Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167849.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_12, whole genome shotgun sequence
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: 22966848
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 129000 characters in sequence are not A, C, G, or T
File 60 of 129
Found at i:9041826 original size:26 final size:24
Alignment explanation
Indices: 9041790--9041849 Score: 77
Period size: 26 Copynumber: 2.5 Consensus size: 24
9041780 TATAATAAAA
* *
9041790 TTTATTT-ATTTATTATTTTAATT
1 TTTATTTAATTTATGATTGTAATT
9041813 TTTAATTTTAATTTATGATTGTAATT
1 TTT-A-TTTAATTTATGATTGTAATT
9041839 TTTATTTAATT
1 TTTATTTAATT
9041850 ATTTTTAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
23 3 0.09
24 8 0.25
25 4 0.12
26 17 0.53
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.68
Consensus pattern (24 bp):
TTTATTTAATTTATGATTGTAATT
Found at i:9042353 original size:27 final size:27
Alignment explanation
Indices: 9042323--9042377 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
9042313 TTATTTGATG
9042323 TATGTACATTCACGTTTTAGAACACAA
1 TATGTACATTCACGTTTTAGAACACAA
* *
9042350 TATGTACATTTACTTTTTAGAACACAA
1 TATGTACATTCACGTTTTAGAACACAA
9042377 T
1 T
9042378 CCTTAAGTGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.36, C:0.16, G:0.09, T:0.38
Consensus pattern (27 bp):
TATGTACATTCACGTTTTAGAACACAA
Found at i:9060870 original size:29 final size:30
Alignment explanation
Indices: 9060810--9060869 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 30
9060800 TTTCCTTTTT
* * *
9060810 AATTTTTCAAATTTCTTTAATATTTAATAA
1 AATTTTTAAAATGTCTTTAAAATTTAATAA
9060840 AATTTTTAAAATGT-TTTAAAATTT-ATAA
1 AATTTTTAAAATGTCTTTAAAATTTAATAA
9060868 AA
1 AA
9060870 AAATGGGATC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
28 6 0.22
29 9 0.33
30 12 0.44
ACGTcount: A:0.45, C:0.03, G:0.02, T:0.50
Consensus pattern (30 bp):
AATTTTTAAAATGTCTTTAAAATTTAATAA
Found at i:9061496 original size:7 final size:7
Alignment explanation
Indices: 9061484--9061545 Score: 54
Period size: 8 Copynumber: 8.3 Consensus size: 7
9061474 CTATGAGCTC
9061484 TTATTTT
1 TTATTTT
9061491 TTATTTCT
1 TTATTT-T
*
9061499 TTACTCTT
1 TTA-TTTT
9061507 TTA-TTT
1 TTATTTT
*
9061513 TAATTTT
1 TTATTTT
9061520 TTATCTTT
1 TTAT-TTT
9061528 TTACTTATT
1 TTA-TT-TT
9061537 TTATTTT
1 TTATTTT
9061544 TT
1 TT
9061546 TAAAATTAGA
Statistics
Matches: 45, Mismatches: 4, Indels: 12
0.74 0.07 0.20
Matches are distributed among these distances:
6 4 0.09
7 16 0.36
8 17 0.38
9 8 0.18
ACGTcount: A:0.16, C:0.08, G:0.00, T:0.76
Consensus pattern (7 bp):
TTATTTT
Found at i:9061513 original size:21 final size:20
Alignment explanation
Indices: 9061481--9061529 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 20
9061471 ACTCTATGAG
9061481 CTCTTATTTTTT-ATTTCTTTA
1 CTCTT-TTTTTTAATTT-TTTA
9061502 CTCTTTTATTTTAATTTTTTA
1 CTCTTTT-TTTTAATTTTTTA
9061523 -TCTTTTT
1 CTCTTTTT
9061530 ACTTATTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
19 1 0.04
20 8 0.31
21 13 0.50
22 4 0.15
ACGTcount: A:0.14, C:0.12, G:0.00, T:0.73
Consensus pattern (20 bp):
CTCTTTTTTTTAATTTTTTA
Found at i:9061521 original size:30 final size:30
Alignment explanation
Indices: 9061486--9061543 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 30
9061476 ATGAGCTCTT
*
9061486 ATTTTTTAT-TTCTTTAC-TCTTTTATTTTA
1 ATTTTTTATCTT-TTTACTTATTTTATTTTA
9061515 ATTTTTTATCTTTTTACTTATTTTATTTT
1 ATTTTTTATCTTTTTACTTATTTTATTTT
9061544 TTTAAAATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 14 0.54
30 12 0.46
ACGTcount: A:0.17, C:0.09, G:0.00, T:0.74
Consensus pattern (30 bp):
ATTTTTTATCTTTTTACTTATTTTATTTTA
Found at i:9061530 original size:21 final size:22
Alignment explanation
Indices: 9061488--9061528 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
9061478 GAGCTCTTAT
*
9061488 TTTTTATTTCTTTACTCTTTTA
1 TTTTAATTTCTTTACTCTTTTA
9061510 TTTTAATTT-TTTA-TCTTTT
1 TTTTAATTTCTTTACTCTTTT
9061529 TACTTATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 6 0.33
21 4 0.22
22 8 0.44
ACGTcount: A:0.15, C:0.10, G:0.00, T:0.76
Consensus pattern (22 bp):
TTTTAATTTCTTTACTCTTTTA
Found at i:9061949 original size:20 final size:21
Alignment explanation
Indices: 9061924--9061966 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
9061914 ATTCTTTAGC
9061924 AAATTCTTGC-AAATTCTCCT
1 AAATTCTTGCAAAATTCTCCT
9061944 AAATTCTTGCAAAATTCTCCT
1 AAATTCTTGCAAAATTCTCCT
9061965 AA
1 AA
9061967 GCTAGCTAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 10 0.45
21 12 0.55
ACGTcount: A:0.35, C:0.23, G:0.05, T:0.37
Consensus pattern (21 bp):
AAATTCTTGCAAAATTCTCCT
Found at i:9065829 original size:32 final size:32
Alignment explanation
Indices: 9065793--9065853 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 32
9065783 TTCTCATTTT
* * *
9065793 CTTTTTCATCTTTTTTTTTTTTGTTTTTTTAA
1 CTTTTTCATCCTTTATTTTTTTATTTTTTTAA
*
9065825 CTTTTTCTTCCTTTATTTTTTTATTTTTT
1 CTTTTTCATCCTTTATTTTTTTATTTTTT
9065854 AATTCGATAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 25 1.00
ACGTcount: A:0.08, C:0.11, G:0.02, T:0.79
Consensus pattern (32 bp):
CTTTTTCATCCTTTATTTTTTTATTTTTTTAA
Found at i:9066689 original size:22 final size:23
Alignment explanation
Indices: 9066642--9066692 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 23
9066632 TTATTAAAAT
*
9066642 TTTTTTCTTTTTTTTTCATTTATC
1 TTTTTCCTTTTTTTTT-ATTTATC
*
9066666 TTTTTCCTTTTTTTTT-TTTGTC
1 TTTTTCCTTTTTTTTTATTTATC
9066688 TTTTT
1 TTTTT
9066693 AATTAAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 10 0.40
24 15 0.60
ACGTcount: A:0.04, C:0.12, G:0.02, T:0.82
Consensus pattern (23 bp):
TTTTTCCTTTTTTTTTATTTATC
Found at i:9070354 original size:11 final size:11
Alignment explanation
Indices: 9070323--9070379 Score: 61
Period size: 10 Copynumber: 5.6 Consensus size: 11
9070313 TTTAAATTGA
9070323 ATTATTTT-A-
1 ATTATTTTAAT
*
9070332 ATT-TTTTGAT
1 ATTATTTTAAT
9070342 ATTATTTTAAT
1 ATTATTTTAAT
*
9070353 ATAATTTTAAT
1 ATTATTTTAAT
9070364 A-TATTTTAAT
1 ATTATTTTAAT
9070374 A-TATTT
1 ATTATTT
9070380 ATATATAAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
8 4 0.10
9 4 0.10
10 17 0.40
11 17 0.40
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (11 bp):
ATTATTTTAAT
Found at i:9070370 original size:21 final size:22
Alignment explanation
Indices: 9070323--9070376 Score: 71
Period size: 21 Copynumber: 2.6 Consensus size: 22
9070313 TTTAAATTGA
*
9070323 ATTATTTTAAT-T--TTTTGAT
1 ATTATTTTAATATAATTTTAAT
9070342 ATTATTTTAATATAATTTTAAT
1 ATTATTTTAATATAATTTTAAT
9070364 A-TATTTTAATATA
1 ATTATTTTAATATA
9070377 TTTATATATA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
19 11 0.35
20 1 0.03
21 12 0.39
22 7 0.23
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (22 bp):
ATTATTTTAATATAATTTTAAT
Found at i:9070371 original size:10 final size:10
Alignment explanation
Indices: 9070325--9070379 Score: 69
Period size: 11 Copynumber: 5.5 Consensus size: 10
9070315 TAAATTGAAT
9070325 TATTTTAAT-
1 TATTTTAATA
*
9070334 T-TTTTGATA
1 TATTTTAATA
9070343 TTATTTTAATA
1 -TATTTTAATA
9070354 TAATTTTAATA
1 T-ATTTTAATA
9070365 TATTTTAATA
1 TATTTTAATA
9070375 TATTT
1 TATTT
9070380 ATATATAAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
8 6 0.15
9 1 0.03
10 16 0.40
11 17 0.43
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.64
Consensus pattern (10 bp):
TATTTTAATA
Found at i:9073514 original size:15 final size:17
Alignment explanation
Indices: 9073473--9073514 Score: 52
Period size: 15 Copynumber: 2.5 Consensus size: 17
9073463 GTCGAATAGC
9073473 AATAACTTATACTAAGAT
1 AATAA-TTATACTAAGAT
9073491 AATTAATTA-ACTAAG-T
1 AA-TAATTATACTAAGAT
9073507 AATAATTA
1 AATAATTA
9073515 GCCTAAAGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
15 6 0.26
16 3 0.13
17 6 0.26
18 5 0.22
19 3 0.13
ACGTcount: A:0.52, C:0.07, G:0.05, T:0.36
Consensus pattern (17 bp):
AATAATTATACTAAGAT
Found at i:9074668 original size:10 final size:10
Alignment explanation
Indices: 9074653--9074682 Score: 60
Period size: 10 Copynumber: 3.0 Consensus size: 10
9074643 AAACTAAGAG
9074653 AAGAAGAAAT
1 AAGAAGAAAT
9074663 AAGAAGAAAT
1 AAGAAGAAAT
9074673 AAGAAGAAAT
1 AAGAAGAAAT
9074683 TAATAATTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.70, C:0.00, G:0.20, T:0.10
Consensus pattern (10 bp):
AAGAAGAAAT
Found at i:9075131 original size:17 final size:17
Alignment explanation
Indices: 9075109--9075150 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
9075099 TATTTATTAA
9075109 AAATTAAAAATTAATAT
1 AAATTAAAAATTAATAT
* *
9075126 AAATTAATACTTAATAT
1 AAATTAAAAATTAATAT
9075143 -AATTAAAA
1 AAATTAAAA
9075151 TATGGGCTGT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
16 7 0.32
17 15 0.68
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (17 bp):
AAATTAAAAATTAATAT
Found at i:9087521 original size:33 final size:31
Alignment explanation
Indices: 9087457--9087522 Score: 78
Period size: 33 Copynumber: 2.1 Consensus size: 31
9087447 ATGGCTAGGA
**
9087457 TTCAAAAGTTTTTTTTTTATTTCTGTTTTTT
1 TTCAAAAGTTTTTTTTTTATTTCTGGATTTT
* *
9087488 TTCAAAAGTCTTGTTTTTTTGTTTTTGGATTTT
1 TTCAAAAGT-TT-TTTTTTTATTTCTGGATTTT
9087521 TT
1 TT
9087523 TTTATTTTGG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
31 9 0.31
32 2 0.07
33 18 0.62
ACGTcount: A:0.15, C:0.06, G:0.11, T:0.68
Consensus pattern (31 bp):
TTCAAAAGTTTTTTTTTTATTTCTGGATTTT
Found at i:9089313 original size:7 final size:7
Alignment explanation
Indices: 9089303--9089426 Score: 59
Period size: 7 Copynumber: 17.7 Consensus size: 7
9089293 TTTAAAGTTT
9089303 GGTTTAG
1 GGTTTAG
9089310 GGTTTAG
1 GGTTTAG
9089317 GG-TTA-
1 GGTTTAG
9089322 -GTTTAG
1 GGTTTAG
*
9089328 GGTCTA-
1 GGTTTAG
9089334 GG-TTA-
1 GGTTTAG
*
9089339 GGTTTAA
1 GGTTTAG
9089346 GGTTTAG
1 GGTTTAG
9089353 GG-TTA-
1 GGTTTAG
9089358 -GTTTAG
1 GGTTTAG
*
9089364 GGTTTAA
1 GGTTTAG
9089371 GGTTTGGATG
1 GGTTT--A-G
9089381 AGGTTTAG
1 -GGTTTAG
**
9089389 CTTTTAG
1 GGTTTAG
9089396 GGTTTGGATGG
1 GGTTT--A--G
9089407 TGGTTTAG
1 -GGTTTAG
9089415 GGTTTAG
1 GGTTTAG
9089422 GGTTT
1 GGTTT
9089427 GAATTTGGAT
Statistics
Matches: 91, Mismatches: 9, Indels: 34
0.68 0.07 0.25
Matches are distributed among these distances:
4 2 0.02
5 10 0.11
6 11 0.12
7 51 0.56
8 2 0.02
9 3 0.03
10 1 0.01
11 6 0.07
12 5 0.05
ACGTcount: A:0.16, C:0.02, G:0.39, T:0.44
Consensus pattern (7 bp):
GGTTTAG
Found at i:9089327 original size:11 final size:11
Alignment explanation
Indices: 9089311--9089367 Score: 69
Period size: 11 Copynumber: 4.9 Consensus size: 11
9089301 TTGGTTTAGG
9089311 GTTTAGGGTTA
1 GTTTAGGGTTA
9089322 GTTTAGGGTCTA
1 GTTTAGGGT-TA
* *
9089334 GGTTAGGTTTAA
1 GTTTAGGGTT-A
9089346 GGTTTAGGGTTA
1 -GTTTAGGGTTA
9089358 GTTTAGGGTT
1 GTTTAGGGTT
9089368 TAAGGTTTGG
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
11 20 0.51
12 11 0.28
13 8 0.21
ACGTcount: A:0.18, C:0.02, G:0.37, T:0.44
Consensus pattern (11 bp):
GTTTAGGGTTA
