Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032250.1 Gossypioides kirkii chromosome KI_08
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: 39602670
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 500 characters in sequence are not A, C, G, or T
File 13 of 125
Found at i:4252417 original size:15 final size:14
Alignment explanation
Indices: 4252358--4252435 Score: 53
Period size: 13 Copynumber: 5.9 Consensus size: 14
4252348 ATTATTAAAA
4252358 AATAATATTATTTT
1 AATAATATTATTTT
*
4252372 AAT-ATATTTAATATT
1 AATAATA-TT-ATTTT
*
4252387 -A-AAT-TTAATTT
1 AATAATATTATTTT
4252398 AAT-AT-TTATTTT
1 AATAATATTATTTT
4252410 AATAATA-TATTTT
1 AATAATATTATTTT
*
4252423 AAAAATATATATT
1 AATAATAT-TATT
4252436 AAATTAAATT
Statistics
Matches: 50, Mismatches: 5, Indels: 17
0.69 0.07 0.24
Matches are distributed among these distances:
11 3 0.06
12 14 0.28
13 17 0.34
14 8 0.16
15 8 0.16
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (14 bp):
AATAATATTATTTT
Found at i:4252439 original size:49 final size:52
Alignment explanation
Indices: 4252358--4252455 Score: 139
Period size: 49 Copynumber: 1.9 Consensus size: 52
4252348 ATTATTAAAA
* * * *
4252358 AATAATATTATTTTAATATATTTAATATTAAATTTAATTTAATATTTATTTT
1 AATAATATTATTTTAATAAATATAATATTAAATTAAATTTAATAATTATTTT
4252410 AATAATA-TATTTTAA-AAATAT-ATATTAAATTAAATTTAATAATTAT
1 AATAATATTATTTTAATAAATATAATATTAAATTAAATTTAATAATTAT
4252456 CTTATAGATA
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
49 23 0.55
50 4 0.10
51 8 0.19
52 7 0.17
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (52 bp):
AATAATATTATTTTAATAAATATAATATTAAATTAAATTTAATAATTATTTT
Found at i:4261973 original size:35 final size:35
Alignment explanation
Indices: 4261926--4261995 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
4261916 CGCTATTCAC
*
4261926 CTGTTTTTTGTTATGACTATTTTATACTTCTAAAA
1 CTGTTTTATGTTATGACTATTTTATACTTCTAAAA
4261961 CTGTTTTATGTTATGACTATTTTATACTTCTAAAA
1 CTGTTTTATGTTATGACTATTTTATACTTCTAAAA
4261996 TTTCATTTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.27, C:0.11, G:0.09, T:0.53
Consensus pattern (35 bp):
CTGTTTTATGTTATGACTATTTTATACTTCTAAAA
Found at i:4265326 original size:76 final size:76
Alignment explanation
Indices: 4265200--4265354 Score: 301
Period size: 76 Copynumber: 2.0 Consensus size: 76
4265190 TCTGTGGTCT
*
4265200 TGACTTTTGAGTCAATTATTGTTTTAGCTGTTTTTCTATTTGATGATTCTTTATTTTCCTTGTCT
1 TGACTTTTGAGTAAATTATTGTTTTAGCTGTTTTTCTATTTGATGATTCTTTATTTTCCTTGTCT
4265265 TGTGTTATTGC
66 TGTGTTATTGC
4265276 TGACTTTTGAGTAAATTATTGTTTTAGCTGTTTTTCTATTTGATGATTCTTTATTTTCCTTGTCT
1 TGACTTTTGAGTAAATTATTGTTTTAGCTGTTTTTCTATTTGATGATTCTTTATTTTCCTTGTCT
4265341 TGTGTTATTGC
66 TGTGTTATTGC
4265352 TGA
1 TGA
4265355 TATCTTGCAA
Statistics
Matches: 78, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
76 78 1.00
ACGTcount: A:0.15, C:0.11, G:0.16, T:0.57
Consensus pattern (76 bp):
TGACTTTTGAGTAAATTATTGTTTTAGCTGTTTTTCTATTTGATGATTCTTTATTTTCCTTGTCT
TGTGTTATTGC
Found at i:4273802 original size:2 final size:2
Alignment explanation
Indices: 4273795--4273832 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
4273785 ACTGAAGAAA
*
4273795 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC TC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
4273833 TGTATATGCA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.47, C:0.50, G:0.00, T:0.03
Consensus pattern (2 bp):
AC
Found at i:4278273 original size:181 final size:181
Alignment explanation
Indices: 4277969--4278334 Score: 723
Period size: 181 Copynumber: 2.0 Consensus size: 181
4277959 AGTATATCCA
4277969 TAACTTTTGCAATGTAAATAGCAGTATTTAACCTATTAAAAAGATTCAATTACAAAAGAAAGAAA
1 TAACTTTTGCAATGTAAATAGCAGTATTTAACCTATTAAAAAGATTCAATTACAAAAGAAAGAAA
*
4278034 AAAATAGTGCTTGAAATGTAAAAGTTGAGCTCAAAATCTTGAATTTTGTGTCAAGCCCCAGCTTA
66 AAAATAGTGCTTGAAATGTAAAAGTTGAGCTCAAAATCTTGAATTTCGTGTCAAGCCCCAGCTTA
4278099 TAACAGCTTAAGCTTGATTTGGCTGGGATTATACGCTACTGTTTGGTGTTT
131 TAACAGCTTAAGCTTGATTTGGCTGGGATTATACGCTACTGTTTGGTGTTT
4278150 TAACTTTTGCAATGTAAATAGCAGTATTTAACCTATTAAAAAGATTCAATTACAAAAGAAAGAAA
1 TAACTTTTGCAATGTAAATAGCAGTATTTAACCTATTAAAAAGATTCAATTACAAAAGAAAGAAA
4278215 AAAATAGTGCTTGAAATGTAAAAGTTGAGCTCAAAATCTTGAATTTCGTGTCAAGCCCCAGCTTA
66 AAAATAGTGCTTGAAATGTAAAAGTTGAGCTCAAAATCTTGAATTTCGTGTCAAGCCCCAGCTTA
4278280 TAACAGCTTAAGCTTGATTTGGCTGGGATTATACGCTACTGTTTGGTGTTT
131 TAACAGCTTAAGCTTGATTTGGCTGGGATTATACGCTACTGTTTGGTGTTT
4278331 TAAC
1 TAAC
4278335 AATTCATCTG
Statistics
Matches: 184, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
181 184 1.00
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.33
Consensus pattern (181 bp):
TAACTTTTGCAATGTAAATAGCAGTATTTAACCTATTAAAAAGATTCAATTACAAAAGAAAGAAA
AAAATAGTGCTTGAAATGTAAAAGTTGAGCTCAAAATCTTGAATTTCGTGTCAAGCCCCAGCTTA
TAACAGCTTAAGCTTGATTTGGCTGGGATTATACGCTACTGTTTGGTGTTT
Found at i:4279064 original size:12 final size:12
Alignment explanation
Indices: 4279045--4279104 Score: 57
Period size: 12 Copynumber: 4.8 Consensus size: 12
4279035 AGTACAAATT
4279045 ATATACATATAG
1 ATATACATATAG
* *
4279057 ACATACATACATG
1 ATATACATATA-G
*
4279070 TATATACATATAC
1 -ATATACATATAG
*
4279083 ATATACATATAC
1 ATATACATATAG
*
4279095 ATGTACATAT
1 ATATACATAT
4279105 CGGCCTTATC
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
12 30 0.75
13 1 0.03
14 9 0.22
ACGTcount: A:0.47, C:0.15, G:0.05, T:0.33
Consensus pattern (12 bp):
ATATACATATAG
Found at i:4279082 original size:6 final size:6
Alignment explanation
Indices: 4279071--4279104 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
4279061 ACATACATGT
*
4279071 ATATAC ATATAC ATATAC ATATAC ATGTAC ATAT
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATAT
4279105 CGGCCTTATC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.47, C:0.15, G:0.03, T:0.35
Consensus pattern (6 bp):
ATATAC
Found at i:4286778 original size:24 final size:24
Alignment explanation
Indices: 4286710--4286780 Score: 88
Period size: 24 Copynumber: 3.0 Consensus size: 24
4286700 AGAAATAATC
* * *
4286710 TTTCAGTTAAACTTTGTTTAATTG
1 TTTCAATTAAACTATGTTTATTTG
* * *
4286734 TTTCAAATAAACTCTTTTTATTTG
1 TTTCAATTAAACTATGTTTATTTG
4286758 TTTCAATTAAACTATGTTTATTT
1 TTTCAATTAAACTATGTTTATTT
4286781 ATTTGAGTCA
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.28, C:0.10, G:0.07, T:0.55
Consensus pattern (24 bp):
TTTCAATTAAACTATGTTTATTTG
Found at i:4288748 original size:24 final size:24
Alignment explanation
Indices: 4288721--4288795 Score: 116
Period size: 24 Copynumber: 3.1 Consensus size: 24
4288711 AGAAATAATC
*
4288721 TTTCAATTAAACTTTGTTTAATTG
1 TTTCAATTAAACTTTGTTTATTTG
*
4288745 TTTCAGA-TAAACTCTGTTTATTTG
1 TTTCA-ATTAAACTTTGTTTATTTG
4288769 TTTCAATTAAACTTTGTTTATTTG
1 TTTCAATTAAACTTTGTTTATTTG
4288793 TTT
1 TTT
4288796 GAGTCAAACT
Statistics
Matches: 46, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
23 1 0.02
24 44 0.96
25 1 0.02
ACGTcount: A:0.25, C:0.09, G:0.09, T:0.56
Consensus pattern (24 bp):
TTTCAATTAAACTTTGTTTATTTG
Found at i:4288804 original size:24 final size:23
Alignment explanation
Indices: 4288728--4288805 Score: 93
Period size: 24 Copynumber: 3.3 Consensus size: 23
4288718 ATCTTTCAAT
*
4288728 TAAACTTTGTTTAATTGTTTCAG
1 TAAACTTTGTTTATTTGTTTCAG
* *
4288751 ATAAACTCTGTTTATTTGTTTCAAT
1 -TAAACTTTGTTTATTTGTTTC-AG
*
4288776 TAAACTTTGTTTATTTGTTTGAG
1 TAAACTTTGTTTATTTGTTTCAG
4288799 TCAAACT
1 T-AAACT
4288806 ATTATTAGTT
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
23 2 0.04
24 43 0.93
25 1 0.02
ACGTcount: A:0.27, C:0.10, G:0.12, T:0.51
Consensus pattern (23 bp):
TAAACTTTGTTTATTTGTTTCAG
Found at i:4289834 original size:22 final size:22
Alignment explanation
Indices: 4289806--4289855 Score: 91
Period size: 22 Copynumber: 2.3 Consensus size: 22
4289796 AAACTTGAAA
4289806 TTGATTGAATTACATGTTGTAC
1 TTGATTGAATTACATGTTGTAC
*
4289828 TTGATTGAATTGCATGTTGTAC
1 TTGATTGAATTACATGTTGTAC
4289850 TTGATT
1 TTGATT
4289856 ATATATGAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.24, C:0.08, G:0.20, T:0.48
Consensus pattern (22 bp):
TTGATTGAATTACATGTTGTAC
Found at i:4290320 original size:6 final size:6
Alignment explanation
Indices: 4290301--4290400 Score: 84
Period size: 6 Copynumber: 17.2 Consensus size: 6
4290291 GACTTTATGT
* * * *
4290301 TTTAAT TTTGAA TTTAAA -TTAAT TTTTAA TTT--A TTTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* * *
4290346 TTT-AT TTTAAA TTTAAA TTCAACTA TTTAAA TTT-AT TTTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAA--A TTTAAA TTTAAA TTTAAA TTTAAA
4290394 TTTAAA T
1 TTTAAA T
4290401 CAAATTATGA
Statistics
Matches: 75, Mismatches: 12, Indels: 14
0.74 0.12 0.14
Matches are distributed among these distances:
4 4 0.05
5 12 0.16
6 54 0.72
8 5 0.07
ACGTcount: A:0.41, C:0.02, G:0.01, T:0.56
Consensus pattern (6 bp):
TTTAAA
Found at i:4290341 original size:17 final size:18
Alignment explanation
Indices: 4290294--4290397 Score: 64
Period size: 17 Copynumber: 6.2 Consensus size: 18
4290284 TACCATGGAC
* *
4290294 TTTATGTTTTAATTTTGAA
1 TTTAT-TTTAAATTTTAAA
** *
4290313 TTTAAATT-AATTTTTAA
1 TTTATTTTAAATTTTAAA
4290330 TTTA-TTTAAA-TTTAAA
1 TTTATTTTAAATTTTAAA
4290346 TTTATTTTAAA-TTTAAA
1 TTTATTTTAAATTTTAAA
* **
4290363 TTCA-ACT--A-TTTAAA
1 TTTATTTTAAATTTTAAA
4290377 TTTATTTTAAA-TTTAAA
1 TTTATTTTAAATTTTAAA
4290394 TTTA
1 TTTA
4290398 AATCAAATTA
Statistics
Matches: 69, Mismatches: 11, Indels: 12
0.75 0.12 0.13
Matches are distributed among these distances:
14 10 0.14
15 1 0.01
16 12 0.17
17 40 0.58
18 2 0.03
19 4 0.06
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (18 bp):
TTTATTTTAAATTTTAAA
Found at i:4290405 original size:11 final size:12
Alignment explanation
Indices: 4290333--4290406 Score: 55
Period size: 11 Copynumber: 6.2 Consensus size: 12
4290323 TTTTTAATTT
*
4290333 ATTTAAATTTAA
1 ATTTAAATTCAA
* *
4290345 ATTT-ATTTTAA
1 ATTTAAATTCAA
4290356 ATTTAAATTCAA
1 ATTTAAATTCAA
*
4290368 CTATTTAAATT-TA
1 --ATTTAAATTCAA
* *
4290381 TTTTAAATTTAA
1 ATTTAAATTCAA
4290393 ATTTAAA-TCAA
1 ATTTAAATTCAA
4290404 ATT
1 ATT
4290407 ATGAAAATAT
Statistics
Matches: 50, Mismatches: 8, Indels: 9
0.75 0.12 0.13
Matches are distributed among these distances:
11 24 0.48
12 16 0.32
13 1 0.02
14 9 0.18
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (12 bp):
ATTTAAATTCAA
Found at i:4290675 original size:26 final size:26
Alignment explanation
Indices: 4290646--4290696 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
4290636 ATAGGAGTTC
4290646 GCCACA-TCAGCAGCCAACTTGCTCCT
1 GCCACAGTCAGCAGCCAAC-TGCTCCT
* *
4290672 GCCACAGTCGGCTGCCAACTGCTCC
1 GCCACAGTCAGCAGCCAACTGCTCC
4290697 AACCGCCACT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 12 0.55
27 10 0.45
ACGTcount: A:0.20, C:0.43, G:0.20, T:0.18
Consensus pattern (26 bp):
GCCACAGTCAGCAGCCAACTGCTCCT
Found at i:4292040 original size:29 final size:29
Alignment explanation
Indices: 4292006--4292141 Score: 81
Period size: 29 Copynumber: 4.7 Consensus size: 29
4291996 TGAACTATCC
4292006 AAAAATTACCATTTTACCCTCGAACTTTT
1 AAAAATTACCATTTTACCCTCGAACTTTT
* * *
4292035 TAAAATCA-TATTTTAACCC-CG-A-TTTCAT
1 AAAAATTACCATTTT-ACCCTCGAACTTT--T
* *
4292063 GAAAAATTACCATTTTACCCTCAAACTTTC
1 -AAAAATTACCATTTTACCCTCGAACTTTT
*
4292093 CAAAATT-CCATTTTTAACCC-CG-A-TTTT
1 AAAAATTACCA-TTTT-ACCCTCGAACTTTT
4292120 ACCAAAAATTACCATTTTACCC
1 ---AAAAATTACCATTTTACCC
4292142 CTAAACTTTC
Statistics
Matches: 81, Mismatches: 12, Indels: 28
0.67 0.10 0.23
Matches are distributed among these distances:
26 3 0.04
27 4 0.05
28 12 0.15
29 35 0.43
30 20 0.25
31 4 0.05
32 3 0.04
ACGTcount: A:0.35, C:0.26, G:0.03, T:0.36
Consensus pattern (29 bp):
AAAAATTACCATTTTACCCTCGAACTTTT
Found at i:4292137 original size:59 final size:59
Alignment explanation
Indices: 4292004--4292255 Score: 314
Period size: 59 Copynumber: 4.3 Consensus size: 59
4291994 CTTGAACTAT
* **
4292004 CCAAAAATTACCATTTTACCCTCGAACTTTTTAAAA-T-CATATTTTAACCCCGATTTCA
1 CCAAAAATTACCATTTTACCCTCAAACTTTCCAAAATTCCAT-TTTTAACCCCGATTTCA
** *
4292062 TGAAAAATTACCATTTTACCCTCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTTA
1 CCAAAAATTACCATTTTACCCTCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA
*
4292121 CCAAAAATTACCATTTTACCC-CTAAACTTTCCAAAATTCCATCTTTAACCCCGATTTCA
1 CCAAAAATTACCATTTTACCCTC-AAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA
* * * * * *
4292180 CAAAAAATTACTATTTTACCCTCAAA-TTTTCATAAATTCCCTTTTTTACCCCAATTTCA
1 CCAAAAATTACCATTTTACCCTCAAACTTTCCA-AAATTCCATTTTTAACCCCGATTTCA
* *
4292239 TCGAAAATTACCATTTT
1 CCAAAAATTACCATTTT
4292256 GCCCCCGCGA
Statistics
Matches: 168, Mismatches: 21, Indels: 9
0.85 0.11 0.05
Matches are distributed among these distances:
58 37 0.22
59 127 0.76
60 4 0.02
ACGTcount: A:0.34, C:0.27, G:0.02, T:0.37
Consensus pattern (59 bp):
CCAAAAATTACCATTTTACCCTCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA
Found at i:4292138 original size:30 final size:30
Alignment explanation
Indices: 4292044--4292197 Score: 108
