Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 213 of 444
Found at i:59505209 original size:27 final size:27
Alignment explanation
Indices: 59505187--59505536 Score: 427
Period size: 27 Copynumber: 12.9 Consensus size: 27
59505177 AAAATTATTA
*
59505187 AAATACCCCTATAGGGTAGAATTACTG
1 AAATACCCCTGTAGGGTAGAATTACTG
* * **
59505214 AAATACCCTTGTAGGGTAAAATTACCA
1 AAATACCCCTGTAGGGTAGAATTACTG
59505241 AAATACCCCTGTAGGGTAGAATTA-TCG
1 AAATACCCCTGTAGGGTAGAATTACT-G
*
59505268 AAATACCCCTGTAGGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACTG
59505295 AAATACCCCTGTAGGGTAGAATTACTG
1 AAATACCCCTGTAGGGTAGAATTACTG
* * *
59505322 AAATACCCCATATAAGGTAGAATTACCG
1 AAATACCCC-TGTAGGGTAGAATTACTG
* * * *
59505350 AAACATCCTTGTAGGGTAGAAATA-TCG
1 AAATACCCCTGTAGGGTAGAATTACT-G
* *
59505377 AAATGCCCCTGTACGGTAGAATTACTG
1 AAATACCCCTGTAGGGTAGAATTACTG
* *
59505404 AAATACCCTTGTAGGGTAGAATTATTG
1 AAATACCCCTGTAGGGTAGAATTACTG
* *
59505431 AAATACCCTTGTAGGGTAGAATTACTA
1 AAATACCCCTGTAGGGTAGAATTACTG
59505458 AAATACCCCTGTAGGGTAGAATTACTG
1 AAATACCCCTGTAGGGTAGAATTACTG
* *
59505485 AAATACCCCTATAGGGTAGAATTAC-C
1 AAATACCCCTGTAGGGTAGAATTACTG
* * *
59505511 AAGATACCCTTGTGGGGTAAAATTAC
1 AA-ATACCCCTGTAGGGTAGAATTAC
59505537 CATTTTGCCC
Statistics
Matches: 276, Mismatches: 41, Indels: 12
0.84 0.12 0.04
Matches are distributed among these distances:
26 2 0.01
27 252 0.91
28 22 0.08
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.26
Consensus pattern (27 bp):
AAATACCCCTGTAGGGTAGAATTACTG
Found at i:59505956 original size:22 final size:22
Alignment explanation
Indices: 59505904--59505968 Score: 60
Period size: 22 Copynumber: 3.0 Consensus size: 22
59505894 TGTGCGCCTT
* * *
59505904 CTGATTATGGTTTTGCGCCAAC
1 CTGATTATGGCTATGTGCCAAC
* *
59505926 CT-ACATATGGCTGTGTGCCAAC
1 CTGA-TTATGGCTATGTGCCAAC
*
59505948 CTGATTATGGCTATTTGCCAA
1 CTGATTATGGCTATGTGCCAA
59505969 ACATATTTGC
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
21 1 0.03
22 32 0.94
23 1 0.03
ACGTcount: A:0.22, C:0.23, G:0.22, T:0.34
Consensus pattern (22 bp):
CTGATTATGGCTATGTGCCAAC
Found at i:59506157 original size:27 final size:27
Alignment explanation
Indices: 59506127--59506235 Score: 123
Period size: 27 Copynumber: 4.1 Consensus size: 27
59506117 ATTCTATTAA
* *
59506127 GTGGCTTTGCCACATTATCTGTTTCTG
1 GTGGCTATGCCACAATATCTGTTTCTG
59506154 GTGGCTATGCCACAAATATCTG-TTCTG
1 GTGGCTATGCCAC-AATATCTGTTTCTG
* *
59506181 GTGGCTCTGCCACAATATCTGTATCTG
1 GTGGCTATGCCACAATATCTGTTTCTG
* * **
59506208 GTGACTCTATCACAATATCTG-TTCTG
1 GTGGCTATGCCACAATATCTGTTTCTG
59506234 GT
1 GT
59506236 AGCCATGTTG
Statistics
Matches: 72, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
26 14 0.19
27 51 0.71
28 7 0.10
ACGTcount: A:0.18, C:0.23, G:0.21, T:0.38
Consensus pattern (27 bp):
GTGGCTATGCCACAATATCTGTTTCTG
Found at i:59506192 original size:54 final size:53
Alignment explanation
Indices: 59506127--59506235 Score: 146
Period size: 54 Copynumber: 2.0 Consensus size: 53
59506117 ATTCTATTAA
* * * * *
59506127 GTGGCTTTGCCACATTATCTGTTTCTGGTGGCTATGCCACAAATATCTGTTCTG
1 GTGGCTCTGCCACAATATCTGTATCTGGTGACTATACCAC-AATATCTGTTCTG
* *
59506181 GTGGCTCTGCCACAATATCTGTATCTGGTGACTCTATCACAATATCTGTTCTG
1 GTGGCTCTGCCACAATATCTGTATCTGGTGACTATACCACAATATCTGTTCTG
59506234 GT
1 GT
59506236 AGCCATGTTG
Statistics
Matches: 48, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
53 15 0.31
54 33 0.69
ACGTcount: A:0.18, C:0.23, G:0.21, T:0.38
Consensus pattern (53 bp):
GTGGCTCTGCCACAATATCTGTATCTGGTGACTATACCACAATATCTGTTCTG
Found at i:59506360 original size:6 final size:6
Alignment explanation
Indices: 59506351--59506392 Score: 57
Period size: 6 Copynumber: 6.8 Consensus size: 6
59506341 TTGCATTCAC
* *
59506351 ATTCTG ATTCTG ATTCTG TTATCTG ATACTG ATTCTG ATTCT
1 ATTCTG ATTCTG ATTCTG AT-TCTG ATTCTG ATTCTG ATTCT
59506393 ATCACCTGAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
6 26 0.84
7 5 0.16
ACGTcount: A:0.19, C:0.17, G:0.14, T:0.50
Consensus pattern (6 bp):
ATTCTG
Found at i:59506401 original size:25 final size:25
Alignment explanation
Indices: 59506354--59506402 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
59506344 CATTCACATT
* * *
59506354 CTGATTCTGATTCTGTTATCTGATA
1 CTGATTCTGATTCTATCACCTGATA
59506379 CTGATTCTGATTCTATCACCTGAT
1 CTGATTCTGATTCTATCACCTGAT
59506403 TCTCATTTTG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.20, C:0.20, G:0.14, T:0.45
Consensus pattern (25 bp):
CTGATTCTGATTCTATCACCTGATA
Found at i:59507178 original size:21 final size:20
Alignment explanation
Indices: 59507150--59507188 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
59507140 CAAAACTTGT
59507150 ATAACTATAATCAAACATTC
1 ATAACTATAATCAAACATTC
* *
59507170 ATAATCTATCATTAAACAT
1 ATAA-CTATAATCAAACAT
59507189 CAAAATAATC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.49, C:0.18, G:0.00, T:0.33
Consensus pattern (20 bp):
ATAACTATAATCAAACATTC
Found at i:59510781 original size:21 final size:21
Alignment explanation
Indices: 59510757--59510799 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
59510747 TTTCAATCTG
*
59510757 TCTTTTATTATCTT-CACCATT
1 TCTTCTATT-TCTTGCACCATT
59510778 TCTTCTATTTCTTGCACCATT
1 TCTTCTATTTCTTGCACCATT
59510799 T
1 T
59510800 TTAGCCCAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.16, C:0.26, G:0.02, T:0.56
Consensus pattern (21 bp):
TCTTCTATTTCTTGCACCATT
Found at i:59520197 original size:27 final size:27
Alignment explanation
Indices: 59520136--59520201 Score: 80
Period size: 27 Copynumber: 2.4 Consensus size: 27
59520126 TGAATCAGAA
* *
59520136 TGCTCACACGAGTTGTGAAAATGGGCT
1 TGCTCACACGAGTTGTAAAAATGGCCT
* *
59520163 TGCACACATGAGTTGTAAAAATAGGCCT
1 TGCTCACACGAGTTGTAAAAAT-GGCCT
59520191 T-CTCACACGAG
1 TGCTCACACGAG
59520202 CTGTGGGTCA
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
27 27 0.84
28 5 0.16
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.24
Consensus pattern (27 bp):
TGCTCACACGAGTTGTAAAAATGGCCT
Found at i:59523978 original size:27 final size:27
Alignment explanation
Indices: 59523959--59524347 Score: 471
Period size: 27 Copynumber: 14.4 Consensus size: 27
59523949 ATTACCAAAG
59523959 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
59523986 TACCCTCGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCGTTT
* ** *
59524013 TACCCTCAATTTTTAAAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* **
59524040 TACCCTCGATTAACAGAATTATTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
59524067 TACCCTC-AGTTTACAGAATTACCGTTT
1 TACCCTCGA-TTTACAGAATTACCGTTT
59524094 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
**
59524121 TACCCTC-AGTTTACAGAATTACTATTT
1 TACCCTCGA-TTTACAGAATTACCGTTT
* * *
59524148 TACCCTCAATTTATAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
59524175 TACCCTC-AGTTTACAGAATTACTGTTT
1 TACCCTCGA-TTTACAGAATTACCGTTT
*
59524202 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
** *
59524229 TACCCTCGATTTGTAAAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * *
59524256 TACCCTTGATTTACAGAATTACTGGTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * *
59524283 TACCCTC-AGTTTACAAAATTATCATTT
1 TACCCTCGA-TTTACAGAATTACCGTTT
* *
59524310 TACCCTTGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
59524337 TACCCTTGATT
1 TACCCTCGATT
59524348 GTGAAATTAC
Statistics
Matches: 310, Mismatches: 44, Indels: 16
0.84 0.12 0.04
Matches are distributed among these distances:
26 4 0.01
27 302 0.97
28 4 0.01
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCGTTT
Found at i:59524382 original size:27 final size:27
Alignment explanation
Indices: 59524352--59524545 Score: 230
Period size: 27 Copynumber: 7.2 Consensus size: 27
59524342 TTGATTGTGA
59524352 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
59524379 AATT-TTCGAAATACCCCTATAGGGTAG
1 AATTACT-GAAATACCCCTGTAGGGTAG
* * *
59524406 AATTACTGAAATACCCTTATAGGATAG
1 AATTACTGAAATACCCCTGTAGGGTAG
**
59524433 AATTACCAAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
59524460 AATTA-TCGAAATACCCTTGTAGGGTAG
1 AATTACT-GAAATACCCCTGTAGGGTAG
* *
59524487 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * * *
59524514 AATTACCGAGATACCCTTGTAGGGTAA
1 AATTACTGAAATACCCCTGTAGGGTAG
59524541 AATTA
1 AATTA
59524546 TCATTTTGCC
Statistics
Matches: 143, Mismatches: 20, Indels: 8
0.84 0.12 0.05
Matches are distributed among these distances:
26 1 0.01
27 141 0.99
28 1 0.01
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.26
Consensus pattern (27 bp):
AATTACTGAAATACCCCTGTAGGGTAG
Found at i:59524420 original size:54 final size:54
Alignment explanation
Indices: 59524352--59524545 Score: 273
Period size: 54 Copynumber: 3.6 Consensus size: 54
59524342 TTGATTGTGA
* ** *
59524352 AATTACTGAAATACCCCTGTAGGGTAGAATTTTCGAAATACCCCTATAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
* * *
59524406 AATTACTGAAATACCCTTATAGGATAGAATTACCAAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
*
59524460 AATTA-TCGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAG
1 AATTACT-GAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
* * *
59524514 AATTACCGAGATACCCTTGTAGGGTAAAATTA
1 AATTACTGAAATACCCTTGTAGGGTAGAATTA
59524546 TCATTTTGCC
Statistics
Matches: 123, Mismatches: 15, Indels: 4
0.87 0.11 0.03
Matches are distributed among these distances:
53 1 0.01
54 122 0.99
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.26
Consensus pattern (54 bp):
AATTACTGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
Found at i:59524455 original size:81 final size:81
Alignment explanation
Indices: 59524360--59524547 Score: 268
Period size: 81 Copynumber: 2.3 Consensus size: 81
59524350 GAAATTACTG
* * * *
59524360 AAATACCCCTGTAGGGTAGAATTTTCGAAATACCCCTATAGGGTAGAATTACTGAAATACCCTTA
1 AAATACCCCTGTAGGGTAGAATTATCGAAATACCCCTATAGGGTAGAAATACCGAAATACCCCTA
59524425 TAGGATAGAATTACCA
66 TAGGATAGAATTACCA
* * *
59524441 AAATACCCCTGTAGGGTAGAATTATCGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTG
1 AAATACCCCTGTAGGGTAGAATTATCGAAATACCCCTATAGGGTAGAAATACCGAAATACCCCTA
* *
59524506 TAGGGTAGAATTACCG
66 TAGGATAGAATTACCA
* * *
59524522 AGATACCCTTGTAGGGTAAAATTATC
1 AAATACCCCTGTAGGGTAGAATTATC
59524548 ATTTTGCCCC
Statistics
Matches: 95, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
81 95 1.00
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.26
Consensus pattern (81 bp):
AAATACCCCTGTAGGGTAGAATTATCGAAATACCCCTATAGGGTAGAAATACCGAAATACCCCTA
TAGGATAGAATTACCA
Found at i:59524784 original size:27 final size:26
Alignment explanation
Indices: 59524746--59524828 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 26
59524736 CGGAGGAAGC
*
59524746 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCAC-AATATCT
59524773 GTTCTGGTGGCTCTGCCACAATATCT
1 GTTCTGGTGGCTCTGCCACAATATCT
* * *
59524799 GTATTTGGTGACTCTGTCACAATATCT
1 GT-TCTGGTGGCTCTGCCACAATATCT
59524826 GTT
1 GTT
59524829 GACCGATCGA
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 10 0.20
27 41 0.80
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.37
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCACAATATCT
Found at i:59524947 original size:22 final size:22
Alignment explanation
Indices: 59524915--59524973 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
59524905 CCCGTTATTA
*
59524915 ATGGCTCTGTGCCAACCTAAAT
1 ATGGCTTTGTGCCAACCTAAAT
* * * *
59524937 ATGGCTTTGTGCCATCTTGACT
1 ATGGCTTTGTGCCAACCTAAAT
*
59524959 ATGGCTTCGTGCCAA
1 ATGGCTTTGTGCCAA
