Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A05
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: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 62 of 318
Found at i:22048068 original size:71 final size:71
Alignment explanation
Indices: 22047764--22048104 Score: 352
Period size: 71 Copynumber: 4.8 Consensus size: 71
22047754 GCATGTAGCC
*
22047764 GAGGCTCAACTCACCTCTCGCAATATGAG-T-AATTTTGACAAACAGAAA-TGAAATACCTCAGC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGACAAACAGAAATTAAAATACCTCAGC
* *
22047826 GTGTCC
66 GTCTCT
* *
22047832 GAGGCTCAACTCACCTCTCGCAATATGAGTCG-ATTTTGAAAAACAGAAATTAAAAATACCTCAG
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGACAAACAGAAATT-AAAATACCTCAG
* *
22047896 CGTGTGAGCC
65 CGTCT---CT
* * * ** * *
22047906 AAGGCTCAACTCACCTCTTGCAATATGAGCT-AATTTTGATGAACATAAATTAAAACCACCTCAG
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGACAAACAGAAATTAAAA-TACCTCAG
*
22047970 CGTGTCCT
65 CGTCT-CT
* * * *
22047978 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAAAAATTGAAATTACCTCAT
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGACAAACAGAAATT-AAAATACCTCAG
22048043 CGTCT-T
65 CGTCTCT
* * *** *
22048049 GAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTGAAACATAAATTAAAA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGACAAACAGAAATTAAAA
22048105 AAACAAAAAT
Statistics
Matches: 232, Mismatches: 30, Indels: 20
0.82 0.11 0.07
Matches are distributed among these distances:
68 29 0.12
69 16 0.07
70 4 0.02
71 64 0.28
72 29 0.12
73 30 0.13
74 60 0.26
ACGTcount: A:0.34, C:0.23, G:0.16, T:0.28
Consensus pattern (71 bp):
GAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGACAAACAGAAATTAAAATACCTCAGC
GTCTCT
Found at i:22048085 original size:143 final size:140
Alignment explanation
Indices: 22047764--22048104 Score: 425
Period size: 143 Copynumber: 2.4 Consensus size: 140
22047754 GCATGTAGCC
** * * *
22047764 GAGGCTCAACTCACCTCTCGCAATATGAGTAATTTTGACAAACAGAAA-TGAAATACCTCAGCGT
1 GAGGCTCAACTCACCTCTCGCAATATGAGTAATTTTGATGAACATAAATTAAAACACCTCAGCGT
*
22047828 GTCCGAGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTGAAAAACAGAAATTAAAAATACCT
66 GTCCGAGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTGAAAAACAAAAATTAAAAATACCT
*
22047893 CAGCGTGTGA
131 CAGCGTCTGA
*
22047903 GCCAAGGCTCAACTCACCTCTTGCAATATGAGCTAATTTTGATGAACATAAATTAAAACCACCTC
1 G---AGGCTCAACTCACCTCTCGCAATATGAG-TAATTTTGATGAACATAAATTAAAA-CACCTC
* * *
22047968 AGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAAAAATTGAA
61 AGCGTGTCC-GAGGCTCAACTCACCTCTCGCAATATGAGTCGA-TTTTGAAAAACAAAAATTAAA
* * *
22048033 ATTACCTCATCGTCT-T
124 AATACCTCAGCGTCTGA
* * **
22048049 GAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTGAAACATAAATTAAAA
1 GAGGCTCAACTCACCTCTCGCAATATGAG-TAATTTTGATG-AACATAAATTAAAA
22048105 AAACAAAAAT
Statistics
Matches: 173, Mismatches: 20, Indels: 13
0.84 0.10 0.06
Matches are distributed among these distances:
139 1 0.01
142 27 0.16
143 50 0.29
144 18 0.10
145 14 0.08
146 33 0.19
147 30 0.17
ACGTcount: A:0.34, C:0.23, G:0.16, T:0.28
Consensus pattern (140 bp):
GAGGCTCAACTCACCTCTCGCAATATGAGTAATTTTGATGAACATAAATTAAAACACCTCAGCGT
GTCCGAGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTGAAAAACAAAAATTAAAAATACCT
CAGCGTCTGA
Found at i:22048214 original size:72 final size:73
Alignment explanation
Indices: 22048096--22048237 Score: 223
Period size: 72 Copynumber: 2.0 Consensus size: 73
22048086 TTTGAAACAT
* * *
22048096 AAATTAAAAAAACAAAAATTGAAAATACCTTAGCGTGTCCTGAGGCTCAACTCACCTCTCCCAAT
1 AAATTAAAAAAACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCCCAAT
22048161 ATGAGTTG
66 ATGAGTTG
* **
22048169 AAATT-AAAACACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTTGCAAT
1 AAATTAAAAAAACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCCCAAT
22048233 ATGAG
66 ATGAG
22048238 CTGATTTGAA
Statistics
Matches: 63, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
72 58 0.92
73 5 0.08
ACGTcount: A:0.39, C:0.24, G:0.14, T:0.23
Consensus pattern (73 bp):
AAATTAAAAAAACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCCCAAT
ATGAGTTG
Found at i:22048761 original size:73 final size:74
Alignment explanation
Indices: 22048385--22048793 Score: 507
Period size: 75 Copynumber: 5.5 Consensus size: 74
22048375 AGTGTGTAAT
*
22048385 CTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTCTAAAAACAGAAATTGAAA-TA
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTT-T-AAAACAGAAATTGAAATTA
*
22048449 CCTCAGCATGTGAAC
63 CCTCAGC--GTG-TC
*
22048464 C-GAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTTTTGAAAACAGAAATTGAAA-TA
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTTTT-AAAACAGAAATTGAAATTA
*
22048527 -CTCAACGTGTC
63 CCTCAGCGTGTC
* * ** * * *
22048538 TTGAGGTTCAACTCATTTCTCGC-ATATAAGTTGA---ATTTGAAAACAG-AATTGAAATTACCT
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTAAAACAGAAATTGAAATTACCT
22048598 CAGCGTGTC
66 CAGCGTGTC
**
22048607 CTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTAACAACAGAAATTGAAATTACC
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTAA-AACAGAAATTGAAATTACC
22048672 TCAGCGTGTC
65 TCAGCGTGTC
*
22048682 CTGAGGCTCAACTCA-TTCTCGCAATATGAGTTGA-TTTTTTTAACAACAGAAATTGAAATTACC
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTAA-AACAGAAATTGAAATTACC
22048745 TCAGCGTGTC
65 TCAGCGTGTC
*
22048755 CTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTT
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
22048794 GAAAAATAAA
Statistics
Matches: 299, Mismatches: 19, Indels: 28
0.86 0.05 0.08
Matches are distributed among these distances:
67 8 0.03
68 9 0.03
69 34 0.11
70 10 0.03
73 59 0.20
74 53 0.18
75 62 0.21
77 5 0.02
78 50 0.17
79 9 0.03
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.33
Consensus pattern (74 bp):
CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTAAAACAGAAATTGAAATTACCT
CAGCGTGTC
Found at i:22048780 original size:148 final size:146
Alignment explanation
Indices: 22048385--22048793 Score: 519
Period size: 144 Copynumber: 2.8 Consensus size: 146
22048375 AGTGTGTAAT
* *
22048385 CTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTCTAAAAACAGAAATTGAAA-TA
1 CTGAGGCTCAACTCACTTCTCGCAATATGAGTTGA--TTTTTT-T-AAAACAGAAATTGAAATTA
* *
22048449 CCTCAGCATGTGAACC-GAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTTTTGAAAA
62 CCTCAGC--GTG-TCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTTTTGAAAA
22048513 CAGAAATTGAAATACTCAACGTGTC
122 CAGAAATTGAAATACTCAACGTGTC
* * * * * *
22048538 TTGAGGTTCAACTCATTTCTCGC-ATATAAGTTGA--ATTTGAAAACAG-AATTGAAATTACCTC
1 CTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAACAGAAATTGAAATTACCTC
**
22048599 AGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTT-AACAACAGAAATT
66 AGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAA-AACAGAAATT
*
22048663 GAAATTACCTCAGCGTGTC
130 GAAA-TA-CTCAACGTGTC
22048682 CTGAGGCTCAACTCA-TTCTCGCAATATGAGTTGATTTTTTTAACAACAGAAATTGAAATTACCT
1 CTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTAA-AACAGAAATTGAAATTACCT
*
22048746 CAGCGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTT
65 CAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
22048794 GAAAAATAAA
Statistics
Matches: 225, Mismatches: 21, Indels: 25
0.83 0.08 0.09
Matches are distributed among these distances:
141 2 0.01
142 22 0.10
143 11 0.05
144 66 0.29
145 8 0.04
146 21 0.09
147 5 0.02
148 62 0.28
152 10 0.04
153 18 0.08
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.33
Consensus pattern (146 bp):
CTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAACAGAAATTGAAATTACCTC
AGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAACAGAAATTG
AAATACTCAACGTGTC
Found at i:22060550 original size:16 final size:16
Alignment explanation
Indices: 22060529--22060560 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
22060519 GCTTCGTTTC
22060529 TTCTTTTCTTTCTTTT
1 TTCTTTTCTTTCTTTT
*
22060545 TTCTTTTTTTTCTTTT
1 TTCTTTTCTTTCTTTT
22060561 ATATTTATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (16 bp):
TTCTTTTCTTTCTTTT
Found at i:22060613 original size:13 final size:13
Alignment explanation
Indices: 22060587--22060627 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
22060577 TATTTATTAC
22060587 ATATA-TTTATAAT
1 ATATATTTTA-AAT
22060600 ATATATTTTAAAT
1 ATATATTTTAAAT
*
22060613 ATCTATTTTAAAT
1 ATATATTTTAAAT
22060626 AT
1 AT
22060628 TTACAATTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
13 22 0.85
14 4 0.15
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (13 bp):
ATATATTTTAAAT
Found at i:22060661 original size:21 final size:21
Alignment explanation
Indices: 22060619--22060675 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 21
22060609 AAATATCTAT
*
22060619 TTTAA-ATATTTACAATTTTACA
1 TTTAACATATTT--AATTCTACA
22060641 TTTAACATATTTAATTCTACA
1 TTTAACATATTTAATTCTACA
*
22060662 TTTGTACATATTTA
1 TTT-AACATATTTA
22060676 TTACATTTGT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
21 11 0.35
22 14 0.45
23 6 0.19
ACGTcount: A:0.37, C:0.11, G:0.02, T:0.51
Consensus pattern (21 bp):
TTTAACATATTTAATTCTACA
Found at i:22060682 original size:19 final size:20
Alignment explanation
Indices: 22060635--22060694 Score: 63
Period size: 19 Copynumber: 3.0 Consensus size: 20
22060625 TATTTACAAT
*
22060635 TTTACATTT-AACATATTTAA
1 TTTACATTTGTACATATTT-A
22060655 TTCTACATTTGTACATATTTA
1 TT-TACATTTGTACATATTTA
