Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr10
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: 21822658
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.32
Warning! 1067834 characters in sequence are not A, C, G, or T
File 10 of 59
Found at i:3754851 original size:5 final size:5
Alignment explanation
Indices: 3754841--3754872 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
3754831 TACACTGAAT
3754841 ATTTA ATTTA ATTTA ATTTA ATTTA ATTTA AT
1 ATTTA ATTTA ATTTA ATTTA ATTTA ATTTA AT
3754873 AATATATATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
ATTTA
Found at i:3759254 original size:132 final size:126
Alignment explanation
Indices: 3759071--3759304 Score: 306
Period size: 132 Copynumber: 1.8 Consensus size: 126
3759061 TTTTTTGAAA
* * *
3759071 AAAAATCACATAATACTTAATTTTTTTTAATTATTCATAAAAAATCAAATAAGTCTGTATTCTTT
1 AAAAATCACATAATACTTAAATCTTTTTAATTATTCATAAAAAATCAAATAAGTCTGTATTATTT
* * * *
3759136 TGTTATATTCATTTATATTTTTATATTTTTATTTTGAGTCAAACAGGTCATTATGATTTTTTTTT
66 TATTACATTCATTCATA----TATATTTTTATTTTAAGTCAAACAGGTCATTATGATTTTTTTTT
* * * * *
3759201 AAAAATCACATAATACTTAGAAATCTTTTTAATTATTTATAAAAATTTAAATAAGTTTTTATTAT
1 AAAAATCACATAATACTT--AAATCTTTTTAATTATTCATAAAAAATCAAATAAGTCTGTATTAT
3759266 TTTATTACATTCATTCATATATATTTTTATTTTAAGTCA
64 TTTATTACATTCATTCATATATATTTTTATTTTAAGTCA
3759305 GATAAGTTAT
Statistics
Matches: 90, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
128 19 0.21
130 18 0.20
132 53 0.59
ACGTcount: A:0.37, C:0.08, G:0.05, T:0.50
Consensus pattern (126 bp):
AAAAATCACATAATACTTAAATCTTTTTAATTATTCATAAAAAATCAAATAAGTCTGTATTATTT
TATTACATTCATTCATATATATTTTTATTTTAAGTCAAACAGGTCATTATGATTTTTTTTT
Found at i:3761816 original size:2 final size:2
Alignment explanation
Indices: 3761809--3761834 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
3761799 ACATAATAGA
3761809 AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG
3761835 CAAAGGGGAT
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:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:3763656 original size:19 final size:18
Alignment explanation
Indices: 3763634--3763669 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
3763624 AATATTTTAT
3763634 TAATTATTAATTTATTTTG
1 TAATTATTAATTT-TTTTG
*
3763653 TAATTTTTAATTTTTTT
1 TAATTATTAATTTTTTT
3763670 ATGACAGGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (18 bp):
TAATTATTAATTTTTTTG
Found at i:3765357 original size:18 final size:17
Alignment explanation
Indices: 3765317--3765372 Score: 62
Period size: 18 Copynumber: 3.3 Consensus size: 17
3765307 TTTACATCTA
3765317 TTTCTCTTT-TCTTTTT
1 TTTCTCTTTCTCTTTTT
*
3765333 CTT-TCTTTCTCTTCTTT
1 TTTCTCTTTCTCTT-TTT
*
3765350 TTTCTCTTTCTCCTATTT
1 TTTCTCTTTCT-CTTTTT
3765368 TTTCT
1 TTTCT
3765373 TTTTAATTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
15 5 0.15
16 6 0.18
17 5 0.15
18 15 0.45
19 2 0.06
ACGTcount: A:0.02, C:0.25, G:0.00, T:0.73
Consensus pattern (17 bp):
TTTCTCTTTCTCTTTTT
Found at i:3766280 original size:15 final size:16
Alignment explanation
Indices: 3766256--3766285 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
3766246 GAAAGAACGA
3766256 AAAAAGGAAAAAAAAG
1 AAAAAGGAAAAAAAAG
3766272 AAAAA-GAAAAAAAA
1 AAAAAGGAAAAAAAA
3766286 ATTAGGGAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (16 bp):
AAAAAGGAAAAAAAAG
Found at i:3766286 original size:16 final size:16
Alignment explanation
Indices: 3766256--3766286 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
3766246 GAAAGAACGA
*
3766256 AAAAAGGAAAAAAAAG
1 AAAAAGAAAAAAAAAG
3766272 AAAAAGAAAAAAAAA
1 AAAAAGAAAAAAAAA
3766287 TTAGGGAGAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (16 bp):
AAAAAGAAAAAAAAAG
Found at i:3766909 original size:19 final size:19
Alignment explanation
Indices: 3766872--3766909 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
3766862 TAGAAAATCA
*
3766872 AAATAAACAAAAAATAAAT
1 AAATAAACAAAAAAAAAAT
3766891 AAATAAA-AAAAATAAAAAT
1 AAATAAACAAAAA-AAAAAT
3766910 GATAAGTGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.82, C:0.03, G:0.00, T:0.16
Consensus pattern (19 bp):
AAATAAACAAAAAAAAAAT
Found at i:3767434 original size:8 final size:8
Alignment explanation
Indices: 3767421--3767481 Score: 56
Period size: 8 Copynumber: 7.6 Consensus size: 8
3767411 AATTTTTATT
3767421 AAATAATA
1 AAATAATA
3767429 AAATAATA
1 AAATAATA
*
3767437 ATATACATTA
1 AAATA-A-TA
*
3767447 AAAAAAT-
1 AAATAATA
3767454 AAATAAT-
1 AAATAATA
3767461 AAA-AATAA
1 AAATAAT-A
3767469 AAATAATA
1 AAATAATA
3767477 AAATA
1 AAATA
3767482 TGTAAATAAG
Statistics
Matches: 44, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
6 3 0.07
7 9 0.20
8 22 0.50
9 5 0.11
10 5 0.11
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.25
Consensus pattern (8 bp):
AAATAATA
Found at i:3767461 original size:22 final size:21
Alignment explanation
Indices: 3767421--3767478 Score: 64
Period size: 21 Copynumber: 2.7 Consensus size: 21
3767411 AATTTTTATT
*
3767421 AAATAATAAAAT-AATAATATA
1 AAATAAAAAAATAAATAATA-A
* *
3767442 CATTAAAAAAATAAATAATAA
1 AAATAAAAAAATAAATAATAA
3767463 AAATAAAAATAATAAA
1 AAATAAAAA-AATAAA
3767479 ATATGTAAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
21 17 0.57
22 13 0.43
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.24
Consensus pattern (21 bp):
AAATAAAAAAATAAATAATAA
Found at i:3767463 original size:15 final size:15
Alignment explanation
Indices: 3767420--3767479 Score: 68
Period size: 15 Copynumber: 3.8 Consensus size: 15
3767410 TAATTTTTAT
*
3767420 TAAATAATAAAATAA
1 TAAATAATAAAAAAA
3767435 TAATATACATTAAAAAAA
1 TAA-ATA-A-TAAAAAAA
3767453 TAAATAATAAAAATAA
1 TAAATAATAAAAA-AA
3767469 -AAATAATAAAA
1 TAAATAATAAAA
3767480 TATGTAAATA
Statistics
Matches: 40, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
15 20 0.50
16 6 0.15
17 4 0.10
18 10 0.25
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (15 bp):
TAAATAATAAAAAAA
Found at i:3767471 original size:214 final size:214
Alignment explanation
Indices: 3767047--3767477 Score: 471
Period size: 214 Copynumber: 2.0 Consensus size: 214
3767037 TTATAAGAAA
* *
3767047 AATGAAATGATTATTTGAGTGATTTCACCTAAAAAGGGCAAAAAGTTACCTATTTCGGGTGGGTT
1 AATGAAATGATTATTTGAGTGAGTTCACCTAAAAAGGGCAAAAAGTTACCTATTTCAGGTGGGTT
* ** **
3767112 ATTTAGGTACGGAGTTCGAGACAGATTTTCACAGAAGTGTTGGGATAAATCTGAACTCTAAACTT
66 ACTTAGGTACGGAGTTCGAGACAGATTTTCACAGAAACGTCAGGATAAATCTGAACTCTAAACTT
* * ***
3767177 CGATACCCGTTAAGTCAAATAATCGTTGTTAAAATATAATAAATAAAAAAATACATGATGTAAAT
131 CAATACCCATTAAGTCAAATAATC-TTGTTAAAATATAATAAATAAAAAAATACATGAAAAAAAT
****
3767242 ATAATTGTTATAAAAA-AAT
195 ATAATAAAAATAAAAATAAT
* * * *
3767261 AATGAAATGATTATTTGAGTGAGTTCACCTAAAAAGGGTAAATAGTTGCCTCTTTCAGGTGGGTT
1 AATGAAATGATTATTTGAGTGAGTTCACCTAAAAAGGGCAAAAAGTTACCTATTTCAGGTGGGTT
* * * *
3767326 ACTTAGGTATGGAGTTTGAGAC-GAATTTTCATC-GAAACGTCAGGATAAAT-TCGAACTTTATA
66 ACTTAGGTACGGAGTTCGAGACAG-ATTTTCA-CAGAAACGTCAGGATAAATCT-GAACTCTAAA
* * * * * *
3767388 CTTCAATACCCATTAATTTAAATAAT-TT-TTATTAA-ATAATAAAATAATAATATACATTAAAA
128 CTTCAATACCCATTAAGTCAAATAATCTTGTTA-AAATATAAT-AAATAAAAAAATACATGAAAA
3767450 AAATAAATAATAAAAATAAAAATAAT
191 AAAT--ATAATAAAAATAAAAATAAT
3767476 AA
1 AA
3767478 AATATGTAAA
Statistics
Matches: 179, Mismatches: 30, Indels: 15
0.80 0.13 0.07
Matches are distributed among these distances:
211 8 0.04
212 23 0.13
213 2 0.01
214 140 0.78
215 6 0.03
ACGTcount: A:0.42, C:0.10, G:0.16, T:0.32
Consensus pattern (214 bp):
AATGAAATGATTATTTGAGTGAGTTCACCTAAAAAGGGCAAAAAGTTACCTATTTCAGGTGGGTT
ACTTAGGTACGGAGTTCGAGACAGATTTTCACAGAAACGTCAGGATAAATCTGAACTCTAAACTT
CAATACCCATTAAGTCAAATAATCTTGTTAAAATATAATAAATAAAAAAATACATGAAAAAAATA
TAATAAAAATAAAAATAAT
Found at i:3773737 original size:1 final size:1
Alignment explanation
Indices: 3773731--3773767 Score: 65
Period size: 1 Copynumber: 37.0 Consensus size: 1
3773721 AAACCGCGCC
*
3773731 GGGGGGGGGGGGGGGGGGGGGNGGGGGGGGGGGGGGG
1 GGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG
3773768 TCTCCAGTCC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
1 34 1.00
ACGTcount: A:0.00, C:0.00, G:0.97, T:0.00
Consensus pattern (1 bp):
G
Found at i:3775036 original size:12 final size:12
Alignment explanation
Indices: 3775019--3775045 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
3775009 GCTGAGACTA
3775019 AAAAAGATTCTG
1 AAAAAGATTCTG
3775031 AAAAAGATTCTG
1 AAAAAGATTCTG
3775043 AAA
1 AAA
3775046 GCACTGGCAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.56, C:0.07, G:0.15, T:0.22
Consensus pattern (12 bp):
AAAAAGATTCTG
Found at i:3779217 original size:2 final size:2
Alignment explanation
Indices: 3779210--3779240 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
3779200 ATTATANATA
*
3779210 AT AT AT AT AT AT TT 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 A
3779241 AAAGGAGGAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:3786361 original size:33 final size:33
Alignment explanation
Indices: 3786319--3786385 Score: 107
Period size: 33 Copynumber: 2.0 Consensus size: 33
3786309 GGAGCTGTTT
3786319 CTTGAGGCCACCAAGAAGACCTTAGACCCACAC
1 CTTGAGGCCACCAAGAAGACCTTAGACCCACAC
** *
3786352 CTTGAGGCCACTGAGAAGACCTTAGATCCACAC
1 CTTGAGGCCACCAAGAAGACCTTAGACCCACAC
3786385 C
1 C
3786386 ATATGAAGGA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.31, C:0.34, G:0.19, T:0.15