59524974 ACGTATTTTA
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.20, C:0.25, G:0.22, T:0.32
Consensus pattern (22 bp):
ATGGCTTTGTGCCAACCTAAAT
Found at i:59525192 original size:27 final size:28
Alignment explanation
Indices: 59525138--59525206 Score: 79
Period size: 27 Copynumber: 2.5 Consensus size: 28
59525128 TAGGTGGGTT
* * *
59525138 TGCCACATTATCTG-ATTCTGGTGGCTC
1 TGCCACAATATCTGTATTCTAGTGACTC
59525165 TGCCACAATATCTGTA-TCTAGTGACTC
1 TGCCACAATATCTGTATTCTAGTGACTC
* *
59525192 TGTCACGATATCTGT
1 TGCCACAATATCTGT
59525207 TCTGGCAGCC
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
27 35 0.97
28 1 0.03
ACGTcount: A:0.20, C:0.25, G:0.19, T:0.36
Consensus pattern (28 bp):
TGCCACAATATCTGTATTCTAGTGACTC
Found at i:59525363 original size:6 final size:6
Alignment explanation
Indices: 59525354--59525430 Score: 88
Period size: 6 Copynumber: 12.8 Consensus size: 6
59525344 CTGTCACCTA
*
59525354 ATTCTG ATTCTG ATTCTG ATTCTG -TTACTA ATAT-TG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG AT-TCTG ATTCTG ATTCTG
*
59525402 ATTCTG -TTATTG ATTCTG ATTCTG ATTCT
1 ATTCTG ATT-CTG ATTCTG ATTCTG ATTCT
59525431 CATTTTGGTT
Statistics
Matches: 61, Mismatches: 4, Indels: 12
0.79 0.05 0.16
Matches are distributed among these distances:
5 5 0.08
6 52 0.85
7 3 0.05
8 1 0.02
ACGTcount: A:0.19, C:0.14, G:0.14, T:0.52
Consensus pattern (6 bp):
ATTCTG
Found at i:59525396 original size:24 final size:24
Alignment explanation
Indices: 59525364--59525430 Score: 100
Period size: 24 Copynumber: 2.8 Consensus size: 24
59525354 ATTCTGATTC
59525364 TGATTCTGATTCTG-TTACTAATAT
1 TGATTCTGATTCTGATT-CTAATAT
**
59525388 TGATTCTGATTCTGATTCTGTTAT
1 TGATTCTGATTCTGATTCTAATAT
59525412 TGATTCTGATTCTGATTCT
1 TGATTCTGATTCTGATTCT
59525431 CATTTTGGTT
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
24 38 0.95
25 2 0.05
ACGTcount: A:0.19, C:0.13, G:0.15, T:0.52
Consensus pattern (24 bp):
TGATTCTGATTCTGATTCTAATAT
Found at i:59525451 original size:30 final size:30
Alignment explanation
Indices: 59525335--59525430 Score: 140
Period size: 30 Copynumber: 3.2 Consensus size: 30
59525325 TCACATTCCA
*
59525335 ATTCTGATTCTGTCACCTAATTCTGATTCTG
1 ATTCTGATTCTGTTA-CTAATTCTGATTCTG
59525366 ATTCTGATTCTGTTACTAATAT-TGATTCTG
1 ATTCTGATTCTGTTACTAAT-TCTGATTCTG
* *
59525396 ATTCTGATTCTGTTATTGATTCTGATTCTG
1 ATTCTGATTCTGTTACTAATTCTGATTCTG
59525426 ATTCT
1 ATTCT
59525431 CATTTTGGTT
Statistics
Matches: 60, Mismatches: 3, Indels: 5
0.88 0.04 0.07
Matches are distributed among these distances:
29 1 0.02
30 44 0.73
31 15 0.25
ACGTcount: A:0.20, C:0.17, G:0.14, T:0.50
Consensus pattern (30 bp):
ATTCTGATTCTGTTACTAATTCTGATTCTG
Found at i:59532676 original size:40 final size:40
Alignment explanation
Indices: 59532631--59532798 Score: 158
Period size: 40 Copynumber: 4.2 Consensus size: 40
59532621 CGGAATATAA
59532631 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* *** * *
59532671 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
59532711 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * * *
59532751 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
59532791 CCGGATAT
1 CCGGATAT
59532799 CATTCAATTT
Statistics
Matches: 102, Mismatches: 25, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
39 1 0.01
40 101 0.99
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:59532781 original size:80 final size:80
Alignment explanation
Indices: 59532647--59532796 Score: 205
Period size: 80 Copynumber: 1.9 Consensus size: 80
59532637 ATAACCACGT
* *
59532647 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGGCTTAGCC
59532712 CGGATGTAGCCACTA
66 CGGATGTAGCCACTA
* * * * *
59532727 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGGCTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGGCTTAG
59532790 CCCGGAT
64 CCCGGAT
59532797 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
79 3 0.05
80 58 0.95
ACGTcount: A:0.21, C:0.27, G:0.25, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGGCTTAGCC
CGGATGTAGCCACTA
Found at i:59540687 original size:40 final size:40
Alignment explanation
Indices: 59540642--59540809 Score: 158
Period size: 40 Copynumber: 4.2 Consensus size: 40
59540632 CGGAATATAA
59540642 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* *** * *
59540682 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
59540722 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * * *
59540762 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
59540802 CCGGATAT
1 CCGGATAT
59540810 CATTCAATTT
Statistics
Matches: 102, Mismatches: 25, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
39 1 0.01
40 101 0.99
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:59540792 original size:80 final size:80
Alignment explanation
Indices: 59540658--59540807 Score: 205
Period size: 80 Copynumber: 1.9 Consensus size: 80
59540648 ATAACCACGT
* *
59540658 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGGCTTAGCC
59540723 CGGATGTAGCCACTA
66 CGGATGTAGCCACTA
* * * * *
59540738 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGGCTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGGCTTAG
59540801 CCCGGAT
64 CCCGGAT
59540808 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
79 3 0.05
80 58 0.95
ACGTcount: A:0.21, C:0.27, G:0.25, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGGCTTAGCC
CGGATGTAGCCACTA
Found at i:59543126 original size:77 final size:77
Alignment explanation
Indices: 59543011--59543153 Score: 189
Period size: 77 Copynumber: 1.9 Consensus size: 77
59543001 GTACTTATAC
* * * ** * *
59543011 CATGGCCCGAAGCCAAATCAAGATAGCTTATATTTGAAGTACTGATATCATGGCCCAAATCCAAA
1 CATGGCCCGAAGCCAAATCAAGATAACTCACACCTGAAGTACTAATATCATGGCCCAAAGCCAAA
59543076 TAAACCGATATT
66 TAAACCGATATT
* *
59543088 CATGGCCCGAAGCCAAATC-AGTATAACTCACACCTGAAGTGCTAATATCATGGCCCGAAGCCAA
1 CATGGCCCGAAGCCAAATCAAG-ATAACTCACACCTGAAGTACTAATATCATGGCCCAAAGCCAA
59543152 AT
65 AT
59543154 TAATGTTCCC
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
76 2 0.04
77 54 0.96
ACGTcount: A:0.36, C:0.25, G:0.17, T:0.22
Consensus pattern (77 bp):
CATGGCCCGAAGCCAAATCAAGATAACTCACACCTGAAGTACTAATATCATGGCCCAAAGCCAAA
TAAACCGATATT
Found at i:59545713 original size:13 final size:13
Alignment explanation
Indices: 59545692--59545726 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
59545682 TTGTGTGAGT
*
59545692 CACACGGCCTGGC
1 CACATGGCCTGGC
59545705 CACATGGCCTGGC
1 CACATGGCCTGGC
59545718 CACATGGCC
1 CACATGGCC
59545727 GTGTGACCCC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.17, C:0.43, G:0.29, T:0.11
Consensus pattern (13 bp):
CACATGGCCTGGC
Found at i:59548082 original size:27 final size:27
Alignment explanation
Indices: 59548018--59548195 Score: 245
Period size: 27 Copynumber: 6.7 Consensus size: 27
59548008 TTTGGTTTAC
59548018 AAAATTACCAAAATA-CCCT-GCTTTGT
1 AAAATTACCAAAATACCCCTAG-TTTGT
* * * *
59548044 -AAATTACTAAAATACCCTTGGTTTAT
1 AAAATTACCAAAATACCCCTAGTTTGT
59548070 AAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCCTAGTTTGT
59548097 AAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCCTAGTTTGT
*
59548124 AAAATTATCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCCTAGTTTGT
*
59548151 AAAATTACCAAAATACCCCTAATTTGT
1 AAAATTACCAAAATACCCCTAGTTTGT
* **
59548178 GAAATTACTGAAATACCC
1 AAAATTACCAAAATACCC
59548196 TCGACCTGTA
Statistics
Matches: 136, Mismatches: 13, Indels: 5
0.88 0.08 0.03
Matches are distributed among these distances:
25 13 0.10
26 7 0.05
27 116 0.85
ACGTcount: A:0.41, C:0.21, G:0.07, T:0.31
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTAGTTTGT
Found at i:59548206 original size:81 final size:81
Alignment explanation
Indices: 59548018--59548242 Score: 228
Period size: 81 Copynumber: 2.8 Consensus size: 81
59548008 TTTGGTTTAC
* * * * *
59548018 AAAATTACCAAAATA-CCC-TGCTTTGT-AAATTA-CTAAAATACCCTTGGTTTATAAAATTACC
1 AAAATTACCAAAATACCCCGAGC-CTGTAAAATTATC-AAAATACCCCTAGTTTGTAAAATTACC
*
59548079 AAAATACCCCTAGTTTGT
64 AAAATACCCCTAATTTGT
* **
59548097 AAAATTACCAAAATACCCCTAGTTTGTAAAATTATCAAAATACCCCTAGTTTGTAAAATTACCAA
1 AAAATTACCAAAATACCCCGAGCCTGTAAAATTATCAAAATACCCCTAGTTTGTAAAATTACCAA
59548162 AATACCCCTAATTTGT
66 AATACCCCTAATTTGT
* ** ** * *
59548178 GAAATTACTGAAATACCCTCGA-CCTGTAAAATTATTGAAATA-CCCTCGACTTGTAAAATTACC
1 AAAATTACCAAAATACCC-CGAGCCTGTAAAATTATCAAAATACCCCTAG-TTTGTAAAATTACC
59548241 AA
64 AA
59548243 CGTACCCTCG
Statistics
Matches: 124, Mismatches: 16, Indels: 10
0.83 0.11 0.07
Matches are distributed among these distances:
79 15 0.12
80 12 0.10
81 94 0.76
82 3 0.02
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (81 bp):
AAAATTACCAAAATACCCCGAGCCTGTAAAATTATCAAAATACCCCTAGTTTGTAAAATTACCAA
AATACCCCTAATTTGT
Found at i:59548248 original size:27 final size:26
Alignment explanation
Indices: 59548018--59548292 Score: 123
Period size: 27 Copynumber: 10.3 Consensus size: 26
59548008 TTTGGTTTAC
59548018 AAAATTACCAAAATACCCT-G-CTTTGT
1 AAAATTACC-AAATACCCTCGAC-TTGT
* * ** *
59548044 -AAATTACTAAAATACCCTTGGTTTAT
1 AAAATTAC-CAAATACCCTCGACTTGT
* *
59548070 AAAATTACCAAAATACCC-CTAGTTTGT
1 AAAATTACC-AAATACCCTCGA-CTTGT
* *
59548097 AAAATTACCAAAATACCC-CTAGTTTGT
1 AAAATTACC-AAATACCCTCGA-CTTGT
* * *
59548124 AAAATTATCAAAATACCC-CTAGTTTGT
1 AAAATTA-CCAAATACCCTCGA-CTTGT
* *
59548151 AAAATTACCAAAATACCC-CTAATTTGT
1 AAAATTACC-AAATACCCTC-GACTTGT
* * *
59548178 GAAATTACTGAAATACCCTCGACCTGT
1 AAAATTAC-CAAATACCCTCGACTTGT
**
59548205 AAAATTATTGAAATACCCTCGACTTGT
1 AAAATTA-CCAAATACCCTCGACTTGT
* * *
59548232 AAAATTACCAACGTACCCTCGATTTAT
1 AAAATTACCAA-ATACCCTCGACTTGT
* *** *
59548259 AGAATTACCGTTTTACCCTCGATTTGT
1 AAAATTACC-AAATACCCTCGACTTGT
59548286 AAAATTA
1 AAAATTA
59548293 TCGTTTTACC
Statistics
Matches: 205, Mismatches: 30, Indels: 27
0.78 0.11 0.10
Matches are distributed among these distances:
25 16 0.08
26 7 0.03
27 179 0.87
28 3 0.01
ACGTcount: A:0.38, C:0.21, G:0.09, T:0.32
Consensus pattern (26 bp):
AAAATTACCAAATACCCTCGACTTGT
Found at i:59548297 original size:27 final size:27
Alignment explanation
Indices: 59548218--59548589 Score: 356
Period size: 27 Copynumber: 13.8 Consensus size: 27
59548208 ATTATTGAAA
* * ****
59548218 TACCCTCGACTTGTAAAATTACCAACG
1 TACCCTCGATTTATAAAATTACCGTTT
*
59548245 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTATAAAATTACCGTTT
* *
59548272 TACCCTCGATTTGTAAAATTATCGTTT
1 TACCCTCGATTTATAAAATTACCGTTT
*
59548299 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTATAAAATTACCGTTT
* *
59548326 TACCCTC-AGTTTACAGAATTA-C-TATT
1 TACCCTCGA-TTTATAAAATTACCGT-TT
*
59548352 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTATAAAATTACCGTTT
** * * *
59548379 TACCCTTAATTTACATAATTACCATTT
1 TACCCTCGATTTATAAAATTACCGTTT
* * *
59548406 TACCC-CAGATTTACATAATTATCGTTT
1 TACCCTC-GATTTATAAAATTACCGTTT
* *
59548433 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTATAAAATTACCGTTT
* * *
59548460 TACCCTCGATTTACAGAATTACCATTT
1 TACCCTCGATTTATAAAATTACCGTTT
* **
59548487 TACCCTCGATTTATAGAATTACTTTTT
1 TACCCTCGATTTATAAAATTACCGTTT
* * *
59548514 TACCCTTGATTTACAAAATTACTGTTT
1 TACCCTCGATTTATAAAATTACCGTTT
* * **
59548541 TACCCTTGATTTACAAAATTATTGTTT
1 TACCCTCGATTTATAAAATTACCGTTT
*
59548568 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTATAAAATTAC
59548590 TAAAATACCC
Statistics
Matches: 301, Mismatches: 37, Indels: 14
0.86 0.11 0.04
Matches are distributed among these distances:
25 1 0.00
26 22 0.07
27 276 0.92
28 2 0.01