Period size: 30 Copynumber: 5.2 Consensus size: 30
4292034 TTAAAATCAT
* **
4292044 ATTTTAACCCCGATTTCATGAAAAATTACC
1 ATTTTAACCCCGATTTTACCAAAAATTACC
* *
4292074 ATTTT-ACCCTCAAACTTT-CC-AAAATT-CC
1 ATTTTAACCC-C-GATTTTACCAAAAATTACC
4292102 ATTTTTAACCCCGATTTTACCAAAAATTACC
1 A-TTTTAACCCCGATTTTACCAAAAATTACC
* *
4292133 ATTTT-ACCCCTAAACTTT-CC-AAAATT-CC
1 ATTTTAACCCC--GATTTTACCAAAAATTACC
* * *
4292161 ATCTTTAACCCCGATTTCACAAAAAATTACT
1 AT-TTTAACCCCGATTTTACCAAAAATTACC
4292192 ATTTTA
1 ATTTTA
4292198 CCCTCAAATT
Statistics
Matches: 96, Mismatches: 14, Indels: 28
0.70 0.10 0.20
Matches are distributed among these distances:
28 14 0.15
29 32 0.33
30 37 0.39
31 13 0.14
ACGTcount: A:0.35, C:0.27, G:0.03, T:0.36
Consensus pattern (30 bp):
ATTTTAACCCCGATTTTACCAAAAATTACC
Found at i:4292275 original size:118 final size:117
Alignment explanation
Indices: 4292004--4292289 Score: 285
Period size: 118 Copynumber: 2.4 Consensus size: 117
4291994 CTTGAACTAT
* ** ** * * **
4292004 CCAAAAATTACCATTTTACCCTCGAACTTTTTAAAATCA-TATTTTAACCCCGATTTCATGAAAA
1 CCAAAAATTACCATTTTACCC-CAAACAGTCCAAAATTACCATTTTAACCCCGATTTCACAAAAA
* *
4292068 ATTACCATTTTACCCTCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTTA
65 ATTACCATTTTACCCTCAAACTTTCCAAAATTCCATTTTTAACCCCAATTTCA
**
4292121 CCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATT-CCATCTTTAACCCCGATTTCACAAAA
1 CCAAAAATTACCATTTTACCCC-AAACAGTCCAAAATTACCAT-TTTAACCCCGATTTCACAAAA
* * * *
4292185 AATTACTATTTTACCCTCAAA-TTTTCATAAATTCCCTTTTTTACCCCAATTTCA
64 AATTACCATTTTACCCTCAAACTTTCCA-AAATTCCATTTTTAACCCCAATTTCA
* * * **
4292239 TCGAAAATTACCATTTTGCCCC-CGCGAGTCCAAAAATTACCATTTT-ACCCC
1 CCAAAAATTACCATTTTACCCCAAAC-AGTCC-AAAATTACCATTTTAACCCC
4292290 TGAATATCCA
Statistics
Matches: 142, Mismatches: 20, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
116 2 0.01
117 47 0.33
118 89 0.63
119 4 0.03
ACGTcount: A:0.33, C:0.28, G:0.03, T:0.35
Consensus pattern (117 bp):
CCAAAAATTACCATTTTACCCCAAACAGTCCAAAATTACCATTTTAACCCCGATTTCACAAAAAA
TTACCATTTTACCCTCAAACTTTCCAAAATTCCATTTTTAACCCCAATTTCA
Found at i:4292299 original size:29 final size:29
Alignment explanation
Indices: 4292064--4292302 Score: 124
Period size: 29 Copynumber: 8.1 Consensus size: 29
4292054 CGATTTCATG
*
4292064 AAAAATTACCATTTTA-CCCTCAAACTTTCC
1 AAAAATTACCATTTTACCCCT-GAA-TTTCC
*
4292094 -AAAATT-CCATTTTTAACCCC-GATTTTACC
1 AAAAATTACCA-TTTT-ACCCCTGAATTT-CC
*
4292123 AAAAATTACCATTTTACCCCTAAACTTTCC
1 AAAAATTACCATTTTACCCCTGAA-TTTCC
4292153 -AAAATT-CCATCTTTAACCCC-G-ATTTCAC
1 AAAAATTACCAT-TTT-ACCCCTGAATTTC-C
* * *
4292181 AAAAAATTACTATTTTA-CCCTCAAATTTTC
1 -AAAAATTACCATTTTACCCCT-GAATTTCC
* * *
4292211 ATAAATTCCCTTTTTTACCCC--AATTTCATC
1 AAAAATTACC-ATTTTACCCCTGAATTTC--C
* * * * *
4292241 GAAAATTACCATTTTGCCCCCGCGA-GTCC
1 AAAAATTACCATTTTACCCCTG-AATTTCC
*
4292270 AAAAATTACCATTTTACCCCTGAATATCC
1 AAAAATTACCATTTTACCCCTGAATTTCC
4292299 AAAA
1 AAAA
4292303 GTCCCGTTTT
Statistics
Matches: 159, Mismatches: 25, Indels: 51
0.68 0.11 0.22
Matches are distributed among these distances:
27 4 0.03
28 21 0.13
29 70 0.44
30 42 0.26
31 21 0.13
32 1 0.01
ACGTcount: A:0.34, C:0.28, G:0.03, T:0.34
Consensus pattern (29 bp):
AAAAATTACCATTTTACCCCTGAATTTCC
Found at i:4304377 original size:92 final size:92
Alignment explanation
Indices: 4304226--4304854 Score: 1049
Period size: 92 Copynumber: 6.9 Consensus size: 92
4304216 TCACATCAAT
4304226 CCAACATCATTTTCCTATCCTC------TTGAAGTAAAGCTGGATAACAAGCCTTCGTCCCTCTG
1 CCAACATCATTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGCCTTCGTCCCTCTG
* * *
4304285 AAATTGAAGTAAGAGTAAGATGGAGCA
66 AAATTGAAGTAAGAGTAAGAAGAAGGA
4304312 CCAACATCATTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGCCTTCGTCCCTCTG
1 CCAACATCATTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGCCTTCGTCCCTCTG
4304377 AAATTGAAGTAAGAGTAAGAAGAAGGA
66 AAATTGAAGTAAGAGTAAGAAGAAGGA
* *
4304404 CCAACATCATTTTCCTATCATCTAGAAATTGAAGTAAAGCTGGATAACAAGCCTTCGTCCCTCTG
1 CCAACATCATTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGCCTTCGTCCCTCTG
* *
4304469 AAATCGAAGTAAGAGTAAGAAGAAAGA
66 AAATTGAAGTAAGAGTAAGAAGAAGGA
* *
4304496 CCAACATCATTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATGACAAGCCTTCGTTCCTCTG
1 CCAACATCATTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGCCTTCGTCCCTCTG
4304561 AAATTGAAGTAAGAGTAAGAAGAAGGA
66 AAATTGAAGTAAGAGTAAGAAGAAGGA
*
4304588 CCAACATCATTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGCTTTCGTCCCTCTG
1 CCAACATCATTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGCCTTCGTCCCTCTG
*
4304653 AAATCGAAGTAAGAGTAAGAAGAAGGA
66 AAATTGAAGTAAGAGTAAGAAGAAGGA
*
4304680 CCAACATCATTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGCCTTCGTCCCTATG
1 CCAACATCATTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGCCTTCGTCCCTCTG
4304745 AAATTGAAGTAAGAGTAAGAAGAAGGA
66 AAATTGAAGTAAGAGTAAGAAGAAGGA
* * **
4304772 CCAACATCATTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTT--TATCTCTG
1 CCAACATCATTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGCCTTCGTCCCTCTG
*
4304835 AAATTGAAGTAAGAGCAAGA
66 AAATTGAAGTAAGAGTAAGA
4304855 TCATTTCCTA
Statistics
Matches: 511, Mismatches: 26, Indels: 8
0.94 0.05 0.01
Matches are distributed among these distances:
86 22 0.04
90 24 0.05
92 465 0.91
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.27
Consensus pattern (92 bp):
CCAACATCATTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGCCTTCGTCCCTCTG
AAATTGAAGTAAGAGTAAGAAGAAGGA
Found at i:4304808 original size:46 final size:46
Alignment explanation
Indices: 4304482--4304808 Score: 125
Period size: 46 Copynumber: 7.1 Consensus size: 46
4304472 TCGAAGTAAG
*
4304482 AGTAAGAAGAAAGACCAACATCATTTTCCTATCCTCTTGAAATTGA
1 AGTAAGAAGAAGGACCAACATCATTTTCCTATCCTCTTGAAATTGA
** * * *
4304528 AGTAAAGCTGGATGA-CAAGC--C---TTCGT-TCCTC-TGAAATTGAAGTAA
1 AGT-AAGAAGAAGGACCAA-CATCATTTTCCTATCCTCTTGAAATT---G--A
4304573 GAGTAAGAAGAAGGACCAACATCATTTTCCTATCCTCTTGAAATTGA
1 -AGTAAGAAGAAGGACCAACATCATTTTCCTATCCTCTTGAAATTGA
** * * * * *
4304620 AGT-A-AAGCTGGA-TAACA--AGCTTTCGT-CCCTC-TGAAATCGAAGTAA
1 AGTAAGAAGAAGGACCAACATCA-TTTTCCTATCCTCTTGAAAT-----TGA
4304665 GAGTAAGAAGAAGGACCAACATCATTTTCCTATCCTCTTGAAATTGA
1 -AGTAAGAAGAAGGACCAACATCATTTTCCTATCCTCTTGAAATTGA
** * * * * **** * *
4304712 AGT-A-AAGCTGGA-TAACAAGCCTTCGTCCCTATGAAATTG-AAGTAA
1 AGTAAGAAGAAGGACCAAC-ATCATT--TTCCTATCCTCTTGAAATTGA
4304757 GAGTAAGAAGAAGGACCAACATCATTTTCCTATCCTCTTGAAATTGA
1 -AGTAAGAAGAAGGACCAACATCATTTTCCTATCCTCTTGAAATTGA
4304804 AGTAA
1 AGTAA
4304809 AGCTGGATAT
Statistics
Matches: 195, Mismatches: 48, Indels: 76
0.61 0.15 0.24
Matches are distributed among these distances:
40 13 0.07
41 10 0.05
42 9 0.05
43 8 0.04
44 16 0.08
45 18 0.09
46 47 0.24
47 18 0.09
48 16 0.08
49 8 0.04
50 9 0.05
51 10 0.05
52 13 0.07
ACGTcount: A:0.37, C:0.19, G:0.18, T:0.27
Consensus pattern (46 bp):
AGTAAGAAGAAGGACCAACATCATTTTCCTATCCTCTTGAAATTGA
Found at i:4304908 original size:76 final size:76
Alignment explanation
Indices: 4304777--4305304 Score: 707
Period size: 76 Copynumber: 6.7 Consensus size: 76
4304767 AAGGACCAAC
4304777 ATCATTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTCTGAAATTGA
1 ATCA-TTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTCTGAAATTGA
4304842 AGTAAGAGCAAG
65 AGTAAGAGCAAG
*
4304854 ATCATTTCCTATCCTCTTGAAATTGAAGTAAAGTTGGATATCAAGTCTTTATCTCTGAAATTGAA
1 ATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTCTGAAATTGAA
4304919 GTAAGAGCAAG
66 GTAAGAGCAAG
* * * *
4304930 ATCATTTCGTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAATTGAA
1 ATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTCTGAAATTGAA
4304995 GTAAGAGCAAG
66 GTAAGAGCAAG
*
4305006 ATCATTTCCTATCCTCTTGAAATTGAAATAAAGCTGGATATCAAGTCTTTATCTCACTGAAATTG
1 ATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCT--CTGAAATTG
4305071 AAGTAAGAGCAAG
64 AAGTAAGAGCAAG
** ** * * * * *
4305084 A-CAGAGCATCAACATCATTTCCTATCCTCTTGAAGTTGAAGTAGAGTTGAATAACAAGTCTTTA
1 ATC--A-TTTC--C-T-A--TCC--T-CT-TGAAAT-TGAAGTAAAGCTGGATATCAAGTCTTTA
4305148 TCTCTGAAATTGAAGTAAGAGCAAG
52 TCTCTGAAATTGAAGTAAGAGCAAG
* *
4305173 ATTATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGACATCAAGTCTTTATCTCTGAAATTGAA
1 ATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTCTGAAATTGAA
4305238 GTAAGAGCAAG
66 GTAAGAGCAAG
* * * *
4305249 ATCATCTCCTATCCTCTTGAAATTGAAGTAGAGCCGGATATCAAGACTTTATCTCT
1 ATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTCT
4305305 TTGAAGCTAT
Statistics
Matches: 398, Mismatches: 36, Indels: 35
0.85 0.08 0.07
Matches are distributed among these distances:
76 291 0.73
77 8 0.02
78 25 0.06
79 2 0.01
80 2 0.01
81 3 0.01
82 1 0.00
83 2 0.01
84 2 0.01
85 1 0.00
86 3 0.01
87 2 0.01
88 2 0.01
89 25 0.06
90 3 0.01
91 26 0.07
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
Consensus pattern (76 bp):
ATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTCTGAAATTGAA
GTAAGAGCAAG
Found at i:4305144 original size:243 final size:243
Alignment explanation
Indices: 4304854--4305303 Score: 765
Period size: 243 Copynumber: 1.9 Consensus size: 243
4304844 TAAGAGCAAG
* *
4304854 ATCATTTCCTATCCTCTTGAAATTGAAGTAAAGTTGGATATCAAGTCTTTATCTCTGAAATTGAA
1 ATCATTTCCTATCCTCTTGAAATTGAAGTAAAGTTGAATAACAAGTCTTTATCTCTGAAATTGAA
* * * *
4304919 GTAAGAGCAAGATCATTTCGTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCT
66 GTAAGAGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGACAACAAGTCTTTATCT
* *
4304984 CTGAAATTGAAGTAAGAGCAAGATCATTTCCTATCCTCTTGAAATTGAAATAAAGCTGGATATCA
131 CTGAAATTGAAGTAAGAGCAAGATCATCTCCTATCCTCTTGAAATTGAAATAAAGCCGGATATCA
*
4305049 AGTCTTTATCTCACTGAAATTGAAGTAAGAGCAAGACAGAGCATCAAC
196 AGACTTTATCTCACTGAAATTGAAGTAAGAGCAAGACAGAGCATCAAC
* *
4305097 ATCATTTCCTATCCTCTTGAAGTTGAAGTAGAGTTGAATAACAAGTCTTTATCTCTGAAATTGAA
1 ATCATTTCCTATCCTCTTGAAATTGAAGTAAAGTTGAATAACAAGTCTTTATCTCTGAAATTGAA
* *
4305162 GTAAGAGCAAGATTATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGACATCAAGTCTTTATCT
66 GTAAGAGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGACAACAAGTCTTTATCT
* *
4305227 CTGAAATTGAAGTAAGAGCAAGATCATCTCCTATCCTCTTGAAATTGAAGTAGAGCCGGATATCA
131 CTGAAATTGAAGTAAGAGCAAGATCATCTCCTATCCTCTTGAAATTGAAATAAAGCCGGATATCA
4305292 AGACTTTATCTC
196 AGACTTTATCTC
4305304 TTTGAAGCTA
Statistics
Matches: 192, Mismatches: 15, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
243 192 1.00
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.32
Consensus pattern (243 bp):
ATCATTTCCTATCCTCTTGAAATTGAAGTAAAGTTGAATAACAAGTCTTTATCTCTGAAATTGAA
GTAAGAGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGACAACAAGTCTTTATCT
CTGAAATTGAAGTAAGAGCAAGATCATCTCCTATCCTCTTGAAATTGAAATAAAGCCGGATATCA
AGACTTTATCTCACTGAAATTGAAGTAAGAGCAAGACAGAGCATCAAC
Found at i:4305207 original size:167 final size:165
Alignment explanation
Indices: 4304930--4305249 Score: 568
Period size: 167 Copynumber: 1.9 Consensus size: 165
4304920 TAAGAGCAAG
* *
4304930 ATCATTTCGTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAATTGAA
1 ATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGAATAACAAGTCTTTATCTCTGAAATTGAA
*
4304995 GTAAGAGCAAGATCATTTCCTATCCTCTTGAAATTGAAATAAAGCTGGATATCAAGTCTTTATCT
66 GTAAGAGCAAGATCATTTCCTATCCTCTTGAAATTGAAATAAAGCTGGACATCAAGTCTTTATCT
4305060 CACTGAAATTGAAGTAAGAGCAAGACAGAGCATCAAC
131 --CTGAAATTGAAGTAAGAGCAAGACAGAGCATCAAC
*
4305097 ATCATTTCCTATCCTCTTGAAGTTGAAGTAGAGTTGAATAACAAGTCTTTATCTCTGAAATTGAA
1 ATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGAATAACAAGTCTTTATCTCTGAAATTGAA
* *
4305162 GTAAGAGCAAGATTATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGACATCAAGTCTTTATCT
66 GTAAGAGCAAGATCATTTCCTATCCTCTTGAAATTGAAATAAAGCTGGACATCAAGTCTTTATCT
4305227 CTGAAATTGAAGTAAGAGCAAGA
131 CTGAAATTGAAGTAAGAGCAAGA
4305250 TCATCTCCTA
Statistics
Matches: 147, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
165 23 0.16
167 124 0.84
ACGTcount: A:0.35, C:0.16, G:0.17, T:0.32
Consensus pattern (165 bp):
ATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGAATAACAAGTCTTTATCTCTGAAATTGAA
GTAAGAGCAAGATCATTTCCTATCCTCTTGAAATTGAAATAAAGCTGGACATCAAGTCTTTATCT
CTGAAATTGAAGTAAGAGCAAGACAGAGCATCAAC
Found at i:4305270 original size:319 final size:321
Alignment explanation
Indices: 4304685--4305304 Score: 987
Period size: 319 Copynumber: 1.9 Consensus size: 321
4304675 AAGGACCAAC
* *
4304685 ATCATTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGCCTTCGTCCCTATGAAATT
1 ATCATTTTCCTATCCTCTTGAAATTGAAATAAAGCTGGATAACAAGCCTTCATCCCTATGAAATT
* * *
4304750 GAAGTAAGAGTAAGAAGAAGGACCAACATCATTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGG
66 GAAGTAAGAGCAAGAAGAAGCACCAACATCATTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGA
*
4304815 ATATCAAGTCTTTATCTCTGAAATTGAAGTAAGAGCAAGATCATTTCCTATCCTCTTGAAATTGA
131 ATAACAAGTCTTTATCTCTGAAATTGAAGTAAGAGCAAGATCATTTCCTATCCTCTTGAAATTGA
* * * *
4304880 AGTAAAGTTGGATATCAAGTCTTTATCTCTGAAATTGAAGTAAGAGCAAGATCATTTCGTATCCT
196 AGTAAAGCTGGACATCAAGTCTTTATCTCTGAAATTGAAGTAAGAGCAAGATCATCTCCTATCCT