Consensus pattern (33 bp):
CTTGAGGCCACCAAGAAGACCTTAGACCCACAC
Found at i:3789627 original size:13 final size:13
Alignment explanation
Indices: 3789609--3789633 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3789599 ATATTATACT
3789609 ATAAAATGTTTCA
1 ATAAAATGTTTCA
3789622 ATAAAATGTTTC
1 ATAAAATGTTTC
3789634 TACCCATTTA
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:0.44, C:0.08, G:0.08, T:0.40
Consensus pattern (13 bp):
ATAAAATGTTTCA
Found at i:3793209 original size:158 final size:158
Alignment explanation
Indices: 3792921--3793209 Score: 560
Period size: 158 Copynumber: 1.8 Consensus size: 158
3792911 TTAAAAGATT
3792921 TTAAAGCTTATTTGGAGTTCTGTTGTGGCTTCACTTTAAGCCTGAATTAATTATTTCCACCTACA
1 TTAAAGCTTATTTGGAGTTCTGTTGTGGCTTCACTTTAAGCCTGAATTAATTATTTCCACCTACA
*
3792986 GTACACCAACCCAAAAATAAATAATAATAAAAGAAATATTTTCTACCCTAACACTAATATATAGT
66 GTACACCAACCCAAAAATAAATAATAATAAAAGAAAAATTTTCTACCCTAACACTAATATATAGT
3793051 TTTTACATTATATATATATATTTGCAAA
131 TTTTACATTATATATATATATTTGCAAA
*
3793079 TTAAAGCTTATTTGGAGTTCTGTTGTGGCTTCACTTTAAGCCTGAATTAATTATTTCTACCTACA
1 TTAAAGCTTATTTGGAGTTCTGTTGTGGCTTCACTTTAAGCCTGAATTAATTATTTCCACCTACA
3793144 GTACACCAACCCAAAAATAAATAATAATAAAAGAAAAATTTTCTACCCTAACACTAATATATAGT
66 GTACACCAACCCAAAAATAAATAATAATAAAAGAAAAATTTTCTACCCTAACACTAATATATAGT
3793209 T
131 T
3793210 GGTACACACT
Statistics
Matches: 129, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
158 129 1.00
ACGTcount: A:0.38, C:0.17, G:0.09, T:0.36
Consensus pattern (158 bp):
TTAAAGCTTATTTGGAGTTCTGTTGTGGCTTCACTTTAAGCCTGAATTAATTATTTCCACCTACA
GTACACCAACCCAAAAATAAATAATAATAAAAGAAAAATTTTCTACCCTAACACTAATATATAGT
TTTTACATTATATATATATATTTGCAAA
Found at i:3795093 original size:16 final size:16
Alignment explanation
Indices: 3795072--3795120 Score: 55
Period size: 16 Copynumber: 3.0 Consensus size: 16
3795062 ACGTCTCCTT
3795072 TTTTTTTTTAAATAAA
1 TTTTTTTTTAAATAAA
*
3795088 TTTTTTTTATAAATTTAA
1 TTTTTTTT-TAAA-TAAA
*
3795106 -TTTTTTATAAATAAA
1 TTTTTTTTTAAATAAA
3795121 AAATTNTAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
15 3 0.11
16 12 0.43
17 10 0.36
18 3 0.11
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
TTTTTTTTTAAATAAA
Found at i:3795107 original size:18 final size:17
Alignment explanation
Indices: 3795071--3795120 Score: 59
Period size: 17 Copynumber: 3.0 Consensus size: 17
3795061 CACGTCTCCT
*
3795071 TTTTTTTTTTAAATAAA
1 TTTTTTTTATAAATAAA
*
3795088 TTTTTTTTATAAATTTAA
1 TTTTTTTTATAAA-TAAA
3795106 --TTTTTTATAAATAAA
1 TTTTTTTTATAAATAAA
3795121 AAATTNTAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
15 3 0.10
16 11 0.38
17 12 0.41
18 3 0.10
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
TTTTTTTTATAAATAAA
Found at i:3795231 original size:30 final size:30
Alignment explanation
Indices: 3795197--3795272 Score: 102
Period size: 30 Copynumber: 2.5 Consensus size: 30
3795187 ACATTATTAT
3795197 ATTC-AATCAAACTTTTATATTTTTATTTTA
1 ATTCAAAT-AAACTTTTATATTTTTATTTTA
*
3795227 ATTCAAATAAATTTTTATATTTTTATTTTAA
1 ATTCAAATAAACTTTTATATTTTTATTTT-A
*
3795258 ATT-AAATAAATTTTT
1 ATTCAAATAAACTTTT
3795273 TATAATTAAT
Statistics
Matches: 43, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
30 36 0.84
31 7 0.16
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (30 bp):
ATTCAAATAAACTTTTATATTTTTATTTTA
Found at i:3795276 original size:31 final size:30
Alignment explanation
Indices: 3795209--3795272 Score: 112
Period size: 30 Copynumber: 2.1 Consensus size: 30
3795199 TCAATCAAAC
3795209 TTTTATATTTTTATTTTAATTCAAATAAAT
1 TTTTATATTTTTATTTTAATTCAAATAAAT
3795239 TTTTATATTTTTATTTTAAATT-AAATAAAT
1 TTTTATATTTTTATTTT-AATTCAAATAAAT
3795269 TTTT
1 TTTT
3795273 TATAATTAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
30 29 0.88
31 4 0.12
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (30 bp):
TTTTATATTTTTATTTTAATTCAAATAAAT
Found at i:3795414 original size:21 final size:21
Alignment explanation
Indices: 3795383--3795432 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
3795373 ATTATAATTG
* *
3795383 ATAATAATATAATAT-ATTGAT
1 ATAATATTATAACATAATT-AT
*
3795404 TTAATATTATAACATAATTAT
1 ATAATATTATAACATAATTAT
3795425 ATAATATT
1 ATAATATT
3795433 TTTTACTTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
21 21 0.88
22 3 0.12
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (21 bp):
ATAATATTATAACATAATTAT
Found at i:3795526 original size:11 final size:10
Alignment explanation
Indices: 3795498--3795531 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
3795488 AATAATATTT
3795498 TAATTAATAA
1 TAATTAATAA
3795508 TAATTAATCAA
1 TAATTAAT-AA
*
3795519 TTATTAATAA
1 TAATTAATAA
3795529 TAA
1 TAA
3795532 AAATTTATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (10 bp):
TAATTAATAA
Found at i:3795556 original size:21 final size:19
Alignment explanation
Indices: 3795529--3795584 Score: 67
Period size: 21 Copynumber: 2.8 Consensus size: 19
3795519 TTATTAATAA
3795529 TAAAAATTTATTTAAAAAT
1 TAAAAATTTATTTAAAAAT
* * *
3795548 TAATTAAATATAATAAAAAAT
1 TAA--AAATTTATTTAAAAAT
3795569 TAAAAATTTATTTAAA
1 TAAAAATTTATTTAAA
3795585 TTTTTTTAAA
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
19 13 0.45
21 16 0.55
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (19 bp):
TAAAAATTTATTTAAAAAT
Found at i:3798194 original size:197 final size:197
Alignment explanation
Indices: 3797859--3798249 Score: 701
Period size: 197 Copynumber: 2.0 Consensus size: 197
3797849 AAGGAATTGT
** * *
3797859 CCTGCAAATAAGTTTCATGTGGGACAAAAAAGAATCAAGTCATTGACATAATGCTTGCAAACCAA
1 CCTGCAAATAAGTTTCATGTGGGACAAAAAAGAATCAAGTCACCGAAATAACGCTTGCAAACCAA
* *
3797924 AGCACTTCTCTCTCGCATCTTAAGGAAAAAAGGTATTCCAACATATCTGAATCTAATGCCAGCAA
66 AGCACTTCTCTCTCGCAACTTAAGGAAAAAAGGTATTCCAACATATCTGAATCTAATACCAGCAA
3797989 CAGATAAAGATATAGAAATTACAGGTGCACGCTTTATCATGTGTGCTAAAAACCATACCATAACA
131 CAGATAAAGATATAGAAATTACAGGTGCACGCTTTATCATGTGTGCTAAAAACCATACCATAACA
3798054 GG
196 GG
*
3798056 CCTGCAAATAAGTTTCATGTGGGACCAAAAAGAATCAAGTCACCGAAATAACGCTTGCAAACCAA
1 CCTGCAAATAAGTTTCATGTGGGACAAAAAAGAATCAAGTCACCGAAATAACGCTTGCAAACCAA
* *
3798121 AGCACTTCTCTCTCGCAACTTAAGGAAAAAAGGTATTTCAACATATCTGAATCTAATATCAGCAA
66 AGCACTTCTCTCTCGCAACTTAAGGAAAAAAGGTATTCCAACATATCTGAATCTAATACCAGCAA
3798186 CAGATAAAGATATAGAAATTACAGGTGCACGCTTTATCATGTGTGCTAAAAACCATACCATAAC
131 CAGATAAAGATATAGAAATTACAGGTGCACGCTTTATCATGTGTGCTAAAAACCATACCATAAC
3798250 GGACAACTTG
Statistics
Matches: 185, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
197 185 1.00
ACGTcount: A:0.40, C:0.21, G:0.16, T:0.24
Consensus pattern (197 bp):
CCTGCAAATAAGTTTCATGTGGGACAAAAAAGAATCAAGTCACCGAAATAACGCTTGCAAACCAA
AGCACTTCTCTCTCGCAACTTAAGGAAAAAAGGTATTCCAACATATCTGAATCTAATACCAGCAA
CAGATAAAGATATAGAAATTACAGGTGCACGCTTTATCATGTGTGCTAAAAACCATACCATAACA
GG
Found at i:3805131 original size:3 final size:3
Alignment explanation
Indices: 3805123--3805152 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
3805113 GCAGTAAGAA
3805123 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
3805153 TTAGCTAGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:3817178 original size:30 final size:30
Alignment explanation
Indices: 3817120--3817179 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
3817110 CCCTTTGTAC
*
3817120 TTTTATTTTAAGCAAAATAAACCTTTATAA
1 TTTTATTTTAAGCAAAATAAACCATTATAA
* ** *
3817150 TTTTATTTTGAGTTAAATAAGCCATTATAA
1 TTTTATTTTAAGCAAAATAAACCATTATAA
3817180 CTAATGATTG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.40, C:0.08, G:0.07, T:0.45
Consensus pattern (30 bp):
TTTTATTTTAAGCAAAATAAACCATTATAA
Found at i:3817310 original size:33 final size:33
Alignment explanation
Indices: 3817236--3817313 Score: 86
Period size: 33 Copynumber: 2.4 Consensus size: 33
3817226 TGGCTCTAAT
* * *
3817236 GTGGCATATTAACATATTATAATTGATGATAAT
1 GTGGCATGTTAACATATTATAATTGATGAAAAC
* * *
3817269 ATGACATGTTGACAT-TTCATAATTGATGAAAAC
1 GTGGCATGTTAACATATT-ATAATTGATGAAAAC
3817302 GTGGCATGTTAA
1 GTGGCATGTTAA
3817314 TTTGGAATGA
Statistics
Matches: 35, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
32 2 0.06
33 33 0.94
ACGTcount: A:0.37, C:0.09, G:0.18, T:0.36
Consensus pattern (33 bp):
GTGGCATGTTAACATATTATAATTGATGAAAAC
Found at i:3820765 original size:59 final size:59
Alignment explanation
Indices: 3820693--3821035 Score: 479
Period size: 59 Copynumber: 5.8 Consensus size: 59
3820683 TTATTAAATT
* * * *
3820693 GGCTCGACTTATCTCACAATAGGTTCGATTTAAAAATTAAAATTCCTAGACTTTATCTA
1 GGCTCGACCTATCTCAAAACAGGTTCGATTTAAAAATTAAAATTCCTAGACTTAATCTA
* *
3820752 GGCTCGACCTATCTCAAAACAAGTTCGATTTAAAAATTAAAATTCTTAGACTTAATCTA
1 GGCTCGACCTATCTCAAAACAGGTTCGATTTAAAAATTAAAATTCCTAGACTTAATCTA
* * *
3820811 GGCTCGACCTATCTCAAAATAGGTTCGATTTAAAAATTGAAATTTCTAGACTTAATCTA
1 GGCTCGACCTATCTCAAAACAGGTTCGATTTAAAAATTAAAATTCCTAGACTTAATCTA
* * * * * *
3820870 GGACTCGACCTATCTTAAAACAGGTTTGATTTAAAAACTGAAATTTCTAAACTTAATCTA
1 GG-CTCGACCTATCTCAAAACAGGTTCGATTTAAAAATTAAAATTCCTAGACTTAATCTA
* * *
3820930 GGCTCGACCTATCTCAAAATAGGTTCGATTTTAAAATTAAAATTCTTAGACTTAATCTA
1 GGCTCGACCTATCTCAAAACAGGTTCGATTTAAAAATTAAAATTCCTAGACTTAATCTA
* * * *
3820989 GGCTCGACCTATCTCACAACAGGTTTGAGTTAAAAATTAAAACTCCT
1 GGCTCGACCTATCTCAAAACAGGTTCGATTTAAAAATTAAAATTCCT
3821036 GCTTTCGAAG
Statistics