Found at i:9089327 original size:18 final size:18
Alignment explanation
Indices: 9089304--9089374 Score: 99
Period size: 18 Copynumber: 3.9 Consensus size: 18
9089294 TTAAAGTTTG
9089304 GTTTAGGGTTTAGGGTTA
1 GTTTAGGGTTTAGGGTTA
*
9089322 GTTTAGGGTCTA-GGTTA
1 GTTTAGGGTTTAGGGTTA
*
9089339 GGTTTAAGGTTTAGGGTTA
1 -GTTTAGGGTTTAGGGTTA
*
9089358 GTTTAGGGTTTAAGGTT
1 GTTTAGGGTTTAGGGTT
9089375 TGGATGAGGT
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
17 5 0.11
18 36 0.78
19 5 0.11
ACGTcount: A:0.18, C:0.01, G:0.37, T:0.44
Consensus pattern (18 bp):
GTTTAGGGTTTAGGGTTA
Found at i:9089350 original size:25 final size:25
Alignment explanation
Indices: 9089322--9089375 Score: 83
Period size: 25 Copynumber: 2.2 Consensus size: 25
9089312 TTTAGGGTTA
9089322 GTTTAGGGTCTAGGTTA-GGTTTAAG
1 GTTTAGGGT-TAGGTTAGGGTTTAAG
*
9089347 GTTTAGGGTTAGTTTAGGGTTTAAG
1 GTTTAGGGTTAGGTTAGGGTTTAAG
9089372 GTTT
1 GTTT
9089376 GGATGAGGTT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
24 6 0.22
25 21 0.78
ACGTcount: A:0.19, C:0.02, G:0.35, T:0.44
Consensus pattern (25 bp):
GTTTAGGGTTAGGTTAGGGTTTAAG
Found at i:9089385 original size:36 final size:36
Alignment explanation
Indices: 9089291--9089388 Score: 117
Period size: 36 Copynumber: 2.7 Consensus size: 36
9089281 TAGGATTTGA
* *
9089291 GGTTTAAAGTTTGGTTTAGGGTTTAGGGTTAGTTTAG
1 GGTTTAAGGTTTGG-TTAAGGTTTAGGGTTAGTTTAG
* *
9089328 GGTCT-AGGTTAGGTTTAAGGTTTAGGGTTAGTTTAG
1 GGTTTAAGGTTTGG-TTAAGGTTTAGGGTTAGTTTAG
* *
9089364 GGTTTAAGGTTTGGATGAGGTTTAG
1 GGTTTAAGGTTTGGTTAAGGTTTAG
9089389 CTTTTAGGGT
Statistics
Matches: 52, Mismatches: 8, Indels: 3
0.83 0.13 0.05
Matches are distributed among these distances:
36 41 0.79
37 11 0.21
ACGTcount: A:0.19, C:0.01, G:0.37, T:0.43
Consensus pattern (36 bp):
GGTTTAAGGTTTGGTTAAGGTTTAGGGTTAGTTTAG
Found at i:9089386 original size:25 final size:25
Alignment explanation
Indices: 9089339--9089427 Score: 90
Period size: 25 Copynumber: 3.5 Consensus size: 25
9089329 GTCTAGGTTA
* *
9089339 GGTTTAAGGTTTAGGGTTA-GTTTAG
1 GGTTTAAGGTTT-GGATGAGGTTTAG
9089364 GGTTTAAGGTTTGGATGAGGTTTAG
1 GGTTTAAGGTTTGGATGAGGTTTAG
** * *
9089389 CTTTTAGGGTTTGGATGGTGGTTTAG
1 GGTTTAAGGTTTGGAT-GAGGTTTAG
*
9089415 GGTTTAGGGTTTG
1 GGTTTAAGGTTTG
9089428 AATTTGGATT
Statistics
Matches: 54, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
24 4 0.07
25 31 0.57
26 19 0.35
ACGTcount: A:0.16, C:0.01, G:0.39, T:0.44
Consensus pattern (25 bp):
GGTTTAAGGTTTGGATGAGGTTTAG
Found at i:9089460 original size:14 final size:14
Alignment explanation
Indices: 9089443--9089473 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
9089433 GGATTTGGGA
9089443 TTTGAAATTTAAGG
1 TTTGAAATTTAAGG
9089457 TTTGAAATTTAAGG
1 TTTGAAATTTAAGG
9089471 TTT
1 TTT
9089474 TATGGAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.19, T:0.48
Consensus pattern (14 bp):
TTTGAAATTTAAGG
Found at i:9090309 original size:80 final size:80
Alignment explanation
Indices: 9090176--9090334 Score: 264
Period size: 80 Copynumber: 2.0 Consensus size: 80
9090166 AGAACTAAAA
* *
9090176 GAAGGTTTGACAATAGTGATATGGTACTTGGCTGAACCTTCAAATGGCCAACAATGGTAAATTTT
1 GAAGGTTTGACAATAGTGATATGGTACTTGGCCGAACCTTCAAATAGCCAACAATGGTAAATTTT
9090241 ATGTTAATGTTGCTT
66 ATGTTAATGTTGCTT
* * *
9090256 GAAGGTTTGGCAATGGTGATATGGTACTTGGCCGAACCTTCAAATAGCCAACAATGGTGAATTTT
1 GAAGGTTTGACAATAGTGATATGGTACTTGGCCGAACCTTCAAATAGCCAACAATGGTAAATTTT
*
9090321 TTGTTAATGTTGCT
66 ATGTTAATGTTGCT
9090335 CGATCCTTTT
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
80 73 1.00
ACGTcount: A:0.28, C:0.13, G:0.24, T:0.35
Consensus pattern (80 bp):
GAAGGTTTGACAATAGTGATATGGTACTTGGCCGAACCTTCAAATAGCCAACAATGGTAAATTTT
ATGTTAATGTTGCTT
Found at i:9092049 original size:49 final size:49
Alignment explanation
Indices: 9091969--9092066 Score: 137
Period size: 49 Copynumber: 2.0 Consensus size: 49
9091959 GTGAATTAGG
* * *
9091969 TCCAGAAAGAGTTTAAAACGCATTTCGATTAA-TGAATTAAAAATCTCAA
1 TCCAAAAAGAATTTAAAACGCATTTCAATTAATTG-ATTAAAAATCTCAA
9092018 TCCAAAAAGAATTTAAAAC-CTATTTCAATTAATTGATTAAAAATCTCAA
1 TCCAAAAAGAATTTAAAACGC-ATTTCAATTAATTGATTAAAAATCTCAA
9092067 AAATGATTTA
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
48 1 0.02
49 41 0.93
50 2 0.05
ACGTcount: A:0.47, C:0.14, G:0.08, T:0.31
Consensus pattern (49 bp):
TCCAAAAAGAATTTAAAACGCATTTCAATTAATTGATTAAAAATCTCAA
Found at i:9092395 original size:30 final size:29
Alignment explanation
Indices: 9092359--9092454 Score: 115
Period size: 30 Copynumber: 3.2 Consensus size: 29
9092349 TTTATTATAT
9092359 CTAAATAAGC-CATTAATCTTTAATTTGTA-
1 CTAAATAAGCTC-TTAA-CTTTAATTTGTAC
*
9092388 CTCAAATAAGCTCTTAACATTTAGTTTGTAC
1 CT-AAATAAGCTCTTAAC-TTTAATTTGTAC
*
9092419 CTAAATAAACTCTTAACCTTTAATTTGTAC
1 CTAAATAAGCTCTTAA-CTTTAATTTGTAC
9092449 CTAAAT
1 CTAAAT
9092455 TAGTTCGATA
Statistics
Matches: 59, Mismatches: 3, Indels: 9
0.83 0.04 0.13
Matches are distributed among these distances:
29 3 0.05
30 52 0.88
31 4 0.07
ACGTcount: A:0.36, C:0.18, G:0.06, T:0.40
Consensus pattern (29 bp):
CTAAATAAGCTCTTAACTTTAATTTGTAC
Found at i:9097704 original size:6 final size:6
Alignment explanation
Indices: 9097668--9097753 Score: 66
Period size: 6 Copynumber: 13.8 Consensus size: 6
9097658 GACTTTGACC
* ** * *
9097668 AAAAAT AAAATT AAATAAA AAAATT AAAATT AAAATT AAACTT AAACTT
1 AAAATT AAAATT AAA-ATT AAAATT AAAATT AAAATT AAAATT AAAATT
**
9097717 AAACA-T AAAACC AAAATTTT AAAATT AAAATT AAAAT
1 AAA-ATT AAAATT AAAA--TT AAAATT AAAATT AAAAT
9097754 CAAAGACCAA
Statistics
Matches: 65, Mismatches: 10, Indels: 10
0.76 0.12 0.12
Matches are distributed among these distances:
5 1 0.02
6 56 0.86
7 4 0.06
8 4 0.06
ACGTcount: A:0.66, C:0.06, G:0.00, T:0.28
Consensus pattern (6 bp):
AAAATT
Found at i:9098040 original size:29 final size:28
Alignment explanation
Indices: 9098007--9098072 Score: 69
Period size: 29 Copynumber: 2.3 Consensus size: 28
9097997 TATTTGCCAC
* * *
9098007 AAATAAAAGGGTAAAGATTTATTTGAATA
1 AAATAAAAGGATAAAAATTTATTT-AAAA
* * *
9098036 TAATATAAGTATAAAAATTTATTTAAAA
1 AAATAAAAGGATAAAAATTTATTTAAAA
9098064 AAATAAAAG
1 AAATAAAAG
9098073 ACTTTATGGA
Statistics
Matches: 29, Mismatches: 8, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
28 10 0.34
29 19 0.66
ACGTcount: A:0.58, C:0.00, G:0.11, T:0.32
Consensus pattern (28 bp):
AAATAAAAGGATAAAAATTTATTTAAAA
Found at i:9101724 original size:1 final size:1
Alignment explanation
Indices: 9101718--9101742 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
9101708 TCTCAAAACC
9101718 AAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
9101743 GGGAGCGGGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:9106063 original size:19 final size:18
Alignment explanation
Indices: 9106017--9106065 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
9106007 ATATAAATAA
*
9106017 TATAATTAAAATATCAAAT
1 TATAATTAAAA-ATAAAAT
9106036 TATAA-TAAAAATAAAATT
1 TATAATTAAAAATAAAA-T
*
9106054 TTTAATTAAAAA
1 TATAATTAAAAA
9106066 ATTGACAAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
17 5 0.19
18 10 0.38
19 11 0.42
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (18 bp):
TATAATTAAAAATAAAAT
Found at i:9115861 original size:60 final size:57
Alignment explanation
Indices: 9115618--9115951 Score: 413
Period size: 58 Copynumber: 5.7 Consensus size: 57
9115608 TTTTGTGTAG
* * *
9115618 GAAAAATTGATACTTTCAACTTTTCCC-AAAATATTTTTTGGAAACTTTTATTTTCGA
1 GAAAAATTGATACTTTCAACTTTTCCCAAAAATATTTTTTTGAAA-ATTTATTTTCAA
* **
9115675 GAAAAATTGATACTTTCAACTTTTCCTCAAAAA-CTTTTTTTGAAAATTTATTTTTTTA
1 GAAAAATTGATACTTTCAACTTTTCC-CAAAAATATTTTTTTGAAAATTTA-TTTTCAA
* *
9115733 GAAAAATTGATACTTTCAACTTTTCCCGAAAATA-TTTTTTGAAAACTTTGATTTTCGA
1 GAAAAATTGATACTTTCAACTTTTCCCAAAAATATTTTTTTGAAAA-TTT-ATTTTCAA
* * *
9115791 GGAAAATTGATACTTTCAACTTTTCCTCAAAAAAACCTTTTTTTGAAAATTTATTTTTAA
1 GAAAAATTGATACTTTCAACTTTTCC-CAAAAATA--TTTTTTTGAAAATTTATTTTCAA
*
9115851 GAAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGGAAAAGCTTATTTTCAA
1 GAAAAATTGATACTTTCAACTTTTCCC-AAAAATATTTTTTT-GAAAA-TTTATTTTCAA
* *
9115911 GGAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTT
1 GAAAAATTGATACTTTCAAC-TTTTCCCAAAAATATTTTTT
9115952 AGAGAGCTTA
Statistics
Matches: 243, Mismatches: 20, Indels: 25
0.84 0.07 0.09
Matches are distributed among these distances:
57 46 0.19
58 82 0.34
59 17 0.07
60 78 0.32
61 9 0.04
62 11 0.05
ACGTcount: A:0.35, C:0.13, G:0.08, T:0.44
Consensus pattern (57 bp):
GAAAAATTGATACTTTCAACTTTTCCCAAAAATATTTTTTTGAAAATTTATTTTCAA
Found at i:9123523 original size:349 final size:349
Alignment explanation
Indices: 9122884--9123590 Score: 1306
Period size: 349 Copynumber: 2.0 Consensus size: 349
9122874 ACCTTTGCAC
9122884 CAGTAGCAAGGTATGACACTATTAGGGTGTTAATAACCTTGGCAGGACAAAAAGGCTGGAAAATC
1 CAGTAGCAAGGTATGACACTATTAGGGTGTTAATAACCTTGGCAGGACAAAAAGGCTGGAAAATC
9122949 TTCCAACTTGAAGTTAAACCAGACTTTCTAAATGGCTATTTGAAAGAAGAAATTTTTGTTAAGCA
66 TTCCAACTTGAAGTTAAACCAGACTTTCTAAATGGCTATTTGAAAGAAGAAATTTTTGTTAAGCA
*
9123014 ACCCGAAGGCTTTGTTGCTGCTGGCTATGCAAATAAACTGTATGTGCTTAAGAAGACTCATTATG
131 ACCCGAAGGCTTTGTTGCTGCTGGCTATCCAAATAAACTGTATGTGCTTAAGAAGACTCATTATG
*
9123079 GCTTGAAGCATGCCCCTAGAGCTTGGTATAGCAGAATATGCTTATTTGTTGAAGCTAGGTTTCAG
196 GCTTGAAGCATGCCCCAAGAGCTTGGTATAGCAGAATATGCTTATTTGTTGAAGCTAGGTTTCAG
* *
9123144 CAGAAGCATCAGTGAGCTTACTCTGTATGTGAAGCAATCTGGCAGTGAGTTGATTGTTATCTCTT
261 CAGAAGCATCAGTGAGCCTACTCTGTATGTGAAGCAATCTGGCAGTGACTTGATTGTTATCTCTT
9123209 TATATTTTGATTTTCTCTTGGTGA
326 TATATTTTGATTTTCTCTTGGTGA
* *
9123233 CAGTAGCAAGGTATGACACTATTAGGGTGTTAATAGCCTTGGCAGGACAAAAAGGTTGGAAAATC
1 CAGTAGCAAGGTATGACACTATTAGGGTGTTAATAACCTTGGCAGGACAAAAAGGCTGGAAAATC
*
9123298 TTCCAACTTGAAGTTAAACCAGACTTTCTAAATGGCTGTTTGAAAGAAGAAATTTTTGTTAAGCA
66 TTCCAACTTGAAGTTAAACCAGACTTTCTAAATGGCTATTTGAAAGAAGAAATTTTTGTTAAGCA
* *
9123363 ACCCGAAGGCTTTGTTGCTGCTGGTTATCCAAATAAACTGTATTTGCTTAAGAAGACTCATTATG
131 ACCCGAAGGCTTTGTTGCTGCTGGCTATCCAAATAAACTGTATGTGCTTAAGAAGACTCATTATG
* *
9123428 GCTTGAAGCATGCTCCAAGAGCTTGGTATAGCAGAATATGCTTATTTGTTGAAGCTCGGTTTCAG
196 GCTTGAAGCATGCCCCAAGAGCTTGGTATAGCAGAATATGCTTATTTGTTGAAGCTAGGTTTCAG
9123493 CAGAAGCATCAGTGAGCCTACTCTGTATGTGAAGCAATCTGGCAGTGACTTGATTGTTATCTCTT
261 CAGAAGCATCAGTGAGCCTACTCTGTATGTGAAGCAATCTGGCAGTGACTTGATTGTTATCTCTT
*
9123558 TGTATTTTGATTTTCTCTTGGTGA
326 TATATTTTGATTTTCTCTTGGTGA
9123582 CAGTAGCAA
1 CAGTAGCAA
9123591 CTTTGCTCTT
Statistics
Matches: 346, Mismatches: 12, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
349 346 1.00
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.32
Consensus pattern (349 bp):
CAGTAGCAAGGTATGACACTATTAGGGTGTTAATAACCTTGGCAGGACAAAAAGGCTGGAAAATC
TTCCAACTTGAAGTTAAACCAGACTTTCTAAATGGCTATTTGAAAGAAGAAATTTTTGTTAAGCA
ACCCGAAGGCTTTGTTGCTGCTGGCTATCCAAATAAACTGTATGTGCTTAAGAAGACTCATTATG
GCTTGAAGCATGCCCCAAGAGCTTGGTATAGCAGAATATGCTTATTTGTTGAAGCTAGGTTTCAG
CAGAAGCATCAGTGAGCCTACTCTGTATGTGAAGCAATCTGGCAGTGACTTGATTGTTATCTCTT
TATATTTTGATTTTCTCTTGGTGA
Found at i:9127057 original size:2 final size:2
Alignment explanation
