 TTGATATATTACTGCTGT
31061375 TTGA
1 TTGA
31061379 GAATTCATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.23, C:0.10, G:0.17, T:0.50
Consensus pattern (18 bp):
TTGATATATTACTGCTGT
Found at i:31069349 original size:15 final size:13
Alignment explanation
Indices: 31069332--31069383 Score: 52
Period size: 14 Copynumber: 3.8 Consensus size: 13
31069322 AAAGGGAAGG
31069332 AGGAAAAAGAAAAA
1 AGGAAAAA-AAAAA
*
31069346 GAGGGAAAAAAAAA
1 -AGGAAAAAAAAAA
31069360 A-GAAAAATAAAAA
1 AGGAAAAA-AAAAA
31069373 AGGAAACAAAA
1 AGGAAA-AAAA
31069384 TCGGGCTAGC
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
12 5 0.16
13 7 0.22
14 11 0.34
15 9 0.28
ACGTcount: A:0.77, C:0.02, G:0.19, T:0.02
Consensus pattern (13 bp):
AGGAAAAAAAAAA
Found at i:31069354 original size:16 final size:15
Alignment explanation
Indices: 31069333--31069362 Score: 51
Period size: 15 Copynumber: 1.9 Consensus size: 15
31069323 AAGGGAAGGA
31069333 GGAAAAAGAAAAAGAG
1 GGAAAAA-AAAAAGAG
31069349 GGAAAAAAAAAAGA
1 GGAAAAAAAAAAGA
31069363 AAAATAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (15 bp):
GGAAAAAAAAAAGAG
Found at i:31076984 original size:324 final size:322
Alignment explanation
Indices: 31076388--31076990 Score: 926
Period size: 324 Copynumber: 1.9 Consensus size: 322
31076378 ATGCCTTGTG
* * *
31076388 GAATATGGATTCTCTCCTTATATGTTAAACAAATGAGCATGGCTCACAGTCGTACGTATTAACCA
1 GAATATAGATTCTCTCCTTATATGTTAAACAAATGAGCAAGGCTCACAGTCGTACGAATTAACCA
** *
31076453 GCCGAATTTAGATAACAAATGACAGACACACAAGACAAAACCAATAAATCCAACTAGGGAACTGA
66 GCCGAAGGTAGATAACAAATGACAAACACACAAGACAAAACCAATAAATCCAACTAGGGAACTGA
* * * * *
31076518 CAAACAATTTAAGCCCAACTTTTTATGGCATACATGTAATACTCCTTATAAAGTATATGTTATAA
131 CAAACAATTTAAGCCCAACTTTTTATGACATACATGTAATACTCCTCACAAAATATATATTATAA
*
31076583 AAATATTTAAATTTATTAAGTTACAGTTTTTATAAAAATAAATAAATAGATGTTATTTTTATTAT
196 AAATATTTAAATTTATTAAGTTACAGTTTTTATAAAAATAAAT--ATAGATGTTATTTTTATTAG
31076648 TTTATTTATTTATAGTTATAATCTTGAATGCTTAAGAAAAAAGAGTCTTTGAATAAATAAAGAA
259 TTTATTTATTTATAGTTATAATCTTGAATGCTTAAGAAAAAAGAGTCTTTGAATAAATAAAGAA
* * *
31076712 GAATATAGATTCTCTCTTTATATGTTAAACATATGAGCAAGGAC-CATC-GTCGTACGAATTAAT
1 GAATATAGATTCTCTCCTTATATGTTAAACAAATGAGCAAGG-CTCA-CAGTCGTACGAATTAAC
*
31076775 CAGCCGAAGGTAGATAACAAAATGACAAACACACAAGACAAAACCAATAAATTCAACTAGGGAAC
64 CAGCCGAAGGTAGATAAC-AAATGACAAACACACAAGACAAAACCAATAAATCCAACTAGGGAAC
* * *
31076840 TGGACAAACAATTTGAGCCTC-ACTTTTTATGACATACATGTAATATTCCTCACAAAATATTTAT
128 T-GACAAACAATTTAAGCC-CAACTTTTTATGACATACATGTAATACTCCTCACAAAATATATAT
*
31076904 TATAAAAAATATTTAAATTTATTAAGTTATAGTTTTTATAAAAATAAAT-TAGATGTTATTTTTA
191 TAT-AAAAATATTTAAATTTATTAAGTTACAGTTTTTATAAAAATAAATATAGATGTTATTTTTA
31076968 TTAGTTTATTTATTTATAGTTAT
255 TTAGTTTATTTATTTATAGTTAT
31076991 GATTTTATAT
Statistics
Matches: 253, Mismatches: 20, Indels: 12
0.89 0.07 0.04
Matches are distributed among these distances:
324 106 0.42
325 47 0.19
326 55 0.22
327 45 0.18
ACGTcount: A:0.41, C:0.13, G:0.12, T:0.34
Consensus pattern (322 bp):
GAATATAGATTCTCTCCTTATATGTTAAACAAATGAGCAAGGCTCACAGTCGTACGAATTAACCA
GCCGAAGGTAGATAACAAATGACAAACACACAAGACAAAACCAATAAATCCAACTAGGGAACTGA
CAAACAATTTAAGCCCAACTTTTTATGACATACATGTAATACTCCTCACAAAATATATATTATAA
AAATATTTAAATTTATTAAGTTACAGTTTTTATAAAAATAAATATAGATGTTATTTTTATTAGTT
TATTTATTTATAGTTATAATCTTGAATGCTTAAGAAAAAAGAGTCTTTGAATAAATAAAGAA
Found at i:31079494 original size:2 final size:2
Alignment explanation
Indices: 31079487--31079522 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
31079477 ATGGTATAAA
31079487 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
31079523 TGAAACCTTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:31082287 original size:117 final size:118
Alignment explanation
Indices: 31082126--31082351 Score: 273
Period size: 117 Copynumber: 1.9 Consensus size: 118
31082116 GCTCTATCGA
* *
31082126 AATTGATTTAGAAGTCAACACTCAACATAAATGCATGCTGTATTACCGACAC-AGCAATTGGACC
1 AATTGATTTAGAAGTCAACACTCAACATAAATGCATGCAGTATTACCAACACGA-CAATTGGACC
*
31082190 GGTC-CGGTTACA-TTTAGATTTGATTGTTTTGAATTAAAGTGATTTTTTAGATTG
65 GGTCGC-GTTA-AGTTTAGATTTGATTGTTTTGAATCAAAGTGATTTTTTAGATTG
* * ** * *
31082244 AATTG-TTTTGAATTCAACACTCAACATGGATGCAT-CAAGTATTACTAACACGACAATTGGACG
1 AATTGATTTAGAAGTCAACACTCAACATAAATGCATGC-AGTATTACCAACACGACAATTGGACC
* * *
31082307 GGTTGCGTTAAGTTTTGATTTGATTGTTTTGAATCAAAGTTATTT
65 GGTCGCGTTAAGTTTAGATTTGATTGTTTTGAATCAAAGTGATTT
31082352 CTAGTTATTT
Statistics
Matches: 92, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
116 2 0.02
117 83 0.90
118 7 0.08
ACGTcount: A:0.31, C:0.14, G:0.19, T:0.37
Consensus pattern (118 bp):
AATTGATTTAGAAGTCAACACTCAACATAAATGCATGCAGTATTACCAACACGACAATTGGACCG
GTCGCGTTAAGTTTAGATTTGATTGTTTTGAATCAAAGTGATTTTTTAGATTG
Found at i:31106311 original size:45 final size:45
Alignment explanation
Indices: 31106251--31106344 Score: 116
Period size: 45 Copynumber: 2.1 Consensus size: 45
31106241 AATATATTAA
* * * *
31106251 TATTATTTCACTATAATAAATATTATAAAGCATATTACTTAATAT
1 TATTATTTCAATATAATAAATATAACAAAGAATATTACTTAATAT
* * * *
31106296 TATTATTTGAATATAATAAATGTAACAAAGAATATTATTTAGTAT
1 TATTATTTCAATATAATAAATATAACAAAGAATATTACTTAATAT
31106341 TATT
1 TATT
31106345 TAAATTTAAT
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
Consensus pattern (45 bp):
TATTATTTCAATATAATAAATATAACAAAGAATATTACTTAATAT
Found at i:31106438 original size:23 final size:22
Alignment explanation
Indices: 31106382--31106495 Score: 79
Period size: 22 Copynumber: 5.1 Consensus size: 22
31106372 TTTTAATATT
*
31106382 AAATATTATTTAATTATAAT-A
1 AAATATTATTAAATTATAATAA
* **
31106403 AAATGTTTAATTATCTTATAATACA
1 AAAT-ATT-ATTAAATTATAATA-A
31106428 AAATATTATTAAATTATAATAA
1 AAATATTATTAAATTATAATAA
** * * *
31106450 AAATATGT-TTGTATTTTGATGA
1 AAATAT-TATTAAATTATAATAA
* *
31106472 AAATATTATTTAATTATAGTAA
1 AAATATTATTAAATTATAATAA
31106494 AA