22060676 -TTACATTTGT-CATTATTTA
1 TTTACATTTGTACA-TATTTA
22060695 ATTTGTTTTC
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
18 2 0.06
19 15 0.42
20 3 0.08
21 8 0.22
22 8 0.22
ACGTcount: A:0.32, C:0.12, G:0.03, T:0.53
Consensus pattern (20 bp):
TTTACATTTGTACATATTTA
Found at i:22060936 original size:21 final size:21
Alignment explanation
Indices: 22060872--22060940 Score: 63
Period size: 21 Copynumber: 3.4 Consensus size: 21
22060862 AATGCTAATA
* *
22060872 ATAACAATCTAATATAAAACC
1 ATAATAATTTAATATAAAACC
* **
22060893 ATAAT--GTTAAT-TAATAATT
1 ATAATAATTTAATATAA-AACC
22060912 ATAATAATTTAATATAAAACC
1 ATAATAATTTAATATAAAACC
22060933 ATAATAAT
1 ATAATAAT
22060941 AATCATATAA
Statistics
Matches: 36, Mismatches: 8, Indels: 8
0.69 0.15 0.15
Matches are distributed among these distances:
18 3 0.08
19 11 0.31
21 19 0.53
22 3 0.08
ACGTcount: A:0.55, C:0.09, G:0.01, T:0.35
Consensus pattern (21 bp):
ATAATAATTTAATATAAAACC
Found at i:22061420 original size:21 final size:21
Alignment explanation
Indices: 22061365--22061420 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
22061355 AAGTTGGTGT
*
22061365 CCCAACTCAGCAACAAGCTAC
1 CCCAACTCAGCAAGAAGCTAC
*
22061386 CCCAAATCAGCAAGAGAG-TAC
1 CCCAACTCAGCAAGA-AGCTAC
*
22061407 CCCAACTCAACAAG
1 CCCAACTCAGCAAG
22061421 CTGCCCCAAC
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
21 28 0.93
22 2 0.07
ACGTcount: A:0.41, C:0.38, G:0.12, T:0.09
Consensus pattern (21 bp):
CCCAACTCAGCAAGAAGCTAC
Found at i:22061448 original size:21 final size:21
Alignment explanation
Indices: 22061422--22061494 Score: 94
Period size: 21 Copynumber: 3.5 Consensus size: 21
22061412 CTCAACAAGC
22061422 TGCCCCAACTCAGTTACCTAG
1 TGCCCCAACTCAGTTACCTAG
* * *
22061443 TGCCCCAACTCA-TCAACAAG
1 TGCCCCAACTCAGTTACCTAG
*
22061463 CTGCCCCAACTCAGTTACCTAA
1 -TGCCCCAACTCAGTTACCTAG
22061485 TGCCCCAACT
1 TGCCCCAACT
22061495 TATCAATAAG
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
20 5 0.12
21 34 0.79
22 4 0.09
ACGTcount: A:0.27, C:0.41, G:0.11, T:0.21
Consensus pattern (21 bp):
TGCCCCAACTCAGTTACCTAG
Found at i:22061468 original size:42 final size:42
Alignment explanation
Indices: 22061413--22061510 Score: 169
Period size: 42 Copynumber: 2.3 Consensus size: 42
22061403 GTACCCCAAC
*
22061413 TCAACAAGCTGCCCCAACTCAGTTACCTAGTGCCCCAACTCA
1 TCAACAAGCTGCCCCAACTCAGTTACCTAATGCCCCAACTCA
*
22061455 TCAACAAGCTGCCCCAACTCAGTTACCTAATGCCCCAACTTA
1 TCAACAAGCTGCCCCAACTCAGTTACCTAATGCCCCAACTCA
*
22061497 TCAATAAGCTGCCC
1 TCAACAAGCTGCCC
22061511 TAAGAGAAAA
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 53 1.00
ACGTcount: A:0.30, C:0.39, G:0.11, T:0.20
Consensus pattern (42 bp):
TCAACAAGCTGCCCCAACTCAGTTACCTAATGCCCCAACTCA
Found at i:22061509 original size:21 final size:21
Alignment explanation
Indices: 22061413--22061510 Score: 69
Period size: 21 Copynumber: 4.7 Consensus size: 21
22061403 GTACCCCAAC
*
22061413 TCAACAAGCTGCCCCAACTCA
1 TCAATAAGCTGCCCCAACTCA
* *
22061434 GTTACCT-AG-TGCCCCAACTCA
1 -TCA-ATAAGCTGCCCCAACTCA
*
22061455 TCAACAAGCTGCCCCAACTCA
1 TCAATAAGCTGCCCCAACTCA
* * *
22061476 GTTACCTAA--TGCCCCAACTTA
1 -TCA-ATAAGCTGCCCCAACTCA
22061497 TCAATAAGCTGCCC
1 TCAATAAGCTGCCC
22061511 TAAGAGAAAA
Statistics
Matches: 57, Mismatches: 12, Indels: 15
0.68 0.14 0.18
Matches are distributed among these distances:
19 3 0.05
20 6 0.11
21 40 0.70
22 6 0.11
23 2 0.04
ACGTcount: A:0.30, C:0.39, G:0.11, T:0.20
Consensus pattern (21 bp):
TCAATAAGCTGCCCCAACTCA
Found at i:22062526 original size:3 final size:3
Alignment explanation
Indices: 22062518--22062589 Score: 92
Period size: 3 Copynumber: 24.3 Consensus size: 3
22062508 CTCCATTTTC
*
22062518 TCT TCT TCT TCT TCT TCT CCT TCT TCT TCT TCT TCT TCT TCT TCT TC-
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
* * * *
22062565 TCC TCC TCT TAT TAT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT T
22062590 TTCCTTTTTC
Statistics
Matches: 63, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
2 2 0.03
3 61 0.97
ACGTcount: A:0.03, C:0.35, G:0.00, T:0.62
Consensus pattern (3 bp):
TCT
Found at i:22062984 original size:20 final size:19
Alignment explanation
Indices: 22062961--22063001 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
22062951 TTAACAGAAA
*
22062961 TATATATTATTATAATATTT
1 TATATATTAATATAA-ATTT
*
22062981 TATATTTTAATATAAATTT
1 TATATATTAATATAAATTT
22063000 TA
1 TA
22063002 AATAAAAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 6 0.32
20 13 0.68
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (19 bp):
TATATATTAATATAAATTT
Found at i:22066487 original size:42 final size:43
Alignment explanation
Indices: 22066427--22066508 Score: 139
Period size: 42 Copynumber: 1.9 Consensus size: 43
22066417 CAAATTAAAA
22066427 TCAAACCATATTAGCAAGTAACCAAAGTTAAATCGATCATAAT
1 TCAAACCATATTAGCAAGTAACCAAAGTTAAATCGATCATAAT
* *
22066470 TCAAACTATA-TAGCAAGTAATCAAAGTTAAATCGATCAT
1 TCAAACCATATTAGCAAGTAACCAAAGTTAAATCGATCAT
22066509 GTATGGACCA
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
42 28 0.76
43 9 0.24
ACGTcount: A:0.46, C:0.17, G:0.10, T:0.27
Consensus pattern (43 bp):
TCAAACCATATTAGCAAGTAACCAAAGTTAAATCGATCATAAT
Found at i:22069583 original size:99 final size:99
Alignment explanation
Indices: 22069409--22069591 Score: 269
Period size: 99 Copynumber: 1.8 Consensus size: 99
22069399 AATAAAACGT
* * *
22069409 TTGTTCAATTATGCATTTTCTAAAATGTTAATTTAGTTCTATTTATTGAGTTTTGATATTAAGTG
1 TTGTTCAATTATGCATTTTCTAAAACGTTAATTTAGTTCAATTTATTGAATTTTGATATTAAGTG
*
22069474 AAACCATTTATTCTATTATACAAAGTAAAACCAC
66 AAACCATTTATTCAATTATACAAAGTAAAACCAC
** *
22069508 TTGTTCAATTATGTGTTTTTTAAAACGTTAATTTAGTTCAATTTATTGAATTTTGATATTAAGT-
1 TTGTTCAATTATGCATTTTCTAAAACGTTAATTTAGTTCAATTTATTGAATTTTGATATTAAGTG
**
22069572 AGAACTGTTTATTCAATTAT
66 A-AACCATTTATTCAATTAT
22069592 GTGTTTTTGA
Statistics
Matches: 74, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
98 1 0.01
99 73 0.99
ACGTcount: A:0.33, C:0.09, G:0.11, T:0.48
Consensus pattern (99 bp):
TTGTTCAATTATGCATTTTCTAAAACGTTAATTTAGTTCAATTTATTGAATTTTGATATTAAGTG
AAACCATTTATTCAATTATACAAAGTAAAACCAC
Found at i:22069670 original size:72 final size:72
Alignment explanation
Indices: 22069496--22069663 Score: 212
Period size: 72 Copynumber: 2.3 Consensus size: 72
22069486 CTATTATACA
* * * * * *
22069496 AAGTAAAACCACTTGTTCAATTATGTGTTTTTTAAAACGTTAATTTAGTTCAATTTATTGAATTT
1 AAGTAAAACCATTTATTCAATTATGTGTTTTTGAAAACGCTAATTTAGTTCAATTCATTGAAGTT
*
22069561 TGATATT
66 CGATATT
* ** * *
22069568 AAGTAGAACTGTTTATTCAATTATGTGTTTTTGAAAAGGCTATTTTAGTTCAATTCATTG-AGTT
1 AAGTAAAACCATTTATTCAATTATGTGTTTTTGAAAACGCTAATTTAGTTCAATTCATTGAAGTT
22069632 CGATATT
66 CGATATT
22069639 AAGTAAAACCATTTATTCAAGTTAT
1 AAGTAAAACCATTTATTCAA-TTAT
22069664 ACGTTTTGAG
Statistics
Matches: 80, Mismatches: 15, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
71 26 0.32
72 54 0.68
ACGTcount: A:0.33, C:0.09, G:0.13, T:0.45
Consensus pattern (72 bp):
AAGTAAAACCATTTATTCAATTATGTGTTTTTGAAAACGCTAATTTAGTTCAATTCATTGAAGTT
CGATATT
Found at i:22076571 original size:6 final size:6
Alignment explanation
Indices: 22076560--22076587 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
22076550 CACTCTCTCT
22076560 TCTTCC TCTTCC TCTTCC TCTTCC TCTT
1 TCTTCC TCTTCC TCTTCC TCTTCC TCTT
22076588 ATCTCAAAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.00, C:0.46, G:0.00, T:0.54
Consensus pattern (6 bp):
TCTTCC
Found at i:22083962 original size:20 final size:20
Alignment explanation
Indices: 22083937--22083975 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
22083927 AAAATGAGAT
22083937 AAACTTACA-AATTGACAGAC
1 AAACTTA-ATAATTGACAGAC
22083957 AAACTTAATAATTGACAGA
1 AAACTTAATAATTGACAGA
22083976 TCACCTTTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.51, C:0.15, G:0.10, T:0.23
Consensus pattern (20 bp):
AAACTTAATAATTGACAGAC
Found at i:22084733 original size:22 final size:22
Alignment explanation
Indices: 22084712--22084757 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
22084702 AATTTGACAT
*
22084712 TATTGATT-TTTTAATAATACA
1 TATTGATTCATTTAATAATACA
*
22084733 TATTGATTCATTTAATAATAGA
1 TATTGATTCATTTAATAATACA
22084755 TAT
1 TAT
22084758 GTTAGTTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 8 0.36
22 14 0.64
ACGTcount: A:0.39, C:0.04, G:0.07, T:0.50
Consensus pattern (22 bp):
TATTGATTCATTTAATAATACA
Found at i:22102677 original size:19 final size:19
Alignment explanation
Indices: 22102641--22102677 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
22102631 TAATTAGGCT
* *
22102641 TTAATTAAGTGAATTTAGC
1 TTAATTAAGAGAAATTAGC
22102660 TTAATTAAGAGAAATTAG
1 TTAATTAAGAGAAATTAG
22102678 GAAAAAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.43, C:0.03, G:0.16, T:0.38
Consensus pattern (19 bp):
TTAATTAAGAGAAATTAGC
Found at i:22103793 original size:17 final size:18
Alignment explanation
Indices: 22103771--22103804 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
22103761 TAAATGAGTT
22103771 AATTAGGAT-TAAATTGG
1 AATTAGGATATAAATTGG
*
22103788 AATTAGGGTATAAATTG
1 AATTAGGATATAAATTG
22103805 AATAGAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.41, C:0.00, G:0.24, T:0.35
Consensus pattern (18 bp):
AATTAGGATATAAATTGG
Found at i:22104194 original size:72 final size:72
Alignment explanation
Indices: 22104118--22104268 Score: 182
Period size: 72 Copynumber: 2.1 Consensus size: 72
22104108 ATTAGAAATT
* * * *