Indices: 9127050--9127075 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
9127040 CATATGTAAA
9127050 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
9127076 TACAAATGGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9129760 original size:17 final size:16
Alignment explanation
Indices: 9129721--9129766 Score: 58
Period size: 17 Copynumber: 2.9 Consensus size: 16
9129711 TATTAATTTT
*
9129721 TTAAATTAAAT-ATAA
1 TTAAATTAAATAAAAA
*
9129736 TTAAATTATATAAAAA
1 TTAAATTAAATAAAAA
9129752 TTAAAATTAAATAAA
1 TT-AAATTAAATAAA
9129767 TTAAAAAAGC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
15 10 0.38
16 5 0.19
17 11 0.42
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (16 bp):
TTAAATTAAATAAAAA
Found at i:9129772 original size:15 final size:15
Alignment explanation
Indices: 9129723--9129772 Score: 57
Period size: 15 Copynumber: 3.2 Consensus size: 15
9129713 TTAATTTTTT
9129723 AAATTAAATATAATT-
1 AAATTAAATA-AATTA
*
9129738 AAATTATATAAAAATTA
1 AAATTA-A-ATAAATTA
9129755 AAATTAAATAAATTA
1 AAATTAAATAAATTA
9129770 AAA
1 AAA
9129773 AAGCATTTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
15 16 0.53
16 6 0.20
17 8 0.27
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (15 bp):
AAATTAAATAAATTA
Found at i:9142766 original size:3 final size:3
Alignment explanation
Indices: 9142758--9142806 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
9142748 TGAATGAATG
9142758 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
9142806 A
1 A
9142807 TGATCTAGTA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:9145540 original size:2 final size:2
Alignment explanation
Indices: 9145533--9145562 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
9145523 TAAGAATTAA
9145533 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
9145563 TGCCTACCTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:9148912 original size:3 final size:3
Alignment explanation
Indices: 9148904--9148933 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
9148894 CTCTCCATTT
*
9148904 TGA TGA TGA TGA TGT TGA TGA TGA TGA TGA
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA
9148934 GTGAATGACA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.30, C:0.00, G:0.33, T:0.37
Consensus pattern (3 bp):
TGA
Found at i:9148923 original size:15 final size:15
Alignment explanation
Indices: 9148903--9148932 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
9148893 GCTCTCCATT
9148903 TTGATGATGATGATG
1 TTGATGATGATGATG
9148918 TTGATGATGATGATG
1 TTGATGATGATGATG
9148933 AGTGAATGAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.00, G:0.33, T:0.40
Consensus pattern (15 bp):
TTGATGATGATGATG
Found at i:9154617 original size:6 final size:6
Alignment explanation
Indices: 9154590--9154627 Score: 51
Period size: 6 Copynumber: 6.3 Consensus size: 6
9154580 TCTAGCTTAC
*
9154590 AAAAGA AAAA-A AAAAGTG AAAAGA AAAAGA AAAAGA AA
1 AAAAGA AAAAGA AAAAG-A AAAAGA AAAAGA AAAAGA AA
9154628 GAAAGCAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
5 5 0.18
6 18 0.64
7 5 0.18
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.03
Consensus pattern (6 bp):
AAAAGA
Found at i:9160905 original size:23 final size:24
Alignment explanation
Indices: 9160878--9160922 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
9160868 ACTCAACAAC
9160878 AAAACAAAT-AAGAAAACAAATTT
1 AAAACAAATGAAGAAAACAAATTT
*
9160901 AAAACAAATGTAGAAAACAAAT
1 AAAACAAATGAAGAAAACAAAT
9160923 AGTAAACTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 9 0.45
24 11 0.55
ACGTcount: A:0.69, C:0.09, G:0.07, T:0.16
Consensus pattern (24 bp):
AAAACAAATGAAGAAAACAAATTT
Found at i:9160929 original size:24 final size:23
Alignment explanation
Indices: 9160878--9160928 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 23
9160868 ACTCAACAAC
*
9160878 AAAACAAATAAGAAAACAAATTT
1 AAAACAAATAAGAAAACAAATGT
*
9160901 AAAACAAATGTAGAAAACAAATAGT
1 AAAACAAAT-AAGAAAACAAAT-GT
9160926 AAA
1 AAA
9160929 CTCAACATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 9 0.38
24 11 0.46
25 4 0.17
ACGTcount: A:0.69, C:0.08, G:0.08, T:0.16
Consensus pattern (23 bp):
AAAACAAATAAGAAAACAAATGT
Found at i:9162033 original size:15 final size:15
Alignment explanation
Indices: 9162013--9162045 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
9162003 TTTTTAAGTT
*
9162013 TCATAGCAACTAATG
1 TCATAGCAACCAATG
9162028 TCATAGCAACCAATG
1 TCATAGCAACCAATG
9162043 TCA
1 TCA
9162046 CAATAACAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.39, C:0.24, G:0.12, T:0.24
Consensus pattern (15 bp):
TCATAGCAACCAATG
Found at i:9162277 original size:56 final size:55
Alignment explanation
Indices: 9162207--9162333 Score: 139
Period size: 56 Copynumber: 2.3 Consensus size: 55
9162197 GTAACAATGT
* * * * * *
9162207 GCATTTGGTAGATCAAGATCTAAGCCACATCTAACAAATAACATATAGCAAGAAA
1 GCATTTGATAGATCAAAAACTAAGCCAAATCAAACAAATAACAAATAGCAAGAAA
* *
9162262 GCATTTGAATAGATCAAAAACTAAGTCAAATCAAACAAATAACAAATAGTAAGAACA
1 GCATTTG-ATAGATCAAAAACTAAGCCAAATCAAACAAATAACAAATAGCAAGAA-A
* *
9162319 -CATATGATATATCAA
1 GCATTTGATAGATCAA
9162334 TAATTTTAAA
Statistics
Matches: 60, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
55 15 0.25
56 44 0.73
57 1 0.02
ACGTcount: A:0.50, C:0.16, G:0.12, T:0.22
Consensus pattern (55 bp):
GCATTTGATAGATCAAAAACTAAGCCAAATCAAACAAATAACAAATAGCAAGAAA
Found at i:9169606 original size:20 final size:18
Alignment explanation
Indices: 9169578--9169627 Score: 55
Period size: 20 Copynumber: 2.7 Consensus size: 18
9169568 CAAGTGATTC
*
9169578 AAGACTCACAAAAAATTT
1 AAGATTCACAAAAAATTT
*
9169596 CAAAGATTCACAAAAGATTT
1 --AAGATTCACAAAAAATTT
*
9169616 AAGATTCGCAAA
1 AAGATTCACAAA
9169628 GATTCAATGA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
18 11 0.41
20 16 0.59
ACGTcount: A:0.52, C:0.16, G:0.10, T:0.22
Consensus pattern (18 bp):
AAGATTCACAAAAAATTT
Found at i:9169615 original size:56 final size:53
Alignment explanation
Indices: 9169498--9169788 Score: 144
Period size: 55 Copynumber: 5.4 Consensus size: 53
9169488 CAAGGTTTGA
* * * * * * * *
9169498 AAAAGATTCAAAATTCTCAAAAATTCAATATTCACAAAAGTTTAAAGATTCGC
1 AAAAGATTTAAGATTCGCAAAGATTCAAGACTCACAAAAATTTAAAGATTCAC
* * * *
9169551 AAGAGATTTTAGATTTGCAAGTGATTCAAGACTCACAAAAAATTTCAAAGATTCAC
1 AAAAGATTTAAGATTCGCAA-AGATTCAAGACTCAC-AAAAATTT-AAAGATTCAC
* * * **
9169607 AAAAGATTTAAGATTCGCAAAGATTCAATGATTTACAAAGGAA-TCAAAGATTTGC
1 AAAAGATTTAAGATTCGCAAAGATTCAA-GACTCACAAA--AATTTAAAGATTCAC
* * * * * * * **
9169662 AAGAGATTCAAGATTTGCAAAAATTTCAAGA-TTAGCAAAAGTTCAAAGATTTGC
1 AAAAGATTTAAGATTCGCAAAGA-TTCAAGACTCA-CAAAAATTTAAAGATTCAC
* * * * * * *
9169716 --AAGGTTCAATATTTGCAAATGATTCAAGATTCACAAAAGA-TTCAAGATTCGC
1 AAAAGATTTAAGATTCGCAAA-GATTCAAGACTCACAAAA-ATTTAAAGATTCAC
9169768 AAAA-ATTTAAAGATTCGCAAA
1 AAAAGATTT-AAGATTCGCAAA
9169789 AGTTCAAAGA
Statistics
Matches: 184, Mismatches: 39, Indels: 29
0.73 0.15 0.12
Matches are distributed among these distances:
52 37 0.20
53 20 0.11
54 38 0.21
55 50 0.27
56 37 0.20
57 2 0.01
ACGTcount: A:0.45, C:0.13, G:0.14, T:0.28
Consensus pattern (53 bp):
AAAAGATTTAAGATTCGCAAAGATTCAAGACTCACAAAAATTTAAAGATTCAC
Found at i:9169619 original size:18 final size:18
Alignment explanation
Indices: 9169472--9169823 Score: 204
Period size: 18 Copynumber: 19.7 Consensus size: 18
9169462 ATTGAATTTA
*
9169472 AAGATTCACAAAAG-TTC
1 AAGATTCGCAAAAGATTC
* * *
9169489 AAGGTTTGAAAAAGATTC
1 AAGATTCGCAAAAGATTC
* *
9169507 AAAATTCTCAAAA-ATTC
1 AAGATTCGCAAAAGATTC
* * * *
9169524 AATATTCACAAAAGTTTA
1 AAGATTCGCAAAAGATTC
* *
9169542 AAGATTCGCAAGAGATTT
1 AAGATTCGCAAAAGATTC
* * **
9169560 TAGATTTGCAAGTGATTC
1 AAGATTCGCAAAAGATTC
* * *
9169578 AAGACTCACAAAAAATTTC
1 AAGATTCGCAAAAGA-TTC
* *
9169597 AAAGATTCACAAAAGATTT
1 -AAGATTCGCAAAAGATTC
9169616 AAGATTCGC-AAAGATTC
1 AAGATTCGCAAAAGATTC
** * *
9169633 AATGATTTACAAAGGAATC
1 AA-GATTCGCAAAAGATTC
* *
9169652 AAAGATTTGCAAGAGATTC
1 -AAGATTCGCAAAAGATTC
*
9169671 AAGATTTGCAAAA-ATTTC
1 AAGATTCGCAAAAGA-TTC
*
9169689 AAGATTAGCAAAAG-TTC
1 AAGATTCGCAAAAGATTC
* *
9169706 AAAGATTTGC--AAGGTTC
1 -AAGATTCGCAAAAGATTC
* * *
9169723 AATATTTGCAAATGATTC
1 AAGATTCGCAAAAGATTC
*
9169741 AAGATTCACAAAAGATTC
1 AAGATTCGCAAAAGATTC
*
9169759 AAGATTCGCAAAA-ATTTA
1 AAGATTCGCAAAAGA-TTC
9169777 AAGATTCGCAAAAG-TTC
1 AAGATTCGCAAAAGATTC
* *
9169794 AAAGATTTGC-AAA-TTTC
1 -AAGATTCGCAAAAGATTC
*
9169811 AAGATTTGCAAAA
1 AAGATTCGCAAAA
9169824 ATTTAAAATT
Statistics
Matches: 261, Mismatches: 56, Indels: 36
0.74 0.16 0.10
Matches are distributed among these distances:
16 20 0.08
17 53 0.20
18 150 0.57
19 23 0.09
20 15 0.06
ACGTcount: A:0.45, C:0.13, G:0.14, T:0.28
Consensus pattern (18 bp):
AAGATTCGCAAAAGATTC
Found at i:9169731 original size:52 final size:55
Alignment explanation
Indices: 9169472--9169769 Score: 242
Period size: 52 Copynumber: 5.5 Consensus size: 55
9169462 ATTGAATTTA
* * * *
9169472 AAGATTCACAAAAG-TTC-AAGGTTTGAAAAAGATTCAAAATTCT-CAAA-AATTC
1 AAGATTCACAAAAGATTCAAAGATTTGCAAGAGATTCAAGATT-TGCAAATAATTC
* * * ** * *
9169524 AATATTCACAAAAG-TTTAAAGATTCGCAAGAGATTTTAGATTTGCAAGTGATTC
1 AAGATTCACAAAAGATTCAAAGATTTGCAAGAGATTCAAGATTTGCAAATAATTC
* * ** * * * *
9169578 AAGACTCACAAAAAATTTCAAAGATTCACAAAAGATTTAAGATTCGCAAA-GATTC
1 AAGATTCACAAAAGA-TTCAAAGATTTGCAAGAGATTCAAGATTTGCAAATAATTC
* * *
9169633 AATGATTTACAAAGGAATCAAAGATTTGCAAGAGATTCAAGATTTGCAAA-AATTTC
1 AA-GATTCACAAAAGATTCAAAGATTTGCAAGAGATTCAAGATTTGCAAATAA-TTC
* *
9169689 AAGATT-AGCAAAAG-TTCAAAGATTTGCAAG-G-TTCAATATTTGCAAATGATTC
1 AAGATTCA-CAAAAGATTCAAAGATTTGCAAGAGATTCAAGATTTGCAAATAATTC
*
9169741 AAGATTCACAAAAGATTC-AAGATTCGCAA
1 AAGATTCACAAAAGATTCAAAGATTTGCAA
9169770 AAATTTAAAG
Statistics
Matches: 199, Mismatches: 36, Indels: 22
0.77 0.14 0.09
Matches are distributed among these distances:
52 55 0.28
53 26 0.13
54 31 0.16
55 45 0.23
56 42 0.21
ACGTcount: A:0.45, C:0.13, G:0.14, T:0.28
Consensus pattern (55 bp):
AAGATTCACAAAAGATTCAAAGATTTGCAAGAGATTCAAGATTTGCAAATAATTC
Found at i:9169764 original size:88 final size:89
Alignment explanation
Indices: 9169573--9169822 Score: 274
Period size: 88 Copynumber: 2.8 Consensus size: 89
9169563 ATTTGCAAGT
* * * *
9169573 GATTCAAGACTCACAAAAAATTTCAAAGATTCA-CAAAAGATT-TAAGATTCGCAAAGATTCAAT
1 GATTCAAGATTCGC-AAAAATTTC-AAGATT-AGCAAAAG-TTCAAAGATTTGC-AAGATTCAAT
* ** *
9169636 GATTTACAAAGGAATCAAAGATTTGCAAGA
61 -ATTTGCAAAGGAATCAAAGATTCACAAAA
* *
9169666 GATTCAAGATTTGCAAAAATTTCAAGATTAGCAAAAGTTCAAAGATTTGCAAGGTTCAATATTTG
1 GATTCAAGATTCGCAAAAATTTCAAGATTAGCAAAAGTTCAAAGATTTGCAAGATTCAATATTTG
* *
9169731 CAAATGATTC-AAGATTCACAAAA
66 CAAAGGAATCAAAGATTCACAAAA
* * *
9169754 GATTCAAGATTCGCAAAAATTTAAAGATTCGCAAAAGTTCAAAGATTTGCAA-ATTTCAAGATTT
1 GATTCAAGATTCGCAAAAATTTCAAGATTAGCAAAAGTTCAAAGATTTGCAAGA-TTCAATATTT
9169818 GCAAA
65 GCAAA
9169823 AATTTAAAAT
Statistics
Matches: 137, Mismatches: 17, Indels: 11
0.83 0.10 0.07
Matches are distributed among these distances:
88 73 0.53
89 12 0.09
90 12 0.09
91 20 0.15
92 9 0.07
93 11 0.08