1 AA
31106496 GTTATTTTGA
Statistics
Matches: 69, Mismatches: 18, Indels: 11
0.70 0.18 0.11
Matches are distributed among these distances:
21 5 0.07
22 34 0.49
23 23 0.33
24 2 0.03
25 5 0.07
ACGTcount: A:0.48, C:0.02, G:0.05, T:0.45
Consensus pattern (22 bp):
AAATATTATTAAATTATAATAA
Found at i:31140461 original size:19 final size:19
Alignment explanation
Indices: 31140417--31140463 Score: 67
Period size: 19 Copynumber: 2.5 Consensus size: 19
31140407 GAGAAGAGTA
* *
31140417 TAAAATAAAATAATATTTT
1 TAAAATAAAATAATAATGT
*
31140436 TATAATAAAATAATAATGT
1 TAAAATAAAATAATAATGT
31140455 TAAAATAAA
1 TAAAATAAA
31140464 GGAGAAGGTC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (19 bp):
TAAAATAAAATAATAATGT
Found at i:31142260 original size:29 final size:29
Alignment explanation
Indices: 31142208--31142281 Score: 85
Period size: 29 Copynumber: 2.6 Consensus size: 29
31142198 AGGGCTTACA
* * * *
31142208 GTAGACGATAAATTCCTACCGGGTTTATG
1 GTAGACGAGACATTCCCACCGGGTTGATG
* *
31142237 GTGGACGAGACATTCCCACTGGGTTGATG
1 GTAGACGAGACATTCCCACCGGGTTGATG
*
31142266 GTAGACGAGGCATTCC
1 GTAGACGAGACATTCC
31142282 TACCACAGAG
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.24, C:0.20, G:0.30, T:0.26
Consensus pattern (29 bp):
GTAGACGAGACATTCCCACCGGGTTGATG
Found at i:31142463 original size:141 final size:141
Alignment explanation
Indices: 31142166--31142472 Score: 472
Period size: 141 Copynumber: 2.2 Consensus size: 141
31142156 AGAGGAAGGA
* * *
31142166 TTACTCCGTCGGTAGCTACGGCACCATACGAGAGGGCTTACAGTAGACGATAAATTCCTACCGGG
1 TTACTCCGTCGGTAGCTACGGCACCATACGACAGGACTTACAGTAGACGAGAAATTCCTACCGGG
*
31142231 TTTATGGTGGACGAGACATTCCCACTGGGTTGATGGTAGACGAGGCATTCCTACCACAGAGTACG
66 TTTATGGTGGACGAGACATTCCCACTGGGTTGATGGTAGACAAGGCATTCCTACCACAGAGTACG
31142296 CTAATTATTAT
131 CTAATTATTAT
* ** * **
31142307 TTATTCCGTTAGTAGCTATGGCACTGTACGACAGGACTTACAGTAGACGAGAAATTCCTACCGGG
1 TTACTCCGTCGGTAGCTACGGCACCATACGACAGGACTTACAGTAGACGAGAAATTCCTACCGGG
*
31142372 TTTATGGTGGATGAGACATTCCCACCT-GGTTGATGGTAGACAAGGCATTCCTACCACAGAGTAC
66 TTTATGGTGGACGAGACATTCCCA-CTGGGTTGATGGTAGACAAGGCATTCCTACCACAGAGTAC
*
31142436 TCTAATTATTAT
130 GCTAATTATTAT
* *
31142448 TTACTCTGCCGGTAGCTACGGCACC
1 TTACTCCGTCGGTAGCTACGGCACC
31142473 GCACGTAAGC
Statistics
Matches: 146, Mismatches: 19, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
141 144 0.99
142 2 0.01
ACGTcount: A:0.26, C:0.23, G:0.24, T:0.27
Consensus pattern (141 bp):
TTACTCCGTCGGTAGCTACGGCACCATACGACAGGACTTACAGTAGACGAGAAATTCCTACCGGG
TTTATGGTGGACGAGACATTCCCACTGGGTTGATGGTAGACAAGGCATTCCTACCACAGAGTACG
CTAATTATTAT
Found at i:31155310 original size:2 final size:2
Alignment explanation
Indices: 31155295--31155374 Score: 90
Period size: 2 Copynumber: 40.5 Consensus size: 2
31155285 AAATTTTCAC
* * * * * *
31155295 AT AT AT A- AT GT AT AT AT GT AT AC AT GT GT AT AT AT AT AT GT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
31155336 GT AT AT AT AT AT AT 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 AT AT AT AT AT AT AT A
31155375 CATGTATATG
Statistics
Matches: 67, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
1 1 0.01
2 66 0.99
ACGTcount: A:0.44, C:0.01, G:0.07, T:0.47
Consensus pattern (2 bp):
AT
Found at i:31155321 original size:16 final size:16
Alignment explanation
Indices: 31155295--31155384 Score: 101
Period size: 16 Copynumber: 5.7 Consensus size: 16
31155285 AAATTTTCAC
31155295 ATATATA-ATGTATAT
1 ATATATATATGTATAT
* * *
31155310 ATGTATACATGTGTAT
1 ATATATATATGTATAT
*
31155326 ATATATATGTGTATAT
1 ATATATATATGTATAT
*
31155342 ATATATATATATATAT
1 ATATATATATGTATAT
*
31155358 ATATATATATATATAT
1 ATATATATATGTATAT
* *
31155374 ACATGTATATG
1 ATATATATATG
31155385 GATGTACATG
Statistics
Matches: 63, Mismatches: 11, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
15 6 0.10
16 57 0.90
ACGTcount: A:0.42, C:0.02, G:0.09, T:0.47
Consensus pattern (16 bp):
ATATATATATGTATAT
Found at i:31165887 original size:50 final size:48
Alignment explanation
Indices: 31165802--31165901 Score: 164
Period size: 52 Copynumber: 2.0 Consensus size: 48
31165792 TCAATAATAT
31165802 TTATATATAGGATATAATAAAGAGAGGGAGAGAGAGAGAGAGAGAGAG
1 TTATATATAGGATATAATAAAGAGAGGGAGAGAGAGAGAGAGAGAGAG
31165850 NTTATATATAGGAGTATAATAAAGAAGAGGGAGGAGAGAGAGAGAGAGAGAG
1 -TTATATATAGGA-TATAATAAAG-AGAGGGA-GAGAGAGAGAGAGAGAGAG
31165902 AGGCAAAAGG
Statistics
Matches: 48, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
49 12 0.25
50 10 0.21
51 7 0.15
52 19 0.40
ACGTcount: A:0.47, C:0.00, G:0.36, T:0.16
Consensus pattern (48 bp):
TTATATATAGGATATAATAAAGAGAGGGAGAGAGAGAGAGAGAGAGAG
Found at i:31166537 original size:4 final size:4
Alignment explanation
Indices: 31166528--31166559 Score: 50
Period size: 4 Copynumber: 8.5 Consensus size: 4
31166518 ATAAAAATCT
31166528 TTTA TTTA TTTA TTTA TTTA -TT- TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT
31166560 ATATCTTCCA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
3 4 0.15
4 22 0.85
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:31169380 original size:2 final size:2
Alignment explanation
Indices: 31169368--31169415 Score: 71
Period size: 2 Copynumber: 24.5 Consensus size: 2
31169358 AGAATCTATT
* *
31169368 TA TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
31169410 -A TA TA T
1 TA TA TA T
31169416 TGATTACTAT
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
1 1 0.02
2 40 0.98
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (2 bp):
TA
Found at i:31191038 original size:14 final size:13
Alignment explanation
Indices: 31191014--31191043 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
31191004 GCTTTGCCCT
31191014 TTTCTTTTTTTTC
1 TTTCTTTTTTTTC
31191027 TTTCTTTCTTTTTC
1 TTTCTTT-TTTTTC
31191041 TTT
1 TTT
31191044 TTGGCTTTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.44