** *
4304945 CTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAATTGAAGTAAGAGCAAG
261 CTTGAAATTGAAGTAGAGCCGGATAACAAGACTTTATCTCTGAAATTGAAGTAAGAGCAAG
* * * *
4305006 ATCA-TTTCCTATCCTCTTGAAATTGAAATAAAGCTGGATATCAAGTCTTTATCTC-ACTGAAAT
1 ATCATTTTCCTATCCTCTTGAAATTGAAATAAAGCTGGATAACAAGCCTTCATCCCTA-TGAAAT
* * * *
4305069 TGAAGTAAGAGCAAGACAG-AGCATCAACATCA-TTTCCTATCCTCTTGAAGTTGAAGTAGAGTT
65 TGAAGTAAGAGCAAGA-AGAAGCACCAACATCATTTTCCTATCCTCTTGAAATTGAAGTAAAGCT
*
4305132 GAATAACAAGTCTTTATCTCTGAAATTGAAGTAAGAGCAAGATTATTTCCTATCCTCTTGAAATT
129 GAATAACAAGTCTTTATCTCTGAAATTGAAGTAAGAGCAAGATCATTTCCTATCCTCTTGAAATT
4305197 GAAGTAAAGCTGGACATCAAGTCTTTATCTCTGAAATTGAAGTAAGAGCAAGATCATCTCCTATC
194 GAAGTAAAGCTGGACATCAAGTCTTTATCTCTGAAATTGAAGTAAGAGCAAGATCATCTCCTATC
*
4305262 CTCTTGAAATTGAAGTAGAGCCGGATATCAAGACTTTATCTCT
259 CTCTTGAAATTGAAGTAGAGCCGGATAACAAGACTTTATCTCT
4305305 TTGAAGCTAT
Statistics
Matches: 274, Mismatches: 23, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
319 191 0.70
320 77 0.28
321 6 0.02
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.32
Consensus pattern (321 bp):
ATCATTTTCCTATCCTCTTGAAATTGAAATAAAGCTGGATAACAAGCCTTCATCCCTATGAAATT
GAAGTAAGAGCAAGAAGAAGCACCAACATCATTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGA
ATAACAAGTCTTTATCTCTGAAATTGAAGTAAGAGCAAGATCATTTCCTATCCTCTTGAAATTGA
AGTAAAGCTGGACATCAAGTCTTTATCTCTGAAATTGAAGTAAGAGCAAGATCATCTCCTATCCT
CTTGAAATTGAAGTAGAGCCGGATAACAAGACTTTATCTCTGAAATTGAAGTAAGAGCAAG
Found at i:4305600 original size:6 final size:6
Alignment explanation
Indices: 4305581--4305663 Score: 84
Period size: 6 Copynumber: 14.2 Consensus size: 6
4305571 GACTTTATGT
* *
4305581 TTTAAT TTTGAA TTTAAA -TTAAA TTTAAA TTT--A TTTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* *
4305626 TTCAACTA TTTAAA TTT-AT TTTAAA TTTAAA TTTAAA T
1 TTTAA--A TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA T
4305664 CAAATTATGA
Statistics
Matches: 64, Mismatches: 7, Indels: 12
0.77 0.08 0.14
Matches are distributed among these distances:
4 4 0.06
5 9 0.14
6 46 0.72
8 5 0.08
ACGTcount: A:0.43, C:0.02, G:0.01, T:0.53
Consensus pattern (6 bp):
TTTAAA
Found at i:4305668 original size:11 final size:12
Alignment explanation
Indices: 4305599--4305669 Score: 51
Period size: 11 Copynumber: 6.1 Consensus size: 12
4305589 TGAATTTAAA
*
4305599 TTAAATTTAAAT
1 TTAAATTCAAAT
*
4305611 TT--ATTTAAAT
1 TTAAATTCAAAT
4305621 TTAAATTCAACTAT
1 TTAAATTCAA--AT
* *
4305635 TTAAATT-TATT
1 TTAAATTCAAAT
*
4305646 TTAAATTTAAAT
1 TTAAATTCAAAT
4305658 TTAAA-TCAAAT
1 TTAAATTCAAAT
4305669 T
1 T
4305670 ATGAAAATAT
Statistics
Matches: 48, Mismatches: 6, Indels: 11
0.74 0.09 0.17
Matches are distributed among these distances:
10 10 0.21
11 14 0.29
12 14 0.29
13 1 0.02
14 9 0.19
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (12 bp):
TTAAATTCAAAT
Found at i:4307387 original size:59 final size:59
Alignment explanation
Indices: 4307232--4307485 Score: 339
Period size: 59 Copynumber: 4.3 Consensus size: 59
4307222 CTTGGACTAT
* * *
4307232 CCAAAAATTACCATTTTACCCTCGAACTTTTCAAAA-TCATATTTTTAACCCCGATTTCA
1 CCAAAAATTACCATTTTACCCTCAAACTTTCCAAAATTC-CATTTTTAACCCCGATTTCA
* *
4307291 CCAAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATCTTTAACCCCGATTTCA
1 CC-AAAAATTACCATTTTACCCTCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA
** * * *
4307351 CCAAAAATTACCATTTTACCCTTGAACTTTCTAAAATTCTATTTTTAACCTCGATTTCA
1 CCAAAAATTACCATTTTACCCTCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA
* * * *
4307410 CCAAAAATTACTATTTTACCCTCAAATTTTCCAAAATTCCCTTTTTGACCCCGATTTCA
1 CCAAAAATTACCATTTTACCCTCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA
* *
4307469 TCGAAAATTACCATTTT
1 CCAAAAATTACCATTTT
4307486 GCCCCCGCGA
Statistics
Matches: 169, Mismatches: 24, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
59 116 0.69
60 51 0.30
61 2 0.01
ACGTcount: A:0.33, C:0.28, G:0.03, T:0.36
Consensus pattern (59 bp):
CCAAAAATTACCATTTTACCCTCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA
Found at i:4307427 original size:30 final size:30
Alignment explanation
Indices: 4307274--4307485 Score: 124
Period size: 29 Copynumber: 7.1 Consensus size: 30
4307264 AAAATCATAT
4307274 TTTTAACCCCGATTTCACCAAAAAATTACCA
1 TTTTAACCCCGATTTCACC-AAAAATTACCA
* *
4307305 TTTTACCCCCAAACTTT--CC-AAAATT-CCA
1 TTTTAACCCC-GA-TTTCACCAAAAATTACCA
4307333 TCTTTAACCCCGATTTCACCAAAAATTACCA
1 T-TTTAACCCCGATTTCACCAAAAATTACCA
* * *
4307364 TTTT-ACCCTTGAACTTT---CTAAAATT-CTA
1 TTTTAACCC-CG-A-TTTCACCAAAAATTACCA
* *
4307392 TTTTTAACCTCGATTTCACCAAAAATTACTA
1 -TTTTAACCCCGATTTCACCAAAAATTACCA
* * * *
4307423 TTTT-ACCCTCAAATTT-TCC-AAAATTCCCT
1 TTTTAACCC-C-GATTTCACCAAAAATTACCA
* * *
4307452 TTTTGACCCCGATTTCATCGAAAATTACCA
1 TTTTAACCCCGATTTCACCAAAAATTACCA
4307482 TTTT
1 TTTT
4307486 GCCCCCGCGA
Statistics
Matches: 139, Mismatches: 21, Indels: 43
0.68 0.10 0.21
Matches are distributed among these distances:
27 6 0.04
28 12 0.09
29 48 0.35
30 43 0.31
31 23 0.17
32 4 0.03
33 3 0.02
ACGTcount: A:0.32, C:0.28, G:0.03, T:0.37
Consensus pattern (30 bp):
TTTTAACCCCGATTTCACCAAAAATTACCA
Found at i:4307521 original size:118 final size:119
Alignment explanation
Indices: 4307232--4307514 Score: 313
Period size: 118 Copynumber: 2.4 Consensus size: 119
4307222 CTTGGACTAT
* * * * *
4307232 CCAAAAATTACCATTTTACCCTCGAACTTTTC-AAAA-TCATATTTTTAACCCCGATTTCACCAA
1 CCAAAAATTACCATTTTACCCCCGAAC-GTCCAAAAATTC-CATTTTTAACCTCGATTTCACCAA
4307295 AAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATCTTTAACCCCGATTTCA
64 AAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATCTTTAACCCCGATTTCA
** * * * *
4307351 CCAAAAATTACCATTTTACCCTTGAACTTTCTAAAATTCTATTTTTAACCTCGATTTCACC-AAA
1 CCAAAAATTACCATTTTACCCCCGAACGTCCAAAAATTCCATTTTTAACCTCGATTTCACCAAAA
* * * * * *
4307415 AATTACTATTTTACCCTCAAATTTTCCAAAATTCCCTTTTTGACCCCGATTTCA
66 AATTACCATTTTACCCCCAAACTTTCCAAAATTCCATCTTTAACCCCGATTTCA
* * * *
4307469 TCGAAAATTACCATTTTGCCCCCGCGA-GTCCAAAAATTACCATTTT
1 CCAAAAATTACCATTTTACCCCCG-AACGTCCAAAAATT-CCATTTT
4307515 GCCCTCGGAT
Statistics
Matches: 142, Mismatches: 18, Indels: 8
0.85 0.11 0.05
Matches are distributed among these distances:
118 82 0.58
119 58 0.41
120 2 0.01
ACGTcount: A:0.33, C:0.28, G:0.04, T:0.35
Consensus pattern (119 bp):
CCAAAAATTACCATTTTACCCCCGAACGTCCAAAAATTCCATTTTTAACCTCGATTTCACCAAAA
AATTACCATTTTACCCCCAAACTTTCCAAAATTCCATCTTTAACCCCGATTTCA
Found at i:4307529 original size:29 final size:29
Alignment explanation
Indices: 4307472--4307532 Score: 88
Period size: 29 Copynumber: 2.1 Consensus size: 29
4307462 GATTTCATCG
*
4307472 AAAATTACCATTTTGCCCCCGCGAGTCCA
1 AAAATTACCATTTTGCCCCCGCGAATCCA
*
4307501 AAAATTACCATTTTGCCCTCG-GATATCCA
1 AAAATTACCATTTTGCCCCCGCGA-ATCCA
4307530 AAA
1 AAA
4307533 GTCCCGTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 2 0.07
29 27 0.93
ACGTcount: A:0.33, C:0.30, G:0.11, T:0.26
Consensus pattern (29 bp):
AAAATTACCATTTTGCCCCCGCGAATCCA
Found at i:4312858 original size:16 final size:16
Alignment explanation
Indices: 4312827--4312856 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
4312817 CCCATAATTG
4312827 TATTTAAGATAATTTA
1 TATTTAAGATAATTTA
4312843 TATTTAA-ATAATTT
1 TATTTAAGATAATTT
4312857 TAATATGTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.53
Consensus pattern (16 bp):
TATTTAAGATAATTTA
Found at i:4314686 original size:18 final size:19
Alignment explanation
Indices: 4314654--4314689 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
4314644 ATATAAATTA
4314654 AAAAGTCCAACTACAAAAG
1 AAAAGTCCAACTACAAAAG
*
4314673 AAAA-TCCAATTACAAAA
1 AAAAGTCCAACTACAAAA
4314690 TATAGGCCCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.61, C:0.19, G:0.06, T:0.14
Consensus pattern (19 bp):
AAAAGTCCAACTACAAAAG
Found at i:4316560 original size:59 final size:56
Alignment explanation
Indices: 4316514--4316914 Score: 394
Period size: 59 Copynumber: 6.9 Consensus size: 56
4316504 CTCGAAACTT
* * *
4316514 CCAAAAATTACTATTTTGA-CCTCGAACTTTCCAAAATTCCATTTTTGACCCTAATTTCA
1 CCAAAAATTACCATTTT-ACCCTCGAACTTTCCAAAATTCCA-TTTTAACCC-GATTT-A
* *
4316573 CCAAAAATTACCATTTTGCCCCCGAACTTTCCAAAATTCCATTTTTAACCCTGATTTCA
1 CCAAAAATTACCATTTTACCCTCGAACTTTCCAAAATTCCA-TTTTAACCC-GATTT-A
* * *
4316632 CCAAAAATTACCATTTTACACTCAAACTTTCCAAAATTTCA--TTAACCTCGATTTCA
1 CCAAAAATTACCATTTTACCCTCGAACTTTCCAAAATTCCATTTTAACC-CGATTT-A
* *
4316688 CCAAAAATTACCATTTTACCCCCGAACTTTCCAAAATCCCATTTTTAACCTCGATTTCA
1 CCAAAAATTACCATTTTACCCTCGAACTTTCCAAAATTCCA-TTTTAACC-CGATTT-A
** * * *
4316747 CCAAAAATTACCATTTTACCCTTAAACTTTCTAAAATCCCATTTTAACCCTAATTTTA
1 CCAAAAATTACCATTTTACCCTCGAACTTTCCAAAATTCCATTTTAACCC-GA-TTTA
* * *** *
4316805 CCAAAAATTATCATTTTACCCTCGAACTTTCTAAAATTTTGTTATTAACCTTGATTTTA
1 CCAAAAATTACCATTTTACCCTCGAACTTTCCAAAATTCCATT-TTAACC-CGA-TTTA
* * * *
4316864 CCAAAAAATACCCTTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCC
1 CCAAAAATTACCATTTTACCCTCGAACTTTCCAAAATTCCA-TTTTAACCC
4316915 TAAATTTTCC
Statistics
Matches: 293, Mismatches: 39, Indels: 21
0.83 0.11 0.06
Matches are distributed among these distances:
56 49 0.17
57 2 0.01
58 46 0.16
59 194 0.66
60 2 0.01
ACGTcount: A:0.34, C:0.28, G:0.03, T:0.36
Consensus pattern (56 bp):
CCAAAAATTACCATTTTACCCTCGAACTTTCCAAAATTCCATTTTAACCCGATTTA
Found at i:4316590 original size:30 final size:28
Alignment explanation
Indices: 4316484--4316648 Score: 126
Period size: 29 Copynumber: 5.6 Consensus size: 28
4316474 CCCTAAACTA
*
4316484 TCCAAAAATTA-CATTTTGACCTCGAAACT
1 TCCAAAAATTACCATTTTGACC-CG-AATT
*
4316513 TCCAAAAATTACTATTTTGACCTCGAACTT
1 TCCAAAAATTACCATTTTGACC-CGAA-TT
*
4316543 TCC-AAAATT-CCATTTTTGACCCTAATT
1 TCCAAAAATTACCA-TTTTGACCCGAATT
*
4316570 TCACCAAAAATTACCATTTTGCCCCCGAACTT
1 T--CCAAAAATTACCATTTTG-ACCCGAA-TT
*
4316602 TCC-AAAATT-CCATTTTTAACCCTG-ATT
1 TCCAAAAATTACCA-TTTTGACCC-GAATT
4316629 TCACCAAAAATTACCATTTT
1 T--CCAAAAATTACCATTTT
4316649 ACACTCAAAC
Statistics
Matches: 113, Mismatches: 8, Indels: 29
0.75 0.05 0.19
Matches are distributed among these distances:
27 6 0.05
28 12 0.11
29 42 0.37
30 39 0.35
31 11 0.10
32 3 0.03
ACGTcount: A:0.33, C:0.27, G:0.05, T:0.35
Consensus pattern (28 bp):
TCCAAAAATTACCATTTTGACCCGAATT
Found at i:4316750 original size:29 final size:29
Alignment explanation
Indices: 4316517--4316764 Score: 107
Period size: 29 Copynumber: 8.5 Consensus size: 29
4316507 GAAACTTCCA
* *
4316517 AAAATTACTATTTTGACCTCGAACTTT--CC
1 AAAATTACCATTTTAACCTCG-A-TTTCACC
* *
4316546 AAAATT-CCATTTTTGACC-CTAATTTCACC
1 AAAATTACCA-TTTTAACCTC-GATTTCACC
** *
4316575 AAAAATTACCATTTTGCCCCCGAACTTT--CC
1 -AAAATTACCATTTTAACCTCG-A-TTTCACC
4316605 AAAATT-CCATTTTTAACC-CTGATTTCACC
1 AAAATTACCA-TTTTAACCTC-GATTTCACC
*
4316634 AAAAATTACCATTTT-ACACTCAAACTTT--CC
1 -AAAATTACCATTTTAAC-CTC-GA-TTTCACC
*
4316664 AAAATT-TCA--TTAACCTCGATTTCACC
1 AAAATTACCATTTTAACCTCGATTTCACC
* *
4316690 AAAAATTACCATTTTACCCCCGAACTTT--CC
1 -AAAATTACCATTTTAACCTCG-A-TTTCACC
*
4316720 AAAA-TCCCATTTTTAACCTCGATTTCACC
1 AAAATTACCA-TTTTAACCTCGATTTCACC
4316749 AAAAATTACCATTTTA
1 -AAAATTACCATTTTA
4316765 CCCTTAAACT
Statistics
Matches: 170, Mismatches: 17, Indels: 63
0.68 0.07 0.25
Matches are distributed among these distances:
24 3 0.02
25 1 0.01
26 7 0.04
27 17 0.10
28 18 0.11
29 54 0.32
30 46 0.27
31 15 0.09
32 9 0.05
ACGTcount: A:0.34, C:0.28, G:0.04, T:0.35
Consensus pattern (29 bp):
AAAATTACCATTTTAACCTCGATTTCACC
Found at i:4316840 original size:29 final size:27
Alignment explanation
Indices: 4316750--4316842 Score: 80
Period size: 29 Copynumber: 3.2 Consensus size: 27
4316740 GATTTCACCA
4316750 AAAATTACCATTTTACCCTTAAACTTTCT
1 AAAATTACCATTTTACCC-T-AACTTTCT
* * *
4316779 AAAA-TCCCATTTTAACCCTAATTTTACCA
1 AAAATTACCATTTT-ACCCTAACTTT--CT
*
4316808 AAAATTATCATTTTACCCTCGAACTTTCT
1 AAAATTACCATTTTACCCT--AACTTTCT
4316837 AAAATT
1 AAAATT
4316843 TTGTTATTAA
Statistics
Matches: 51, Mismatches: 7, Indels: 12
0.73 0.10 0.17
Matches are distributed among these distances:
27 5 0.10
28 9 0.18
29 25 0.49
30 7 0.14
31 5 0.10
ACGTcount: A:0.37, C:0.24, G:0.01, T:0.39
Consensus pattern (27 bp):
AAAATTACCATTTTACCCTAACTTTCT
Found at i:4316853 original size:117 final size:119
Alignment explanation
Indices: 4316514--4316938 Score: 514
Period size: 115 Copynumber: 3.6 Consensus size: 119
4316504 CTCGAAACTT
* * *
4316514 CCAAAAATTACTATTTTGA-CCTCGAACTTTCCAAAATTCCATTTTTGACCCT-AATTTCACCAA
1 CCAAAAATTACCATTTT-ACCCTCAAACTTTCCAAAATTCCATTTTTAACCCTAAATTTCACCAA
*
4316577 AAATTACCATTTTGCCCCCGAACTTTCCAAAATTCCATTTTTAACC-CTGATTTCA
65 AAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCTC-GATTTCA
* * **
4316632 CCAAAAATTACCATTTTACACTCAAACTTTCCAAAATTTCA---TTAA-CCTCGATTTCACCAAA
1 CCAAAAATTACCATTTTACCCTCAAACTTTCCAAAATTCCATTTTTAACCCTAAATTTCACCAAA
*
4316693 AATTACCATTTTACCCCCGAACTTTCCAAAATCCCATTTTTAACCTCGATTTCA
66 AATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCTCGATTTCA
* * * *
4316747 CCAAAAATTACCATTTTACCCTTAAACTTTCTAAAATCCCA-TTTTAACCCT-AATTTTACCAAA