Matches: 251, Mismatches: 32, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
59 197 0.78
60 54 0.22
ACGTcount: A:0.36, C:0.18, G:0.12, T:0.33
Consensus pattern (59 bp):
GGCTCGACCTATCTCAAAACAGGTTCGATTTAAAAATTAAAATTCCTAGACTTAATCTA
Found at i:3820936 original size:119 final size:117
Alignment explanation
Indices: 3820693--3821030 Score: 489
Period size: 119 Copynumber: 2.9 Consensus size: 117
3820683 TTATTAAATT
* * * *
3820693 GGCTCGACTTATCTCACAATAGGTTCGATTTAAAAATTAAAATTCCTAGACTTTATCTAGGCTCG
1 GGCTCGACCTATCTCAAAATAGGTTCGATTTAAAAATT-AAATTTCTAGACTTAATCTAGGCTCG
* * * *
3820758 ACCTATCTCAAAACAAGTTCGATTTAAAAATTAAAATTCTTAGACTTAATCTA
65 ACCTATCTCAAAACAGGTTTGATTTAAAAATGAAAATTCTTAAACTTAATCTA
3820811 GGCTCGACCTATCTCAAAATAGGTTCGATTTAAAAATTGAAATTTCTAGACTTAATCTAGGACTC
1 GGCTCGACCTATCTCAAAATAGGTTCGATTTAAAAATT-AAATTTCTAGACTTAATCTAGG-CTC
* *
3820876 GACCTATCTTAAAACAGGTTTGATTTAAAAACTGAAATTTC-TAAACTTAATCTA
64 GACCTATCTCAAAACAGGTTTGATTTAAAAA-TGAAAATTCTTAAACTTAATCTA
* *
3820930 GGCTCGACCTATCTCAAAATAGGTTCGATTTTAAAATTAAAATTCTTAGACTTAATCTAGGCTCG
1 GGCTCGACCTATCTCAAAATAGGTTCGATTTAAAAATTAAATTTC-TAGACTTAATCTAGGCTCG
* * *
3820995 ACCTATCTCACAACAGGTTTGAGTTAAAAATTAAAA
65 ACCTATCTCAAAACAGGTTTGATTTAAAAATGAAAA
3821031 CTCCTGCTTT
Statistics
Matches: 199, Mismatches: 18, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
117 4 0.02
118 93 0.47
119 95 0.48
120 7 0.04
ACGTcount: A:0.37, C:0.18, G:0.12, T:0.33
Consensus pattern (117 bp):
GGCTCGACCTATCTCAAAATAGGTTCGATTTAAAAATTAAATTTCTAGACTTAATCTAGGCTCGA
CCTATCTCAAAACAGGTTTGATTTAAAAATGAAAATTCTTAAACTTAATCTA
Found at i:3820958 original size:178 final size:178
Alignment explanation
Indices: 3820695--3821026 Score: 511
Period size: 178 Copynumber: 1.9 Consensus size: 178
3820685 ATTAAATTGG
* * * * * *
3820695 CTCGACTTATCTCACAATAGGTTCGATTTAAAAATTAAAATTCCTAGACTTTATCTAGGCTCGAC
1 CTCGACCTATCTCAAAACAGGTTCGATTTAAAAACTAAAATTCCTAAACTTAATCTAGGCTCGAC
3820760 CTATCTCAAAACAAGTTCGATTTAAAAATTAAAATTCTTAGACTTAATCTAGGCTCGACCTATCT
66 CTATCTCAAAACAAGTTCGATTTAAAAATTAAAATTCTTAGACTTAATCTAGGCTCGACCTATCT
* *
3820825 CAAAATAGGTTCGATTTAAAAATTGAAATTTCTAGACTTAATCTAGGA
131 CAAAACAGGTTCGAGTTAAAAATTGAAATTTCTAGACTTAATCTAGGA
* * * *
3820873 CTCGACCTATCTTAAAACAGGTTTGATTTAAAAACTGAAATTTCTAAACTTAATCTAGGCTCGAC
1 CTCGACCTATCTCAAAACAGGTTCGATTTAAAAACTAAAATTCCTAAACTTAATCTAGGCTCGAC
* * *
3820938 CTATCTCAAAATAGGTTCGATTTTAAAATTAAAATTCTTAGACTTAATCTAGGCTCGACCTATCT
66 CTATCTCAAAACAAGTTCGATTTAAAAATTAAAATTCTTAGACTTAATCTAGGCTCGACCTATCT
* *
3821003 CACAACAGGTTTGAGTTAAAAATT
131 CAAAACAGGTTCGAGTTAAAAATT
3821027 AAAACTCCTG
Statistics
Matches: 137, Mismatches: 17, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
178 137 1.00
ACGTcount: A:0.36, C:0.18, G:0.12, T:0.34
Consensus pattern (178 bp):
CTCGACCTATCTCAAAACAGGTTCGATTTAAAAACTAAAATTCCTAAACTTAATCTAGGCTCGAC
CTATCTCAAAACAAGTTCGATTTAAAAATTAAAATTCTTAGACTTAATCTAGGCTCGACCTATCT
CAAAACAGGTTCGAGTTAAAAATTGAAATTTCTAGACTTAATCTAGGA
Found at i:3821886 original size:7 final size:7
Alignment explanation
Indices: 3821876--3821900 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
3821866 TTTTGTTTTG
3821876 TTTTGTT
1 TTTTGTT
3821883 TTTTGTT
1 TTTTGTT
3821890 TTTTGTT
1 TTTTGTT
3821897 TTTT
1 TTTT
3821901 TTAAGCATAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (7 bp):
TTTTGTT
Found at i:3826740 original size:29 final size:30
Alignment explanation
Indices: 3826698--3826758 Score: 70
Period size: 30 Copynumber: 2.1 Consensus size: 30
3826688 GTTTGTGGGC
**
3826698 AATTTTTCAATTTT-TTTGGGTAAAAATGT
1 AATTTTTCAATTTTATGGGGGTAAAAATGT
* * *
3826727 AATTTTTTACTTTTATGGGGGTAAAAGTGT
1 AATTTTTCAATTTTATGGGGGTAAAAATGT
3826757 AA
1 AA
3826759 ATTTCAAAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
29 12 0.46
30 14 0.54
ACGTcount: A:0.31, C:0.03, G:0.18, T:0.48
Consensus pattern (30 bp):
AATTTTTCAATTTTATGGGGGTAAAAATGT
Found at i:3829751 original size:45 final size:45
Alignment explanation
Indices: 3829691--3829784 Score: 116
Period size: 45 Copynumber: 2.1 Consensus size: 45
3829681 AATATATTAA
* * * *
3829691 TATTATTTCACTATAATAAATATTATAAAGCATATTACTTAATAT
1 TATTATTTCAATATAATAAATATAACAAAGAATATTACTTAATAT
* * * *
3829736 TATTATTTGAATATAATAAATGTAACAAAGAATATTATTTAGTAT
1 TATTATTTCAATATAATAAATATAACAAAGAATATTACTTAATAT
3829781 TATT
1 TATT
3829785 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:3837638 original size:14 final size:15
Alignment explanation
Indices: 3837614--3837653 Score: 66
Period size: 14 Copynumber: 2.8 Consensus size: 15
3837604 CTTTTTTTCT
3837614 TTTCTCTCTCTTCAC
1 TTTCTCTCTCTTCAC
3837629 TTTC-CTCTC-TCAC
1 TTTCTCTCTCTTCAC
3837642 TTTCTCTCTCTT
1 TTTCTCTCTCTT
3837654 GCCGCCACTC
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 8 0.35
14 10 0.43
15 5 0.22
ACGTcount: A:0.05, C:0.40, G:0.00, T:0.55
Consensus pattern (15 bp):
TTTCTCTCTCTTCAC
Found at i:3837648 original size:12 final size:12
Alignment explanation
Indices: 3837618--3837651 Score: 50
Period size: 13 Copynumber: 2.7 Consensus size: 12
3837608 TTTTCTTTTC
3837618 TCTCTCTTCACTT
1 TCTCTC-TCACTT
3837631 TCCTCTCTCACTT
1 T-CTCTCTCACTT
3837644 TCTCTCTC
1 TCTCTCTC
3837652 TTGCCGCCAC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
12 7 0.35
13 8 0.40
14 5 0.25
ACGTcount: A:0.06, C:0.44, G:0.00, T:0.50
Consensus pattern (12 bp):
TCTCTCTCACTT
Found at i:3854521 original size:17 final size:17
Alignment explanation
Indices: 3854496--3854540 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
3854486 ATTACTTGTG
* *
3854496 TTTTATTTCTTCTCTCT
1 TTTTCTTTCTTATCTCT
* *
3854513 TTTTCTTTCTTATTTGT
1 TTTTCTTTCTTATCTCT
3854530 TTTTCTTTCTT
1 TTTTCTTTCTT
3854541 TCCTCAAAAC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.04, C:0.18, G:0.02, T:0.76
Consensus pattern (17 bp):
TTTTCTTTCTTATCTCT
Found at i:3857511 original size:2 final size:2
Alignment explanation
Indices: 3857504--3857528 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
3857494 GGTTTAGTTT
3857504 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 T
3857529 TCTTTTGTTT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:3859058 original size:3 final size:3
Alignment explanation
Indices: 3859052--3859082 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
3859042 TTTTTTCTTC
3859052 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA T
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA T
3859083 GTGCATATGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.32, G:0.00, T:0.35
Consensus pattern (3 bp):
TCA
Found at i:3862264 original size:2 final size:2
Alignment explanation
Indices: 3862257--3862298 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
3862247 CTAAATCAAA
3862257 AG AG AG AG AG AG AG AG AG AG AG AG AG AG -G AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
3862298 A
1 A
3862299 AAAGAAAAGA
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 38 0.97
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:3862802 original size:12 final size:14
Alignment explanation
Indices: 3862780--3862811 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
3862770 AAAGATTTAC
3862780 TTAATATGAAAT-T
1 TTAATATGAAATCT
3862793 TTAA-ATGAAATCT
1 TTAATATGAAATCT
3862806 TTAATA
1 TTAATA
3862812 CTAATATTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
12 7 0.41
13 9 0.53
14 1 0.06
ACGTcount: A:0.47, C:0.03, G:0.06, T:0.44
Consensus pattern (14 bp):
TTAATATGAAATCT
Found at i:3866302 original size:2 final size:2
Alignment explanation
Indices: 3866295--3866322 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
3866285 CGAGCACTCA
3866295 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
3866323 TCAAATCTCT
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:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:3871770 original size:2 final size:2
Alignment explanation
Indices: 3871763--3871789 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
3871753 TCCTCTCAAC
3871763 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 A
3871790 ATAAAATTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3874894 original size:2 final size:2
Alignment explanation
Indices: 3874885--3874964 Score: 78
Period size: 2 Copynumber: 42.0 Consensus size: 2
3874875 ACTTGATGGA
* *
3874885 AT AT -T AT AT AT GT AT AT AT AT AT AT AT AT AT AT AT GT A- AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * *
3874925 -T A- AC AT AA AT NT AT AT GT 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 AT AT AT
3874965 GTAAATTACA
Statistics
Matches: 63, Mismatches: 11, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
1 4 0.06
2 59 0.94
ACGTcount: A:0.46, C:0.01, G:0.04, T:0.47
Consensus pattern (2 bp):
AT
Found at i:3879763 original size:30 final size:30
Alignment explanation
Indices: 3879728--3879786 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
3879718 AATTCTTTTA
3879728 TTTTATTTTGAATCAAATAA-GTTGTTATAT
1 TTTTATTTTGAATCAAATAAGGTT-TTATAT
3879758 TTTTATTTTGAATCAAATAAGGTTTTATA
1 TTTTATTTTGAATCAAATAAGGTTTTATA
3879787 ATTAATTATT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
30 25 0.89
31 3 0.11
ACGTcount: A:0.34, C:0.03, G:0.10, T:0.53
Consensus pattern (30 bp):
TTTTATTTTGAATCAAATAAGGTTTTATAT
Found at i:3881873 original size:13 final size:13
Alignment explanation
Indices: 3881851--3881931 Score: 79