22104118 AAAAGTGATTTGAATTAAAT-AATTGAATTATGAATTATG-AATTATGTGAATATTTG-AACGTA
1 AAAAGTGATTTGAATTAAATAAATTGAA-T-TGAATGAAGAAAATATGTGAATATTTGAAACATA
22104180 TATTGATTGG
64 TATTGATT-G
* * *
22104190 AAAAGTGATTTGAATTGAATCAAATTGAATTGAATGAAGAAAATATGTGAGTATTTGAAATATAT
1 AAAAGTGATTTGAATTAAAT-AAATTGAATTGAATGAAGAAAATATGTGAATATTTGAAACATAT
22104255 ATTGATTG
65 ATTGATTG
22104263 AAAAGT
1 AAAAGT
22104269 AATTAGTGAT
Statistics
Matches: 68, Mismatches: 7, Indels: 7
0.83 0.09 0.09
Matches are distributed among these distances:
72 26 0.38
73 23 0.34
74 19 0.28
ACGTcount: A:0.43, C:0.01, G:0.19, T:0.37
Consensus pattern (72 bp):
AAAAGTGATTTGAATTAAATAAATTGAATTGAATGAAGAAAATATGTGAATATTTGAAACATATA
TTGATTG
Found at i:22104314 original size:13 final size:14
Alignment explanation
Indices: 22104293--22104332 Score: 55
Period size: 13 Copynumber: 2.9 Consensus size: 14
22104283 ATTTGATTGG
22104293 AAAATGAATTAAA-
1 AAAATGAATTAAAT
*
22104306 AATATGAATTAAAT
1 AAAATGAATTAAAT
22104320 AAAAGTGAATTAA
1 AAAA-TGAATTAA
22104333 TTTATGAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
13 12 0.52
14 3 0.13
15 8 0.35
ACGTcount: A:0.62, C:0.00, G:0.10, T:0.28
Consensus pattern (14 bp):
AAAATGAATTAAAT
Found at i:22104716 original size:23 final size:21
Alignment explanation
Indices: 22104686--22104767 Score: 85
Period size: 21 Copynumber: 3.9 Consensus size: 21
22104676 GCTTTGCCGA
* *
22104686 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCACCTCATGTGTC--ATT
* *
22104709 TCAGGCACCTCGTGTGTCATA
1 TCAGGCACCTCATGTGTCATT
22104730 TCAGGCACCTCATGTGTCATT
1 TCAGGCACCTCATGTGTCATT
* *
22104751 TTAGGCA-CTTATGTGTC
1 TCAGGCACCTCATGTGTC
22104768 GTATACTGAT
Statistics
Matches: 51, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
20 9 0.18
21 27 0.53
23 15 0.29
ACGTcount: A:0.18, C:0.23, G:0.22, T:0.37
Consensus pattern (21 bp):
TCAGGCACCTCATGTGTCATT
Found at i:22105068 original size:13 final size:13
Alignment explanation
Indices: 22105052--22105084 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
22105042 TGAATAATTG
22105052 AAATGAAAAAATC
1 AAATGAAAAAATC
*
22105065 AAATGAGAAAATC
1 AAATGAAAAAATC
22105078 AAATGAA
1 AAATGAA
22105085 TTGATTGATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.67, C:0.06, G:0.12, T:0.15
Consensus pattern (13 bp):
AAATGAAAAAATC
Found at i:22117404 original size:6 final size:6
Alignment explanation
Indices: 22117394--22117425 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
22117384 AGAAAACCTT
*
22117394 GATGAT GATGAG GATGAG GATGAG GATGAG GA
1 GATGAG GATGAG GATGAG GATGAG GATGAG GA
22117426 GATGTCCGGA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.34, C:0.00, G:0.47, T:0.19
Consensus pattern (6 bp):
GATGAG
Found at i:22126388 original size:20 final size:20
Alignment explanation
Indices: 22126366--22126439 Score: 73
Period size: 20 Copynumber: 3.8 Consensus size: 20
22126356 ATTAATTATA
22126366 AAAATTATAAAAAAATCATA-
1 AAAATTAT-AAAAAATCATAT
* *
22126386 AAAA--ATCAAAAACCATAT
1 AAAATTATAAAAAATCATAT
* *
22126404 AAAATTATAAATAATCAGAT
1 AAAATTATAAAAAATCATAT
22126424 AAAATTATCAAAAAAT
1 AAAATTAT-AAAAAAT
22126440 AAAATTTATT
Statistics
Matches: 43, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
17 9 0.21
18 6 0.14
20 22 0.51
21 6 0.14
ACGTcount: A:0.66, C:0.08, G:0.01, T:0.24
Consensus pattern (20 bp):
AAAATTATAAAAAATCATAT
Found at i:22126612 original size:19 final size:19
Alignment explanation
Indices: 22126590--22126630 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
22126580 TAAATTCTAT
22126590 AAAATCATAAAAAATATTAA
1 AAAAT-ATAAAAAATATTAA
* *
22126610 AAAATATCAAAAATTTTAA
1 AAAATATAAAAAATATTAA
22126629 AA
1 AA
22126631 GCGATATAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.27
Consensus pattern (19 bp):
AAAATATAAAAAATATTAA
Found at i:22127102 original size:20 final size:20
Alignment explanation
Indices: 22127079--22127135 Score: 64
Period size: 19 Copynumber: 3.0 Consensus size: 20
22127069 ATTCTAATAA
*
22127079 GTTTTTTTTATTTTATATAG
1 GTTTTTTATATTTTATATAG
* *
22127099 GTTTTATATAGTTTAT-TAG
1 GTTTTTTATATTTTATATAG
*
22127118 ATTTTTTATATTTT-TATA
1 GTTTTTTATATTTTATATA
22127136 ATATTTATTT
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
18 1 0.03
19 16 0.53
20 13 0.43
ACGTcount: A:0.25, C:0.00, G:0.09, T:0.67
Consensus pattern (20 bp):
GTTTTTTATATTTTATATAG
Found at i:22130544 original size:31 final size:31
Alignment explanation
Indices: 22130509--22130586 Score: 95
Period size: 31 Copynumber: 2.5 Consensus size: 31
22130499 TAAAAAAAAT
22130509 CTTATTTGAGCACTTTCGAAAATGA-TTCACC
1 CTTATTTGAGCACTTTCGAAAAT-ATTTCACC
* * **
22130540 CTTATTTGAGCATTTTCGAATATATTTGGCC
1 CTTATTTGAGCACTTTCGAAAATATTTCACC
*
22130571 CTTATTTGAACACTTT
1 CTTATTTGAGCACTTT
22130587 TGTAAAGGTT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
30 1 0.03
31 39 0.98
ACGTcount: A:0.26, C:0.19, G:0.13, T:0.42
Consensus pattern (31 bp):
CTTATTTGAGCACTTTCGAAAATATTTCACC
Found at i:22139061 original size:6 final size:6
Alignment explanation
Indices: 22139046--22139076 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
22139036 AAAAATGCAA
*
22139046 AAAAAC AAAAAT AAAAAT AAAAAT AAAAAT A
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT A
22139077 CCTAATTGTC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.84, C:0.03, G:0.00, T:0.13
Consensus pattern (6 bp):
AAAAAT
Found at i:22145037 original size:12 final size:13
Alignment explanation
Indices: 22145016--22145044 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
22145006 GCAATCTTTG
22145016 TTTTATTTTTTAT
1 TTTTATTTTTTAT
22145029 TTTTA-TTTTTAT
1 TTTTATTTTTTAT
22145041 TTTT
1 TTTT
22145045 TGGGTGCGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (13 bp):
TTTTATTTTTTAT
Found at i:22148567 original size:58 final size:57
Alignment explanation
Indices: 22148436--22148613 Score: 198
Period size: 58 Copynumber: 3.1 Consensus size: 57
22148426 TGGGTCTAAT
* * * *
22148436 TTTTTTGTCCAATTTAGGTCTTGAACTT-GATAAATATTCTTACATTG-GGCTTGAAA
1 TTTTTTGTCCAAGTTAGGCCTTGAACTTAG-CAAATATTCTCACATTGAGGCTTGAAA
** * * *
22148492 TTATTTTACCCAAGTTAGGCCTTGAATTTAGCAAATATCCCCACATTGAGGCTTGAAA
1 TT-TTTTGTCCAAGTTAGGCCTTGAACTTAGCAAATATTCTCACATTGAGGCTTGAAA
* * * *
22148550 TTTTTTGGTCCAAGTTAGGCATTGAACTTAGCAAATATTATCACATTGAGGCTTCAAC
1 TTTTTT-GTCCAAGTTAGGCCTTGAACTTAGCAAATATTCTCACATTGAGGCTTGAAA
22148608 TTTTTT
1 TTTTTT
22148614 TTTATCTAAG
Statistics
Matches: 100, Mismatches: 18, Indels: 6
0.81 0.15 0.05
Matches are distributed among these distances:
56 2 0.02
57 38 0.38
58 60 0.60
ACGTcount: A:0.28, C:0.16, G:0.16, T:0.40
Consensus pattern (57 bp):
TTTTTTGTCCAAGTTAGGCCTTGAACTTAGCAAATATTCTCACATTGAGGCTTGAAA
Found at i:22154803 original size:11 final size:10
Alignment explanation
Indices: 22154782--22154811 Score: 51
Period size: 11 Copynumber: 2.9 Consensus size: 10
22154772 TAATGACTTC
22154782 ATAAAAAAAA
1 ATAAAAAAAA
22154792 ATAAATAAAAA
1 ATAAA-AAAAA
22154803 ATAAAAAAA
1 ATAAAAAAA
22154812 CCATATAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (10 bp):
ATAAAAAAAA
Found at i:22156158 original size:26 final size:26
Alignment explanation
Indices: 22156124--22156180 Score: 105
Period size: 26 Copynumber: 2.2 Consensus size: 26
22156114 GTTTGGACTA
*
22156124 TGTTCATTTGTTTCCTTGTTTTTTGT
1 TGTTAATTTGTTTCCTTGTTTTTTGT
22156150 TGTTAATTTGTTTCCTTGTTTTTTGT
1 TGTTAATTTGTTTCCTTGTTTTTTGT
22156176 TGTTA
1 TGTTA
22156181 TTCACTTAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.07, C:0.09, G:0.16, T:0.68
Consensus pattern (26 bp):
TGTTAATTTGTTTCCTTGTTTTTTGT
Found at i:22162214 original size:56 final size:56
Alignment explanation
Indices: 22162146--22162253 Score: 207
Period size: 56 Copynumber: 1.9 Consensus size: 56
22162136 ATGTGCTTAG
22162146 ATAGTGAAATTTTCGTTTTATTTTCCATCTGCAGTTGGGTTTTATTAACCTTGATC
1 ATAGTGAAATTTTCGTTTTATTTTCCATCTGCAGTTGGGTTTTATTAACCTTGATC
*
22162202 ATAGTGAAATTTTCTTTTTATTTTCCATCTGCAGTTGGGTTTTATTAACCTT
1 ATAGTGAAATTTTCGTTTTATTTTCCATCTGCAGTTGGGTTTTATTAACCTT
22162254 ACTGGGCCTC
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 51 1.00
ACGTcount: A:0.21, C:0.14, G:0.15, T:0.50
Consensus pattern (56 bp):
ATAGTGAAATTTTCGTTTTATTTTCCATCTGCAGTTGGGTTTTATTAACCTTGATC
Found at i:22175492 original size:25 final size:25
Alignment explanation
Indices: 22175464--22175512 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
22175454 TCTGCTAGAA
*
22175464 AAAAAAAAGAGAATTTAAAAAAATT
1 AAAAAAAAGAGAATTCAAAAAAATT
* * *
22175489 AAAAATAAGTGACTTCAAAAAAAT
1 AAAAAAAAGAGAATTCAAAAAAAT
22175513 GAATTTGAAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.67, C:0.04, G:0.08, T:0.20
Consensus pattern (25 bp):
AAAAAAAAGAGAATTCAAAAAAATT
Found at i:22176523 original size:17 final size:18
Alignment explanation
Indices: 22176501--22176535 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
22176491 GATGGATAGG
22176501 AAATAATGCCTA-TTTTT
1 AAATAATGCCTAGTTTTT
22176518 AAATAATGCCTAGTTTTT
1 AAATAATGCCTAGTTTTT
22176536 TAGTAGATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.71
18 5 0.29
ACGTcount: A:0.34, C:0.11, G:0.09, T:0.46
Consensus pattern (18 bp):
AAATAATGCCTAGTTTTT
Found at i:22178784 original size:19 final size:20
Alignment explanation
Indices: 22178757--22178810 Score: 56
Period size: 19 Copynumber: 2.6 Consensus size: 20
22178747 AAAATAATCT
22178757 TTAAATTTTAAATTAT-ATA
1 TTAAATTTTAAATTATGATA
* *
22178776 TTAATTTTTAGATTATGATA
1 TTAAATTTTAAATTATGATA
