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 61 of 318
Found at i:21792392 original size:122 final size:122
Alignment explanation
Indices: 21792170--21792426 Score: 471
Period size: 122 Copynumber: 2.1 Consensus size: 122
21792160 TCTAATGCAG
* *
21792170 CATATAACTAAATTAACATCAAAATAATAGAAAGGACTAAACTAAAGAGGAATGTTATAACAGAA
1 CATACAACTAAATTAACATCAAAATAATAGAAAGGACTAAACTAAAGAGCAATGTTATAACAGAA
21792235 AGACTGCAGTTATTATTGACTTAAAAGATACCATATGGTCTATCTTGTTACTTAGGT
66 AGACTGCAGTTATTATTGACTTAAAAGATACCATATGGTCTATCTTGTTACTTAGGT
21792292 CATACAACTAAATTAACATCAAAATAATA-AAATGGACTAAACTAAAGAGCAATGTTATAACAGA
1 CATACAACTAAATTAACATCAAAATAATAGAAA-GGACTAAACTAAAGAGCAATGTTATAACAGA
21792356 AAGACTGCAGTTATTATTGACTTAAAAGATACCATATGGTCTATCTTGTTACTTAGGT
65 AAGACTGCAGTTATTATTGACTTAAAAGATACCATATGGTCTATCTTGTTACTTAGGT
*
21792414 CATACAAATAAAT
1 CATACAACTAAAT
21792427 AGTGATCAAT
Statistics
Matches: 131, Mismatches: 3, Indels: 2
0.96 0.02 0.01
Matches are distributed among these distances:
121 3 0.02
122 128 0.98
ACGTcount: A:0.44, C:0.13, G:0.13, T:0.29
Consensus pattern (122 bp):
CATACAACTAAATTAACATCAAAATAATAGAAAGGACTAAACTAAAGAGCAATGTTATAACAGAA
AGACTGCAGTTATTATTGACTTAAAAGATACCATATGGTCTATCTTGTTACTTAGGT
Found at i:21822183 original size:23 final size:22
Alignment explanation
Indices: 21822157--21822218 Score: 65
Period size: 23 Copynumber: 2.8 Consensus size: 22
21822147 AATTAATTAA
21822157 TTAATTATTAATTTATTAATATT
1 TTAATTATTAATTTATT-ATATT
*
21822180 TTAATT-TGACATTTAATTATATT
1 TTAATTATTA-ATTT-ATTATATT
*
21822203 TT-ATTATTATTTTATT
1 TTAATTATTAATTTATT
21822219 TAGTATATAA
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
21 3 0.09
22 8 0.24
23 19 0.58
24 3 0.09
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.63
Consensus pattern (22 bp):
TTAATTATTAATTTATTATATT
Found at i:21822961 original size:19 final size:20
Alignment explanation
Indices: 21822937--21822975 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
21822927 TCTCATTTTT
21822937 TATTTGTTTCT-TGTTTTAA
1 TATTTGTTTCTATGTTTTAA
*
21822956 TATTTGTTTTTATGTTTTAA
1 TATTTGTTTCTATGTTTTAA
21822976 AATGTATTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.18, C:0.03, G:0.10, T:0.69
Consensus pattern (20 bp):
TATTTGTTTCTATGTTTTAA
Found at i:21822984 original size:24 final size:26
Alignment explanation
Indices: 21822956--21823004 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
21822946 CTTGTTTTAA
*
21822956 TATTTG-TTT-TTATGTTTTAAAATG
1 TATTTGATTTATTATATTTTAAAATG
21822980 TATTTGATTTATTATATTTTAAAAT
1 TATTTGATTTATTATATTTTAAAAT
21823005 TTTTTATTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 6 0.27
25 3 0.14
26 13 0.59
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.61
Consensus pattern (26 bp):
TATTTGATTTATTATATTTTAAAATG
Found at i:21824715 original size:24 final size:24
Alignment explanation
Indices: 21824688--21824740 Score: 97
Period size: 24 Copynumber: 2.2 Consensus size: 24
21824678 GATAATCTAA
21824688 ACAATATCGACAATAACTCAAGCC
1 ACAATATCGACAATAACTCAAGCC
21824712 ACAATATCGACAATAACTCAAGCC
1 ACAATATCGACAATAACTCAAGCC
*
21824736 TCAAT
1 ACAAT
21824741 CTCTAGTAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.45, C:0.28, G:0.08, T:0.19
Consensus pattern (24 bp):
ACAATATCGACAATAACTCAAGCC
Found at i:21829369 original size:14 final size:14
Alignment explanation
Indices: 21829350--21829376 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
21829340 GTCGATACAT
21829350 TAAATATTTATTTA
1 TAAATATTTATTTA
21829364 TAAATATTTATTT
1 TAAATATTTATTT
21829377 TTCTTGTAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
TAAATATTTATTTA
Found at i:21832356 original size:3 final size:3
Alignment explanation
Indices: 21832348--21832372 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
21832338 GTGGATGGAC
21832348 AGG AGG AGG AGG AGG AGG AGG AGG A
1 AGG AGG AGG AGG AGG AGG AGG AGG A
21832373 AAAAATATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.64, T:0.00
Consensus pattern (3 bp):
AGG
Found at i:21839311 original size:42 final size:42
Alignment explanation
Indices: 21839244--21839363 Score: 152
Period size: 43 Copynumber: 2.8 Consensus size: 42
21839234 TGAGTTACTA
* * * *
21839244 AGACTACGTGTAAGACTATATCTGGGATATGGCATCGATATG
1 AGACTTCGTGTAAGACCATATCTGGGATATGGCATCAATACG
* *
21839286 AGACTTCGTGTAAGACCATAGCTGGGCTATTGGCATCAATACG
1 AGACTTCGTGTAAGACCATATCTGGGATA-TGGCATCAATACG
*
21839329 AGA-TTACATGTAAGACCATATCTGGGATATGGCAT
1 AGACTT-CGTGTAAGACCATATCTGGGATATGGCAT
21839364 TAGTATGGTA
Statistics
Matches: 67, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
42 33 0.49
43 34 0.51
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.28
Consensus pattern (42 bp):
AGACTTCGTGTAAGACCATATCTGGGATATGGCATCAATACG
Found at i:21841747 original size:30 final size:30
Alignment explanation
Indices: 21841711--21841772 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
21841701 GTAAACTAAC
21841711 TTTAACGGAT-ACTGAATCAGACATTAAATG
1 TTTAAC-GATCACTGAATCAGACATTAAATG
21841741 TTTAACGATCACTGAATCAGACATTAAATG
1 TTTAACGATCACTGAATCAGACATTAAATG
21841771 TT
1 TT
21841773 AATAGTATCG
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 3 0.10
30 28 0.90
ACGTcount: A:0.39, C:0.15, G:0.15, T:0.32
Consensus pattern (30 bp):
TTTAACGATCACTGAATCAGACATTAAATG
Found at i:21856374 original size:6 final size:7
Alignment explanation
Indices: 21856355--21856383 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
21856345 TACTTCGTGT
21856355 TTAAAAA
1 TTAAAAA
21856362 TTAAAAA
1 TTAAAAA
21856369 TTAAAAA
1 TTAAAAA
21856376 TTAAAAA
1 TTAAAAA
21856383 T
1 T
21856384 AACCCATCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (7 bp):
TTAAAAA
Found at i:21856785 original size:26 final size:26
Alignment explanation
Indices: 21856736--21856785 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
21856726 TATATTTTAA
* *
21856736 ATAATTAAAATATATAATTATTATTT
1 ATAATTAAAATAAATAAGTATTATTT
21856762 ATAATTAAAATAAATTAAGT-TTAT
1 ATAATTAAAATAAA-TAAGTATTAT
21856786 GATTTAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
26 17 0.81
27 4 0.19
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (26 bp):
ATAATTAAAATAAATAAGTATTATTT
Found at i:21856984 original size:25 final size:23
Alignment explanation
Indices: 21856956--21857005 Score: 55
Period size: 23 Copynumber: 2.1 Consensus size: 23
21856946 AAATTATTAG
*
21856956 TAATTATTAAACAATATTATATTTT
1 TAATAATTAAA-AAT-TTATATTTT
* *
21856981 TAATAATTTAAGATTTATATTTT
1 TAATAATTAAAAATTTATATTTT
21857004 TA
1 TA
21857006 TGATATTAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
23 11 0.50
24 2 0.09
25 9 0.41
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (23 bp):
TAATAATTAAAAATTTATATTTT
Found at i:21862813 original size:30 final size:31
Alignment explanation
Indices: 21862770--21862852 Score: 80
Period size: 30 Copynumber: 2.6 Consensus size: 31
21862760 AAGACATCAC
* *
21862770 ATCATCTTGAATTTTTTATTA-ATTATTTA-AT
1 ATCAT-TTAAATTTTTT-TTATATTATTGATAT
*
21862801 ATCATTTAAATTTTTTTTATGTTATTGATAT
1 ATCATTTAAATTTTTTTTATATTATTGATAT
*
21862832 ATCATTTTAATAATTTTTTTA
1 ATCA-TTTAA-ATTTTTTTTA
21862853 AAATTGAACT
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
29 3 0.07
30 16 0.36
31 11 0.25
32 5 0.11
33 9 0.20
ACGTcount: A:0.31, C:0.05, G:0.04, T:0.60
Consensus pattern (31 bp):
ATCATTTAAATTTTTTTTATATTATTGATAT
Found at i:21863431 original size:18 final size:18
Alignment explanation
Indices: 21863387--21863423 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
21863377 AAATAGAACG
21863387 CCGAAATAAGTTAGTACT
1 CCGAAATAAGTTAGTACT
*
21863405 CCGAAATAAGTTGGTACT
1 CCGAAATAAGTTAGTACT
21863423 C
1 C
21863424 GTATATAACA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.27
Consensus pattern (18 bp):
CCGAAATAAGTTAGTACT
Found at i:21864248 original size:6 final size:6
Alignment explanation
Indices: 21864237--21864264 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
21864227 AAAAGTTTTA
21864237 AAAAAT AAAAAT AAAAAT AAAAAT AAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAA
21864265 GCTCGATTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (6 bp):
AAAAAT
Found at i:21865357 original size:130 final size:128
Alignment explanation
Indices: 21865107--21865387 Score: 465
Period size: 130 Copynumber: 2.2 Consensus size: 128
21865097 TAAGTGGCAG
* * *
21865107 ACTACAAATTAACCCTTAAAAAATTAATGTTGTTAAGAAATTGAGACTGTGTGATGGAATGCAAG
1 ACTACATATTAACCCTTAAATAATTAATGTTGTTAAGAAATTGAGACTGTGTGATGGAATACAAG
*
21865172 TTTAGGTAATACAAAAAAAAAATCAAATACTAATTAATACCTTTGGATAAGTTCAAGAAATAA
66 TTTAGGTAATACAAAAAAAAAATCAAATACTAATAAATACCTTTGGATAAGTTCAAGAAATAA
* *
21865235 ACTACATATTAACCATTAAATAATTAATGTTGTTAAGAAATTGAGACTGTGTGTGGTGGAATACA
1 ACTACATATTAACCCTTAAATAATTAATGTTGTTAAGAAATTGAGAC--TGTGTGATGGAATACA
21865300 AGTTTAGGTAATAC-AAAAAAAAATCAAATACTAACTAAATACCTTTGGATAAGTTCAAGAAATA
64 AGTTTAGGTAATACAAAAAAAAAATCAAATACTAA-TAAATACCTTTGGATAAGTTCAAGAAATA
21865364 A
128 A
*
21865365 TCTACATATTAACCCTTAAATAA
1 ACTACATATTAACCCTTAAATAA
21865388 ATATTAGTAA
Statistics
Matches: 142, Mismatches: 8, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
128 44 0.31
129 20 0.14
130 78 0.55
ACGTcount: A:0.46, C:0.11, G:0.13, T:0.30
Consensus pattern (128 bp):
ACTACATATTAACCCTTAAATAATTAATGTTGTTAAGAAATTGAGACTGTGTGATGGAATACAAG
TTTAGGTAATACAAAAAAAAAATCAAATACTAATAAATACCTTTGGATAAGTTCAAGAAATAA
Found at i:21866251 original size:37 final size:38
Alignment explanation
Indices: 21866205--21866279 Score: 143
Period size: 37 Copynumber: 2.0 Consensus size: 38
21866195 AGAATTTAAG
21866205 CCATTCATTTAATACATATTTTAAACTT-GAAAAACAA
1 CCATTCATTTAATACATATTTTAAACTTAGAAAAACAA
21866242 CCATTCATTTAATACATATTTTAAACTTAGAAAAACAA
1 CCATTCATTTAATACATATTTTAAACTTAGAAAAACAA
21866280 TTTCATCATA
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
37 28 0.76
38 9 0.24