ACGTcount: A:0.29, C:0.22, G:0.08, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTATAAAATTACCGTTT
Found at i:59548590 original size:54 final size:54
Alignment explanation
Indices: 59548245--59548589 Score: 410
Period size: 54 Copynumber: 6.4 Consensus size: 54
59548235 ATTACCAACG
* ** * *
59548245 TACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTGTAAAATTATCGTTT
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTT
*
59548299 TACCCTCGATTTATAGAATTACCGTTTTACCCTC-AGTTTACAGAATTA-C-TATT
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGA-TTTACAGAATTACCGT-TT
* ** * *
59548352 TACCCTCGATTTATAGAATTACCGTTTTACCCTTAATTTACATAATTACCATTT
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTT
* *
59548406 TACCC-CAGATTTACATAATTATCGTTTTACCCTCGATTTACAGAATTACCGTTT
1 TACCCTC-GATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTT
* * **
59548460 TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTATAGAATTACTTTTT
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTT
* * * * * **
59548514 TACCCTTGATTTACAAAATTACTGTTTTACCCTTGATTTACAAAATTATTGTTT
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTT
*
59548568 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTAC
59548590 TAAAATACCC
Statistics
Matches: 256, Mismatches: 28, Indels: 14
0.86 0.09 0.05
Matches are distributed among these distances:
52 1 0.00
53 49 0.19
54 204 0.80
55 2 0.01
ACGTcount: A:0.29, C:0.22, G:0.08, T:0.41
Consensus pattern (54 bp):
TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTT
Found at i:59548590 original size:81 final size:81
Alignment explanation
Indices: 59548245--59548590 Score: 412
Period size: 81 Copynumber: 4.3 Consensus size: 81
59548235 ATTACCAACG
* * ** *
59548245 TACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTGTAAAATTATCGTTTTACCCTCGATT
1 TACCCTCGATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACCGTTTTACCCTCGATT
* *
59548310 TATAGAATTACCGTTT
66 TACAGAATTACCATTT
* * * **
59548326 TACCCTC-AGTTTACAGAATTACT-ATTTACCCTCGATTTATAGAATTACCGTTTTACCCTTAAT
1 TACCCTCGA-TTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACCGTTTTACCCTCGAT
*
59548389 TTACATAATTACCATTT
65 TTACAGAATTACCATTT
* *
59548406 TACCC-CAGATTTACATAATTA-TCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGA
1 TACCCTC-GATTTACAGAATTACT-GTTTTACCCTCGATTTACAAAATTACCGTTTTACCCTCGA
59548469 TTTACAGAATTACCATTT
64 TTTACAGAATTACCATTT
* * * * *
59548487 TACCCTCGATTTATAGAATTACTTTTTTACCCTTGATTTACAAAATTACTGTTTTACCCTTGATT
1 TACCCTCGATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACCGTTTTACCCTCGATT
* ***
59548552 TACAAAATTATTGTTT
66 TACAGAATTACCATTT
*
59548568 TACCCTCGATTTACAAAATTACT
1 TACCCTCGATTTACAGAATTACT
59548591 AAAATACCCT
Statistics
Matches: 228, Mismatches: 30, Indels: 14
0.84 0.11 0.05
Matches are distributed among these distances:
79 2 0.01
80 65 0.29
81 159 0.70
82 2 0.01
ACGTcount: A:0.29, C:0.22, G:0.08, T:0.42
Consensus pattern (81 bp):
TACCCTCGATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACCGTTTTACCCTCGATT
TACAGAATTACCATTT
Found at i:59549857 original size:25 final size:25
Alignment explanation
Indices: 59549828--59549875 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
59549818 TTATAATATG
* * *
59549828 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
59549853 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
59549876 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:59549944 original size:20 final size:20
Alignment explanation
Indices: 59549919--59549977 Score: 100
Period size: 20 Copynumber: 3.0 Consensus size: 20
59549909 TAAATATGGT
59549919 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
* *
59549939 ATGTATGCTATGCACATGAT
1 ATGTATGATATGCACATGAA
59549959 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
59549978 GGTAATCATA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:59550055 original size:24 final size:24
Alignment explanation
Indices: 59550028--59550156 Score: 206
Period size: 24 Copynumber: 5.4 Consensus size: 24
59550018 GAGGAAGTGA
59550028 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
59550052 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
59550076 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
59550099 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
* * *
59550123 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
59550147 AAAAGAGGCT
1 AAAAG-GGCT
59550157 AGGCCTCCAT
Statistics
Matches: 100, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
23 23 0.23
24 73 0.73
25 4 0.04
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:59550121 original size:47 final size:47
Alignment explanation
Indices: 59550028--59550156 Score: 204
Period size: 47 Copynumber: 2.7 Consensus size: 47
59550018 GAGGAAGTGA
59550028 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTATC
*
59550076 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
* *
59550123 GAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGCT
1 AAAAGGGCTTATGCCCCAGTTA-TAAAAG-GGCT
59550157 AGGCCTCCAT
Statistics
Matches: 76, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
47 43 0.57
48 29 0.38
49 4 0.05
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.26
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
Found at i:59550411 original size:31 final size:31
Alignment explanation
Indices: 59550362--59550455 Score: 172
Period size: 31 Copynumber: 3.1 Consensus size: 31
59550352 CGTTTACAGT
59550362 AAAGGCTTCGG-CCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
59550392 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
*
59550423 AAAGGCTTCGGCCCAGTATTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
59550454 AA
1 AA
59550456 TATGAAAAGG
Statistics
Matches: 62, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
30 11 0.18
31 51 0.82
ACGTcount: A:0.39, C:0.15, G:0.22, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:59564316 original size:43 final size:42
Alignment explanation
Indices: 59564239--59564396 Score: 198
Period size: 41 Copynumber: 3.8 Consensus size: 42
59564229 AAGCCTAGTA
* * *
59564239 TAATACACCCGCAC-AGAGCCTGCTAGGCAGTAAGCCTGATA
1 TAATACACCAGCACAAGAGCCTGCTAGGCAATAAGCCTGATT
* *
59564280 TAATACA-CTGACATATAGAGCCTGCTAGGCAATAAGCCTGATT
1 TAATACACCAG-CACA-AGAGCCTGCTAGGCAATAAGCCTGATT
59564323 TAATACACCAGCACAA-AGCCTGCTAGGCAATAAGCCTGATT
1 TAATACACCAGCACAAGAGCCTGCTAGGCAATAAGCCTGATT
* * *
59564364 TAATACACCGGGACAA-AGGCTGCTAGGCAATAA
1 TAATACACCAGCACAAGAGCCTGCTAGGCAATAA
59564397 AGCCCGAATA
Statistics
Matches: 104, Mismatches: 9, Indels: 8
0.86 0.07 0.07
Matches are distributed among these distances:
40 2 0.02
41 64 0.62
42 1 0.01
43 35 0.34
44 2 0.02
ACGTcount: A:0.35, C:0.25, G:0.20, T:0.20
Consensus pattern (42 bp):
TAATACACCAGCACAAGAGCCTGCTAGGCAATAAGCCTGATT
Found at i:59566886 original size:19 final size:20
Alignment explanation
Indices: 59566864--59566901 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
59566854 TAATTTCTTC
*
59566864 TTTTATTCCTATT-TTTATT
1 TTTTATTCATATTATTTATT
59566883 TTTTATTCATATTATTTAT
1 TTTTATTCATATTATTTAT
59566902 GATATTATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.21, C:0.08, G:0.00, T:0.71
Consensus pattern (20 bp):
TTTTATTCATATTATTTATT
Found at i:59573340 original size:24 final size:24
Alignment explanation
Indices: 59573308--59573391 Score: 78
Period size: 24 Copynumber: 3.5 Consensus size: 24
59573298 TCTTACTTAT
**
59573308 TCGCACACATAGAGCCATATTTTC
1 TCGCACACATAGAGCCATATAATC
* * *
59573332 TCGCACACATAGTGCTATGTAATC
1 TCGCACACATAGAGCCATATAATC
* ** *
59573356 TCGCACACATAGTGCCGCATAACC
1 TCGCACACATAGAGCCATATAATC
*
59573380 TTGCACACATAG
1 TCGCACACATAG
59573392 TGCTGAAATT
Statistics
Matches: 49, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 49 1.00
ACGTcount: A:0.30, C:0.30, G:0.15, T:0.25
Consensus pattern (24 bp):
TCGCACACATAGAGCCATATAATC
Found at i:59574473 original size:19 final size:20
Alignment explanation
Indices: 59574451--59574488 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
59574441 TAATTTCTTC
*
59574451 TTTTATTCCTATT-TTTATT
1 TTTTATTCATATTATTTATT
59574470 TTTTATTCATATTATTTAT
1 TTTTATTCATATTATTTAT
59574489 GATATTATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.21, C:0.08, G:0.00, T:0.71
Consensus pattern (20 bp):
TTTTATTCATATTATTTATT
Found at i:59577747 original size:106 final size:106
Alignment explanation
Indices: 59577562--59577773 Score: 424
Period size: 106 Copynumber: 2.0 Consensus size: 106
59577552 AAGAGAATAA
59577562 ATTTTAGAGAAAGACATAGCAATGTCGTACATAACCCAAATAGACCAATGATGCTTTTGTCTATA
1 ATTTTAGAGAAAGACATAGCAATGTCGTACATAACCCAAATAGACCAATGATGCTTTTGTCTATA
59577627 GCCATGTTTAGCTAATGTTCTCATACAATAAAAAAATTCCT
66 GCCATGTTTAGCTAATGTTCTCATACAATAAAAAAATTCCT
59577668 ATTTTAGAGAAAGACATAGCAATGTCGTACATAACCCAAATAGACCAATGATGCTTTTGTCTATA
1 ATTTTAGAGAAAGACATAGCAATGTCGTACATAACCCAAATAGACCAATGATGCTTTTGTCTATA
59577733 GCCATGTTTAGCTAATGTTCTCATACAATAAAAAAATTCCT
66 GCCATGTTTAGCTAATGTTCTCATACAATAAAAAAATTCCT
59577774 TCTGAAATTA
Statistics
Matches: 106, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
106 106 1.00
ACGTcount: A:0.38, C:0.18, G:0.13, T:0.31
Consensus pattern (106 bp):
ATTTTAGAGAAAGACATAGCAATGTCGTACATAACCCAAATAGACCAATGATGCTTTTGTCTATA
GCCATGTTTAGCTAATGTTCTCATACAATAAAAAAATTCCT
Found at i:59581520 original size:48 final size:48
Alignment explanation
Indices: 59581423--59581662 Score: 376
Period size: 48 Copynumber: 5.0 Consensus size: 48
59581413 CAAGATAAAT
* * * *
59581423 ATATATATGTGTGGTAAAGCCGAATGGCTAGTGTG--ATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
*
59581469 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATAAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
*
59581517 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
59581565 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
* * * *
59581613 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGCGAAATATGTAGGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
59581661 AT
1 AT
59581663 GTGTGTATAT
Statistics
Matches: 180, Mismatches: 12, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
46 32 0.18
48 148 0.82
ACGTcount: A:0.35, C:0.07, G:0.27, T:0.31
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
Found at i:59581855 original size:37 final size:37
Alignment explanation
Indices: 59581803--59581910 Score: 164
Period size: 37 Copynumber: 2.9 Consensus size: 37
59581793 GGAAATATAT
59581803 TCCGGGTAAGACCCGATGACTACGTGTGGAGA-TTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGACTT-TG
* *
59581840 TTCGGGTAAGACCCGATGACTATGTGTGGAGACTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGACTTTG
* *
59581877 TCCGGGTAAGACCCGATAACTACGTGTGGGGACT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGACT
59581911 ATTCGAGCTA
Statistics
Matches: 64, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
37 62 0.97
38 2 0.03
ACGTcount: A:0.23, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGACTTTG
Found at i:59583371 original size:2 final size:2
Alignment explanation
Indices: 59583364--59583393 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
59583354 AAGCCAATTC
59583364 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
59583394 TTTCATTCAT
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:59584920 original size:41 final size:41
Alignment explanation
Indices: 59584858--59585033 Score: 212
Period size: 41 Copynumber: 4.2 Consensus size: 41