1 CCAAAAATTACCATTTTACCCTCAAACTTTCCAAAATTCCATTTTTAACCCTAAATTTCACCAAA
* * * *** * * *
4316810 AATTATCATTTTACCCTCGAACTTTCTAAAATTTTGTTATTAACCTTGATTTTA
66 AATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCTCGATTTCA
* * *
4316864 CCAAAAAATACCCTTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCTAAATTTTC-CC-A
1 CCAAAAATTACCATTTTACCCTCAAACTTTCCAAAATTCCATTTTTAACCCTAAA-TTTCACCAA
4316927 AAATTA-CATTTT
65 AAATTACCATTTT
4316939 CATCATCGAG
Statistics
Matches: 266, Mismatches: 32, Indels: 19
0.84 0.10 0.06
Matches are distributed among these distances:
114 3 0.01
115 100 0.38
116 1 0.00
117 100 0.38
118 55 0.21
119 4 0.02
120 3 0.01
ACGTcount: A:0.34, C:0.27, G:0.03, T:0.36
Consensus pattern (119 bp):
CCAAAAATTACCATTTTACCCTCAAACTTTCCAAAATTCCATTTTTAACCCTAAATTTCACCAAA
AATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCTCGATTTCA
Found at i:4316910 original size:29 final size:30
Alignment explanation
Indices: 4316877--4316938 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 30
4316867 AAAAATACCC
* *
4316877 TTTTACCCCCAAACTTT-CCAAAATTCCAT
1 TTTTAACCCCAAACTTTCCCAAAATTACAT
* *
4316906 TTTTAACCCTAAATTTTCCCAAAATTACAT
1 TTTTAACCCCAAACTTTCCCAAAATTACAT
4316936 TTT
1 TTT
4316939 CATCATCGAG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
29 14 0.50
30 14 0.50
ACGTcount: A:0.32, C:0.27, G:0.00, T:0.40
Consensus pattern (30 bp):
TTTTAACCCCAAACTTTCCCAAAATTACAT
Found at i:4316958 original size:117 final size:116
Alignment explanation
Indices: 4316538--4316959 Score: 318
Period size: 117 Copynumber: 3.6 Consensus size: 116
4316528 TTTGACCTCG
* * * * * ** *
4316538 AACTTTCCAAAATTCCATTTTTGACCCTAATTTCACCAAAAATTACCATTTTGCCCCCGAACTTT
1 AACTTTCCAAAATCCCA-TTTTAACCCTAATTTTACCAAAAATTATCATTTTACCATCGAAC-GT
* *** * * * *
4316603 CCAAAATTCCATTTTTAACC-CTGATTTCACCAAAAATTACCATTTTACACTCA
64 CAAAAATTTTGTTATTAACCTC-GATTTCACCAAAAAATACCATTTTACCCCCA
** * * * ** *
4316656 AACTTTCCAAAATTTCA--TTAA-CCTCGATTTCACCAAAAATTACCATTTTACCCCCGAACTTT
1 AACTTTCCAAAATCCCATTTTAACCCT-AATTTTACCAAAAATTATCATTTTACCATCGAAC-GT
* **** * * **
4316718 CCAAAATCCCATTTTTAACCTCGATTTCACCAAAAATTACCATTTTACCCTTA
64 CAAAAATTTTGTTATTAACCTCGATTTCACCAAAAAATACCATTTTACCCCCA
* * *
4316771 AACTTTCTAAAATCCCATTTTAACCCTAATTTTACCAAAAATTATCATTTTACCCTCGAACTTTC
1 AACTTTCCAAAATCCCATTTTAACCCTAATTTTACCAAAAATTATCATTTTACCATCGAAC-GTC
* * * *
4316836 TAAAATTTTGTTATTAACCTTGATTTTACCAAAAAATACCCTTTTACCCCCA
65 AAAAATTTTGTTATTAACCTCGATTTCACCAAAAAATACCATTTTACCCCCA
* * *
4316888 AACTTTCCAAAATTCCATTTTTAACCCTAAATTTT-CCCAAAATTA-CATTTTCATCATCGAGA-
1 AACTTTCCAAAATCCCA-TTTTAACCCT-AATTTTACCAAAAATTATCATTTT-ACCATCGA-AC
4316950 GTCAAAAATT
62 GTCAAAAATT
4316960 ACCATTTTGC
Statistics
Matches: 262, Mismatches: 33, Indels: 19
0.83 0.11 0.06
Matches are distributed among these distances:
114 3 0.01
115 100 0.38
116 1 0.00
117 107 0.41
118 44 0.17
119 7 0.03
ACGTcount: A:0.34, C:0.27, G:0.03, T:0.36
Consensus pattern (116 bp):
AACTTTCCAAAATCCCATTTTAACCCTAATTTTACCAAAAATTATCATTTTACCATCGAACGTCA
AAAATTTTGTTATTAACCTCGATTTCACCAAAAAATACCATTTTACCCCCA
Found at i:4329357 original size:162 final size:162
Alignment explanation
Indices: 4329090--4329408 Score: 566
Period size: 162 Copynumber: 2.0 Consensus size: 162
4329080 AGTAGTTCAA
* * * *
4329090 CAAAACATTAAGGCGGTCATCTTCCTGATGAGATACAGAGAAGAATACCAACTCAGCGCTCAACA
1 CAAAACAGTAAGGCGGTAATCTTCCTGATGAGATACAGAGAAGAACACCAACTCAACGCTCAACA
4329155 CGAGCCAATCTTCGAACCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAAATGG
66 CGAGCCAATCTTCGAACCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAAATGG
*
4329220 TTAGCTTCCTGATGAGATACAGAGAAGCGAAT
131 TTAGCTTCCCGATGAGATACAGAGAAGCGAAT
* *
4329252 CAAAACAGTGAGGTGGTAATCTTCCTGATGAGATACAGAGAAGAACACCAACTCAACGCTCAACA
1 CAAAACAGTAAGGCGGTAATCTTCCTGATGAGATACAGAGAAGAACACCAACTCAACGCTCAACA
*
4329317 TGAGCCAATCTTCGAACCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAAATGG
66 CGAGCCAATCTTCGAACCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAAATGG
4329382 TTAGCTTCCCGATGAGATACAGAGAAG
131 TTAGCTTCCCGATGAGATACAGAGAAG
4329409 TGGACCAGAT
Statistics
Matches: 149, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
162 149 1.00
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.19
Consensus pattern (162 bp):
CAAAACAGTAAGGCGGTAATCTTCCTGATGAGATACAGAGAAGAACACCAACTCAACGCTCAACA
CGAGCCAATCTTCGAACCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAAATGG
TTAGCTTCCCGATGAGATACAGAGAAGCGAAT
Found at i:4329566 original size:200 final size:199
Alignment explanation
Indices: 4329224--4329702 Score: 724
Period size: 200 Copynumber: 2.4 Consensus size: 199
4329214 AAATGGTTAG
* * * *
4329224 CTTCCTGATGAGATACAGAGAAGCGAATCAAAACAGTGAGGTGGTAATCTTCCTGATGAGATACA
1 CTTCCTGAGGAGATCCAGAGAAGCGAATCAAAACAGTGAGGCGGTCATCTTCCTGATGAGATACA
* *
4329289 GAGAAGAACACCAACTCAACGCTCAACATGAGCCAATCTTCGAACCCAGCTTCCTGATGAGACAC
66 GAGAAGAACACCAACTCAACGCTCAACACGAGCAAATCTTCGAACCCAGCTTCCTGATGAGACAC
* * * *
4329354 TGAGAAGCAGGTCGAAGCAATAAAATGGTTAGCTTCCCGATGAGATACAGAGAAGTGGACCAGAT
131 TGAGAAGCAGGTCGAAGCAACAAAAAGGTTAGCTTCCCGATGAGACACAGAGAAGTGGACCAAAT
4329419 TCGT
196 TCGT
* *
4329423 CTTCCTGAGGAGATCCAGAGAAGCGAATCAAAACAAGCGAGGCGATCATCTTCCTGATGAGATAC
1 CTTCCTGAGGAGATCCAGAGAAGCGAATCAAAAC-AGTGAGGCGGTCATCTTCCTGATGAGATAC
* * *
4329488 AGAGAAGAATACCAACTCAACGCTCAACGCGAGCAAATCTTCGAACCCAGCTTCCTGATGAGATA
65 AGAGAAGAACACCAACTCAACGCTCAACACGAGCAAATCTTCGAACCCAGCTTCCTGATGAGACA
* *
4329553 CTGAGAAGCAGGTCGAAGCAACAAAAAGGTTAGTTTCCTGATGAGACACAGAGAAGTGGACCAAA
130 CTGAGAAGCAGGTCGAAGCAACAAAAAGGTTAGCTTCCCGATGAGACACAGAGAAGTGGACCAAA
4329618 TTCGT
195 TTCGT
* * * *
4329623 CTTCCTGAGGAGATCTAGAGAAGCGAATTAAAACAGATGATCGCGGTCATCTTCCTGATGAGACA
1 CTTCCTGAGGAGATCCAGAGAAGCGAATCAAAACAG-TGA-GGCGGTCATCTTCCTGATGAGATA
* *
4329688 CAGAGAGGAAGACCA
64 CAGAGAAGAACACCA
4329703 GGTCAATGAA
Statistics
Matches: 252, Mismatches: 25, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
199 34 0.13
200 184 0.73
201 34 0.13
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (199 bp):
CTTCCTGAGGAGATCCAGAGAAGCGAATCAAAACAGTGAGGCGGTCATCTTCCTGATGAGATACA
GAGAAGAACACCAACTCAACGCTCAACACGAGCAAATCTTCGAACCCAGCTTCCTGATGAGACAC
TGAGAAGCAGGTCGAAGCAACAAAAAGGTTAGCTTCCCGATGAGACACAGAGAAGTGGACCAAAT
TCGT
Found at i:4330520 original size:24 final size:26
Alignment explanation
Indices: 4330493--4330541 Score: 75
Period size: 24 Copynumber: 2.0 Consensus size: 26
4330483 ACAAAGGGTT
4330493 ACGAACCCAATTC-TGG-AAATCAAC
1 ACGAACCCAATTCTTGGAAAATCAAC
*
4330517 ACGAACCCAGTTCTTGGAAAATCAA
1 ACGAACCCAATTCTTGGAAAATCAA
4330542 TAAACAGATC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 12 0.55
25 3 0.14
26 7 0.32
ACGTcount: A:0.41, C:0.27, G:0.14, T:0.18
Consensus pattern (26 bp):
ACGAACCCAATTCTTGGAAAATCAAC
Found at i:4330926 original size:13 final size:13
Alignment explanation
Indices: 4330910--4330947 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
4330900 TATTAATATT
4330910 TAATAATAATAAC
1 TAATAATAATAAC
*
4330923 TAATAATAA-ATAT
1 TAATAATAATA-AC
4330936 TAATAATAATAA
1 TAATAATAATAA
4330948 ATAAATATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
12 1 0.05
13 20 0.91
14 1 0.05
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (13 bp):
TAATAATAATAAC
Found at i:4330950 original size:20 final size:20
Alignment explanation
Indices: 4330911--4330962 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 20
4330901 ATTAATATTT
*
4330911 AATAATAATAACTAATAATA
1 AATATTAATAACTAATAATA
4330931 AATATTAATAA-TAATAAATA
1 AATATTAATAACTAAT-AATA
4330951 AATATTTAATAA
1 AATA-TTAATAA
4330963 AAAAAGAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 4 0.14
20 18 0.62
21 7 0.24
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (20 bp):
AATATTAATAACTAATAATA
Found at i:4332057 original size:29 final size:30
Alignment explanation
Indices: 4332001--4332242 Score: 122
Period size: 29 Copynumber: 8.2 Consensus size: 30
4331991 CCTTAAATTG
* *
4332001 TCCAGAAATTA-CATTTTGACCTCGAAAC-T
1 TCCAAAAATTACCATTTTGACC-CCAAACTT
4332030 TCCAAAAATTACCATTTT-ACCGCCAAACTT
1 TCCAAAAATTACCATTTTGACC-CCAAACTT
* *
4332060 TCC-AAAATT-CTATTTTTGACCCC-GA-TT
1 TCCAAAAATTACCA-TTTTGACCCCAAACTT
* *
4332087 TCACTAAAAATTACCATTTT-ACGCTCGAACTT
1 TC-C-AAAAATTACCATTTTGAC-CCCAAACTT
* * *
4332119 TCC-AAAATT-CCATTTTTAACCTC-AATTT
1 TCCAAAAATTACCA-TTTTGACCCCAAACTT
4332147 TACCAAAAATTACCATTTT-ACCCCTAAACTT
1 T-CCAAAAATTACCATTTTGACCCC-AAACTT
* * * *
4332178 TCC-AAACTT-CCATTTTTAACCTC-GA-TT
1 TCCAAAAATTACCA-TTTTGACCCCAAACTT
* *
4332205 TCCCCAAAAATTACCATTTT-ACCTCGAACTT
1 T--CCAAAAATTACCATTTTGACCCCAAACTT
4332236 TCCAAAA
1 TCCAAAA
4332243 TCCCATTTTT
Statistics
Matches: 171, Mismatches: 16, Indels: 52
0.72 0.07 0.22
Matches are distributed among these distances:
27 7 0.04
28 16 0.09
29 73 0.43
30 53 0.31
31 18 0.11
32 4 0.02
ACGTcount: A:0.33, C:0.28, G:0.04, T:0.35
Consensus pattern (30 bp):
TCCAAAAATTACCATTTTGACCCCAAACTT
Found at i:4332097 original size:59 final size:59
Alignment explanation
Indices: 4332031--4332434 Score: 499
Period size: 59 Copynumber: 6.9 Consensus size: 59
4332021 CTCGAAACTT
* *
4332031 CCAAAAATTACCATTTTACCGC-CAAACTTTCCAAAATTCTATTTTTGACCCCGATTTCA
1 CCAAAAATTACCATTTTACC-CTCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA
* * * * * *
4332090 CTAAAAATTACCATTTTACGCTCGAACTTTCCAAAATTCCATTTTTAACCTCAATTTTA
1 CCAAAAATTACCATTTTACCCTCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA
* * *
4332149 CCAAAAATTACCATTTTACCC-CTAAACTTTCCAAACTTCCATTTTTAACCTCGATTTCC
1 CCAAAAATTACCATTTTACCCTC-AAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA
* * * *
4332208 CCAAAAATTACCATTTTA-CCTCGAACTTTCCAAAATCCCATTTTTAATCTCGATTTCA
1 CCAAAAATTACCATTTTACCCTCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA
* ** *
4332266 TCAAAAATTACCATTTTACCCTCAAACTTTTTAAAATCCCATTTTTAACCCCGATTTCA
1 CCAAAAATTACCATTTTACCCTCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA
* * * ** *
4332325 CCAAAAATTACTATTTTACCCTTAAACTTTCCAAAATTTCATTTTTAACCCTAATTTCT
1 CCAAAAATTACCATTTTACCCTCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA
** * * *
4332384 TTAAAAATTATCATTTTACCCTCAAACTTTCCAAAATTTCATTCTTAACCC
1 CCAAAAATTACCATTTTACCCTCAAACTTTCCAAAATTCCATTTTTAACCC
4332435 TAAATTTTCC
Statistics
Matches: 299, Mismatches: 42, Indels: 8
0.86 0.12 0.02
Matches are distributed among these distances:
58 52 0.17
59 247 0.83
ACGTcount: A:0.33, C:0.27, G:0.02, T:0.38
Consensus pattern (59 bp):
CCAAAAATTACCATTTTACCCTCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA
Found at i:4332259 original size:29 final size:29
Alignment explanation
Indices: 4332093--4332315 Score: 119
Period size: 29 Copynumber: 7.6 Consensus size: 29
4332083 GATTTCACTA
4332093 AAAATTACCA-TTTT-ACGCTCGAACTTTCC
1 AAAA-TACCATTTTTAAC-CTCGAACTTTCC
* *
4332122 AAAATTCCATTTTTAACCTC-AATTTTACC
1 AAAATACCATTTTTAACCTCGAACTTT-CC
* *
4332151 AAAAATTACCA-TTTT-ACCCCTAAACTTTCC
1 -AAAA-TACCATTTTTAACCTC-GAACTTTCC
* *
4332181 AAACTTCCATTTTTAACCTCG-A-TTTCCCC
1 AAAATACCATTTTTAACCTCGAACTTT--CC
4332210 AAAAATTACCA-TTTT-ACCTCGAACTTTCC
1 -AAAA-TACCATTTTTAACCTCGAACTTTCC
* *
4332239 AAAATCCCATTTTTAATCTCG-A-TTTCATC
1 AAAATACCATTTTTAACCTCGAACTTTC--C
* * **
4332268 AAAAATTACCA-TTTTACCCTCAAACTTTTT
1 -AAAA-TACCATTTTTAACCTCGAACTTTCC
*
4332298 AAAATCCCATTTTTAACC
1 AAAATACCATTTTTAACC
4332316 CCGATTTCAC
Statistics
Matches: 149, Mismatches: 21, Indels: 48
0.68 0.10 0.22
Matches are distributed among these distances:
27 11 0.07
28 27 0.18
29 51 0.34
30 36 0.24
31 21 0.14
32 3 0.02
ACGTcount: A:0.33, C:0.27, G:0.02, T:0.37
Consensus pattern (29 bp):
AAAATACCATTTTTAACCTCGAACTTTCC
Found at i:4332314 original size:176 final size:176
Alignment explanation
Indices: 4332031--4332434 Score: 515
Period size: 176 Copynumber: 2.3 Consensus size: 176
4332021 CTCGAAACTT
* * * *
4332031 CCAAAAATTACCATTTTACCGCCAAACTTTCCAAAATTCTATTTTTGACCCCGATTTCACTAAAA
1 CCAAAAATTACCATTTTACC-TCAAACTTTCCAAAATCCCATTTTTAACCCCGATTTCACTAAAA
* * * * *
4332096 ATTACCATTTTACGCTCGAACTTTCCAAAATTCCATTTTTAACCTCAATTTTACCAAAAATTACC
65 ATTACCATTTTACCCTCAAACTTTCCAAAATCCCATTTTTAACCCCAATTTCACCAAAAATTACC
* *
4332161 ATTTTACCCCTAAACTTTCCAAACTTCCATTTTTAA-CCTCGATTTCC
130 ATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCT-AATTTCC
* * *
4332208 CCAAAAATTACCATTTTACCTCGAACTTTCCAAAATCCCATTTTTAATCTCGATTTCA-TCAAAA
1 CCAAAAATTACCATTTTACCTCAAACTTTCCAAAATCCCATTTTTAACCCCGATTTCACT-AAAA
** * *
4332272 ATTACCATTTTACCCTCAAACTTTTTAAAATCCCATTTTTAACCCCGATTTCACCAAAAATTACT
65 ATTACCATTTTACCCTCAAACTTTCCAAAATCCCATTTTTAACCCCAATTTCACCAAAAATTACC
* * *
4332337 ATTTTACCCTTAAACTTTCCAAAATTTCATTTTTAACCCTAATTTCT
130 ATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCTAATTTCC
** * ** *
4332384 TTAAAAATTATCATTTTACCCTCAAACTTTCCAAAATTTCATTCTTAACCC
1 CCAAAAATTACCATTTTA-CCTCAAACTTTCCAAAATCCCATTTTTAACCC
4332435 TAAATTTTCC
Statistics
Matches: 194, Mismatches: 30, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
175 1 0.01
176 144 0.74
177 49 0.25