ACGTcount: A:0.47, C:0.16, G:0.03, T:0.35
Consensus pattern (38 bp):
CCATTCATTTAATACATATTTTAAACTTAGAAAAACAA
Found at i:21877045 original size:4 final size:4
Alignment explanation
Indices: 21877036--21877062 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
21877026 GTAGATGTTG
21877036 TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT
21877063 TGGTAATTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:21878967 original size:25 final size:25
Alignment explanation
Indices: 21878939--21879085 Score: 73
Period size: 25 Copynumber: 6.0 Consensus size: 25
21878929 TAAAATATTT
* * *
21878939 TTATTTATA-TGAGTTATTTCATATA
1 TTATTTATATTAAATTATTT-AAATA
21878964 TTA-TTATATTAAATTATTTAAATA
1 TTATTTATATTAAATTATTTAAATA
21878988 TTATTTATTATTATTAATT-TTTAAA-A
1 TTATTTA-TATTA--AATTATTTAAATA
*
21879014 -TATTT-TA-AAATATTATTTAAATA
1 TTATTTATATTAA-ATTATTTAAATA
**
21879037 -TATTTA-A--AAATTATATTTCATA
1 TTATTTATATTAAATTAT-TTAAATA
* * *
21879059 TATAATTATATTAAAATATTAAAATA
1 T-TATTTATATTAAATTATTTAAATA
21879085 T
1 T
21879086 CATATATCTT
Statistics
Matches: 96, Mismatches: 11, Indels: 29
0.71 0.08 0.21
Matches are distributed among these distances:
20 1 0.01
21 8 0.08
22 14 0.15
23 9 0.09
24 17 0.18
25 20 0.21
26 11 0.11
27 12 0.12
28 4 0.04
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.53
Consensus pattern (25 bp):
TTATTTATATTAAATTATTTAAATA
Found at i:21878991 original size:21 final size:20
Alignment explanation
Indices: 21878965--21879050 Score: 65
Period size: 21 Copynumber: 4.3 Consensus size: 20
21878955 TTTCATATAT
21878965 TATTATATTAAATTATTTAAA
1 TATTAT-TTAAATTATTTAAA
*
21878986 TATTATTT--ATTA-TT-AT
1 TATTATTTAAATTATTTAAA
*
21879002 TAATT-TTTAAAATATTTTAAAA
1 T-ATTATTTAAATTA-TTT-AAA
21879024 TATTATTTAAATATATTTAAA
1 TATTATTTAAAT-TATTTAAA
*
21879045 AATTAT
1 TATTAT
21879051 ATTTCATATA
Statistics
Matches: 51, Mismatches: 5, Indels: 18
0.69 0.07 0.24
Matches are distributed among these distances:
16 5 0.10
17 5 0.10
18 7 0.14
20 4 0.08
21 17 0.33
22 11 0.22
23 2 0.04
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
TATTATTTAAATTATTTAAA
Found at i:21878996 original size:28 final size:28
Alignment explanation
Indices: 21878922--21879017 Score: 80
Period size: 28 Copynumber: 3.6 Consensus size: 28
21878912 AGGTATTTAA
*
21878922 AAATTATTAAAATATT-TTTATT-TATAT
1 AAATTATTTAAATATTATTTATTATAT-T
* * *
21878949 GAGTTATTT-CATA-TA-TTATTATATT
1 AAATTATTTAAATATTATTTATTATATT
21878974 AAATTATTTAAATATTATTTATTATTATT
1 AAATTATTTAAATATTATTTATTA-TATT
21879003 -AATT-TTTAAAATATT
1 AAATTATTT-AAATATT
21879018 TTAAAATATT
Statistics
Matches: 55, Mismatches: 7, Indels: 13
0.73 0.09 0.17
Matches are distributed among these distances:
25 14 0.25
26 9 0.16
27 11 0.20
28 17 0.31
29 4 0.07
ACGTcount: A:0.41, C:0.01, G:0.02, T:0.56
Consensus pattern (28 bp):
AAATTATTTAAATATTATTTATTATATT
Found at i:21879017 original size:52 final size:49
Alignment explanation
Indices: 21878917--21879042 Score: 125
Period size: 52 Copynumber: 2.5 Consensus size: 49
21878907 GATTTAGGTA
* * * *
21878917 TTTAAAAATTATTAAAATATT-TTTATTTATATGAGTTATTTCATATAT
1 TTTAAAAATTATTTAAATATTATTTATTTATATGAATTATTTAAAATAT
*
21878965 TATTATATTAAATTATTTAAATATTATTTA-TTATTATTAATT-TTTAAAATAT
1 T-TTA-A--AAATTATTTAAATATTATTTATTTA-TATGAATTATTTAAAATAT
21879017 TTTAAAATATTATTTAAATA-TATTTA
1 TTTAAAA-ATTATTTAAATATTATTTA
21879043 AAAATTATAT
Statistics
Matches: 66, Mismatches: 5, Indels: 14
0.78 0.06 0.16
Matches are distributed among these distances:
48 9 0.14
49 15 0.23
50 2 0.03
51 3 0.05
52 27 0.41
53 10 0.15
ACGTcount: A:0.42, C:0.01, G:0.02, T:0.56
Consensus pattern (49 bp):
TTTAAAAATTATTTAAATATTATTTATTTATATGAATTATTTAAAATAT
Found at i:21879061 original size:22 final size:22
Alignment explanation
Indices: 21879011--21879050 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
21879001 TTAATTTTTA
21879011 AAATAT-TTTAAAATATTATTT
1 AAATATATTTAAAATATTATTT
21879032 AAATATATTTAAAA-ATTAT
1 AAATATATTTAAAATATTAT
21879051 ATTTCATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (22 bp):
AAATATATTTAAAATATTATTT
Found at i:21879065 original size:59 final size:59
Alignment explanation
Indices: 21878965--21879090 Score: 145
Period size: 59 Copynumber: 2.1 Consensus size: 59
21878955 TTTCATATAT
* *
21878965 TATTATATTAAATTATTTAAATATTATTTATTATTATTAATT-T-TTAAAATATTTTAAAA
1 TATTATATTAAATTATTTAAAAATTATTTATCATTATTAATTATATTAAAATA--TTAAAA
21879024 TATTAT-TTAAATATATTTAAAAATTATATT-TCA-TATATAATTATATTAAAATATTAAAA
1 TATTATATTAAAT-TATTTAAAAATTAT-TTATCATTAT-TAATTATATTAAAATATTAAAA
*
21879083 TATCATAT
1 TATTATAT
21879091 ATCTTAATTA
Statistics
Matches: 58, Mismatches: 3, Indels: 11
0.81 0.04 0.15
Matches are distributed among these distances:
58 9 0.16
59 37 0.64
60 4 0.07
61 8 0.14
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (59 bp):
TATTATATTAAATTATTTAAAAATTATTTATCATTATTAATTATATTAAAATATTAAAA
Found at i:21884111 original size:46 final size:46
Alignment explanation
Indices: 21884058--21884381 Score: 452
Period size: 46 Copynumber: 7.0 Consensus size: 46
21884048 GTGTGCTCTC
* *
21884058 TGATATGAAATGTGTAAAACCATGGTTGAAAGATACCATGGCAGCT
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGCA
*
21884104 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGCC
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGCA
* *
21884150 TGATATGAAATGTGCAAGACCATGGTTGAAAGATACCATGGCAGCC
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGCA
21884196 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGCA
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGCA
* * * *
21884242 TGATATAAAATGTGTAAGACCATGGTTGAAAGATACCGTGGCAACG
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGCA
* *** *
21884288 TGTTATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGCA
* * * * * *
21884334 TGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCA
1 TGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGCA
21884380 TG
1 TG
21884382 TCAAAGATAA
Statistics
Matches: 253, Mismatches: 24, Indels: 2
0.91 0.09 0.01
Matches are distributed among these distances:
45 1 0.00
46 252 1.00
ACGTcount: A:0.38, C:0.15, G:0.25, T:0.23
Consensus pattern (46 bp):
TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGCA
Found at i:21885167 original size:13 final size:14
Alignment explanation
Indices: 21885138--21885169 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
21885128 TGTTTCACTG
21885138 AAAATAATTTCCAA
1 AAAATAATTTCCAA
*
21885152 AAAATAATTTCTAA
1 AAAATAATTTCCAA
21885166 AAAA
1 AAAA
21885170 GCAAATATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.62, C:0.09, G:0.00, T:0.28
Consensus pattern (14 bp):
AAAATAATTTCCAA
Found at i:21885639 original size:15 final size:15
Alignment explanation
Indices: 21885619--21885675 Score: 53
Period size: 15 Copynumber: 3.6 Consensus size: 15
21885609 ATTATAAAAC
21885619 ATTTATTATTAATAT
1 ATTTATTATTAATAT
*
21885634 ATTTATAATTGTAATAAAT
1 ATTTATTA-T-TAAT--AT
*
21885653 ATTTATTATTAAAAT
1 ATTTATTATTAATAT
21885668 A-TTATTAT
1 ATTTATTAT
21885676 CGAATATTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 9
0.74 0.06 0.19
Matches are distributed among these distances:
14 7 0.20
15 10 0.29
16 1 0.03
17 7 0.20
18 1 0.03
19 9 0.26
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
ATTTATTATTAATAT
Found at i:21885734 original size:16 final size:16
Alignment explanation
Indices: 21885703--21885739 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
21885693 ATATGAATAA
21885703 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
21885719 TATT-TTTAAAATTTAT
1 TATTATTTAAAA-TTAT
21885735 TATTA
1 TATTA
21885740 AAATAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:21885806 original size:16 final size:17
Alignment explanation
Indices: 21885780--21885811 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
21885770 AAAATAACAA
21885780 AATATATTTATTATATT
1 AATATATTTATTATATT
21885797 AATA-ATTTATTATAT
1 AATATATTTATTATAT
21885812 GACTAAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
AATATATTTATTATATT
Found at i:21886794 original size:60 final size:59
Alignment explanation
Indices: 21886669--21886797 Score: 150
Period size: 60 Copynumber: 2.2 Consensus size: 59
21886659 ACAACTTTCA
* * ** *
21886669 AATAGTTCATTAACCATTTTGTAGCCTTTTGAAGTTGAGTGATTAAAGCATAAGCTTTT
1 AATAGTTCAGTAACCATTTTGTAGCCTTTTAAAGTTGAGTGATTAAAGCATAAAATTCT
* ** **
21886728 AGATAGTTTAGTAACCATTTTGTAGTTTTTTAAAGTTGAGTGATTAAAGTGTAAAATTACT
1 A-ATAGTTCAGTAACCATTTTGTAGCCTTTTAAAGTTGAGTGATTAAAGCATAAAATT-CT
21886789 AATAGTTCA
1 AATAGTTCA
21886798 ATGACCTTAG
Statistics
Matches: 57, Mismatches: 11, Indels: 3
0.80 0.15 0.04
Matches are distributed among these distances:
59 1 0.02
60 54 0.95
61 2 0.04
ACGTcount: A:0.33, C:0.09, G:0.17, T:0.41
Consensus pattern (59 bp):
AATAGTTCAGTAACCATTTTGTAGCCTTTTAAAGTTGAGTGATTAAAGCATAAAATTCT
Found at i:21888306 original size:8 final size:9
Alignment explanation
Indices: 21888284--21888318 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
21888274 TTTTTAAAAA
21888284 ATATTTTTT
1 ATATTTTTT
21888293 ATATTTTTT
1 ATATTTTTT
21888302 A-A-TTTTT
1 ATATTTTTT
21888309 ATATTTTTT
1 ATATTTTTT
21888318 A
1 A
21888319 AAATTTTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
7 6 0.25
8 2 0.08
9 16 0.67
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (9 bp):
ATATTTTTT
Found at i:21888309 original size:16 final size:16
Alignment explanation
Indices: 21888288--21888319 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
21888278 TAAAAAATAT
21888288 TTTTTATATTTTTTAA
1 TTTTTATATTTTTTAA
21888304 TTTTTATATTTTTTAA
1 TTTTTATATTTTTTAA
21888320 AATTTTTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (16 bp):
TTTTTATATTTTTTAA
Found at i:21888317 original size:18 final size:18
Alignment explanation
Indices: 21888286--21888339 Score: 56