22178796 TGCTATAATTTTAAA
1 T--TA-AATTTTAAA
22178811 GTATCATGTC
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
19 14 0.52
20 4 0.15
22 2 0.07
23 7 0.26
ACGTcount: A:0.41, C:0.02, G:0.06, T:0.52
Consensus pattern (20 bp):
TTAAATTTTAAATTATGATA
Found at i:22180575 original size:16 final size:16
Alignment explanation
Indices: 22180550--22180580 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
22180540 TTTTGTAGTT
*
22180550 TTTTATTAATTTAATA
1 TTTTAATAATTTAATA
22180566 TTTTAATAATTTAAT
1 TTTTAATAATTTAAT
22180581 CTTTAAATTT
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:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
TTTTAATAATTTAATA
Found at i:22184298 original size:34 final size:34
Alignment explanation
Indices: 22184260--22184327 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
22184250 AATTTTGTGC
22184260 CATTGTTTAAAAAATTTCTTGCATTGAGAATATT
1 CATTGTTTAAAAAATTTCTTGCATTGAGAATATT
22184294 CATTGTTTAAAAAATTTCTTGCATTGAGAATATT
1 CATTGTTTAAAAAATTTCTTGCATTGAGAATATT
22184328 AGCTATTCTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.35, C:0.09, G:0.12, T:0.44
Consensus pattern (34 bp):
CATTGTTTAAAAAATTTCTTGCATTGAGAATATT
Found at i:22190832 original size:35 final size:35
Alignment explanation
Indices: 22190785--22190857 Score: 128
Period size: 35 Copynumber: 2.1 Consensus size: 35
22190775 TCACCTTCTT
* *
22190785 TAAATTACTTGTGTTAATTTAAAAAATCAAAATTA
1 TAAATTAATTGTGTTAATTTAAAAAATCAAAATCA
22190820 TAAATTAATTGTGTTAATTTAAAAAATCAAAATCA
1 TAAATTAATTGTGTTAATTTAAAAAATCAAAATCA
22190855 TAA
1 TAA
22190858 GCCTTACAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.51, C:0.05, G:0.05, T:0.38
Consensus pattern (35 bp):
TAAATTAATTGTGTTAATTTAAAAAATCAAAATCA
Found at i:22204373 original size:15 final size:15
Alignment explanation
Indices: 22204338--22204379 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
22204328 TTAAGAATTT
*
22204338 TATTAAATTAT-ATA
1 TATTTAATTATAATA
22204352 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
22204366 TATTTAATAATAAT
1 TATTTAATTATAAT
22204380 TATGTTACTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:22204415 original size:120 final size:120
Alignment explanation
Indices: 22204213--22204510 Score: 501
Period size: 120 Copynumber: 2.5 Consensus size: 120
22204203 AATTATTTTA
* * * *
22204213 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTTTCTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT-AAATTTTATTT
*
22204277 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
65 TACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
*
22204333 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT-ACTTTATATTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTT-TATTT
22204397 TACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
65 TACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
22204453 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTTAAAT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATG-TTAAAT
22204511 ATGATTAAAT
Statistics
Matches: 167, Mismatches: 7, Indels: 6
0.93 0.04 0.03
Matches are distributed among these distances:
119 4 0.02
120 157 0.94
121 4 0.02
122 2 0.01
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTTTATTTT
ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:22204488 original size:16 final size:16
Alignment explanation
Indices: 22204467--22204508 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
22204457 TTATTAAATT
*
22204467 ATATATTTTAATTATA
1 ATATATTTTAATAATA
22204483 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
22204498 AT-TATGTTTAA
1 ATATAT-TTTAA
22204509 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:22204493 original size:15 final size:15
Alignment explanation
Indices: 22204458--22204499 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
22204448 TTAAGAATTT
*
22204458 TATTAAATTAT-ATA
1 TATTTAATTATAATA
22204472 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
22204486 TATTTAATAATAAT
1 TATTTAATTATAAT
22204500 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:22204648 original size:157 final size:157
Alignment explanation
Indices: 22204442--22204758 Score: 555
Period size: 157 Copynumber: 2.0 Consensus size: 157
22204432 ATAAGAATAT
* *
22204442 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAAATATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
* * *
22204507 AAATATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
*
22204572 TAATAATTTACCAAAACAAATTTCTGC
131 TAATAATTTACCAAAACAAATTTATGC
22204599 TAATTA-TAAGAATTTTATTAAAATATATATTATTAATTAAAATATATTTAATAATAATTATGTT
1 TAATTATTAAGAATTTTATTAAAATATATATT-TTAATTAAAATATATTTAATAATAATTATGTT
22204663 TAAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACA
65 TAAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACA
*
22204728 ATAATCATTTACCAAAACAAATTTATGC
130 ATAATAATTTACCAAAACAAATTTATGC
22204756 TAA
1 TAA
22204759 GGGTATTCTA
Statistics
Matches: 152, Mismatches: 7, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
156 24 0.16
157 128 0.84
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.43
Consensus pattern (157 bp):
TAATTATTAAGAATTTTATTAAAATATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
AAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
TAATAATTTACCAAAACAAATTTATGC
Found at i:22204891 original size:45 final size:44
Alignment explanation
Indices: 22204810--22204900 Score: 119
Period size: 45 Copynumber: 2.0 Consensus size: 44
22204800 ATCTCTATTC
* *
22204810 CATTCAACCAAACACAAGATTACTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTACTATTACACCTCTATTCCAATA
*** *
22204854 CATTCAACCAAACAGTTGATTTGCTATTACACCTCTATTCCAATA
1 CATTCAACCAAACACAAGA-TTACTATTACACCTCTATTCCAATA
22204899 CA
1 CA
22204901 CCTCTAATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 16 0.40
45 24 0.60
ACGTcount: A:0.35, C:0.29, G:0.05, T:0.31
Consensus pattern (44 bp):
CATTCAACCAAACACAAGATTACTATTACACCTCTATTCCAATA
Found at i:22204902 original size:16 final size:16
Alignment explanation
Indices: 22204881--22204948 Score: 109
Period size: 16 Copynumber: 4.2 Consensus size: 16
22204871 GATTTGCTAT
*
22204881 TACACCTCTATTCCAA
1 TACACCTCTAATCCAA
*
22204897 TACACCTCTAATCCAT
1 TACACCTCTAATCCAA
22204913 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
22204929 TACACCTTTAATCCAA
1 TACACCTCTAATCCAA
22204945 TACA
1 TACA
22204949 GCGAACCAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 48 1.00
ACGTcount: A:0.35, C:0.35, G:0.00, T:0.29
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:22207388 original size:19 final size:19
Alignment explanation
Indices: 22207364--22207400 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
22207354 TTTCTATTTT
*
22207364 CTAAAATATTAATTAATTA
1 CTAAAATACTAATTAATTA
22207383 CTAAAATACTAATTAATT
1 CTAAAATACTAATTAATT
22207401 TAATTCTCAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.41
Consensus pattern (19 bp):
CTAAAATACTAATTAATTA
Found at i:22209298 original size:13 final size:13
Alignment explanation
Indices: 22209280--22209305 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
22209270 TTTTGTGCTT
22209280 ATTTTAATGTATG
1 ATTTTAATGTATG
22209293 ATTTTAATGTATG
1 ATTTTAATGTATG
22209306 TTGGGTTATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.15, T:0.54
Consensus pattern (13 bp):
ATTTTAATGTATG
Found at i:22212660 original size:5 final size:5
Alignment explanation
Indices: 22212646--22212680 Score: 52
Period size: 5 Copynumber: 6.8 Consensus size: 5
22212636 CTAAAAACGA
*
22212646 AAAAG AAAAAG AAAAG AAAAG AAAAG AACAG AAAA
1 AAAAG -AAAAG AAAAG AAAAG AAAAG AAAAG AAAA
22212681 AGACAGCCTA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
5 22 0.81
6 5 0.19
ACGTcount: A:0.80, C:0.03, G:0.17, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:22212672 original size:15 final size:16
Alignment explanation
Indices: 22212639--22212683 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
22212629 AAAAACACTA
22212639 AAAACGAAAAAGAAAAAG
1 AAAA-GAAAAAG-AAAAG
22212657 AAAAG-AAAAGAAAAG
1 AAAAGAAAAAGAAAAG
*
22212672 AACAGAAAAAGA
1 AAAAGAAAAAGA
22212684 CAGCCTATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
15 9 0.36
16 11 0.44
17 1 0.04
18 4 0.16
ACGTcount: A:0.78, C:0.04, G:0.18, T:0.00
Consensus pattern (16 bp):
AAAAGAAAAAGAAAAG
Found at i:22220689 original size:10 final size:11
Alignment explanation
Indices: 22220666--22220717 Score: 52
Period size: 11 Copynumber: 4.4 Consensus size: 11
22220656 TCGAATGTTC
22220666 TTTTGTTTCTT
1 TTTTGTTTCTT
22220677 TTTTGTTTCTTT
1 TTTTGTTTC-TT
22220689 TACTTTGTTTCTT
1 T--TTTGTTTCTT
22220702 TTTAT-TTTACTT
1 TTT-TGTTT-CTT
22220714 TTTT
1 TTTT
22220718 TATTATTTTA
Statistics
Matches: 36, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
11 15 0.42
12 10 0.28
13 3 0.08
14 8 0.22
ACGTcount: A:0.06, C:0.10, G:0.06, T:0.79
Consensus pattern (11 bp):
TTTTGTTTCTT
Found at i:22220697 original size:14 final size:12
Alignment explanation
Indices: 22220666--22220718 Score: 56
Period size: 12 Copynumber: 4.3 Consensus size: 12
22220656 TCGAATGTTC
22220666 TTTTGTTTC-TT
1 TTTTGTTTCTTT
22220677 TTTTGTTTCTTT
1 TTTTGTTTCTTT
22220689 TACTTTGTTTCTTT
1 T--TTTGTTTCTTT
*
22220703 TTATT-TTACTTT
1 TT-TTGTTTCTTT
22220715 TTTT
1 TTTT
22220719 ATTATTTTAT
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
11 11 0.30
12 12 0.32
13 2 0.05
14 12 0.32