ACGTcount: A:0.33, C:0.27, G:0.02, T:0.38
Consensus pattern (176 bp):
CCAAAAATTACCATTTTACCTCAAACTTTCCAAAATCCCATTTTTAACCCCGATTTCACTAAAAA
TTACCATTTTACCCTCAAACTTTCCAAAATCCCATTTTTAACCCCAATTTCACCAAAAATTACCA
TTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCTAATTTCC
Found at i:4332359 original size:30 final size:30
Alignment explanation
Indices: 4332325--4332419 Score: 76
Period size: 30 Copynumber: 3.2 Consensus size: 30
4332315 CCCGATTTCA
4332325 CCAAAAATTACTATTTTACCCTTAAACTTT
1 CCAAAAATTACTATTTTACCCTTAAACTTT
*
4332355 CC-AAAATTTC-ATTTTTAACCC-T-AA-TTT
1 CCAAAAATTACTA-TTTT-ACCCTTAAACTTT
* *
4332382 CTTTAAAAATTA-TCATTTTACCCTCAAACTTT
1 C--CAAAAATTACT-ATTTTACCCTTAAACTTT
4332414 CCAAAA
1 CCAAAA
4332420 TTTCATTCTT
Statistics
Matches: 50, Mismatches: 5, Indels: 20
0.67 0.07 0.27
Matches are distributed among these distances:
27 4 0.08
28 3 0.06
29 16 0.32
30 20 0.40
31 3 0.06
32 4 0.08
ACGTcount: A:0.37, C:0.23, G:0.00, T:0.40
Consensus pattern (30 bp):
CCAAAAATTACTATTTTACCCTTAAACTTT
Found at i:4332443 original size:29 final size:28
Alignment explanation
Indices: 4332328--4332444 Score: 105
Period size: 29 Copynumber: 4.0 Consensus size: 28
4332318 GATTTCACCA
*
4332328 AAAATTACTATTTT-ACCCTTAAACTTTCC
1 AAAATTTC-ATTTTAACCC-TAAACTTTCC
* *
4332357 AAAATTTCATTTTTAACCCTAATTTCTTT-A
1 AAAATTTCA-TTTTAACCCTAA--ACTTTCC
4332387 AAAATTATCATTTT-ACCCTCAAACTTTCC
1 AAAATT-TCATTTTAACCCT-AAACTTTCC
*
4332416 AAAATTTCATTCTTAACCCTAAATTTTCC
1 AAAATTTCATT-TTAACCCTAAACTTTCC
4332445 CTAAATTACA
Statistics
Matches: 73, Mismatches: 6, Indels: 18
0.75 0.06 0.19
Matches are distributed among these distances:
28 10 0.14
29 35 0.48
30 21 0.29
31 7 0.10
ACGTcount: A:0.34, C:0.23, G:0.00, T:0.43
Consensus pattern (28 bp):
AAAATTTCATTTTAACCCTAAACTTTCC
Found at i:4332451 original size:30 final size:28
Alignment explanation
Indices: 4332337--4332457 Score: 72
Period size: 30 Copynumber: 4.1 Consensus size: 28
4332327 AAAAATTACT
*
4332337 ATTTT-ACCCTTAAACTTT-CCAAAATTTC
1 ATTTTAACCC-TAAA-TTTCCCTAAATTTC
**
4332365 ATTTTTAACCCT-AATTTCTTTAAAAATTATC
1 A-TTTTAACCCTAAATTTCCCT--AAATT-TC
*
4332396 ATTTT-ACCCTCAAACTTT-CCAAAATTTC
1 ATTTTAACCCT-AAA-TTTCCCTAAATTTC
*
4332424 ATTCTTAACCCTAAATTTTCCCTAAATTAC
1 ATT-TTAACCCTAAA-TTTCCCTAAATTTC
4332454 ATTT
1 ATTT
4332458 GCACCATCGA
Statistics
Matches: 72, Mismatches: 9, Indels: 23
0.69 0.09 0.22
Matches are distributed among these distances:
27 3 0.04
28 8 0.11
29 24 0.33
30 29 0.40
31 5 0.07
32 3 0.04
ACGTcount: A:0.33, C:0.23, G:0.00, T:0.44
Consensus pattern (28 bp):
ATTTTAACCCTAAATTTCCCTAAATTTC
Found at i:4340238 original size:21 final size:22
Alignment explanation
Indices: 4340199--4340239 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
4340189 TATTTAACTT
* *
4340199 TAAAAGTATAAAATGAATTCCA
1 TAAAAGAAAAAAATGAATTCCA
4340221 TAAAAGAAAAAAAT-AATTC
1 TAAAAGAAAAAAATGAATTC
4340240 AAATTCTTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 5 0.29
22 12 0.71
ACGTcount: A:0.61, C:0.07, G:0.07, T:0.24
Consensus pattern (22 bp):
TAAAAGAAAAAAATGAATTCCA
Found at i:4343276 original size:21 final size:21
Alignment explanation
Indices: 4343223--4343279 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 21
4343213 CATAACATAA
* *
4343223 TAAATTAAAAATATAAATATATT
1 TAAA-TAAAATTA-AAATAAATT
* *
4343246 TAACTTAAATTAAAATAAATT
1 TAAATAAAATTAAAATAAATT
4343267 TAAATAAAATTAA
1 TAAATAAAATTAA
4343280 CTTGATTTAA
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
21 19 0.68
22 6 0.21
23 3 0.11
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (21 bp):
TAAATAAAATTAAAATAAATT
Found at i:4346856 original size:12 final size:12
Alignment explanation
Indices: 4346839--4346871 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
4346829 AAAAATTTAA
4346839 TTTAATAATTAT
1 TTTAATAATTAT
4346851 TTTAATAA-TAT
1 TTTAATAATTAT
*
4346862 TTTATTAATT
1 TTTAATAATT
4346872 TAATATTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (12 bp):
TTTAATAATTAT
Found at i:4346930 original size:29 final size:31
Alignment explanation
Indices: 4346868--4346931 Score: 80
Period size: 29 Copynumber: 2.1 Consensus size: 31
4346858 ATATTTTATT
*
4346868 AATTTAATATTAATGTGATTATCTTAATATTA
1 AATTTAATATTAATGT-ATTATCTTAATAATA
4346900 AATTTAAT-TTAATGT-TTATCTT-ATAGATA
1 AATTTAATATTAATGTATTATCTTAATA-ATA
4346929 AAT
1 AAT
4346932 ATTTTATTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
28 3 0.10
29 12 0.40
31 7 0.23
32 8 0.27
ACGTcount: A:0.41, C:0.03, G:0.06, T:0.50
Consensus pattern (31 bp):
AATTTAATATTAATGTATTATCTTAATAATA
Found at i:4346980 original size:62 final size:60
Alignment explanation
Indices: 4346885--4347010 Score: 173
Period size: 59 Copynumber: 2.1 Consensus size: 60
4346875 TATTAATGTG
* *
4346885 ATTATCTTAATATTAAATTTAATTTAATGTTTATCTTATAGATAAATATTTTATTAATTTAAT
1 ATTATCTTAATATTAAATTTAATCTAATATTTATC-T-T-GATAAATATTTTATTAATTTAAT
* * *
4346948 ATTAT-TTAATTTTAATTTTAATCTAATATTTATCTTGATAAGTATTTTATTAATTTAAT
1 ATTATCTTAATATTAAATTTAATCTAATATTTATCTTGATAAATATTTTATTAATTTAAT
4347007 ATTA
1 ATTA
4347011 AAGTGTTTAA
Statistics
Matches: 58, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
59 26 0.45
60 1 0.02
61 1 0.02
62 25 0.43
63 5 0.09
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (60 bp):
ATTATCTTAATATTAAATTTAATCTAATATTTATCTTGATAAATATTTTATTAATTTAAT
Found at i:4350516 original size:153 final size:153
Alignment explanation
Indices: 4350238--4350548 Score: 570
Period size: 153 Copynumber: 2.0 Consensus size: 153
4350228 AGAACCAATG
*
4350238 CAGAGATATAATAAGGGAGTTAGCAAATATCCATCATTGTCGGTTCAGAATTCTTCTGGAGAAGG
1 CAGAGAGATAATAAGGGAGTTAGCAAATATCCATCATTGTCGGTTCAGAATTCTTCTGGAGAAGG
4350303 GATTGATTTATCATTTAACAATGTAGGTTCTGAGTTCCCAGATGACAACGACTTTGAGACAACTG
66 GATTGATTTATCATTTAACAATGTAGGTTCTGAGTTCCCAGATGACAACGACTTTGAGACAACTG
4350368 ATGAATCCAATCCTTATGGGGTT
131 ATGAATCCAATCCTTATGGGGTT
*
4350391 CAGAGAGATAATAAGGGAGTTAGCAAATATCCATCATT-TCCGGTTCAGAATTCTTGTGGAGAAG
1 CAGAGAGATAATAAGGGAGTTAGCAAATATCCATCATTGT-CGGTTCAGAATTCTTCTGGAGAAG
* *
4350455 GGATTGATTTATCATTTAACAATGTAGGTTCTGAGTTCCCAGATGACGACGACTTTGAGACAATT
65 GGATTGATTTATCATTTAACAATGTAGGTTCTGAGTTCCCAGATGACAACGACTTTGAGACAACT
4350520 GATGAATCCAATCCTTATGGGGTT
130 GATGAATCCAATCCTTATGGGGTT
4350544 CAGAG
1 CAGAG
4350549 TTTTGATAAT
Statistics
Matches: 153, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
152 1 0.01
153 152 0.99
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.30
Consensus pattern (153 bp):
CAGAGAGATAATAAGGGAGTTAGCAAATATCCATCATTGTCGGTTCAGAATTCTTCTGGAGAAGG
GATTGATTTATCATTTAACAATGTAGGTTCTGAGTTCCCAGATGACAACGACTTTGAGACAACTG
ATGAATCCAATCCTTATGGGGTT
Found at i:4354065 original size:20 final size:20
Alignment explanation
Indices: 4354040--4354106 Score: 73
Period size: 20 Copynumber: 3.2 Consensus size: 20
4354030 TTATAAAAAA
4354040 AAAAATTTAAAATAATTTTT
1 AAAAATTTAAAATAATTTTT
* *
4354060 AAAAATTCAAAAT-ATTTAT
1 AAAAATTTAAAATAATTTTT
*
4354079 AAAAATTCTAAATTTATATTTTT
1 AAAAATT-TAAA-ATA-ATTTTT
4354102 AAAAA
1 AAAAA
4354107 AAATTTAAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
19 12 0.32
20 15 0.39
21 1 0.03
23 10 0.26
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (20 bp):
AAAAATTTAAAATAATTTTT
Found at i:4354093 original size:17 final size:18
Alignment explanation
Indices: 4354053--4354096 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
4354043 AATTTAAAAT
*
4354053 AATTTTTAAAAATTCAAA
1 AATTTATAAAAATTCAAA
*
4354071 ATATTTATAAAAATTC-TA
1 A-ATTTATAAAAATTCAAA
4354089 AATTTATA
1 AATTTATA
4354097 TTTTTAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 7 0.30
18 3 0.13
19 13 0.57
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (18 bp):
AATTTATAAAAATTCAAA
Found at i:4358718 original size:10 final size:10
Alignment explanation
Indices: 4358699--4358731 Score: 59
Period size: 10 Copynumber: 3.4 Consensus size: 10
4358689 TAAATAGTTT
4358699 GAGT-TATTC
1 GAGTATATTC
4358708 GAGTATATTC
1 GAGTATATTC
4358718 GAGTATATTC
1 GAGTATATTC
4358728 GAGT
1 GAGT
4358732 TATCCGAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 4 0.17
10 19 0.83
ACGTcount: A:0.27, C:0.09, G:0.24, T:0.39
Consensus pattern (10 bp):
GAGTATATTC
Found at i:4360191 original size:3 final size:3
Alignment explanation
Indices: 4360183--4360217 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
4360173 CAAACTTTGC
4360183 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
4360218 AATGCACTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:4371459 original size:25 final size:24
Alignment explanation
Indices: 4371402--4371460 Score: 59
Period size: 24 Copynumber: 2.5 Consensus size: 24
4371392 AAAAATAGGT
* *
4371402 TATA-TATTATTTTTCTAATATTA
1 TATATTATAATTTTTCTAATATCA
4371425 TATATTATAATTTTTACTAAT-TCA
1 TATATTATAATTTTT-CTAATATCA
*
4371449 TATTTTAATAAT
1 TATATT-ATAAT
4371461 AATTATATTA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
23 4 0.13
24 16 0.53
25 10 0.33
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (24 bp):
TATATTATAATTTTTCTAATATCA
Found at i:4371482 original size:58 final size:57
Alignment explanation
Indices: 4371436--4371547 Score: 163
Period size: 57 Copynumber: 1.9 Consensus size: 57
4371426 ATATTATAAT
4371436 TTTTACT-AATTCATATTTTAATAATAATTATATTAAAAATATTATTAAATTATATATTA
1 TTTTACTAAATT-ATA-TTTAATAATAATTATATT-AAAATATTATTAAATTATATATTA
* * *
4371495 TTTTATTAAATTGTATTTAATAATAATTATATTAAAATATAATTAAATTATAT
1 TTTTACTAAATTATATTTAATAATAATTATATTAAAATATTATTAAATTATAT
4371548 TTAATAATAA
Statistics
Matches: 49, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
57 19 0.39
58 18 0.37
59 8 0.16
60 4 0.08
ACGTcount: A:0.46, C:0.02, G:0.01, T:0.51
Consensus pattern (57 bp):
TTTTACTAAATTATATTTAATAATAATTATATTAAAATATTATTAAATTATATATTA
Found at i:4371570 original size:57 final size:57
Alignment explanation
Indices: 4371452--4371574 Score: 144
Period size: 57 Copynumber: 2.1 Consensus size: 57
4371442 TAATTCATAT
* * * **
4371452 TTTAATAATAATTATATTAAAAATATTATTAAATTATATATTATTTTATTAAATTGTA
1 TTTAATAATAATTATATTAAAAATATAATTAAATTATATATTA-TATAATAAATTAAA
4371510 TTTAATAATAATTATATT-AAAATATAATTAAATTATAT-TTA-ATAATAATCATTAAAA
1 TTTAATAATAATTATATTAAAAATATAATTAAATTATATATTATATAATAA--ATT-AAA
4371567 TTTAATAA
1 TTTAATAA
4371575 CAATAATCAT
Statistics
Matches: 57, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
54 5 0.09
56 6 0.11
57 28 0.49
58 18 0.32
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.48
Consensus pattern (57 bp):
TTTAATAATAATTATATTAAAAATATAATTAAATTATATATTATATAATAAATTAAA
Found at i:4371737 original size:46 final size:45
Alignment explanation
Indices: 4371678--4371806 Score: 186
Period size: 46 Copynumber: 2.8 Consensus size: 45
4371668 AACACAAAAA
*
4371678 TATTATTACAGCTCTATTCCATTTCAACCAACCAAACAATTGAAT
1 TATTATTACAGCTCTATTCCATTACAACCAACCAAACAATTGAAT
* *
4371723 TATTGATTACAGCTCTATTCCATTCCAATCAACCAAACAATTGAAT
1 TATT-ATTACAGCTCTATTCCATTACAACCAACCAAACAATTGAAT
* * *
4371769 TACTAATTACAGCTCTATTCCATTACAGCGAACCAAAC
1 TA-TTATTACAGCTCTATTCCATTACAACCAACCAAAC
4371807 GTCACCTTAA
Statistics
Matches: 75, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
45 4 0.05
46 70 0.93
47 1 0.01
ACGTcount: A:0.37, C:0.26, G:0.06, T:0.31
Consensus pattern (45 bp):
TATTATTACAGCTCTATTCCATTACAACCAACCAAACAATTGAAT
Found at i:4383148 original size:193 final size:194
Alignment explanation
Indices: 4382819--4383205 Score: 749
Period size: 193 Copynumber: 2.0 Consensus size: 194
4382809 CCATAGCAGA
*
4382819 CATACTCCTTTTTATTGTATCAGATGGATAGTGCTTCATATGTTTTACCTATTTGCTGCATGAAT
1 CATACTCCTTTTTATTATATCAGATGGATAGTGCTTCATATGTTTTACCTATTTGCTGCATGAAT
*
4382884 GAAATACTCTATTTTATTATATCAAGGGATTGAGAGAAACATGCAACAAACTATGTTATACAGCT
66 GAAATACTCTATTTTATTATATAAAGGGATTGAGAGAAACATGCAACAAACTATGTTATACAGCT
4382949 CAGCTCAAATAGCTCATCAAACTAACCAC-AAAAAAAAAAAAAGCAATCTGATATATATGATGC
131 CAGCTCAAATAGCTCATCAAACTAACCACAAAAAAAAAAAAAAGCAATCTGATATATATGATGC
4383012 CATACTCCTTTTTATTATATCAGATGGATAGTGCTTCATATGTTTTACCTATTTGCTGCATGAAT
1 CATACTCCTTTTTATTATATCAGATGGATAGTGCTTCATATGTTTTACCTATTTGCTGCATGAAT
4383077 GAAATACTCTATTTTATTATATAAAGGGATTGAGAGAAACATGCAACAAACTATGTTATACAGCT
66 GAAATACTCTATTTTATTATATAAAGGGATTGAGAGAAACATGCAACAAACTATGTTATACAGCT
4383142 CAGCTCAAATAGCTCATCAAACTAACCACAAAAAAAAAAAAAAGCAATCTGATATATATGATGC
131 CAGCTCAAATAGCTCATCAAACTAACCACAAAAAAAAAAAAAAGCAATCTGATATATATGATGC
4383206 GTTAAATATC
Statistics
Matches: 191, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
193 157 0.82
194 34 0.18
ACGTcount: A:0.39, C:0.17, G:0.13, T:0.32
Consensus pattern (194 bp):
CATACTCCTTTTTATTATATCAGATGGATAGTGCTTCATATGTTTTACCTATTTGCTGCATGAAT
GAAATACTCTATTTTATTATATAAAGGGATTGAGAGAAACATGCAACAAACTATGTTATACAGCT
CAGCTCAAATAGCTCATCAAACTAACCACAAAAAAAAAAAAAAGCAATCTGATATATATGATGC
Found at i:4390776 original size:17 final size:18
Alignment explanation
Indices: 4390750--4390829 Score: 71
Period size: 17 Copynumber: 4.7 Consensus size: 18
4390740 AATCATTTTG
*
4390750 AATTTGTTTTAAAA-TTA