Period size: 18 Copynumber: 3.1 Consensus size: 18
21888276 TTTAAAAAAT
**
21888286 ATTTTT-TATATTTTTTA
1 ATTTTTATATATTTTAAA
*
21888303 ATTTTTATATTTTTTAAA
1 ATTTTTATATATTTTAAA
* *
21888321 ATTTTTAAAAATTTTAAA
1 ATTTTTATATATTTTAAA
21888339 A
1 A
21888340 ATAATTAAAT
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
17 6 0.20
18 24 0.80
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (18 bp):
ATTTTTATATATTTTAAA
Found at i:21900551 original size:25 final size:24
Alignment explanation
Indices: 21900523--21900578 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 24
21900513 TATTTAAAAC
21900523 TAAAGATATTTTGATTATACAATTT-
1 TAAAGATATTTTGATT-TA-AATTTG
**
21900548 TAAATTTATTTTGATTTAAATTTG
1 TAAAGATATTTTGATTTAAATTTG
21900572 TAAAGAT
1 TAAAGAT
21900579 CATTCTAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
23 5 0.19
24 7 0.27
25 14 0.54
ACGTcount: A:0.39, C:0.02, G:0.09, T:0.50
Consensus pattern (24 bp):
TAAAGATATTTTGATTTAAATTTG
Found at i:21904293 original size:5 final size:5
Alignment explanation
Indices: 21904283--21904322 Score: 80
Period size: 5 Copynumber: 8.0 Consensus size: 5
21904273 TTTCTTTTAT
21904283 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
21904323 CTTAATTATT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 35 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATATA
Found at i:21907829 original size:88 final size:89
Alignment explanation
Indices: 21907683--21908002 Score: 214
Period size: 86 Copynumber: 3.7 Consensus size: 89
21907673 GCCTACTCCA
* * * * * *
21907683 CTACTGCTTAGGGAGATAGGGTCTACAATTTCTAGCCTGTTACCTTATTGCTTAAGGGG-TTAAG
1 CTACTGCTTAGGGAGATAAGATCTAAAATTTCTAGCCTATTACCCTACTGCTTAAGGGGTTTAAG
*
21907747 GCTCGTCGTCTTCGATCTATTTCC
66 GCCCGTCGTCTTCGATCTATTTCC
* *
21907771 CTACTGCTTAGGGTGATAAGATCTATAAATTT-TCAGCCTATTACCCTACTG-TTTAGGGGTTTA
1 CTACTGCTTAGGGAGATAAGATCTA-AAATTTCT-AGCCTATTACCCTACTGCTTAAGGGGTTTA
* * **
21907834 AGGCCCTTCGTCTTTGATCT-GCTCC
64 AGGCCCGTCGTCTTCGATCTATTTCC
*** ** * * ** * * *
21907859 ACTACAATTTCAGGGAGGCAAAATTTGCAA-TT-TGGTCTGTTACCCTACCT-CTT-A-GGGTTT
1 -CTACTGCTT-AGGGAGATAAGATCTAAAATTTCTAGCCTATTACCCTA-CTGCTTAAGGGGTTT
* * *
21907919 AAGACCCTTCGTCTTCGATCTGTTTCC
63 AAGGCCCGTCGTCTTCGATCTATTTCC
* * * *
21907946 CTACTGCTTAGGGGGTTAAGATCTGGAAA-TTC-AGCCTATTACCCTACTG-TTTAGGGG
1 CTACTGCTTAGGGAGATAAGATCT-AAAATTTCTAGCCTATTACCCTACTGCTTAAGGGG
21908003 AACAGGATGG
Statistics
Matches: 177, Mismatches: 42, Indels: 27
0.72 0.17 0.11
Matches are distributed among these distances:
85 14 0.08
86 48 0.27
87 18 0.10
88 40 0.23
89 47 0.27
90 10 0.06
ACGTcount: A:0.21, C:0.22, G:0.21, T:0.36
Consensus pattern (89 bp):
CTACTGCTTAGGGAGATAAGATCTAAAATTTCTAGCCTATTACCCTACTGCTTAAGGGGTTTAAG
GCCCGTCGTCTTCGATCTATTTCC
Found at i:21907988 original size:86 final size:87
Alignment explanation
Indices: 21907752--21908002 Score: 217
Period size: 86 Copynumber: 2.9 Consensus size: 87
21907742 TTAAGGCTCG
* * *
21907752 TCGTCTTCGATCTATTTCCCTACTGCTTAGGGTGATAAGATCTATAAATTTTCAGCCTATTACCC
1 TCGTCTTCGATCTGTTTCCCTACTGCTTAGGG-GGTAAGATCTAGAAA--TTCAGCCTATTACCC
* *
21907817 TA-CTGTTTAGGGGTTTAAGGCCCT
63 TACCTGCTTAGGGGTTTAAGACCCT
* * *** * * * * ** * *
21907841 TCGTCTTTGATCTG-CTCCACTACAATTTCAGGGAGGCAAAAT-TTGCAATTTGGTCTGTTACCC
1 TCGTCTTCGATCTGTTTCC-CTACTGCTT-AGGG-GGTAAGATCTAGAAATTCAGCCTATTACCC
21907904 TACCT-CTTA-GGGTTTAAGACCCT
63 TACCTGCTTAGGGGTTTAAGACCCT
*
21907927 TCGTCTTCGATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGGAAATTCAGCCTATTACCCTA
1 TCGTCTTCGATCTGTTTCCCTACTGCTTAGGGGG-TAAGATCTAGAAATTCAGCCTATTACCCTA
*
21907992 -CTGTTTAGGGG
65 CCTGCTTAGGGG
21908003 AACAGGATGG
Statistics
Matches: 121, Mismatches: 33, Indels: 18
0.70 0.19 0.10
Matches are distributed among these distances:
84 2 0.02
85 10 0.08
86 52 0.43
87 22 0.18
88 5 0.04
89 21 0.17
90 9 0.07
ACGTcount: A:0.21, C:0.23, G:0.20, T:0.36
Consensus pattern (87 bp):
TCGTCTTCGATCTGTTTCCCTACTGCTTAGGGGGTAAGATCTAGAAATTCAGCCTATTACCCTAC
CTGCTTAGGGGTTTAAGACCCT
Found at i:21913799 original size:9 final size:9
Alignment explanation
Indices: 21913787--21913815 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
21913777 ACTCGCTGTG
21913787 TTTTAAGAA
1 TTTTAAGAA
21913796 TTTTAAGAA
1 TTTTAAGAA
21913805 TTTTAAGAA
1 TTTTAAGAA
21913814 TT
1 TT
21913816 CTTTAGCCTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.48
Consensus pattern (9 bp):
TTTTAAGAA
Found at i:21916148 original size:19 final size:20
Alignment explanation
Indices: 21916112--21916153 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
21916102 TTCTTTTCAA
* *
21916112 GAAATTTAATACACATG-AT
1 GAAATGTAATACAAATGAAT
*
21916131 GAAATGTAATGCAAATGAAT
1 GAAATGTAATACAAATGAAT
21916151 GAA
1 GAA
21916154 TGCAAAAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.50, C:0.07, G:0.17, T:0.26
Consensus pattern (20 bp):
GAAATGTAATACAAATGAAT
Found at i:21919367 original size:26 final size:26
Alignment explanation
Indices: 21919337--21919399 Score: 90
Period size: 26 Copynumber: 2.4 Consensus size: 26
21919327 TATAAAATAA
21919337 AAGTTTTAAAGTATTTCATATTTATG
1 AAGTTTTAAAGTATTTCATATTTATG
* *
21919363 AAGTTATAAAGTTTTTCATATTTATG
1 AAGTTTTAAAGTATTTCATATTTATG
*
21919389 AAATTATTAAA
1 AAGTT-TTAAA
21919400 AAGTAAGGAT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
26 28 0.88
27 4 0.12
ACGTcount: A:0.40, C:0.03, G:0.10, T:0.48
Consensus pattern (26 bp):
AAGTTTTAAAGTATTTCATATTTATG
Found at i:21919553 original size:60 final size:59
Alignment explanation
Indices: 21919425--21919556 Score: 187
Period size: 60 Copynumber: 2.2 Consensus size: 59
21919415 TCACTAATAC
21919425 TCACCCAACTATTAATAAATTTATTTTTGGTCACTCAACTATGAAAAGTTACAAAATGA
1 TCACCCAACTATTAATAAATTTATTTTTGGTCACTCAACTATGAAAAGTTACAAAATGA
* * * *
21919484 TCTCTCAACTATTAGTAAATTTATTTTTTGGTCACTTAACTATGAAAAGTTATC-AAATGGA
1 TCACCCAACTATTAATAAATTTA-TTTTTGGTCACTCAACTATGAAAAGTTA-CAAAAT-GA
21919545 -CACCCAACTATT
1 TCACCCAACTATT
21919557 CAATTTCTTC
Statistics
Matches: 64, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
59 20 0.31
60 41 0.64
61 3 0.05
ACGTcount: A:0.37, C:0.17, G:0.09, T:0.36
Consensus pattern (59 bp):
TCACCCAACTATTAATAAATTTATTTTTGGTCACTCAACTATGAAAAGTTACAAAATGA
Found at i:21928553 original size:17 final size:19
Alignment explanation
Indices: 21928533--21928582 Score: 50
Period size: 19 Copynumber: 2.6 Consensus size: 19
21928523 TTTAATTTTT
21928533 TATTAAATATAATAA-A-A
1 TATTAAATATAATAATAGA
*
21928550 TATTTAATATTTAATAATAGA
1 TA-TTAA-ATATAATAATAGA
*
21928571 TATTAAAGATAA
1 TATTAAATATAA
21928583 AGATATTTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
17 2 0.08
18 4 0.15
19 12 0.46
20 5 0.19
21 3 0.12
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (19 bp):
TATTAAATATAATAATAGA
Found at i:21935487 original size:21 final size:21
Alignment explanation
Indices: 21935461--21935501 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
21935451 ATCTGCTCAA
* *
21935461 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
21935482 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
21935502 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:21938934 original size:39 final size:37
Alignment explanation
Indices: 21938867--21938959 Score: 98
Period size: 39 Copynumber: 2.5 Consensus size: 37
21938857 ACCAGAATGG
* *
21938867 CACCCAGTGCCTCATCGGATAGTTCGAAGCAATAGTTGA
1 CACCCAGTGCCTCATCGGAAAGTCCGAAG-AA-AGTTGA
* *
21938906 CACCCAGTGTCTCATCGGCAAAG-CCGAAGAAAGTTGG
1 CACCCAGTGCCTCATCGG-AAAGTCCGAAGAAAGTTGA
* *
21938943 TACCCAGTACCTCATCG
1 CACCCAGTGCCTCATCG
21938960 AATCTATCCG
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
37 19 0.41
38 2 0.04
39 22 0.48
40 3 0.07
ACGTcount: A:0.28, C:0.29, G:0.23, T:0.20
Consensus pattern (37 bp):
CACCCAGTGCCTCATCGGAAAGTCCGAAGAAAGTTGA
Found at i:21939322 original size:3 final size:3
Alignment explanation
Indices: 21939314--21939357 Score: 54
Period size: 3 Copynumber: 15.0 Consensus size: 3
21939304 ATTCCCACTC
* * *
21939314 ATA ATA ATA ATA ATA ATA ATA CTA ATA ATA A-A TTA ATA CTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
21939358 TTATACTTAC
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
2 1 0.03
3 33 0.97
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:21940088 original size:17 final size:16
Alignment explanation
Indices: 21940056--21940089 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
21940046 TTGGCTATTC
*
21940056 TGTTTCTTTCTTCTTT
1 TGTTTCTTTATTCTTT
21940072 TGTTTCTTTTATTCTTT
1 TGTTTC-TTTATTCTTT
21940089 T
1 T
21940090 ATTTTAACTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.03, C:0.15, G:0.06, T:0.76
Consensus pattern (16 bp):
TGTTTCTTTATTCTTT
Found at i:21940137 original size:14 final size:14
Alignment explanation
Indices: 21940078--21940128 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
21940068 CTTTTGTTTC
*
21940078 TTTTA-TTCTTTTA
1 TTTTATTTCCTTTA
* *
21940091 TTTTAACTTACTTTA
1 TTTT-ATTTCCTTTA
*
21940106 CTTTATTTCCTTTA
1 TTTTATTTCCTTTA
21940120 TTTTATTTC
1 TTTTATTTC
21940129 TTTTGTTTTC
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
13 4 0.13
14 17 0.57
15 9 0.30
ACGTcount: A:0.18, C:0.14, G:0.00, T:0.69
Consensus pattern (14 bp):
TTTTATTTCCTTTA
Found at i:21940297 original size:14 final size:17
Alignment explanation
Indices: 21940278--21940314 Score: 53
Period size: 14 Copynumber: 2.4 Consensus size: 17
21940268 ATTTATTTCT
21940278 TAATATAA-T-ATTT-A
1 TAATATAATTAATTTAA
21940292 TAATATAATTAATTTAA
1 TAATATAATTAATTTAA
21940309 TAATAT
1 TAATAT
21940315 CCTTTATAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 8 0.40
15 1 0.05
16 4 0.20
17 7 0.35
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
TAATATAATTAATTTAA
Found at i:21942451 original size:16 final size:17
Alignment explanation
Indices: 21942407--21942451 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 17
21942397 TAAAATTTTA