ACGTcount: A:0.06, C:0.09, G:0.06, T:0.79
Consensus pattern (12 bp):
TTTTGTTTCTTT
Found at i:22223676 original size:13 final size:13
Alignment explanation
Indices: 22223658--22223682 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
22223648 GTGGATTTGA
22223658 TTTCTTTTTTTCT
1 TTTCTTTTTTTCT
22223671 TTTCTTTTTTTC
1 TTTCTTTTTTTC
22223683 ACCTTTCGAT
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:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (13 bp):
TTTCTTTTTTTCT
Found at i:22225186 original size:20 final size:20
Alignment explanation
Indices: 22225161--22225204 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
22225151 TTTCATTGCT
*
22225161 TTTAATTATTAATGTTAATA
1 TTTAATTATTAACGTTAATA
* *
22225181 TTTAATTGTTAGCGTTAATA
1 TTTAATTATTAACGTTAATA
22225201 TTTA
1 TTTA
22225205 TACATTGTGT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.34, C:0.02, G:0.09, T:0.55
Consensus pattern (20 bp):
TTTAATTATTAACGTTAATA
Found at i:22235831 original size:16 final size:16
Alignment explanation
Indices: 22235810--22235843 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
22235800 ATTGAAAATT
*
22235810 AAAAAATATATATTTA
1 AAAAAATATATATGTA
22235826 AAAAAATATATATGTA
1 AAAAAATATATATGTA
22235842 AA
1 AA
22235844 TGTTATTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (16 bp):
AAAAAATATATATGTA
Found at i:22240708 original size:99 final size:101
Alignment explanation
Indices: 22240518--22240714 Score: 308
Period size: 102 Copynumber: 2.0 Consensus size: 101
22240508 GGCGTAAGCC
* ** *
22240518 GCATCCTCTTTGCTGCTGGTTGCTGGGATAACTCTCCCAGAGAATCATTGACAATGACGGCCTCC
1 GCATCCTCTTTGCTGCCGGTTGCTCAGATAACTCTCCAAGAGAATCATTGACAATGAC-GCCTCC
22240583 TTGTTTTCAGCCACTTCAGAATCTTGATTCAATTGTT
65 TTGTTTTCAGCCACTTCAGAATCTTGATTCAATTGTT
* **
22240620 GCATCCTCTTTGCTGCCGGTTGCTCAGATAATTCTGTAAGAGAATCATTGACAAT-A-GCCTCCT
1 GCATCCTCTTTGCTGCCGGTTGCTCAGATAACTCTCCAAGAGAATCATTGACAATGACGCCTCCT
22240683 TGTTTTCAGCCACTTCAGAATCTTGATTCAAT
66 TGTTTTCAGCCACTTCAGAATCTTGATTCAAT
22240715 GGTACAGCCA
Statistics
Matches: 88, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
99 39 0.44
101 1 0.01
102 48 0.55
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.35
Consensus pattern (101 bp):
GCATCCTCTTTGCTGCCGGTTGCTCAGATAACTCTCCAAGAGAATCATTGACAATGACGCCTCCT
TGTTTTCAGCCACTTCAGAATCTTGATTCAATTGTT
Found at i:22242515 original size:16 final size:16
Alignment explanation
Indices: 22242494--22242532 Score: 78
Period size: 16 Copynumber: 2.4 Consensus size: 16
22242484 ACAAACTTGA
22242494 GCATCAATTGAGCTAT
1 GCATCAATTGAGCTAT
22242510 GCATCAATTGAGCTAT
1 GCATCAATTGAGCTAT
22242526 GCATCAA
1 GCATCAA
22242533 AATAACTGCG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.28
Consensus pattern (16 bp):
GCATCAATTGAGCTAT
Found at i:22250959 original size:30 final size:30
Alignment explanation
Indices: 22250925--22250991 Score: 73
Period size: 31 Copynumber: 2.2 Consensus size: 30
22250915 TATATATTAA
22250925 TTATTAAATT-GCACCTTAAATTACATCTCT
1 TTATTAAATTGGCA-CTTAAATTACATCTCT
* * *
22250955 TTATTTAATTTGGTACTTAAATTATATCTCT
1 TTA-TTAAATTGGCACTTAAATTACATCTCT
*
22250986 TCATTA
1 TTATTA
22250992 CTTAAATCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
30 6 0.19
31 23 0.74
32 2 0.06
ACGTcount: A:0.31, C:0.15, G:0.04, T:0.49
Consensus pattern (30 bp):
TTATTAAATTGGCACTTAAATTACATCTCT
Found at i:22260647 original size:33 final size:33
Alignment explanation
Indices: 22260605--22260669 Score: 130
Period size: 33 Copynumber: 2.0 Consensus size: 33
22260595 GCATGGGAGC
22260605 CCGCAACCATGACACATCTGTGTGAACCATCAT
1 CCGCAACCATGACACATCTGTGTGAACCATCAT
22260638 CCGCAACCATGACACATCTGTGTGAACCATCA
1 CCGCAACCATGACACATCTGTGTGAACCATCA
22260670 AGAAGGAAGG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.31, C:0.34, G:0.15, T:0.20
Consensus pattern (33 bp):
CCGCAACCATGACACATCTGTGTGAACCATCAT
Found at i:22264682 original size:25 final size:25
Alignment explanation
Indices: 22264648--22264697 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
22264638 TCTACGATAT
22264648 GTTAGTATAGCTTTATTGCAATAAA
1 GTTAGTATAGCTTTATTGCAATAAA
22264673 GTTAGTATAGCTTTATTGCAATAAA
1 GTTAGTATAGCTTTATTGCAATAAA
22264698 TACCTTGACT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.36, C:0.08, G:0.16, T:0.40
Consensus pattern (25 bp):
GTTAGTATAGCTTTATTGCAATAAA
Found at i:22268303 original size:19 final size:19
Alignment explanation
Indices: 22268279--22268317 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
22268269 GGAAGATAAG
*
22268279 TTCAGTCAAGCTCCTTCTT
1 TTCAGTCAAGCTACTTCTT
22268298 TTCAGTCAAGCTACTTCTT
1 TTCAGTCAAGCTACTTCTT
22268317 T
1 T
22268318 GCATTTCAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.18, C:0.28, G:0.10, T:0.44
Consensus pattern (19 bp):
TTCAGTCAAGCTACTTCTT
Found at i:22275831 original size:46 final size:46
Alignment explanation
Indices: 22275714--22276036 Score: 380
Period size: 46 Copynumber: 7.0 Consensus size: 46
22275704 GTGTGCTCTC
** *
22275714 TGATATGAAATGTGTGAGACCATGGTTGAAAGATACCATGGCAAC-
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
* ** **
22275759 CGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAATG
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
* *
22275805 TGATATGAAATGAATAAGACCGTGGTTGAAAGATACCATGGAAACA
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
*** * *
22275851 TGACGGGAAATGAATAAGACCATGGTTGAAAGATAACATGGCAGCA
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
* * * ** *
22275897 TGACATGAAATGACTAAGATCATGGTTGAAAGATACCATGATAGCA
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
*
22275943 TGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
* * * * *
22275989 TGATA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCA
1 TGATATG-AAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
22276035 TG
1 TG
22276037 TCAAAGATAA
Statistics
Matches: 241, Mismatches: 35, Indels: 3
0.86 0.13 0.01
Matches are distributed among these distances:
45 43 0.18
46 198 0.82
ACGTcount: A:0.41, C:0.13, G:0.24, T:0.22
Consensus pattern (46 bp):
TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
Found at i:22277990 original size:17 final size:18
Alignment explanation
Indices: 22277958--22277995 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
22277948 TTAAGGTTAA
22277958 AAAGGTAAATTAATAATT
1 AAAGGTAAATTAATAATT
*
22277976 AAAGGTTAA-TAATAATT
1 AAAGGTAAATTAATAATT
22277993 AAA
1 AAA
22277996 ACAAAACATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.58, C:0.00, G:0.11, T:0.32
Consensus pattern (18 bp):
AAAGGTAAATTAATAATT
Found at i:22283359 original size:25 final size:24
Alignment explanation
Indices: 22283282--22283365 Score: 89
Period size: 25 Copynumber: 3.4 Consensus size: 24
22283272 TGTTAACTAG
22283282 TTTATAACATCTTTACTTCAATTCA
1 TTTA-AACATCTTTACTTCAATTCA
* * * *
22283307 TTTAAAC-TCTATACATGCCATATAA
1 TTTAAACATCTTTAC-TTCAAT-TCA
22283332 TTTATAACATCTTTACTTCAATTCA
1 TTTA-AACATCTTTACTTCAATTCA
22283357 TTTAAACAT
1 TTTAAACAT
22283366 AAAACAAAAA
Statistics
Matches: 47, Mismatches: 8, Indels: 9
0.73 0.12 0.14
Matches are distributed among these distances:
23 6 0.13
24 12 0.26
25 16 0.34
26 7 0.15
27 6 0.13
ACGTcount: A:0.36, C:0.19, G:0.01, T:0.44
Consensus pattern (24 bp):
TTTAAACATCTTTACTTCAATTCA
Found at i:22283837 original size:40 final size:39
Alignment explanation
Indices: 22283712--22283845 Score: 124
Period size: 35 Copynumber: 3.6 Consensus size: 39
22283702 GGTTTTCCTC
** *
22283712 ATTGA-AATACCATACCTACATTTTACAACTCGGTATGG
1 ATTGATAATACCATACCTACATTTCGCAACTCAGTATGG
* * **
22283750 ---GA-AATGCGATACCTACATTTCTTAACTCAGTATGG
1 ATTGATAATACCATACCTACATTTCGCAACTCAGTATGG
*
22283785 ATTTGATAATACCATACGTACATTTCGCAACTCAGTATGG
1 A-TTGATAATACCATACCTACATTTCGCAACTCAGTATGG
22283825 A-TG---ATACCATACCTACATTTC
1 ATTGATAATACCATACCTACATTTC
22283846 ACACTTTTTC
Statistics
Matches: 79, Mismatches: 12, Indels: 13
0.76 0.12 0.12
Matches are distributed among these distances:
35 46 0.58
38 2 0.03
39 2 0.03
40 29 0.37
ACGTcount: A:0.33, C:0.22, G:0.13, T:0.32
Consensus pattern (39 bp):
ATTGATAATACCATACCTACATTTCGCAACTCAGTATGG
Found at i:22287330 original size:38 final size:40
Alignment explanation
Indices: 22287287--22287362 Score: 111
Period size: 38 Copynumber: 1.9 Consensus size: 40
22287277 ATGTTTAAGG
*
22287287 ATGAATTATATTATGATTA-TC-GTAATGTTTCAAAACCA
1 ATGAATTAGATTATGATTATTCGGTAATGTTTCAAAACCA
* *
22287325 ATGAATTAGATTATGTTTATTCGGTAATGTTTCGAAAC
1 ATGAATTAGATTATGATTATTCGGTAATGTTTCAAAAC
22287363 TCTATTCCAG
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
38 17 0.52
39 2 0.06
40 14 0.42
ACGTcount: A:0.36, C:0.09, G:0.14, T:0.41
Consensus pattern (40 bp):
ATGAATTAGATTATGATTATTCGGTAATGTTTCAAAACCA
Found at i:22304528 original size:16 final size:17
Alignment explanation
Indices: 22304507--22304540 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
22304497 CTATTACAAG
22304507 TATTGAA-ATAACTTAA
1 TATTGAATATAACTTAA
*
22304523 TATTGAATTTAACTTAA
1 TATTGAATATAACTTAA
22304540 T
1 T
22304541 TAATTAATGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.44
Consensus pattern (17 bp):
TATTGAATATAACTTAA
Found at i:22323143 original size:22 final size:22
Alignment explanation
Indices: 22323092--22323158 Score: 57
Period size: 22 Copynumber: 3.0 Consensus size: 22
22323082 TAGAATTATG
22323092 TTGAG-AACATTATTT-AATTGA
1 TTGAGTAA-ATTATTTAAATTGA
** *
22323113 TAAATTAAATTATTTAAATTGA