14 9 0.56
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (13 bp):
TTTCTTTTTTTTC
Found at i:31197509 original size:23 final size:23
Alignment explanation
Indices: 31197481--31197528 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
31197471 TAAAATTTAT
*
31197481 TATAAATTAGAGTA-ATGTATATA
1 TATAAATTA-AATATATGTATATA
31197504 TATAAATTAAATATATGTATATA
1 TATAAATTAAATATATGTATATA
31197527 TA
1 TA
31197529 ATATTTATAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 3 0.13
23 20 0.87
ACGTcount: A:0.50, C:0.00, G:0.08, T:0.42
Consensus pattern (23 bp):
TATAAATTAAATATATGTATATA
Found at i:31198188 original size:5 final size:5
Alignment explanation
Indices: 31198178--31198202 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
31198168 ATCTATACCA
31198178 AAAAT AAAAT AAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT
31198203 CATGATCATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:31205829 original size:150 final size:150
Alignment explanation
Indices: 31205553--31205829 Score: 396
Period size: 150 Copynumber: 1.8 Consensus size: 150
31205543 ATTTGACAGG
* *
31205553 TTGGATTCATCTCCTCTGCATTTTCCATGTAATAATGAGAAAATGAAGTAGGATCCTTTGATTTT
1 TTGGATTCATCTCCTCTGCATTTTCCATGTAATAATGAGAAAATGAAGTAAGATCCTTTGATTCT
* ** * * *
31205618 TTTCATAATTATTGATCCAAGGAAATTAGGTAAAATTTGGTAAGGGGGAAGTGAAGCACATTGTT
66 TTCCATAATTATTGATCCAAGGAAATTAGGTAAAATTTGGTAAGAAGAAAATGAAACACATTGTT
31205683 TTTTGTTGAAAGTTTTCGCA
131 TTTTGTTGAAAGTTTTCGCA
*
31205703 TTGGATTCATCTCCGT-TGCCTTTTCCATGTAATAATGAGAAAATGAAGTAAGATCCTTTGA-TC
1 TTGGATTCATCTCC-TCTGCATTTTCCATGTAATAATGAGAAAATGAAGTAAGATCCTTTGATTC
* * * * *
31205766 TTTCCATAATTTTTGATCCAAGGAAATTAGGTAGAGTTTGGTATGAAGAAAATGGAAATACATT
65 TTTCCATAATTATTGATCCAAGGAAATTAGGTAAAATTTGGTAAGAAGAAAAT-GAAACACATT
31205830 TCTTATAATG
Statistics
Matches: 111, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
149 45 0.41
150 65 0.59
151 1 0.01
ACGTcount: A:0.31, C:0.12, G:0.20, T:0.37
Consensus pattern (150 bp):
TTGGATTCATCTCCTCTGCATTTTCCATGTAATAATGAGAAAATGAAGTAAGATCCTTTGATTCT
TTCCATAATTATTGATCCAAGGAAATTAGGTAAAATTTGGTAAGAAGAAAATGAAACACATTGTT
TTTTGTTGAAAGTTTTCGCA
Found at i:31206051 original size:17 final size:17
Alignment explanation
Indices: 31206029--31206072 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 17
31206019 AATTAATTAT
31206029 ATTAAAAATATATAAAA
1 ATTAAAAATATATAAAA
*
31206046 ATTAAAAAAATATAAAA
1 ATTAAAAATATATAAAA
*
31206063 GTTAAAAATA
1 ATTAAAAATA
31206073 ATTAATAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.27
Consensus pattern (17 bp):
ATTAAAAATATATAAAA
Found at i:31207232 original size:40 final size:36
Alignment explanation
Indices: 31207177--31207276 Score: 107
Period size: 33 Copynumber: 2.7 Consensus size: 36
31207167 TTTTAAAAGA
* *
31207177 AAAAAATTAAAATAAAATATATAATATAGAAAATTATATT
1 AAAAAATAAAAATAAAATATAT-ATATAG---ATTATAAT
*
31207217 AATAAATAAAAAT-AAAT-TATATA-AGATTATAAT
1 AAAAAATAAAAATAAAATATATATATAGATTATAAT
31207250 AAAAAATAAAAATAAAATATATGATAT
1 AAAAAATAAAAATAAAATATAT-ATAT
31207277 TTTGAATATA
Statistics
Matches: 52, Mismatches: 4, Indels: 11
0.78 0.06 0.16
Matches are distributed among these distances:
33 19 0.37
34 4 0.08
35 3 0.06
36 5 0.10
37 3 0.06
38 3 0.06
39 4 0.08
40 11 0.21
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (36 bp):
AAAAAATAAAAATAAAATATATATATAGATTATAAT
Found at i:31207852 original size:23 final size:22
Alignment explanation
Indices: 31207826--31207901 Score: 86
Period size: 22 Copynumber: 3.5 Consensus size: 22
31207816 ATGTTATTGG
31207826 TTTTT-AGTTATTACGAGACTGA
1 TTTTTAAG-TATTACGAGACTGA
* *
31207848 TTTTTAAGTATTACGTGATTGA
1 TTTTTAAGTATTACGAGACTGA
31207870 TTTTTAAGTATT--GTATGACTGA
1 TTTTTAAGTATTACG-A-GACTGA
31207892 TTTTTAAGTA
1 TTTTTAAGTA
31207902 ATGCCTAAGT
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
20 1 0.02
22 44 0.94
23 2 0.04
ACGTcount: A:0.28, C:0.05, G:0.17, T:0.50
Consensus pattern (22 bp):
TTTTTAAGTATTACGAGACTGA
Found at i:31208662 original size:15 final size:15
Alignment explanation
Indices: 31208642--31208688 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
31208632 CAATATTATC
*
31208642 TTCCTTACAATCACA
1 TTCCTTATAATCACA
* *
31208657 TTCCTTGTAATCATA
1 TTCCTTATAATCACA
*
31208672 TTACTTATAATCACA
1 TTCCTTATAATCACA
31208687 TT
1 TT
31208689 GTATTGTAAA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.32, C:0.23, G:0.02, T:0.43
Consensus pattern (15 bp):
TTCCTTATAATCACA
Found at i:31209721 original size:75 final size:71
Alignment explanation
Indices: 31209598--31209744 Score: 231
Period size: 75 Copynumber: 2.0 Consensus size: 71
31209588 CCTTAACCTT
*
31209598 TTATGCTGACATATTCTCATTCACTTCCCTCGTTCTCAATGTGCATGCTAACTAATTGCTATGGC
1 TTATGCTGACATATTCTCATTCACTTCCCTCGTTCTCAATGAGCATG----CTAATTGCTATGGC
31209663 TATTAGGGGG
62 TATTAGGGGG
* *
31209673 TTATGCTGACATATTCTCATTCATTTCCCTCGTTCTCAATGAGCATGCTAATTGCTATGGTTATT
1 TTATGCTGACATATTCTCATTCACTTCCCTCGTTCTCAATGAGCATGCTAATTGCTATGGCTATT
31209738 AGGGGG
66 AGGGGG
31209744 T
1 T
31209745 CGACGATCTT
Statistics
Matches: 69, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
71 24 0.35
75 45 0.65
ACGTcount: A:0.21, C:0.21, G:0.19, T:0.39
Consensus pattern (71 bp):
TTATGCTGACATATTCTCATTCACTTCCCTCGTTCTCAATGAGCATGCTAATTGCTATGGCTATT
AGGGGG
Found at i:31212107 original size:31 final size:29
Alignment explanation
Indices: 31212072--31212147 Score: 75
Period size: 30 Copynumber: 2.6 Consensus size: 29
31212062 ACCATTAGTT
31212072 ATAAAATTTATTTAATAAAAAATAAAAATA
1 ATAAAATTTATTTAA-AAAAAATAAAAATA
* * *
31212102 CAT-AAATTTGA-TTAAATATAATCAAAATA
1 -ATAAAATTT-ATTTAAAAAAAATAAAAATA
31212131 ATAAAAATTTATTTAAA
1 AT-AAAATTTATTTAAA
31212148 TTTTTTTAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
28 2 0.05
29 12 0.32
30 21 0.55
31 3 0.08
ACGTcount: A:0.61, C:0.03, G:0.01, T:0.36