ACGTcount: A:0.45, C:0.13, G:0.14, T:0.28
Consensus pattern (89 bp):
GATTCAAGATTCGCAAAAATTTCAAGATTAGCAAAAGTTCAAAGATTTGCAAGATTCAATATTTG
CAAAGGAATCAAAGATTCACAAAA
Found at i:9169779 original size:25 final size:26
Alignment explanation
Indices: 9169751--9169897 Score: 87
Period size: 25 Copynumber: 5.7 Consensus size: 26
9169741 AAGATTCACA
9169751 AAAGATTC-AAGATTCGCAAAAATTT
1 AAAGATTCAAAGATTCGCAAAAATTT
*
9169776 AAAGATTCGCAAA-AGTT--CAAAGATTT
1 AAAGATT--CAAAGA-TTCGCAAAAATTT
* *
9169802 GCAAA-TTTC-AAGATTTGCAAAAATTT
1 --AAAGATTCAAAGATTCGCAAAAATTT
* *
9169828 AAA-ATTCAAAGATTCGTAAAGATTTT
1 AAAGATTCAAAGATTCGCAAA-AATTT
9169854 AAAGAGATTCAAAGATT--CATAAAATTT
1 -AA-AGATTCAAAGATTCGCA-AAAATTT
* *
9169881 TAAGATTCAAATATTCG
1 AAAGATTCAAAGATTCG
9169898 TAAGGATTCA
Statistics
Matches: 94, Mismatches: 11, Indels: 32
0.69 0.08 0.23
Matches are distributed among these distances:
24 10 0.11
25 31 0.33
26 21 0.22
27 11 0.12
28 10 0.11
29 11 0.12
ACGTcount: A:0.46, C:0.10, G:0.12, T:0.31
Consensus pattern (26 bp):
AAAGATTCAAAGATTCGCAAAAATTT
Found at i:9169842 original size:8 final size:8
Alignment explanation
Indices: 9169831--9169940 Score: 51
Period size: 8 Copynumber: 12.6 Consensus size: 8
9169821 AAAATTTAAA
9169831 ATTCAAAG
1 ATTCAAAG
9169839 ATTCGTAAAG
1 ATTC--AAAG
*
9169849 ATTTTAAAGAG
1 A-TTCAAA--G
9169860 ATTCAAAG
1 ATTCAAAG
*
9169868 ATTCATAAA
1 ATTCA-AAG
**
9169877 ATTTTAAG
1 ATTCAAAG
*
9169885 ATTCAAAT
1 ATTCAAAG
*
9169893 ATTCGTAAGG
1 ATTC--AAAG
9169903 ATTCAAAG
1 ATTCAAAG
*
9169911 ATTCGCAAAA
1 ATT--CAAAG
*
9169921 ATT-TAAG
1 ATTCAAAG
9169928 ATTCAAAG
1 ATTCAAAG
9169936 ATTCA
1 ATTCA
9169941 CAAAAATTTA
Statistics
Matches: 75, Mismatches: 16, Indels: 22
0.66 0.14 0.19
Matches are distributed among these distances:
7 5 0.07
8 35 0.47
9 8 0.11
10 23 0.31
11 4 0.05
ACGTcount: A:0.45, C:0.10, G:0.13, T:0.32
Consensus pattern (8 bp):
ATTCAAAG
Found at i:9169865 original size:29 final size:26
Alignment explanation
Indices: 9169825--9169914 Score: 92
Period size: 29 Copynumber: 3.4 Consensus size: 26
9169815 TTTGCAAAAA
*
9169825 TTTAAAATTCAAAGATTCGTAAAGAT
1 TTTAAGATTCAAAGATTCGTAAAGAT
*
9169851 TTTAAAGAGATTCAAAGATTCATAAA-AT
1 TTT--A-AGATTCAAAGATTCGTAAAGAT
* *
9169879 TTTAAGATTCAAATATTCGTAAGGAT
1 TTTAAGATTCAAAGATTCGTAAAGAT
**
9169905 TCAAAGATTC
1 TTTAAGATTC
9169915 GCAAAAATTT
Statistics
Matches: 53, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
25 16 0.30
26 14 0.26
28 6 0.11
29 17 0.32
ACGTcount: A:0.44, C:0.09, G:0.12, T:0.34
Consensus pattern (26 bp):
TTTAAGATTCAAAGATTCGTAAAGAT
Found at i:9169936 original size:25 final size:25
Alignment explanation
Indices: 9169902--9169968 Score: 116
Period size: 25 Copynumber: 2.7 Consensus size: 25
9169892 TATTCGTAAG
9169902 GATTCAAAGATTCGCAAAAATTTAA
1 GATTCAAAGATTCGCAAAAATTTAA
*
9169927 GATTCAAAGATTCACAAAAATTTAA
1 GATTCAAAGATTCGCAAAAATTTAA
*
9169952 GATTAAAAGATTCGCAA
1 GATTCAAAGATTCGCAA
9169969 GTGATTCAAG
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.49, C:0.12, G:0.12, T:0.27
Consensus pattern (25 bp):
GATTCAAAGATTCGCAAAAATTTAA
Found at i:9169951 original size:68 final size:72
Alignment explanation
Indices: 9169831--9170010 Score: 235
Period size: 68 Copynumber: 2.5 Consensus size: 72
9169821 AAAATTTAAA
* * * * *
9169831 ATTCAAAGATTCGTAAAGATTTTAAAGAGATTCAAAGATTCATAAAATTTTAAGATTCAAATATT
1 ATTCAAAGATTCGCAAAGATTTT-AAGAGATTCAAAGATTCACAAAAATTTAAGATTAAAAGATT
*
9169896 CGTAAG-G
65 CGCAAGTG
*
9169903 ATTCAAAGATTCGCAAA-AATTT-A-AGATTCAAAGATTCACAAAAATTTAAGATTAAAAGATTC
1 ATTCAAAGATTCGCAAAGATTTTAAGAGATTCAAAGATTCACAAAAATTTAAGATTAAAAGATTC
9169965 GCAAGTG
66 GCAAGTG
*
9169972 ATTC-AAGATTTGCAAAGATTTTAAAGAGATTCAAAGATT
1 ATTCAAAGATTCGCAAAGATTTT-AAGAGATTCAAAGATT
9170011 TGCAAGTATT
Statistics
Matches: 94, Mismatches: 9, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
68 50 0.53
69 10 0.11
71 5 0.05
72 29 0.31
ACGTcount: A:0.46, C:0.09, G:0.14, T:0.31
Consensus pattern (72 bp):
ATTCAAAGATTCGCAAAGATTTTAAGAGATTCAAAGATTCACAAAAATTTAAGATTAAAAGATTC
GCAAGTG
Found at i:9169990 original size:28 final size:29
Alignment explanation
Indices: 9169957--9170015 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 29
9169947 TTTAAGATTA
* *
9169957 AAAGATTCGCAAGTGATTC-AAGATTTGC
1 AAAGATTCGAAAGAGATTCAAAGATTTGC
**
9169985 AAAGATTTTAAAGAGATTCAAAGATTTGC
1 AAAGATTCGAAAGAGATTCAAAGATTTGC
9170014 AA
1 AA
9170016 GTATTCAAAG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
28 15 0.58
29 11 0.42
ACGTcount: A:0.42, C:0.10, G:0.19, T:0.29
Consensus pattern (29 bp):
AAAGATTCGAAAGAGATTCAAAGATTTGC
Found at i:9170030 original size:90 final size:90
Alignment explanation
Indices: 9169927--9170121 Score: 300
Period size: 90 Copynumber: 2.2 Consensus size: 90
9169917 AAAAATTTAA
**
9169927 GATTCAAAGATTCACAAAAATTTAAGATTAAAAGATTCGCAAGTGATTCAAGATTTGCAAAGATT
1 GATTCAAAGATTCACAAAAATTTAAGATTAAAAGATTCGCAAGTGATTCAAGATTCACAAAGATT
* *
9169992 TTAAAGAGATTCAAAGATTTGCAAG
66 TCAAAAAGATTCAAAGATTTGCAAG
* ** * * *
9170017 TATTCAAAGATTCACAAAAATTTAAGATTTTACGATTCGTAAGTGATTCAAGATTCATAAAGATT
1 GATTCAAAGATTCACAAAAATTTAAGATTAAAAGATTCGCAAGTGATTCAAGATTCACAAAGATT
9170082 TCAAAAAGATTCAAAGATTTGCAAG
66 TCAAAAAGATTCAAAGATTTGCAAG
9170107 GATTCAAAGATTCAC
1 GATTCAAAGATTCAC
9170122 TTTTGAAAAT
Statistics
Matches: 94, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
90 94 1.00
ACGTcount: A:0.44, C:0.11, G:0.15, T:0.30
Consensus pattern (90 bp):
GATTCAAAGATTCACAAAAATTTAAGATTAAAAGATTCGCAAGTGATTCAAGATTCACAAAGATT
TCAAAAAGATTCAAAGATTTGCAAG
Found at i:9170070 original size:43 final size:44
Alignment explanation
Indices: 9169927--9170121 Score: 173
Period size: 47 Copynumber: 4.3 Consensus size: 44
9169917 AAAAATTTAA
9169927 GATTCAAAGATTCACAAAAATTTAAGATTAAAAGATTCGCAAGT
1 GATTCAAAGATTCACAAAAATTTAAGATTAAAAGATTCGCAAGT
** * * *
9169971 GATTC-AAGATTTGCAAAGATTTTAAAGAGATTCAAAGATTTGCAAGT
1 GATTCAAAGATTCACAAA-AATTT--A-AGATTAAAAGATTCGCAAGT
** * *
9170018 -ATTCAAAGATTCACAAAAATTTAAGATTTTACGATTCGTAAGT
1 GATTCAAAGATTCACAAAAATTTAAGATTAAAAGATTCGCAAGT
* * * *
9170061 GATTC-AAGATTCATAAAGATTTCAAAAAGATTCAAAGATTTGCAAG-
1 GATTCAAAGATTCACAAAAATTT----AAGATTAAAAGATTCGCAAGT
9170107 GATTCAAAGATTCAC
1 GATTCAAAGATTCAC
9170122 TTTTGAAAAT
Statistics
Matches: 119, Mismatches: 21, Indels: 19
0.75 0.13 0.12
Matches are distributed among these distances:
43 40 0.34
44 14 0.12
46 14 0.12
47 51 0.43
ACGTcount: A:0.44, C:0.11, G:0.15, T:0.30
Consensus pattern (44 bp):
GATTCAAAGATTCACAAAAATTTAAGATTAAAAGATTCGCAAGT
Found at i:9170144 original size:23 final size:23
Alignment explanation
Indices: 9170112--9170253 Score: 89
Period size: 23 Copynumber: 6.4 Consensus size: 23
9170102 GCAAGGATTC
* **
9170112 AAAGATTCACTTTTGAAAATCTT
1 AAAGATTCACATTCAAAAATCTT
*
9170135 AGAGATTCACATTCAAAAATCTT
1 AAAGATTCACATTCAAAAATCTT
*
9170158 AAAGATTCACA-TCTAAGAATC--
1 AAAGATTCACATTC-AAAAATCTT
* * * *
9170179 GAAGTTTCATATTTAAAAATCTT
1 AAAGATTCACATTCAAAAATCTT
* * * *
9170202 AGAGATTCATA-TCCAAGAT-TT
1 AAAGATTCACATTCAAAAATCTT
* *
9170223 AAATATTCACATTC-AAAATTTT
1 AAAGATTCACATTCAAAAATCTT
*
9170245 AGAGATTCA
1 AAAGATTCA
9170254 TATCAAAGAT
Statistics
Matches: 90, Mismatches: 23, Indels: 13
0.71 0.18 0.10
Matches are distributed among these distances:
21 28 0.31
22 19 0.21
23 43 0.48
ACGTcount: A:0.42, C:0.14, G:0.09, T:0.35
Consensus pattern (23 bp):
AAAGATTCACATTCAAAAATCTT
Found at i:9170259 original size:21 final size:21
Alignment explanation
Indices: 9170194--9170260 Score: 64
Period size: 21 Copynumber: 3.1 Consensus size: 21
9170184 TTCATATTTA
*
9170194 AAAATCTTAGAGATTCATATCC
1 AAAATTTTAGAGATTCATAT-C
* * * *
9170216 AAGA-TTTAAATATTCACATTC
1 AAAATTTTAGAGATTCATA-TC
9170237 AAAATTTTAGAGATTCATATC
1 AAAATTTTAGAGATTCATATC
9170258 AAA
1 AAA
9170261 GATTCACATT
Statistics
Matches: 34, Mismatches: 9, Indels: 5
0.71 0.19 0.10
Matches are distributed among these distances:
21 19 0.56
22 15 0.44
ACGTcount: A:0.45, C:0.13, G:0.07, T:0.34
Consensus pattern (21 bp):
AAAATTTTAGAGATTCATATC
Found at i:9170448 original size:39 final size:37
Alignment explanation
Indices: 9170407--9170684 Score: 250
Period size: 39 Copynumber: 7.2 Consensus size: 37
9170397 AATACCTTTA
*
9170407 AATAGAGGCATACAACTTTAATAATAAAGGCTCCTCAT
1 AATAGAGGCACACAACTTTAA-AATAAAGGCTCCTCAT
*** * *
9170445 AAATAGAGGCACTTGACTTTAAAAAGAAAGACTCCTCAT
1 -AATAGAGGCACACAACTTT-AAAATAAAGGCTCCTCAT
* * **
9170484 AACAGAGGCACACGACCTTTAAAATAAAGGCTCCTTTGT
1 AATAGAGGCACAC-AACTTTAAAATAAAGGCTCC-TCAT
* * *
9170523 AACAGAGGCACACAACTTTAAAAATAAAGGTTTCTCAT
1 AATAGAGGCACACAACTTT-AAAATAAAGGCTCCTCAT
* **
9170561 AATAGAGGCACACAACTTTAAAAGTAAAAGCTTATCCAT
1 AATAGAGGCACACAACTTTAAAA-TAAAGGCTCCT-CAT
* ** *
9170600 AATAAAGGCACATGACTTTAAAAATAAAGGCTCATCTAT
1 AATAGAGGCACACAACTTT-AAAATAAAGGCTCCTC-AT
* *
9170639 AACAGAGGCACACAACTTTAAAAGTAAAGACTCCTCCAT
1 AATAGAGGCACACAACTTTAAAA-TAAAGGCTCCT-CAT
9170678 AATAGAG
1 AATAGAG
9170685 ATTTTTATTT
Statistics
Matches: 193, Mismatches: 36, Indels: 20
0.78 0.14 0.08
Matches are distributed among these distances:
37 4 0.02
38 60 0.31
39 122 0.63
40 7 0.04
ACGTcount: A:0.44, C:0.19, G:0.14, T:0.23
Consensus pattern (37 bp):
AATAGAGGCACACAACTTTAAAATAAAGGCTCCTCAT
Found at i:9170517 original size:77 final size:77
Alignment explanation
Indices: 9170410--9170684 Score: 313
Period size: 77 Copynumber: 3.6 Consensus size: 77
9170400 ACCTTTAAAT
* * *
9170410 AGAGGCATACAACTTTAATAA-TAAAGGCTCCT-CATAAATAGAGGCACTTGACTTTAAAAAGAA
1 AGAGGCACACAACTTTAA-AAGTAAAGGCTCCTCCAT-AATAGAGGCACATGACTTTAAAAATAA
*
9170473 AGACTCCTCATAAC
64 AGGCTCCTCATAAC
* *** * **
9170487 AGAGGCACACGACCTTTAAAA-TAAAGGCTCCTTTGTAACAGAGGCACACAACTTTAAAAATAAA
1 AGAGGCACAC-AACTTTAAAAGTAAAGGCTCCTCCATAATAGAGGCACATGACTTTAAAAATAAA
* * *
9170551 GGTTTCTCATAAT
65 GGCTCCTCATAAC
* ** *
9170564 AGAGGCACACAACTTTAAAAGTAAAAGCTTATCCATAATAAAGGCACATGACTTTAAAAATAAAG
1 AGAGGCACACAACTTTAAAAGTAAAGGCTCCTCCATAATAGAGGCACATGACTTTAAAAATAAAG
*
9170629 GCTCATCTATAAC
66 GCTCCTC-ATAAC
*
9170642 AGAGGCACACAACTTTAAAAGTAAAGACTCCTCCATAATAGAG
1 AGAGGCACACAACTTTAAAAGTAAAGGCTCCTCCATAATAGAG
9170685 ATTTTTATTT
Statistics
Matches: 161, Mismatches: 33, Indels: 7
0.80 0.16 0.03
Matches are distributed among these distances:
76 9 0.06
77 102 0.63
78 50 0.31
ACGTcount: A:0.43, C:0.19, G:0.15, T:0.23
Consensus pattern (77 bp):
AGAGGCACACAACTTTAAAAGTAAAGGCTCCTCCATAATAGAGGCACATGACTTTAAAAATAAAG
GCTCCTCATAAC
Found at i:9170538 original size:116 final size:115
Alignment explanation
Indices: 9170410--9170684 Score: 315
Period size: 116 Copynumber: 2.4 Consensus size: 115
9170400 ACCTTTAAAT
* ***
9170410 AGAGGCATACAACTTTAATAATAAAGGCTCCTCATAAATAGAGGCACTTGACTTTAAAA--AGAA
1 AGAGGCACACAACTTTAA-AATAAAGGCTCCTCAT-AATAGAGGCACACAACTTTAAAAGTA-AA
* * * * *
9170473 AGACTCCT-CATAACAGAGGCACACGACCTTT-AAAATAAAGGCTCCTTTGTAAC
63 AG-CTCATCCATAACAAAGGCACACGA-CTTTAAAAATAAAGGCTCATCTATAAC
* *
9170526 AGAGGCACACAACTTTAAAAATAAAGGTTTCTCATAATAGAGGCACACAACTTTAAAAGTAAAAG