1 TTGAGTAAATTATTTAAATTGA
*
22323135 TTGAGTAAATAATATTTAATTTGA
1 TTGAGTAAAT--TATTTAAATTGA
22323159 AAAATAGAAA
Statistics
Matches: 35, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
21 9 0.26
22 15 0.43
24 11 0.31
ACGTcount: A:0.43, C:0.01, G:0.10, T:0.45
Consensus pattern (22 bp):
TTGAGTAAATTATTTAAATTGA
Found at i:22324965 original size:29 final size:29
Alignment explanation
Indices: 22324932--22324989 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
22324922 TTAATTTAAT
22324932 ACCAATCATCTTATATCAATTAAATCATA
1 ACCAATCATCTTATATCAATTAAATCATA
22324961 ACCAATCATCTTATATCAATTAAATCATA
1 ACCAATCATCTTATATCAATTAAATCATA
22324990 CTATTTTCTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.45, C:0.21, G:0.00, T:0.34
Consensus pattern (29 bp):
ACCAATCATCTTATATCAATTAAATCATA
Found at i:22327793 original size:25 final size:23
Alignment explanation
Indices: 22327764--22327828 Score: 75
Period size: 19 Copynumber: 2.9 Consensus size: 23
22327754 AATAAAAAAC
*
22327764 TTTAAAATATAATAAATCAAATACA
1 TTTAAAACATAA-AAAT-AAATACA
22327789 TTTAAAACATAAAAATAAATA-A
1 TTTAAAACATAAAAATAAATACA
22327811 --TAAAACA-AAAAATAAATA
1 TTTAAAACATAAAAATAAATA
22327829 AATAATGGGA
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
19 11 0.28
20 7 0.18
22 1 0.03
23 5 0.13
24 4 0.10
25 11 0.28
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (23 bp):
TTTAAAACATAAAAATAAATACA
Found at i:22327943 original size:12 final size:11
Alignment explanation
Indices: 22327906--22327944 Score: 53
Period size: 10 Copynumber: 3.5 Consensus size: 11
22327896 TAAAATTGAA
22327906 AAATTAAAAC-
1 AAATTAAAACT
22327916 AAATTAAAACT
1 AAATTAAAACT
*
22327927 AAATTAAGAATT
1 AAATTAA-AACT
22327939 AAATTA
1 AAATTA
22327945 TATTAATAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
10 10 0.38
11 7 0.27
12 9 0.35
ACGTcount: A:0.64, C:0.05, G:0.03, T:0.28
Consensus pattern (11 bp):
AAATTAAAACT
Found at i:22329336 original size:65 final size:65
Alignment explanation
Indices: 22329260--22329411 Score: 223
Period size: 65 Copynumber: 2.3 Consensus size: 65
22329250 TGTGGACTAC
* * * *
22329260 CGCAGATCTTTGTGAGCGTCTTGTTATATGATTGATTGTGATCCTGCACATATTGCAGATACAAA
1 CGCAGCTCTTTGTGAGCGTCCTGTTATATGATCGATTGTGATCCTGCACATATTGCAGACACAAA
* * * * *
22329325 CGCAGCTCTTTGTGAGCGTCCTGTTTTATGATCGGTTGTGATCTTGCATATGTTGCAGACACAAA
1 CGCAGCTCTTTGTGAGCGTCCTGTTATATGATCGATTGTGATCCTGCACATATTGCAGACACAAA
22329390 CGCAGCTCTTTGTGAGCGTCCT
1 CGCAGCTCTTTGTGAGCGTCCT
22329412 AATATAGCTT
Statistics
Matches: 78, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
65 78 1.00
ACGTcount: A:0.21, C:0.20, G:0.24, T:0.35
Consensus pattern (65 bp):
CGCAGCTCTTTGTGAGCGTCCTGTTATATGATCGATTGTGATCCTGCACATATTGCAGACACAAA
Found at i:22329516 original size:26 final size:26
Alignment explanation
Indices: 22329458--22329517 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
22329448 CCAAAGCTCC
* *
22329458 CGATTAATGGCTCTTCGTGAGCTTCT
1 CGATTAAAGGCTCTTCATGAGCTTCT
* *
22329484 CGTTTAAAGGCTCTTTATGAGCTTCT
1 CGATTAAAGGCTCTTCATGAGCTTCT
*
22329510 TGATTAAA
1 CGATTAAA
22329518 AGTTATTTGT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.22, C:0.18, G:0.20, T:0.40
Consensus pattern (26 bp):
CGATTAAAGGCTCTTCATGAGCTTCT
Found at i:22331760 original size:26 final size:26
Alignment explanation
Indices: 22331724--22331775 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
22331714 AGTTACATAG
22331724 TGCATAATTATACATCAAGAACTATC
1 TGCATAATTATACATCAAGAACTATC
*
22331750 TGCATAATTATACATCAAGAATTATC
1 TGCATAATTATACATCAAGAACTATC
22331776 CTATATACAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.42, C:0.17, G:0.08, T:0.33
Consensus pattern (26 bp):
TGCATAATTATACATCAAGAACTATC
Found at i:22332824 original size:6 final size:6
Alignment explanation
Indices: 22332815--22332839 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
22332805 GCACCACCCT
22332815 CATCAA CATCAA CATCAA CATCAA C
1 CATCAA CATCAA CATCAA CATCAA C
22332840 CCCAACACCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.48, C:0.36, G:0.00, T:0.16
Consensus pattern (6 bp):
CATCAA
Found at i:22337726 original size:20 final size:18
Alignment explanation
Indices: 22337701--22337749 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 18
22337691 TAAAATGATG
22337701 AAAAATAAAATTTAACTAAA
1 AAAAATAAAA-TTAAC-AAA
* *
22337721 AAAAATCAAATTGACAAA
1 AAAAATAAAATTAACAAA
22337739 AAAATATAAAA
1 AAAA-ATAAAA
22337750 CTAAATTTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
18 7 0.28
19 9 0.36
20 9 0.36
ACGTcount: A:0.71, C:0.06, G:0.02, T:0.20
Consensus pattern (18 bp):
AAAAATAAAATTAACAAA
Found at i:22339485 original size:27 final size:27
Alignment explanation
Indices: 22339455--22339508 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
22339445 GGGCGATGAA
*
22339455 GATTTGTTTGTGAAGTTTGGTGATTTT
1 GATTTGTTTGTGAAATTTGGTGATTTT
22339482 GATTTGTTTGTGAAATTTGGTGATTTT
1 GATTTGTTTGTGAAATTTGGTGATTTT
22339509 TCTTAGGGTC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.17, C:0.00, G:0.28, T:0.56
Consensus pattern (27 bp):
GATTTGTTTGTGAAATTTGGTGATTTT
Found at i:22349401 original size:9 final size:9
Alignment explanation
Indices: 22349387--22349412 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
22349377 TCTCACTTAT
22349387 TATTATTAC
1 TATTATTAC
22349396 TATTATTAC
1 TATTATTAC
22349405 TATTATTA
1 TATTATTA
22349413 TACTTTTCTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.35, C:0.08, G:0.00, T:0.58
Consensus pattern (9 bp):
TATTATTAC
Found at i:22356524 original size:36 final size:36
Alignment explanation
Indices: 22356441--22356538 Score: 109
Period size: 36 Copynumber: 2.9 Consensus size: 36
22356431 TACCTCTAAA
* *
22356441 ATAATAG-AAAA-AATAACAATAAAATAAGAGTTAT
1 ATAATAGTAAAATAATAACAATAAAATAATAGTAAT
* *
22356475 ATAACA-TCTAAATAATAACAATAAAATAATAGTAAT
1 ATAATAGT-AAAATAATAACAATAAAATAATAGTAAT
22356511 ATAATAGTAAAAT-A-AA-AATAAAATAATA
1 ATAATAGTAAAATAATAACAATAAAATAATA
22356539 ACGAAATGAC
Statistics
Matches: 54, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
33 12 0.22
34 7 0.13
35 4 0.07
36 30 0.56
37 1 0.02
ACGTcount: A:0.65, C:0.04, G:0.05, T:0.26
Consensus pattern (36 bp):
ATAATAGTAAAATAATAACAATAAAATAATAGTAAT
Found at i:22360307 original size:26 final size:26
Alignment explanation
Indices: 22360271--22360327 Score: 105
Period size: 26 Copynumber: 2.2 Consensus size: 26
22360261 TCTGTTAAGA
*
22360271 TAGAATAAAACATACCTCAACCCTTG
1 TAGATTAAAACATACCTCAACCCTTG
22360297 TAGATTAAAACATACCTCAACCCTTG
1 TAGATTAAAACATACCTCAACCCTTG
22360323 TAGAT
1 TAGAT
22360328 GACTTCTTGG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.40, C:0.25, G:0.09, T:0.26
Consensus pattern (26 bp):
TAGATTAAAACATACCTCAACCCTTG
Found at i:22360783 original size:87 final size:87
Alignment explanation
Indices: 22360436--22360783 Score: 491
Period size: 87 Copynumber: 4.0 Consensus size: 87
22360426 TTGAGGTGAA
* ** *
22360436 TGTTTATTTGCCGTAGATGATTCTTGCTTCTTCCCTTTCTCAGGTTCTACTTTGTCCACATTCGT
1 TGTTTATTTGCCGTAGATGATTCTTGCTTCTTCCCTTTCTCAGATTCCGCTTTGTCCACATTCAT
* *
22360501 TTCCTGCTGAAGCAGATTCTTT
66 TTCCTGCTGAACCAGATTCTTG
* * * *
22360523 TGTTTATTTTCCGT-GAATGATTCTTGCTTCTTCCCTTTCTCGGATTCAGCTTTGTCCACATTCG
1 TGTTTATTTGCCGTAG-ATGATTCTTGCTTCTTCCCTTTCTCAGATTCCGCTTTGTCCACATTCA
* *
22360587 TTTCCTGCTGAACCGGATTCTTA
65 TTTCCTGCTGAACCAGATTCTTG
* *
22360610 TGTTTATTTGCTGTAGATGATTCTTGCTTCTTCCCTTTCTCAGATTCCGCTTTGTCCACATCCAT
1 TGTTTATTTGCCGTAGATGATTCTTGCTTCTTCCCTTTCTCAGATTCCGCTTTGTCCACATTCAT
22360675 TTCCTGCTGAACCAGATTCTTG
66 TTCCTGCTGAACCAGATTCTTG
* ** *
22360697 TGTTTATTTGCCATAGATGATTCTTGCTTCTTCCCTTTCTCACCTTCCGCTTTGTCCACTTTCAT
1 TGTTTATTTGCCGTAGATGATTCTTGCTTCTTCCCTTTCTCAGATTCCGCTTTGTCCACATTCAT
* * *
22360762 TTCCTTCTGCAGCAGATTCTTG
66 TTCCTGCTGAACCAGATTCTTG
22360784 GTTCAGAGAA
Statistics
Matches: 234, Mismatches: 25, Indels: 4
0.89 0.10 0.02
Matches are distributed among these distances:
86 1 0.00
87 232 0.99
88 1 0.00
ACGTcount: A:0.14, C:0.26, G:0.15, T:0.45
Consensus pattern (87 bp):
TGTTTATTTGCCGTAGATGATTCTTGCTTCTTCCCTTTCTCAGATTCCGCTTTGTCCACATTCAT
TTCCTGCTGAACCAGATTCTTG
Found at i:22371031 original size:11 final size:11
Alignment explanation
Indices: 22371017--22371060 Score: 52
Period size: 11 Copynumber: 3.7 Consensus size: 11
22371007 AATATTTCAA
22371017 AAAAAAAAACT
1 AAAAAAAAACT
*
22371028 AAAAGAAAACT
1 AAAAAAAAACT
22371039 AAAGAAGAAAACT
1 AAA-AA-AAAACT
22371052 AAAAGAAAA
1 AAAA-AAAA
22371061 GAAAGAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
11 13 0.46
12 5 0.18
13 10 0.36
ACGTcount: A:0.77, C:0.07, G:0.09, T:0.07
Consensus pattern (11 bp):
AAAAAAAAACT
Found at i:22374902 original size:30 final size:31
Alignment explanation
Indices: 22374868--22374927 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
22374858 ATTTTAGGTT
22374868 AAAATATGAT-GTTAATCTT-TATACTTTAAC
1 AAAATATGATAGTTAAT-TTCTATACTTTAAC
* *
22374898 AAAATTTGATATTTAATTTCTATACTTTAA
1 AAAATATGATAGTTAATTTCTATACTTTAA
22374928 AAGTTAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 11 0.42
31 15 0.58
ACGTcount: A:0.40, C:0.08, G:0.05, T:0.47
Consensus pattern (31 bp):
AAAATATGATAGTTAATTTCTATACTTTAAC
Found at i:22375537 original size:3 final size:3
Alignment explanation
Indices: 22375529--22375607 Score: 149
Period size: 3 Copynumber: 26.3 Consensus size: 3
22375519 TGTATGTCTC
*
22375529 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TTT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