Consensus pattern (29 bp):
ATAAAATTTATTTAAAAAAAATAAAAATA
Found at i:31216705 original size:33 final size:33
Alignment explanation
Indices: 31216660--31216722 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 33
31216650 CAAGAGCTGT
* *
31216660 TTCTTCTTCTTGATCTTCTTCATCATTATCTTG
1 TTCTTCTACTTGATCGTCTTCATCATTATCTTG
*
31216693 TTCTTCTACTTGATGGTCTTCATCATTATC
1 TTCTTCTACTTGATCGTCTTCATCATTATC
31216723 ACTGACAAGA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.14, C:0.24, G:0.08, T:0.54
Consensus pattern (33 bp):
TTCTTCTACTTGATCGTCTTCATCATTATCTTG
Found at i:31220711 original size:59 final size:60
Alignment explanation
Indices: 31220616--31220731 Score: 189
Period size: 59 Copynumber: 1.9 Consensus size: 60
31220606 GATGATATTC
*
31220616 CAATATCTCAAGAGATCTAACATATTTTCTAATAAGATTTTATTTCTCTAACAATCTCTT
1 CAATATCTCAAGAGATCTAACATATTTTCTAATAAGATTTTATTTCTCTAAAAATCTCTT
* * *
31220676 CAATATCTCAAGAGATC-AACATATTTTCTAGTAAGATTTTGTTTCTGTAAAAATCT
1 CAATATCTCAAGAGATCTAACATATTTTCTAATAAGATTTTATTTCTCTAAAAATCT
31220732 ATCAAGTCCT
Statistics
Matches: 52, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
59 35 0.67
60 17 0.33
ACGTcount: A:0.35, C:0.16, G:0.08, T:0.41
Consensus pattern (60 bp):
CAATATCTCAAGAGATCTAACATATTTTCTAATAAGATTTTATTTCTCTAAAAATCTCTT
Found at i:31221496 original size:37 final size:37
Alignment explanation
Indices: 31221446--31221520 Score: 123
Period size: 37 Copynumber: 2.0 Consensus size: 37
31221436 TTGTTCGGAG
31221446 AAAAATGGGATTGAGTTAGACAGTATATCAACCTCCA
1 AAAAATGGGATTGAGTTAGACAGTATATCAACCTCCA
* * *
31221483 AAAAATGGTATTGAGTTATATAGTATATCAACCTCCA
1 AAAAATGGGATTGAGTTAGACAGTATATCAACCTCCA
31221520 A
1 A
31221521 TCAAGTTATA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.41, C:0.15, G:0.16, T:0.28
Consensus pattern (37 bp):
AAAAATGGGATTGAGTTAGACAGTATATCAACCTCCA
Found at i:31222723 original size:29 final size:29
Alignment explanation
Indices: 31222672--31222744 Score: 74
Period size: 29 Copynumber: 2.5 Consensus size: 29
31222662 TATTAAAATG
* * *
31222672 CAACAAAATGTTTTTGAATATGGCATGTAA
1 CAACAATAT-TTTTTCAACATGGCATGTAA
* * *
31222702 TAATAATATTTTTTCAACATGGTATGTAA
1 CAACAATATTTTTTCAACATGGCATGTAA
*
31222731 CAACAGTATTTTTT
1 CAACAATATTTTTT
31222745 TTTTCAACAT
Statistics
Matches: 34, Mismatches: 9, Indels: 1
0.77 0.20 0.02
Matches are distributed among these distances:
29 28 0.82
30 6 0.18
ACGTcount: A:0.37, C:0.10, G:0.12, T:0.41
Consensus pattern (29 bp):
CAACAATATTTTTTCAACATGGCATGTAA
Found at i:31222772 original size:29 final size:28
Alignment explanation
Indices: 31222742--31222878 Score: 126
Period size: 29 Copynumber: 5.0 Consensus size: 28
31222732 AACAGTATTT
31222742 TTTTTTTCAACATGACGTGTAACAACC--
1 TTTTTTT-AACATGACGTGTAACAACCTA
*
31222769 -TTTTTTAACCATGACGTGTAA-TA--TA
1 TTTTTTTAA-CATGACGTGTAACAACCTA
* * * *
31222794 TTTTTGT-ACATAATGTGTAACAACAGTA
1 TTTTTTTAACATGACGTGTAACAAC-CTA
*
31222822 TTTTTTTAACATGACGTGTAACAACAGTA
1 TTTTTTTAACATGACGTGTAACAAC-CTA
*
31222851 TTTTTTCAACATGACGTGTAACAACCTA
1 TTTTTTTAACATGACGTGTAACAACCTA
31222879 ACTATAGAGT
Statistics
Matches: 91, Mismatches: 10, Indels: 17
0.77 0.08 0.14
Matches are distributed among these distances:
24 10 0.11
25 5 0.05
26 23 0.25
28 10 0.11
29 43 0.47
ACGTcount: A:0.33, C:0.16, G:0.12, T:0.39
Consensus pattern (28 bp):
TTTTTTTAACATGACGTGTAACAACCTA
Found at i:31222977 original size:45 final size:45
Alignment explanation
Indices: 31222912--31223032 Score: 125
Period size: 45 Copynumber: 2.7 Consensus size: 45
31222902 GTATATAGCG
* ** **
31222912 TGTCACATGTTTCTGTACATGGTGTATAACAACCTAATCATAACA
1 TGTCACATGTTTTTACACATGACGTATAACAACCTAATCATAACA
* * *
31222957 TGTCACATGTTTTTACACATGACGTGTAACAACCTAATCATGACG
1 TGTCACATGTTTTTACACATGACGTATAACAACCTAATCATAACA
* * ** *
31223002 TGTAACATATTTTTGTACATGACGTGTAACA
1 TGTCACATGTTTTTACACATGACGTATAACA
31223033 TCATAACGTG
Statistics
Matches: 64, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
45 64 1.00
ACGTcount: A:0.32, C:0.19, G:0.15, T:0.34
Consensus pattern (45 bp):
TGTCACATGTTTTTACACATGACGTATAACAACCTAATCATAACA
Found at i:31223210 original size:13 final size:13
Alignment explanation
Indices: 31223192--31223216 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
31223182 TAAAAACATA
31223192 TTATTTTTAAAAT
1 TTATTTTTAAAAT
31223205 TTATTTTTAAAA
1 TTATTTTTAAAA
31223217 ATATCCCTAA
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:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
TTATTTTTAAAAT
Found at i:31233662 original size:19 final size:19
Alignment explanation
Indices: 31233638--31233680 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
31233628 TTTGACATAA
*
31233638 TATTTAAAAAATTTTAAAT
1 TATTTAAAAAAATTTAAAT
31233657 TATTTAAAAAAATTTAAAT
1 TATTTAAAAAAATTTAAAT
*
31233676 AATTT
1 TATTT
31233681 TTATTATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
TATTTAAAAAAATTTAAAT
Found at i:31233971 original size:24 final size:23
Alignment explanation
Indices: 31233917--31233972 Score: 58
Period size: 24 Copynumber: 2.3 Consensus size: 23
31233907 TTAATTAATT
* **
31233917 ATTAAATATAAATATATATTTTA
1 ATTAAATAAAAATATATAACTTA
*
31233940 TTTAAAATAAAAATATATGAACTTA
1 ATT-AAATAAAAATATAT-AACTTA
31233965 ATTAAATA
1 ATTAAATA
31233973 TAATAAAAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
23 2 0.08
24 18 0.69
25 6 0.23
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (23 bp):
ATTAAATAAAAATATATAACTTA
Found at i:31240353 original size:3 final size:3
Alignment explanation
Indices: 31240347--31240420 Score: 130
Period size: 3 Copynumber: 24.7 Consensus size: 3
31240337 TGGTGGTGGC
* *
31240347 GGA GGA GGA GCA GCA GGA GGA GGA GGA GGA GGA GGA GGA GGA GGA GGA
1 GGA GGA GGA GGA GGA GGA GGA GGA GGA GGA GGA GGA GGA GGA GGA GGA
31240395 GGA GGA GGA GGA GGA GGA GGA GGA GG