1 AGAGGCACACAACTTT-AAAATAAAGGCTCCTCATAATAGAGGCACACAACTTTAAAAGTAAAAG
* * *
9170591 CTTATCCATAATAAAGGCACATGACTTTAAAAATAAAGGCTCATCTATAAC
65 CTCATCCATAACAAAGGCACACGACTTTAAAAATAAAGGCTCATCTATAAC
*
9170642 AGAGGCACACAACTTTAAAAGTAAAGACTCCTCCATAATAGAG
1 AGAGGCACACAACTTTAAAA-TAAAGGCTCCT-CATAATAGAG
9170685 ATTTTTATTT
Statistics
Matches: 135, Mismatches: 17, Indels: 13
0.82 0.10 0.08
Matches are distributed among these distances:
115 31 0.23
116 91 0.67
117 13 0.10
ACGTcount: A:0.43, C:0.19, G:0.15, T:0.23
Consensus pattern (115 bp):
AGAGGCACACAACTTTAAAATAAAGGCTCCTCATAATAGAGGCACACAACTTTAAAAGTAAAAGC
TCATCCATAACAAAGGCACACGACTTTAAAAATAAAGGCTCATCTATAAC
Found at i:9170876 original size:91 final size:91
Alignment explanation
Indices: 9170718--9170895 Score: 266
Period size: 91 Copynumber: 2.0 Consensus size: 91
9170708 ACAACTTTAA
* *
9170718 AAATATAAAAAGAGATTCTTATTTGAAATAGATCAAGGGTTCATTCAAATATTCAAATAAAAAAT
1 AAATATAAAAAGAGATTCTTATTTGAAAGAGATCAAAGGTTCATTCAAATATTCAAATAAAAAAT
* *
9170783 TCAAGATTTTCATCGAAAGGTTATTG
66 TCAAGATTCTCACCGAAAGGTTATTG
* * * ** *
9170809 AAATATAAAAAGAGATTCTTATTTGAAAGATATCAAAGGTTTATTCGAATATTCAAATTGAAGAT
1 AAATATAAAAAGAGATTCTTATTTGAAAGAGATCAAAGGTTCATTCAAATATTCAAATAAAAAAT
9170874 TCAAGATTCTCACCGAAAGGTT
66 TCAAGATTCTCACCGAAAGGTT
9170896 CTCAAGATTT
Statistics
Matches: 77, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
91 77 1.00
ACGTcount: A:0.44, C:0.10, G:0.14, T:0.33
Consensus pattern (91 bp):
AAATATAAAAAGAGATTCTTATTTGAAAGAGATCAAAGGTTCATTCAAATATTCAAATAAAAAAT
TCAAGATTCTCACCGAAAGGTTATTG
Found at i:9172279 original size:10 final size:11
Alignment explanation
Indices: 9172259--9172284 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
9172249 AATTTAAGTC
9172259 TTTCTTTTTTT
1 TTTCTTTTTTT
9172270 TTTCTTTTTTT
1 TTTCTTTTTTT
9172281 TTTC
1 TTTC
9172285 ATATCTTTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (11 bp):
TTTCTTTTTTT
Found at i:9172308 original size:36 final size:38
Alignment explanation
Indices: 9172268--9172361 Score: 111
Period size: 40 Copynumber: 2.5 Consensus size: 38
9172258 CTTTCTTTTT
9172268 TTTTTCTTTTTT-TTTTCATATCTT-TCTCATTTCTCA
1 TTTTTCTTTTTTCTTTTCATATCTTCTCTCATTTCTCA
* * *
9172304 TTTTTCTTTTTTCTTTTCATTTTTTCTCTCATTTTTCA
1 TTTTTCTTTTTTCTTTTCATATCTTCTCTCATTTCTCA
* *
9172342 TTATTTTCTTCTTTCATTTC
1 -T-TTTTCTTTTTTCTTTTC
9172362 TTTTTCACTC
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
36 12 0.24
37 10 0.20
38 11 0.22
39 1 0.02
40 15 0.31
ACGTcount: A:0.10, C:0.19, G:0.00, T:0.71
Consensus pattern (38 bp):
TTTTTCTTTTTTCTTTTCATATCTTCTCTCATTTCTCA
Found at i:9172366 original size:38 final size:37
Alignment explanation
Indices: 9172292--9172374 Score: 96
Period size: 38 Copynumber: 2.2 Consensus size: 37
9172282 TTCATATCTT
* *
9172292 TCTCATTTCTCATTTTTCTTTTTTCTTTTCATTTTTTC
1 TCTCATTTCTCATTTTTCTTCTTTCATTTCA-TTTTTC
*
9172330 TCTCATTTTTCATTATTTTCTTCTTTCATTTC-TTTTTC
1 TCTCATTTCTCA-T-TTTTCTTCTTTCATTTCATTTTTC
*
9172368 ACTCATT
1 TCTCATT
9172375 CATTGTTGAC
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
38 23 0.59
39 1 0.03
40 15 0.38
ACGTcount: A:0.11, C:0.22, G:0.00, T:0.67
Consensus pattern (37 bp):
TCTCATTTCTCATTTTTCTTCTTTCATTTCATTTTTC
Found at i:9172710 original size:17 final size:17
Alignment explanation
Indices: 9172676--9172713 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
9172666 CTTTTTCATT
*
9172676 TTTTTTCCATCTTTTTA
1 TTTTTTCCATCTTATTA
9172693 TTTTTTCACATC-TATTA
1 TTTTTTC-CATCTTATTA
9172710 TTTT
1 TTTT
9172714 CTTTAGTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 15 0.79
18 4 0.21
ACGTcount: A:0.16, C:0.16, G:0.00, T:0.68
Consensus pattern (17 bp):
TTTTTTCCATCTTATTA
Found at i:9174711 original size:44 final size:44
Alignment explanation
Indices: 9174600--9174714 Score: 167
Period size: 44 Copynumber: 2.6 Consensus size: 44
9174590 TGAATTTTGG
** *
9174600 AAGACTGATCAAGCTAGACATACAATCCTTTCAAGAGTGAATGC
1 AAGACTGATCAAGCTAGACATATGATCCTTCCAAGAGTGAATGC
* * *
9174644 AAGACTGATCAAGCTAGATATATGATCCTTCCAAGAGTGATTGT
1 AAGACTGATCAAGCTAGACATATGATCCTTCCAAGAGTGAATGC
*
9174688 AAGATTGATCAAGCTAGACATATGATC
1 AAGACTGATCAAGCTAGACATATGATC
9174715 TTACCATAGA
Statistics
Matches: 63, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 63 1.00
ACGTcount: A:0.37, C:0.17, G:0.19, T:0.26
Consensus pattern (44 bp):
AAGACTGATCAAGCTAGACATATGATCCTTCCAAGAGTGAATGC
Found at i:9175054 original size:13 final size:13
Alignment explanation
Indices: 9175036--9175061 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
9175026 ATTCTCTTTC
9175036 AGATCATCTAGAT
1 AGATCATCTAGAT
9175049 AGATCATCTAGAT
1 AGATCATCTAGAT
9175062 TAAGTATCTA
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
AGATCATCTAGAT
Found at i:9175726 original size:29 final size:28
Alignment explanation
Indices: 9175684--9175747 Score: 119
Period size: 29 Copynumber: 2.2 Consensus size: 28
9175674 TGGATAGATG
9175684 AATACAAATGTTAGTGATGCTAGATTAA
1 AATACAAATGTTAGTGATGCTAGATTAA
9175712 AATACAATATGTTAGTGATGCTAGATTAA
1 AATACAA-ATGTTAGTGATGCTAGATTAA
9175741 AATACAA
1 AATACAA
9175748 CACACAATAT
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
28 7 0.20
29 28 0.80
ACGTcount: A:0.45, C:0.08, G:0.16, T:0.31
Consensus pattern (28 bp):
AATACAAATGTTAGTGATGCTAGATTAA
Found at i:9177703 original size:14 final size:14
Alignment explanation
Indices: 9177680--9177725 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
9177670 TTCCTCTTTG
* *
9177680 ATTTTTTTTTGTTT
1 ATTTTATTTTATTT
9177694 ATTTTATTTTATTT
1 ATTTTATTTTATTT
* *
9177708 ATCTTATGTTATTT
1 ATTTTATTTTATTT
9177722 ATTT
1 ATTT
9177726 AAGTTTCAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.17, C:0.02, G:0.04, T:0.76
Consensus pattern (14 bp):
ATTTTATTTTATTT
Found at i:9177779 original size:27 final size:28
Alignment explanation
Indices: 9177744--9177810 Score: 77
Period size: 27 Copynumber: 2.5 Consensus size: 28
9177734 ATTGGTTTTA
*
9177744 ATTTTTTTTTATATTCTTTATTT-TAT-T
1 ATTTGTTTTTAT-TTCTTTATTTGTATAT
*
9177771 ATTTGTTTTTATTTGTTTATTTGTATAT
1 ATTTGTTTTTATTTCTTTATTTGTATAT
*
9177799 ATTT-TATTTATT
1 ATTTGTTTTTATT
9177811 GATATTTCTA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
26 9 0.26
27 21 0.60
28 5 0.14
ACGTcount: A:0.19, C:0.01, G:0.04, T:0.75
Consensus pattern (28 bp):
ATTTGTTTTTATTTCTTTATTTGTATAT
Found at i:9177781 original size:18 final size:18
Alignment explanation
Indices: 9177760--9177806 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
9177750 TTTTATATTC
*
9177760 TTTATTTTATTATTTGTT
1 TTTATTTTATTATTTGTA
9177778 TTTATTTGT-TTATTTGTA
1 TTTATTT-TATTATTTGTA
*
9177796 TATATTTTATT
1 TTTATTTTATT
9177807 TATTGATATT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
17 1 0.04
18 23 0.92
19 1 0.04
ACGTcount: A:0.19, C:0.00, G:0.06, T:0.74
Consensus pattern (18 bp):
TTTATTTTATTATTTGTA
Found at i:9178029 original size:106 final size:105
Alignment explanation
Indices: 9177888--9178098 Score: 259
Period size: 106 Copynumber: 2.0 Consensus size: 105
9177878 GGGTTTAAAA
* * **
9177888 TTTTTTAATCATGAATTTTACCAAATGATTAGAGAATTTCATAAT-AATTGTTTTTG-AAAAATA
1 TTTTTTAATCATGAATTCTACCAAACGATTAGAGAATTTCATAATGAA-T-TTTAAGAAAAAATA
*
9177951 AAATATATTTTT-AAT-TTGACCAAATGATTGAAGGATTTTATT
64 AAAT-TATTTTTAAATCAT-ACCAAATGATTGAAGGATTTTATT
* * * *
9177993 TTTTTTAAGTTATGAATTCTACTAAACGATTGGAGAATTTCATAATGAATTTTAAGAAAAAATTA
1 TTTTTTAA-TCATGAATTCTACCAAACGATTAGAGAATTTCATAATGAATTTTAAGAAAAAATAA
*
9178058 AATTATTTTTAAATCATACCAAATGATTGGAGGATTTTATT
65 AATTATTTTTAAATCATACCAAATGATTGAAGGATTTTATT
9178099 GTTTGCTTTC
Statistics
Matches: 91, Mismatches: 10, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
105 19 0.21
106 69 0.76
107 3 0.03
ACGTcount: A:0.39, C:0.06, G:0.11, T:0.43
Consensus pattern (105 bp):
TTTTTTAATCATGAATTCTACCAAACGATTAGAGAATTTCATAATGAATTTTAAGAAAAAATAAA
ATTATTTTTAAATCATACCAAATGATTGAAGGATTTTATT
Found at i:9181421 original size:14 final size:13
Alignment explanation
Indices: 9181395--9181420 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
9181385 AATATTCCTA
9181395 AATAAATTTTTTT
1 AATAAATTTTTTT
9181408 AATAAATTTTTTT
1 AATAAATTTTTTT
9181421 TTCAAAAAGT
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:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
AATAAATTTTTTT
Found at i:9182664 original size:27 final size:26
Alignment explanation
Indices: 9182628--9182684 Score: 71
Period size: 27 Copynumber: 2.2 Consensus size: 26
9182618 AATTTATTTT
9182628 TTAAATATTTAAATTGTAATTTAAT-A
1 TTAAATATTTAAATTGTAA-TTAATAA
**
9182654 TTAAATAATTTATTTTGTAATTAATAA
1 TTAAAT-ATTTAAATTGTAATTAATAA
9182681 TTAA
1 TTAA
9182685 TTTATTTTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
26 11 0.41
27 16 0.59
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.51
Consensus pattern (26 bp):
TTAAATATTTAAATTGTAATTAATAA
Found at i:9182816 original size:15 final size:15
Alignment explanation
Indices: 9182796--9182831 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
9182786 TTTGTTAAAC
* *
9182796 TATTTAATTTTTAAT
1 TATTTAAATTGTAAT
9182811 TATTTAAATTGTAAT
1 TATTTAAATTGTAAT
9182826 TATTTA
1 TATTTA
9182832 TTAAAAATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (15 bp):
TATTTAAATTGTAAT
Found at i:9185431 original size:30 final size:30
Alignment explanation
Indices: 9185395--9185455 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
9185385 AAAGATACTA
*
9185395 AGACTAGATTTAATCAATCTAAGTGTAATG
1 AGACTAGATTTAATCAATCTAAGCGTAATG
9185425 AGACTAGATTTAATCAATCTAAGCGTAATG
1 AGACTAGATTTAATCAATCTAAGCGTAATG
9185455 A
1 A
9185456 CAAGATTTGT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.41, C:0.11, G:0.16, T:0.31
Consensus pattern (30 bp):
AGACTAGATTTAATCAATCTAAGCGTAATG
Found at i:9190089 original size:46 final size:46
Alignment explanation
Indices: 9190022--9190115 Score: 188
Period size: 46 Copynumber: 2.0 Consensus size: 46
9190012 ACATGGATCG
9190022 ATCGAGTCCCTTATAGGATTGATCAATTTTGGGTTTTATTCCATTA
1 ATCGAGTCCCTTATAGGATTGATCAATTTTGGGTTTTATTCCATTA
9190068 ATCGAGTCCCTTATAGGATTGATCAATTTTGGGTTTTATTCCATTA
1 ATCGAGTCCCTTATAGGATTGATCAATTTTGGGTTTTATTCCATTA
9190114 AT
1 AT
9190116 GAGGATTTTG
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.24, C:0.15, G:0.17, T:0.44
Consensus pattern (46 bp):
ATCGAGTCCCTTATAGGATTGATCAATTTTGGGTTTTATTCCATTA
Found at i:9195046 original size:444 final size:444
Alignment explanation
Indices: 9194205--9195093 Score: 1135
Period size: 444 Copynumber: 2.0 Consensus size: 444
9194195 TTTAATAGCC
* * *
9194205 GTCACCTTTACCTCTTAACTTTTTAGTGTCTATTCAAGATTTTCTTCACCATCTTTACATTGGAA
1 GTCACCTTTACCTCTTAACTCTTTAGTGTCTATTCAAGATTTTCTTCACCATATTTACATTGAAA
* ** * * * * * * *
9194270 TATTTCTTTTCAAAAGCTTTCAATCCATTAAGGCTGTTTGTTAAGTGATTTGACATTTCGCTAAT
66 TATGTCTTCCCAAAAGCTTTCAATCCATTAAGGATGTTAGTGAAGCGACTTAACATTTCACTAAT
* * *
9194335 AGTCTTTTTTAATCTTATCTTAAAAAGTTTATACTCATGAGTAAGCATACTAATCTTAGTTTTTC
131 AGTCTTTTTCAATCTTATCTTAAAAAGTTCATACTCATGAGTAAGCATACTAATCTTAGTTTCTC
* * * * *