59584848 TAAAATTTGT
*
59584858 TAGGCACA-AAGCCT-AGTATAATACACCGGCACAGAGCCTGC
1 TAGGCA-ATAAGCCTGAG-ATAATACACCGGCACAAAGCCTGC
* * *
59584899 TAGGCAATAAGCCTGAGATAATACACCAGCATATAAAGCCTAC
1 TAGGCAATAAGCCTGAGATAATACACCGGC--ACAAAGCCTGC
* **
59584942 TAGGCAAAAAGCCTGATTTAATACACCGGCACAAAGCCTGC
1 TAGGCAATAAGCCTGAGATAATACACCGGCACAAAGCCTGC
** *
59584983 TAGGCAATAAGCCTGATTTAATACACCGGCACAGAGCCTGC
1 TAGGCAATAAGCCTGAGATAATACACCGGCACAAAGCCTGC
59585024 TAGGCAATAA
1 TAGGCAATAA
59585034 AGCCCAAATA
Statistics
Matches: 119, Mismatches: 12, Indels: 8
0.86 0.09 0.06
Matches are distributed among these distances:
40 1 0.01
41 82 0.69
42 2 0.02
43 34 0.29
ACGTcount: A:0.37, C:0.26, G:0.20, T:0.18
Consensus pattern (41 bp):
TAGGCAATAAGCCTGAGATAATACACCGGCACAAAGCCTGC
Found at i:59586743 original size:27 final size:26
Alignment explanation
Indices: 59586708--59586819 Score: 125
Period size: 27 Copynumber: 4.2 Consensus size: 26
59586698 AGCATGGTTG
* *
59586708 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
59586734 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
* *
59586762 TCAGAACAAATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
59586789 CCAGATCAGATTATTGTGGCATAGCCA
1 CCAGAACAGA-TAATGTGGCAGAGCCA
59586816 CCAG
1 CCAG
59586820 GACGCTTCCT
Statistics
Matches: 73, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
26 5 0.07
27 50 0.68
28 18 0.25
ACGTcount: A:0.37, C:0.22, G:0.23, T:0.18
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:59586808 original size:54 final size:54
Alignment explanation
Indices: 59586709--59586815 Score: 144
Period size: 54 Copynumber: 2.0 Consensus size: 54
59586699 GCATGGTTGC
* *
59586709 CAGAACAGATAATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCAT
1 CAGAACAAATAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCAT
* * * *
59586763 CAGAACAAATATATGTGGCAGAGCCACCAGAT-CAGATTATTGTGGCATAGCCA
1 CAGAACAAATA-ATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
59586816 CCAGGACGCT
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
54 28 0.61
55 18 0.39
ACGTcount: A:0.37, C:0.21, G:0.23, T:0.19
Consensus pattern (54 bp):
CAGAACAAATAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCAT
Found at i:59586959 original size:26 final size:27
Alignment explanation
Indices: 59586923--59586998 Score: 100
Period size: 28 Copynumber: 2.8 Consensus size: 27
59586913 CAAAAGTACC
**
59586923 CCTAGGGGTATAATGGTAATTTT-ACA
1 CCTAGGGGTATAACAGTAATTTTCACA
*
59586949 CCTAGGGGTATAACAGTAATTTTTCATA
1 CCTAGGGGTATAACAGTAA-TTTTCACA
*
59586977 CATAGGGGTATAACAGTAATTT
1 CCTAGGGGTATAACAGTAATTT
59586999 AACTATTCTT
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
26 17 0.39
27 7 0.16
28 20 0.45
ACGTcount: A:0.33, C:0.12, G:0.21, T:0.34
Consensus pattern (27 bp):
CCTAGGGGTATAACAGTAATTTTCACA
Found at i:59594627 original size:27 final size:26
Alignment explanation
Indices: 59594592--59594703 Score: 127
Period size: 27 Copynumber: 4.2 Consensus size: 26
59594582 AGCATGGCTG
** *
59594592 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGTAGAGCCA
59594618 CCAGATACAGATAATCGTGGTAGAGCCA
1 CCAGA-ACAGATAAT-GTGGTAGAGCCA
59594646 CCAGAACAGATATATGTGGTAGAGCCA
1 CCAGAACAGATA-ATGTGGTAGAGCCA
* *
59594673 CCA-AATCAGATAATTGTGGCATAGCCA
1 CCAGAA-CAGATAA-TGTGGTAGAGCCA
59594700 CCAG
1 CCAG
59594704 GACGCTTCCT
Statistics
Matches: 75, Mismatches: 5, Indels: 10
0.83 0.06 0.11
Matches are distributed among these distances:
26 8 0.11
27 51 0.68
28 16 0.21
ACGTcount: A:0.38, C:0.21, G:0.23, T:0.18
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGTAGAGCCA
Found at i:59594656 original size:54 final size:54
Alignment explanation
Indices: 59594592--59594703 Score: 145
Period size: 54 Copynumber: 2.1 Consensus size: 54
59594582 AGCATGGCTG
* * *
59594592 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGTAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAAAT-CAGATAATCGTGGCAGAGCCA
** * *
59594646 CCAGAACAGATATATGTGGTAGAGCCACCAAATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAAATCAGATAATCGTGGCAGAGCCA
59594700 CCAG
1 CCAG
59594704 GACGCTTCCT
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
54 34 0.68
55 16 0.32
ACGTcount: A:0.38, C:0.21, G:0.23, T:0.18
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAAATCAGATAATCGTGGCAGAGCCA
Found at i:59609041 original size:14 final size:14
Alignment explanation
Indices: 59609018--59609060 Score: 77
Period size: 14 Copynumber: 3.1 Consensus size: 14
59609008 ACCACCTCCC
*
59609018 CTATTCTTCTTCTT
1 CTATTTTTCTTCTT
59609032 CTATTTTTCTTCTT
1 CTATTTTTCTTCTT
59609046 CTATTTTTCTTCTT
1 CTATTTTTCTTCTT
59609060 C
1 C
59609061 AAAACTATTC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
14 28 1.00
ACGTcount: A:0.07, C:0.26, G:0.00, T:0.67
Consensus pattern (14 bp):
CTATTTTTCTTCTT
Found at i:59611812 original size:9 final size:9
Alignment explanation
Indices: 59611798--59611822 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
59611788 TAAACTGTTA
59611798 TATTTTATT
1 TATTTTATT
59611807 TATTTTATT
1 TATTTTATT
59611816 TATTTTA
1 TATTTTA
59611823 CAATTTCACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (9 bp):
TATTTTATT
Found at i:59613911 original size:21 final size:20
Alignment explanation
Indices: 59613882--59613928 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 20
59613872 ATATAATAAT
59613882 ATAATAACATAAAATAAAAGAA
1 ATAA-AACATAAAAT-AAAGAA
* *
59613904 ATAAAACATGAAATAAATAA
1 ATAAAACATAAAATAAAGAA
59613924 ATAAA
1 ATAAA
59613929 GAAACAAAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 10 0.43
21 9 0.39
22 4 0.17
ACGTcount: A:0.72, C:0.04, G:0.04, T:0.19
Consensus pattern (20 bp):
ATAAAACATAAAATAAAGAA
Found at i:59618050 original size:40 final size:40
Alignment explanation
Indices: 59617984--59618150 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
59617974 AAATTGAATG
* * *
59617984 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
59618023 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
59618063 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
59618103 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
59618143 ATATCCGG
1 ATATCCGG
59618151 TTATATTCCG
Statistics
Matches: 103, Mismatches: 20, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
39 16 0.16
40 85 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:59630650 original size:49 final size:49
Alignment explanation
Indices: 59630531--59630815 Score: 461
Period size: 49 Copynumber: 5.9 Consensus size: 49
59630521 GTAGGAGATG
*
59630531 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGAG--
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
* * *
59630578 TATATATGTGATAAGGCCTAATGGCCGATGTGATGGATGTGAAGGTGTA
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
59630627 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
* *
59630676 TATACATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGAG--
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
* *
59630723 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGTA
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
*
59630772 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
59630816 CATATGTGTG
Statistics
Matches: 220, Mismatches: 14, Indels: 6
0.92 0.06 0.03
Matches are distributed among these distances:
47 86 0.39
49 134 0.61
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (49 bp):
TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
Found at i:59630727 original size:96 final size:95
Alignment explanation
Indices: 59630530--59630815 Score: 466
Period size: 96 Copynumber: 3.0 Consensus size: 95
59630520 TGTAGGAGAT
*
59630530 GTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGAGTATAT-ATGTGATAAGG
1 GTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATAATGTGATAAGG
* * *
59630594 CCTAATGGCCGATGTGATGGATGTGAAGGT
66 CCTAATGGCCGATGTGATGAATGTGAAAGA
59630624 GTATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATACATGTGATA
1 G--TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATA-ATGTGATA
*
59630689 AGGCCTAATGGCCAATGTGATGAATGTGAAAGA
63 AGGCCTAATGGCCGATGTGATGAATGTGAAAGA
* *
59630722 GTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGTATATATATGTGATAAG
1 GTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATA-ATGTGATAAG
59630787 GCCTAATGGCCGATGTGATGAATGTGAAA
65 GCCTAATGGCCGATGTGATGAATGTGAAA
59630816 CATATGTGTG
Statistics
Matches: 179, Mismatches: 9, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
94 1 0.01
96 140 0.78
98 38 0.21
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (95 bp):
GTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATAATGTGATAAGG
CCTAATGGCCGATGTGATGAATGTGAAAGA
Found at i:59630803 original size:145 final size:145
Alignment explanation
Indices: 59630531--59630815 Score: 543
Period size: 145 Copynumber: 2.0 Consensus size: 145
59630521 GTAGGAGATG
*
59630531 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGAGTATATATGTGATAAGGCC
1 TATACATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGAGTATATATGTGATAAGGCC
*
59630596 TAATGGCCGATGTGATGGATGTGAAGGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGAT
66 TAATGGCCGATGTGATGAATGTGAAGGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGAT
59630661 GAATGTGAAAGTGTA
131 GAATGTGAAAGTGTA
59630676 TATACATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGAGTATATATGTGATAAGGCC
1 TATACATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGAGTATATATGTGATAAGGCC
*
59630741 TAATGGCCGATGTGATGAATGTGAAGGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
66 TAATGGCCGATGTGATGAATGTGAAGGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGAT
59630806 GAATGTGAAA
131 GAATGTGAAA
59630816 CATATGTGTG
Statistics
Matches: 137, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
145 137 1.00
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (145 bp):
TATACATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGAGTATATATGTGATAAGGCC
TAATGGCCGATGTGATGAATGTGAAGGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGAT
GAATGTGAAAGTGTA
Found at i:59630863 original size:48 final size:48
Alignment explanation
Indices: 59630807--59631006 Score: 346
Period size: 48 Copynumber: 4.2 Consensus size: 48
59630797 CGATGTGATG
*
59630807 AATGTGAAACATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
1 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
* *
59630855 AATGTGAAATATATGTGTGATGTGTATATGTGGTAAAGCCGAAGGGCT
1 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
*
59630903 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGTT
1 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
* *
59630951 AATGTGAAATATATGTGTGATGTGTATGTGTGGTAAAGCCGAATGGCT
1 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
59630999 AATGTGAA
1 AATGTGAA
59631007 TGTTGTAACA
Statistics
Matches: 143, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 143 1.00
ACGTcount: A:0.33, C:0.06, G:0.29, T:0.33
Consensus pattern (48 bp):
AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
Found at i:59631100 original size:37 final size:38
Alignment explanation
Indices: 59631046--59631121 Score: 136
Period size: 37 Copynumber: 2.0 Consensus size: 38
59631036 AACTTGGAAA
*
59631046 TATGTTCCGGGTGAGACCCGATGACTACGTGTGGAGAT
1 TATGTTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
59631084 TATG-TCCGGGTAAGACCCGATGACTACGTGTGGAGAT
1 TATGTTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