*
21942407 AAATTTAAATA-AATTT
1 AAATTAAAATATAATTT
*
21942423 ACATTAAAA-ATAA-TT
1 AAATTAAAATATAATTT
21942438 AAATTAAAATATAA
1 AAATTAAAATATAA
21942452 AGAATTAATC
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
15 11 0.46
16 13 0.54
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (17 bp):
AAATTAAAATATAATTT
Found at i:21942779 original size:13 final size:13
Alignment explanation
Indices: 21942761--21942787 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
21942751 TTCTTTTCTC
21942761 TCTTTTTTGTTTT
1 TCTTTTTTGTTTT
21942774 TCTTTTTTGTTTT
1 TCTTTTTTGTTTT
21942787 T
1 T
21942788 TTAATGAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.00, C:0.07, G:0.07, T:0.85
Consensus pattern (13 bp):
TCTTTTTTGTTTT
Found at i:21942943 original size:28 final size:28
Alignment explanation
Indices: 21942894--21942948 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
21942884 ATTATCAACC
21942894 CCATAAGTTATAAAACTCTTCCTATACT
1 CCATAAGTTATAAAACTCTTCCTATACT
* * *
21942922 CCATAAGTTATGAGACTTTTCCTATAC
1 CCATAAGTTATAAAACTCTTCCTATAC
21942949 CCTATTAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.33, C:0.24, G:0.07, T:0.36
Consensus pattern (28 bp):
CCATAAGTTATAAAACTCTTCCTATACT
Found at i:21949364 original size:39 final size:39
Alignment explanation
Indices: 21949269--21949357 Score: 151
Period size: 39 Copynumber: 2.3 Consensus size: 39
21949259 GCTCTGATGA
*
21949269 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGACTTCCGTTTAGCACTTATGT
* *
21949308 GCTTCAATTAGCCTTCGGACTTTCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGACTTCCGTTTAGCACTTATGT
21949347 GCTTCAGTTAG
1 GCTTCAGTTAG
21949358 ATTTCGGGTT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.16, C:0.24, G:0.21, T:0.39
Consensus pattern (39 bp):
GCTTCAGTTAGCCTTCGGACTTCCGTTTAGCACTTATGT
Found at i:21951043 original size:28 final size:28
Alignment explanation
Indices: 21951003--21951065 Score: 99
Period size: 28 Copynumber: 2.2 Consensus size: 28
21950993 GTCATTATCA
21951003 ACCCCATAAGTTATAAAACTCTTCCTAT
1 ACCCCATAAGTTATAAAACTCTTCCTAT
* * *
21951031 ACCCCATAAGTTATGAAGCTTTTCCTAT
1 ACCCCATAAGTTATAAAACTCTTCCTAT
21951059 ACCCCAT
1 ACCCCAT
21951066 TAATATGGGA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.32, C:0.30, G:0.06, T:0.32
Consensus pattern (28 bp):
ACCCCATAAGTTATAAAACTCTTCCTAT
Found at i:21963151 original size:52 final size:52
Alignment explanation
Indices: 21963072--21963177 Score: 176
Period size: 52 Copynumber: 2.0 Consensus size: 52
21963062 GAAAGAAAAA
*
21963072 AACCTTTTCCTCTAGATATATTCAATAAATTTGATAAATTGAGTCTTAACTT
1 AACCTTTTCCTCTAAATATATTCAATAAATTTGATAAATTGAGTCTTAACTT
* * *
21963124 AACCTTTTTCTTTAAATATATTTAATAAATTTGATAAATTGAGTCTTAACTT
1 AACCTTTTCCTCTAAATATATTCAATAAATTTGATAAATTGAGTCTTAACTT
21963176 AA
1 AA
21963178 TTTATATCAC
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
52 50 1.00
ACGTcount: A:0.37, C:0.12, G:0.07, T:0.44
Consensus pattern (52 bp):
AACCTTTTCCTCTAAATATATTCAATAAATTTGATAAATTGAGTCTTAACTT
Found at i:21981443 original size:8 final size:8
Alignment explanation
Indices: 21981432--21981470 Score: 51
Period size: 8 Copynumber: 4.8 Consensus size: 8
21981422 AGTTTTTTTT
21981432 TTTTTTAC
1 TTTTTTAC
*
21981440 TTTTTTAA
1 TTTTTTAC
21981448 TTTTTTGAC
1 TTTTTT-AC
*
21981457 TTTTGTAC
1 TTTTTTAC
21981465 TTTTTT
1 TTTTTT
21981471 TACTCTTCTT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
8 20 0.77
9 6 0.23
ACGTcount: A:0.13, C:0.08, G:0.05, T:0.74
Consensus pattern (8 bp):
TTTTTTAC
Found at i:21981451 original size:17 final size:17
Alignment explanation
Indices: 21981431--21981474 Score: 61
Period size: 17 Copynumber: 2.6 Consensus size: 17
21981421 CAGTTTTTTT
*
21981431 TTTTTTTACTTTTTTAA
1 TTTTTTTACTTTTGTAA
* *
21981448 TTTTTTGACTTTTGTAC
1 TTTTTTTACTTTTGTAA
21981465 TTTTTTTACT
1 TTTTTTTACT
21981475 CTTCTTTATT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.14, C:0.09, G:0.05, T:0.73
Consensus pattern (17 bp):
TTTTTTTACTTTTGTAA
Found at i:21981575 original size:21 final size:21
Alignment explanation
Indices: 21981516--21981587 Score: 81
Period size: 21 Copynumber: 3.3 Consensus size: 21
21981506 TTAACTTTAA
* *
21981516 AAAATTTGAAATATATATTTG
1 AAAATTTTAAATATATATTTT
21981537 AAATATTTTATTAATATATATTTT
1 AAA-ATTTTA--AATATATATTTT
*
21981561 TAAATTTTAAATATATATTTT
1 AAAATTTTAAATATATATTTT
*
21981582 GAAATT
1 AAAATT
21981588 ACTTTTTTAA
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
21 20 0.45
22 5 0.11
23 6 0.14
24 13 0.30
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.51
Consensus pattern (21 bp):
AAAATTTTAAATATATATTTT
Found at i:21981613 original size:33 final size:33
Alignment explanation
Indices: 21981557--21981625 Score: 122
Period size: 34 Copynumber: 2.1 Consensus size: 33
21981547 TTAATATATA
21981557 TTTTTAAATTTTAAATATATATTTTGAAATTACT
1 TTTTTAAATTTTAAATATATATTTTGAAATTA-T
21981591 TTTTTAAATTTTAAATAT-TATTTTGAAATTAT
1 TTTTTAAATTTTAAATATATATTTTGAAATTAT
21981623 TTT
1 TTT
21981626 ATTTTGTTTA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
32 4 0.11
33 13 0.37
34 18 0.51
ACGTcount: A:0.36, C:0.01, G:0.03, T:0.59
Consensus pattern (33 bp):
TTTTTAAATTTTAAATATATATTTTGAAATTAT
Found at i:21981658 original size:22 final size:21
Alignment explanation
Indices: 21981623--21981664 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
21981613 TTGAAATTAT
*
21981623 TTTATTTTGTTTATTTATTTA
1 TTTATTTTGTTTATTAATTTA
*
21981644 TTTATTTTTTGTTATTAATTT
1 TTTATTTTGT-TTATTAATTT
21981665 TAAAAAAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.19, C:0.00, G:0.05, T:0.76
Consensus pattern (21 bp):
TTTATTTTGTTTATTAATTTA
Found at i:21981692 original size:152 final size:153
Alignment explanation
Indices: 21981479--21981766 Score: 431
Period size: 152 Copynumber: 1.9 Consensus size: 153
21981469 TTTACTCTTC
* *
21981479 TTTATTTATTTATTTTATTTATTATTATTAACTTTAAAAAATTTGAAATATATATTTGAAATATT
1 TTTATTTATTTATTTTATTTATTATTATTAACTTTAAAAAAATTAAAATATATATTTGAAATATT
21981544 TTATTAATATATAT-T-TTT-AAATTTTAAATATATATTTTGAAATTACTTTTTTAAATTTTAAA
66 TTA-TAATATATATGTATTTAAAATTTTAAATAT-TATTTT-AAATTACTTTTTTAAATTTTAAA
21981606 TATTATTTTGAAATTATTTTATTTTG
128 TATTATTTTGAAATTATTTTATTTTG
* * * * *
21981632 TTTATTTATTTA-TTTATTTTTTGTTATTAATTTTAAAAAAATTAAAATGTATATTTGAAATTTT
1 TTTATTTATTTATTTTATTTATTATTATTAACTTTAAAAAAATTAAAATATATATTTGAAATATT
* * *
21981696 TTATAATATATATGTATTTAAAATTTTAAATATTATTTTAAATTATTTTTTTTAATTTTTAATAT
66 TTATAATATATATGTATTTAAAATTTTAAATATTATTTTAAATTACTTTTTTAAATTTTAAATAT
21981761 TATTTT
131 TATTTT
21981767 TTAAACATTA
Statistics
Matches: 122, Mismatches: 10, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
151 10 0.08
152 78 0.64
153 21 0.17
154 13 0.11
ACGTcount: A:0.37, C:0.01, G:0.03, T:0.59
Consensus pattern (153 bp):
TTTATTTATTTATTTTATTTATTATTATTAACTTTAAAAAAATTAAAATATATATTTGAAATATT
TTATAATATATATGTATTTAAAATTTTAAATATTATTTTAAATTACTTTTTTAAATTTTAAATAT
TATTTTGAAATTATTTTATTTTG
Found at i:21982109 original size:20 final size:20
Alignment explanation
Indices: 21982054--21982109 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 20
21982044 TGACCAATTA
21982054 TAATATATATTTTTAATTTTT
1 TAATATATATTTTT-ATTTTT
* *
21982075 T-ATTTAATTTTTTTATTTTT
1 TAATAT-ATATTTTTATTTTT
*
21982095 TAATATATATATTTA
1 TAATATATATTTTTA
21982110 AATTCATTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
20 17 0.61
21 11 0.39
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (20 bp):
TAATATATATTTTTATTTTT
Found at i:21982383 original size:21 final size:21
Alignment explanation
Indices: 21982359--21982404 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
21982349 TTATAATACT
*
21982359 AAAAAAATATTTAATATTTAA
1 AAAAAAATATTTAAAATTTAA
*
21982380 AAAATAATATTTAAAATTTAA
1 AAAAAAATATTTAAAATTTAA
21982401 AAAA
1 AAAA
21982405 GTAATTTCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (21 bp):
AAAAAAATATTTAAAATTTAA
Found at i:21982416 original size:21 final size:19
Alignment explanation
Indices: 21982360--21982417 Score: 64
Period size: 21 Copynumber: 2.9 Consensus size: 19
21982350 TATAATACTA
*
21982360 AAAAAAT-ATTTAATATTT
1 AAAAAATAATTTAAAATTT
21982378 AAAAAATAATATTTAAAATTT
1 AAAAAAT-A-ATTTAAAATTT
21982399 AAAAAAGTAATTTCAAAAT
1 AAAAAA-TAATTT-AAAAT
21982418 ATATATTTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
18 7 0.21
20 4 0.12
21 22 0.65
22 1 0.03
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (19 bp):
AAAAAATAATTTAAAATTT
Found at i:21982469 original size:24 final size:24
Alignment explanation
Indices: 21982408--21982478 Score: 85
Period size: 24 Copynumber: 3.0 Consensus size: 24
21982398 TAAAAAAGTA
21982408 ATTTCAAAATATATATT--TAAAAT
1 ATTTC-AAATATATATTAATAAAAT
*
21982431 -TTTAAAAAATATATATTAATAAAAT
1 ATTT--CAAATATATATTAATAAAAT
21982456 ATTTCAAATATATATTAATAAAA
1 ATTTCAAATATATATTAATAAAA
21982479 AAGATTTATT
Statistics
Matches: 41, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
22 3 0.07
23 11 0.27
24 18 0.44
25 6 0.15
26 3 0.07
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (24 bp):
ATTTCAAATATATATTAATAAAAT
Found at i:21982529 original size:16 final size:15
Alignment explanation
Indices: 21982510--21982564 Score: 53
Period size: 16 Copynumber: 3.8 Consensus size: 15
21982500 GAATTTAATT
*
21982510 AAAAATATAAATATTA
1 AAAAATAAAAAT-TTA
21982526 AAAAATAAAAATTT-
1 AAAAATAAAAATTTA
*
21982540 -AAATTAAAAA-TTA
1 AAAAATAAAAATTTA
*
21982553 AAAATTAAAAAT
1 AAAAATAAAAAT
21982565 ACATATTATA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
12 2 0.06
13 9 0.26
14 10 0.29
15 2 0.06
16 11 0.32
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (15 bp):
AAAAATAAAAATTTA
Found at i:21982535 original size:6 final size:7
Alignment explanation
Indices: 21982506--21982564 Score: 75
Period size: 7 Copynumber: 8.4 Consensus size: 7
21982496 AAATGAATTT
21982506 AATTAAA