Period size: 13 Copynumber: 6.7 Consensus size: 13
3881841 ATATCATAAA
3881851 ATTATA-TAATAT
1 ATTATATTAATAT
3881863 ATTATATTAATAT
1 ATTATATTAATAT
3881876 ATTATATT-ATGAT
1 ATTATATTAAT-AT
3881889 -TT-TATTAA-A-
1 ATTATATTAATAT
3881898 A-TATATTAATAT
1 ATTATATTAATAT
*
3881910 ATCATATTAATAGT
1 ATTATATTAATA-T
3881924 -TTATATTA
1 ATTATATTA
3881932 TAAAATAATA
Statistics
Matches: 58, Mismatches: 2, Indels: 17
0.75 0.03 0.22
Matches are distributed among these distances:
9 1 0.02
10 7 0.12
11 5 0.09
12 12 0.21
13 32 0.55
14 1 0.02
ACGTcount: A:0.44, C:0.01, G:0.02, T:0.52
Consensus pattern (13 bp):
ATTATATTAATAT
Found at i:3883249 original size:4 final size:4
Alignment explanation
Indices: 3883240--3883277 Score: 51
Period size: 4 Copynumber: 9.5 Consensus size: 4
3883230 TTTTCATGGA
*
3883240 TTAT TTAT TTAAT TTAT TTAT TT-T TTAT TTTT TTAT TT
1 TTAT TTAT TT-AT TTAT TTAT TTAT TTAT TTAT TTAT TT
3883278 TGTCCTTTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
3 3 0.10
4 23 0.77
5 4 0.13
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (4 bp):
TTAT
Found at i:3883803 original size:24 final size:27
Alignment explanation
Indices: 3883753--3883804 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
3883743 CATCTTTACC
*
3883753 ATTATTTTTTTTATTATTACTATCATT
1 ATTATTTTTTTTATTATTACTAGCATT
3883780 ATTA-TTTTTTTATT-TT-CTAGCATT
1 ATTATTTTTTTTATTATTACTAGCATT
3883804 A
1 A
3883805 AAAGAAGCAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
24 8 0.33
25 2 0.08
26 10 0.42
27 4 0.17
ACGTcount: A:0.25, C:0.08, G:0.02, T:0.65
Consensus pattern (27 bp):
ATTATTTTTTTTATTATTACTAGCATT
Found at i:3884513 original size:14 final size:14
Alignment explanation
Indices: 3884494--3884530 Score: 74
Period size: 14 Copynumber: 2.6 Consensus size: 14
3884484 TTTTTTGTAT
3884494 TTTTTGGTTATGAG
1 TTTTTGGTTATGAG
3884508 TTTTTGGTTATGAG
1 TTTTTGGTTATGAG
3884522 TTTTTGGTT
1 TTTTTGGTT
3884531 GCTCGAAGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.11, C:0.00, G:0.27, T:0.62
Consensus pattern (14 bp):
TTTTTGGTTATGAG
Found at i:3884969 original size:13 final size:14
Alignment explanation
Indices: 3884953--3884993 Score: 57
Period size: 15 Copynumber: 2.9 Consensus size: 14
3884943 TTTTTTAATT
3884953 TTTTAT-TATTTTA
1 TTTTATATATTTTA
3884966 TTTTATATATTATTA
1 TTTTATATATT-TTA
*
3884981 TTATATATATTTT
1 TTTTATATATTTT
3884994 TTAGAGGTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
13 6 0.24
14 6 0.24
15 13 0.52
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (14 bp):
TTTTATATATTTTA
Found at i:3886336 original size:30 final size:28
Alignment explanation
Indices: 3886299--3886385 Score: 102
Period size: 30 Copynumber: 3.0 Consensus size: 28
3886289 TTAATTCACT
*
3886299 CAAAATAAAAATATAAAAACTTATTTGA
1 CAAAATAAAAATATAAAAACTTATTTAA
**
3886327 CTTAAAATAAAAATATAATTACTTAATTTAA
1 C--AAAATAAAAATATAAAAACTT-ATTTAA
* *
3886358 CACAATAAAAATATAAAAATTTATTTAA
1 CAAAATAAAAATATAAAAACTTATTTAA
3886386 TTTTTTTAAA
Statistics
Matches: 49, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
28 7 0.14
29 17 0.35
30 19 0.39
31 6 0.12
ACGTcount: A:0.59, C:0.07, G:0.01, T:0.33
Consensus pattern (28 bp):
CAAAATAAAAATATAAAAACTTATTTAA
Found at i:3887507 original size:2 final size:2
Alignment explanation
Indices: 3887500--3887531 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
3887490 TGCTACTCTT
3887500 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
3887532 CATGCATGTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:3891216 original size:219 final size:219
Alignment explanation
Indices: 3890837--3891264 Score: 655
Period size: 219 Copynumber: 2.0 Consensus size: 219
3890827 GTGACTTTTA
* *
3890837 AATTTATTACCATGTGAGATGCTATACAATGAATTAGGCATGAACAGTATGCGAAGTAGTAGTTA
1 AATTTATTACAATGTGAGATGCTATACAATGAATTAGGCATGAACAGCATGCGAAGTAGTAGTTA
* *
3890902 GAATGGTATCTTATCTTGCAATGAAAATGGCACGAAAGCTCTGAATAAGATGCAGGCCTGGTATG
66 GAATGGAATCTTATCTTGCAATGAAAATGGCACGAAAGCACTGAATAAGATGCAGGCCTGGTATG
* *
3890967 AGTGTTAATACATAATCAATCACATACTCTTGCAAGTTATTGCCTGGTATGAATGTTAGTGGTGG
131 ACTGATAATACATAATCAATCACATACTCTTGCAAGTTATTGCCTGGTATGAATGTTAGTGGTGG
3891032 ATAACAAAATTCATTGTGTTTTCT
196 ATAACAAAATTCATTGTGTTTTCT
* * * *
3891056 AATTTATTACAATGTGAGATGCTATACAATGAATTAGGCATGATCAGCATGTGCAGTGGTAGTTA
1 AATTTATTACAATGTGAGATGCTATACAATGAATTAGGCATGAACAGCATGCGAAGTAGTAGTTA
*
3891121 GAATGGAATCTTATCTCT-CAATGAAAATGGCATGAAAGCACTGAATAAGATGCAGGCCTGGTAT
66 GAATGGAATCTTATCT-TGCAATGAAAATGGCACGAAAGCACTGAATAAGATGCAGGCCTGGTAT
* *** *
3891185 G-CTAGATAATACATAA-CTGATTTTATACTCTTGTAAGTTATTGCCTGGTATGAATGTTAGTGG
130 GACT-GATAATACATAATC-AATCACATACTCTTGCAAGTTATTGCCTGGTATGAATGTTAGTGG
*
3891248 TGGATAGCAAAATTCAT
193 TGGATAACAAAATTCAT
3891265 ACCTCTTGCA
Statistics
Matches: 189, Mismatches: 17, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
218 2 0.01
219 186 0.98
220 1 0.01
ACGTcount: A:0.33, C:0.13, G:0.22, T:0.32
Consensus pattern (219 bp):
AATTTATTACAATGTGAGATGCTATACAATGAATTAGGCATGAACAGCATGCGAAGTAGTAGTTA
GAATGGAATCTTATCTTGCAATGAAAATGGCACGAAAGCACTGAATAAGATGCAGGCCTGGTATG
ACTGATAATACATAATCAATCACATACTCTTGCAAGTTATTGCCTGGTATGAATGTTAGTGGTGG
ATAACAAAATTCATTGTGTTTTCT
Found at i:3894040 original size:107 final size:107
Alignment explanation
Indices: 3893849--3894060 Score: 370
Period size: 107 Copynumber: 2.0 Consensus size: 107
3893839 CAGATAGCTT
*
3893849 TTCAATCAAAATTATGAGAATGTGAATTGAAATTTGACAATACTATCCTGGTTGTTTACAATCTT
1 TTCAATCAAAATTATGAGAATGTGAATTGAAATTTGAAAATACTATCCTGGTTGTTTACAATCTT
* *
3893914 AGTAGTAAACAGAACAGGGTTCTTTGCACATTCCTTCCATAC
66 AGTAGGAAACAGAACAGGGTTCTTAGCACATTCCTTCCATAC
3893956 TTCAATCAAAATTATGAGAATGTGAATTGAAATTTGAAAATACTATCCTGGTTGTTTACAATCTT
1 TTCAATCAAAATTATGAGAATGTGAATTGAAATTTGAAAATACTATCCTGGTTGTTTACAATCTT
* * *
3894021 AGTGGGAAATAGAATAGGGTTCTTAGCACATTCCTTCCAT
66 AGTAGGAAACAGAACAGGGTTCTTAGCACATTCCTTCCAT
3894061 TATTTATCGA
Statistics
Matches: 99, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
107 99 1.00
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.35
Consensus pattern (107 bp):
TTCAATCAAAATTATGAGAATGTGAATTGAAATTTGAAAATACTATCCTGGTTGTTTACAATCTT
AGTAGGAAACAGAACAGGGTTCTTAGCACATTCCTTCCATAC
Found at i:3897091 original size:2 final size:2
Alignment explanation
Indices: 3897084--3897111 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
3897074 TAATTAACTA
3897084 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
3897112 ACAGTGAAAA
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:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:3898755 original size:22 final size:21
Alignment explanation
Indices: 3898721--3898765 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 21
3898711 ATTATTCAAA
*
3898721 TAACTTTAAAATATAATATAAT
1 TAACTTTAAAATA-AAAATAAT
**
3898743 TAACTTTTGAATAAAAATAAT
1 TAACTTTAAAATAAAAATAAT
3898764 TA
1 TA
3898766 TTCATACCTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.40
Consensus pattern (21 bp):
TAACTTTAAAATAAAAATAAT
Found at i:3899004 original size:21 final size:21
Alignment explanation
Indices: 3898980--3899020 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
3898970 ATAATTTTTT
*
3898980 ATGAAAAATTTAACTTTTTAA
1 ATGAAAAATATAACTTTTTAA
* *
3899001 ATGAAATATATAATTTTTTA
1 ATGAAAAATATAACTTTTTA
3899021 TTTTAAAAAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.46, C:0.02, G:0.05, T:0.46
Consensus pattern (21 bp):
ATGAAAAATATAACTTTTTAA
Found at i:3910261 original size:46 final size:46
Alignment explanation
Indices: 3910203--3910293 Score: 164
Period size: 46 Copynumber: 2.0 Consensus size: 46
3910193 CAAGGATCAA
*
3910203 TTTTGGACCTTAGATTAAAAATTAATTTTGCTTTTTCAAGATGCAT
1 TTTTGGAACTTAGATTAAAAATTAATTTTGCTTTTTCAAGATGCAT
*
3910249 TTTTGGAACTTAGATTAAAAATTAATTTTGCTTTTTGAAGATGCA
1 TTTTGGAACTTAGATTAAAAATTAATTTTGCTTTTTCAAGATGCA
3910294 AAGGGAGTAG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.32, C:0.09, G:0.14, T:0.45
Consensus pattern (46 bp):
TTTTGGAACTTAGATTAAAAATTAATTTTGCTTTTTCAAGATGCAT
Found at i:3910399 original size:13 final size:13
Alignment explanation
Indices: 3910381--3910405 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3910371 AAGCCATATG
3910381 ATATGGCTTTTTC
1 ATATGGCTTTTTC
3910394 ATATGGCTTTTT
1 ATATGGCTTTTT
3910406 TTTCCCCATT
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:0.16, C:0.12, G:0.16, T:0.56
Consensus pattern (13 bp):
ATATGGCTTTTTC
Found at i:3917500 original size:25 final size:26
Alignment explanation
Indices: 3917475--3917523 Score: 66
Period size: 24 Copynumber: 1.9 Consensus size: 26
3917465 AGGCCAAAAC
3917475 CCCAAAAGA-AGACA-AAGAAAGGAA
1 CCCAAAAGAGAGACAGAAGAAAGGAA
*
3917499 CCCAGAAGAGAGACAGTAAGAAAGG
1 CCCAAAAGAGAGACAG-AAGAAAGG
3917524 CAAAGGTAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 8 0.38
25 5 0.24
27 8 0.38
ACGTcount: A:0.55, C:0.16, G:0.27, T:0.02
Consensus pattern (26 bp):
CCCAAAAGAGAGACAGAAGAAAGGAA
Found at i:3918726 original size:6 final size:7
Alignment explanation
Indices: 3918710--3918740 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
3918700 TATCAAAGTA
*
3918710 TTTTAAT
1 TTTTTAT
3918717 TTTTTAT
1 TTTTTAT
3918724 TTTTTAT
1 TTTTTAT
3918731 TTTTTAT
1 TTTTTAT
3918738 TTT
1 TTT
3918741 CAATTGTGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (7 bp):
TTTTTAT