1 AATTTATTTTAAAATTTA
4390767 AATTTATTTTAAAATTTA
1 AATTTATTTTAAAATTTA
*
4390785 AATTTA--TT-AAATTTG
1 AATTTATTTTAAAATTTA
* *
4390800 AATTTAATTT-GAATTTA
1 AATTTATTTTAAAATTTA
* *
4390817 AAATTATTATAAA
1 AATTTATTTTAAA
4390830 TTCAGTAAAA
Statistics
Matches: 51, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
15 12 0.24
16 2 0.04
17 27 0.53
18 10 0.20
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (18 bp):
AATTTATTTTAAAATTTA
Found at i:4390795 original size:33 final size:32
Alignment explanation
Indices: 4390758--4390831 Score: 85
Period size: 33 Copynumber: 2.2 Consensus size: 32
4390748 TGAATTTGTT
* *
4390758 TTAAAATTAAATTTATTTTAAAATTTAAATTTA
1 TTAAAATTAAATTTAATTT-AAATTTAAAATTA
* * *
4390791 TTAAATTTGAATTTAATTTGAATTTAAAATTA
1 TTAAAATTAAATTTAATTTAAATTTAAAATTA
4390823 TTATAAATT
1 TTA-AAATT
4390832 CAGTAAAATA
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
32 14 0.41
33 20 0.59
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (32 bp):
TTAAAATTAAATTTAATTTAAATTTAAAATTA
Found at i:4392676 original size:30 final size:30
Alignment explanation
Indices: 4392625--4393063 Score: 269
Period size: 30 Copynumber: 14.7 Consensus size: 30
4392615 CCTTAAAGGT
* *
4392625 CCCTAAAC-TATCCAGAAATTATATTTTGAC
1 CCCTAAACTTTTCCA-AAATTATATTTTAAC
* *
4392655 CCCTGAACTTTTCCAAAATTATATTTTGAC
1 CCCTAAACTTTTCCAAAATTATATTTTAAC
* * *
4392685 CTCAAAAC-TTTCTATAAATTGCAT-TTTTAAC
1 CCCTAAACTTTTCCA-AAATT--ATATTTTAAC
* *
4392716 CCCTAAACTTTTACAAAATTATATTTTGA-
1 CCCTAAACTTTTCCAAAATTATATTTTAAC
*** *
4392745 CCCTAAAACTTTTTGTAAATTACATTTTAAC
1 CCCT-AAACTTTTCCAAAATTATATTTTAAC
* *
4392776 CCTTAAACTTTT-GAAAATTATATTTTAAC
1 CCCTAAACTTTTCCAAAATTATATTTTAAC
* * * *
4392805 CTCAAAAC-TTTCTATAAATTACATTTTAAC
1 CCCTAAACTTTTCCA-AAATTATATTTTAAC
* * **
4392835 CCTTAAACTTCTATAAAATTATATTTTAAC
1 CCCTAAACTTTTCCAAAATTATATTTTAAC
* * *
4392865 CCCAAAAC-TTTCTAAAAATTACATTTTAAC
1 CCCTAAACTTTTC-CAAAATTATATTTTAAC
*
4392895 CCCTAAAACTTCTCCAAAATTATATTTTAA-
1 CCCT-AAACTTTTCCAAAATTATATTTTAAC
** *
4392925 CCCTAAAACTTTTTGAAATTTATATTTTAA-
1 CCCT-AAACTTTTCCAAAATTATATTTTAAC
* * *
4392955 CCCTAAAATTTTCTAAAAATTACT-TTTTTA-
1 CCCTAAACTTTTC-CAAAATTA-TATTTTAAC
* * * ** *
4392985 CCCTTAAGTTTTCTAAAATTCCATTTTTAC
1 CCCTAAACTTTTCCAAAATTATATTTTAAC
** *
4393015 CCCTCGA-TTTTACCAAAATTACCATTTT-A-
1 CCCTAAACTTTT-CCAAAATTA-TATTTTAAC
4393044 CCCTCAAA-TTTTCCAAAATT
1 CCCT-AAACTTTTCCAAAATT
4393064 CCATTTTTAA
Statistics
Matches: 327, Mismatches: 61, Indels: 43
0.76 0.14 0.10
Matches are distributed among these distances:
28 3 0.01
29 69 0.21
30 192 0.59
31 54 0.17
32 9 0.03
ACGTcount: A:0.36, C:0.21, G:0.03, T:0.41
Consensus pattern (30 bp):
CCCTAAACTTTTCCAAAATTATATTTTAAC
Found at i:4392733 original size:61 final size:59
Alignment explanation
Indices: 4392640--4392966 Score: 374
Period size: 61 Copynumber: 5.5 Consensus size: 59
4392630 AACTATCCAG
* * * * *
4392640 AAATTATATTTTGACCCCTGAACTTTTCCAAAATTATATTTTGACCTCAAAACTTTCTAT
1 AAATTACATTTTAACCCCTAAACTTTTACAAAATTATATTTTAACC-CAAAACTTTCTAT
* * * *
4392700 AAATTGCATTTTTAACCCCTAAACTTTTACAAAATTATATTTTGACCCTAAAACTTTTTGT
1 AAATTACA-TTTTAACCCCTAAACTTTTACAAAATTATATTTTAACCC-AAAACTTTCTAT
* *
4392761 AAATTACATTTTAACCCTTAAACTTTT-GAAAATTATATTTTAACCTCAAAACTTTCTAT
1 AAATTACATTTTAACCCCTAAACTTTTACAAAATTATATTTTAACC-CAAAACTTTCTAT
* * * *
4392820 AAATTACATTTTAACCCTTAAACTTCTATAAAATTATATTTTAACCCCAAAACTTTCTAA
1 AAATTACATTTTAACCCCTAAACTTTTACAAAATTATATTTTAA-CCCAAAACTTTCTAT
* *
4392880 AAATTACATTTTAACCCCTAAAACTTCTCCAAAATTATATTTTAACCCTAAAACTTT-T-T
1 AAATTACATTTTAACCCCT-AAACTTTTACAAAATTATATTTTAACCC-AAAACTTTCTAT
* *
4392939 GAAATTTATATTTTAA-CCCTAAAATTTT
1 -AAA-TTACATTTTAACCCCTAAACTTTT
4392967 CTAAAAATTA
Statistics
Matches: 235, Mismatches: 23, Indels: 19
0.85 0.08 0.07
Matches are distributed among these distances:
59 58 0.25
60 82 0.35
61 95 0.40
ACGTcount: A:0.38, C:0.19, G:0.02, T:0.41
Consensus pattern (59 bp):
AAATTACATTTTAACCCCTAAACTTTTACAAAATTATATTTTAACCCAAAACTTTCTAT
Found at i:4393035 original size:180 final size:181
Alignment explanation
Indices: 4392640--4393075 Score: 478
Period size: 180 Copynumber: 2.4 Consensus size: 181
4392630 AACTATCCAG
* * * * * *
4392640 AAATTATATTTTGACCCCTGAACTTTT-CCAAAATTATATTTTGACCTCAAAACTTTCTATAAAT
1 AAATTACATTTTAACCCCTAAACTTTTACCAAAATTATATTTTAACCCCAAAACTTTCTAAAAAT
* * *
4392704 TGCATTTTTAACCCCTAAACTTTTACAAAATTATATTTTGACCCTAAAACTTTTTGTAAATTACA
66 TACATTTTTAACCCCTAAACTTCTACAAAATTATATTTTAACCCTAAAACTTTTTGTAAATTACA
* *
4392769 TTTTAACCCTTAAACTTTTGAAAATTATATTTTAACCTCAAAACTTTCTAT
131 TTTTAACCCTAAAACTTTTAAAAATTATATTTTAACCTCAAAACTTTCTAT
* * *
4392820 AAATTACATTTTAACCCTTAAACTTCTA-TAAAATTATATTTTAACCCCAAAACTTTCTAAAAAT
1 AAATTACATTTTAACCCCTAAACTTTTACCAAAATTATATTTTAACCCCAAAACTTTCTAAAAAT
*
4392884 TACA-TTTTAACCCCTAAAACTTCTCCAAAATTATATTTTAACCCTAAAACTTTTTG-AAATTTA
66 TACATTTTTAACCCCT-AAACTTCTACAAAATTATATTTTAACCCTAAAACTTTTTGTAAA-TTA
* * * * * **
4392947 TATTTTAACCCTAAAATTTTCTAAAAATTACTTTTTTACCCT-TAAGTTTTCTA-
129 CATTTTAACCCTAAAACTTT-TAAAAATTA-TATTTTAACCTCAAAACTTTCTAT
* * ** * * *
4393000 AAATTCCATTTTTACCCCTCGA-TTTTACCAAAATTACCATTTT-ACCCTC-AAATTTTC-CAAA
1 AAATTACATTTTAACCCCTAAACTTTTACCAAAATTA-TATTTTAACCC-CAAAACTTTCTAAAA
*
4393061 ATTCCATTTTTAACC
64 ATTACATTTTTAACC
4393076 TCGATTTTAC
Statistics
Matches: 214, Mismatches: 33, Indels: 18
0.81 0.12 0.07
Matches are distributed among these distances:
179 26 0.12
180 157 0.73
181 22 0.10
182 9 0.04
ACGTcount: A:0.36, C:0.20, G:0.02, T:0.42
Consensus pattern (181 bp):
AAATTACATTTTAACCCCTAAACTTTTACCAAAATTATATTTTAACCCCAAAACTTTCTAAAAAT
TACATTTTTAACCCCTAAACTTCTACAAAATTATATTTTAACCCTAAAACTTTTTGTAAATTACA
TTTTAACCCTAAAACTTTTAAAAATTATATTTTAACCTCAAAACTTTCTAT
Found at i:4393036 original size:59 final size:59
Alignment explanation
Indices: 4392969--4393159 Score: 219
Period size: 59 Copynumber: 3.3 Consensus size: 59
4392959 AAAATTTTCT
** * * * *
4392969 AAAAATTACTTTTTTACCCTTAAGTTTTCTAAAATTCCATTTTTACCCCTCGATTTTACC
1 AAAAATTACCATTTTACCCTCAAATTTTCCAAAATTCCATTTTTA-ACCTCGATTTTACC
4393029 -AAAATTACCATTTTACCCTCAAATTTTCCAAAATTCCATTTTTAACCTCGATTTTACC
1 AAAAATTACCATTTTACCCTCAAATTTTCCAAAATTCCATTTTTAACCTCGATTTTACC
* * * * * *
4393087 AAAAATTACCATTTTACCCTCTAACTTTCCAAAA-TCTCGTTTTTGACC-CAATTTCGACC
1 AAAAATTACCATTTTACCCTCAAATTTTCCAAAATTC-CATTTTTAACCTCGATTT-TACC
4393146 -AAAATTACCATTTT
1 AAAAATTACCATTTT
4393160 GCCCCTGGGT
Statistics
Matches: 116, Mismatches: 12, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
58 34 0.29
59 82 0.71
ACGTcount: A:0.31, C:0.25, G:0.03, T:0.40
Consensus pattern (59 bp):
AAAAATTACCATTTTACCCTCAAATTTTCCAAAATTCCATTTTTAACCTCGATTTTACC
Found at i:4393102 original size:30 final size:29
Alignment explanation
Indices: 4392999--4393107 Score: 134
Period size: 30 Copynumber: 3.7 Consensus size: 29
4392989 TAAGTTTTCT
4392999 AAAATTCCATTTTTACCCCTCGATTTTACC
1 AAAATTCCATTTTTA-CCCTCGATTTTACC
*
4393029 AAAATTACCA-TTTTACCCTCAAATTTT-CC
1 AAAATT-CCATTTTTACCCTC-GATTTTACC
*
4393058 AAAATTCCATTTTTAACCTCGATTTTACC
1 AAAATTCCATTTTTACCCTCGATTTTACC
4393087 AAAAATTACCA-TTTTACCCTC
1 -AAAATT-CCATTTTTACCCTC
4393108 TAACTTTCCA
Statistics
Matches: 69, Mismatches: 4, Indels: 12
0.81 0.05 0.14
Matches are distributed among these distances:
28 8 0.12
29 24 0.35
30 31 0.45
31 6 0.09
ACGTcount: A:0.32, C:0.28, G:0.02, T:0.39
Consensus pattern (29 bp):
AAAATTCCATTTTTACCCTCGATTTTACC
Found at i:4393119 original size:30 final size:30
Alignment explanation
Indices: 4392961--4393120 Score: 129
Period size: 30 Copynumber: 5.4 Consensus size: 30
4392951 TTAACCCTAA
* **
4392961 AATTTTCTAAAAATTACTTTTTTACCCT-T
1 AATTTTCCAAAAATTACCATTTTACCCTCT
*
4392990 AAGTTTT-CTAAAATT-CCATTTTTACCC-CT
1 AA-TTTTCCAAAAATTACCA-TTTTACCCTCT
* *
4393019 CGATTTTACC-AAAATTACCATTTTACCCTCA
1 -AATTTT-CCAAAAATTACCATTTTACCCTCT
*
4393050 AATTTTCC-AAAATT-CCATTTTTAACCTC-
1 AATTTTCCAAAAATTACCA-TTTTACCCTCT
*
4393078 GATTTTACCAAAAATTACCATTTTACCCTCT
1 AATTTT-CCAAAAATTACCATTTTACCCTCT
*
4393109 AACTTTCCAAAA
1 AATTTTCCAAAA
4393121 TCTCGTTTTT
Statistics
Matches: 106, Mismatches: 12, Indels: 25
0.74 0.08 0.17
Matches are distributed among these distances:
28 9 0.08
29 40 0.38
30 45 0.42
31 12 0.11
ACGTcount: A:0.33, C:0.24, G:0.02, T:0.41
Consensus pattern (30 bp):
AATTTTCCAAAAATTACCATTTTACCCTCT
Found at i:4398604 original size:13 final size:14
Alignment explanation
Indices: 4398586--4398615 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
4398576 CGGATTCAAT
4398586 AAAAAG-AAAAGAA
1 AAAAAGAAAAAGAA
4398599 AAAAAGAAAAAGAA
1 AAAAAGAAAAAGAA
4398613 AAA
1 AAA
4398616 GAGAGGTCGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.38
14 10 0.62
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (14 bp):
AAAAAGAAAAAGAA
Found at i:4399314 original size:102 final size:99
Alignment explanation
Indices: 4399173--4399422 Score: 405
Period size: 102 Copynumber: 2.5 Consensus size: 99
4399163 AGCATCCTTG
* * * *
4399173 GACCAATATGGGTCACTTTT-TTCATGCGAGCTTTGCCTCCAATAAAATTCATCCACCTAATCCT
1 GACCAATATGAGTCATTTTTATTCATGCTAGCTTTGCCTCCAATAAAATTCATCCACCTAACCCT
4399237 ATTCTTTGCTCACTTTGTGTTTGGCATATTCTTT
66 ATTCTTTGCTCACTTTGTGTTTGGCATATTCTTT
4399271 GACCAATATGAGTCATTTTTTTCATTCATGCTAGCTTTGCCTCCAATAAAATTCATCCACCTAAC
1 GACCAATATGAGTCA--TTTTT-ATTCATGCTAGCTTTGCCTCCAATAAAATTCATCCACCTAAC
4399336 CCTATTCTTTGCTCACTTTGTGTTTGGCATATTCTTT
63 CCTATTCTTTGCTCACTTTGTGTTTGGCATATTCTTT
*
4399373 GACCAATATGAGTCATTTTTATTCATG-TGAGTTTTGCCTCCAATAAAATT
1 GACCAATATGAGTCATTTTTATTCATGCT-AGCTTTGCCTCCAATAAAATT
4399423 TCATTCGCCT
Statistics
Matches: 142, Mismatches: 5, Indels: 9
0.91 0.03 0.06
Matches are distributed among these distances:
98 15 0.11
99 27 0.19
100 9 0.06
102 91 0.64
ACGTcount: A:0.24, C:0.23, G:0.12, T:0.41
Consensus pattern (99 bp):
GACCAATATGAGTCATTTTTATTCATGCTAGCTTTGCCTCCAATAAAATTCATCCACCTAACCCT
ATTCTTTGCTCACTTTGTGTTTGGCATATTCTTT
Found at i:4400153 original size:100 final size:100
Alignment explanation
Indices: 4399974--4400711 Score: 1111
Period size: 100 Copynumber: 7.4 Consensus size: 100
4399964 ATGAAATACA
* * * * * *
4399974 ACGGGAAAGATCTAAGACCGCAACGGCAGATCTAGTACCGCAAAAACACAAAAGGGAAAGGTCTA
1 ACGGGAAAGATCTAAGACCGCAATGGCGGATCCAGTACCGCAAAGATACTAAAGGGAAAGGTCTA
4400039 AGTCGCAACGGCGGACCGTGTACCTCAGAAACACG
66 AGTCGCAACGGCGGACCGTGTACCTCAGAAACACG
*
4400074 ATGGGAAAGATCTAAGACCGCAATGGCGGATCCAGTACCGCAAAGATACTAAAGGGAAAGGTCTA
1 ACGGGAAAGATCTAAGACCGCAATGGCGGATCCAGTACCGCAAAGATACTAAAGGGAAAGGTCTA
* *
4400139 AGTCACAACAGCGGACCGTGTACCTCAGAAACACG
66 AGTCGCAACGGCGGACCGTGTACCTCAGAAACACG
* * * *
4400174 ATGGGAAAGATCTAAGACTGCAATGGCGGATCCAGTGCCGCAAAGATACTAAAGGAAAAGGTCTA
1 ACGGGAAAGATCTAAGACCGCAATGGCGGATCCAGTACCGCAAAGATACTAAAGGGAAAGGTCTA
* *
4400239 AGTCGCAACGGCGGACCGTGTACCTCAAAAACATG
66 AGTCGCAACGGCGGACCGTGTACCTCAGAAACACG
* * *
4400274 ACGGGAAAGATCTAAGACCGCAATAGCGGATCCAGTACCGCAAAGATACAAAAGGGAAATGTCTA
1 ACGGGAAAGATCTAAGACCGCAATGGCGGATCCAGTACCGCAAAGATACTAAAGGGAAAGGTCTA
* * *
4400339 AGTCGCAACGACGGACCGTATACCTTAGAAACACG
66 AGTCGCAACGGCGGACCGTGTACCTCAGAAACACG
* *
4400374 ACGGGAAAGATCTAAGACCGCAATGGCGAATCCAGTATCGCAAAGATACTAAAGGGAAAGGTCTA
1 ACGGGAAAGATCTAAGACCGCAATGGCGGATCCAGTACCGCAAAGATACTAAAGGGAAAGGTCTA
* *
4400439 AATCGCAATGGCGGACCGTGTACCTCAGAAACACG
66 AGTCGCAACGGCGGACCGTGTACCTCAGAAACACG
* * * *
4400474 ACGAGAAAGATCTAAGACCGCAATGGCGGATCCAGTATCGTAAAGATACTAAAAGGAAAGGTCTA
1 ACGGGAAAGATCTAAGACCGCAATGGCGGATCCAGTACCGCAAAGATACTAAAGGGAAAGGTCTA
* *
4400539 AGTCGCAACGGCAGACCGTGTACCTCAAAAACACG
66 AGTCGCAACGGCGGACCGTGTACCTCAGAAACACG
* *
4400574 ACGGGAAAGATCTAAGACCGCACTGGCGGATCCAGTACCGCAAAGATACAAAAGGGAAAGGTCTA
1 ACGGGAAAGATCTAAGACCGCAATGGCGGATCCAGTACCGCAAAGATACTAAAGGGAAAGGTCTA
*
4400639 AGTCGCAACGGCGGACCGTGTACCTCAGAAACAGG
66 AGTCGCAACGGCGGACCGTGTACCTCAGAAACACG
* * * *
4400674 A-AGGAAAGGATCTAAGA-CGCGACGGCGGATCCAATACC
1 ACGGGAAA-GATCTAAGACCGCAATGGCGGATCCAGTACC
4400712 ACGAAGATTT
Statistics
Matches: 577, Mismatches: 60, Indels: 3
0.90 0.09 0.00
Matches are distributed among these distances:
99 22 0.04
100 555 0.96
ACGTcount: A:0.37, C:0.23, G:0.26, T:0.14
Consensus pattern (100 bp):
ACGGGAAAGATCTAAGACCGCAATGGCGGATCCAGTACCGCAAAGATACTAAAGGGAAAGGTCTA
AGTCGCAACGGCGGACCGTGTACCTCAGAAACACG
Found at i:4401022 original size:92 final size:92
Alignment explanation
Indices: 4400837--4401011 Score: 255
Period size: 92 Copynumber: 1.9 Consensus size: 92
4400827 CTAAACTACA
* * * *
4400837 ATAGCAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCTTCAAACATCAATTCCT
1 ATAGCAAGTCTTTATCTCTCTGAAGCTGCAGTAAGAGCAAGATGAAGCTTCAAACAGCAAATCCT
* *
4400902 ATCCTCTTGAAGTTGCAGTAAAGTTGG
66 ATCCTCATGAAGATGCAGTAAAGTTGG
*
4400929 ATAGCAAGTCTTTATCTCTCTGAAGCTGCAGTAAGAGCAAGATGAAGCTTC-GACAGCAAAT-CT
1 ATAGCAAGTCTTTATCTCTCTGAAGCTGCAGTAAGAGCAAGATGAAGCTTCAAACAGCAAATCCT
*
4400992 CATCTTCATGAAGATGCAGT
66 -ATCCTCATGAAGATGCAGT
4401012 GGAGTTTGGA
Statistics
Matches: 74, Mismatches: 8, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
90 2 0.03
91 23 0.31
92 49 0.66