1 AATTAAA
21982513 AATATAAA
1 AAT-TAAA
*
21982521 TATTAAA
1 AATTAAA
*
21982528 AAATAAA
1 AATTAAA
*
21982535 AATT-TA
1 AATTAAA
21982541 AATTAAA
1 AATTAAA
21982548 AATTAAA
1 AATTAAA
21982555 AATTAAA
1 AATTAAA
21982562 AAT
1 AAT
21982565 ACATATTATA
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
6 5 0.11
7 33 0.75
8 6 0.14
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (7 bp):
AATTAAA
Found at i:21982552 original size:27 final size:28
Alignment explanation
Indices: 21982512--21982564 Score: 81
Period size: 27 Copynumber: 1.9 Consensus size: 28
21982502 ATTTAATTAA
*
21982512 AAATATAAATATTAAAAAATAAAAATTT
1 AAATATAAAAATTAAAAAATAAAAATTT
*
21982540 AAAT-TAAAAATTAAAAATTAAAAAT
1 AAATATAAAAATTAAAAAATAAAAAT
21982565 ACATATTATA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 19 0.83
28 4 0.17
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (28 bp):
AAATATAAAAATTAAAAAATAAAAATTT
Found at i:21982572 original size:27 final size:27
Alignment explanation
Indices: 21982512--21982572 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 27
21982502 ATTTAATTAA
* **
21982512 AAATATAAATATTAAAAAATAAAAATTT
1 AAAT-TAAAAATTAAAAAATAAAAATAC
*
21982540 AAATTAAAAATTAAAAATTAAAAATAC
1 AAATTAAAAATTAAAAAATAAAAATAC
*
21982567 ATATTA
1 AAATTA
21982573 TAACTGGTCA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
27 24 0.86
28 4 0.14
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (27 bp):
AAATTAAAAATTAAAAAATAAAAATAC
Found at i:21982627 original size:15 final size:15
Alignment explanation
Indices: 21982587--21982631 Score: 54
Period size: 19 Copynumber: 2.7 Consensus size: 15
21982577 TGGTCACATC
21982587 ATATTTTTTTAACAA
1 ATATTTTTTTAACAA
21982602 ATAAATCTTTTTTTAACAA
1 AT--A--TTTTTTTAACAA
21982621 ATATTTTTTTA
1 ATATTTTTTTA
21982632 TTTTTTTGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
15 10 0.38
17 2 0.08
19 14 0.54
ACGTcount: A:0.38, C:0.07, G:0.00, T:0.56
Consensus pattern (15 bp):
ATATTTTTTTAACAA
Found at i:21982853 original size:23 final size:21
Alignment explanation
Indices: 21982824--21982891 Score: 73
Period size: 21 Copynumber: 3.1 Consensus size: 21
21982814 AAAATATTTA
21982824 AATATTTTATATTATTAAAAAT
1 AATATTTTATATT-TTAAAAAT
* * * *
21982846 ATATATTTAATGTTTAAAAAAC
1 A-ATATTTTATATTTTAAAAAT
*
21982868 AATATTTTAAATTTTAAAAAT
1 AATATTTTATATTTTAAAAAT
21982889 AAT
1 AAT
21982892 TTAAAATAAT
Statistics
Matches: 36, Mismatches: 9, Indels: 3
0.75 0.19 0.06
Matches are distributed among these distances:
21 18 0.50
22 8 0.22
23 10 0.28
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.46
Consensus pattern (21 bp):
AATATTTTATATTTTAAAAAT
Found at i:21982865 original size:22 final size:22
Alignment explanation
Indices: 21982824--21982887 Score: 62
Period size: 22 Copynumber: 2.9 Consensus size: 22
21982814 AAAATATTTA
*
21982824 AATATTTTATATTATT-AAAAA-
1 AATATTTTAAATT-TTAAAAAAC
*
21982845 TATATATTT-AATGTTTAAAAAAC
1 AATAT-TTTAAAT-TTTAAAAAAC
21982868 AATATTTTAAATTTTAAAAA
1 AATATTTTAAATTTTAAAAA
21982888 TAATTTAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 9
0.74 0.06 0.19
Matches are distributed among these distances:
21 8 0.23
22 20 0.57
23 7 0.20
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (22 bp):
AATATTTTAAATTTTAAAAAAC
Found at i:21983003 original size:18 final size:17
Alignment explanation
Indices: 21982962--21983005 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
21982952 TTAAATTTTT
*
21982962 TAAAATTAATAACAAAA
1 TAAAATAAATAACAAAA
*
21982979 AATAAATAAATAAACAAAA
1 TA-AAATAAAT-AACAAAA
21982998 TAAAATAA
1 TAAAATAA
21983006 TTTCAAAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
17 1 0.05
18 13 0.59
19 8 0.36
ACGTcount: A:0.75, C:0.05, G:0.00, T:0.20
Consensus pattern (17 bp):
TAAAATAAATAACAAAA
Found at i:21983047 original size:49 final size:50
Alignment explanation
Indices: 21982993--21983098 Score: 178
Period size: 50 Copynumber: 2.1 Consensus size: 50
21982983 AATAAATAAA
*
21982993 CAAAATAAAATAATTT-CAAAATAATATTTAAAATTTAAAAAAGTAATTT
1 CAAAATAAAATAATTTAAAAAATAATATTTAAAATTTAAAAAAGTAATTT
*
21983042 CAAAATAAAATAATTTAAAAAATAATATTTAAAATTTTAAAAAGTAATTT
1 CAAAATAAAATAATTTAAAAAATAATATTTAAAATTTAAAAAAGTAATTT
*
21983092 CAGAATA
1 CAAAATA
21983099 TATATTTAAA
Statistics
Matches: 53, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
49 16 0.30
50 37 0.70
ACGTcount: A:0.59, C:0.04, G:0.03, T:0.34
Consensus pattern (50 bp):
CAAAATAAAATAATTTAAAAAATAATATTTAAAATTTAAAAAAGTAATTT
Found at i:21983082 original size:22 final size:22
Alignment explanation
Indices: 21983010--21983089 Score: 65
Period size: 22 Copynumber: 3.4 Consensus size: 22
21983000 AAATAATTTC
21983010 AAAATAATATTTAAAA-TTTAA
1 AAAATAATATTTAAAATTTTAA
21983031 AAAAGTAAT-TTCAAAATAAAATAATTTAA
1 AAAA-TAATATT-----TAAAAT--TTTAA
21983060 AAAATAATATTTAAAATTTTAA
1 AAAATAATATTTAAAATTTTAA
*
21983082 AAAGTAAT
1 AAAATAAT
21983090 TTCAGAATAT
Statistics
Matches: 48, Mismatches: 1, Indels: 19
0.71 0.01 0.28
Matches are distributed among these distances:
21 6 0.12
22 16 0.33
24 6 0.12
26 5 0.10
28 4 0.08
29 11 0.23
ACGTcount: A:0.61, C:0.01, G:0.03, T:0.35
Consensus pattern (22 bp):
AAAATAATATTTAAAATTTTAA
Found at i:21983133 original size:83 final size:78
Alignment explanation
Indices: 21982999--21983152 Score: 177
Period size: 83 Copynumber: 1.9 Consensus size: 78
21982989 TAAACAAAAT
*
21982999 AAAATAATTTCAAAATAATATTTAAAATTTAAAAAAGTAATTTCAAAATAAAATAATTTAAAAAA
1 AAAATAATTTCAAAATAATATTTAAAATTTAAAAAAGTAAATT--AAATAAAAT-ATTTAAAAAA
21983064 TAATATTTAAAATTTTA
63 T-ATATTTAAAATTTTA
* *
21983081 AAAAGTAATTTCAGAATATATATTTAAAATTTTAAAAAA-TATAGATT-AATAAAATATTTCAAA
1 AAAA-TAATTTCAAAATA-ATATTTAAAA-TTTAAAAAAGTA-A-ATTAAATAAAATATTTAAAA
*
21983144 TATATATTT
61 AATATATTT
21983153 CAATTTTTTT
Statistics
Matches: 63, Mismatches: 4, Indels: 11
0.81 0.05 0.14
Matches are distributed among these distances:
81 6 0.10
82 13 0.21
83 20 0.32
84 12 0.19
85 10 0.16
86 2 0.03
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (78 bp):
AAAATAATTTCAAAATAATATTTAAAATTTAAAAAAGTAAATTAAATAAAATATTTAAAAAATAT
ATTTAAAATTTTA
Found at i:21983138 original size:34 final size:33
Alignment explanation
Indices: 21983048--21983144 Score: 88
Period size: 34 Copynumber: 2.8 Consensus size: 33
21983038 ATTTCAAAAT
* *
21983048 AAAATAATTTAAAAAATAATATTTAAAATTTTAA
1 AAAATAAATT-AAGAATAATATTTAAAATTTTAA
* * *
21983082 AAAGTAATTTCAGAATATATATTTAAAATTTTAA
1 AAAATAAATTAAGAATA-ATATTTAAAATTTTAA
* *
21983116 AAAATATAGATTAATAA-AATATTTCAAAT
1 AAAATA-A-ATTAAGAATAATATTTAAAAT
21983145 ATATATTTCA
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
33 5 0.10
34 40 0.77
35 2 0.04
36 5 0.10
ACGTcount: A:0.57, C:0.02, G:0.03, T:0.38
Consensus pattern (33 bp):
AAAATAAATTAAGAATAATATTTAAAATTTTAA
Found at i:21983213 original size:14 final size:14
Alignment explanation
Indices: 21983178--21983229 Score: 54
Period size: 14 Copynumber: 3.7 Consensus size: 14
21983168 TAATAATAAT
*
21983178 AAATAAAATAAAATA
1 AAATAAAA-AAAGTA
*
21983193 AAATAAAGAAAG-A
1 AAATAAAAAAAGTA
21983206 AAAGTAAAAAAAGTA
1 AAA-TAAAAAAAGTA
21983221 AAA-AAAAAA
1 AAATAAAAAA
21983230 GAAACTGACA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
13 10 0.31
14 11 0.34
15 11 0.34
ACGTcount: A:0.81, C:0.00, G:0.08, T:0.12
Consensus pattern (14 bp):
AAATAAAAAAAGTA
Found at i:21983720 original size:28 final size:28
Alignment explanation
Indices: 21983687--21983781 Score: 90
Period size: 27 Copynumber: 3.4 Consensus size: 28
21983677 AGTGCAAATA
21983687 ACGATAAGCACCGAAATGCAAAATAATT
1 ACGATAAGCACCGAAATGCAAAATAATT
* *
21983715 ACGATAAGCACC-AAA-GTACAAAT-TTT
1 ACGATAAGCACCGAAATGCA-AAATAATT
* *
21983741 ACAATGATAAGCACCGAAGTGCGAAATAA-T
1 AC---GATAAGCACCGAAATGCAAAATAATT
21983771 ACGATAAGCAC
1 ACGATAAGCAC
21983782 ACTAATTTTT
Statistics
Matches: 54, Mismatches: 6, Indels: 15
0.72 0.08 0.20
Matches are distributed among these distances:
26 6 0.11
27 16 0.30
28 12 0.22
29 10 0.19
30 9 0.17
31 1 0.02
ACGTcount: A:0.47, C:0.19, G:0.16, T:0.18
Consensus pattern (28 bp):
ACGATAAGCACCGAAATGCAAAATAATT
Found at i:21986142 original size:46 final size:44
Alignment explanation
Indices: 21986038--21986145 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
21986028 TGTCTTTGAC
** * * *
21986038 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
21986082 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
21986128 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
21986146 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:21990822 original size:46 final size:46
Alignment explanation
Indices: 21990744--21990960 Score: 220
Period size: 46 Copynumber: 4.7 Consensus size: 46
21990734 TTATCTTCGA
* * * * * *
21990744 CATGATGCCATAGTGTCTTCCAACTATGGTTTTATTCATTTCCTGT
1 CATGTTGCCATGGTATCTTCCAACCATGGTCTTATTCATTTCTTGT
** * * *
21990790 CATGTTTACATGGTATCTTTCAACCATGGTTTTATTCATTTTTTGT
1 CATGTTGCCATGGTATCTTCCAACCATGGTCTTATTCATTTCTTGT
* *
21990836 CATGTTGCCATGGTATCTTCCAACCATGGTCTTATTCGTTTTTTGT
1 CATGTTGCCATGGTATCTTCCAACCATGGTCTTATTCATTTCTTGT
* * **
21990882 CAT-TTGCCATGGTATCTTTCAATCATGGTCTTATTCATTTCTCAT
1 CATGTTGCCATGGTATCTTCCAACCATGGTCTTATTCATTTCTTGT
* * * * * *
21990927 CATATTGTCATAGTATCTTTCAACTATAGTCTTA
1 CATGTTGCCATGGTATCTTCCAACCATGGTCTTA
21990961 CATATCTGAA
Statistics
Matches: 145, Mismatches: 25, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
45 39 0.27
46 106 0.73
ACGTcount: A:0.20, C:0.20, G:0.13, T:0.47
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTCCAACCATGGTCTTATTCATTTCTTGT
Found at i:21990893 original size:45 final size:46
Alignment explanation
Indices: 21990744--21990921 Score: 223
Period size: 46 Copynumber: 3.9 Consensus size: 46
21990734 TTATCTTCGA
* * * * * **
21990744 CATGATGCCATAGTGTCTTCCAACTATGGTTTTATTCATTTCCTGT
1 CATGTTGCCATGGTATCTTCCAACCATGGTCTTATTCATTTTTTGT