22375577 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
22375608 TTGTGTGTGT
Statistics
Matches: 74, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 74 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:22380254 original size:16 final size:16
Alignment explanation
Indices: 22380233--22380263 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
22380223 TCTTAAATAA
*
22380233 ATTTATGAAATAAAGT
1 ATTTATGAAAAAAAGT
22380249 ATTTATGAAAAAAAG
1 ATTTATGAAAAAAAG
22380264 CTCACGCTAA
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:0.55, C:0.00, G:0.13, T:0.32
Consensus pattern (16 bp):
ATTTATGAAAAAAAGT
Found at i:22391296 original size:109 final size:109
Alignment explanation
Indices: 22391105--22391323 Score: 438
Period size: 109 Copynumber: 2.0 Consensus size: 109
22391095 GTATGCATGC
22391105 TGAAACATGCATGGTATATGACCTGATATGATGTTCTCAAAAGTGAATAGACATATTGTATCAAC
1 TGAAACATGCATGGTATATGACCTGATATGATGTTCTCAAAAGTGAATAGACATATTGTATCAAC
22391170 AATTTCATTCAAAATGGTAATAAAAAAAATTTTGCTTAAGCATA
66 AATTTCATTCAAAATGGTAATAAAAAAAATTTTGCTTAAGCATA
22391214 TGAAACATGCATGGTATATGACCTGATATGATGTTCTCAAAAGTGAATAGACATATTGTATCAAC
1 TGAAACATGCATGGTATATGACCTGATATGATGTTCTCAAAAGTGAATAGACATATTGTATCAAC
22391279 AATTTCATTCAAAATGGTAATAAAAAAAATTTTGCTTAAGCATA
66 AATTTCATTCAAAATGGTAATAAAAAAAATTTTGCTTAAGCATA
22391323 T
1 T
22391324 TAAGCTATAA
Statistics
Matches: 110, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
109 110 1.00
ACGTcount: A:0.41, C:0.12, G:0.15, T:0.32
Consensus pattern (109 bp):
TGAAACATGCATGGTATATGACCTGATATGATGTTCTCAAAAGTGAATAGACATATTGTATCAAC
AATTTCATTCAAAATGGTAATAAAAAAAATTTTGCTTAAGCATA
Found at i:22397150 original size:13 final size:14
Alignment explanation
Indices: 22397106--22397152 Score: 53
Period size: 13 Copynumber: 3.4 Consensus size: 14
22397096 TTTAGCGTTT
22397106 TATATTTTAATTTAA
1 TATATTTT-ATTTAA
* *
22397121 TAAATTTTATTT-T
1 TATATTTTATTTAA
22397134 TATATTTT-TTTAA
1 TATATTTTATTTAA
22397147 TATATT
1 TATATT
22397153 ACTTTTAATT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
12 3 0.11
13 13 0.48
14 4 0.15
15 7 0.26
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (14 bp):
TATATTTTATTTAA
Found at i:22409775 original size:20 final size:20
Alignment explanation
Indices: 22409750--22409788 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
22409740 TCAAAGGTGA
22409750 TCTGTCAATTAT-TAAGTTTG
1 TCTGTCAATT-TGTAAGTTTG
22409770 TCTGTCAATTTGTAAGTTT
1 TCTGTCAATTTGTAAGTTT
22409789 ATCTCATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.23, C:0.10, G:0.15, T:0.51
Consensus pattern (20 bp):
TCTGTCAATTTGTAAGTTTG
Found at i:22417159 original size:6 final size:6
Alignment explanation
Indices: 22417148--22417175 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
22417138 GTTTTGAGAT
22417148 AAGAGG AAGAGG AAGAGG AAGAGG AAGA
1 AAGAGG AAGAGG AAGAGG AAGAGG AAGA
22417176 AGAGAGAGTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.54, C:0.00, G:0.46, T:0.00
Consensus pattern (6 bp):
AAGAGG
Found at i:22424146 original size:72 final size:72
Alignment explanation
Indices: 22423987--22424285 Score: 224
Period size: 72 Copynumber: 4.1 Consensus size: 72
22423977 CTAAAACAAT
* * ** * * * * *
22423987 GGTTTTATTTAATACCAAATTTCAATAAATAAAAAACTAAACTAACCTTCT-AAAAACATATTAC
1 GGTTTTACTTAATATCAAAACTCAATAAAT--CAAACTAAAATAACCTTCTCAAAAACACATAAT
*
22424051 CGAATAAAC
64 TGAATAAAC
* * * ** * **
22424060 GATTTTATTTAATATCAAAACTCAATAAATCAAATTAATTTAATCTTCTC-AAAACGTATAACTT
1 GGTTTTACTTAATATCAAAACTCAATAAATCAAACTAAAATAACCTTCTCAAAAACACATAA-TT
*
22424124 GAATAAAT
65 GAATAAAC
* * ** * *
22424132 GGTTTTACTTAATATCGAAACTCAATGAATTGAACTAAAATAGCCTTTTCAAAAACACATAATTG
1 GGTTTTACTTAATATCAAAACTCAATAAATCAAACTAAAATAACCTTCTCAAAAACACATAATTG
22424197 AATAAAC
66 AATAAAC
* * * ** * * * *
22424204 AGTTCTACTTAATATCAAAATTCAATAAATTGAACTAAATTAACGTTTTAAAAAACACATAATTG
1 GGTTTTACTTAATATCAAAACTCAATAAATCAAACTAAAATAACCTTCTCAAAAACACATAATTG
* **
22424269 AACAAGT
66 AATAAAC
22424276 GGTTTTACTT
1 GGTTTTACTT
22424286 TGTATAATAG
Statistics
Matches: 180, Mismatches: 43, Indels: 7
0.78 0.19 0.03
Matches are distributed among these distances:
71 23 0.13
72 122 0.68
73 35 0.19
ACGTcount: A:0.46, C:0.14, G:0.07, T:0.33
Consensus pattern (72 bp):
GGTTTTACTTAATATCAAAACTCAATAAATCAAACTAAAATAACCTTCTCAAAAACACATAATTG
AATAAAC
Found at i:22427367 original size:43 final size:43
Alignment explanation
Indices: 22427301--22427383 Score: 148
Period size: 43 Copynumber: 1.9 Consensus size: 43
22427291 TGGTCCATAC
22427301 ATGATCGATTTAACTTTGATTACTTGCTAATATAGTTTGAATT
1 ATGATCGATTTAACTTTGATTACTTGCTAATATAGTTTGAATT
* *
22427344 ATGATCGATTTAACTTTGGTTACTTGCTAATATGGTTTGA
1 ATGATCGATTTAACTTTGATTACTTGCTAATATAGTTTGA
22427384 TTTTAATTTG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.28, C:0.10, G:0.17, T:0.46
Consensus pattern (43 bp):
ATGATCGATTTAACTTTGATTACTTGCTAATATAGTTTGAATT
Found at i:22431470 original size:3 final size:3
Alignment explanation
Indices: 22431462--22431533 Score: 92
Period size: 3 Copynumber: 24.3 Consensus size: 3
22431452 GAAAAAGGAA
* * * *
22431462 AAG AAG AAG AAT AAT AAG -AG GAG GAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
*
22431509 AAG AAG GAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG A
22431534 GAAAAATGGA
Statistics
Matches: 63, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
2 2 0.03
3 61 0.97
ACGTcount: A:0.62, C:0.00, G:0.35, T:0.03
Consensus pattern (3 bp):
AAG
Found at i:22432619 original size:21 final size:21
Alignment explanation
Indices: 22432595--22432667 Score: 87
Period size: 21 Copynumber: 3.5 Consensus size: 21
22432585 CTTATTGATA
22432595 AGTTGGGGCATTAGGTAACTG
1 AGTTGGGGCATTAGGTAACTG
* *
22432616 AGTTGGGGCAGCTT-GTTGA-TG
1 AGTTGGGGCA--TTAGGTAACTG
*
22432637 AGTTGGGGCACTAGGTAACTG
1 AGTTGGGGCATTAGGTAACTG
22432658 AGTTGGGGCA
1 AGTTGGGGCA
22432668 GCTTGTTGAG
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
19 1 0.02
20 3 0.07
21 34 0.79
22 3 0.07
23 2 0.05
ACGTcount: A:0.21, C:0.11, G:0.41, T:0.27
Consensus pattern (21 bp):
AGTTGGGGCATTAGGTAACTG
Found at i:22432641 original size:42 final size:42
Alignment explanation
Indices: 22432579--22432676 Score: 169
Period size: 42 Copynumber: 2.3 Consensus size: 42
22432569 TTTTCTCTTA
* *
22432579 GGGCAGCTTATTGATAAGTTGGGGCATTAGGTAACTGAGTTG
1 GGGCAGCTTGTTGATAAGTTGGGGCACTAGGTAACTGAGTTG
*
22432621 GGGCAGCTTGTTGATGAGTTGGGGCACTAGGTAACTGAGTTG
1 GGGCAGCTTGTTGATAAGTTGGGGCACTAGGTAACTGAGTTG
22432663 GGGCAGCTTGTTGA
1 GGGCAGCTTGTTGA
22432677 GTTGGGGTAC
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 53 1.00
ACGTcount: A:0.20, C:0.11, G:0.39, T:0.30
Consensus pattern (42 bp):
GGGCAGCTTGTTGATAAGTTGGGGCACTAGGTAACTGAGTTG
Found at i:22432702 original size:21 final size:21
Alignment explanation
Indices: 22432669--22432724 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
22432659 GTTGGGGCAG
*
22432669 CTTGTTGAGTTGGGGTA-CTCT
1 CTTGCTGAGTTGGGGTAGCT-T
*
22432690 CTTGCTGATTTGGGGTAGCTT
1 CTTGCTGAGTTGGGGTAGCTT
*
22432711 GTTGCTGAGTTGGG
1 CTTGCTGAGTTGGG
22432725 ACACCAACTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
21 28 0.93
22 2 0.07
ACGTcount: A:0.09, C:0.12, G:0.38, T:0.41
Consensus pattern (21 bp):
CTTGCTGAGTTGGGGTAGCTT
Found at i:22433175 original size:21 final size:21
Alignment explanation
Indices: 22433151--22433219 Score: 63
Period size: 21 Copynumber: 3.4 Consensus size: 21
22433141 TATTATGATT
22433151 ATTATTATGGTTTTATATTAA
1 ATTATTATGGTTTTATATTAA
**
22433172 ATTATTATAATTATTA-ATT-A
1 ATTATTATGGTT-TTATATTAA
* *
22433192 A-CATTATGGTTTTATATTAG
1 ATTATTATGGTTTTATATTAA
*
22433212 ATTGTTAT
1 ATTATTAT
22433220 TATTAGCATT
Statistics
Matches: 36, Mismatches: 8, Indels: 8
0.69 0.15 0.15
Matches are distributed among these distances:
18 3 0.08
19 10 0.28
20 3 0.08
21 17 0.47
22 3 0.08
ACGTcount: A:0.35, C:0.01, G:0.09, T:0.55
Consensus pattern (21 bp):
ATTATTATGGTTTTATATTAA
Found at i:22433370 original size:8 final size:8
Alignment explanation
Indices: 22433357--22433382 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
22433347 ATATTTGTTA
22433357 ATTAAATT
1 ATTAAATT
22433365 ATTAAATT
1 ATTAAATT
22433373 ATTAAATT
1 ATTAAATT
22433381 AT
1 AT
22433383 GAGATTTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (8 bp):
ATTAAATT
Found at i:22433632 original size:12 final size:12
Alignment explanation
Indices: 22433615--22433645 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
22433605 GAAGCAGGGG
22433615 AGAAAAAGAGAA
1 AGAAAAAGAGAA
*
22433627 AGAAAAAGGGAA
1 AGAAAAAGAGAA
22433639 AGAAAAA
1 AGAAAAA
22433646 TAAAAGAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (12 bp):
AGAAAAAGAGAA
Found at i:22437982 original size:15 final size:15
Alignment explanation
Indices: 22437950--22437999 Score: 64
Period size: 15 Copynumber: 3.3 Consensus size: 15
22437940 CTATCCTATT
**
22437950 AGACACATCACTTTC
1 AGACACATCACTACC
**
22437965 AGATGCATCACTACC
1 AGACACATCACTACC
22437980 AGACACATCACTACC
1 AGACACATCACTACC
22437995 AGACA
1 AGACA
22438000 TGTCTTATTC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 29 1.00
ACGTcount: A:0.38, C:0.34, G:0.10, T:0.18
Consensus pattern (15 bp):
AGACACATCACTACC
Found at i:22438324 original size:88 final size:89
Alignment explanation
Indices: 22438214--22438379 Score: 246
Period size: 89 Copynumber: 1.9 Consensus size: 89