Found at i:3918732 original size:14 final size:14
Alignment explanation
Indices: 3918710--3918745 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
3918700 TATCAAAGTA
3918710 TTTTAATTTTTTAT
1 TTTTAATTTTTTAT
*
3918724 TTTTTATTTTTTAT
1 TTTTAATTTTTTAT
*
3918738 TTTCAATT
1 TTTTAATT
3918746 GTGATTTCTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.78
Consensus pattern (14 bp):
TTTTAATTTTTTAT
Found at i:3929664 original size:15 final size:16
Alignment explanation
Indices: 3929644--3929677 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
3929634 GAAATTGTAT
*
3929644 ATATTAC-AGAAGTAA
1 ATATTACAAAAAGTAA
3929659 ATATTACAAAAAGTAA
1 ATATTACAAAAAGTAA
3929675 ATA
1 ATA
3929678 ATAACAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.59, C:0.06, G:0.09, T:0.26
Consensus pattern (16 bp):
ATATTACAAAAAGTAA
Found at i:3932832 original size:82 final size:82
Alignment explanation
Indices: 3932744--3933179 Score: 374
Period size: 81 Copynumber: 5.3 Consensus size: 82
3932734 AAGTCATATT
* * * * *
3932744 AAAAAAATGA-TATTGTTACACATCATGTATAAAAATATATTACATACTATCG-TTAAAAAAGGT
1 AAAAAAAT-ATTATTGTTACACGTCATGTACAAAAACATATTACATGCTAT-GATTAAAAAAAGT
* *
3932807 TACTACACGCTATGTTGAA
64 TATTACACACTATGTTGAA
* * * * * *
3932826 AAAAAAAT-TTTTTGTTATACGTCATGTATAAAAACATGTTACACGCTATGATTAAAAAATGTTA
1 AAAAAAATATTATTGTTACACGTCATGTACAAAAACATATTACATGCTATGATTAAAAAAAGTTA
* *
3932890 TTGCACACTATATTG-A
66 TTACACACTATGTTGAA
* * *
3932906 AAAAAAATATTATTGTTACATGTCATGTACAAAAACATATTACATGCTATGACTAAAAAAAGTTG
1 AAAAAAATATTATTGTTACACGTCATGTACAAAAACATATTACATGCTATGATTAAAAAAAGTTA
*
3932971 TTACACATTATGTTGAA
66 TTACACACTATGTTGAA
* * * *
3932988 AAAAAAATATTATTGTTACACGTCATGTACAAAAACATGTTATACG-TCATGGTTAAAAAAAGTT
1 AAAAAAATATTATTGTTACACGTCATGTACAAAAACATATTACATGCT-ATGATTAAAAAAAGTT
* * * **
3933052 GTCATACGGTATGTTG-A
65 ATTACACACTATGTTGAA
* * * * *
3933069 AAAAAAATATTGTTGTTGCACGTAAGGTACAAAAACATGTTAC--GCGTCAT-ATTGAAAAAAAT
1 AAAAAAATATTATTGTTACACGTCATGTACAAAAACATATTACATGC-T-ATGATT-AAAAAAA-
* *
3933131 GTTATTGTTACACGCTATATTG--
62 GTTA---TTACACACTATGTTGAA
*
3933153 -AAAAAATATTATTGTTACACGCCATGT
1 AAAAAAATATTATTGTTACACGTCATGT
3933180 TTAAAAAAAT
Statistics
Matches: 292, Mismatches: 50, Indels: 23
0.80 0.14 0.06
Matches are distributed among these distances:
79 1 0.00
80 12 0.04
81 166 0.57
82 80 0.27
83 22 0.08
85 11 0.04
ACGTcount: A:0.42, C:0.12, G:0.13, T:0.33
Consensus pattern (82 bp):
AAAAAAATATTATTGTTACACGTCATGTACAAAAACATATTACATGCTATGATTAAAAAAAGTTA
TTACACACTATGTTGAA
Found at i:3932866 original size:24 final size:23
Alignment explanation
Indices: 3932838--3932890 Score: 56
Period size: 24 Copynumber: 2.3 Consensus size: 23
3932828 AAAAATTTTT
3932838 TGTTATACG-TCATG-TATAAAAACA
1 TGTTATACGCT-ATGAT-TAAAAA-A
*
3932862 TGTTACACGCTATGATTAAAAAA
1 TGTTATACGCTATGATTAAAAAA
3932885 TGTTAT
1 TGTTAT
3932891 TGCACACTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
23 6 0.24
24 17 0.68
25 2 0.08
ACGTcount: A:0.40, C:0.11, G:0.13, T:0.36
Consensus pattern (23 bp):
TGTTATACGCTATGATTAAAAAA
Found at i:3933071 original size:163 final size:162
Alignment explanation
Indices: 3932744--3933111 Score: 422
Period size: 163 Copynumber: 2.3 Consensus size: 162
3932734 AAGTCATATT
* * * * *
3932744 AAAAAAATGA-TATTGTTACACATCATGTATAAAAATATATTACATACTATCGTTAAAAAAGGTT
1 AAAAAAAT-ATTATTGTTACACGTCATGTACAAAAACATATTACATACTATCGCTAAAAAAAGTT
* * * *
3932808 ACTACACGCTATGTTGAAAAAAAAATTTTTTGTTATACGTCATGTATAAAAACATGTTACACGCT
65 ACTACACACTATGTTGAAAAAAAAATTTATTGTTACACGTCATGTACAAAAACATGTTACACGCT
* *
3932873 ATGATTAAAAAATGTTATTGCACACTATATTGA
130 ATGATTAAAAAAAGTTAGTGCACACTATATTGA
* *
3932906 AAAAAAATATTATTGTTACATGTCATGTACAAAAACATATTACATGCTAT-GACTAAAAAAAGTT
1 AAAAAAATATTATTGTTACACGTCATGTACAAAAACATATTACATACTATCG-CTAAAAAAAGTT
** * *
3932970 GTTACACATTATGTTGAAAAAAAAATATTATTGTTACACGTCATGTACAAAAACATGTTATACG-
65 ACTACACACTATGTTGAAAAAAAAAT-TTATTGTTACACGTCATGTACAAAAACATGTTACACGC
* * *
3933034 TCATGGTTAAAAAAAGTT-GT-CATACGGTATGTTGA
129 T-ATGATTAAAAAAAGTTAGTGCACAC--TATATTGA
* * * * *
3933069 AAAAAAATATTGTTGTTGCACGTAAGGTACAAAAACATGTTAC
1 AAAAAAATATTATTGTTACACGTCATGTACAAAAACATATTAC
3933112 GCGTCATATT
Statistics
Matches: 174, Mismatches: 26, Indels: 11
0.82 0.12 0.05
Matches are distributed among these distances:
161 6 0.03
162 77 0.44
163 91 0.52
ACGTcount: A:0.43, C:0.11, G:0.13, T:0.33
Consensus pattern (162 bp):
AAAAAAATATTATTGTTACACGTCATGTACAAAAACATATTACATACTATCGCTAAAAAAAGTTA
CTACACACTATGTTGAAAAAAAAATTTATTGTTACACGTCATGTACAAAAACATGTTACACGCTA
TGATTAAAAAAAGTTAGTGCACACTATATTGA
Found at i:3933129 original size:163 final size:164
Alignment explanation
Indices: 3932810--3933179 Score: 393
Period size: 163 Copynumber: 2.3 Consensus size: 164
3932800 AAAAGGTTAC
* * * *
3932810 TACACGCTATGTTGAAAAAAAAAT-TTTTTGTTATACGTCATGTATAAAAACATGTTACACGCTA
1 TACACACTATGTTGAAAAAAAAATATTATTGTTACACGTCATGTACAAAAACATGTTACACGCTA
* * * * *
3932874 TGATTAAAAAATGTTATTGCACACTATATTGAAAAAAAATATTATTGTTACATGTCATGTACAAA
66 TGATTAAAAAAAGTTAGTGCACACTATATTGAAAAAAAATATTATTGTTACACGTAAGGTACAAA
3932939 AACATATTACATGCTATGACTAAAAAAA-G-TTGT
131 AACATATTACA-GCTATGACTAAAAAAATGTTTGT
* *
3932972 TACACATTATGTTGAAAAAAAAATATTATTGTTACACGTCATGTACAAAAACATGTTATACG-TC
1 TACACACTATGTTGAAAAAAAAATATTATTGTTACACGTCATGTACAAAAACATGTTACACGCT-
* * * * *
3933036 ATGGTTAAAAAAAGTT-GT-CATACGGTATGTTGAAAAAAAATATTGTTGTTGCACGTAAGGTAC
65 ATGATTAAAAAAAGTTAGTGCACAC--TATATTGAAAAAAAATATTATTGTTACACGTAAGGTAC
* *
3933099 AAAAACATGTTAC-GCGTCAT-ATTGAAAAAAATGTTATTGT
128 AAAAACATATTACAGC-T-ATGACT-AAAAAAATG-T-TTGT
* * *
3933139 TACACGCTATATTG---AAAAAATATTATTGTTACACGCCATGT
1 TACACACTATGTTGAAAAAAAAATATTATTGTTACACGTCATGT
3933180 TTAAAAAAAT
Statistics
Matches: 175, Mismatches: 22, Indels: 20
0.81 0.10 0.09
Matches are distributed among these distances:
161 6 0.03
162 27 0.15
163 100 0.57
164 27 0.15
167 15 0.09
ACGTcount: A:0.41, C:0.12, G:0.14, T:0.33
Consensus pattern (164 bp):
TACACACTATGTTGAAAAAAAAATATTATTGTTACACGTCATGTACAAAAACATGTTACACGCTA
TGATTAAAAAAAGTTAGTGCACACTATATTGAAAAAAAATATTATTGTTACACGTAAGGTACAAA
AACATATTACAGCTATGACTAAAAAAATGTTTGT
Found at i:3933194 original size:27 final size:29
Alignment explanation
Indices: 3933106--3933199 Score: 111
Period size: 29 Copynumber: 3.3 Consensus size: 29
3933096 TACAAAAACA
* * *
3933106 TGTTACGCGTCATATTGAAAAAAATGTTAT
1 TGTTACACGCCATATTG-AAAAAATATTAT
*
3933136 TGTTACACGCTATATTGAAAAAATATTAT
1 TGTTACACGCCATATTGAAAAAATATTAT
* *
3933165 TGTTACACGCCATGTTTAAAAAA-ATT-T
1 TGTTACACGCCATATTGAAAAAATATTAT
3933192 TGTTACAC
1 TGTTACAC
3933200 TTTAATGCAT
Statistics
Matches: 57, Mismatches: 7, Indels: 3
0.85 0.10 0.04
Matches are distributed among these distances:
27 9 0.16
28 3 0.05
29 31 0.54
30 14 0.25
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.37
Consensus pattern (29 bp):
TGTTACACGCCATATTGAAAAAATATTAT
Found at i:3942702 original size:2 final size:2
Alignment explanation
Indices: 3942697--3942726 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
3942687 AAAATACAAG
3942697 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
3942727 TATTTAAGTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3944823 original size:29 final size:29
Alignment explanation
Indices: 3944773--3944847 Score: 91
Period size: 29 Copynumber: 2.7 Consensus size: 29
3944763 GACCTTAAAG
3944773 TGTAACAA-AATA-TTTTTAAATATGGTA
1 TGTAACAATAATATTTTTTAAATATGGTA
* * *
3944800 TGTAATAATAATATTTTTTCAATATGGTG
1 TGTAACAATAATATTTTTTAAATATGGTA
* *
3944829 TGTAACAATAGTTTTTTTT
1 TGTAACAATAATATTTTTT
3944848 TTTTCAACAT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
27 7 0.17
28 4 0.10
29 29 0.73
ACGTcount: A:0.36, C:0.04, G:0.12, T:0.48
Consensus pattern (29 bp):
TGTAACAATAATATTTTTTAAATATGGTA
Found at i:3944893 original size:26 final size:23
Alignment explanation
Indices: 3944845--3944918 Score: 69
Period size: 26 Copynumber: 3.0 Consensus size: 23
3944835 AATAGTTTTT
* *
3944845 TTTTTTTCAACATAGCGTATAACGA
1 TTTTTTT-AACATAGCATGTAAC-A
3944870 CTTTTTTTAACCATAGCATGTAACA
1 -TTTTTTTAA-CATAGCATGTAACA
3944895 TGTTTTTGT-ACATAGCATGTAACA
1 T-TTTTT-TAACATAGCATGTAACA
3944919 ACAATATTTT
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
24 15 0.35
25 9 0.21
26 19 0.44
ACGTcount: A:0.31, C:0.16, G:0.12, T:0.41
Consensus pattern (23 bp):
TTTTTTTAACATAGCATGTAACA
Found at i:3945057 original size:69 final size:68
Alignment explanation
Indices: 3944934--3945117 Score: 250
Period size: 69 Copynumber: 2.7 Consensus size: 68
3944924 ATTTTTTTCA
* * * *
3944934 ACATGGCGTGTAACAACCTAACC--A--TGTCACATATTTTTGTATATAACGTGTCACATGTTTC
1 ACATGGTGTGTAACAACCTAACCATAGGTGTCACATATTTTTGTACATGACATGTCACATGTTTC
3944995 TGT
66 TGT
3944998 ACATGGTGTGTAACAACCTAACCATAGCGTGTCACATATTTTTGTACATGACATGTCACATGTTT
1 ACATGGTGTGTAACAACCTAACCATAG-GTGTCACATATTTTTGTACATGACATGTCACATGTTT
*
3945063 TTGT
65 CTGT
* * *
3945067 ACATGATGTGTAACAACCTAACCATAGTGTGTCACATGTTTTTGCACATGA
1 ACATGGTGTGTAACAACCTAACCATAG-GTGTCACATATTTTTGTACATGA
3945118 TTGTAACAAC
Statistics
Matches: 106, Mismatches: 9, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
64 22 0.21
66 1 0.01
69 83 0.78
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.35
Consensus pattern (68 bp):
ACATGGTGTGTAACAACCTAACCATAGGTGTCACATATTTTTGTACATGACATGTCACATGTTTC
TGT
Found at i:3945063 original size:24 final size:24