** * *
21990790 CATGTTTACATGGTATCTTTCAACCATGGTTTTATTCATTTTTTGT
1 CATGTTGCCATGGTATCTTCCAACCATGGTCTTATTCATTTTTTGT
*
21990836 CATGTTGCCATGGTATCTTCCAACCATGGTCTTATTCGTTTTTTGT
1 CATGTTGCCATGGTATCTTCCAACCATGGTCTTATTCATTTTTTGT
* *
21990882 CAT-TTGCCATGGTATCTTTCAATCATGGTCTTATTCATTT
1 CATGTTGCCATGGTATCTTCCAACCATGGTCTTATTCATTT
21990922 CTCATCATAT
Statistics
Matches: 115, Mismatches: 17, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
45 34 0.30
46 81 0.70
ACGTcount: A:0.19, C:0.20, G:0.15, T:0.47
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTCCAACCATGGTCTTATTCATTTTTTGT
Found at i:21990943 original size:91 final size:92
Alignment explanation
Indices: 21990749--21990960 Score: 255
Period size: 91 Copynumber: 2.3 Consensus size: 92
21990739 TTCGACATGA
* * *
21990749 TGCCATAGTGTCTTCCAACTATGGTTTTATTCATTTCCTGTCATGTTTACATGGTATCTTTCAAC
1 TGCCATAGTATCTTCCAACTATGGTCTTATTCATTTCCTGTCATGTTGACATGGTATCTTTCAAC
* * ** *
21990814 CATGGTTTTATTCATTTTTTGTCATGT
66 CATGGTCTTATTCATTTCTCATCATAT
* * * ** * *
21990841 TGCCATGGTATCTTCCAACCATGGTCTTATTCGTTTTTTGTCAT-TTGCCATGGTATCTTTCAAT
1 TGCCATAGTATCTTCCAACTATGGTCTTATTCATTTCCTGTCATGTTGACATGGTATCTTTCAAC
21990905 CATGGTCTTATTCATTTCTCATCATAT
66 CATGGTCTTATTCATTTCTCATCATAT
* * *
21990932 TGTCATAGTATCTTTCAACTATAGTCTTA
1 TGCCATAGTATCTTCCAACTATGGTCTTA
21990961 CATATCTGAA
Statistics
Matches: 100, Mismatches: 20, Indels: 1
0.83 0.17 0.01
Matches are distributed among these distances:
91 63 0.63
92 37 0.37
ACGTcount: A:0.20, C:0.20, G:0.13, T:0.47
Consensus pattern (92 bp):
TGCCATAGTATCTTCCAACTATGGTCTTATTCATTTCCTGTCATGTTGACATGGTATCTTTCAAC
CATGGTCTTATTCATTTCTCATCATAT
Found at i:21992770 original size:11 final size:11
Alignment explanation
Indices: 21992754--21992809 Score: 60
Period size: 11 Copynumber: 5.2 Consensus size: 11
21992744 CTTTATATAC
21992754 TAATAAAATAA
1 TAATAAAATAA
21992765 TAATAAAATAA
1 TAATAAAATAA
* **
21992776 TAA-AATATCT
1 TAATAAAATAA
* *
21992786 TATTAAAATAT
1 TAATAAAATAA
21992797 TAATAAAATAA
1 TAATAAAATAA
21992808 TA
1 TA
21992810 TTTATCTAAT
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
10 6 0.17
11 30 0.83
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:21997157 original size:22 final size:22
Alignment explanation
Indices: 21997132--21997173 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
21997122 TTTTAGCATT
21997132 GGATT-AAGATTTTTGAGATTTG
1 GGATTCAA-ATTTTTGAGATTTG
*
21997154 GGATTCAATTTTTTGAGATT
1 GGATTCAAATTTTTGAGATT
21997174 CAGGATTTCC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 16 0.89
23 2 0.11
ACGTcount: A:0.26, C:0.02, G:0.24, T:0.48
Consensus pattern (22 bp):
GGATTCAAATTTTTGAGATTTG
Found at i:21998991 original size:20 final size:20
Alignment explanation
Indices: 21998966--21999011 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
21998956 ATTTAATATC
*
21998966 TTAATGCTTTTTC-CTTACAT
1 TTAATGCATTTTCTC-TACAT
*
21998986 TTAATGCATTTTCTCTGCAT
1 TTAATGCATTTTCTCTACAT
21999006 TTAATG
1 TTAATG
21999012 TCTAAAACTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 22 0.96
21 1 0.04
ACGTcount: A:0.22, C:0.17, G:0.09, T:0.52
Consensus pattern (20 bp):
TTAATGCATTTTCTCTACAT
Found at i:22000549 original size:13 final size:13
Alignment explanation
Indices: 22000531--22000571 Score: 66
Period size: 13 Copynumber: 3.2 Consensus size: 13
22000521 ACTTGCTGGA
*
22000531 TTTTGGATTTGGT
1 TTTTGGTTTTGGT
22000544 TTTTGGTTTTGG-
1 TTTTGGTTTTGGT
22000556 TTTTGGTTTTGGT
1 TTTTGGTTTTGGT
22000569 TTT
1 TTT
22000572 AAGTGCATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
12 12 0.46
13 14 0.54
ACGTcount: A:0.02, C:0.00, G:0.29, T:0.68
Consensus pattern (13 bp):
TTTTGGTTTTGGT
Found at i:22000553 original size:6 final size:6
Alignment explanation
Indices: 22000531--22000571 Score: 64
Period size: 6 Copynumber: 6.7 Consensus size: 6
22000521 ACTTGCTGGA
*
22000531 TTTTGG ATTTGG TTTTTGG TTTTGG TTTTGG TTTTGG TTTT
1 TTTTGG TTTTGG -TTTTGG TTTTGG TTTTGG TTTTGG TTTT
22000572 AAGTGCATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
6 27 0.84
7 5 0.16
ACGTcount: A:0.02, C:0.00, G:0.29, T:0.68
Consensus pattern (6 bp):
TTTTGG
Found at i:22000691 original size:43 final size:42
Alignment explanation
Indices: 22000614--22000711 Score: 128
Period size: 43 Copynumber: 2.3 Consensus size: 42
22000604 CTGCTGATAC
*
22000614 ATAACTTACTCAAAATAGTAATATTAAACTAATCTTTGAAGGG
1 ATAACTTACTCAAAACAGTAATATTAAACTAATCTTTGAA-GG
22000657 ATAACTTACTCAAAACAGT-ATATTCAAAAC-AATCTTTGAAGG
1 ATAACTTACTCAAAACAGTAATATT--AAACTAATCTTTGAAGG
*
22000699 TTATACTTACTCA
1 ATA-ACTTACTCA
22000712 TATTAATGTA
Statistics
Matches: 50, Mismatches: 2, Indels: 6
0.86 0.03 0.10
Matches are distributed among these distances:
42 9 0.18
43 37 0.74
44 4 0.08
ACGTcount: A:0.43, C:0.15, G:0.09, T:0.33
Consensus pattern (42 bp):
ATAACTTACTCAAAACAGTAATATTAAACTAATCTTTGAAGG
Found at i:22002969 original size:34 final size:34
Alignment explanation
Indices: 22002921--22003012 Score: 116
Period size: 34 Copynumber: 2.7 Consensus size: 34
22002911 AGTATTTTTT
*
22002921 AAAATTAATTAAATTAGGGTTTA-ATGATTTTAA-
1 AAAAGTAATTAAATTAGGGTTTAGA-GATTTTAAG
* *
22002954 ATAAAGTAATTAAATTAGAGTTTAGAGTTTTTAAG
1 A-AAAGTAATTAAATTAGGGTTTAGAGATTTTAAG
*
22002989 AAAATTAATTAAATTAGGGTTTAG
1 AAAAGTAATTAAATTAGGGTTTAG
22003013 TTTTTTAAAA
Statistics
Matches: 51, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
33 1 0.02
34 48 0.94
35 2 0.04
ACGTcount: A:0.45, C:0.00, G:0.15, T:0.40
Consensus pattern (34 bp):
AAAAGTAATTAAATTAGGGTTTAGAGATTTTAAG
Found at i:22003428 original size:118 final size:120
Alignment explanation
Indices: 22003168--22003428 Score: 313
Period size: 120 Copynumber: 2.2 Consensus size: 120
22003158 AGCTTTAGAC
* * * * * *
22003168 GCTCTTTTTCTACAGTAATTC-TAAAAAAATATTTTGAGAAGACGGTTCTGAACAAATAGTGTCA
1 GCTCTTTTTCTACAATAGTTCTTAAAAAAATATTTTGAGAAAACAGTCCTGAACAAATAATGTCA
* *
22003232 AAAACGTTTCAGCAGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGA
66 AAAACGTTTCAACAGATG-ACTGTCAGCAAAATTACTG-AAAAAGCTCCCACATGGA
* *
22003289 -CTCTTTTTCTACAATAGTTCTTAAAAATA-ATTTTGAGAAAACAGTCCTGAACAAATAATGTTA
1 GCTCTTTTTCTACAATAGTTCTTAAAAAAATATTTTGAGAAAACAGTCCTGAACAAATAATGTCA
*
22003352 AAAACGCTTT-AATAGGATG-CTGTCAGC-AAATTGA-TG-AAAAGCTCCCACATGGA
66 AAAACG-TTTCAACA-GATGACTGTCAGCAAAATT-ACTGAAAAAGCTCCCACATGGA
22003405 TGCTCTTTTTCTACAATAGTTCTT
1 -GCTCTTTTTCTACAATAGTTCTT
22003429 GTTTGGCCTT
Statistics
Matches: 123, Mismatches: 11, Indels: 15
0.83 0.07 0.10
Matches are distributed among these distances:
116 16 0.13
118 29 0.24
119 9 0.07
120 55 0.45
121 14 0.11
ACGTcount: A:0.36, C:0.18, G:0.15, T:0.31
Consensus pattern (120 bp):
GCTCTTTTTCTACAATAGTTCTTAAAAAAATATTTTGAGAAAACAGTCCTGAACAAATAATGTCA
AAAACGTTTCAACAGATGACTGTCAGCAAAATTACTGAAAAAGCTCCCACATGGA
Found at i:22014129 original size:22 final size:22
Alignment explanation
Indices: 22014101--22014145 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
22014091 ACTATCATAA
22014101 AAAAAGTATATATATAGAATAT
1 AAAAAGTATATATATAGAATAT
*
22014123 AAAAAGTATATATATAGTATAT
1 AAAAAGTATATATATAGAATAT
22014145 A
1 A
22014146 TATGAATCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.58, C:0.00, G:0.09, T:0.33
Consensus pattern (22 bp):
AAAAAGTATATATATAGAATAT
Found at i:22014146 original size:11 final size:11
Alignment explanation
Indices: 22014105--22014148 Score: 61
Period size: 11 Copynumber: 4.0 Consensus size: 11
22014095 TCATAAAAAA
22014105 AGTATATATAT
1 AGTATATATAT
* * *
22014116 AGAATATAAAA
1 AGTATATATAT
22014127 AGTATATATAT
1 AGTATATATAT
22014138 AGTATATATAT
1 AGTATATATAT
22014149 GAATCATAAA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.09, T:0.39
Consensus pattern (11 bp):
AGTATATATAT
Found at i:22014451 original size:3 final size:3
Alignment explanation
Indices: 22014445--22014509 Score: 55
Period size: 3 Copynumber: 22.0 Consensus size: 3
22014435 AAATATGATG
* *
22014445 ATA ATA A-A ATA ATA TTAA ATA ATA ATA ATA ATA ATA AT- AGA ATA
1 ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA
* *
22014489 ATGA ACA A-A ATA ATA AAA ATA
1 AT-A ATA ATA ATA ATA ATA ATA
22014510 CTACAAAAGG
Statistics
Matches: 50, Mismatches: 7, Indels: 10
0.75 0.10 0.15
Matches are distributed among these distances:
2 5 0.10
3 41 0.82
4 4 0.08
ACGTcount: A:0.68, C:0.02, G:0.03, T:0.28
Consensus pattern (3 bp):
ATA
Found at i:22014500 original size:23 final size:21
Alignment explanation
Indices: 22014445--22014517 Score: 69
Period size: 23 Copynumber: 3.4 Consensus size: 21
22014435 AAATATGATG
* *
22014445 ATAATAAAATAATATTAAATA
1 ATAACAAAATAATAATAAATA
*
22014466 ATAATAATAATAATAATAGAATA
1 ATAACAA-AATAATAATA-AATA
22014489 ATGAACAAAATAATAA-AAATA
1 AT-AACAAAATAATAATAAATA
*
22014510 CT-ACAAAA
1 ATAACAAAA
22014518 GGGCTTAAAT
Statistics
Matches: 46, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
19 6 0.13
21 12 0.26
22 10 0.22
23 14 0.30
24 4 0.09
ACGTcount: A:0.67, C:0.04, G:0.03, T:0.26
Consensus pattern (21 bp):
ATAACAAAATAATAATAAATA
Found at i:22016229 original size:46 final size:44
Alignment explanation
Indices: 22016073--22016625 Score: 388
Period size: 43 Copynumber: 12.9 Consensus size: 44
22016063 ATTGGTATTT
* *
22016073 TTCG-TCTGCTCCACTGTAACTTCAGGGAGAT-AGAT-AG-TGTC
1 TTCGATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAT-TC
* * * *
22016114 TTGGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTG--GC
1 TTCGATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGATTC
*
22016156 TTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTC
1 TTCGATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTG--ATTC
* * *
22016202 TTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTGA---
1 TTCGATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGATTC
* * ** * *
22016243 TGCGATCTACTCTGCTGTAACTTCA--GAGATAAGATCCTTTATT-
1 TTCGATCTGCTCCACTGTAACCTCAGGGAGATAAGAT-C-TGATTC