1 GGA GGA GGA GGA GGA GGA GGA GGA GG
31240421 TGGTGCTGCT
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 69 1.00
ACGTcount: A:0.32, C:0.03, G:0.65, T:0.00
Consensus pattern (3 bp):
GGA
Found at i:31250217 original size:28 final size:30
Alignment explanation
Indices: 31250164--31250226 Score: 87
Period size: 28 Copynumber: 2.2 Consensus size: 30
31250154 GTTAACATTT
*
31250164 TCATACATAAATCTTTTGTTGTTA-TTG-A
1 TCATACATAAAACTTTTGTTGTTATTTGCA
31250192 TCATACATAAAACTTTTGCTTG-TATTTGCA
1 TCATACATAAAACTTTTG-TTGTTATTTGCA
31250222 TCATA
1 TCATA
31250227 ATTTTATGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
28 19 0.61
29 6 0.19
30 6 0.19
ACGTcount: A:0.30, C:0.14, G:0.10, T:0.46
Consensus pattern (30 bp):
TCATACATAAAACTTTTGTTGTTATTTGCA
Found at i:31260782 original size:2 final size:2
Alignment explanation
Indices: 31260775--31260809 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
31260765 TAAATTCATG
31260775 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
31260810 GTATGTATGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:31270084 original size:53 final size:51
Alignment explanation
Indices: 31269965--31270118 Score: 152
Period size: 53 Copynumber: 3.0 Consensus size: 51
31269955 TTCTCATCTT
***
31269965 ACTTTTTAAGTTATTATAGAATTTGAATTCAATCTTTTTATAAAGTTTATA
1 ACTTTTTAAGTTATTATAGAATTTGAATTCAATCTTTTTATAAAAACTATA
* * *
31270016 ACTTTTTAAGTTATTATAGAGTTTTGAA-TCTATTTTTTTGCATAAAAACTATA
1 ACTTTTTAAGTTATTATAGA-ATTTGAATTCAATCTTTTT--ATAAAAACTATA
* * * * *
31270069 ACTTTTTAAATTATTATAAAATTTTAAATGC-AT-TTTTTATAAAAATTATA
1 ACTTTTTAAGTTATTATAGAA-TTTGAATTCAATCTTTTTATAAAAACTATA
31270119 TTTGATGCAT
Statistics
Matches: 86, Mismatches: 12, Indels: 11
0.79 0.11 0.10
Matches are distributed among these distances:
50 11 0.13
51 29 0.34
52 11 0.13
53 34 0.40
54 1 0.01
ACGTcount: A:0.38, C:0.06, G:0.06, T:0.50
Consensus pattern (51 bp):
ACTTTTTAAGTTATTATAGAATTTGAATTCAATCTTTTTATAAAAACTATA
Found at i:31281001 original size:21 final size:21
Alignment explanation
Indices: 31280976--31281015 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
31280966 AATATTGTAC
31280976 ATTTATAAAAATC-ATATTTTT
1 ATTTA-AAAAATCAATATTTTT
*
31280997 ATTTAATAAATCAATATTT
1 ATTTAAAAAATCAATATTT
31281016 CGTGACAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (21 bp):
ATTTAAAAAATCAATATTTTT
Found at i:31293889 original size:17 final size:19
Alignment explanation
Indices: 31293862--31293900 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
31293852 AGATTTTTTG
*
31293862 ACTTGGAAAGAT-CAGGCC
1 ACTTGGAAAGATACAAGCC
31293880 ACTT-GAAAGATACAAGCC
1 ACTTGGAAAGATACAAGCC
31293898 ACT
1 ACT
31293901 AAGCACGCCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 7 0.37
18 12 0.63
ACGTcount: A:0.38, C:0.23, G:0.21, T:0.18
Consensus pattern (19 bp):
ACTTGGAAAGATACAAGCC
Found at i:31294008 original size:3 final size:3
Alignment explanation
Indices: 31294000--31294032 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
31293990 CACCCAAGTT
31294000 AAG AAG AAG AAG AAG AAG AAG AAG -AG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
31294033 TCTTGCTAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 27 0.93
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:31301153 original size:2 final size:2
Alignment explanation
Indices: 31301146--31301210 Score: 81
Period size: 2 Copynumber: 36.0 Consensus size: 2
31301136 GATGGTCCAA
31301146 AT AT AT AT AT AT AT AT AT AT -T AT -T AT AT A- AT A- AT A- AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
31301183 AT A- AT AT AT AT AT AT AT AT AT -T AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
31301211 TATTTCTTAT
Statistics
Matches: 56, Mismatches: 0, Indels: 14
0.80 0.00 0.20
Matches are distributed among these distances:
1 7 0.12
2 49 0.88
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:31301186 original size:11 final size:13
Alignment explanation
Indices: 31301145--31301209 Score: 75
Period size: 11 Copynumber: 5.1 Consensus size: 13
31301135 CGATGGTCCA
31301145 AATATATATATAT
1 AATATATATATAT
31301158 ATATATATTATTATAT
1 A-ATATA-TA-TATAT
31301174 AATA-ATA-ATAT
1 AATATATATATAT
31301185 AATATATATATAT
1 AATATATATATAT
31301198 -ATATAT-TATAT
1 AATATATATATAT
31301209 A
1 A
31301210 TTATTTCTTA
Statistics
Matches: 46, Mismatches: 0, Indels: 13
0.78 0.00 0.22
Matches are distributed among these distances:
11 13 0.28
12 9 0.20
13 7 0.15
14 6 0.13
15 5 0.11
16 6 0.13
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
AATATATATATAT
Found at i:31306058 original size:17 final size:17
Alignment explanation
Indices: 31306036--31306074 Score: 62
Period size: 17 Copynumber: 2.3 Consensus size: 17
31306026 TAGAGGTTGA
31306036 TTTATTTTTCCTTTTTT-
1 TTTATTTTT-CTTTTTTC
31306053 TTTATTTTTCTTTTTTC
1 TTTATTTTTCTTTTTTC
31306070 TTTAT
1 TTTAT
31306075 AATTTGTAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 7 0.33
17 14 0.67
ACGTcount: A:0.08, C:0.10, G:0.00, T:0.82
Consensus pattern (17 bp):
TTTATTTTTCTTTTTTC
Found at i:31309189 original size:20 final size:20
Alignment explanation
Indices: 31309166--31309204 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
31309156 TATTAATTAA
* *
31309166 AAATATTAATCTTTAAATTT
1 AAATATTAAACTCTAAATTT
*
31309186 AAATCTTAAACTCTAAATT
1 AAATATTAAACTCTAAATT
31309205 CGAATAATAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.46, C:0.10, G:0.00, T:0.44
Consensus pattern (20 bp):
AAATATTAAACTCTAAATTT
Found at i:31318351 original size:24 final size:23
Alignment explanation
Indices: 31318297--31318351 Score: 56
Period size: 24 Copynumber: 2.3 Consensus size: 23
31318287 AGCTATTGGA
** *
31318297 TATGGAGGTGGTAGTGGTGGTGG
1 TATGGAGAAGGTAGTGGTGCTGG
*
31318320 TAGCGGAGAAGGTAGTGGTGCTGG
1 TA-TGGAGAAGGTAGTGGTGCTGG
31318344 TTATGGAG
1 -TATGGAG
31318352 GAGTTGGTGG