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.29
Consensus pattern (92 bp):
ATAGCAAGTCTTTATCTCTCTGAAGCTGCAGTAAGAGCAAGATGAAGCTTCAAACAGCAAATCCT
ATCCTCATGAAGATGCAGTAAAGTTGG
Found at i:4401607 original size:17 final size:17
Alignment explanation
Indices: 4401581--4401670 Score: 121
Period size: 17 Copynumber: 5.4 Consensus size: 17
4401571 AACCATTTTG
* *
4401581 AATTTGTTTTAAAATTA
1 AATTTATTTTAAATTTA
4401598 AATTTATTTTAAAATTTA
1 AATTTATTTT-AAATTTA
4401616 AATTTATTTTAAATTTA
1 AATTTATTTTAAATTTA
4401633 AATTTA--TTAAATTTA
1 AATTTATTTTAAATTTA
* *
4401648 AATTTAATTTAAATTTG
1 AATTTATTTTAAATTTA
4401665 AATTTA
1 AATTTA
4401671 AAATTATTAT
Statistics
Matches: 67, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
15 15 0.22
17 36 0.54
18 16 0.24
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.54
Consensus pattern (17 bp):
AATTTATTTTAAATTTA
Found at i:4401618 original size:6 final size:6
Alignment explanation
Indices: 4401588--4401672 Score: 83
Period size: 6 Copynumber: 15.0 Consensus size: 6
4401578 TTGAATTTGT
* * *
4401588 TTTAAA ATTAAA TTT-AT TTTAAAA TTTAAA TTT-AT TTTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTT-AAA TTTAAA TTTAAA TTTAAA TTTAAA
*
4401635 TTT--A -TTAAA TTTAAA TTT-AA TTTAAA TTTGAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
4401673 ATTATTATAA
Statistics
Matches: 64, Mismatches: 8, Indels: 14
0.74 0.09 0.16
Matches are distributed among these distances:
3 2 0.03
4 1 0.02
5 14 0.22
6 43 0.67
7 4 0.06
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (6 bp):
TTTAAA
Found at i:4401650 original size:32 final size:34
Alignment explanation
Indices: 4401581--4401670 Score: 121
Period size: 32 Copynumber: 2.7 Consensus size: 34
4401571 AACCATTTTG
* *
4401581 AATTTGTTTTAAAATTAAATTTATTTTAAAATTTA
1 AATTTATTTTAAATTTAAATTTA-TTTAAAATTTA
4401616 AATTTATTTTAAATTTAAATTTA-TT-AAATTTA
1 AATTTATTTTAAATTTAAATTTATTTAAAATTTA
* *
4401648 AATTTAATTTAAATTTGAATTTA
1 AATTTATTTTAAATTTAAATTTA
4401671 AAATTATTAT
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
32 28 0.55
33 2 0.04
35 21 0.41
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.54
Consensus pattern (34 bp):
AATTTATTTTAAATTTAAATTTATTTAAAATTTA
Found at i:4403536 original size:30 final size:30
Alignment explanation
Indices: 4403463--4403922 Score: 410
Period size: 30 Copynumber: 15.3 Consensus size: 30
4403453 CTAAACTGTC
* * *
4403463 TAAAAATTATATTTTGACCCTCATA-TTTT
1 TAAAAATTATATTTTAACCCTAAAACTTTT
**
4403492 CCAAAATTATATTTTAACCCTAAAACTTTT
1 TAAAAATTATATTTTAACCCTAAAACTTTT
** * * **
4403522 TGTAAATTACATTTTTGACCCTTGAACTTTT
1 TAAAAATTATA-TTTTAACCCTAAAACTTTT
** *
4403553 GCAAAATTATATTTTGACCCTAAAACTTTT
1 TAAAAATTATATTTTAACCCTAAAACTTTT
* * *
4403583 TATAAATTATATTTTGACCCTTAAACTTTT
1 TAAAAATTATATTTTAACCCTAAAACTTTT
*
4403613 GT-AAAATTATATTTTAACCCTAAAATTTTT
1 -TAAAAATTATATTTTAACCCTAAAACTTTT
* *
4403643 TATAAATTATATTTTGACCCCT-AAACTTTT
1 TAAAAATTATATTTT-AACCCTAAAACTTTT
** * **
4403673 CCAAAATTATATTTTGACCCTAAAACTTAC
1 TAAAAATTATATTTTAACCCTAAAACTTTT
* *
4403703 TATAAATTACATTTTAACCCCT-AAAC-TTT
1 TAAAAATTATATTTTAA-CCCTAAAACTTTT
4403732 TATAAAATTATATTTTAACCCTAAAACTTTT
1 TA-AAAATTATATTTTAACCCTAAAACTTTT
** * ** *
4403763 TGTAAATTACATTTTAACCCCCAAACTTCT
1 TAAAAATTATATTTTAACCCTAAAACTTTT
** * *
4403793 CCAAAATTATATTTTAACCTTAAAACTTTC
1 TAAAAATTATATTTTAACCCTAAAACTTTT
* * *
4403823 TAAAAATTACATTTTGACCCTCAAAACTTCT
1 TAAAAATTATATTTTAACCCT-AAAACTTTT
* *
4403854 TCAAAATTATATTTTAACCCTAAAAATTTT
1 TAAAAATTATATTTTAACCCTAAAACTTTT
* **
4403884 TAAAATTTATATTTTAACCCCGAAA-TTTT
1 TAAAAATTATATTTTAACCCTAAAACTTTT
4403913 CTAAAAATTA
1 -TAAAAATTA
4403923 CTTTTTACCC
Statistics
Matches: 342, Mismatches: 77, Indels: 23
0.77 0.17 0.05
Matches are distributed among these distances:
29 36 0.11
30 244 0.71
31 62 0.18
ACGTcount: A:0.38, C:0.17, G:0.03, T:0.42
Consensus pattern (30 bp):
TAAAAATTATATTTTAACCCTAAAACTTTT
Found at i:4403602 original size:60 final size:60
Alignment explanation
Indices: 4403466--4403918 Score: 538
Period size: 60 Copynumber: 7.5 Consensus size: 60
4403456 AACTGTCTAA
* * *
4403466 AAATTATATTTTGA-CCCTCATA-TTTTCCAAAATTATATTTTAACCCTAAAACTTTTTGT
1 AAATTACATTTTGACCCCT-AAACTTTTCCAAAATTATATTTTAACCCTAAAACTTTTTAT
* * * *
4403525 AAATTACATTTTTGACCCTTGAACTTTTGCAAAATTATATTTTGACCCTAAAACTTTTTAT
1 AAATTACA-TTTTGACCCCTAAACTTTTCCAAAATTATATTTTAACCCTAAAACTTTTTAT
* * ** *
4403586 AAATTATATTTTGACCCTTAAACTTTTGTAAAATTATATTTTAACCCTAAAATTTTTTAT
1 AAATTACATTTTGACCCCTAAACTTTTCCAAAATTATATTTTAACCCTAAAACTTTTTAT
* * **
4403646 AAATTATATTTTGACCCCTAAACTTTTCCAAAATTATATTTTGACCCTAAAACTTACTAT
1 AAATTACATTTTGACCCCTAAACTTTTCCAAAATTATATTTTAACCCTAAAACTTTTTAT
* ** *
4403706 AAATTACATTTTAACCCCTAAACTTTTATAAAATTATATTTTAACCCTAAAACTTTTTGT
1 AAATTACATTTTGACCCCTAAACTTTTCCAAAATTATATTTTAACCCTAAAACTTTTTAT
* * * * * *
4403766 AAATTACATTTTAACCCCCAAACTTCTCCAAAATTATATTTTAACCTTAAAACTTTCTAA
1 AAATTACATTTTGACCCCTAAACTTTTCCAAAATTATATTTTAACCCTAAAACTTTTTAT
* *
4403826 AAATTACATTTTGACCCTCAAAACTTCTT-CAAAATTATATTTTAACCCTAAAAATTTTTA-
1 AAATTACATTTTGACCC-CTAAACTT-TTCCAAAATTATATTTTAACCCTAAAACTTTTTAT
* * * *
4403886 AAATTTATATTTTAACCCCGAAA-TTTTCTAAAA
1 AAA-TTACATTTTGACCCCTAAACTTTTCCAAAA
4403919 ATTACTTTTT
Statistics
Matches: 342, Mismatches: 45, Indels: 14
0.85 0.11 0.03
Matches are distributed among these distances:
58 2 0.01
59 13 0.04
60 235 0.69
61 91 0.27
62 1 0.00
ACGTcount: A:0.37, C:0.17, G:0.03, T:0.42
Consensus pattern (60 bp):
AAATTACATTTTGACCCCTAAACTTTTCCAAAATTATATTTTAACCCTAAAACTTTTTAT
Found at i:4404043 original size:58 final size:58
Alignment explanation
Indices: 4403940--4404222 Score: 274
Period size: 59 Copynumber: 4.8 Consensus size: 58
4403930 CCCCTTAGTT
* * *
4403940 TTCCAAAATTCCATTTTTACCCCCTCGATTTCACCAAGATTACCATTTTA-CCCCAAAC
1 TTCCAAAATTCCATTTTTA-CCCCTCGATTTTACAAAAATTACCATTTTACCCCCAAAC
4403998 TTCCTAAAATTCCATTTTTACCCCTCGATTTTACAAAAATTACCATTTTACCCCCAAAC
1 TTCC-AAAATTCCATTTTTACCCCTCGATTTTACAAAAATTACCATTTTACCCCCAAAC
* * * *** * *
4404057 TTCTTAAAATTCCATTTTAACCCTAATTTTTTTTACCAAAATTACCATTTTACCCCCAAATT
1 TTC-CAAAATTCCATTTTTACCC--CTCGATTTTACAAAAATTACCATTTTACCCCCAAA-C
* * *
4404119 TTCCAAAATTCCATTTTTAACCC-CAATTTTACCAAAAATTACCATTTTACCCTC-AAC
1 TTCCAAAATTCCATTTTTACCCCTCGATTTTA-CAAAAATTACCATTTTACCCCCAAAC
* * *
4404176 TTTCCAAAA-TCCTATTTTGA--CC-CAATTTCTACCAAAATTACCATTTT
1 -TTCCAAAATTCC-ATTTTTACCCCTCGATTT-TACAAAAATTACCATTTT
4404223 GCCCTCGAGT
Statistics
Matches: 192, Mismatches: 23, Indels: 22
0.81 0.10 0.09
Matches are distributed among these distances:
56 23 0.12
57 5 0.03
58 52 0.27
59 63 0.33
61 46 0.24
62 3 0.02
ACGTcount: A:0.32, C:0.29, G:0.01, T:0.37
Consensus pattern (58 bp):
TTCCAAAATTCCATTTTTACCCCTCGATTTTACAAAAATTACCATTTTACCCCCAAAC
Found at i:4404126 original size:29 final size:29
Alignment explanation
Indices: 4403894--4404222 Score: 170
Period size: 29 Copynumber: 11.2 Consensus size: 29
4403884 TAAAATTTAT
* *
4403894 ATTTTAACCCCGAAATTTTCTAAAAATTA-C
1 ATTTT-ACCCCCAAATTTTC-CAAAATTACC
* ** *
4403924 TTTTTACCCCTTAGTTTTCCAAAATT-CC
1 ATTTTACCCCCAAATTTTCCAAAATTACC
** * *
4403952 ATTTTTACCCCCTCGATTTCACCAAGATTACC
1 A-TTTTACCCCC-AAATTT-TCCAAAATTACC
*
4403984 ATTTTA-CCCCAAA-CTTCCTAAAATT-CC
1 ATTTTACCCCCAAATTTTCC-AAAATTACC
* *
4404011 ATTTTTACCCCTC-GATTTTACAAAAATTACC
1 A-TTTTACCCC-CAAATTTT-CCAAAATTACC
4404042 ATTTTACCCCCAAACTTCTT--AAAATT-CC
1 ATTTTACCCCCAAA-TT-TTCCAAAATTACC
* * *
4404070 ATTTTAACCCTAATTTTTTTTACCAAAATTACC
1 ATTTTACCCCCAA---ATTTT-CCAAAATTACC
4404103 ATTTTACCCCCAAATTTTCCAAAATT-CC
1 ATTTTACCCCCAAATTTTCCAAAATTACC
*
4404131 ATTTTTAACCCC-AATTTTACCAAAAATTACC
1 A-TTTTACCCCCAAATTTT-CC-AAAATTACC
* *
4404162 ATTTTACCCTC-AACTTTCCAAAA-T-CC
1 ATTTTACCCCCAAATTTTCCAAAATTACC
4404188 TATTTTGA--CCC-AATTTCTACCAAAATTACC
1 -ATTTT-ACCCCCAAATTT-T-CCAAAATTACC
4404218 ATTTT
1 ATTTT
4404223 GCCCTCGAGT
Statistics
Matches: 234, Mismatches: 33, Indels: 65
0.70 0.10 0.20
Matches are distributed among these distances:
26 8 0.03
27 12 0.05
28 51 0.22
29 61 0.26
30 57 0.24
31 21 0.09
32 11 0.05
33 13 0.06
ACGTcount: A:0.32, C:0.28, G:0.02, T:0.38
Consensus pattern (29 bp):
ATTTTACCCCCAAATTTTCCAAAATTACC
Found at i:4404240 original size:56 final size:57
Alignment explanation
Indices: 4403939--4404228 Score: 270
Period size: 58 Copynumber: 4.9 Consensus size: 57
4403929 ACCCCTTAGT
* * * *
4403939 TTTCCAAAATTCCATTTTTACCCCCTCGATTTCACCAAGATTACCATTTTACCC-CAAAC
1 TTTCCAAAATTCCATTTTTA-ACCC-CAATTTTACCAAAATTACCATTTTACCCTC-AAC
* * * *
4403998 -TTCCTAAAATTCCATTTTTACCCCTCGATTTTACAAAAATTACCATTTTACCCCCAAAC
1 TTTCC-AAAATTCCATTTTTAACCC-CAATTTTACCAAAATTACCATTTTACCCTC-AAC
* * * *
4404057 -TTCTTAAAATTCCA-TTTTAACCCTAATTTTTTTTACCAAAATTACCATTTTACCCCCAAAT
1 TTTC-CAAAATTCCATTTTTAACCCCAA----TTTTACCAAAATTACCATTTTACCCTC-AAC
4404118 TTTCCAAAATTCCATTTTTAACCCCAATTTTACCAAAAATTACCATTTTACCCTCAAC
1 TTTCCAAAATTCCATTTTTAACCCCAATTTTACC-AAAATTACCATTTTACCCTCAAC
* *
4404176 TTTCCAAAA-TCC-TATTTTGA-CCCAATTTCTACCAAAATTACCATTTTGCCCTC
1 TTTCCAAAATTCCAT-TTTTAACCCCAATTT-TACCAAAATTACCATTTTACCCTC
4404229 GAGTATCCAA
Statistics
Matches: 204, Mismatches: 15, Indels: 27
0.83 0.06 0.11
Matches are distributed among these distances:
56 28 0.14
57 13 0.06
58 60 0.29
59 51 0.25
61 38 0.19
62 14 0.07
ACGTcount: A:0.31, C:0.30, G:0.02, T:0.37
Consensus pattern (57 bp):
TTTCCAAAATTCCATTTTTAACCCCAATTTTACCAAAATTACCATTTTACCCTCAAC
Found at i:4408078 original size:23 final size:21
Alignment explanation
Indices: 4408034--4408080 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 21
4408024 ATTTTATATG
*
4408034 ATATTTGTATTTTTAAAATTT
1 ATATTTATATTTTTAAAATTT
*
4408055 ATATTTATATATTTTAGAAGTTT
1 ATATTTATAT-TTTTA-AAATTT
4408078 ATA
1 ATA
4408081 GAAAAATTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 9 0.41
22 5 0.23
23 8 0.36
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.57
Consensus pattern (21 bp):
ATATTTATATTTTTAAAATTT
Found at i:4408509 original size:21 final size:20
Alignment explanation
Indices: 4408468--4408506 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
4408458 TAGATTTCAA
*
4408468 ATTTTAAATTATTATTTAAT
1 ATTTTAAATTATAATTTAAT
4408488 ATTTTATAATTA-AATTTAA
1 ATTTTA-AATTATAATTTAA
4408507 ATAATAATTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (20 bp):
ATTTTAAATTATAATTTAAT
Found at i:4423083 original size:15 final size:16
Alignment explanation
Indices: 4423056--4423086 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
4423046 TTTAAAATAA
4423056 ATTTTGATGTATTAAT
1 ATTTTGATGTATTAAT
4423072 ATTTTG-TGTATTAAT
1 ATTTTGATGTATTAAT
4423087 TTCCTTTTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.29, C:0.00, G:0.13, T:0.58
Consensus pattern (16 bp):
ATTTTGATGTATTAAT
Found at i:4423246 original size:7 final size:7
Alignment explanation
Indices: 4423234--4423258 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
4423224 AATGGAACTC
4423234 AATTTTA
1 AATTTTA
4423241 AATTTTA
1 AATTTTA
4423248 AATTTTA
1 AATTTTA
4423255 AATT
1 AATT
4423259 ATTTAAGTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (7 bp):
AATTTTA
Found at i:4423262 original size:17 final size:17
Alignment explanation
Indices: 4423242--4423318 Score: 68
Period size: 17 Copynumber: 4.6 Consensus size: 17
4423232 TCAATTTTAA
*
4423242 ATTTTAAATTTTAAATT
1 ATTTTAAATTTGAAATT
* *
4423259 A-TTTAAGTTTGAATTT
1 ATTTTAAATTTGAAATT
4423275 ATTTTAAATTT-AAACTT
1 ATTTTAAATTTGAAA-TT
* * *
4423292 AATTTAAGTTTGAATTT
1 ATTTTAAATTTGAAATT
*
4423309 ATCTTAAATT
1 ATTTTAAATT
4423319 AAATTTTAAT
Statistics
Matches: 46, Mismatches: 11, Indels: 6
0.73 0.17 0.10
Matches are distributed among these distances:
16 15 0.33
17 29 0.63
18 2 0.04
ACGTcount: A:0.38, C:0.03, G:0.05, T:0.55
Consensus pattern (17 bp):
ATTTTAAATTTGAAATT
Found at i:4423302 original size:34 final size:32
Alignment explanation
Indices: 4423242--4423323 Score: 121
Period size: 34 Copynumber: 2.5 Consensus size: 32
4423232 TCAATTTTAA
4423242 ATTTTAAATTTTAAATTATTTAAGTTTGAATTT
1 ATTTTAAA-TTTAAATTATTTAAGTTTGAATTT
4423275 ATTTTAAATTTAAACTTAATTTAAGTTTGAATTT
1 ATTTTAAATTTAAA-TT-ATTTAAGTTTGAATTT
*
4423309 ATCTTAAA-TTAAATT
1 ATTTTAAATTTAAATT
4423324 TTAATTTTAA
Statistics
Matches: 46, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
32 8 0.17
33 15 0.33
34 23 0.50
ACGTcount: A:0.39, C:0.02, G:0.05, T:0.54
Consensus pattern (32 bp):
ATTTTAAATTTAAATTATTTAAGTTTGAATTT
Found at i:4423332 original size:23 final size:23
Alignment explanation
Indices: 4423275--4423333 Score: 57
Period size: 22 Copynumber: 2.6 Consensus size: 23
4423265 GTTTGAATTT
* *
4423275 ATTTTAAATTTAAACTTAATTTAA
1 ATTTT-AATTTTAACTTAAATTAA
* * *
4423299 GTTTGAA-TTTATCTTAAATTAA
1 ATTTTAATTTTAACTTAAATTAA
4423321 ATTTTAATTTTAA
1 ATTTTAATTTTAA
4423334 AAGTCCAAAT
Statistics
Matches: 26, Mismatches: 8, Indels: 3
0.70 0.22 0.08
Matches are distributed among these distances:
22 17 0.65
23 6 0.23
24 3 0.12
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.53
Consensus pattern (23 bp):