* * * * *
22016286 TT-AATCCGCTCCACTGTAACTTCAGGGAGATAGGAT-AG-TGTC
1 TTCGATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAT-TC
* * * * *
22016328 TTGGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCT-CTGC
1 TTCGATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGATTC
*
22016371 TTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTC
1 TTCGATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTG--ATTC
* * *
22016417 TTCGGTCTACTCCACTGTAACCTCAGGGAGATAA-ACCT-A---
1 TTCGATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGATTC
* * ** * * *
22016456 TGCGATCTACTCTGCTGTAACTTCAGAGAGAT-AGATCCTTTATT-
1 TTCGATCTGCTCCACTGTAACCTCAGGGAGATAAGAT-C-TGATTC
* * * *
22016500 TT-AATCTGCTCCACTGTAACTTCAGGGAGATAGGAT-AG-TGTC
1 TTCGATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAT-TC
* * * *
22016542 TTCGATCTGCTCCGCTGTAATCTCA-GGAGATAAGATCT-CTGGC
1 TTCGATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAT-TC
*
22016585 TTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGA
1 TTCGATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGA
22016626 AATATTCACT
Statistics
Matches: 401, Mismatches: 76, Indels: 66
0.74 0.14 0.12
Matches are distributed among these distances:
38 1 0.00
39 36 0.09
40 4 0.01
41 28 0.07
42 94 0.23
43 136 0.34
44 29 0.07
45 3 0.01
46 70 0.17
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (44 bp):
TTCGATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGATTC
Found at i:22016502 original size:214 final size:215
Alignment explanation
Indices: 22016080--22016628 Score: 1009
Period size: 214 Copynumber: 2.6 Consensus size: 215
22016070 TTTTTCGTCT
22016080 GCTCCACTGTAACTTCAGGGAGATA-GATAGTGTCTTGGATCTGCTCCGCTGTAATCTCAGGGAG
1 GCTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTGGATCTGCTCCGCTGTAATCTCAGGGAG
*
22016144 ATAAGATCT-GGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGT
66 ATAAGATCTCTGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGT
*
22016208 CTACTCCACTGTAACCTCAGGGAGATAAGACCTGATGCGATCTACTCTGCTGTAACTTCAGAGAT
131 CTACTCCACTGTAACCTCAGGGAGATAAGACCTGATGCGATCTACTCTGCTGTAACTTCAGAGAG
22016273 AAGATCCTTTATTTTAATCC
196 AAGATCCTTTATTTTAATCC
22016293 GCTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTGGATCTGCTCCGCTGTAATCTCAGGGAG
1 GCTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTGGATCTGCTCCGCTGTAATCTCAGGGAG
22016358 ATAAGATCTCTGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGT
66 ATAAGATCTCTGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGT
22016423 CTACTCCACTGTAACCTCAGGGAGATAA-ACCT-ATGCGATCTACTCTGCTGTAACTTCAGAGAG
131 CTACTCCACTGTAACCTCAGGGAGATAAGACCTGATGCGATCTACTCTGCTGTAACTTCAGAGAG
*
22016486 ATAGATCCTTTATTTTAATCT
196 A-AGATCCTTTATTTTAATCC
*
22016507 GCTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTCGATCTGCTCCGCTGTAATCTCA-GGAG
1 GCTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTGGATCTGCTCCGCTGTAATCTCAGGGAG
22016571 ATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAAT
66 ATAAGATCTCT-GCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAAT
22016629 ATTCACTGAT
Statistics
Matches: 328, Mismatches: 4, Indels: 7
0.97 0.01 0.02
Matches are distributed among these distances:
213 71 0.22
214 175 0.53
215 82 0.25
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (215 bp):
GCTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTGGATCTGCTCCGCTGTAATCTCAGGGAG
ATAAGATCTCTGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGT
CTACTCCACTGTAACCTCAGGGAGATAAGACCTGATGCGATCTACTCTGCTGTAACTTCAGAGAG
AAGATCCTTTATTTTAATCC
Found at i:22017864 original size:7 final size:6
Alignment explanation
Indices: 22017829--22017863 Score: 61
Period size: 6 Copynumber: 5.7 Consensus size: 6
22017819 TCTCCATTTT
22017829 TTTTCA TTTTTCA TTTTCA TTTTCA TTTTCA TTTT
1 TTTTCA -TTTTCA TTTTCA TTTTCA TTTTCA TTTT
22017864 TTTGACTCAG
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 22 0.79
7 6 0.21
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.71
Consensus pattern (6 bp):
TTTTCA
Found at i:22018644 original size:13 final size:13
Alignment explanation
Indices: 22018600--22018660 Score: 50
Period size: 15 Copynumber: 4.2 Consensus size: 13
22018590 TTTCTTTTTC
*
22018600 TTTTCTTTTTCAT
1 TTTTTTTTTTCAT
*
22018613 TCTATTTTTTATTAGAT
1 T-T-TTTTTT-TT-CAT
22018630 TTTTTTTTTTCAT
1 TTTTTTTTTTCAT
22018643 TTTTTTCTTTCTCAT
1 TTTTTT-TTT-TCAT
22018658 TTT
1 TTT
22018661 CATTTTGATC
Statistics
Matches: 39, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
13 9 0.23
14 6 0.15
15 18 0.46
16 3 0.08
17 3 0.08
ACGTcount: A:0.11, C:0.11, G:0.02, T:0.75
Consensus pattern (13 bp):
TTTTTTTTTTCAT
Found at i:22018723 original size:22 final size:22
Alignment explanation
Indices: 22018698--22018741 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
22018688 TTCTTTCTTC
* *
22018698 TTTTTTTTTTTATTTTGATTTT
1 TTTTTTTTTTCATTTTCATTTT
22018720 TTTTTTTTTTCATTTTCATTTT
1 TTTTTTTTTTCATTTTCATTTT
22018742 GACTTTTGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.09, C:0.05, G:0.02, T:0.84
Consensus pattern (22 bp):
TTTTTTTTTTCATTTTCATTTT
Found at i:22018726 original size:41 final size:41
Alignment explanation
Indices: 22018594--22018771 Score: 136
Period size: 41 Copynumber: 4.4 Consensus size: 41
22018584 TCTCCTTTTC
* * *
22018594 TTTTTCTTTTCTTTTTCATTC-T-ATTTTTTATTAGATTTT--
1 TTTTT-TTTT-TTTTTCTTTCTTCATTTTTTTTTTGATTTTGA
** *
22018633 TTTTTTTCATTTTTTTCTTTC-TCATTTTCATTTTGATCTTGA
1 TTTTTTT--TTTTTTTCTTTCTTCATTTTTTTTTTGATTTTGA
* * *
22018675 TTTTGATTTTTTCTTCTTTCTTC-TTTTTTTTTTTATTTTGA
1 TTTT-TTTTTTTTTTCTTTCTTCATTTTTTTTTTGATTTTGA
* **
22018716 TTTTTTTTTTTTTTCATT-TTCATTTTGACTTTTGATTTTGA
1 TTTTTTTTTTTTTTCTTTCTTCATTTT-TTTTTTGATTTTGA
*
22018757 TTTTTCTTTTTTTTC
1 TTTTTTTTTTTTTTC
22018772 CCTTTTTGAT
Statistics
Matches: 111, Mismatches: 19, Indels: 16
0.76 0.13 0.11
Matches are distributed among these distances:
38 2 0.02
39 18 0.16
40 29 0.26
41 54 0.49
42 6 0.05
43 2 0.02
ACGTcount: A:0.10, C:0.11, G:0.04, T:0.75
Consensus pattern (41 bp):
TTTTTTTTTTTTTTCTTTCTTCATTTTTTTTTTGATTTTGA
Found at i:22018749 original size:35 final size:36
Alignment explanation
Indices: 22018643--22018768 Score: 114
Period size: 35 Copynumber: 3.4 Consensus size: 36
22018633 TTTTTTTCAT
* * *
22018643 TTTTTTCTTTCTCATTTTCATTTTGATCTTGATTTTGA
1 TTTTTTC-TTCT-TTTTTCATTTTCATTTTGATTTTGA
* ** *
22018681 TTTTTTCTTCTTTCTTC-TTTTTTTTTTTATTTTGA
1 TTTTTTCTTCTTTTTTCATTTTCATTTTGATTTTGA
22018716 TTTTTT-TT-TTTTTTCATTTTCATTTTGACTTTTGA
1 TTTTTTCTTCTTTTTTCATTTTCATTTTGA-TTTTGA
*
22018751 TTTTGATTTTTCTTTTTT
1 TTTT--TTCTTCTTTTTT
22018769 TTCCCTTTTT
Statistics
Matches: 72, Mismatches: 10, Indels: 11
0.77 0.11 0.12
Matches are distributed among these distances:
33 6 0.08
34 11 0.15
35 30 0.42
36 4 0.06
37 6 0.08
38 9 0.12
39 6 0.08
ACGTcount: A:0.10, C:0.10, G:0.06, T:0.75
Consensus pattern (36 bp):
TTTTTTCTTCTTTTTTCATTTTCATTTTGATTTTGA
Found at i:22018778 original size:75 final size:73
Alignment explanation
Indices: 22018629--22018778 Score: 196
Period size: 75 Copynumber: 2.0 Consensus size: 73
22018619 TTTTATTAGA
22018629 TTTTTTTTTTTCATTTTTTTCTTTCTCATTTTCATTTTGATCTTGATTTTGATTTTTTCTTCTTT
1 TTTTTTTTTTTCATTTTTTTCTTTCTCATTTTCATTTTGATCTTGATTTTGATTTTTTCTTCTTT
*
22018694 CTTCTTTT
66 CTTCCTTT
* * * *
22018702 TTTTTTTATTTTGATTTTTTTTTTTTTTCATTTTCATTTTGACTTTTGATTTTGA-TTTTTCTT-
1 TTTTTTT-TTTTCA-TTTTTTTCTTTCTCATTTTCATTTTGA-TCTTGATTTTGATTTTTTCTTC
* *
22018765 TTTTTTCCCTT
63 TTTCTTCCTTT
22018776 TTT
1 TTT
22018779 GATCTGACCT
Statistics
Matches: 67, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
73 7 0.10
74 16 0.24
75 33 0.49
76 11 0.16
ACGTcount: A:0.09, C:0.11, G:0.05, T:0.75
Consensus pattern (73 bp):
TTTTTTTTTTTCATTTTTTTCTTTCTCATTTTCATTTTGATCTTGATTTTGATTTTTTCTTCTTT
CTTCCTTT
Found at i:22019860 original size:8 final size:7
Alignment explanation
Indices: 22019837--22019884 Score: 50
Period size: 7 Copynumber: 7.1 Consensus size: 7
22019827 TATTTATTTA
22019837 TATATAT
1 TATATAT
22019844 TATATAT
1 TATATAT
22019851 TATCATA-
1 TAT-ATAT
22019858 T-TATAT
1 TATATAT
22019864 TATATTAT
1 TATA-TAT
22019872 TAT-TA-
1 TATATAT
22019877 TATATAT
1 TATATAT
22019884 T
1 T
22019885 GACAAGAAAG
Statistics
Matches: 35, Mismatches: 0, Indels: 12
0.74 0.00 0.26
Matches are distributed among these distances:
5 6 0.17
6 6 0.17
7 14 0.40
8 9 0.26
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (7 bp):
TATATAT
Found at i:22019863 original size:5 final size:5
Alignment explanation
Indices: 22019830--22019884 Score: 55
Period size: 5 Copynumber: 11.4 Consensus size: 5
22019820 AATAATGTAT
*
22019830 TTAT- TTATA -TATA TTATA -TATTA TCATA TTATA TTATA TTATTA TTATA
1 TTATA TTATA TTATA TTATA TTA-TA TTATA TTATA TTATA TTA-TA TTATA
22019879 -TATA TT
1 TTATA TT
22019885 GACAAGAAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 11
0.77 0.04 0.20
Matches are distributed among these distances:
4 14 0.33
5 23 0.53
6 6 0.14
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (5 bp):
TTATA
Found at i:22019872 original size:13 final size:13
Alignment explanation
Indices: 22019834--22019884 Score: 54
Period size: 13 Copynumber: 3.9 Consensus size: 13
22019824 ATGTATTTAT
22019834 TTATA-TATATTA
1 TTATATTATATTA
22019846 -TATATTATCA-TA
1 TTATATTAT-ATTA
22019858 TTATATTATATTA
1 TTATATTATATTA
22019871 TTATTATATATATT
1 TTA-TAT-TATATT
22019885 GACAAGAAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
11 4 0.12
12 6 0.18
13 14 0.42
14 3 0.09
15 6 0.18
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (13 bp):
TTATATTATATTA
Found at i:22019948 original size:40 final size:40
Alignment explanation
Indices: 22019892--22019985 Score: 120
Period size: 40 Copynumber: 2.4 Consensus size: 40
22019882 ATTGACAAGA
22019892 AAGAAAGAAA-AGAACAGAGAGC-AAACCAAAACAGAGAAGG