Alignment explanation
Indices: 3945027--3945072 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
3945017 AACCATAGCG
3945027 TGTCACATATTTTTGTACATGACA
1 TGTCACATATTTTTGTACATGACA
*
3945051 TGTCACATGTTTTTGTACATGA
1 TGTCACATATTTTTGTACATGA
3945073 TGTGTAACAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.43
Consensus pattern (24 bp):
TGTCACATATTTTTGTACATGACA
Found at i:3945116 original size:45 final size:45
Alignment explanation
Indices: 3945044--3945303 Score: 165
Period size: 45 Copynumber: 5.6 Consensus size: 45
3945034 TATTTTTGTA
*
3945044 CATGACATGTCACATGTTTTTGTACATGATGTGTAACAACCTAAC
1 CATGACGTGTCACATGTTTTTGTACATGATGTGTAACAACCTAAC
* * * *
3945089 CAT-AGTGTGTCACATGTTTTTGCACATGAT-TGTAACAACTTAAT
1 CATGA-CGTGTCACATGTTTTTGTACATGATGTGTAACAACCTAAC
* * * *
3945133 CATGACGTGTAACATATTTTTGTACATGGA-GTGTAACATCATAGCGTGTAATTT
1 CATGACGTGTCACATGTTTTTGTACAT-GATGTGT-A-A-CA-A-C--CTAA--C
* * * * *
3945187 CATTAAGGGT-A-AT-TTTTTTTAACATGGA-GTATAACAACCTAAC
1 CATGACGTGTCACATGTTTTTGT-ACAT-GATGTGTAACAACCTAAC
* * * * * *
3945230 CATGGCGTGTCACATATTTCTGTACATGGTATGTAATAACCTAAC
1 CATGACGTGTCACATGTTTTTGTACATGATGTGTAACAACCTAAC
*
3945275 CATGATGTGTCACATGTTTTTGTACATGA
1 CATGACGTGTCACATGTTTTTGTACATGA
3945304 CATATAATAA
Statistics
Matches: 165, Mismatches: 32, Indels: 36
0.71 0.14 0.15
Matches are distributed among these distances:
43 6 0.04
44 36 0.22
45 76 0.46
46 6 0.04
47 2 0.01
48 3 0.02
49 3 0.02
50 2 0.01
51 7 0.04
52 15 0.09
53 1 0.01
54 8 0.05
ACGTcount: A:0.30, C:0.16, G:0.17, T:0.36
Consensus pattern (45 bp):
CATGACGTGTCACATGTTTTTGTACATGATGTGTAACAACCTAAC
Found at i:3945286 original size:186 final size:187
Alignment explanation
Indices: 3945051--3945389 Score: 484
Period size: 187 Copynumber: 1.8 Consensus size: 187
3945041 GTACATGACA
* * *
3945051 TGTCACATGTTTTTGTACATGATGTGTAACAACCTAACCATAGTGTGTCACATGTTTTTGCACAT
1 TGTCACATATTTCTGTACATGATATGTAACAACCTAACCATAGTGTGTCACATGTTTTTGCACAT
* * * * * *
3945116 GA-TTGTAACAACTTAATCATGACGTGTAACATATTTTTGTACATGGAGTGTAACATCATAGCGT
66 GACATATAACAACTTAATCATAACGTGTAACATATTTTTATACATAGAGTGTAACATCATAACGT
* *
3945180 GTAATTTCATTAAGGGTAATTTTTTTTAACATGGAGTATAACAACCTAACCATGGCG
131 GTAATTTCATTAAAGATAATTTTTTTTAACATGGAGTATAACAACCTAACCATGGCG
* * *
3945237 TGTCACATATTTCTGTACATGGTATGTAATAACCTAACCAT-GATGTGTCACATGTTTTTGTACA
1 TGTCACATATTTCTGTACATGATATGTAACAACCTAACCATAG-TGTGTCACATGTTTTTGCACA
* * * *
3945301 TGACATATAATAATTTAATCATAACGTGTAACATATTTTTATACATAGTGTGTAACATCATAACT
65 TGACATATAACAACTTAATCATAACGTGTAACATATTTTTATACATAGAGTGTAACATCATAACG
*
3945366 TGTAATTTTATTAAAGATAATTTT
130 TGTAATTTCATTAAAGATAATTTT
3945390 GTCCAACTTG
Statistics
Matches: 132, Mismatches: 19, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
185 1 0.01
186 59 0.45
187 72 0.55
ACGTcount: A:0.32, C:0.14, G:0.15, T:0.38
Consensus pattern (187 bp):
TGTCACATATTTCTGTACATGATATGTAACAACCTAACCATAGTGTGTCACATGTTTTTGCACAT
GACATATAACAACTTAATCATAACGTGTAACATATTTTTATACATAGAGTGTAACATCATAACGT
GTAATTTCATTAAAGATAATTTTTTTTAACATGGAGTATAACAACCTAACCATGGCG
Found at i:3945312 original size:45 final size:45
Alignment explanation
Indices: 3945216--3945338 Score: 129
Period size: 45 Copynumber: 2.7 Consensus size: 45
3945206 TAACATGGAG
* * **
3945216 TATAACAACCTAACCATGGCGTGTCACATATTTCTGTACATGGTA
1 TATAATAACCTAACCATGACGTGTCACATATTTCTGTACATGACA
* * * *
3945261 TGTAATAACCTAACCATGATGTGTCACATGTTTTTGTACATGACA
1 TATAATAACCTAACCATGACGTGTCACATATTTCTGTACATGACA
** * * *
3945306 TATAATAATTTAATCATAACGTGTAACATATTT
1 TATAATAACCTAACCATGACGTGTCACATATTT
3945339 TTATACATAG
Statistics
Matches: 62, Mismatches: 16, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
45 62 1.00
ACGTcount: A:0.34, C:0.17, G:0.13, T:0.36
Consensus pattern (45 bp):
TATAATAACCTAACCATGACGTGTCACATATTTCTGTACATGACA
Found at i:3955981 original size:2 final size:2
Alignment explanation
Indices: 3955976--3956000 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
3955966 TATATATATA
3955976 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
3956001 ATATAATATA
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:3956005 original size:2 final size:2
Alignment explanation
Indices: 3956000--3956039 Score: 59
Period size: 2 Copynumber: 21.5 Consensus size: 2
3955990 TCTCTCTCTC
3956000 TA TA TA -A TA TA TA TA TA -A TA TA TA TA -A TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3956039 T
1 T
3956040 TCATATAATA
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
1 3 0.09
2 32 0.91
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:3956014 original size:9 final size:9
Alignment explanation
Indices: 3956008--3956039 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
3955998 TCTATATAAT
3956008 ATATATATA
1 ATATATATA
3956017 ATATATATA
1 ATATATATA
3956026 ATATATAT-
1 ATATATATA
3956034 ATATAT
1 ATATAT
3956040 TCATATAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 6 0.26
9 17 0.74
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (9 bp):
ATATATATA
Found at i:3956016 original size:11 final size:11
Alignment explanation
Indices: 3956000--3956049 Score: 63
Period size: 11 Copynumber: 4.8 Consensus size: 11
3955990 TCTCTCTCTC
3956000 TATATAATATA
1 TATATAATATA
3956011 TATAT-A-ATA
1 TATATAATATA
3956020 TATATAATATA
1 TATATAATATA
3956031 TATAT-ATAT-
1 TATATAATATA
3956040 TCATATAATA
1 T-ATATAATA
3956050 AAAATTAAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
9 9 0.26
10 10 0.29
11 16 0.46
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (11 bp):
TATATAATATA
Found at i:3958019 original size:20 final size:23
Alignment explanation
Indices: 3957996--3958042 Score: 66
Period size: 21 Copynumber: 2.2 Consensus size: 23
3957986 ATTAAAATAT
3957996 TAATTTA-T-AAAATTAA-ATTC
1 TAATTTATTAAAAATTAAGATTC
3958016 TAA-TTATTAAAAATTAAGATTC
1 TAATTTATTAAAAATTAAGATTC
3958038 TAATT
1 TAATT
3958043 GAGGAGTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
19 3 0.13
20 4 0.17
21 8 0.35
22 7 0.30
23 1 0.04
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.45
Consensus pattern (23 bp):
TAATTTATTAAAAATTAAGATTC
Found at i:3959727 original size:16 final size:17
Alignment explanation
Indices: 3959701--3959733 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
3959691 TTCTAAAAAA
3959701 TAAATAAATTATATTAT
1 TAAATAAATTATATTAT
*
3959718 TAAA-AAATTATCTTAT
1 TAAATAAATTATATTAT
3959734 ATACATGACA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (17 bp):
TAAATAAATTATATTAT
Found at i:3963280 original size:3 final size:3
Alignment explanation
Indices: 3963272--3963298 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
3963262 TTGGTTGTAA
3963272 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
3963299 GATTTGATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:3975651 original size:64 final size:65
Alignment explanation
Indices: 3975578--3975703 Score: 209
Period size: 64 Copynumber: 2.0 Consensus size: 65
3975568 GTTAAATTAT
** *
3975578 CGGGTTGAAGTTGAATTGTTTTCTTGGGCTGGTCC-ATGGCCCATTAGCCATTAATTATTTGTCC
1 CGGGTTGAAGTTGAACCGTTTTCTTGGGCTGATCCTATGGCCCATTAGCCATTAATTATTTGTCC
*
3975642 CGGGTTGAAGTTGAACCGTTTTCTTGGGCTGATCCTTTGGCCCATTAGCCATTAATTATTTG
1 CGGGTTGAAGTTGAACCGTTTTCTTGGGCTGATCCTATGGCCCATTAGCCATTAATTATTTG
3975704 CCACGTAACG
Statistics
Matches: 57, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
64 32 0.56
65 25 0.44
ACGTcount: A:0.17, C:0.19, G:0.25, T:0.39
Consensus pattern (65 bp):
CGGGTTGAAGTTGAACCGTTTTCTTGGGCTGATCCTATGGCCCATTAGCCATTAATTATTTGTCC
Found at i:3981555 original size:30 final size:31
Alignment explanation
Indices: 3981513--3981572 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
3981503 TAATAAAGAT
*
3981513 AGAAAAAGAATCTC-AAACTAAATAAAATAA
1 AGAAAAAGAATCTCTAAACCAAATAAAATAA
*
3981543 AGAAAACA-AATCTCTAAACCAAGTAAAATA
1 AGAAAA-AGAATCTCTAAACCAAATAAAATA
3981573 CTAAATCAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 12 0.46
31 14 0.54
ACGTcount: A:0.63, C:0.13, G:0.07, T:0.17
Consensus pattern (31 bp):
AGAAAAAGAATCTCTAAACCAAATAAAATAA
Found at i:3982560 original size:57 final size:59
Alignment explanation
Indices: 3982467--3982583 Score: 175
Period size: 57 Copynumber: 2.0 Consensus size: 59
3982457 AAAGTGGAAA
* *
3982467 GGTGGAGACACAACCTCCAGCAACATGAAATAGAAAACTACCA-TTAACAATAAAATAG
1 GGTGGAGAAACAACCTCCAACAACATGAAATAGAAAACTACCATTTAACAATAAAATAG
* * *
3982525 GGTGGA-AAACAACCTCTAACAACATGAAATGGAAAACTAGCATTTAACAATAAAATAG
1 GGTGGAGAAACAACCTCCAACAACATGAAATAGAAAACTACCATTTAACAATAAAATAG
3982583 G
1 G
3982584 ACCCACAATG
Statistics
Matches: 53, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
57 31 0.58
58 22 0.42
ACGTcount: A:0.49, C:0.18, G:0.16, T:0.17
Consensus pattern (59 bp):
GGTGGAGAAACAACCTCCAACAACATGAAATAGAAAACTACCATTTAACAATAAAATAG
Found at i:3987588 original size:4 final size:4
Alignment explanation
Indices: 3987579--3987615 Score: 56
Period size: 4 Copynumber: 9.2 Consensus size: 4
3987569 TGATCCATAC
* *
3987579 ACAT ACAT ACAT ACAT ACAG ACAA ACAT ACAT ACAT A
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT A
3987616 TGTATGTCTG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
4 30 1.00
ACGTcount: A:0.54, C:0.24, G:0.03, T:0.19
Consensus pattern (4 bp):
ACAT
Found at i:4001799 original size:16 final size:16
Alignment explanation