59631121 T
1 T
59631122 GCTTATAAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
37 33 0.89
38 4 0.11
ACGTcount: A:0.22, C:0.18, G:0.33, T:0.26
Consensus pattern (38 bp):
TATGTTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
Found at i:59636537 original size:46 final size:46
Alignment explanation
Indices: 59636392--59636654 Score: 203
Period size: 46 Copynumber: 5.6 Consensus size: 46
59636382 GTTGTTGGCT
* ** * * *
59636392 AGTGTAAGACATGTTTGGGACATGCATCGGCCAT-AATATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATC-AACATCGAGACGAGAGCC
* * *
59636438 AGTGTAAGACTATGTCTGGGACATTGCATCAGCATTGAGACGAGAGCT
1 AGTGTAAGAC-ATGTCTGGGACA-TGCATCAACATCGAGACGAGAGCC
* *
59636486 AGTGTAAGACATGTCTGGGACATGCATCAACCTCGAGTCGTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAACATCGAGACG-AGAGCC
* * * *
59636532 AGTGTAAGACATGTCTGGGACATGCATCGACTAT-GAGATGATAGTC
1 AGTGTAAGACATGTCTGGGACATGCATCAAC-ATCGAGACGAGAGCC
* * * * * * *
59636578 AGTGTAAGACCATGTTTGGGACATGGCAACGAC-TTGAGA-TATGAACT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCAACATCGAGACGA-GAGCC
59636625 AGTGTAAGACCATGTCTGGGACATGGCATC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATC
59636655 GACACCTTAC
Statistics
Matches: 181, Mismatches: 26, Indels: 19
0.80 0.12 0.08
Matches are distributed among these distances:
45 1 0.01
46 75 0.41
47 74 0.41
48 31 0.17
ACGTcount: A:0.30, C:0.18, G:0.28, T:0.24
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCAACATCGAGACGAGAGCC
Found at i:59636644 original size:140 final size:141
Alignment explanation
Indices: 59636392--59636654 Score: 354
Period size: 140 Copynumber: 1.9 Consensus size: 141
59636382 GTTGTTGGCT
* * * *
59636392 AGTGTAAGACATGTTTGGGACATGCATCGGCCATAATATGAGAGCCAGTGTAAGACTATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCGACCATAAGATGAGAGCCAGTGTAAGACCATGTCTGG
* * *
59636457 GACATTGCATCAGCATTGAGACGAGAGCTAGTGTAAGACATGTCTGGGACAT-GCATCAACCTCG
66 GACATGGCAACAGCATTGAGACGAGAACTAGTGTAAGACATGTCTGGGACATGGCATCAACCTCG
59636521 AGTCGTAAGCC
131 AGTCGTAAGCC
* * * * *
59636532 AGTGTAAGACATGTCTGGGACATGCATCGACTATGAGATGATAGTCAGTGTAAGACCATGTTTGG
1 AGTGTAAGACATGTCTGGGACATGCATCGACCATAAGATGAGAGCCAGTGTAAGACCATGTCTGG
*
59636597 GACATGGCAAC-G-ACTTGAGA-TATGAACTAGTGTAAGACCATGTCTGGGACATGGCATC
66 GACATGGCAACAGCA-TTGAGACGA-GAACTAGTGTAAGA-CATGTCTGGGACATGGCATC
59636655 GACACCTTAC
Statistics
Matches: 106, Mismatches: 13, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
138 2 0.02
139 20 0.19
140 79 0.75
141 5 0.05
ACGTcount: A:0.30, C:0.18, G:0.28, T:0.24
Consensus pattern (141 bp):
AGTGTAAGACATGTCTGGGACATGCATCGACCATAAGATGAGAGCCAGTGTAAGACCATGTCTGG
GACATGGCAACAGCATTGAGACGAGAACTAGTGTAAGACATGTCTGGGACATGGCATCAACCTCG
AGTCGTAAGCC
Found at i:59644178 original size:92 final size:92
Alignment explanation
Indices: 59644017--59644187 Score: 272
Period size: 92 Copynumber: 1.9 Consensus size: 92
59644007 TATTATTGGT
* *
59644017 TAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGATAGCCAATGTAAGACCATGTCTA
1 TAGTGTAAGACATGTCTGGCACATGCATCGGCCACATGATGATAGCCAATGTAAGACCATGTCTA
59644082 GGACATGGCATTGATAGAGACGAGAGC
66 GGACATGGCATTGATAGAGACGAGAGC
* * *
59644109 TAGTGTAAGACATGTCTGGCACATGCATCGGCTACGA-GATGATAGTCAGTGTAAGACCATGTCT
1 TAGTGTAAGACATGTCTGGCACATGCATCGGCCAC-ATGATGATAGCCAATGTAAGACCATGTCT
*
59644173 GGGACATGGCATTGA
65 AGGACATGGCATTGA
59644188 CTTGAGATAT
Statistics
Matches: 72, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 71 0.99
93 1 0.01
ACGTcount: A:0.30, C:0.18, G:0.28, T:0.24
Consensus pattern (92 bp):
TAGTGTAAGACATGTCTGGCACATGCATCGGCCACATGATGATAGCCAATGTAAGACCATGTCTA
GGACATGGCATTGATAGAGACGAGAGC
Found at i:59644180 original size:47 final size:48
Alignment explanation
Indices: 59644018--59644219 Score: 188
Period size: 47 Copynumber: 4.4 Consensus size: 48
59644008 ATTATTGGTT
* *
59644018 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCAC-ATTATGATAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCTACGA-GATGATAGCC
* * * * * * *
59644064 AATGTAAGACCATGTCTAGGACATGGCAT-TGATA-GAGACGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCTACGAGATGATAGCC
* *
59644110 AGTGTAAGA-CATGTCTGGCACAT-GCATCGGCTACGAGATGATAGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCTACGAGATGATAGCC
* * *
59644156 AGTGTAAGACCATGTCTGGGACATGGCATTGACT-TGAGAT-ATGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCTACGAGATGAT-AGCC
*
59644203 AATGTAAGACCATGTCT
1 AGTGTAAGACCATGTCT
59644220 TGAGATAACG
Statistics
Matches: 124, Mismatches: 24, Indels: 15
0.76 0.15 0.09
Matches are distributed among these distances:
44 4 0.03
45 15 0.12
46 41 0.33
47 53 0.43
48 11 0.09
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.24
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCTACGAGATGATAGCC
Found at i:59647528 original size:38 final size:38
Alignment explanation
Indices: 59647477--59647559 Score: 157
Period size: 38 Copynumber: 2.2 Consensus size: 38
59647467 CGGTACTAGT
*
59647477 TGGAGTGTAGGTATGGGTGGGTTGATTTTATCCCCACA
1 TGGAGTGCAGGTATGGGTGGGTTGATTTTATCCCCACA
59647515 TGGAGTGCAGGTATGGGTGGGTTGATTTTATCCCCACA
1 TGGAGTGCAGGTATGGGTGGGTTGATTTTATCCCCACA
59647553 TGGAGTG
1 TGGAGTG
59647560 TAGGGTTGGA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 44 1.00
ACGTcount: A:0.18, C:0.13, G:0.36, T:0.33
Consensus pattern (38 bp):
TGGAGTGCAGGTATGGGTGGGTTGATTTTATCCCCACA
Found at i:59651502 original size:21 final size:20
Alignment explanation
Indices: 59651473--59651519 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 20
59651463 ATATAATAAT
59651473 ATAATAACATAAAATAAAAGAA
1 ATAA-AACATAAAAT-AAAGAA
* *
59651495 ATAAAACATGAAATAAATAA
1 ATAAAACATAAAATAAAGAA
59651515 ATAAA
1 ATAAA
59651520 TAAACAAAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 10 0.43
21 9 0.39
22 4 0.17
ACGTcount: A:0.72, C:0.04, G:0.04, T:0.19
Consensus pattern (20 bp):
ATAAAACATAAAATAAAGAA
Found at i:59652977 original size:5 final size:5
Alignment explanation
Indices: 59652969--59653032 Score: 128
Period size: 5 Copynumber: 12.8 Consensus size: 5
59652959 TAATTGTGCC
59652969 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
59653019 TATTA TATTA TATT
1 TATTA TATTA TATT
59653033 TAAATATTCA
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 59 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
TATTA
Found at i:59653637 original size:21 final size:21
Alignment explanation
Indices: 59653609--59653660 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
59653599 TTTTGTCTAA
59653609 GATG-TAAATTGGACTAAATT
1 GATGTTAAATTGGACTAAATT
* *
59653629 GA-GTTTAAATTGTATTAAATT
1 GATG-TTAAATTGGACTAAATT
59653650 GATGTTAAATT
1 GATGTTAAATT
59653661 TACTCGTATA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
19 1 0.04
20 2 0.07
21 23 0.85
22 1 0.04
ACGTcount: A:0.38, C:0.02, G:0.17, T:0.42
Consensus pattern (21 bp):
GATGTTAAATTGGACTAAATT
Found at i:59653842 original size:2 final size:2
Alignment explanation
Indices: 59653825--59653866 Score: 66
Period size: 2 Copynumber: 20.5 Consensus size: 2
59653815 TTGTGAATTG
*
59653825 TA TA AA TA TCA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
59653867 TTGACATTAA
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
2 35 0.95
3 2 0.05
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:59654715 original size:16 final size:15
Alignment explanation
Indices: 59654694--59654739 Score: 58
Period size: 14 Copynumber: 3.1 Consensus size: 15
59654684 TCTACATGAA
59654694 ATACATGAAAATGATG
1 ATACATGAAAAT-ATG
*
59654710 ATACATGATAAT-TG
1 ATACATGAAAATATG
*
59654724 ATATATGAAAATATG
1 ATACATGAAAATATG
59654739 A
1 A
59654740 GATGATGATA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
14 12 0.46
15 3 0.12
16 11 0.42
ACGTcount: A:0.50, C:0.04, G:0.15, T:0.30
Consensus pattern (15 bp):
ATACATGAAAATATG
Found at i:59654761 original size:29 final size:30
Alignment explanation
Indices: 59654694--59654762 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 30
59654684 TCTACATGAA
*
59654694 ATACATGAAAATGATGATACATGATAATTG
1 ATACATGAAAATGATGAGACATGATAATTG
* * *
59654724 ATATATGAAAAT-ATGAGATGATGATATTTG
1 ATACATGAAAATGATGAGA-CATGATAATTG
59654754 -TACATGAAA
1 ATACATGAAA
59654763 TTTGTAACAT
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
29 13 0.39
30 20 0.61
ACGTcount: A:0.46, C:0.04, G:0.17, T:0.32
Consensus pattern (30 bp):
ATACATGAAAATGATGAGACATGATAATTG
Found at i:59656816 original size:28 final size:28
Alignment explanation
Indices: 59656784--59656837 Score: 108
Period size: 28 Copynumber: 1.9 Consensus size: 28
59656774 CGTAGATCAC
59656784 GAAATTACCCCTAAAGAGCAAAATTATT
1 GAAATTACCCCTAAAGAGCAAAATTATT
59656812 GAAATTACCCCTAAAGAGCAAAATTA
1 GAAATTACCCCTAAAGAGCAAAATTA
59656838 CCGATATACC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.48, C:0.19, G:0.11, T:0.22
Consensus pattern (28 bp):
GAAATTACCCCTAAAGAGCAAAATTATT
Found at i:59669068 original size:17 final size:18
Alignment explanation
Indices: 59669026--59669074 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
59669016 AGTTGAAAAG
59669026 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
59669045 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
59669062 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
59669075 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:59669962 original size:40 final size:40
Alignment explanation
Indices: 59669896--59670062 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
59669886 AAATTGAATG
* * *
59669896 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
59669935 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
59669975 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
59670015 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
59670055 ATATCCGG
1 ATATCCGG
59670063 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:59677957 original size:40 final size:40
Alignment explanation
Indices: 59677891--59678057 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
59677881 AAATTGAATG
* * *
59677891 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
59677930 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
59677970 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
59678010 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
59678050 ATATCCGG
1 ATATCCGG
59678058 TTATATTCCG
Statistics
Matches: 103, Mismatches: 20, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
39 16 0.16
40 85 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:59680710 original size:17 final size:18
Alignment explanation
Indices: 59680668--59680716 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
59680658 AGTTGAAAAG
59680668 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
59680687 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
59680704 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
59680717 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:59681598 original size:40 final size:40
Alignment explanation
Indices: 59681532--59681698 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
59681522 AAATTGAATG
* * *
59681532 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
59681571 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
59681611 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
59681651 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
59681691 ATATCCGG
1 ATATCCGG