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
23 2 0.08
24 21 0.84
25 2 0.08
ACGTcount: A:0.18, C:0.04, G:0.51, T:0.27
Consensus pattern (23 bp):
TATGGAGAAGGTAGTGGTGCTGG
Found at i:31318412 original size:123 final size:123
Alignment explanation
Indices: 31318330--31318994 Score: 919
Period size: 123 Copynumber: 5.5 Consensus size: 123
31318320 TAGCGGAGAA
* *
31318330 GGTAGTGGTGCTGGTTATGGAGGAGTTGGTGGACATGGAGGTGGTGGTGGCAATGGTGGCGGTGG
1 GGTAGTGGTGCTGGGTATGGAGGAGCTGGTGGACATGGAGGTGGTGGTGGCAATGGTGGCGGTGG
* *
31318395 AGGTAATGCGGGTGGAGCTTCTGGCTATGGAAGCGGAGGTGGTGAAGGAGGTGGAGCT
66 AGGTAGTGCGGGTGGAGCTTCTGGATATGGAAGCGGAGGTGGTGAAGGAGGTGGAGCT
* * * *
31318453 GGTAGTGGTGCTGGGTTTGGCGGAGCCGGTGGACATGGGGGTGGTGGTGGCAATGGTGGCGGTGG
1 GGTAGTGGTGCTGGGTATGGAGGAGCTGGTGGACATGGAGGTGGTGGTGGCAATGGTGGCGGTGG
* * * *
31318518 AGGTAGTGCGAGTGGAGCTTCTGGATATGGTAGTGGAGGTGGCGAAGGAGGTGGAGCT
66 AGGTAGTGCGGGTGGAGCTTCTGGATATGGAAGCGGAGGTGGTGAAGGAGGTGGAGCT
* * * *
31318576 GGTAGTGGTGCTGGGTTTGGCGGAGCCGGTGGACATGGGGGTGGTGGTGGCAATGGTGGCGGTGG
1 GGTAGTGGTGCTGGGTATGGAGGAGCTGGTGGACATGGAGGTGGTGGTGGCAATGGTGGCGGTGG
* * *
31318641 AGGTAGTGCAGGTGGAGCTTTTGGATAT---------GGTAGT---GGAGGTGGAGCT
66 AGGTAGTGCGGGTGGAGCTTCTGGATATGGAAGCGGAGGTGGTGAAGGAGGTGGAGCT
* * * * *
31318687 GGTAATGGTGCTGGGTATGGCGGAGGTGGTGGACATGGAGGTGGTGGTGGCAATGGTGGTGGCGG
1 GGTAGTGGTGCTGGGTATGGAGGAGCTGGTGGACATGGAGGTGGTGGTGGCAATGGTGGCGGTGG
** *
31318752 AGGTAGTGTAGGTGGAGCTTCTGGATACGGAAGCGGAGGTGGTGAAGGAGGTGGAGCT
66 AGGTAGTGCGGGTGGAGCTTCTGGATATGGAAGCGGAGGTGGTGAAGGAGGTGGAGCT
* * * *
31318810 GGCAGTGGTGTTGGGAATGGAGGAGCGGGTGGACATGGAGGTGGTGGTGGCAATGGTGGCGGTGG
1 GGTAGTGGTGCTGGGTATGGAGGAGCTGGTGGACATGGAGGTGGTGGTGGCAATGGTGGCGGTGG
* *
31318875 AGGTAATGCGGGTGGAGCTTCTGGCTATGGAAGCGGAGGTGGTGAAGGAGGTGGAGCT
66 AGGTAGTGCGGGTGGAGCTTCTGGATATGGAAGCGGAGGTGGTGAAGGAGGTGGAGCT
*
31318933 GGTAGTGGTGCTGGGTATGGAGGAGCTGGTGGACATGGTGGTGGTGGTGG---TGGTGGCGGTGG
1 GGTAGTGGTGCTGGGTATGGAGGAGCTGGTGGACATGGAGGTGGTGGTGGCAATGGTGGCGGTGG
31318995 TGGTGGTAAT
Statistics
Matches: 483, Mismatches: 47, Indels: 27
0.87 0.08 0.05
Matches are distributed among these distances:
111 95 0.20
114 4 0.01
120 17 0.04
123 367 0.76
ACGTcount: A:0.16, C:0.09, G:0.53, T:0.23
Consensus pattern (123 bp):
GGTAGTGGTGCTGGGTATGGAGGAGCTGGTGGACATGGAGGTGGTGGTGGCAATGGTGGCGGTGG
AGGTAGTGCGGGTGGAGCTTCTGGATATGGAAGCGGAGGTGGTGAAGGAGGTGGAGCT
Found at i:31318801 original size:234 final size:234
Alignment explanation
Indices: 31318441--31318916 Score: 711
Period size: 234 Copynumber: 2.0 Consensus size: 234
31318431 AGGTGGTGAA
* * *
31318441 GGAGGTGGAGCTGGTAGTGGTGCTGGGTTTGGCGGAGCCGGTGGACATGGGGGTGGTGGTGGCAA
1 GGAGGTGGAGCTGGTAATGGTGCTGGGTATGGCGGAGCCGGTGGACATGGAGGTGGTGGTGGCAA
* * * * *
31318506 TGGTGGCGGTGGAGGTAGTGCGAGTGGAGCTTCTGGATATGGTAGTGGAGGTGGCGAAGGAGGTG
66 TGGTGGCGGCGGAGGTAGTGAGAGTGGAGCTTCTGGATACGGAAGCGGAGGTGGCGAAGGAGGTG
* ** * *
31318571 GAGCTGGTAGTGGTGCTGGGTTTGGCGGAGCCGGTGGACATGGGGGTGGTGGTGGCAATGGTGGC
131 GAGCTGGCAGTGGTGCTGGGAATGGAGGAGCCGGTGGACATGGAGGTGGTGGTGGCAATGGTGGC
* * * *
31318636 GGTGGAGGTAGTGCAGGTGGAGCTTTTGGATATGGTAGT
196 GGTGGAGGTAATGCAGGTGGAGCTTCTGGATATGGAAGC
**
31318675 GGAGGTGGAGCTGGTAATGGTGCTGGGTATGGCGGAGGTGGTGGACATGGAGGTGGTGGTGGCAA
1 GGAGGTGGAGCTGGTAATGGTGCTGGGTATGGCGGAGCCGGTGGACATGGAGGTGGTGGTGGCAA
* *
31318740 TGGTGGTGGCGGAGGTAGTGTAG-GTGGAGCTTCTGGATACGGAAGCGGAGGTGGTGAAGGAGGT
66 TGGTGGCGGCGGAGGTAGTG-AGAGTGGAGCTTCTGGATACGGAAGCGGAGGTGGCGAAGGAGGT
* *
31318804 GGAGCTGGCAGTGGTGTTGGGAATGGAGGAGCGGGTGGACATGGAGGTGGTGGTGGCAATGGTGG
130 GGAGCTGGCAGTGGTGCTGGGAATGGAGGAGCCGGTGGACATGGAGGTGGTGGTGGCAATGGTGG
* *
31318869 CGGTGGAGGTAATGCGGGTGGAGCTTCTGGCTATGGAAGC
195 CGGTGGAGGTAATGCAGGTGGAGCTTCTGGATATGGAAGC
31318909 GGAGGTGG
1 GGAGGTGG
31318917 TGAAGGAGGT
Statistics
Matches: 216, Mismatches: 25, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
234 215 1.00
235 1 0.00
ACGTcount: A:0.16, C:0.09, G:0.53, T:0.22
Consensus pattern (234 bp):
GGAGGTGGAGCTGGTAATGGTGCTGGGTATGGCGGAGCCGGTGGACATGGAGGTGGTGGTGGCAA
TGGTGGCGGCGGAGGTAGTGAGAGTGGAGCTTCTGGATACGGAAGCGGAGGTGGCGAAGGAGGTG
GAGCTGGCAGTGGTGCTGGGAATGGAGGAGCCGGTGGACATGGAGGTGGTGGTGGCAATGGTGGC
GGTGGAGGTAATGCAGGTGGAGCTTCTGGATATGGAAGC
Found at i:31318879 original size:357 final size:354
Alignment explanation
Indices: 31318330--31318994 Score: 1051
Period size: 357 Copynumber: 1.9 Consensus size: 354
31318320 TAGCGGAGAA
* * * *
31318330 GGTAGTGGTGCTGGTTATGGAGGAGTTGGTGGACATGGAGGTGGTGGTGGCAATGGTGGCGGTGG
1 GGTAATGGTGCTGGGTATGGAGGAGGTGGTGGACATGGAGGTGGTGGTGGCAATGGTGGCGGCGG
* * * *
31318395 AGGTAATGCGGGTGGAGCTTCTGGCTATGGAAGCGGAGGTGGTGAAGGAGGTGGAGCTGGTAGTG
66 AGGTAATGCAGGTGGAGCTTCTGGATACGGAAGCGGAGGTGGTGAAGGAGGTGGAGCTGGCAGTG
** * * *
31318460 GTGCTGGGTTTGGCGGAGCCGGTGGACATGGGGGTGGTGGTGGCAATGGTGGCGGTGGAGGTAGT
131 GTGCTGGGAATGGAGGAGCCGGTGGACATGGAGGTGGTGGTGGCAATGGTGGCGGTGGAGGTAAT
* *
31318525 GCGAGTGGAGCTTCTGGATATGGTAGTGGAGGTGGCGAAGGAGGTGGAGCTGGTAGTGGTGCTGG
196 GCGAGTGGAGCTTCTGGATATGGAAGCGGAGGTGGCGAAGGAGGTGGAGCTGGTAGTGGTGCTGG
* *
31318590 GTTTGGCGGAGCCGGTGGACATGGGGGTGGTGGTGGCAATGGTGGCGGTGGAGGTAGTGCAGGTG
261 GTATGGAGGAGCCGGTGGACATGGGGGTGGTGGTGG---TGGTGGCGGTGGAGGTAGTGCAGGTG
31318655 GAGCTTTTGGATATGGTAGTGGAGGTGGAGCT
323 GAGCTTTTGGATATGGTAGTGGAGGTGGAGCT
* *
31318687 GGTAATGGTGCTGGGTATGGCGGAGGTGGTGGACATGGAGGTGGTGGTGGCAATGGTGGTGGCGG
1 GGTAATGGTGCTGGGTATGGAGGAGGTGGTGGACATGGAGGTGGTGGTGGCAATGGTGGCGGCGG
* *
31318752 AGGTAGTGTAGGTGGAGCTTCTGGATACGGAAGCGGAGGTGGTGAAGGAGGTGGAGCTGGCAGTG
66 AGGTAATGCAGGTGGAGCTTCTGGATACGGAAGCGGAGGTGGTGAAGGAGGTGGAGCTGGCAGTG
* *
31318817 GTGTTGGGAATGGAGGAGCGGGTGGACATGGAGGTGGTGGTGGCAATGGTGGCGGTGGAGGTAAT
131 GTGCTGGGAATGGAGGAGCCGGTGGACATGGAGGTGGTGGTGGCAATGGTGGCGGTGGAGGTAAT
* * *
31318882 GCGGGTGGAGCTTCTGGCTATGGAAGCGGAGGTGGTGAAGGAGGTGGAGCTGGTAGTGGTGCTGG
196 GCGAGTGGAGCTTCTGGATATGGAAGCGGAGGTGGCGAAGGAGGTGGAGCTGGTAGTGGTGCTGG