9194400 TGACTCCATTTGTACTTTTATAAGTGATAGGAAATTTTTTCTAATATTTCTTTGCATTTTCATAT
196 TGACTCCATTTGTACTTTTATAAATGATAGCAAATTTTTTCTAATATTTCTTTACATTGTCACAT
* * * * ** *
9194465 AAGGAACTTTATTGCATTCACTAGGATCCAATGCATAAAAATAGTGTATTTATTGCCTTGGCATT
261 AAGGAACTCTATTGCATTCACTACGATCCAATGCATAAAAAGAGTGCATGCATTGCCTTCGCATT
* * *
9194530 AAGTTTAGCCATCTTGAAATCATTTGCATCCCATTCACTTTTTTTTTAATTACTTCTCTAGCTTT
326 AAGTTGAGCCATCTTGAAATCATTTGCATCCCATTCACTTTTTTTTTAATGACTTCTATAGCTTT
*
9194595 TTCCTTTTACTTTAGAATGAGAAT-AACATTTACAATTACCATCTATACTTCATA
391 CTCCTTTTACTTTAGAATGA-AATGAACATTTACAATTACCATCTATACTTCATA
* **
9194649 GTCACCTTTGCCT-TCTAACTCTTTAGTGTCTATTCAAGATTTTCTTTGCCATATTTACATTGAA
1 GTCACCTTTACCTCT-TAACTCTTTAGTGTCTATTCAAGATTTTCTTCACCATATTTACATTGAA
* * * *
9194713 ATATGTCTTCCCAATAGCTTTTAATCCATTAATGATGTTAGTGAGGCGACTTAACATTTCACTAA
65 ATATGTCTTCCCAAAAGCTTTCAATCCATTAAGGATGTTAGTGAAGCGACTTAACATTTCACTAA
* * * * * *
9194778 TAGTCTTTTTCAGTCTTATCTTGAAGAGTTCATAGTCATGAGTAAGCATATTAGTCTTAGTTTC-
130 TAGTCTTTTTCAATCTTATCTTAAAAAGTTCATACTCATGAGTAAGCATACTAATCTTAGTTTCT
** * *
9194842 CTTGACTTGATTTGTA-TATTTATAAATGATAGCCAATTTTTTCTAA-ATTTCCTTTACGTTGTC
195 C-TGACTCCATTTGTACT-TTTATAAATGATAGCAAATTTTTTCTAATATTT-CTTTACATTGTC
*
9194905 ACATAAGGAAACTCTATTGTATTCACTACGA-CCTAATGCATAAAAAGAGTGCATGCATTGCCTT
257 ACATAAGG-AACTCTATTGCATTCACTACGATCC-AATGCATAAAAAGAGTGCATGCATTGCCTT
*
9194969 CGCATTGAGTTGAGCCATCTTGAAATCATTTGCATCCCATTCAC-TTTTTTTTAATGACTTCTAT
320 CGCATTAAGTTGAGCCATCTTGAAATCATTTGCATCCCATTCACTTTTTTTTTAATGACTTCTAT
* ** * * * * *
9195033 ATCTTTCTCCTTTTTTTTTGGAATGAAATGACCATTTACAATTACCCTTTATACTTTATA
385 AGCTTTCTCCTTTTACTTTAGAATGAAATGAACATTTACAATTACCATCTATACTTCATA
9195093 G
1 G
9195094 GCTTGAATGA
Statistics
Matches: 379, Mismatches: 59, Indels: 14
0.84 0.13 0.03
Matches are distributed among these distances:
443 10 0.03
444 283 0.75
445 86 0.23
ACGTcount: A:0.27, C:0.18, G:0.12, T:0.43
Consensus pattern (444 bp):
GTCACCTTTACCTCTTAACTCTTTAGTGTCTATTCAAGATTTTCTTCACCATATTTACATTGAAA
TATGTCTTCCCAAAAGCTTTCAATCCATTAAGGATGTTAGTGAAGCGACTTAACATTTCACTAAT
AGTCTTTTTCAATCTTATCTTAAAAAGTTCATACTCATGAGTAAGCATACTAATCTTAGTTTCTC
TGACTCCATTTGTACTTTTATAAATGATAGCAAATTTTTTCTAATATTTCTTTACATTGTCACAT
AAGGAACTCTATTGCATTCACTACGATCCAATGCATAAAAAGAGTGCATGCATTGCCTTCGCATT
AAGTTGAGCCATCTTGAAATCATTTGCATCCCATTCACTTTTTTTTTAATGACTTCTATAGCTTT
CTCCTTTTACTTTAGAATGAAATGAACATTTACAATTACCATCTATACTTCATA
Found at i:9198244 original size:20 final size:20
Alignment explanation
Indices: 9198206--9198249 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
9198196 TATTTTTTAA
9198206 AAAATTAGATATTGAAAAAAT
1 AAAATTAGATATTG-AAAAAT
**
9198227 AAAATTA-ATATTTTAAAAT
1 AAAATTAGATATTGAAAAAT
9198246 AAAA
1 AAAA
9198250 CTTCCAAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 9 0.43
20 5 0.24
21 7 0.33
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.32
Consensus pattern (20 bp):
AAAATTAGATATTGAAAAAT
Found at i:9198674 original size:20 final size:20
Alignment explanation
Indices: 9198649--9198702 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
9198639 TAATTGATGT
*
9198649 TGCCATGCCAGCAAAGTTAA
1 TGCCATGTCAGCAAAGTTAA
* **
9198669 TGCCATGTTATAAAAGTTAA
1 TGCCATGTCAGCAAAGTTAA
9198689 TGCCATGTCAGCAA
1 TGCCATGTCAGCAA
9198703 GATCAATGCT
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.26
Consensus pattern (20 bp):
TGCCATGTCAGCAAAGTTAA
Found at i:9199748 original size:24 final size:24
Alignment explanation
Indices: 9199716--9199763 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
9199706 TTATTAAAAT
9199716 TTTTTTTAATTACAACTACAATAA
1 TTTTTTTAATTACAACTACAATAA
*
9199740 TTTTTTTAATTACAACTATAATAA
1 TTTTTTTAATTACAACTACAATAA
9199764 CAATTATTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.42, C:0.10, G:0.00, T:0.48
Consensus pattern (24 bp):
TTTTTTTAATTACAACTACAATAA
Found at i:9200493 original size:12 final size:12
Alignment explanation
Indices: 9200475--9200518 Score: 63
Period size: 12 Copynumber: 3.8 Consensus size: 12
9200465 ATAATGTTTT
9200475 TAAATATAATAA
1 TAAATATAATAA
*
9200487 CAAATATAATAA
1 TAAATATAATAA
*
9200499 TTAATATAA-AA
1 TAAATATAATAA
9200510 TAAATATAA
1 TAAATATAA
9200519 AATCTTTCCT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
11 10 0.36
12 18 0.64
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (12 bp):
TAAATATAATAA
Found at i:9205440 original size:589 final size:586
Alignment explanation
Indices: 9203590--9205488 Score: 2375
Period size: 589 Copynumber: 3.2 Consensus size: 586
9203580 ATATATTTAT
* * * * * * *
9203590 ATAAGATTTATATGAAAACAAATCAAAATAATTAATGCAGGACATATGGCGATTATTTAACATTG
1 ATAAAATTTATATGAAAATAAATCAAAATAATTAATGCAAGACATA-AGCGATTGTTCAAGATTG
* * * * *
9203655 TCCACATATCAAAAGAATAGATCATCCACA-TAGAATTTTTTTTTCCTTTATTGTTAAAAGCTTT
65 TCCACATGT-AAAAGAAGAGATCATCCACATTA-AA--ATTTTTT-CTTTTTTGTTAAAAGTTTT
* * * *
9203719 GGC-TTT-TATA--TAT-T--CATATAAGATTAATTGAGAGTAACTTATGTAAAGTACTTATAAT
125 GACTTTTATATATTTATATAAGATATAAGATTAATTGAGAGTAATTTATGTAAAGTAATTATAAT
* **
9203777 GGGTTATTAGAGAATACATTTTGAAATAGTAAATTATGTTGGTAAATATGTGTGGTTGTAATTAA
190 GGGTTATTAGAGAATACATTTTGAAATAGTAAATTATGTTGGTAAATATATGTAATTGTAA-TAA
*
9203842 TACTTATATAGAAAGAAATATAAAAAATATATTTGCAATTAATTAGCCCTTTTATTTTAGGTTTG
254 TACTTATATAGAAAGAAATATAAAAAATATATTTGCAATTAATTAGACCTTTTATTTTAGGTTTG
* *
9203907 AATTCTTAGCATTATATGATTTATATATTCATTACATAAATTATTTCTTAATTATATACTAAAAT
319 AATTCTTAGCATTATATGACTTATATATTCATTACATAAATTATTTCTTAATTAAATACTAAAAT
* * * * *
9203972 TATGGATATCAAATAGTCAAAGC-TTTCAAGTATATTTCTTATTTATAGTGTTCATATTTAGTGT
384 TAAGGATATCAAATAGTCAATGCTTTTAAAGTATATTTTTTATTTATAGTGTTCATGTTTAGTGT
* * * * **
9204036 TTAAAATTAAAAATTGAATTTATTTCAAAGTGATTTAAGATAATTAAATAGTAATGTAATTATAA
449 TTAAAATTAAGAATTGAATTTATTTGAAAGTGATTTAAGATAATTGAATTGTAACATAATTATAA
9204101 AA-AGC--T-ATATTTGATATTTATAAGAAAATAAATATACCTAATTTAGTCAAAATAAATATCT
514 AAGA-CAATAATATTTGATATTTATAAGAAAATAAATATACCTAATTTAGTCAAAATAAATATCT
9204162 TTTAAATTA
578 TTTAAATTA
* * * * * *
9204171 ATAAAATTTACATTAAAATAAATCAAAATAATTAATACAGGACATACGGCTATTGTTCAAGATTG
1 ATAAAATTTATATGAAAATAAATCAAAATAATTAATGCAAGACATA-AGCGATTGTTCAAGATTG
* * **
9204236 TCCACATGTTAAAAGAATAGATCATCCACA-TAAGATTTTTTCCTTTTTTGTTAAAAGTTTTGGT
65 TCCACATG-TAAAAGAAGAGATCATCCACATTAAAATTTTTT-CTTTTTTGTTAAAAGTTTTGAC
* * *
9204300 TTTTATATATTTATATAAGAT-T-A-A-T--TT-A-AGTAATTTATATAAAATAATTCTAATGGG
128 TTTTATATATTTATATAAGATATAAGATTAATTGAGAGTAATTTATGTAAAGTAATTATAATGGG
9204357 TTATTAGAGAATACATTTTGAAATAGTAAATTATGTTGGT-AATATATGTATGATTGTAAATAAT
193 TTATTAGAGAATACATTTTGAAATAGTAAATTATGTTGGTAAATATATGTA--ATTGT-AATAAT
* * * * *
9204421 ACTTATGTAGAAAGAAATATAAAAAAAATGTTTGTAATTAATTAGACCTTTTATTTTATGTTTGA
255 ACTTATATAGAAAGAAATATAAAAAATATATTTGCAATTAATTAGACCTTTTATTTTAGGTTTGA
*
9204486 ATTCTTAGCATTATATGACTTATATATTCATTGCATAAATTATTTCTTAATTAAATACTAAAATT
320 ATTCTTAGCATTATATGACTTATATATTCATTACATAAATTATTTCTTAATTAAATACTAAAATT
**
9204551 AAGGATATCAAATAGTCAATATTTTTAAAGTATATTTTTTATTTATAGTGTTCATGTTTAGTGTT
385 AAGGATATCAAATAGTCAATGCTTTTAAAGTATATTTTTTATTTATAGTGTTCATGTTTAGTGTT
* *
9204616 TACAATTAAGAATTGAATTTATTTGAAAGTGATTTAAGATAGTTGAATTGTAACATAATTATAAA
450 TAAAATTAAGAATTGAATTTATTTGAAAGTGATTTAAGATAATTGAATTGTAACATAATTATAAA
* * * *
9204681 AGGCAAAAATATTTTATATTTATAAGAAAATAAATATAACTAATTTAGTC-AAAT-AATATCTTT
515 AGACAATAATATTTGATATTTATAAGAAAATAAATATACCTAATTTAGTCAAAATAAATATCTTT
9204744 TAAATTA
580 TAAATTA
* * * *
9204751 ATAAAATTTATATGAAATTAAATCAAAATAATTAAATGTAGTAGACATGAA--GATTTTTTTAAG
1 ATAAAATTTATATGAAAATAAATCAAAATAATT-AATGCA--AGACAT-AAGCGA-TTGTTCAAG
* * * ** * ** *
9204814 ATTGTTCACATGTCAATAATATAG-GCT-ATCCACATTAAAAAATTTTCATTTTTGCCAAAGGTT
61 ATTGTCCACATGT-AA-AAGA-AGAGATCATCCACATTAAAATTTTTTCTTTTTTGTTAAAAGTT
* *
9204877 TTGACTTTTATATATTTATATAAGATATAAGATTAATTGAGTGTAATTTATGTAGAGTAATTATA
123 TTGACTTTTATATATTTATATAAGATATAAGATTAATTGAGAGTAATTTATGTAAAGTAATTATA
* * * *
9204942 ATAGGTTGTTAGAGAATACATTTTGAAATAATAAATTATACTT-GTAAATATATGTAATTGTAAT
188 ATGGGTTATTAGAGAATACATTTTGAAATAGTAAATTAT-GTTGGTAAATATATGTAATTGTAAT
* * * *
9205006 CAACACTTATATAGAAAGAAATACAAAAAATATATTTGCAATTAATTAGGCTTTTTATTTTAGGT
252 -AATACTTATATAGAAAGAAATATAAAAAATATATTTGCAATTAATTAGACCTTTTATTTTAGGT
* * *
9205071 TTGAATTCTTAGTATTATATGACTTATATATTCATTATATAAATTATTTCTTAATTAAATATTAA
316 TTGAATTCTTAGCATTATATGACTTATATATTCATTACATAAATTATTTCTTAATTAAATACTAA
* * * *
9205136 AATTACGGATATCAAATAGTCAATGCTTTTAAAATATATTTTTTATTTATAGTATTCATGCTTAG
381 AATTAAGGATATCAAATAGTCAATGCTTTTAAAGTATATTTTTTATTTATAGTGTTCATGTTTAG
* *
9205201 TGTTTAAAATTAAGACTTGAATTTATTTGAAAGTAATTTAAGATAATTGAATTGTAACATAATTA
446 TGTTTAAAATTAAGAATTGAATTTATTTGAAAGTGATTTAAGATAATTGAATTGTAACATAATTA
*
9205266 TAAAAGACAATAATATTTGATATTTATAAGAAAATAAAAATACCTAATTTAGTCAAAATAAATAT
511 TAAAAGACAATAATATTTGATATTTATAAGAAAATAAATATACCTAATTTAGTCAAAATAAATAT
*
9205331 TTTTTAAATTA
576 CTTTTAAATTA
* ** * **
9205342 ATAAAATTTATATGAAAACAAATCAACGTAATTTATGCAAGACATATAGCGATTGTTCACA-ACC
1 ATAAAATTTATATGAAAATAAATCAAAATAATTAATGCAAGACATA-AGCGATTGTTCA-AGATT
* * * * * *
9205406 ATCCATATGATAAAAGAAGAGATCATCTACATTAAATTTTTTTCTTTTTTATTAAAAGTTTTGTC
64 GTCCACATG-TAAAAGAAGAGATCATCCACATTAAAATTTTTTCTTTTTTGTTAAAAGTTTTGAC
*
9205471 TTTTACATATTTATATAA
128 TTTTATATATTTATATAA
9205489 CATTTATATG
Statistics
Matches: 1133, Mismatches: 140, Indels: 82
0.84 0.10 0.06
Matches are distributed among these distances:
576 8 0.01
577 64 0.06
578 174 0.15
579 105 0.09
580 51 0.05
581 95 0.08
582 109 0.10
583 21 0.02
584 4 0.00
585 3 0.00
586 1 0.00
587 3 0.00
588 17 0.02
589 353 0.31
590 69 0.06
591 56 0.05
ACGTcount: A:0.41, C:0.07, G:0.11, T:0.41
Consensus pattern (586 bp):
ATAAAATTTATATGAAAATAAATCAAAATAATTAATGCAAGACATAAGCGATTGTTCAAGATTGT
CCACATGTAAAAGAAGAGATCATCCACATTAAAATTTTTTCTTTTTTGTTAAAAGTTTTGACTTT
TATATATTTATATAAGATATAAGATTAATTGAGAGTAATTTATGTAAAGTAATTATAATGGGTTA
TTAGAGAATACATTTTGAAATAGTAAATTATGTTGGTAAATATATGTAATTGTAATAATACTTAT
ATAGAAAGAAATATAAAAAATATATTTGCAATTAATTAGACCTTTTATTTTAGGTTTGAATTCTT
AGCATTATATGACTTATATATTCATTACATAAATTATTTCTTAATTAAATACTAAAATTAAGGAT
ATCAAATAGTCAATGCTTTTAAAGTATATTTTTTATTTATAGTGTTCATGTTTAGTGTTTAAAAT
TAAGAATTGAATTTATTTGAAAGTGATTTAAGATAATTGAATTGTAACATAATTATAAAAGACAA
TAATATTTGATATTTATAAGAAAATAAATATACCTAATTTAGTCAAAATAAATATCTTTTAAATT
A
Found at i:9208733 original size:18 final size:16
Alignment explanation
Indices: 9208710--9208757 Score: 51
Period size: 19 Copynumber: 2.8 Consensus size: 16
9208700 ATGTAAAATA
9208710 TATTTTGTAATTTTAACT
1 TATTTT-TAATTTTAA-T
*
9208728 TATTTTTTATTATTTAAT
1 TA-TTTTTAAT-TTTAAT
9208746 TATTTTTAATTT
1 TATTTTTAATTT
9208758 AATAACAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
16 2 0.08
17 7 0.27
18 8 0.31
19 9 0.35
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (16 bp):
TATTTTTAATTTTAAT
Found at i:9210885 original size:20 final size:21
Alignment explanation
Indices: 9210842--9210885 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
9210832 TTTAGCAATA
* **
9210842 TTTATTTATTTTATTTGTTGT
1 TTTATTTATTTTATATGTCAT
9210863 TTTATTT-TTTTATATGTCAT
1 TTTATTTATTTTATATGTCAT