59681699 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:59684477 original size:21 final size:21
Alignment explanation
Indices: 59684438--59684478 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
59684428 TCTTGATTTA
*
59684438 GTGTATTTATCTATGACATAG
1 GTGTATTTATCTATAACATAG
59684459 GTGTATTTAT-TCATAACATA
1 GTGTATTTATCT-ATAACATA
59684479 AGCAATTTCC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 17 0.94
ACGTcount: A:0.32, C:0.10, G:0.15, T:0.44
Consensus pattern (21 bp):
GTGTATTTATCTATAACATAG
Found at i:59685085 original size:29 final size:28
Alignment explanation
Indices: 59685043--59685214 Score: 195
Period size: 29 Copynumber: 6.0 Consensus size: 28
59685033 GTGATAAACA
* *
59685043 ATGGTTGTAACCATCCCTTTTCATATTCG
1 ATGGTCGTCACCATCCCTTTTCATATT-G
59685072 ATGGTCGTCACCATCCCTTTTCATAGTTG
1 ATGGTCGTCACCATCCCTTTTCATA-TTG
59685101 ATGGTCGTCACCATCCCTTTTCATAATTG
1 ATGGTCGTCACCATCCCTTTTCAT-ATTG
* * * * *
59685130 ATAG-C-TGAAGCTATCCCTTTTCAAAGTCG
1 ATGGTCGT-CA-CCATCCCTTTTCATA-TTG
*
59685159 ATGGTCGTCACCTTCCCTTTTCATAGTTG
1 ATGGTCGTCACCATCCCTTTTCATA-TTG
59685188 ATGGTCGTCACCATCCCTTTTCATATT
1 ATGGTCGTCACCATCCCTTTTCATATT
59685215 CGATAGCCAA
Statistics
Matches: 122, Mismatches: 14, Indels: 15
0.81 0.09 0.10
Matches are distributed among these distances:
27 1 0.01
28 5 0.04
29 110 0.90
30 5 0.04
31 1 0.01
ACGTcount: A:0.20, C:0.27, G:0.15, T:0.38
Consensus pattern (28 bp):
ATGGTCGTCACCATCCCTTTTCATATTG
Found at i:59685232 original size:29 final size:29
Alignment explanation
Indices: 59685200--59685298 Score: 171
Period size: 29 Copynumber: 3.4 Consensus size: 29
59685190 GGTCGTCACC
59685200 ATCCCTTTTCATATTCGATAGCCAAAGCT
1 ATCCCTTTTCATATTCGATAGCCAAAGCT
59685229 ATCCCTTTTCATATTCGATAGCCAAAGCT
1 ATCCCTTTTCATATTCGATAGCCAAAGCT
* **
59685258 ATCCCTTTTCATATTCGGTAGCTGAAGCT
1 ATCCCTTTTCATATTCGATAGCCAAAGCT
59685287 ATCCCTTTTCAT
1 ATCCCTTTTCAT
59685299 TGGTCAATAA
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 67 1.00
ACGTcount: A:0.24, C:0.27, G:0.11, T:0.37
Consensus pattern (29 bp):
ATCCCTTTTCATATTCGATAGCCAAAGCT
Found at i:59685247 original size:87 final size:87
Alignment explanation
Indices: 59685055--59685247 Score: 325
Period size: 87 Copynumber: 2.2 Consensus size: 87
59685045 GGTTGTAACC
59685055 ATCCCTTTTCATATTCGATGGTCGTCACCATCCCTTTTCATAGTTGATGGTCGTCACCATCCCTT
1 ATCCCTTTTCATATTCGATGGTCGTCACCATCCCTTTTCATAGTTGATGGTCGTCACCATCCCTT
**
59685120 TTCATAATTGATAGCTGAAGCT
66 TTCATAATTGATAGCCAAAGCT
* * *
59685142 ATCCCTTTTCAAAGTCGATGGTCGTCACCTTCCCTTTTCATAGTTGATGGTCGTCACCATCCCTT
1 ATCCCTTTTCATATTCGATGGTCGTCACCATCCCTTTTCATAGTTGATGGTCGTCACCATCCCTT
59685207 TTCAT-ATTCGATAGCCAAAGCT
66 TTCATAATT-GATAGCCAAAGCT
59685229 ATCCCTTTTCATATTCGAT
1 ATCCCTTTTCATATTCGAT
59685248 AGCCAAAGCT
Statistics
Matches: 98, Mismatches: 7, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
86 3 0.03
87 95 0.97
ACGTcount: A:0.21, C:0.27, G:0.14, T:0.38
Consensus pattern (87 bp):
ATCCCTTTTCATATTCGATGGTCGTCACCATCCCTTTTCATAGTTGATGGTCGTCACCATCCCTT
TTCATAATTGATAGCCAAAGCT
Found at i:59685263 original size:87 final size:88
Alignment explanation
Indices: 59685084--59685270 Score: 263
Period size: 87 Copynumber: 2.1 Consensus size: 88
59685074 GGTCGTCACC
**
59685084 ATCCCTTTTCATAGTTGATGGTCGTCACCATCCCTTTTCATAATTGATAGCTGAAGCTATCCCTT
1 ATCCCTTTTCATAGTTGATGGTCGTCACCATCCCTTTTCATAATTGATAGCCAAAGCTATCCCTT
* ***
59685149 TTCAAAGTCGATGGTCGTCACCT
66 TTCAAAGTCGATAGTCCAAACCT
59685172 -TCCCTTTTCATAGTTGATGGTCGTCACCATCCCTTTTCAT-ATTCGATAGCCAAAGCTATCCCT
1 ATCCCTTTTCATAGTTGATGGTCGTCACCATCCCTTTTCATAATT-GATAGCCAAAGCTATCCCT
* * *
59685235 TTTCATATTCGATAG-CCAAAGCT
65 TTTCAAAGTCGATAGTCCAAACCT
59685258 ATCCCTTTTCATA
1 ATCCCTTTTCATA
59685271 TTCGGTAGCT
Statistics
Matches: 88, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
86 7 0.08
87 81 0.92
ACGTcount: A:0.22, C:0.27, G:0.13, T:0.37
Consensus pattern (88 bp):
ATCCCTTTTCATAGTTGATGGTCGTCACCATCCCTTTTCATAATTGATAGCCAAAGCTATCCCTT
TTCAAAGTCGATAGTCCAAACCT
Found at i:59688731 original size:25 final size:26
Alignment explanation
Indices: 59688676--59688741 Score: 89
Period size: 25 Copynumber: 2.5 Consensus size: 26
59688666 CAAGCACTTA
* *
59688676 AACGGGAAGCTCTATTTCGATCCATAT
1 AACGGGAAGCTC-ATGTCGAGCCATAT
*
59688703 AACGGGAAGCTCATGT-GAGCCATGT
1 AACGGGAAGCTCATGTCGAGCCATAT
59688728 AACGGGAAGCTCAT
1 AACGGGAAGCTCAT
59688742 AAGAGCTGTA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
25 21 0.58
26 3 0.08
27 12 0.33
ACGTcount: A:0.30, C:0.21, G:0.26, T:0.23
Consensus pattern (26 bp):
AACGGGAAGCTCATGTCGAGCCATAT
Found at i:59688747 original size:25 final size:25
Alignment explanation
Indices: 59688697--59688747 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
59688687 CTATTTCGAT
**
59688697 CCATATAACGGGAAGCTCATGTGAG
1 CCATATAACGGGAAGCTCATAAGAG
*
59688722 CCATGTAACGGGAAGCTCATAAGAG
1 CCATATAACGGGAAGCTCATAAGAG
59688747 C
1 C
59688748 TGTAATCAAG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.33, C:0.22, G:0.27, T:0.18
Consensus pattern (25 bp):
CCATATAACGGGAAGCTCATAAGAG
Found at i:59696624 original size:79 final size:80
Alignment explanation
Indices: 59696480--59696698 Score: 252
Period size: 79 Copynumber: 2.7 Consensus size: 80
59696470 AAATCACATA
* * * * *
59696480 CCTTCGGAATTTAA-CCGGATATAGCTACTCGCTCAAATGCCTTCGGGACATAGCCCGG-TTATA
1 CCTTCGGGACTTAACCCGGATATAG-TACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATATA
59696543 GTAACTCGCACAAATG
65 GTAACTCGCACAAATG
* *
59696559 CCTTCGGGACTTAACCCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGCCCGGAAT-TA
1 CCTTCGGGACTTAACCCGGATATAGT-ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATATA
59696622 GTAACTCGCACAAATG
65 GTAACTCGCACAAATG
* * *
59696638 CCTTC-GGATCTTAGTCCC-GATATAGTCACTTAGCACAAAAGCCTTCGGGACTTAGCCCGGA
1 CCTTCGGGA-CTTA-ACCCGGATATAGT-AC-TCGCACAAATGCCTTCGGGACTTAGCCCGGA
59696699 TATCATTCGA
Statistics
Matches: 120, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
78 3 0.03
79 58 0.48
80 48 0.40
81 11 0.09
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (80 bp):
CCTTCGGGACTTAACCCGGATATAGTACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATATAG
TAACTCGCACAAATG
Found at i:59696627 original size:39 final size:41
Alignment explanation
Indices: 59696494--59696698 Score: 230
Period size: 40 Copynumber: 5.1 Consensus size: 41
59696484 CGGAATTTAA
* *
59696494 CCGG-ATATAGCT-ACTCGCTCAAATGCCTTCGGGACATAGC
1 CCGGAATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
59696534 CCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
59696574 CCGG-ATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
59696613 CCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAGTC
1 CCGGAATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAG-C
* * *
59696654 CC-G-ATATAGTCACTTAGCACAAAAGCCTTCGGGACTTAGC
1 CCGGAATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
59696694 CCGGA
1 CCGGA
59696699 TATCATTCGA
Statistics
Matches: 143, Mismatches: 12, Indels: 18
0.83 0.07 0.10
Matches are distributed among these distances:
38 2 0.01
39 34 0.24
40 81 0.57
41 23 0.16
42 3 0.02
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (41 bp):
CCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:59700397 original size:15 final size:15
Alignment explanation
Indices: 59700349--59700397 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
59700339 GTACTGTAAT
*
59700349 TTGGATTTCCTTATC
1 TTGGATTTCTTTATC
* *
59700364 ATGGATTTATTTATC
1 TTGGATTTCTTTATC
*
59700379 TTGGATTTCTTTATT
1 TTGGATTTCTTTATC
59700394 TTGG
1 TTGG
59700398 GCTTCTCCGT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
15 28 1.00
ACGTcount: A:0.16, C:0.10, G:0.16, T:0.57
Consensus pattern (15 bp):
TTGGATTTCTTTATC
Found at i:59702555 original size:21 final size:21
Alignment explanation
Indices: 59702529--59702571 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
59702519 TAACCATGCC
59702529 ATTTATTTTCTTTAAAATTAG
1 ATTTATTTTCTTTAAAATTAG
59702550 ATTTATTTTCTTTAAAATTAG
1 ATTTATTTTCTTTAAAATTAG
59702571 A
1 A
59702572 CTCAATAAGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.35, C:0.05, G:0.05, T:0.56
Consensus pattern (21 bp):
ATTTATTTTCTTTAAAATTAG
Found at i:59703276 original size:16 final size:16
Alignment explanation
Indices: 59703257--59703287 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
59703247 CTTCTTCACT
59703257 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
59703273 TACTTACTTACTTAA
1 TACTCACTTACTTAA
59703288 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:59703293 original size:20 final size:20
Alignment explanation
Indices: 59703254--59703293 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
59703244 AAACTTCTTC
* *
59703254 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
59703274 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
59703294 TTATTAATAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:59703402 original size:23 final size:24
Alignment explanation
Indices: 59703364--59703408 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
59703354 TTTGCTCTTC
*
59703364 TAGCATGAACTTGTCTTACCTTTT
1 TAGCATGAACTCGTCTTACCTTTT
59703388 TAGCAT-AACTCGTCTTACCTT
1 TAGCATGAACTCGTCTTACCTT
59703409 ACCTTACCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.22, C:0.24, G:0.11, T:0.42
Consensus pattern (24 bp):
TAGCATGAACTCGTCTTACCTTTT
Found at i:59703731 original size:55 final size:53
Alignment explanation
Indices: 59703493--59703731 Score: 231
Period size: 55 Copynumber: 4.5 Consensus size: 53
59703483 ATGGTCATAA
* *
59703493 CTTGTCATGGTCTTACATGGTATCCTT---TT-GAAACTTACC-ATTGTCATGT
1 CTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAACTTACCAATT-TCATGC
* * *
59703542 CTTGACATGGTCTTACATGGTGTCCTTGCCTTATG-AACTCACCAATGTCATGC
1 CTTGACATGGTCTTACATGGTATCCTTGCCTTA-GAAACTTACCAATTTCATGC
* * * * ** *
59703595 CTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAACTTATCAATGCCATGT
1 CTTGACATGGTCTTACATGGTATCC-TTGCC-T-TAGAAACTTACCAATTTCATGC
* *
59703650 CTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAACCTTACCAATTTCCATGC
1 CTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAA-CTTACCAATTT-CATGC
*
59703705 CTTGGCATGGTCTTACATGGTATCCTT
1 CTTGACATGGTCTTACATGGTATCCTT
59703732 AAACCCTAGT
Statistics
Matches: 153, Mismatches: 24, Indels: 20
0.78 0.12 0.10
Matches are distributed among these distances:
49 25 0.16
52 4 0.03
53 41 0.27
54 14 0.09
55 67 0.44
56 2 0.01
ACGTcount: A:0.21, C:0.24, G:0.18, T:0.38
Consensus pattern (53 bp):
CTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAACTTACCAATTTCATGC
Found at i:59707037 original size:26 final size:26
Alignment explanation
Indices: 59707008--59707059 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
59706998 TCTCACTATT
*
59707008 TTTGGGTAGAATAACAATATCTCAAA
1 TTTGGATAGAATAACAATATCTCAAA
*
59707034 TTTGTATAGAATAACAATATCTCAAA
1 TTTGGATAGAATAACAATATCTCAAA
59707060 GTTGTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.44, C:0.12, G:0.12, T:0.33
Consensus pattern (26 bp):
TTTGGATAGAATAACAATATCTCAAA
Found at i:59707064 original size:26 final size:26
Alignment explanation
Indices: 59707014--59707064 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
59707004 TATTTTTGGG
*
59707014 TAGAATAACAATATCTCAAATTTGTA
1 TAGAATAACAATATCTCAAAGTTGTA
59707040 TAGAATAACAATATCTCAAAGTTGT
1 TAGAATAACAATATCTCAAAGTTGT
59707065 GTAAAACTTC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.45, C:0.12, G:0.10, T:0.33