1 AAGAAAGAAAGA-AACAGAG-GCAAAACCAAAACAGAGAAGG
* * *
22019932 GAGAAAGAAAGAAACAGAGGCAAAACGAAACCAGAGAAGG
1 AAGAAAGAAAGAAACAGAGGCAAAACCAAAACAGAGAAGG
*
22019972 AAGGAAGAAAGAAA
1 AAGAAAGAAAGAAA
22019986 AAAGAAAAGG
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
39 2 0.04
40 44 0.94
41 1 0.02
ACGTcount: A:0.62, C:0.11, G:0.28, T:0.00
Consensus pattern (40 bp):
AAGAAAGAAAGAAACAGAGGCAAAACCAAAACAGAGAAGG
Found at i:22027147 original size:53 final size:53
Alignment explanation
Indices: 22027066--22027216 Score: 214
Period size: 53 Copynumber: 2.8 Consensus size: 53
22027056 CTTACACGGT
* *
22027066 TCACATATCATACCGAAGCCATATCCCAGAC-ATGGTCTTATACGGAATCACATTA
1 TCACAT-T-ATACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAATCACATTA
*
22027121 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
** *
22027174 TCACATTGCACCGATGCCATAGCCCAGCTATGGTCTTAAACGG
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGG
22027217 GCACACTTAT
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 81 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.26
Consensus pattern (53 bp):
TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
Found at i:22033065 original size:15 final size:16
Alignment explanation
Indices: 22033047--22033076 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
22033037 ATATAAATTA
22033047 AAAAATTAAA-AAAAT
1 AAAAATTAAATAAAAT
22033062 AAAAATTAAATAAAA
1 AAAAATTAAATAAAA
22033077 GGTAATCATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (16 bp):
AAAAATTAAATAAAAT
Found at i:22044337 original size:15 final size:15
Alignment explanation
Indices: 22044311--22044363 Score: 63
Period size: 15 Copynumber: 3.6 Consensus size: 15
22044301 TGAATTTATC
*
22044311 AAATTATATTGATTG
1 AAATCATATTGATTG
*
22044326 AAATCATTTTGATTG
1 AAATCATATTGATTG
* *
22044341 AATTTATATTGATTG
1 AAATCATATTGATTG
22044356 AAAT-ATAT
1 AAATCATAT
22044364 AATATATATA
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
14 4 0.12
15 28 0.88
ACGTcount: A:0.40, C:0.02, G:0.11, T:0.47
Consensus pattern (15 bp):
AAATCATATTGATTG
Found at i:22044752 original size:23 final size:23
Alignment explanation
Indices: 22044724--22044772 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
22044714 TAATATTCCG
22044724 GGTGTGTTTGGGTTGGATATTCT
1 GGTGTGTTTGGGTTGGATATTCT
22044747 GGTGTGTTTGGGTTGGATATTCT
1 GGTGTGTTTGGGTTGGATATTCT
22044770 GGT
1 GGT
22044773 ATCTATCAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.08, C:0.04, G:0.41, T:0.47
Consensus pattern (23 bp):
GGTGTGTTTGGGTTGGATATTCT
Found at i:22044886 original size:18 final size:19
Alignment explanation
Indices: 22044865--22044905 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
22044855 AATGAAATGA
22044865 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
22044883 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
22044902 GAAA
1 GAAA
22044906 ACATGAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (19 bp):
GAAATTGAGATATGAGATT
Found at i:22045877 original size:7 final size:7
Alignment explanation
Indices: 22045865--22045905 Score: 64
Period size: 7 Copynumber: 5.6 Consensus size: 7
22045855 ATAATAAAAT
22045865 ATATAAA
1 ATATAAA
22045872 ATATAAA
1 ATATAAA
22045879 ATATAAA
1 ATATAAA
22045886 ATATTAAA
1 ATA-TAAA
22045894 ATATTAAA
1 ATA-TAAA
22045902 ATAT
1 ATAT
22045906 TAGAATAATA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
7 18 0.55
8 15 0.45
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (7 bp):
ATATAAA
Found at i:22045888 original size:23 final size:23
Alignment explanation
Indices: 22045858--22045905 Score: 80
Period size: 23 Copynumber: 2.1 Consensus size: 23
22045848 GATGGGAATA
22045858 ATAAAATATATAAAATA-TAAAAT
1 ATAAAATAT-TAAAATATTAAAAT
22045881 ATAAAATATTAAAATATTAAAAT
1 ATAAAATATTAAAATATTAAAAT
22045904 AT
1 AT
22045906 TAGAATAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 7 0.29
23 17 0.71
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (23 bp):
ATAAAATATTAAAATATTAAAAT
Found at i:22045895 original size:8 final size:8
Alignment explanation
Indices: 22045854--22045912 Score: 77
Period size: 8 Copynumber: 7.5 Consensus size: 8
22045844 CAATGATGGG
*
22045854 AATAATAA
1 AATATTAA
22045862 AATATATAA
1 AATAT-TAA
22045871 AATA-TAA
1 AATATTAA
22045878 AATA-TAA
1 AATATTAA
22045885 AATATTAA
1 AATATTAA
22045893 AATATTAA
1 AATATTAA
*
22045901 AATATTAG
1 AATATTAA
22045909 AATA
1 AATA
22045913 ATAATAATTA
Statistics
Matches: 47, Mismatches: 2, Indels: 4
0.89 0.04 0.08
Matches are distributed among these distances:
7 14 0.30
8 26 0.55
9 7 0.15
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (8 bp):
AATATTAA
Found at i:22045923 original size:31 final size:30
Alignment explanation
Indices: 22045854--22045923 Score: 81
Period size: 31 Copynumber: 2.3 Consensus size: 30
22045844 CAATGATGGG
22045854 AATAA-TAAAATATATAAAATATAAAATAT
1 AATAATTAAAATATATAAAATATAAAATAT
* *
22045883 AAAATATTAAAATAT-TAAAATATTAGAATAAT
1 AATA-ATTAAAATATATAAAATA-TAAAAT-AT
22045915 AATAATTAA
1 AATAATTAA
22045924 TATTGACAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
29 3 0.09
30 8 0.24
31 18 0.53
32 5 0.15
ACGTcount: A:0.66, C:0.00, G:0.01, T:0.33
Consensus pattern (30 bp):
AATAATTAAAATATATAAAATATAAAATAT
Found at i:22046077 original size:23 final size:22
Alignment explanation
Indices: 22046026--22046079 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 22
22046016 ATACTACATC
22046026 AATATGTACATAT-ATA--AAA
1 AATATGTACATATAATATTAAA
**
22046045 AATAAATACATGATAATATTAAA
1 AATATGTACAT-ATAATATTAAA
22046068 AATATGTACATA
1 AATATGTACATA
22046080 ATATAGTGTT
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
19 9 0.33
20 2 0.07
21 3 0.11
22 1 0.04
23 12 0.44
ACGTcount: A:0.57, C:0.06, G:0.06, T:0.31
Consensus pattern (22 bp):
AATATGTACATATAATATTAAA
Found at i:22046126 original size:22 final size:24
Alignment explanation
Indices: 22046042--22046127 Score: 81
Period size: 25 Copynumber: 3.7 Consensus size: 24
22046032 TACATATATA
* *
22046042 AAAAATAAATACATGATAATA--TT
1 AAAAATATATACATAAT-ATAGGTT
*
22046065 AAAAATATGTACATAATATAGTGTT
1 AAAAATATATACATAATATAG-GTT
*
22046090 AAAAATACATACATAATATA-GTT
1 AAAAATATATACATAATATAGGTT
*
22046113 -AAGATATATACATAA
1 AAAAATATATACATAA
22046128 GATAACATGT
Statistics
Matches: 53, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
22 16 0.30
23 17 0.32
25 20 0.38
ACGTcount: A:0.56, C:0.06, G:0.07, T:0.31
Consensus pattern (24 bp):
AAAAATATATACATAATATAGGTT
Found at i:22046178 original size:25 final size:25
Alignment explanation
Indices: 22046150--22046281 Score: 91
Period size: 25 Copynumber: 5.6 Consensus size: 25
22046140 AAAAAATTAT
22046150 ATATATAAATAATATAATATTAAAG
1 ATATATAAATAATATAATATTAAAG
* * *
22046175 ATATATAAATAAAATAGTA-TAATAT
1 ATATATAAATAATATAATATTAA-AG
** * *
22046200 ATATATACGTAATATAAAATTTAA-
1 ATATATAAATAATATAATATTAAAG
** *
22046224 A-ATATACCTAATAT-AT-TAAAAG
1 ATATATAAATAATATAATATTAAAG
*
22046246 A-ATATATATAATATAATATT-AAG
1 ATATATAAATAATATAATATTAAAG
*
22046269 AAATAT-AATAATA
1 ATATATAAATAATA
22046282 ACAAAAAAGA
Statistics
Matches: 84, Mismatches: 17, Indels: 14
0.73 0.15 0.12
Matches are distributed among these distances:
21 3 0.04
22 13 0.15
23 24 0.29
24 9 0.11
25 33 0.39
26 2 0.02
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.36
Consensus pattern (25 bp):
ATATATAAATAATATAATATTAAAG
Found at i:22046800 original size:30 final size:30
Alignment explanation
Indices: 22046764--22046937 Score: 289
Period size: 30 Copynumber: 5.9 Consensus size: 30
22046754 TAGGTACAAG
* *
22046764 TGGTGGTGGAGAAGGTGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
22046794 TGGTGGTGGAAAA-GAGTGGCTAGTGG-GT
1 TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
*
22046822 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
*
22046852 TGGTGGTGGAAAAAGAGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
*
22046882 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
22046912 TGGTGGTGGAAAAGGAGTGGCTAGTG
1 TGGTGGTGGAAAAGGAGTGGCTAGTG
22046938 AGAAAAGTTT
Statistics
Matches: 134, Mismatches: 8, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
28 15 0.11
29 24 0.18
30 95 0.71
ACGTcount: A:0.21, C:0.03, G:0.50, T:0.25
Consensus pattern (30 bp):
TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
Found at i:22047929 original size:74 final size:72
Alignment explanation
Indices: 22047747--22048085 Score: 370
Period size: 74 Copynumber: 4.7 Consensus size: 72
22047737 AGGCCAACTC
* *
22047747 ACCTCTAGCATGTAGCCGAGGCTCAACTCACCTCTCGCAATATGAGT-AATTTTGACAAACAGAA
1 ACCTC-AGCGTGT-GCCGAGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTGACAAACAGAA
*
22047811 A-T-GAAAT
64 ATTAAAAAT
*
22047818 ACCTCAGCGTGT-CCGAGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTGAAAAACAGAAAT
1 ACCTCAGCGTGTGCCGAGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTGACAAACAGAAAT
22047882 TAAAAAT
66 TAAAAAT
* * * ** *
22047889 ACCTCAGCGTGTGAGCCAAGGCTCAACTCACCTCTTGCAATATGAG-CTAATTTTGATGAACATA
1 ACCTCAGCGTGT--GCCGAGGCTCAACTCACCTCTCGCAATATGAGTC-GATTTTGACAAACAGA
**
22047953 AATTAAAACC
63 AATTAAAAAT
* *
22047963 ACCTCAGCGTGT-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAAAA
1 ACCTCAGCGTGTGCC-GAGGCTCAACTCACCTCTCGCAATATGAGTCGA-TTTTGACAAACAGAA
* *
22048027 ATTGAAATT
64 ATTAAAAAT
* * * * *
22048036 ACCTCATCGTCT--TGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTT
1 ACCTCAGCGTGTGCCGAGGCTCAACTCACCTCTCGCAATATGAGTCGATTTT
22048086 TTTGAAACAT
Statistics
Matches: 232, Mismatches: 26, Indels: 21
0.83 0.09 0.08
Matches are distributed among these distances:
68 32 0.14
69 16 0.07
70 11 0.05
71 55 0.24
72 28 0.12
73 29 0.12
74 61 0.26
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.27
Consensus pattern (72 bp):
ACCTCAGCGTGTGCCGAGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTGACAAACAGAAAT
TAAAAAT
Done.