9210883 TTT
1 TTT
9210886 CATTAAGATT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 13 0.65
21 7 0.35
ACGTcount: A:0.16, C:0.02, G:0.07, T:0.75
Consensus pattern (21 bp):
TTTATTTATTTTATATGTCAT
Found at i:9218331 original size:15 final size:17
Alignment explanation
Indices: 9218308--9218360 Score: 67
Period size: 17 Copynumber: 3.2 Consensus size: 17
9218298 CTAGAAGAGG
9218308 GAGAGAGAGAAAAGAAA
1 GAGAGAGAGAAAAGAAA
9218325 G-GA-AGAGAGAAAG-AA
1 GAGAGAGAGA-AAAGAAA
*
9218340 GAGAGAGAGAAAAAAAA
1 GAGAGAGAGAAAAGAAA
9218357 GAGA
1 GAGA
9218361 AAATTTTTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
15 8 0.26
16 11 0.35
17 12 0.39
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (17 bp):
GAGAGAGAGAAAAGAAA
Found at i:9219072 original size:7 final size:7
Alignment explanation
Indices: 9219050--9219081 Score: 55
Period size: 7 Copynumber: 4.4 Consensus size: 7
9219040 TATTTATTTA
9219050 AATAAAT
1 AATAAAT
9219057 AAGTAAAT
1 AA-TAAAT
9219065 AATAAAT
1 AATAAAT
9219072 AATAAAT
1 AATAAAT
9219079 AAT
1 AAT
9219082 GAAAAGAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 17 0.71
8 7 0.29
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (7 bp):
AATAAAT
Found at i:9222295 original size:17 final size:18
Alignment explanation
Indices: 9222252--9222300 Score: 57
Period size: 17 Copynumber: 2.8 Consensus size: 18
9222242 GGCATTATTC
9222252 ACAAAAAAAAAAAACTAA
1 ACAAAAAAAAAAAACTAA
**
9222270 A-AATTAAAAAAAA-TAA
1 ACAAAAAAAAAAAACTAA
9222286 ACAAAGAAAAAAAAA
1 ACAAA-AAAAAAAAA
9222301 GGCCTTTTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
16 4 0.16
17 12 0.48
18 9 0.36
ACGTcount: A:0.84, C:0.06, G:0.02, T:0.08
Consensus pattern (18 bp):
ACAAAAAAAAAAAACTAA
Found at i:9222299 original size:21 final size:20
Alignment explanation
Indices: 9222254--9222300 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
9222244 CATTATTCAC
*
9222254 AAAAAAAAAAAACTAAAAATT
1 AAAAAAAAAAAACTAAAAA-A
*
9222275 AAAAAAAATAAAC-AAAGAAA
1 AAAAAAAAAAAACTAAA-AAA
9222295 AAAAAA
1 AAAAAA
9222301 GGCCTTTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 9 0.39
21 14 0.61
ACGTcount: A:0.85, C:0.04, G:0.02, T:0.09
Consensus pattern (20 bp):
AAAAAAAAAAAACTAAAAAA
Found at i:9223836 original size:41 final size:40
Alignment explanation
Indices: 9223784--9223900 Score: 108
Period size: 41 Copynumber: 2.9 Consensus size: 40
9223774 AAAGACATTT
** *
9223784 GCATTTGCATCATTATAAAAAAATTTTGCATTTGCATCATA
1 GCATTTGCATCACGAGAAAAAAA-TTTGCATTTGCATCATA
* * *
9223825 GCATTTGCATCACGAGAAAGACATTTGCATTTGCATCACTT
1 GCATTTGCATCACGAGAAAAAAATTTGCATTTGCATCA-TA
* * ** * *
9223866 GCATCTACATCTTGAGAAAAACACTTGCATTTGCA
1 GCATTTGCATCACGAGAAAAAAATTTGCATTTGCA
9223901 ATGTCTACAT
Statistics
Matches: 63, Mismatches: 12, Indels: 2
0.82 0.16 0.03
Matches are distributed among these distances:
40 15 0.24
41 48 0.76
ACGTcount: A:0.33, C:0.20, G:0.14, T:0.33
Consensus pattern (40 bp):
GCATTTGCATCACGAGAAAAAAATTTGCATTTGCATCATA
Found at i:9224030 original size:81 final size:80
Alignment explanation
Indices: 9223935--9224089 Score: 197
Period size: 81 Copynumber: 1.9 Consensus size: 80
9223925 AAAAAAATCA
* * **
9223935 CATTTGTATCACTTGCAT-TATATCATGAGAAAAG-CACTCATATTTACATCATCTGCATTTTTA
1 CATTTGTATCACTTGCATCTATACCATGA-AAAAGACA-TCACATTTACATCA-CTGCATTTGCA
9223998 TCATGACAAAAAGTTTTG
63 TCATGACAAAAAGTTTTG
* * **
9224016 CATTTGTATTACTTGCATCTGTACCATGAAAAAGACATCACATTTGTATCACTGCATTTGCATCA
1 CATTTGTATCACTTGCATCTATACCATGAAAAAGACATCACATTTACATCACTGCATTTGCATCA
9224081 TGACAAAAA
66 TGACAAAAA
9224090 AAATTTCGCA
Statistics
Matches: 64, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
80 21 0.33
81 33 0.52
82 10 0.16
ACGTcount: A:0.34, C:0.19, G:0.12, T:0.35
Consensus pattern (80 bp):
CATTTGTATCACTTGCATCTATACCATGAAAAAGACATCACATTTACATCACTGCATTTGCATCA
TGACAAAAAGTTTTG
Found at i:9224090 original size:81 final size:82
Alignment explanation
Indices: 9223812--9224104 Score: 199
Period size: 82 Copynumber: 3.6 Consensus size: 82
9223802 AAAAATTTTG
* * * * * * * *
9223812 CATTTGCATCAT-AGCATTTGCATCACGAGAAAGACATTT-GCATTTGCATCACTTGCATCTACA
1 CATTTACATCATCTGCATTTGCATCATGACAAAAAAATTTCGCATTTGTATCACTTGCAT-TATA
* * * **
9223875 TCTTGAGAAAAACACTTG
65 CCATGAGAAAAGCACTCA
* * * * * *
9223893 CATTTGCAAT-GTCTACATTTGCGA-CATTACACAAAAAA-ATCACATTTGTATCACTTGCATTA
1 CATTTAC-ATCATCTGCATTTGC-ATCATGACA-AAAAAATTTCGCATTTGTATCACTTGCATTA
*
9223955 TATCATGAGAAAAGCACTCA
63 TACCATGAGAAAAGCACTCA
* ** * * * *
9223975 TATTTACATCATCTGCATTTTTATCATGAC-AAAAAGTTTTGCATTTGTATTACTTGCATCTGTA
1 CATTTACATCATCTGCATTTGCATCATGACAAAAAAATTTCGCATTTGTATCACTTGCAT-TATA
9224039 CCATGA-AAAAG-ACATCA
65 CCATGAGAAAAGCAC-TCA
**
9224056 CATTTGTATCA-CTGCATTTGCATCATGACAAAAAAAATTTCGCATTTGT
1 CATTTACATCATCTGCATTTGCATCATGAC-AAAAAAATTTCGCATTTGT
9224105 GTCTTTTACA
Statistics
Matches: 163, Mismatches: 37, Indels: 23
0.73 0.17 0.10
Matches are distributed among these distances:
80 23 0.14
81 45 0.28
82 73 0.45
83 22 0.13
ACGTcount: A:0.34, C:0.20, G:0.12, T:0.34
Consensus pattern (82 bp):
CATTTACATCATCTGCATTTGCATCATGACAAAAAAATTTCGCATTTGTATCACTTGCATTATAC
CATGAGAAAAGCACTCA
Found at i:9225284 original size:33 final size:33
Alignment explanation
Indices: 9225239--9225321 Score: 105
Period size: 33 Copynumber: 2.5 Consensus size: 33
9225229 ATTTTCTAAG
* * *
9225239 TAGAGGAATCTTTCAAATCCCATTGCCTTTAGT
1 TAGAAGAATCTTTCAAATACCATTGACTTTAGT
* *
9225272 TA-AAGAAATCTTTCAAATATCATTGACTTTGGT
1 TAGAAG-AATCTTTCAAATACCATTGACTTTAGT
9225305 TAGAAGAATCTTTCAAA
1 TAGAAGAATCTTTCAAA
9225322 CCCTACTACC
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
32 2 0.05
33 38 0.88
34 3 0.07
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.36
Consensus pattern (33 bp):
TAGAAGAATCTTTCAAATACCATTGACTTTAGT
Found at i:9225448 original size:34 final size:34
Alignment explanation
Indices: 9225370--9225487 Score: 109
Period size: 34 Copynumber: 3.5 Consensus size: 34
9225360 GTACCTCTAG
*
9225370 TTAGATGAGTTTTTTAAAGTCTCATTGCCTTTGA
1 TTAGATGAGTTTTTTAAAGTCTCATTACCTTTGA
* ** *
9225404 TTAG-TGGAGTTTTTTAAAGTCTTATTATTTTTGG
1 TTAGAT-GAGTTTTTTAAAGTCTCATTACCTTTGA
* *
9225438 TTGGATGAGTTTTTTAAA-TTTCA-TACCCTTT-A
1 TTAGATGAGTTTTTTAAAGTCTCATTA-CCTTTGA
*
9225470 GTTAGATGAGCTTTTTAA
1 -TTAGATGAGTTTTTTAA
9225488 TTTTAAGAGC
Statistics
Matches: 67, Mismatches: 13, Indels: 9
0.75 0.15 0.10
Matches are distributed among these distances:
32 2 0.03
33 22 0.33
34 42 0.63
35 1 0.01
ACGTcount: A:0.24, C:0.08, G:0.18, T:0.50
Consensus pattern (34 bp):
TTAGATGAGTTTTTTAAAGTCTCATTACCTTTGA
Found at i:9225501 original size:33 final size:33
Alignment explanation
Indices: 9225441--9225503 Score: 81
Period size: 33 Copynumber: 1.9 Consensus size: 33
9225431 TTTTTGGTTG
* * *
9225441 GATGAGTTTTTTAAATTTCATACCCTTTAGTTA
1 GATGAGCTTTTTAAATTTAAGACCCTTTAGTTA
* *
9225474 GATGAGCTTTTTAATTTTAAGAGCCTTTAG
1 GATGAGCTTTTTAAATTTAAGACCCTTTAG
9225504 ATAAAGGACT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
33 25 1.00
ACGTcount: A:0.27, C:0.11, G:0.16, T:0.46
Consensus pattern (33 bp):
GATGAGCTTTTTAAATTTAAGACCCTTTAGTTA
Found at i:9225681 original size:36 final size:34
Alignment explanation
Indices: 9225576--9225933 Score: 159
Period size: 34 Copynumber: 10.3 Consensus size: 34
9225566 TTTCATAATT
* * * * * *
9225576 TTTTTTCAAGTGTTATAGCTTCTGGTTGGAAGAG
1 TTTTTTAAAGTGTCATAGCCTCTAGTTAGAGGAG
* * * * *
9225610 TTATTTAAAGTTTCATAGCCTCTGGTTAAAAGAG
1 TTTTTTAAAGTGTCATAGCCTCTAGTTAGAGGAG
9225644 TTTTTTTTAAAGTGTCATCA-CCTCTAGTTAGAGGAG
1 --TTTTTTAAAGTGTCAT-AGCCTCTAGTTAGAGGAG
* * * * *
9225680 TTATTTAAAATGACATAGCCTTTAGTTATAGGAG
1 TTTTTTAAAGTGTCATAGCCTCTAGTTAGAGGAG
* *
9225714 -TTTTTAAAGTGTCATGGCCT-TTGATTAGAGGAG
1 TTTTTTAAAGTGTCATAGCCTCTAG-TTAGAGGAG
* * * * *
9225747 TTTTTTTTTTAAAGTATCATAGCTTCTGGTTACAGAAG
1 ----TTTTTTAAAGTGTCATAGCCTCTAGTTAGAGGAG
* * * * * * *
9225785 TTTTTTAAAGTGTCATAACATTTGGTTAAAAGAAC
1 TTTTTTAAAGTGTCATAGCCTCTAGTT-AGAGGAG
* * * * *
9225820 TTTTTAAAAGT-ACGATAACCTTTGGTTAGAGGAG
1 TTTTTTAAAGTGTC-ATAGCCTCTAGTTAGAGGAG
* * *
9225854 TTTTTTAAAAGTG-CTATAGCTTCTTGTTAGAGGAA
1 TTTTTT-AAAGTGTC-ATAGCCTCTAGTTAGAGGAG
* ** * * * *
9225889 TTTTTTAAAATACCATAGCCTTTGGTTAAAGGAA
1 TTTTTTAAAGTGTCATAGCCTCTAGTTAGAGGAG
*
9225923 ATTTTTAAAGT
1 TTTTTTAAAGT
9225934 TTAATCACGT
Statistics
Matches: 252, Mismatches: 56, Indels: 32
0.74 0.16 0.09
Matches are distributed among these distances:
32 2 0.01
33 25 0.10
34 116 0.46
35 55 0.22
36 27 0.11
37 1 0.00
38 24 0.10
39 2 0.01
ACGTcount: A:0.30, C:0.10, G:0.19, T:0.41
Consensus pattern (34 bp):
TTTTTTAAAGTGTCATAGCCTCTAGTTAGAGGAG
Found at i:9225787 original size:38 final size:38
Alignment explanation
Indices: 9225714--9225790 Score: 93
Period size: 38 Copynumber: 2.0 Consensus size: 38
9225704 GTTATAGGAG
* * * *
9225714 TTTTTAAAGTGTCATGGCCTTTGATTAGAGGAGTTTTT
1 TTTTTAAAGTATCATAGCCTTTGATTACAGAAGTTTTT
*
9225752 TTTTTAAAGTATCATAG-CTTCTGGTTACAGAAGTTTTT
1 TTTTTAAAGTATCATAGCCTT-TGATTACAGAAGTTTTT
9225790 T
1 T
9225791 AAAGTGTCAT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
37 3 0.09
38 30 0.91
ACGTcount: A:0.23, C:0.09, G:0.19, T:0.48
Consensus pattern (38 bp):
TTTTTAAAGTATCATAGCCTTTGATTACAGAAGTTTTT
Found at i:9225856 original size:69 final size:68
Alignment explanation
Indices: 9225773--9225933 Score: 164
Period size: 69 Copynumber: 2.3 Consensus size: 68
9225763 TCATAGCTTC
* * *
9225773 TGGTTACAGAAGTTTTTTAAAGTG-TCATAACATT-TGGTTAAAAGAACTTTTTAAAAGTACGAT
1 TGGTTAAAGGAGTTTTTTAAAGTGCT-ATAAC-TTCTGGTTAAAAGAACTTTTTAAAA-TACCAT
9225836 AACCTT
63 AACCTT
* * * * * * *
9225842 TGGTTAGAGGAGTTTTTTAAAAGTGCTATAGCTTCTTGTTAGAGGAATTTTTTAAAATACCATAG
1 TGGTTAAAGGAGTTTTTT-AAAGTGCTATAACTTCTGGTTAAAAGAACTTTTTAAAATACCATAA
9225907 CCTT
65 CCTT
**
9225911 TGGTTAAAGGAAATTTTTAAAGT
1 TGGTTAAAGGAGTTTTTTAAAGT
9225934 TTAATCACGT
Statistics
Matches: 77, Mismatches: 12, Indels: 7
0.80 0.12 0.07
Matches are distributed among these distances:
68 5 0.06
69 43 0.56
70 28 0.36
71 1 0.01
ACGTcount: A:0.34, C:0.09, G:0.19, T:0.39
Consensus pattern (68 bp):
TGGTTAAAGGAGTTTTTTAAAGTGCTATAACTTCTGGTTAAAAGAACTTTTTAAAATACCATAAC
CTT
Found at i:9225907 original size:34 final size:35
Alignment explanation
Indices: 9225670--9225931 Score: 146
Period size: 35 Copynumber: 7.5 Consensus size: 35
9225660 ATCACCTCTA
* * *
9225670 GTTAGAGGAGTTATTTAAAA-TGA-CATAGCCTTTA
1 GTTAGAGGAATTTTTTAAAAGT-ACCATAGCCTTTG
* * ** *
9225704 GTTATAGG-AGTTTTT-AAAGTGTCATGGCCTTTG
1 GTTAGAGGAATTTTTTAAAAGTACCATAGCCTTTG
* * * *
9225737 ATTAGAGGAGTTTTTTTTTTAAAGTATCATAG-CTTCTG
1 GTTAGAGGA---ATTTTTTAAAAGTACCATAGCCTT-TG
* ** * *
9225775 GTTACA-GAAGTTTTTT-AAAGTGTCATAACATTTG
1 GTTAGAGGAA-TTTTTTAAAAGTACCATAGCCTTTG
* * * * *
9225809 GTTAAAAGAACTTTTTAAAAGTACGATAACCTTTG
1 GTTAGAGGAATTTTTTAAAAGTACCATAGCCTTTG
* * * *
9225844 GTTAGAGGAGTTTTTTAAAAGTGCTATAG-CTTCTT
1 GTTAGAGGAATTTTTTAAAAGTACCATAGCCTT-TG
9225879 GTTAGAGGAATTTTTTAAAA-TACCATAGCCTTTG
1 GTTAGAGGAATTTTTTAAAAGTACCATAGCCTTTG
* *
9225913 GTTAAAGGAAATTTTTAAA