Indices: 4001778--4001821 Score: 58
Period size: 14 Copynumber: 2.9 Consensus size: 16
4001768 GTTTAAAGGC
4001778 ATATTTAATATTTTTT
1 ATATTTAATATTTTTT
4001794 ATATTTAA-ATTTTTT
1 ATATTTAATATTTTTT
*
4001809 A-CTTT-ATATTTTT
1 ATATTTAATATTTTT
4001822 AATAAAATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
13 1 0.04
14 9 0.35
15 8 0.31
16 8 0.31
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (16 bp):
ATATTTAATATTTTTT
Found at i:4001814 original size:14 final size:15
Alignment explanation
Indices: 4001778--4001809 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
4001768 GTTTAAAGGC
4001778 ATATTTAATATTTTTT
1 ATATTTAA-ATTTTTT
4001794 ATATTTAAATTTTTT
1 ATATTTAAATTTTTT
4001809 A
1 A
4001810 CTTTATATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (15 bp):
ATATTTAAATTTTTT
Found at i:4002270 original size:3 final size:3
Alignment explanation
Indices: 4002264--4002293 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
4002254 ATATATAATA
4002264 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
4002294 TGATGTTTCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:4003085 original size:35 final size:34
Alignment explanation
Indices: 4003046--4003154 Score: 89
Period size: 35 Copynumber: 3.2 Consensus size: 34
4003036 CAACCATTAC
*
4003046 AAATGAAACTCTATTTCACGTAGAACAACTAAAAT
1 AAATGAAA-TCTATTTCACGTAAAACAACTAAAAT
* * * * *
4003081 AAATGTAGTC--TTTCACGCATAACAA-TGAAAAC
1 AAATGAAATCTATTTCACGTAAAACAACT-AAAAT
* *
4003113 AAATGAAATGCTACTTCACGTAAAACAACTAGAAT
1 AAATGAAAT-CTATTTCACGTAAAACAACTAAAAT
*
4003148 AAGTGAA
1 AAATGAA
4003155 GTACTACTTC
Statistics
Matches: 56, Mismatches: 13, Indels: 10
0.71 0.16 0.13
Matches are distributed among these distances:
31 1 0.02
32 24 0.43
33 1 0.02
34 2 0.04
35 27 0.48
36 1 0.02
ACGTcount: A:0.48, C:0.17, G:0.12, T:0.24
Consensus pattern (34 bp):
AAATGAAATCTATTTCACGTAAAACAACTAAAAT
Found at i:4003378 original size:29 final size:29
Alignment explanation
Indices: 4003332--4003396 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 29
4003322 TCTTACTTTG
* * *
4003332 TTCTCTTGTACCTATTCATGTACAGCTTA
1 TTCTCTTATACCTATTCACGTACAACTTA
* *
4003361 TTCTCTTATACTTGTTCACGTACAACTTA
1 TTCTCTTATACCTATTCACGTACAACTTA
4003390 TTCTCTT
1 TTCTCTT
4003397 GTATATTTTT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.20, C:0.25, G:0.08, T:0.48
Consensus pattern (29 bp):
TTCTCTTATACCTATTCACGTACAACTTA
Found at i:4006336 original size:203 final size:202
Alignment explanation
Indices: 4005976--4006388 Score: 573
Period size: 203 Copynumber: 2.0 Consensus size: 202
4005966 GAACTATGTA
*
4005976 AAAAAAATTAATTCAACCCTTATCTTTTGATTGCGTTCAAATAAGTTCATGAACTTTTATTTCGA
1 AAAAAAGTTAATTCAACCCTTATCTTTTGATTGCGTTCAAATAAGTTCATGAACTTTTATTTCGA
* * * * *
4006041 GTCAAATAAACCCCTCTATCTAACCGTTGACTAACTTCTATAGTCAATGGTATATGTGGTACTTT
66 ATCAAATAAACCCCTCTATCTAACCCTTGACTAACTTCCATAGTCAATGGTACATGTGGCACTTT
* * *
4006106 TATACCATGTCATCTACCACGTGACAGATAATGT-ATCATTAAATATTGTTTATTAGGATTGAGT
131 TATACCATGTCATCTACCACATGACAGATAATGTGA-CATTAAATATTGTTGATTAAGATTGAGT
4006170 AAATGGGT
195 AAATGGGT
* * * * *
4006178 CAAAAAAGTTAATTCAGCCTTTATCCTTTT-ATTGC-TTCAAATAAGCTT-TTGAATTTTTTTTT
1 -AAAAAAGTTAATTCAACCCTTAT-CTTTTGATTGCGTTCAAATAAG-TTCATGAACTTTTATTT
* ** *
4006240 TGAATCAAATAAGTCCCTCTCTCTAACCCTTGACTAACTTCCATTAGTCAATGGTACATGTGGCA
63 CGAATCAAATAAACCCCTCTATCTAACCCTTGACTAACTTCCA-TAGTCAATGGTACATGTGGCA
* *
4006305 CTTTTATACCATGTCATCTACCATATGACAGATAATGTGACATTAAATATTGTTGATTAAGATTT
127 CTTTTATACCATGTCATCTACCACATGACAGATAATGTGACATTAAATATTGTTGATTAAGATTG
4006370 AGTAAATGGGT
192 AGTAAATGGGT
4006381 AAAAAAGT
1 AAAAAAGT
4006389 AAGCACACAA
Statistics
Matches: 186, Mismatches: 20, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
202 65 0.35
203 115 0.62
204 6 0.03
ACGTcount: A:0.33, C:0.16, G:0.13, T:0.38
Consensus pattern (202 bp):
AAAAAAGTTAATTCAACCCTTATCTTTTGATTGCGTTCAAATAAGTTCATGAACTTTTATTTCGA
ATCAAATAAACCCCTCTATCTAACCCTTGACTAACTTCCATAGTCAATGGTACATGTGGCACTTT
TATACCATGTCATCTACCACATGACAGATAATGTGACATTAAATATTGTTGATTAAGATTGAGTA
AATGGGT
Found at i:4009437 original size:18 final size:19
Alignment explanation
Indices: 4009414--4009466 Score: 56
Period size: 18 Copynumber: 2.9 Consensus size: 19
4009404 AGAAAATTAT
4009414 GAAATGGCTAGGAAAGTAC
1 GAAATGGCTAGGAAAGTAC
* * * *
4009433 G-AATGAC-AGAAAATTAT
1 GAAATGGCTAGGAAAGTAC
4009450 GAAATGGCTAGGAAAGT
1 GAAATGGCTAGGAAAGT
4009467 GGGGCACGGG
Statistics
Matches: 25, Mismatches: 7, Indels: 4
0.69 0.19 0.11
Matches are distributed among these distances:
17 8 0.32
18 10 0.40
19 7 0.28
ACGTcount: A:0.45, C:0.08, G:0.28, T:0.19
Consensus pattern (19 bp):
GAAATGGCTAGGAAAGTAC
Found at i:4011665 original size:30 final size:29
Alignment explanation
Indices: 4011629--4011721 Score: 82
Period size: 31 Copynumber: 3.0 Consensus size: 29
4011619 ATCTTTATAC
* *
4011629 TTTTATTACGTTCAATCAAATTCTT-ATATT
1 TTTTATTAAGTTAAAT-AAATT-TTAATATT
4011659 TTTTATTTTAAGTTAAATAAATTTTAATATT
1 TTTTA--TTAAGTTAAATAAATTTTAATATT
*
4011690 TTTTATTTTAAATTAAATAATATTTT-ATATT
1 TTTTA--TTAAGTTAAATAA-ATTTTAATATT
4011721 T
1 T
4011722 AATGATTGAT
Statistics
Matches: 56, Mismatches: 3, Indels: 7
0.85 0.05 0.11
Matches are distributed among these distances:
30 7 0.12
31 35 0.62
32 14 0.25
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.58
Consensus pattern (29 bp):
TTTTATTAAGTTAAATAAATTTTAATATT
Found at i:4011689 original size:31 final size:30
Alignment explanation
Indices: 4011646--4011721 Score: 116
Period size: 31 Copynumber: 2.4 Consensus size: 30
4011636 ACGTTCAATC
*
4011646 AAATTCTTATATTTTTTATTTTAAGTTAAAT
1 AAATT-TTATATTTTTTATTTTAAATTAAAT
4011677 AAATTTTAATATTTTTTATTTTAAATTAAAT
1 AAATTTT-ATATTTTTTATTTTAAATTAAAT
4011708 AATATTTTATATTT
1 AA-ATTTTATATTT
4011722 AATGATTGAT
Statistics
Matches: 42, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
30 2 0.05
31 35 0.83
32 5 0.12
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.59
Consensus pattern (30 bp):
AAATTTTATATTTTTTATTTTAAATTAAAT
Found at i:4012155 original size:14 final size:14
Alignment explanation
Indices: 4012128--4012177 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
4012118 TTTTATTAGA
4012128 ATAATATTAA-AAT
1 ATAATATTAATAAT
*
4012141 ATTAATAAT-ATAAT
1 A-TAATATTAATAAT
*
4012155 ATATTATTAATAAT
1 ATAATATTAATAAT
*
4012169 AAAATATTA
1 ATAATATTA
4012178 TTAAAAATCA
Statistics
Matches: 29, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
13 7 0.24
14 22 0.76
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (14 bp):
ATAATATTAATAAT
Found at i:4012162 original size:19 final size:19
Alignment explanation
Indices: 4012140--4012191 Score: 72
Period size: 17 Copynumber: 2.8 Consensus size: 19
4012130 AATATTAAAA
4012140 TATTAATAATATAATATAT
1 TATTAATAATATAATATAT
4012159 TATTAATAATA-AA-ATAT
1 TATTAATAATATAATATAT
*
4012176 TATTAAAAATCATAAT
1 TATTAATAAT-ATAAT
4012192 TTAATACTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 13 0.45
18 3 0.10
19 13 0.45
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (19 bp):
TATTAATAATATAATATAT
Found at i:4012219 original size:22 final size:22
Alignment explanation
Indices: 4012192--4012285 Score: 91
Period size: 22 Copynumber: 4.3 Consensus size: 22
4012182 AAATCATAAT
*
4012192 TTAATACTTTATTATTTAAATA
1 TTAATAATTTATTATTTAAATA
* *
4012214 TTAATATTTTAGTA-TTAATATA
1 TTAATAATTTATTATTTAA-ATA
* * * *
4012236 TTAATAATTAATTACTGAAATG
1 TTAATAATTTATTATTTAAATA
* *
4012258 TTATTAATTTATTATTAAAATA
1 TTAATAATTTATTATTTAAATA
4012280 TTAATA
1 TTAATA
4012286 TGTTTTTGTT
Statistics
Matches: 57, Mismatches: 13, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
21 4 0.07
22 50 0.88
23 3 0.05
ACGTcount: A:0.44, C:0.02, G:0.03, T:0.51
Consensus pattern (22 bp):
TTAATAATTTATTATTTAAATA
Found at i:4014146 original size:60 final size:59
Alignment explanation
Indices: 4013988--4014160 Score: 265
Period size: 59 Copynumber: 2.9 Consensus size: 59
4013978 CACGTAATAG
*
4013988 TTTTTTTTAAATAAAATATTGTGCTTTACTATTGTTTCCAAATGGGATAACATTATGTT
1 TTTTTTTTAAATAAAATCTTGTGCTTTACTATTGTTTCCAAATGGGATAACATTATGTT
* ** *
4014047 TTCTTTTTAAATAAAATCTTGCACTCTACTATTGTTTCCAAATGGGATAACATTATGTT
1 TTTTTTTTAAATAAAATCTTGTGCTTTACTATTGTTTCCAAATGGGATAACATTATGTT
* * *
4014106 TTTTTTCTTAAACAAAATCTTTTGCTTTACTATTGTTTCCAAATAGGATAACATT
1 TTTTTT-TTAAATAAAATCTTGTGCTTTACTATTGTTTCCAAATGGGATAACATT
4014161 GTTAAATTTT
Statistics
Matches: 101, Mismatches: 12, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
59 59 0.58
60 42 0.42
ACGTcount: A:0.31, C:0.13, G:0.10, T:0.47
Consensus pattern (59 bp):
TTTTTTTTAAATAAAATCTTGTGCTTTACTATTGTTTCCAAATGGGATAACATTATGTT
Found at i:4015202 original size:33 final size:31
Alignment explanation
Indices: 4015141--4015203 Score: 81
Period size: 33 Copynumber: 2.0 Consensus size: 31
4015131 TGATAAAAAT
* **
4015141 ATATTTATTATAATATTTATTTTTAATTAAA
1 ATATTTATTATAATATTTATATAAAATTAAA
4015172 ATATTTATTATTATATATTTATATAAAATTAA
1 ATATTTATTA-TA-ATATTTATATAAAATTAA
4015204 TAAATTATTA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
31 10 0.37
32 2 0.07
33 15 0.56
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (31 bp):
ATATTTATTATAATATTTATATAAAATTAAA
Found at i:4015267 original size:56 final size:51
Alignment explanation
Indices: 4015171--4015275 Score: 165
Period size: 56 Copynumber: 2.0 Consensus size: 51