22438204 ACACAACCAT
* * *
22438214 TTTTGCAACATACAATATAGCAGTTTGGATA-AAACAA-TGACAAATATATACAACAAACATCAG
1 TTTTGCAACATACAATATAGCAGCTTGGATACAAAAAATTG-CAAATATACACAACAAACATCAG
22438277 TTTGATAATGACATTCAAATTTTGA
65 TTTGATAATGACATTCAAATTTTGA
* * * *
22438302 TTTTGCCATATACAATATAGCAGCTTGGATACAAAAAATTGCAGATATACACAATAAACATCAGT
1 TTTTGCAACATACAATATAGCAGCTTGGATACAAAAAATTGCAAATATACACAACAAACATCAGT
22438367 TTGATAATGACAT
66 TTGATAATGACAT
22438380 CCATACAATT
Statistics
Matches: 69, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
88 28 0.41
89 39 0.57
90 2 0.03
ACGTcount: A:0.43, C:0.14, G:0.12, T:0.30
Consensus pattern (89 bp):
TTTTGCAACATACAATATAGCAGCTTGGATACAAAAAATTGCAAATATACACAACAAACATCAGT
TTGATAATGACATTCAAATTTTGA
Found at i:22438406 original size:48 final size:48
Alignment explanation
Indices: 22438338--22438460 Score: 183
Period size: 48 Copynumber: 2.6 Consensus size: 48
22438328 GGATACAAAA
* * *
22438338 AATTGCAGATATACACAATAAACATCAGTTTGATAATGACATCCATAC
1 AATTGCAGATACAAAAAATAAACATCAGTTTGATAATGACATCCATAC
* *
22438386 AATTGCAGATACAAAAAATAAACATTAGTTTGATAATGGCATCCATAC
1 AATTGCAGATACAAAAAATAAACATCAGTTTGATAATGACATCCATAC
* *
22438434 AATGGCAGATACAAATAATAAACATCA
1 AATTGCAGATACAAAAAATAAACATCA
22438461 TGCATATGGC
Statistics
Matches: 67, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 67 1.00
ACGTcount: A:0.47, C:0.16, G:0.11, T:0.25
Consensus pattern (48 bp):
AATTGCAGATACAAAAAATAAACATCAGTTTGATAATGACATCCATAC
Found at i:22438523 original size:6 final size:6
Alignment explanation
Indices: 22438514--22438661 Score: 73
Period size: 6 Copynumber: 23.7 Consensus size: 6
22438504 ATCCAAATTG
* * * ** * ** *
22438514 AAATCA AAATCA AAATCT AAAGCT AAATTG AGATCA AAATTG AAACCA
1 AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA
**
22438562 AAATCA AAATCA AAATCA ATGAGTATTTCA AAATTG AAATCA AAATCA
1 AAATCA AAATCA AAATCA A--A--A--TCA AAATCA AAATCA AAATCA
* * * * * *
22438610 AAAT-A GAAATCG AAATCA AAATCA GAATCA GAATCA GAATCA GAATCG
1 AAATCA -AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA
22438658 AAAT
1 AAAT
22438662 AACCTTAAAT
Statistics
Matches: 110, Mismatches: 24, Indels: 16
0.73 0.16 0.11
Matches are distributed among these distances:
5 1 0.01
6 101 0.92
8 2 0.02
10 2 0.02
12 4 0.04
ACGTcount: A:0.56, C:0.14, G:0.09, T:0.21
Consensus pattern (6 bp):
AAATCA
Found at i:22438567 original size:42 final size:41
Alignment explanation
Indices: 22438508--22438613 Score: 135
Period size: 42 Copynumber: 2.5 Consensus size: 41
22438498 ATCGAAATCC
*
22438508 AAATTGAAATCAAAATCAAAATCTAAAGCTAAATTGAG-A-TCA
1 AAATTGAAATCAAAATCAAAATC-AAA-ATAAA-TGAGTATTCA
* *
22438550 AAATTGAAACCAAAATCAAAATCAAAATCAATGAGTATTTCA
1 AAATTGAAATCAAAATCAAAATCAAAATAAATGAGTA-TTCA
22438592 AAATTGAAATCAAAATCAAAAT
1 AAATTGAAATCAAAATCAAAAT
22438614 AGAAATCGAA
Statistics
Matches: 57, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
39 4 0.07
40 4 0.07
41 3 0.05
42 46 0.81
ACGTcount: A:0.57, C:0.12, G:0.08, T:0.24
Consensus pattern (41 bp):
AAATTGAAATCAAAATCAAAATCAAAATAAATGAGTATTCA
Found at i:22439252 original size:30 final size:31
Alignment explanation
Indices: 22439187--22439255 Score: 79
Period size: 31 Copynumber: 2.3 Consensus size: 31
22439177 ACTGGTAATT
* * * *
22439187 AGTGACTATTTTGTCACTTTTTCATAACGTT
1 AGTGACTGTTTTGTAACTTTTTCATAAAGTG
22439218 AGTGACTGTTTTGTAAC-TTTTCA-AAAGTCG
1 AGTGACTGTTTTGTAACTTTTTCATAAAGT-G
22439248 AGTGACTG
1 AGTGACTG
22439256 AAATGAAACC
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
29 4 0.12
30 14 0.42
31 15 0.45
ACGTcount: A:0.25, C:0.14, G:0.19, T:0.42
Consensus pattern (31 bp):
AGTGACTGTTTTGTAACTTTTTCATAAAGTG
Found at i:22461760 original size:32 final size:30
Alignment explanation
Indices: 22461707--22461771 Score: 94
Period size: 32 Copynumber: 2.1 Consensus size: 30
22461697 ACTTATTTTA
*
22461707 TTGTTAATTTTGTTATTATTTTAAAGGCAT
1 TTGTTAATTTTATTATTATTTTAAAGGCAT
*
22461737 TTGTTAATTTATTATTATTATTTTAGAGGCAT
1 TTGTTAA-TT-TTATTATTATTTTAAAGGCAT
22461769 TTG
1 TTG
22461772 CTTGTTAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
30 7 0.23
31 2 0.06
32 22 0.71
ACGTcount: A:0.26, C:0.03, G:0.14, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTATTATTATTTTAAAGGCAT
Found at i:22465047 original size:28 final size:28
Alignment explanation
Indices: 22465009--22465064 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
22464999 TTAACCAAGA
22465009 AAATCACCTAGGCTTAACGGTTAAGTAG
1 AAATCACCTAGGCTTAACGGTTAAGTAG
*
22465037 AAATCACCTAGGCTTAATGGTTAAGTAG
1 AAATCACCTAGGCTTAACGGTTAAGTAG
22465065 TTAGTGCACT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.36, C:0.16, G:0.21, T:0.27
Consensus pattern (28 bp):
AAATCACCTAGGCTTAACGGTTAAGTAG
Found at i:22467744 original size:34 final size:34
Alignment explanation
Indices: 22467691--22467768 Score: 95
Period size: 34 Copynumber: 2.3 Consensus size: 34
22467681 TATTGATCCA
* *
22467691 TTATAAGCATATTATTTGCTA-TCGTATCGAATTG
1 TTATAAGCATATAAATTGCTACT-GTATCGAATTG
* * *
22467725 TTATGAGCATATAAATTGCTACTGTATTGATTTG
1 TTATAAGCATATAAATTGCTACTGTATCGAATTG
22467759 TTATAAGCAT
1 TTATAAGCAT
22467769 TCTATATTAC
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
34 36 0.97
35 1 0.03
ACGTcount: A:0.31, C:0.10, G:0.15, T:0.44
Consensus pattern (34 bp):
TTATAAGCATATAAATTGCTACTGTATCGAATTG
Found at i:22469899 original size:34 final size:30
Alignment explanation
Indices: 22469861--22469952 Score: 99
Period size: 26 Copynumber: 3.2 Consensus size: 30
22469851 TAAATTTTAT
22469861 TAATATTATGATATTTTAATAAAAGTATAAAAAA
1 TAATATTAT--TA-TTT-ATAAAAGTATAAAAAA
22469895 T-A-A-TATTATTTATAAAAGTATAAAAAA
1 TAATATTATTATTTATAAAAGTATAAAAAA
22469922 TAATATT-TTA---ATAAAAGTATAAAAAA
1 TAATATTATTATTTATAAAAGTATAAAAAA
22469948 TAATA
1 TAATA
22469953 AAAGTATAAA
Statistics
Matches: 55, Mismatches: 0, Indels: 14
0.80 0.00 0.20
Matches are distributed among these distances:
26 21 0.38
27 17 0.31
28 4 0.07
29 6 0.11
30 1 0.02
31 3 0.05
32 1 0.02
33 1 0.02
34 1 0.02
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (30 bp):
TAATATTATTATTTATAAAAGTATAAAAAA
Found at i:22469912 original size:27 final size:26
Alignment explanation
Indices: 22469871--22469952 Score: 146
Period size: 26 Copynumber: 3.1 Consensus size: 26
22469861 TAATATTATG
22469871 ATATTTTAATAAAAGTATAAAAAATA
1 ATATTTTAATAAAAGTATAAAAAATA
*
22469897 ATATTATTTATAAAAGTATAAAAAATA
1 ATATT-TTAATAAAAGTATAAAAAATA
22469924 ATATTTTAATAAAAGTATAAAAAATA
1 ATATTTTAATAAAAGTATAAAAAATA
22469950 ATA
1 ATA
22469953 AAAGTATAAA
Statistics
Matches: 53, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
26 28 0.53
27 25 0.47
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (26 bp):
ATATTTTAATAAAAGTATAAAAAATA
Found at i:22469951 original size:18 final size:18
Alignment explanation
Indices: 22469930--22469964 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
22469920 AATAATATTT
22469930 TAATAAAAGTATAAAAAA
1 TAATAAAAGTATAAAAAA
22469948 TAATAAAAGTATAAAAA
1 TAATAAAAGTATAAAAA
22469965 CCAAAGTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.23
Consensus pattern (18 bp):
TAATAAAAGTATAAAAAA
Found at i:22469961 original size:26 final size:26
Alignment explanation
Indices: 22469879--22469963 Score: 109
Period size: 26 Copynumber: 3.2 Consensus size: 26
22469869 TGATATTTTA
*
22469879 ATAAAAGTATAAAAAATAATATTATTT
1 ATAAAAGTATAAAAAATAATA-AATTT
*
22469906 ATAAAAGTATAAAAAATAAT-ATTTT
1 ATAAAAGTATAAAAAATAATAAATTT
**
22469931 AATAAAAGTATAAAAAATAATAAAAGT
1 -ATAAAAGTATAAAAAATAATAAATTT
22469958 ATAAAA
1 ATAAAA
22469964 ACCAAAGTTT
Statistics
Matches: 51, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
25 3 0.06
26 26 0.51
27 22 0.43
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.31
Consensus pattern (26 bp):
ATAAAAGTATAAAAAATAATAAATTT
Found at i:22469964 original size:27 final size:27
Alignment explanation
Indices: 22469879--22469953 Score: 107
Period size: 27 Copynumber: 2.8 Consensus size: 27
22469869 TGATATTTTA
* *
22469879 ATAAAAGTATAAAAAATAATATTATTT
1 ATAAAAGTATAAAAAATAATAATATAT
* *
22469906 ATAAAAGTATAAAAAATAATATTTTA-
1 ATAAAAGTATAAAAAATAATAATATAT
22469932 ATAAAAGTATAAAAAATAATAA
1 ATAAAAGTATAAAAAATAATAA
22469954 AAGTATAAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
26 21 0.47
27 24 0.53
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (27 bp):
ATAAAAGTATAAAAAATAATAATATAT
Found at i:22487887 original size:25 final size:23
Alignment explanation
Indices: 22487835--22487889 Score: 58
Period size: 25 Copynumber: 2.3 Consensus size: 23
22487825 TATAAATAGT
22487835 AATAGTGTTAGAAATATACTATA
1 AATAGTGTTAGAAATATACTATA
* *
22487858 TATAGTGTTTGAAGTATATAC-ATAA
1 AATAGTGTTAGAA--ATATACTAT-A
22487883 AATAGTG
1 AATAGTG
22487890 AAAATATAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 11 0.42
24 2 0.08
25 13 0.50
ACGTcount: A:0.44, C:0.04, G:0.16, T:0.36
Consensus pattern (23 bp):
AATAGTGTTAGAAATATACTATA
Found at i:22488037 original size:21 final size:22
Alignment explanation
Indices: 22488000--22488044 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
22487990 ATATTAAAAT
*
22488000 AAAATAATAAGTGATAATAGTA
1 AAAATAATAAGTGATAATAATA
*
22488022 AAAATAATAGGT-ATAATAATA
1 AAAATAATAAGTGATAATAATA
22488043 AA
1 AA
22488045 TATGATAATG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 10 0.48
22 11 0.52
ACGTcount: A:0.62, C:0.00, G:0.11, T:0.27
Consensus pattern (22 bp):
AAAATAATAAGTGATAATAATA
Done.