1 GTTAGAGGAATTTTTTAAA
9225932 GTTTAATCAC
Statistics
Matches: 175, Mismatches: 39, Indels: 28
0.72 0.16 0.12
Matches are distributed among these distances:
32 3 0.02
33 20 0.11
34 56 0.32
35 70 0.40
37 10 0.06
38 16 0.09
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.40
Consensus pattern (35 bp):
GTTAGAGGAATTTTTTAAAAGTACCATAGCCTTTG
Found at i:9226936 original size:15 final size:15
Alignment explanation
Indices: 9226912--9226942 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
9226902 AAAACCCACC
*
9226912 CCAAATAAAAATCAA
1 CCAAAAAAAAATCAA
9226927 CCAAAAAAAAATCAA
1 CCAAAAAAAAATCAA
9226942 C
1 C
9226943 ACTTCCTTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.68, C:0.23, G:0.00, T:0.10
Consensus pattern (15 bp):
CCAAAAAAAAATCAA
Found at i:9227494 original size:15 final size:15
Alignment explanation
Indices: 9227471--9227508 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
9227461 TAAGAAAGAG
9227471 AGAGAGAGAAAAAAA
1 AGAGAGAGAAAAAAA
* *
9227486 AGGGAGAGAAAAAGA
1 AGAGAGAGAAAAAAA
9227501 AGAGAGAG
1 AGAGAGAG
9227509 GGAAGGAATG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (15 bp):
AGAGAGAGAAAAAAA
Found at i:9227865 original size:14 final size:15
Alignment explanation
Indices: 9227846--9227888 Score: 54
Period size: 14 Copynumber: 2.9 Consensus size: 15
9227836 GAAAAATTAG
9227846 TGTTAAAAAATAATT
1 TGTTAAAAAATAATT
9227861 T-TTAAAAAGAT-ATT
1 TGTTAAAAA-ATAATT
*
9227875 TGTAAAAAAATAAT
1 TGTTAAAAAATAAT
9227889 GATAATAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
14 13 0.54
15 11 0.46
ACGTcount: A:0.56, C:0.00, G:0.07, T:0.37
Consensus pattern (15 bp):
TGTTAAAAAATAATT
Found at i:9232267 original size:2 final size:2
Alignment explanation
Indices: 9232262--9232286 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
9232252 CATTAGTGTG
9232262 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
9232287 TATTCCTCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:9233611 original size:27 final size:27
Alignment explanation
Indices: 9233581--9233634 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
9233571 CTAGTGGTTA
9233581 AAGAGCTACGGAAGGCTCAGTTTCGAG
1 AAGAGCTACGGAAGGCTCAGTTTCGAG
* *
9233608 AAGAGCTACGTAAGGCTTAGTTTCGAG
1 AAGAGCTACGGAAGGCTCAGTTTCGAG
9233635 TCAACCCATC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.30, C:0.17, G:0.31, T:0.22
Consensus pattern (27 bp):
AAGAGCTACGGAAGGCTCAGTTTCGAG
Found at i:9235416 original size:7 final size:7
Alignment explanation
Indices: 9235384--9235415 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
9235374 CTATATTCTC
9235384 CTCAGGT
1 CTCAGGT
9235391 CTCAGGT
1 CTCAGGT
9235398 CTCAGGT
1 CTCAGGT
*
9235405 CTCAAGT
1 CTCAGGT
9235412 CTCA
1 CTCA
9235416 ACCACAATAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.19, C:0.31, G:0.22, T:0.28
Consensus pattern (7 bp):
CTCAGGT
Found at i:9235704 original size:37 final size:36
Alignment explanation
Indices: 9235663--9235738 Score: 88
Period size: 33 Copynumber: 2.2 Consensus size: 36
9235653 CATCTACATG
*
9235663 ATTAATATAAGCATTTATTATGGTTCC-CTGGTATCTA
1 ATTAATA-AAGCATTTATTATGATTCCAC-GGTATCTA
*
9235700 A-T--TAAAGCATTTATTATGATTCCACGGTTTCTA
1 ATTAATAAAGCATTTATTATGATTCCACGGTATCTA
9235733 ATTAAT
1 ATTAAT
9235739 CCTTTTAGCA
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
33 26 0.79
34 4 0.12
36 2 0.06
37 1 0.03
ACGTcount: A:0.32, C:0.13, G:0.12, T:0.43
Consensus pattern (36 bp):
ATTAATAAAGCATTTATTATGATTCCACGGTATCTA
Found at i:9235708 original size:33 final size:33
Alignment explanation
Indices: 9235671--9235737 Score: 100
Period size: 33 Copynumber: 2.0 Consensus size: 33
9235661 TGATTAATAT
*
9235671 AAGCATTTATTATGGTTCC-CTGGTATCTAATTA
1 AAGCATTTATTATGATTCCAC-GGTATCTAATTA
*
9235704 AAGCATTTATTATGATTCCACGGTTTCTAATTA
1 AAGCATTTATTATGATTCCACGGTATCTAATTA
9235737 A
1 A
9235738 TCCTTTTAGC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
33 30 0.97
34 1 0.03
ACGTcount: A:0.30, C:0.15, G:0.13, T:0.42
Consensus pattern (33 bp):
AAGCATTTATTATGATTCCACGGTATCTAATTA
Found at i:9246337 original size:18 final size:16
Alignment explanation
Indices: 9246307--9246341 Score: 52
Period size: 18 Copynumber: 2.1 Consensus size: 16
9246297 CTGCTGCTTC
9246307 TCTTTTTTTTTTCCTT
1 TCTTTTTTTTTTCCTT
9246323 TCTTTTTATTCTTTCCTT
1 TCTTTTT-TT-TTTCCTT
9246341 T
1 T
9246342 TCTTGTTACT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.41
17 2 0.12
18 8 0.47
ACGTcount: A:0.03, C:0.20, G:0.00, T:0.77
Consensus pattern (16 bp):
TCTTTTTTTTTTCCTT
Found at i:9248017 original size:38 final size:38
Alignment explanation
Indices: 9247975--9248049 Score: 98
Period size: 39 Copynumber: 2.0 Consensus size: 38
9247965 TTGACTTGAT
*
9247975 TTATTT-TTTTATATTTTTTGACTTGATTATTTATTTTC
1 TTATTTGTTTTATATTTTTTGACTTGAAT-TTTATTTTC
* **
9248013 TTATTTGTTTTTTATTTTTTTCCTTGAATTTTATTTT
1 TTATTTGTTTTATATTTTTTGACTTGAATTTTATTTT
9248050 ATTTTATTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
38 14 0.44
39 18 0.56
ACGTcount: A:0.16, C:0.05, G:0.05, T:0.73
Consensus pattern (38 bp):
TTATTTGTTTTATATTTTTTGACTTGAATTTTATTTTC
Found at i:9248060 original size:16 final size:16
Alignment explanation
Indices: 9248041--9248082 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
9248031 TTTCCTTGAA
9248041 TTTTATTTTA-TTTTAT
1 TTTTATTTTAGTTTT-T
9248057 TTTTAGTTTTAGTTTTT
1 TTTTA-TTTTAGTTTTT
*
9248074 TTTTGTTTT
1 TTTTATTTT
9248083 TTAGTTTTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
16 9 0.39
17 10 0.43
18 4 0.17
ACGTcount: A:0.12, C:0.00, G:0.07, T:0.81
Consensus pattern (16 bp):
TTTTATTTTAGTTTTT
Found at i:9248077 original size:18 final size:17
Alignment explanation
Indices: 9248041--9248091 Score: 59
Period size: 18 Copynumber: 2.9 Consensus size: 17
9248031 TTTCCTTGAA
*
9248041 TTTTATTTTA-TTTTAT
1 TTTTATTTTAGTTTTTT
9248057 TTTTAGTTTTAGTTTTTT
1 TTTTA-TTTTAGTTTTTT
*
9248075 TTTGTTTTTTAGTTTTT
1 TTT-TATTTTAGTTTTT
9248092 CTTTGAAACA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
16 5 0.17
17 5 0.17
18 19 0.63
19 1 0.03
ACGTcount: A:0.12, C:0.00, G:0.08, T:0.80
Consensus pattern (17 bp):
TTTTATTTTAGTTTTTT
Found at i:9248450 original size:22 final size:22
Alignment explanation
Indices: 9248425--9248473 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
9248415 TAAAATGTTT
* *
9248425 TGCCTAGAGGTTTTATAGATTA
1 TGCCTAGAGGTCTTAGAGATTA
*
9248447 TGCCTAGAGGTCTTAGAGTTTA
1 TGCCTAGAGGTCTTAGAGATTA
9248469 TGCCT
1 TGCCT
9248474 GAAGTTCTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.22, C:0.14, G:0.24, T:0.39
Consensus pattern (22 bp):
TGCCTAGAGGTCTTAGAGATTA
Found at i:9248583 original size:125 final size:124
Alignment explanation
Indices: 9248329--9248586 Score: 295
Period size: 125 Copynumber: 2.1 Consensus size: 124
9248319 ACTACGTTCG
* * * *
9248329 GAGGTCTTAGAGATTATATCTAAAGGTCTTATAAATCTCAAAATCTTTGAATGCTTATTATAGTA
1 GAGGTCTTAGAGATTATACCTAAAGGTCTTACAAATCTCAAAATATTTGAATGCTTATCATAGTA
** * ** * * * * *
9248394 GAGGTGTTTACTGTGGAAATTTAAAATGTTTTGCCTAGAGGTTTTATAGATTATGCCTA
66 GAGGCATTAACTGTAAAAATTTAAAATATTTTGCCTAGAGGTCTAACAGATTATGCCGA
* * * * *
9248453 GAGGTCTTAGAGTTTATGCCTGAAGTTCTTACAAATCTCAAAATATTTGAATG-TTCTCATAGTA
1 GAGGTCTTAGAGATTATACCTAAAGGTCTTACAAATCTCAAAATATTTGAATGCTTATCATAGTA
*
9248517 GAGGCATTGAAACTTTAAAAATTTAAAATATTTTGCCTAGAGGTCTAACAGATTATGCTCGA
66 GAGGCATT--AACTGTAAAAATTTAAAATATTTTGCCTAGAGGTCTAACAGATTATGC-CGA
9248579 -AGGTCTTA
1 GAGGTCTTA
9248587 TAAATCTCAA
Statistics
Matches: 111, Mismatches: 20, Indels: 5
0.82 0.15 0.04
Matches are distributed among these distances:
123 15 0.14
124 46 0.41
125 48 0.43
126 2 0.02
ACGTcount: A:0.33, C:0.12, G:0.19, T:0.37
Consensus pattern (124 bp):
GAGGTCTTAGAGATTATACCTAAAGGTCTTACAAATCTCAAAATATTTGAATGCTTATCATAGTA
GAGGCATTAACTGTAAAAATTTAAAATATTTTGCCTAGAGGTCTAACAGATTATGCCGA
Found at i:9248659 original size:104 final size:103
Alignment explanation
Indices: 9248447--9248666 Score: 325
Period size: 103 Copynumber: 2.1 Consensus size: 103
9248437 TTATAGATTA
* * * * *
9248447 TGCCTAGAGGTCTTAGAGTTTATGCCTGAAGTTCTTACAAATCTCAAAATATTTGAATGTTCTCA
1 TGCCTAGAGGTCTAACAGATTATGCCTGAAGGTCTTACAAATCTCAAAATATTTGAATGCTCTCA
*
9248512 TAGTAGAGGCATTGAAACTTTAAAAATTTAAAATATTT
66 TAGTAGAGGCATTAAAACTTTAAAAATTTAAAATATTT
* *
9248550 TGCCTAGAGGTCTAACAGATTATG-CTCGAAGGTCTTATAAATCTCAAAATCTTTGAATGCTCAT
1 TGCCTAGAGGTCTAACAGATTATGCCT-GAAGGTCTTACAAATCTCAAAATATTTGAATGCTC-T
* *
9248614 CATAGTAGAGGCATTAAAACTTTGAAAATTTAAAATGTTT
64 CATAGTAGAGGCATTAAAACTTTAAAAATTTAAAATATTT
9248654 TGCCTAGAGGTCT
1 TGCCTAGAGGTCT
9248667 TGTAGATTAT
Statistics
Matches: 105, Mismatches: 10, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
102 2 0.02
103 52 0.50
104 51 0.49
ACGTcount: A:0.34, C:0.14, G:0.17, T:0.35
Consensus pattern (103 bp):
TGCCTAGAGGTCTAACAGATTATGCCTGAAGGTCTTACAAATCTCAAAATATTTGAATGCTCTCA
TAGTAGAGGCATTAAAACTTTAAAAATTTAAAATATTT
Found at i:9248674 original size:104 final size:103
Alignment explanation
Indices: 9248447--9248679 Score: 326
Period size: 104 Copynumber: 2.2 Consensus size: 103
9248437 TTATAGATTA
* * *
9248447 TGCCTAGAGGTCTTAGAGTTTATGC-CTGAAGTTCTTACAAATCTCAAAATATTTGAATGTTCTC
1 TGCCTAGAGGTCTT-GAGATTATGCTCTGAAGGTCTTACAAATCTCAAAATATTTGAATGCTCTC
*
9248511 ATAGTAGAGGCATTGAAACTTTAAAAATTTAAAATATTT
65 ATAGTAGAGGCATTAAAACTTTAAAAATTTAAAATATTT
** * *
9248550 TGCCTAGAGGTCTAACAGATTATGCTC-GAAGGTCTTATAAATCTCAAAATCTTTGAATGCTCAT
1 TGCCTAGAGGTCT-TGAGATTATGCTCTGAAGGTCTTACAAATCTCAAAATATTTGAATGCTC-T
* *
9248614 CATAGTAGAGGCATTAAAACTTTGAAAATTTAAAATGTTT
64 CATAGTAGAGGCATTAAAACTTTAAAAATTTAAAATATTT
9248654 TGCCTAGAGGTCTTGTAGATTATGCT
1 TGCCTAGAGGTCTTG-AGATTATGCT
9248680 TGGATGTCTT
Statistics
Matches: 114, Mismatches: 12, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
103 52 0.46
104 62 0.54
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.36
Consensus pattern (103 bp):
TGCCTAGAGGTCTTGAGATTATGCTCTGAAGGTCTTACAAATCTCAAAATATTTGAATGCTCTCA
TAGTAGAGGCATTAAAACTTTAAAAATTTAAAATATTT
Found at i:9248698 original size:22 final size:22
Alignment explanation
Indices: 9248673--9248715 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
9248663 GTCTTGTAGA
*
9248673 TTATGCTTGGATGTCTTAGAGG
1 TTATGCCTGGATGTCTTAGAGG
9248695 TTATGCCTGGATGTCTTAGAG
1 TTATGCCTGGATGTCTTAGAG
9248716 ATATTTCTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.19, C:0.12, G:0.30, T:0.40
Consensus pattern (22 bp):
TTATGCCTGGATGTCTTAGAGG
Found at i:9248871 original size:23 final size:23
Alignment explanation
Indices: 9248788--9248863 Score: 98
Period size: 23 Copynumber: 3.3 Consensus size: 23
9248778 AATATGCCAA
*
9248788 CTAAACTGGGCATAAAGTGCCAG
1 CTAAACTGGGCATAAAGTGCTAG
* * *
9248811 CTAATCTCGGCATAAAGTGCTAA
1 CTAAACTGGGCATAAAGTGCTAG
**
9248834 CTAAACTGGGTTTAAAGTGCTAG
1 CTAAACTGGGCATAAAGTGCTAG
9248857 CTAAACT
1 CTAAACT
9248864 AGGCTTAAGT
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.20, G:0.21, T:0.25
Consensus pattern (23 bp):
CTAAACTGGGCATAAAGTGCTAG
Done.