ATTTTAATTTTAACTTAAATTAA
Found at i:4425112 original size:30 final size:29
Alignment explanation
Indices: 4425057--4425221 Score: 163
Period size: 29 Copynumber: 5.7 Consensus size: 29
4425047 TCGAACTTTT
* * *
4425057 AAAAATTATA-TTTTGCCCCTAAACTTCTC
1 AAAAATTACATTTTTACCCTTAAACTTC-C
4425086 AAAAATTACATTTTTACCCTTAAACTTCC
1 AAAAATTACATTTTTACCCTTAAACTTCC
* *
4425115 AAAAATTACATTTTTACCCTCAAACTTCT
1 AAAAATTACATTTTTACCCTTAAACTTCC
* ** **
4425144 AAAAATCACATTTTTACCCCGAATTTTCC
1 AAAAATTACATTTTTACCCTTAAACTTCC
* * *
4425173 CAAAATGACATTTTTACCCCTAAAACATTCC
1 AAAAATTACATTTTTA-CCCTTAAAC-TTCC
*
4425204 -AAAATTACATTTTAACCC
1 AAAAATTACATTTTTACCC
4425222 AAACTCTTCG
Statistics
Matches: 114, Mismatches: 19, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
29 77 0.68
30 33 0.29
31 4 0.04
ACGTcount: A:0.38, C:0.25, G:0.02, T:0.35
Consensus pattern (29 bp):
AAAAATTACATTTTTACCCTTAAACTTCC
Found at i:4425178 original size:58 final size:58
Alignment explanation
Indices: 4425015--4425221 Score: 172
Period size: 58 Copynumber: 3.6 Consensus size: 58
4425005 TCTAGAAGGT
* * * ** * **
4425015 CCCTAAACTGTC-CAGAAATCACATTTTGACCGTCG-AACTTTTAAAAATTATATTTTGC
1 CCCTAAACT-TCTCAAAAATCACATTTTTACC-CCGAAACTTCCAAAAATTACATTTTTA
* **
4425073 CCCTAAACTTCTCAAAAATTACATTTTTACCCTTAAACTTCCAAAAATTACATTTTTA
1 CCCTAAACTTCTCAAAAATCACATTTTTACCCCGAAACTTCCAAAAATTACATTTTTA
** * *
4425131 CCCTCAAACTTCT-AAAAATCACATTTTTACCCCGAATTTTCCCAAAATGACATTTTTA
1 CCCT-AAACTTCTCAAAAATCACATTTTTACCCCGAAACTTCCAAAAATTACATTTTTA
* *
4425189 CCCCTAAAACATTC-C-AAAATTACATTTTAACCC
1 -CCCT-AAAC-TTCTCAAAAATCACATTTTTACCC
4425222 AAACTCTTCG
Statistics
Matches: 122, Mismatches: 21, Indels: 11
0.79 0.14 0.07
Matches are distributed among these distances:
57 2 0.02
58 85 0.70
59 32 0.26
60 3 0.02
ACGTcount: A:0.36, C:0.26, G:0.04, T:0.34
Consensus pattern (58 bp):
CCCTAAACTTCTCAAAAATCACATTTTTACCCCGAAACTTCCAAAAATTACATTTTTA
Found at i:4425617 original size:97 final size:98
Alignment explanation
Indices: 4425502--4425696 Score: 275
Period size: 98 Copynumber: 2.0 Consensus size: 98
4425492 AAAATATCTA
* * * * **
4425502 AAATCAAGGCAATATTTCTTTATTTC-GGGTTTTGAAAATTTGTGCCTTAACTTACTAGGCGTGA
1 AAATCAAGGCAATATTTCTTTATCTCTAGGTTTTGAAAACTTGTGCCTTAACTTACTAGACGCAA
* * *
4425566 TTTTTCTTCAAATCGGGATAATCGAATACCCTT
66 CTTTTCTTCAAACCGGGATAATCAAATACCCTT
* * *
4425599 AAATCGAGGCAATGTTTCTTTATCTCTAGTTTTTGAAAACTTGTGCCTTAACTTACTAGACGCAA
1 AAATCAAGGCAATATTTCTTTATCTCTAGGTTTTGAAAACTTGTGCCTTAACTTACTAGACGCAA
4425664 CTTTTCTTCAAACCGGGATAATCAAATACCCTT
66 CTTTTCTTCAAACCGGGATAATCAAATACCCTT
4425697 TTTTCAAGGT
Statistics
Matches: 85, Mismatches: 12, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
97 23 0.27
98 62 0.73
ACGTcount: A:0.29, C:0.19, G:0.15, T:0.37
Consensus pattern (98 bp):
AAATCAAGGCAATATTTCTTTATCTCTAGGTTTTGAAAACTTGTGCCTTAACTTACTAGACGCAA
CTTTTCTTCAAACCGGGATAATCAAATACCCTT
Found at i:4427588 original size:9 final size:9
Alignment explanation
Indices: 4427574--4427600 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
4427564 CAGCCAGAGG
4427574 GAAAGAAGA
1 GAAAGAAGA
4427583 GAAAGAAGA
1 GAAAGAAGA
4427592 GAAAGAAGA
1 GAAAGAAGA
4427601 AAACCCTCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (9 bp):
GAAAGAAGA
Found at i:4430089 original size:48 final size:48
Alignment explanation
Indices: 4429993--4430090 Score: 151
Period size: 48 Copynumber: 2.0 Consensus size: 48
4429983 AATATGTTGC
**
4429993 ACCAGAGAACATAGAGAACATTACTTCTGCTCACGCATCACAGTATCA
1 ACCAGAGAACATAGAGAACATTACTTCTGCTCACGCATCACACCATCA
* * *
4430041 ACCAGAGAACATTGAGAACATTTCTTCTGCTCATGCATCACACCATCA
1 ACCAGAGAACATAGAGAACATTACTTCTGCTCACGCATCACACCATCA
4430089 AC
1 AC
4430091 GAAATCCTGC
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.36, C:0.29, G:0.13, T:0.22
Consensus pattern (48 bp):
ACCAGAGAACATAGAGAACATTACTTCTGCTCACGCATCACACCATCA
Found at i:4435532 original size:34 final size:34
Alignment explanation
Indices: 4435488--4435595 Score: 162
Period size: 34 Copynumber: 3.2 Consensus size: 34
4435478 AGGACTTTAT
*
4435488 AATTGGCTTACATATTATATCTCATCAGGAATAC
1 AATTGCCTTACATATTATATCTCATCAGGAATAC
*
4435522 AATTGCCTTACATAGTATATCTCATCAGGAATAC
1 AATTGCCTTACATATTATATCTCATCAGGAATAC
* * *
4435556 AATCGGCTTATATATTATATCTCATCAGGAATAC
1 AATTGCCTTACATATTATATCTCATCAGGAATAC
*
4435590 AGTTGC
1 AATTGC
4435596 ACGATATGAA
Statistics
Matches: 65, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 65 1.00
ACGTcount: A:0.34, C:0.19, G:0.13, T:0.34
Consensus pattern (34 bp):
AATTGCCTTACATATTATATCTCATCAGGAATAC
Found at i:4440649 original size:83 final size:83
Alignment explanation
Indices: 4440509--4440674 Score: 269
Period size: 83 Copynumber: 2.0 Consensus size: 83
4440499 ATCTGCCACC
* * *
4440509 ATATTAACTGCACGTCTAGTAAATGCAAACTGAACCAAATTAAAATACTTAGCTGCTTCCTCTAT
1 ATATTAACTGCACGTCAAGTAAATACAAACCGAACCAAATTAAAATACTTAGCTGCTTCCTCTAT
4440574 TTGCCAAACAAACGTTGT
66 TTGCCAAACAAACGTTGT
* *
4440592 ATATTAACTGCACGTCAAGTAAATACAAACCGAACCAAATTAAAATGCTTAGTTGCTTCCTCTAT
1 ATATTAACTGCACGTCAAGTAAATACAAACCGAACCAAATTAAAATACTTAGCTGCTTCCTCTAT
* *
4440657 TTGCCGAACCAACGTTGT
66 TTGCCAAACAAACGTTGT
4440675 CATCGTTGCA
Statistics
Matches: 76, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
83 76 1.00
ACGTcount: A:0.36, C:0.22, G:0.13, T:0.30
Consensus pattern (83 bp):
ATATTAACTGCACGTCAAGTAAATACAAACCGAACCAAATTAAAATACTTAGCTGCTTCCTCTAT
TTGCCAAACAAACGTTGT
Found at i:4442250 original size:38 final size:38
Alignment explanation
Indices: 4442199--4442278 Score: 151
Period size: 38 Copynumber: 2.1 Consensus size: 38
4442189 GACCCAACAA
4442199 ACAAGCAAGTATCACCAGATTCAATCATGAACACGATT
1 ACAAGCAAGTATCACCAGATTCAATCATGAACACGATT
*
4442237 ACAAGCAAGTATCACCGGATTCAATCATGAACACGATT
1 ACAAGCAAGTATCACCAGATTCAATCATGAACACGATT
4442275 ACAA
1 ACAA
4442279 AATAATACAG
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 41 1.00
ACGTcount: A:0.42, C:0.24, G:0.14, T:0.20
Consensus pattern (38 bp):
ACAAGCAAGTATCACCAGATTCAATCATGAACACGATT
Found at i:4445106 original size:3 final size:3
Alignment explanation
Indices: 4445098--4445123 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
4445088 ACGGCGCTGA
4445098 AGG AGG AGG AGG AGG AGG AGG AGG AG
1 AGG AGG AGG AGG AGG AGG AGG AGG AG
4445124 ATATTGGGAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.65, T:0.00
Consensus pattern (3 bp):
AGG
Found at i:4448755 original size:22 final size:21
Alignment explanation
Indices: 4448730--4448770 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
4448720 TAAAAATGAT
*
4448730 AAAATTTCAATTTAAACTTTTA
1 AAAATTACAATTT-AACTTTTA
4448752 AAAATTACAATTTAACTTT
1 AAAATTACAATTTAACTTT
4448771 AACCCTCTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.46, C:0.10, G:0.00, T:0.44
Consensus pattern (21 bp):
AAAATTACAATTTAACTTTTA
Found at i:4458190 original size:20 final size:20
Alignment explanation
Indices: 4458165--4458204 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
4458155 GCATCCAAAG
4458165 TTCAACTCTCAACTCAACAA
1 TTCAACTCTCAACTCAACAA
*
4458185 TTCAACTTTCAACTCAACAA
1 TTCAACTCTCAACTCAACAA
4458205 AGTTTGTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.40, C:0.33, G:0.00, T:0.28
Consensus pattern (20 bp):
TTCAACTCTCAACTCAACAA
Found at i:4461587 original size:21 final size:22
Alignment explanation
Indices: 4461563--4461611 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
4461553 TTTCAAAAAA
*
4461563 TTAAAAAT-ATTTTTTATATTT
1 TTAAAAATGATTTTTTAAATTT
*
4461584 TT-AATATGATTTTTTAAATTT
1 TTAAAAATGATTTTTTAAATTT
*
4461605 TAAAAAA
1 TTAAAAA
4461612 AATTAATTAC
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
20 4 0.18
21 15 0.68
22 3 0.14
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (22 bp):
TTAAAAATGATTTTTTAAATTT
Found at i:4465411 original size:23 final size:21
Alignment explanation
Indices: 4465385--4465429 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 21
4465375 TTAAGAGATT
*
4465385 ATTATGTGTTCTATTTATTTTTA
1 ATTATGTGTT-T-TTAATTTTTA
*
4465408 ATTATTTGTTTTTAATTTTTA
1 ATTATGTGTTTTTAATTTTTA
4465429 A
1 A
4465430 ATTCACAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 10 0.50
22 1 0.05
23 9 0.45
ACGTcount: A:0.24, C:0.02, G:0.07, T:0.67
Consensus pattern (21 bp):
ATTATGTGTTTTTAATTTTTA
Found at i:4465419 original size:14 final size:14
Alignment explanation
Indices: 4465396--4465428 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
4465386 TTATGTGTTC
4465396 TATTTATTTTTAAT
1 TATTTATTTTTAAT
*
4465410 TATTTGTTTTTAAT
1 TATTTATTTTTAAT
4465424 T-TTTA
1 TATTTA
4465429 AATTCACAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
13 3 0.18
14 14 0.82
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.73
Consensus pattern (14 bp):
TATTTATTTTTAAT
Found at i:4470097 original size:15 final size:16
Alignment explanation
Indices: 4470077--4470106 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
4470067 AAATAAAGGG
4470077 CTTTTTCTTT-TTTTC
1 CTTTTTCTTTATTTTC
4470092 CTTTTTCTTTATTTT
1 CTTTTTCTTTATTTT
4470107 TTTAAACCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.03, C:0.17, G:0.00, T:0.80
Consensus pattern (16 bp):
CTTTTTCTTTATTTTC
Found at i:4474222 original size:23 final size:23
Alignment explanation
Indices: 4474195--4474240 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
4474185 TAATTAAGAA
4474195 AGAAATATATAGATTAACAGCAT
1 AGAAATATATAGATTAACAGCAT
4474218 AGAAATATATAGATTAACAGCAT
1 AGAAATATATAGATTAACAGCAT
4474241 GTCTCCAAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.52, C:0.09, G:0.13, T:0.26
Consensus pattern (23 bp):
AGAAATATATAGATTAACAGCAT
Found at i:4477824 original size:15 final size:15
Alignment explanation
Indices: 4477800--4477832 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
4477790 AATAATGTTG
4477800 TGGACATAGGACTCT
1 TGGACATAGGACTCT
*
4477815 TGGACGTAGGACTCT
1 TGGACATAGGACTCT
4477830 TGG
1 TGG
4477833 GAGAAGTTAG
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:0.21, C:0.18, G:0.33, T:0.27
Consensus pattern (15 bp):
TGGACATAGGACTCT
Found at i:4484421 original size:21 final size:22
Alignment explanation
Indices: 4484397--4484438 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
4484387 TATATATATA
*
4484397 AATATTTTA-TTATTTTATTTT
1 AATATTTAATTTATTTTATTTT
*
4484418 AATATTTAATTTTTTTTATTT
1 AATATTTAATTTATTTTATTT
4484439 ATTGAATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (22 bp):
AATATTTAATTTATTTTATTTT
Found at i:4484441 original size:18 final size:19
Alignment explanation
Indices: 4484420--4484456 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
4484410 TTTATTTTAA
*
4484420 TATTTAATTTTTTT-TATT
1 TATTGAATTTTTTTATATT
4484438 TATTGAATTTTTTTATATT
1 TATTGAATTTTTTTATATT
4484457 GGGATTTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.73
Consensus pattern (19 bp):
TATTGAATTTTTTTATATT
Found at i:4486560 original size:21 final size:21
Alignment explanation
Indices: 4486527--4486566 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
4486517 ATTTAGGAAG
* *
4486527 TTGATATATGTATGTTTTGGC
1 TTGAAATAGGTATGTTTTGGC
4486548 TTGAAATAGGTATGTTTTG
1 TTGAAATAGGTATGTTTTG
4486567 ATCAAGTTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.23, C:0.03, G:0.25, T:0.50
Consensus pattern (21 bp):
TTGAAATAGGTATGTTTTGGC
Found at i:4491346 original size:5 final size:6
Alignment explanation
Indices: 4491317--4491344 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
4491307 AAAAATGTAT
4491317 AAAAAG AAAAAG AAAAAG AAAAAG AAAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAA
4491345 GATAAAACAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:4491351 original size:12 final size:11
Alignment explanation
Indices: 4491318--4491356 Score: 51
Period size: 12 Copynumber: 3.4 Consensus size: 11
4491308 AAAATGTATA
4491318 AAAAGAAAAAG
1 AAAAGAAAAAG
4491329 AAAAAGAAAAAG
1 -AAAAGAAAAAG
*
4491341 AAAAGATAAAAC
1 AAAAGA-AAAAG
4491353 AAAA
1 AAAA
4491357 TCTATTAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
11 6 0.24
12 19 0.76
ACGTcount: A:0.82, C:0.03, G:0.13, T:0.03
Consensus pattern (11 bp):
AAAAGAAAAAG
Found at i:4491351 original size:18 final size:18
Alignment explanation
Indices: 4491317--4491356 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
4491307 AAAAATGTAT
*
4491317 AAAAAGAAAAAGAAAAAG
1 AAAAAGAAAAAGAAAAAC
4491335 AAAAAG-AAAAGATAAAAC
1 AAAAAGAAAAAGA-AAAAC
4491353 AAAA
1 AAAA
4491357 TCTATTAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 6 0.30
18 14 0.70
ACGTcount: A:0.82, C:0.03, G:0.12, T:0.03
Consensus pattern (18 bp):
AAAAAGAAAAAGAAAAAC
Found at i:4491594 original size:19 final size:20
Alignment explanation
Indices: 4491557--4491594 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
4491547 AATTAGATTT
*
4491557 ATTTAAAATAAAATTATTAA
1 ATTTAAAATAAAATAATTAA
*
4491577 ATTTAAATTAAAA-AATTA
1 ATTTAAAATAAAATAATTA
4491595 GATAATTATA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (20 bp):
ATTTAAAATAAAATAATTAA
Done.