Consensus pattern (26 bp):
TAGAATAACAATATCTCAAAGTTGTA
Found at i:59710774 original size:47 final size:47
Alignment explanation
Indices: 59710715--59711155 Score: 684
Period size: 47 Copynumber: 9.4 Consensus size: 47
59710705 GATGTACAAG
* * *
59710715 GTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
*
59710762 GTGTATATATGTGATATGGCCGAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* * *
59710809 GTGTGTATATGTGATAAGGCCAAATGGCCGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
*
59710856 GTGTATATAAGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* *
59710903 GTGTATATATGTGATAAGGCCGAGTGGCCAACGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
*
59710950 GTGTATATATGTGATAAGGCCGAGTGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* * *
59710997 GTGTATATATGAGATAAGACCTAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* * * * * *
59711044 GTGTATATATGAGATAAGACCTAATGGCCGATGTGATGGATGTGAAG
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
*
59711091 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
*
59711138 GTGTATAAATGTGATAAG
1 GTGTATATATGTGATAAG
59711156 TCCCGAAGGG
Statistics
Matches: 365, Mismatches: 29, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 365 1.00
ACGTcount: A:0.33, C:0.08, G:0.31, T:0.28
Consensus pattern (47 bp):
GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
Found at i:59712831 original size:20 final size:20
Alignment explanation
Indices: 59712792--59712831 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
59712782 CTTCGTCATG
* *
59712792 GAGGTCTCTATTTTTTCCAT
1 GAGGTCTCTATGTTTGCCAT
*
59712812 GAGGTGTCTATGTTTGCCAT
1 GAGGTCTCTATGTTTGCCAT
59712832 TAGATCATGT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.15, C:0.17, G:0.23, T:0.45
Consensus pattern (20 bp):
GAGGTCTCTATGTTTGCCAT
Found at i:59712952 original size:35 final size:35
Alignment explanation
Indices: 59712906--59712973 Score: 109
Period size: 35 Copynumber: 1.9 Consensus size: 35
59712896 TGTTGCCCCG
* *
59712906 AAGGATATGTATACCATTTACATGATGTCGCCCTA
1 AAGGACATGTATACCATTTACACGATGTCGCCCTA
*
59712941 AAGGACATGTATACCATTTACACGGTGTCGCCC
1 AAGGACATGTATACCATTTACACGATGTCGCCC
59712974 CAAATGACCA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (35 bp):
AAGGACATGTATACCATTTACACGATGTCGCCCTA
Found at i:59717875 original size:27 final size:28
Alignment explanation
Indices: 59717809--59717875 Score: 66
Period size: 29 Copynumber: 2.4 Consensus size: 28
59717799 CATACTTGAT
*
59717809 CCTCCAAGAATTAGAGTACTATTCTCAAC
1 CCTCCAAGAATTAGAGAACTA-TCTCAAC
** *
59717838 CCTCCGGGAATTAGAGAACTCA-C-CCAC
1 CCTCCAAGAATTAGAGAACT-ATCTCAAC
59717865 CCTCCAAGAAT
1 CCTCCAAGAAT
59717876 ATAGGAGTTA
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
27 12 0.39
28 1 0.03
29 17 0.55
30 1 0.03
ACGTcount: A:0.33, C:0.33, G:0.13, T:0.21
Consensus pattern (28 bp):
CCTCCAAGAATTAGAGAACTATCTCAAC
Found at i:59720680 original size:46 final size:47
Alignment explanation
Indices: 59720611--59720782 Score: 190
Period size: 46 Copynumber: 3.7 Consensus size: 47
59720601 TATGTGTGCT
* * *
59720611 AGTGTAAGACAAT-TCTGGAACATGCATTAGCCACAG-CATGAGAGCC
1 AGTGTAAGAC-ATGTCTGGGACATGCATCAGCCACAGAAATGAGAGCC
* * *
59720657 AGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATATTTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCAC-AGA-AATGAGAGCC
* * ** *
59720705 AGTGTAAGACATGTCTGGGGCATGCATC-GGCATTGAAATGAGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACAGAAATGAGAGCC
59720751 AGTGTAAGACATGTCTGGGACATGCATCAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCC
59720783 TCGCGATATA
Statistics
Matches: 104, Mismatches: 16, Indels: 11
0.79 0.12 0.08
Matches are distributed among these distances:
45 5 0.05
46 60 0.58
47 6 0.06
48 31 0.30
49 2 0.02
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.23
Consensus pattern (47 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCACAGAAATGAGAGCC
Found at i:59720713 original size:48 final size:48
Alignment explanation
Indices: 59720653--59720822 Score: 202
Period size: 48 Copynumber: 3.6 Consensus size: 48
59720643 ACAGCATGAG
*
59720653 AGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATATTTA
1 AGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATATTCA
* * * * *
59720701 AGCCAGTGTAAGACATGTCTGGGGCATGCATCGGCATTGA-A-A-TGA
1 AGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATATTCA
* * *
59720746 GAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGCGATATACA
1 -AGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATATTCA
* * *
59720795 AGCTAGTGTAAGACCTGTCTAGGACATG
1 AGCCAGTGTAAGACATGTCTGGGACATG
59720823 GCGTCAGCTT
Statistics
Matches: 103, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
45 2 0.02
46 35 0.34
47 2 0.02
48 63 0.61
49 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.24
Consensus pattern (48 bp):
AGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATATTCA
Found at i:59723130 original size:40 final size:40
Alignment explanation
Indices: 59723086--59723165 Score: 151
Period size: 40 Copynumber: 2.0 Consensus size: 40
59723076 TGAGAGAAGG
*
59723086 AAGAAAAAATGTATTTGAATAAAGAGGTGATCACTTGAGT
1 AAGAAAAAATGTATTTGAACAAAGAGGTGATCACTTGAGT
59723126 AAGAAAAAATGTATTTGAACAAAGAGGTGATCACTTGAGT
1 AAGAAAAAATGTATTTGAACAAAGAGGTGATCACTTGAGT
59723166 CAGGGAGAAG
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.45, C:0.06, G:0.23, T:0.26
Consensus pattern (40 bp):
AAGAAAAAATGTATTTGAACAAAGAGGTGATCACTTGAGT
Found at i:59735378 original size:19 final size:19
Alignment explanation
Indices: 59735354--59735399 Score: 92
Period size: 19 Copynumber: 2.4 Consensus size: 19
59735344 TTTTGGTACT
59735354 AGCTTACTAAGCTTTTGAA
1 AGCTTACTAAGCTTTTGAA
59735373 AGCTTACTAAGCTTTTGAA
1 AGCTTACTAAGCTTTTGAA
59735392 AGCTTACT
1 AGCTTACT
59735400 CTATGTATGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.37
Consensus pattern (19 bp):
AGCTTACTAAGCTTTTGAA
Found at i:59741285 original size:28 final size:27
Alignment explanation
Indices: 59741222--59741291 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
59741212 ATAGTGAGTC
59741222 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
59741249 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
59741277 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
59741292 GTACAAATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:59748431 original size:28 final size:27
Alignment explanation
Indices: 59748368--59748437 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
59748358 ATAGTGAGTC
59748368 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
59748395 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
59748423 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
59748438 GTACAAATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:59756854 original size:42 final size:43
Alignment explanation
Indices: 59756740--59756875 Score: 168
Period size: 42 Copynumber: 3.2 Consensus size: 43
59756730 GGAACGTTGA
* *
59756740 CATTGATCTGAGATATCGTGTAAGACCGTGTCTGGGACACAGG
1 CATTGATCTGAGATTTCGTGTAAGACCATGTCTGGGACACAGG
* * * * *
59756783 CCTCGATTTGAGATTTACGTGTAAGACCATGTTTGGGACATAGG
1 CATTGATCTGAGATTT-CGTGTAAGACCATGTCTGGGACACAGG
*
59756827 CATTGTATCT-A-ATTTCGTGTAAGACCATGTCTGGGACAGAGG
1 CATTG-ATCTGAGATTTCGTGTAAGACCATGTCTGGGACACAGG
59756869 CATTGAT
1 CATTGAT
59756876 ACAGAGTTAC
Statistics
Matches: 79, Mismatches: 12, Indels: 6
0.81 0.12 0.06
Matches are distributed among these distances:
41 2 0.03
42 30 0.38
43 16 0.20
44 28 0.35
45 3 0.04
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (43 bp):
CATTGATCTGAGATTTCGTGTAAGACCATGTCTGGGACACAGG
Found at i:59758106 original size:403 final size:403
Alignment explanation
Indices: 59757350--59758155 Score: 1382
Period size: 403 Copynumber: 2.0 Consensus size: 403
59757340 GGTACTTTTA
* * *
59757350 TGTAACAGCCCGATTTAGGGCCAAAATAGAACAGTGGTTTCGAAACCACGAATCTGAGGTTGAAA
1 TGTAACAGCCCGATTTAGGGCCAAAAGAGAACAATGGTTTCGAAACCACGAATCCGAGGTTGAAA
* * * * *
59757415 AAAAATTAAAAAATTAAAATTATTTTGATTCAGTTTTGGTGTTTATATTATGATTTCATAATCGT
66 AAAAAATAAAAAATTAAAAATATTTTGATTAAGTTTTAGTGTTTATATTATGATTGCATAATCGT
* *
59757480 GTGAAAATTTCATTGTGAAATTTGATCGATTGGGTGTTTAATTTGATGTTTAGGACTAAATTGAA
131 GTGAAAATTTCATTGCGAAATTTGATCGATTAGGTGTTTAATTTGATGTTTAGGACTAAATTGAA
59757545 ATAGGTGAAAAATGTGTGTGCTCTAGTTCATAAAATACTTGATTGAAATGGGGGTTTTAAGTAGA
196 ATAGGTGAAAAATGTGTGT-CTCTAGTTCATAAAATACTTGATTGAAATGGGGGTTTTAAGTAGA
* *
59757610 TGTCCTTAAATGGAAATTAGACCATTATACTTTATATGGACAAAAATTTGGACATGGATGGAATT
260 GGTCCTTAAATGGAAATTAGACCATTATACTTTATATGGACAAAAATTTGGACATGGATAGAATT
* *
59757675 TTTAGAAAGTTTAGTAGTAAGGGCATTTTGGTAATTTGCATAATAAATTAAATTAAATGAGAAAA
325 TTTAGAAAGTTTAGTAGTAAGGGCATTTTGGTAATTTGCATAATAAATGAAATAAAATGAGAAAA
59757740 ATAACACAAAAATT
390 ATAACACAAAAATT
59757754 TGTAACAGCCCGATTTAGGGCCAAAACGA-AACAATGGTTTCGAAACCACGAATCCGAGGTTGAA
1 TGTAACAGCCCGATTTAGGGCCAAAA-GAGAACAATGGTTTCGAAACCACGAATCCGAGGTTG-A
59757818 AAAAAAAATAAAAAATTAAAAATATTTTGATTAAGTTTTAGTGTTTATATTATGATTGCATAATC
64 AAAAAAAATAAAAAATTAAAAATATTTTGATTAAGTTTTAGTGTTTATATTATGATTGCATAATC
* *
59757883 GTGTGAAAATTTCGTTGCGAAATTTTATCGATTAGGTGTTTAATTTGATGTTTAGGACTAAATTG
129 GTGTGAAAATTTCATTGCGAAATTTGATCGATTAGGTGTTTAATTTGATGTTTAGGACTAAATTG
* *
59757948 AAATAGGTGAAAAATGTGTGT-TCTAGTTCATAAAGTACTTGATTGAAATGGGGGTTTTAAGTAT
194 AAATAGGTGAAAAATGTGTGTCTCTAGTTCATAAAATACTTGATTGAAATGGGGGTTTTAAGTAG
*
59758012 AGGTCCTTAAATGGAAATTAGACCATTATACTTTATATGGACAAAAATTTGGACTTGGATAGAAT
259 AGGTCCTTAAATGGAAATTAGACCATTATACTTTATATGGACAAAAATTTGGACATGGATAGAAT
* *
59758077 TTTTAGAAAGTTTAGTAGTAAGGGCATTTTGGTCATTTGCATAATAAATGAAATAAAATGGGAAA
324 TTTTAGAAAGTTTAGTAGTAAGGGCATTTTGGTAATTTGCATAATAAATGAAATAAAATGAGAAA
59758142 AATAACACAAAAAT
389 AATAACACAAAAAT
59758156 GTGTTCATCT
Statistics
Matches: 379, Mismatches: 21, Indels: 5
0.94 0.05 0.01
Matches are distributed among these distances:
403 178 0.47
404 57 0.15
405 144 0.38
ACGTcount: A:0.38, C:0.08, G:0.19, T:0.34
Consensus pattern (403 bp):
TGTAACAGCCCGATTTAGGGCCAAAAGAGAACAATGGTTTCGAAACCACGAATCCGAGGTTGAAA
AAAAAATAAAAAATTAAAAATATTTTGATTAAGTTTTAGTGTTTATATTATGATTGCATAATCGT
GTGAAAATTTCATTGCGAAATTTGATCGATTAGGTGTTTAATTTGATGTTTAGGACTAAATTGAA
ATAGGTGAAAAATGTGTGTCTCTAGTTCATAAAATACTTGATTGAAATGGGGGTTTTAAGTAGAG
GTCCTTAAATGGAAATTAGACCATTATACTTTATATGGACAAAAATTTGGACATGGATAGAATTT
TTAGAAAGTTTAGTAGTAAGGGCATTTTGGTAATTTGCATAATAAATGAAATAAAATGAGAAAAA
TAACACAAAAATT
Found at i:59761716 original size:13 final size:13
Alignment explanation
Indices: 59761700--59761724 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
59761690 GGATAATTTC
59761700 TTGAAAATTTTGT
1 TTGAAAATTTTGT
59761713 TTGAAAATTTTG
1 TTGAAAATTTTG
59761725 ACATTCGGGC
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:0.32, C:0.00, G:0.16, T:0.52
Consensus pattern (13 bp):
TTGAAAATTTTGT
Found at i:59762783 original size:27 final size:27
Alignment explanation
Indices: 59762743--59762796 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
59762733 TGTCATGTGA
* *
59762743 AATTGAATGGTAAATTATTGTTACATG
1 AATTGAATGGTAAATTACTATTACATG
*
59762770 AATTGAATGTTAAATTACTATTACATG
1 AATTGAATGGTAAATTACTATTACATG
59762797 GGTTGTATGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.39, C:0.06, G:0.15, T:0.41
Consensus pattern (27 bp):
AATTGAATGGTAAATTACTATTACATG
Found at i:59763122 original size:49 final size:50
Alignment explanation
Indices: 59763042--59763287 Score: 309