* *
31318947 GTATGGAGGAGCTGGTGGACATGGTGGTGGTGGTGGTGGTGGCGGTGG
261 GTATGGAGGAGCCGGTGGACATGGGGGTGGTGGTGGTGGTGGCGGTGG
31318995 TGGTGGTAAT
Statistics
Matches: 280, Mismatches: 28, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
354 12 0.04
357 268 0.96
ACGTcount: A:0.16, C:0.09, G:0.53, T:0.23
Consensus pattern (354 bp):
GGTAATGGTGCTGGGTATGGAGGAGGTGGTGGACATGGAGGTGGTGGTGGCAATGGTGGCGGCGG
AGGTAATGCAGGTGGAGCTTCTGGATACGGAAGCGGAGGTGGTGAAGGAGGTGGAGCTGGCAGTG
GTGCTGGGAATGGAGGAGCCGGTGGACATGGAGGTGGTGGTGGCAATGGTGGCGGTGGAGGTAAT
GCGAGTGGAGCTTCTGGATATGGAAGCGGAGGTGGCGAAGGAGGTGGAGCTGGTAGTGGTGCTGG
GTATGGAGGAGCCGGTGGACATGGGGGTGGTGGTGGTGGTGGCGGTGGAGGTAGTGCAGGTGGAG
CTTTTGGATATGGTAGTGGAGGTGGAGCT
Found at i:31318974 original size:3 final size:3
Alignment explanation
Indices: 31318968--31319015 Score: 69
Period size: 3 Copynumber: 16.0 Consensus size: 3
31318958 CTGGTGGACA
* **
31318968 TGG TGG TGG TGG TGG TGG TGG CGG TGG TGG TGG TAA TGG TGG TGG TGG
1 TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG
31319016 AGGTAGTGCA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.04, C:0.02, G:0.62, T:0.31
Consensus pattern (3 bp):
TGG
Found at i:31319110 original size:3 final size:3
Alignment explanation
Indices: 31319104--31319147 Score: 63
Period size: 3 Copynumber: 14.7 Consensus size: 3
31319094 TGGTTCAGGA
*
31319104 GGT GGT GGT GGT GGT GGT GGT GGT GGT GG- GAGT GGA GGT GGT GG
1 GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT G-GT GGT GGT GGT GG
31319148 AGAAGGATAT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
2 1 0.03
3 35 0.95
4 1 0.03
ACGTcount: A:0.05, C:0.00, G:0.68, T:0.27
Consensus pattern (3 bp):
GGT
Found at i:31319148 original size:9 final size:9
Alignment explanation
Indices: 31319101--31319149 Score: 55
Period size: 9 Copynumber: 5.4 Consensus size: 9
31319091 TGTTGGTTCA
31319101 GGAGGTGGT
1 GGAGGTGGT
*
31319110 GGTGGTGGT
1 GGAGGTGGT
*
31319119 GGTGGTGGT
1 GGAGGTGGT
*
31319128 GGTGG-GAGT
1 GGAGGTG-GT
31319137 GGAGGTGGT
1 GGAGGTGGT
31319146 GGAG
1 GGAG
31319150 AAGGATATGG
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
8 1 0.03
9 34 0.94
10 1 0.03
ACGTcount: A:0.08, C:0.00, G:0.67, T:0.24
Consensus pattern (9 bp):
GGAGGTGGT
Found at i:31321825 original size:31 final size:34
Alignment explanation
Indices: 31321771--31321839 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 34
31321761 TACTTTGGTC
*
31321771 AATTTTTTATAATTTTATGTTACTTATTA-AG-TA
1 AATTTTTTATAATTTAATGTTACTT-TTATAGTTA
31321804 AATTTTTTAT-A-TTAATGTTACTTTTATAGTTA
1 AATTTTTTATAATTTAATGTTACTTTTATAGTTA
31321836 AATT
1 AATT
31321840 ATATGTTTCT
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
30 3 0.09
31 13 0.39
32 7 0.21
33 10 0.30
ACGTcount: A:0.33, C:0.03, G:0.06, T:0.58
Consensus pattern (34 bp):
AATTTTTTATAATTTAATGTTACTTTTATAGTTA
Found at i:31323337 original size:18 final size:18
Alignment explanation
Indices: 31323311--31323345 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
31323301 TGGCGGATCC
31323311 GGCTATGGAGGTGCAGGG
1 GGCTATGGAGGTGCAGGG
*
31323329 GGCTTTGGAGGTGCAGG
1 GGCTATGGAGGTGCAGG
31323346 TGGACATGGC
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:0.14, C:0.11, G:0.54, T:0.20
Consensus pattern (18 bp):
GGCTATGGAGGTGCAGGG
Found at i:31323880 original size:93 final size:93
Alignment explanation
Indices: 31323773--31323941 Score: 232
Period size: 93 Copynumber: 1.8 Consensus size: 93
31323763 TAGTGGTGCA
* * * * *
31323773 GGAGGTGGAGCAGGTTATGGAGCGGGTGGAGCTCATGGAGGTGGATATGGTGGTGGTGGAGGCGC
1 GGAGGTGGAGCAGGTTACGGAGCGGGAGGAGCTCATGGAGGGGGATACGGTAGTGGTGGAGGCGC
31323838 TGGGGGTGGTTTTGCTGGCGGTGGTGGG
66 TGGGGGTGGTTTTGCTGGCGGTGGTGGG
* * * **
31323866 GGAGGTGG-GACAGGTTACGGTGCTGGAGGAGCTCATGGTGGGGGATACGGTAGTGGTGGAGGTT
1 GGAGGTGGAG-CAGGTTACGGAGCGGGAGGAGCTCATGGAGGGGGATACGGTAGTGGTGGAGGCG
31323930 CTGGGGGTGGTT
65 CTGGGGGTGGTT
31323942 ATGGTAGTGG
Statistics
Matches: 65, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
92 1 0.02
93 64 0.98
ACGTcount: A:0.13, C:0.09, G:0.54, T:0.24
Consensus pattern (93 bp):
GGAGGTGGAGCAGGTTACGGAGCGGGAGGAGCTCATGGAGGGGGATACGGTAGTGGTGGAGGCGC
TGGGGGTGGTTTTGCTGGCGGTGGTGGG
Found at i:31323952 original size:18 final size:18
Alignment explanation
Indices: 31323931--31323975 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
31323921 GTGGAGGTTC
31323931 TGGGGGTGGTTATGGTAG
1 TGGGGGTGGTTATGGTAG
* *
31323949 TGGGGCTGGTTATGGTGG
1 TGGGGGTGGTTATGGTAG
*
31323967 TGGAGGTGG
1 TGGGGGTGG
31323976 CTCTGGTGGC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.09, C:0.02, G:0.58, T:0.31
Consensus pattern (18 bp):
TGGGGGTGGTTATGGTAG
Found at i:31323969 original size:30 final size:30
Alignment explanation
Indices: 31323900--31323970 Score: 72
Period size: 30 Copynumber: 2.4 Consensus size: 30
31323890 GGAGGAGCTC
*
31323900 ATGGTGGGGGATACGGTAGTGGTGGAGGTT
1 ATGGTGGTGGATACGGTAGTGGTGGAGGTT
* * * * *
31323930 CTGGGGGTGGTTATGGTAGTGG-GGCTGGTT
1 ATGGTGGTGGATACGGTAGTGGTGG-AGGTT
31323960 ATGGTGGTGGA
1 ATGGTGGTGGA
31323971 GGTGGCTCTG
Statistics
Matches: 31, Mismatches: 9, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
29 2 0.06
30 29 0.94
ACGTcount: A:0.13, C:0.04, G:0.54, T:0.30
Consensus pattern (30 bp):
ATGGTGGTGGATACGGTAGTGGTGGAGGTT
Found at i:31333587 original size:2 final size:2
Alignment explanation
Indices: 31333580--31333604 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
31333570 GTAACATCTA
31333580 TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC T
31333605 GGTCCTTGGT
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:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:31339897 original size:7 final size:8
Alignment explanation
Indices: 31339879--31339908 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
31339869 TAATAACTTT