4015161 TTTTAATTAA
4015171 AATATTTATTATTATATATTTATATAAAATTAATAAATTATTAATTTAATG
1 AATATTTATTATTATATATTTATATAAAATTAATAAATTATTAATTTAATG
4015222 NAATATTTATTATTATAATAATTTAATATAAAAATTAATAAATTATTAATTTAA
1 -AATATTTATTATTAT-AT-ATTT-ATAT-AAAATTAATAAATTATTAATTTAA
4015276 ATGTTAATAT
Statistics
Matches: 49, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
52 15 0.31
53 2 0.04
54 4 0.08
55 4 0.08
56 24 0.49
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (51 bp):
AATATTTATTATTATATATTTATATAAAATTAATAAATTATTAATTTAATG
Found at i:4015270 original size:23 final size:24
Alignment explanation
Indices: 4015230--4015295 Score: 62
Period size: 23 Copynumber: 2.8 Consensus size: 24
4015220 TGNAATATTT
* *
4015230 ATTATTATAATAATTTAATATAAAA
1 ATTAATATAATTA-TTAATATAAAA
* *
4015255 ATTAATA-AATTATTAATTTAAAT
1 ATTAATATAATTATTAATATAAAA
* *
4015278 GTTAATATGATTATTAAT
1 ATTAATATAATTATTAAT
4015296 TTTAATTTAA
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
23 15 0.44
24 13 0.38
25 6 0.18
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (24 bp):
ATTAATATAATTATTAATATAAAA
Found at i:4015560 original size:20 final size:21
Alignment explanation
Indices: 4015535--4015584 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
4015525 ATTTTAAATT
4015535 TATTTTAATGT-TTTCTTTTG
1 TATTTTAATGTCTTTCTTTTG
* * *
4015555 TATTTTACTTTCTTTCTTTTT
1 TATTTTAATGTCTTTCTTTTG
*
4015576 TATTATAAT
1 TATTTTAAT
4015585 ATTTAACTTT
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
20 9 0.38
21 15 0.62
ACGTcount: A:0.18, C:0.08, G:0.04, T:0.70
Consensus pattern (21 bp):
TATTTTAATGTCTTTCTTTTG
Found at i:4015735 original size:22 final size:23
Alignment explanation
Indices: 4015708--4015750 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
4015698 TATAATTCAT
*
4015708 TTAAAATATTAATAAT-TTATAA
1 TTAAAACATTAATAATATTATAA
4015730 TTAAAACATTAATAATATTAT
1 TTAAAACATTAATAATATTAT
4015751 TTTTTATTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (23 bp):
TTAAAACATTAATAATATTATAA
Found at i:4019671 original size:7 final size:7
Alignment explanation
Indices: 4019659--4019683 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
4019649 GTTGTAGTCT
4019659 TAAGTTC
1 TAAGTTC
4019666 TAAGTTC
1 TAAGTTC
4019673 TAAGTTC
1 TAAGTTC
4019680 TAAG
1 TAAG
4019684 CTTTGAGGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.32, C:0.12, G:0.16, T:0.40
Consensus pattern (7 bp):
TAAGTTC
Found at i:4026540 original size:23 final size:23
Alignment explanation
Indices: 4026514--4026563 Score: 59
Period size: 23 Copynumber: 2.1 Consensus size: 23
4026504 TCTAATACTT
4026514 ATTT-AATTGATTAAAATCGATT-A
1 ATTTAAATT-ATT-AAATCGATTCA
4026537 ATTTAAAATTATTAAATCGATTCA
1 ATTT-AAATTATTAAATCGATTCA
4026561 ATT
1 ATT
4026564 CGATTAAACC
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
23 13 0.54
24 7 0.29
25 4 0.17
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.44
Consensus pattern (23 bp):
ATTTAAATTATTAAATCGATTCA
Found at i:4031816 original size:60 final size:59
Alignment explanation
Indices: 4031724--4031843 Score: 177
Period size: 60 Copynumber: 2.0 Consensus size: 59
4031714 CAATTGCCCA
* *
4031724 ATTCTCAGTAATCAAAAAATTTATTCACAGTAATTTTCAAGCTAATTTGCTCTAGCACT
1 ATTCTCAGTAATCAAAAAATTTATTCACAGTAATTTTCAAGCAAAATTGCTCTAGCACT
* * * *
4031783 ATTCTCAGTAGTTAAAGAAATTTATTCACAGTAATTTTCAAGCAAAATTGTTCTTGCACT
1 ATTCTCAGTAATCAAA-AAATTTATTCACAGTAATTTTCAAGCAAAATTGCTCTAGCACT
4031843 A
1 A
4031844 ATGATGCCAG
Statistics
Matches: 54, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
59 14 0.26
60 40 0.74
ACGTcount: A:0.36, C:0.17, G:0.10, T:0.38
Consensus pattern (59 bp):
ATTCTCAGTAATCAAAAAATTTATTCACAGTAATTTTCAAGCAAAATTGCTCTAGCACT
Found at i:4040147 original size:40 final size:40
Alignment explanation
Indices: 4040092--4040170 Score: 140
Period size: 40 Copynumber: 2.0 Consensus size: 40
4040082 TTGGCTATTT
*
4040092 TTCACCTTAGTGGGGTTTTCAACCTTGCCAAGATTGGTGA
1 TTCACCTTAGTGGGGTTTTCAACCTCGCCAAGATTGGTGA
*
4040132 TTCACCTTAGTGGGGTTTTCAACCTCGCCACGATTGGTG
1 TTCACCTTAGTGGGGTTTTCAACCTCGCCAAGATTGGTG
4040171 TTTTTCATAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.18, C:0.23, G:0.25, T:0.34
Consensus pattern (40 bp):
TTCACCTTAGTGGGGTTTTCAACCTCGCCAAGATTGGTGA
Found at i:4042806 original size:40 final size:40
Alignment explanation
Indices: 4042751--4042829 Score: 122
Period size: 40 Copynumber: 2.0 Consensus size: 40
4042741 TTGGCTATTT
* * *
4042751 TTCACTTTAGTGGGGTTTTCAACCTTGTCAAGATTGGTGA
1 TTCACCTTAGTGGGGTTTTCAACCTCGCCAAGATTGGTGA
*
4042791 TTCACCTTAGTGGGGTTTTCAACCTCGCCACGATTGGTG
1 TTCACCTTAGTGGGGTTTTCAACCTCGCCAAGATTGGTG
4042830 TTTTTCATAA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.18, C:0.20, G:0.25, T:0.37
Consensus pattern (40 bp):
TTCACCTTAGTGGGGTTTTCAACCTCGCCAAGATTGGTGA
Found at i:4050327 original size:30 final size:30
Alignment explanation
Indices: 4050293--4050354 Score: 88
Period size: 30 Copynumber: 2.1 Consensus size: 30
4050283 CATAAAGATC
* *
4050293 TATTTGACTCGAAATAAAAATATAAAAACT
1 TATTTGACTCAAAAGAAAAATATAAAAACT
* *
4050323 TATTTGATTCAAAAGAAAAGTATAAAAACT
1 TATTTGACTCAAAAGAAAAATATAAAAACT
4050353 TA
1 TA
4050355 ATTAAACGTA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.53, C:0.08, G:0.08, T:0.31
Consensus pattern (30 bp):
TATTTGACTCAAAAGAAAAATATAAAAACT
Found at i:4060199 original size:56 final size:53
Alignment explanation
Indices: 4060131--4060265 Score: 175
Period size: 52 Copynumber: 2.5 Consensus size: 53
4060121 TTCTAACCTC
* * *
4060131 ATATTAGGGTTAGAGATGAATTAATGAATTATGTTATTTTTTA-TATCAAAAAAAA
1 ATATTAGGGTTAGAGATGAATT-ATGAATAATATTA-TTTTCAGTA-CAAAAAAAA
**
4060186 ATTATTAGGGTTAGAGATGAATTGCGAATAATATTATTTTCAGTACAAAAAAAA
1 A-TATTAGGGTTAGAGATGAATTATGAATAATATTATTTTCAGTACAAAAAAAA
4060240 A-ATTAGGGTTAGAGATGAATTATGAA
1 ATATTAGGGTTAGAGATGAATTATGAA
4060266 ATAAAACCAA
Statistics
Matches: 71, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
52 23 0.32
54 15 0.21
55 12 0.17
56 21 0.30
ACGTcount: A:0.44, C:0.03, G:0.18, T:0.36
Consensus pattern (53 bp):
ATATTAGGGTTAGAGATGAATTATGAATAATATTATTTTCAGTACAAAAAAAA
Found at i:4060258 original size:52 final size:55
Alignment explanation
Indices: 4060131--4060261 Score: 171
Period size: 56 Copynumber: 2.4 Consensus size: 55
4060121 TTCTAACCTC
* * * *
4060131 ATATTAGGGTTAGAGATGAATTAATGAATTATGTTATTTTTTATATCAAAAAAAA
1 ATATTAGGGTTAGAGATGAATTAACGAATAATATTATTTTTCATATCAAAAAAAA
*
4060186 ATTATTAGGGTTAGAGATGAATT-GCGAATAATATTA-TTTTCAGTA-CAAAAAAAA
1 A-TATTAGGGTTAGAGATGAATTAACGAATAATATTATTTTTCA-TATCAAAAAAAA
4060240 A-ATTAGGGTTAGAGATGAATTA
1 ATATTAGGGTTAGAGATGAATTA
4060262 TGAAATAAAA
Statistics
Matches: 68, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
52 20 0.29
54 15 0.22
55 12 0.18
56 21 0.31
ACGTcount: A:0.44, C:0.03, G:0.18, T:0.36
Consensus pattern (55 bp):
ATATTAGGGTTAGAGATGAATTAACGAATAATATTATTTTTCATATCAAAAAAAA
Found at i:4061072 original size:4 final size:4
Alignment explanation
Indices: 4061063--4061089 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
4061053 TTGTTTCTTT
4061063 TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT
4061090 TGCTTAGACT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:4061657 original size:18 final size:19
Alignment explanation
Indices: 4061636--4061676 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
4061626 ATTTTAAATA
4061636 TATTTATGAA-CTAATTTT
1 TATTTATGAATCTAATTTT
* *
4061654 TATTTATTAATTTAATTTT
1 TATTTATGAATCTAATTTT
4061673 TATT
1 TATT
4061677 ATTACTATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.63
Consensus pattern (19 bp):
TATTTATGAATCTAATTTT
Found at i:4073816 original size:10 final size:10
Alignment explanation
Indices: 4073798--4073827 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
4073788 CAAAGTAAAT
*
4073798 TGGTGCAAGG
1 TGGTCCAAGG
4073808 TGGTCCAAGG
1 TGGTCCAAGG
4073818 TGGTCCAAGG
1 TGGTCCAAGG
4073828 GAAGCTGACA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.20, C:0.17, G:0.43, T:0.20
Consensus pattern (10 bp):
TGGTCCAAGG
Found at i:4074831 original size:2 final size:2
Alignment explanation
Indices: 4074824--4074853 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
4074814 AAGACAGAAG
4074824 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
4074854 AGTGGGAAGG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:4084317 original size:16 final size:16
Alignment explanation
Indices: 4084265--4084317 Score: 56
Period size: 18 Copynumber: 3.2 Consensus size: 16
4084255 CTTTAAATTC
4084265 TTTTTT-AAAAAA-TT
1 TTTTTTAAAAAAAGTT
4084279 TTATTCTTAAAAAAAGTAAT
1 TT-TT-TTAAAAAAAGT--T
4084299 TTTTTTAAAAAAAGTT
1 TTTTTTAAAAAAAGTT
4084315 TTT
1 TTT
4084318 CAAAAATCAT
Statistics
Matches: 33, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
14 2 0.06
15 2 0.06
16 6 0.18
17 6 0.18
18 12 0.36
19 2 0.06
20 3 0.09
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (16 bp):
TTTTTTAAAAAAAGTT
Found at i:4087274 original size:15 final size:16
Alignment explanation
Indices: 4087254--4087283 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
4087244 TTCCGATTCG
4087254 AAAATTTTAA-AATTA
1 AAAATTTTAATAATTA
4087269 AAAATTTTAATAATT
1 AAAATTTTAATAATT
4087284 TGGTTACAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
AAAATTTTAATAATTA
Done.