Period size: 49 Copynumber: 4.9 Consensus size: 50
59763032 ATCTATTGTG
* *
59763042 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * ** *
59763092 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCATACCCGATAACTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TT
* * * * **
59763142 CA-ATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAAATGGTT
1 -AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
*
59763192 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* *
59763242 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
59763288 GCCTTGTCTA
Statistics
Matches: 167, Mismatches: 25, Indels: 9
0.83 0.12 0.04
Matches are distributed among these distances:
49 85 0.51
50 47 0.28
51 35 0.21
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.28
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:59769766 original size:44 final size:43
Alignment explanation
Indices: 59769704--59769789 Score: 127
Period size: 44 Copynumber: 2.0 Consensus size: 43
59769694 GACATTAATC
* *
59769704 TGAGATGTCGTGTAAGACCGTGTCTGGGACACAGGCCTCGATT
1 TGAGATGTCGTGTAAGACCATGTCTGGGACACAGGCATCGATT
* *
59769747 TGAGATTTACGTGTAAGACCATGTTTGGGACACAGGCATCGAT
1 TGAGATGT-CGTGTAAGACCATGTCTGGGACACAGGCATCGAT
59769790 ACTGAGTTAC
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
43 7 0.18
44 31 0.82
ACGTcount: A:0.24, C:0.19, G:0.30, T:0.27
Consensus pattern (43 bp):
TGAGATGTCGTGTAAGACCATGTCTGGGACACAGGCATCGATT
Found at i:59788563 original size:29 final size:29
Alignment explanation
Indices: 59788531--59788603 Score: 92
Period size: 29 Copynumber: 2.5 Consensus size: 29
59788521 CTTCGAGCTC
* *
59788531 GCACACCCAGTGCCGTATTTTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
59788560 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
59788589 GCACACTTAGTGCCA
1 GCACACCCAGTGCCA
59788604 ATCTCGTCAC
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.25, C:0.32, G:0.16, T:0.27
Consensus pattern (29 bp):
GCACACCCAGTGCCATATATTTCCAGCAT
Found at i:59789814 original size:24 final size:24
Alignment explanation
Indices: 59789773--59789828 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
59789763 TTTTTTTCCT
59789773 TTTCTTTGTTTTTCTTCATATTCTC
1 TTTCTTTGTTTTTCTTCAT-TTCTC
* *
59789798 TTTCTTT-TTTTTTTTCATTTCTT
1 TTTCTTTGTTTTTCTTCATTTCTC
59789821 TATTCTTT
1 T-TTCTTT
59789829 CTACATAATC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
23 5 0.18
24 16 0.57
25 7 0.25
ACGTcount: A:0.07, C:0.16, G:0.02, T:0.75
Consensus pattern (24 bp):
TTTCTTTGTTTTTCTTCATTTCTC
Found at i:59796470 original size:29 final size:29
Alignment explanation
Indices: 59796438--59796510 Score: 92
Period size: 29 Copynumber: 2.5 Consensus size: 29
59796428 CTTCGAGCTC
* *
59796438 GCACACCCAGTGCCGTATTTTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
59796467 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
59796496 GCACACTTAGTGCCA
1 GCACACCCAGTGCCA
59796511 ATCTCGTCAC
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.25, C:0.32, G:0.16, T:0.27
Consensus pattern (29 bp):
GCACACCCAGTGCCATATATTTCCAGCAT
Found at i:59799319 original size:28 final size:29
Alignment explanation
Indices: 59799287--59799401 Score: 128
Period size: 29 Copynumber: 4.0 Consensus size: 29
59799277 TACCTGTATC
* *
59799287 TGGCCCATTAAGCCC-AATCATATTCATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
*
59799315 TGGCCCATTAGGCCCAAATCACCTGT-ATA
1 TGGCCCATTAGGCCCAAATCACAT-TCATA
*
59799344 TGGCCCATTAGGCCCAAATCACATTTATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
* * * *
59799373 TGACCCGTTAGGCCC-AGTCATATTCATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
59799401 T
1 T
59799402 TCATGCTCAC
Statistics
Matches: 75, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
28 26 0.35
29 48 0.64
30 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.28
Consensus pattern (29 bp):
TGGCCCATTAGGCCCAAATCACATTCATA
Found at i:59799339 original size:57 final size:58
Alignment explanation
Indices: 59799278--59799388 Score: 161
Period size: 58 Copynumber: 1.9 Consensus size: 58
59799268 AAATTCACAT
* * *
59799278 ACCTGTATCTGGCCCATTAAGCCC-AATCATATTCATATGGCCCATTAGGCCCAAATC
1 ACCTGTATATGGCCCATTAAGCCCAAATCACATTCATATGACCCATTAGGCCCAAATC
* * *
59799335 ACCTGTATATGGCCCATTAGGCCCAAATCACATTTATATGACCCGTTAGGCCCA
1 ACCTGTATATGGCCCATTAAGCCCAAATCACATTCATATGACCCATTAGGCCCA
59799389 GTCATATTCA
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
57 22 0.47
58 25 0.53
ACGTcount: A:0.28, C:0.31, G:0.15, T:0.26
Consensus pattern (58 bp):
ACCTGTATATGGCCCATTAAGCCCAAATCACATTCATATGACCCATTAGGCCCAAATC
Found at i:59799344 original size:29 final size:29
Alignment explanation
Indices: 59799281--59799388 Score: 130
Period size: 29 Copynumber: 3.8 Consensus size: 29
59799271 TTCACATACC
* * *
59799281 TGTATCTGGCCCATTAAGCCC-AATCATA
1 TGTATATGGCCCATTAGGCCCAAATCACA
*
59799309 T-TCATATGGCCCATTAGGCCCAAATCACC
1 TGT-ATATGGCCCATTAGGCCCAAATCACA
59799338 TGTATATGGCCCATTAGGCCCAAATCACA
1 TGTATATGGCCCATTAGGCCCAAATCACA
* * *
59799367 TTTATATGACCCGTTAGGCCCA
1 TGTATATGGCCCATTAGGCCCA
59799389 GTCATATTCA
Statistics
Matches: 69, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
27 1 0.01
28 17 0.25
29 50 0.72
30 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.16, T:0.27
Consensus pattern (29 bp):
TGTATATGGCCCATTAGGCCCAAATCACA
Found at i:59799653 original size:16 final size:16
Alignment explanation
Indices: 59799611--59799653 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
59799601 GTAGCCAAAC
*
59799611 TTTCGGCTTTTCGGCA
1 TTTCGGCTTTTCGACA
** *
59799627 TTTTAGATTTTCGACA
1 TTTCGGCTTTTCGACA
59799643 TTTCGGCTTTT
1 TTTCGGCTTTT
59799654 GCCGATTCAT
Statistics
Matches: 20, Mismatches: 7, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.12, C:0.19, G:0.19, T:0.51
Consensus pattern (16 bp):
TTTCGGCTTTTCGACA
Found at i:59803940 original size:478 final size:478
Alignment explanation
Indices: 59803044--59803993 Score: 1837
Period size: 478 Copynumber: 2.0 Consensus size: 478
59803034 GGTAAAAGTG
*
59803044 GTAACACAATGGCAAGGCCAATGAATATGAATTGTTGTGCCTAGACTTGGTATCACATGAGTATG
1 GTAACACAATGGCAAGGCCAATGAATATGAATTGTTGTGCCTAGACTTGGTATCACATAAGTATG
59803109 TGGTACATATGAATGATGACATGCTAAGAATGTGTCTTAAGAAAGGATGCTTAATCATTAAACTA
66 TGGTACATATGAATGATGACATGCTAAGAATGTGTCTTAAGAAAGGATGCTTAATCATTAAACTA
59803174 ATGTTATGATATGTGTCTTTGATGTATATAAATGTGTAAGGGATTAAGGATAACAAAAGGCTTGG
131 ATGTTATGATATGTGTCTTTGATGTATATAAATGTGTAAGGGATTAAGGATAACAAAAGGCTTGG
*
59803239 AAAATAGCATAAGTACTGGTCACACGGGCAGAGACACGGTCGTGTGTCTCAACCGTATGGAGGAC
196 AAAATAGCATAAGTACTGGTCACACAGGCAGAGACACGGTCGTGTGTCTCAACCGTATGGAGGAC
59803304 TCGACCTGGAGACATGGGCATGTGTCTAGGGCGTGTGAAGTCTGTAGCATTTTGTGAGAATTTAA
261 TCGACCTGGAGACATGGGCATGTGTCTAGGGCGTGTGAAGTCTGTAGCATTTTGTGAGAATTTAA
*
59803369 TTCGTCACACAGCCTAGCATACAGGCGTGTGGCTTGGCCGTGTGGTTCAATTTGTTTTGCTAACG
326 TTCGTCACACAGCCTAGCACACAGGCGTGTGGCTTGGCCGTGTGGTTCAATTTGTTTTGCTAACG
* *
59803434 TCATAAGCAGAGAGTTACATGACCTGAGGACATGGGCGTAGAGGGCACATGGGTGTGTCCCTGTG
391 TCATAAGCAAAGAGTTACACGACCTGAGGACATGGGCGTAGAGGGCACATGGGTGTGTCCCTGTG
59803499 TCCACACAGGCGTGTGAATTGTT
456 TCCACACAGGCGTGTGAATTGTT
59803522 GTAACACAATGGCAAGGCCAATGAATATGAATTGTTGTGCCTAGACTTGGTATCACATAAGTATG
1 GTAACACAATGGCAAGGCCAATGAATATGAATTGTTGTGCCTAGACTTGGTATCACATAAGTATG
59803587 TGGTACATATGAATGATGACATGCTAAGAATGTGTCTTAAGAAAGGATGCTTAATCATTAAACTA
66 TGGTACATATGAATGATGACATGCTAAGAATGTGTCTTAAGAAAGGATGCTTAATCATTAAACTA
59803652 ATGTTATGATATGTGTCTTTGATGTATATAAATGTGTAAGGGATTAAGGATAACAAAAGGCTTGG
131 ATGTTATGATATGTGTCTTTGATGTATATAAATGTGTAAGGGATTAAGGATAACAAAAGGCTTGG
* *
59803717 AAAATAGCATAAGTACTGGTCACACAGGCAGAGACACGGTCGTGTGTCTCAGCCGTGTGGAGGAC
196 AAAATAGCATAAGTACTGGTCACACAGGCAGAGACACGGTCGTGTGTCTCAACCGTATGGAGGAC
59803782 TCGACCTGGAGACATGGGCATGTGTCTAGGGCGTGTGAAGTCTGTAGCATTTTGTGAGAATTTAA
261 TCGACCTGGAGACATGGGCATGTGTCTAGGGCGTGTGAAGTCTGTAGCATTTTGTGAGAATTTAA
59803847 TTCGTCACACAGCCTAGCACACAGGCGTGTGGCTTGGCCGTGTGGTTCAATTTGTTTTGCTAACG
326 TTCGTCACACAGCCTAGCACACAGGCGTGTGGCTTGGCCGTGTGGTTCAATTTGTTTTGCTAACG
59803912 TCATAAGCAAAGAGTTACACGACCTGAGGACATGGGCGTAGAGGGCACATGGGTGTGTCCCTGTG
391 TCATAAGCAAAGAGTTACACGACCTGAGGACATGGGCGTAGAGGGCACATGGGTGTGTCCCTGTG
59803977 TCCACACAGGCGTGTGA
456 TCCACACAGGCGTGTGA
59803994 CCCTGTTTCA
Statistics
Matches: 465, Mismatches: 7, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
478 465 1.00
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.28
Consensus pattern (478 bp):
GTAACACAATGGCAAGGCCAATGAATATGAATTGTTGTGCCTAGACTTGGTATCACATAAGTATG
TGGTACATATGAATGATGACATGCTAAGAATGTGTCTTAAGAAAGGATGCTTAATCATTAAACTA
ATGTTATGATATGTGTCTTTGATGTATATAAATGTGTAAGGGATTAAGGATAACAAAAGGCTTGG
AAAATAGCATAAGTACTGGTCACACAGGCAGAGACACGGTCGTGTGTCTCAACCGTATGGAGGAC
TCGACCTGGAGACATGGGCATGTGTCTAGGGCGTGTGAAGTCTGTAGCATTTTGTGAGAATTTAA
TTCGTCACACAGCCTAGCACACAGGCGTGTGGCTTGGCCGTGTGGTTCAATTTGTTTTGCTAACG
TCATAAGCAAAGAGTTACACGACCTGAGGACATGGGCGTAGAGGGCACATGGGTGTGTCCCTGTG
TCCACACAGGCGTGTGAATTGTT
Found at i:59806625 original size:39 final size:39
Alignment explanation
Indices: 59806541--59806693 Score: 216
Period size: 39 Copynumber: 3.9 Consensus size: 39
59806531 TATGGTAACC
** * *
59806541 CGCACAAAGGCCTTCGGGACTTAACCCGGATATCACAATT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
59806581 TGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
* *
59806620 CGCACAATTGCCTTCGGGCTTAGCCCGGGTATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
59806659 TGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
59806694 TCGAACATTC
Statistics
Matches: 101, Mismatches: 12, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
39 86 0.85
40 15 0.15
ACGTcount: A:0.24, C:0.30, G:0.22, T:0.25
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:59806667 original size:78 final size:79
Alignment explanation
Indices: 59806510--59806692 Score: 269
Period size: 78 Copynumber: 2.3 Consensus size: 79
59806500 TCGTTCAAAC
* * **
59806510 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATC
1 GCCTTCGGG-CTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATC
59806575 ACAATTTGCACAATT
65 ACAATTTGCACAATT
* ** * *
59806590 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTGCCTTCGGG-CTTAGCCCGGGTATCA
1 GCCTTCGGGCTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCA
59806654 CAATTTGCACAATT
66 CAATTTGCACAATT
59806668 GCCTTCGGGCTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCA
59806693 CTCGAACATT
Statistics
Matches: 94, Mismatches: 9, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
78 53 0.56
79 32 0.34
80 9 0.10
ACGTcount: A:0.23, C:0.30, G:0.23, T:0.25
Consensus pattern (79 bp):
GCCTTCGGGCTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCA
CAATTTGCACAATT
Found at i:59810609 original size:24 final size:23
Alignment explanation
Indices: 59810577--59810685 Score: 137
Period size: 24 Copynumber: 4.6 Consensus size: 23
59810567 ACCAAACGTT
* **
59810577 GCACACATAGTGCTTATTATGTTC
1 GCACACATAGTGCTTAGTA-AATC
*
59810601 GCACACATAGTGCCATAGTAAATC
1 GCACACATAGTG-CTTAGTAAATC
59810625 GCACACATAGTGCTATAGTAAATC
1 GCACACATAGTGCT-TAGTAAATC
*
59810649 GCACACATAGTGCCATAGTAAATC
1 GCACACATAGTG-CTTAGTAAATC
59810673 GCACACATAGTGC
1 GCACACATAGTGC
59810686 ATTTGAGATT
Statistics
Matches: 76, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
23 2 0.03
24 68 0.89
25 6 0.08
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.25
Consensus pattern (23 bp):
GCACACATAGTGCTTAGTAAATC
Done.