*
31339879 AAAATAAA
1 AAAATATA
31339887 AAAATATA
1 AAAATATA
31339895 AAAATATA
1 AAAATATA
31339903 AAAATA
1 AAAATA
31339909 CTATTTATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (8 bp):
AAAATATA
Found at i:31339987 original size:26 final size:26
Alignment explanation
Indices: 31339955--31340070 Score: 148
Period size: 26 Copynumber: 4.4 Consensus size: 26
31339945 ATTTTATATT
31339955 TTAATAATTTATAATTAATTAAAATA
1 TTAATAATTTATAATTAATTAAAATA
31339981 TTAATAATTTATAATTAATTAAAATA
1 TTAATAATTTATAATTAATTAAAATA
*
31340007 TTAATAATTTATAATTTAAATANTAATATA
1 TTAATAATTTATAA-TT-AAT--TAAAATA
*
31340037 TTAATAA-TT-TAA-TAAATAAAATA
1 TTAATAATTTATAATTAATTAAAATA
*
31340060 TTAATAGTTTA
1 TTAATAATTTA
31340071 AAATATTAAT
Statistics
Matches: 80, Mismatches: 4, Indels: 13
0.82 0.04 0.13
Matches are distributed among these distances:
23 12 0.15
24 2 0.03
25 2 0.03
26 41 0.51
27 2 0.03
28 6 0.08
29 2 0.03
30 13 0.16
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (26 bp):
TTAATAATTTATAATTAATTAAAATA
Found at i:31340025 original size:23 final size:23
Alignment explanation
Indices: 31339955--31340091 Score: 113
Period size: 26 Copynumber: 5.7 Consensus size: 23
31339945 ATTTTATATT
31339955 TTAATAATTTATAATTAATTAAAATA
1 TTAATAATTTATAA-T--TTAAAATA
31339981 TTAATAATTTATAATTAATTAAAATA
1 TTAATAATTTATAA-T--TTAAAATA
31340007 TTAATAATTTATAATTT-AAATA
1 TTAATAATTTATAATTTAAAATA
* *
31340029 NTAATATATTAATAATTTAATAA-A
1 TTAATA-ATTTATAATTTAA-AATA
*
31340053 -TAA-AATATTAATAGTTTAAAATA
1 TTAATAAT-TT-ATAATTTAAAATA
*
31340076 TTAATATTTTA-AATTT
1 TTAATAATTTATAATTT
31340092 TACAAATAAT
Statistics
Matches: 97, Mismatches: 6, Indels: 20
0.79 0.05 0.16
Matches are distributed among these distances:
21 2 0.02
22 18 0.19
23 25 0.26
24 7 0.07
25 5 0.05
26 40 0.41
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.47
Consensus pattern (23 bp):
TTAATAATTTATAATTTAAAATA
Found at i:31340074 original size:16 final size:16
Alignment explanation
Indices: 31340053--31340088 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
31340043 ATTTAATAAA
31340053 TAAAATATTAATAGTT
1 TAAAATATTAATAGTT
*
31340069 TAAAATATTAATATTT
1 TAAAATATTAATAGTT
31340085 TAAA
1 TAAA
31340089 TTTTACAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (16 bp):
TAAAATATTAATAGTT
Found at i:31340093 original size:23 final size:23
Alignment explanation
Indices: 31339973--31340099 Score: 82
Period size: 23 Copynumber: 5.3 Consensus size: 23
31339963 TTATAATTAA
*
31339973 TTAAAATATTAATAATTTATAATT
1 TTAAAATATTAATATTTTA-AATT
*
31339997 AATTAAAATATTAATAATTTATAA-T
1 --TTAAAATATTAATATTTTA-AATT
* * *
31340022 TT-AAATANTAATATATTAATAAT
1 TTAAAATATTAATATTTTAA-ATT
* * *
31340045 TTAATAA-A-TAAAATATTAATAGT
1 TTAA-AATATTAATATTTTAA-ATT
31340068 TTAAAATATTAATATTTTAAATT
1 TTAAAATATTAATATTTTAAATT
31340091 TTACAAATA
1 TTA-AAATA
31340100 ATTTTTTTTA
Statistics
Matches: 86, Mismatches: 8, Indels: 16
0.78 0.07 0.15
Matches are distributed among these distances:
21 1 0.01
22 16 0.19
23 28 0.33
24 16 0.19
25 3 0.03
26 22 0.26
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.45
Consensus pattern (23 bp):
TTAAAATATTAATATTTTAAATT
Found at i:31341524 original size:33 final size:32
Alignment explanation
Indices: 31341449--31341541 Score: 107
Period size: 33 Copynumber: 2.8 Consensus size: 32
31341439 GAAAAAAATT
* *
31341449 AAAATAAAATATATAATATA-ACAAATTATATTA
1 AAAATAAAA-ATAAAATATATA-AAATTATATAA
*
31341482 AAAATAAAAATAAAATATATAAGATTATAATAA
1 AAAATAAAAATAAAATATATAAAATTAT-ATAA
* *
31341515 AAAATAAAAATAAAACATATAACATTA
1 AAAATAAAAATAAAATATATAAAATTA
31341542 AAAGTATATT
Statistics
Matches: 53, Mismatches: 5, Indels: 4
0.85 0.08 0.06
Matches are distributed among these distances:
32 15 0.28
33 38 0.72
ACGTcount: A:0.68, C:0.03, G:0.01, T:0.28
Consensus pattern (32 bp):
AAAATAAAAATAAAATATATAAAATTATATAA
Found at i:31341529 original size:5 final size:6
Alignment explanation
Indices: 31341442--31341529 Score: 50
Period size: 6 Copynumber: 13.7 Consensus size: 6
31341432 TTTTGAAGAA
* * * * *
31341442 AAAAAT TAAAAT AAAATAT ATAATAT AACAAAT TATATT AAAAAT AAAAAT
1 AAAAAT AAAAAT AAAA-AT A-AAAAT AA-AAAT AAAAAT AAAAAT AAAAAT
* * *
31341493 AAAATAT ATAAGAT TATAAT AAAAAAT AAAAAT AAAA
1 AAAA-AT A-AAAAT AAAAAT -AAAAAT AAAAAT AAAA
31341530 CATATAACAT
Statistics
Matches: 60, Mismatches: 16, Indels: 12
0.68 0.18 0.14
Matches are distributed among these distances:
6 37 0.62
7 19 0.32
8 4 0.07
ACGTcount: A:0.70, C:0.01, G:0.01, T:0.27
Consensus pattern (6 bp):
AAAAAT
Found at i:31341557 original size:39 final size:37
Alignment explanation
Indices: 31341442--31341557 Score: 114
Period size: 39 Copynumber: 3.1 Consensus size: 37
31341432 TTTTGAAGAA
* * *
31341442 AAAAATTAAAATAAAATATATAATATAACAAATTATATT
1 AAAAATAAAAATAAAATATATAACATTA-AAA-TATATT
* *
31341481 AAAAATAAAAATAAAATATATAAGATT---ATA-ATA
1 AAAAATAAAAATAAAATATATAACATTAAAATATATT
*
31341514 AAAAATAAAAATAAAACATATAACATTAAAAGTATATTT
1 AAAAATAAAAATAAAATATATAACATTAAAA-TATA-TT
31341553 AAAAA
1 AAAAA
31341558 ATGATATTAT
Statistics
Matches: 64, Mismatches: 7, Indels: 12
0.77 0.08 0.14
Matches are distributed among these distances:
33 27 0.42
34 2 0.03
35 1 0.02
36 1 0.02
37 2 0.03
38 1 0.02
39 30 0.47
ACGTcount: A:0.67, C:0.03, G:0.02, T:0.28
Consensus pattern (37 bp):
AAAAATAAAAATAAAATATATAACATTAAAATATATT
Found at i:31341782 original size:15 final size:15
Alignment explanation
Indices: 31341751--31341793 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
31341741 TTATTTTTCC
* *
31341751 TAAAATCACATTGTT
1 TAAAATCATATTATT
31341766 TAAAATCATATTATT
1 TAAAATCATATTATT
* *
31341781 TACAATTATATTA
1 TAAAATCATATTA
31341794 CCTGTAATCA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.44, C:0.09, G:0.02, T:0.44
Consensus pattern (15 bp):
TAAAATCATATTATT
Done.