Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 ID=Chr02-JGI_221_v2.0
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: 62769430
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1067035 characters in sequence are not A, C, G, or T
File 162 of 206
Found at i:49119816 original size:44 final size:46
Alignment explanation
Indices: 49119753--49119844 Score: 152
Period size: 46 Copynumber: 2.0 Consensus size: 46
49119743 ACCTCTATTC
* *
49119753 CATTCAACCAAACACAAGAA-TACC-ATTACGCCTCTATTCCATTA
1 CATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCCAATA
49119797 CATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCCAATA
1 CATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCCAATA
49119843 CA
1 CA
49119845 GCGAACCAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
44 19 0.43
45 4 0.09
46 21 0.48
ACGTcount: A:0.40, C:0.30, G:0.04, T:0.25
Consensus pattern (46 bp):
CATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCCAATA
Found at i:49119852 original size:46 final size:44
Alignment explanation
Indices: 49119757--49119855 Score: 137
Period size: 46 Copynumber: 2.2 Consensus size: 44
49119747 CTATTCCATT
* * *
49119757 CAACCAAACACAAGAATACCATTACGCCTCTATTCCATTACATT
1 CAACCAAACAAAAGAATACCATTACGCCTCTATTCCAATACATG
49119801 CAACCAAACAAAAGAATTACCTATTACGCCTCTATTCCAATACA-G
1 CAACCAAACAAAAGAA-TACC-ATTACGCCTCTATTCCAATACATG
49119846 CGAACCAAAC
1 C-AACCAAAC
49119856 GTGCTGTTAA
Statistics
Matches: 49, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
44 15 0.31
45 5 0.10
46 29 0.59
ACGTcount: A:0.41, C:0.31, G:0.06, T:0.21
Consensus pattern (44 bp):
CAACCAAACAAAAGAATACCATTACGCCTCTATTCCAATACATG
Found at i:49122218 original size:23 final size:22
Alignment explanation
Indices: 49122192--49122379 Score: 110
Period size: 23 Copynumber: 8.2 Consensus size: 22
49122182 AGTGTTGCAT
*
49122192 ATTGAAGTATTTAAATGCTGTGA
1 ATTGAAGT-TTTAAATGCTGTAA
* *
49122215 ATTGAAGTGTTAAAGTGCTGCAA
1 ATTGAAGTTTTAAA-TGCTGTAA
*
49122238 ATTGAAGTGTTTAAATGTTGTAA
1 ATTGAAGT-TTTAAATGCTGTAA
* * *
49122261 ATTGAAGTGTTTTAAGTACTGCAA
1 ATTGAA--GTTTTAAATGCTGTAA
* ** *
49122285 ATTGAATTGTTTAGTTGCTGAAA
1 ATTGAAGT-TTTAAATGCTGTAA
*
49122308 ATTGAGATGTTTT-ATTGCTGT-A
1 ATTGA-A-GTTTTAAATGCTGTAA
* * *
49122330 ATTGAGGTGTATAAATGTTGTAA
1 ATTGAAGT-TTTAAATGCTGTAA
* * *
49122353 ATTGAAGTGTTTTATTGCTGAAA
1 ATTGAAGT-TTTAAATGCTGTAA
49122376 ATTG
1 ATTG
49122380 GATGGTATAA
Statistics
Matches: 127, Mismatches: 28, Indels: 20
0.73 0.16 0.11
Matches are distributed among these distances:
20 2 0.02
21 2 0.02
22 18 0.14
23 77 0.61
24 25 0.20
25 3 0.02
ACGTcount: A:0.32, C:0.04, G:0.23, T:0.41
Consensus pattern (22 bp):
ATTGAAGTTTTAAATGCTGTAA
Found at i:49122242 original size:46 final size:46
Alignment explanation
Indices: 49122170--49122363 Score: 176
Period size: 46 Copynumber: 4.2 Consensus size: 46
49122160 TTTATCATGT
* * *
49122170 TTGAAGTGTTAAAGTGTTGCATATTGAAGTATTTAAATGCTGTGAA
1 TTGAAGTGTTAAAGTGCTGCAAATTGAAGTATTTAAATGCTGTAAA
* *
49122216 TTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTAAATGTTGTAAA
1 TTGAAGTGTTAAAGTGCTGCAAATTGAAGTATTTAAATGCTGTAAA
* * * * ** *
49122262 TTGAAGTGTTTTAAGTACTGCAAATTGAATTGTTTAGTTGCTGAAAA
1 TTGAAGTG-TTAAAGTGCTGCAAATTGAAGTATTTAAATGCTGTAAA
** * * * * * *
49122309 TTG-AGATGTTTTATTGCTG-TAATTGAGGTGTATAAATGTTGTAAA
1 TTGAAG-TGTTAAAGTGCTGCAAATTGAAGTATTTAAATGCTGTAAA
49122354 TTGAAGTGTT
1 TTGAAGTGTT
49122364 TTATTGCTGA
Statistics
Matches: 122, Mismatches: 23, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
45 25 0.20
46 61 0.50
47 36 0.30
ACGTcount: A:0.31, C:0.04, G:0.24, T:0.41
Consensus pattern (46 bp):
TTGAAGTGTTAAAGTGCTGCAAATTGAAGTATTTAAATGCTGTAAA
Found at i:49122946 original size:16 final size:16
Alignment explanation
Indices: 49122925--49123023 Score: 62
Period size: 16 Copynumber: 6.4 Consensus size: 16
49122915 CAAGAATACT
49122925 ATTACAATTCTATTCC
1 ATTACAATTCTATTCC
*
49122941 ATTAC-ATTC-A-ACC
1 ATTACAATTCTATTCC
* ** *
49122954 A-AACAATTGAATTACT
1 ATTACAATTCTATT-CC
*
49122970 ATTACAGTTCTATTCC
1 ATTACAATTCTATTCC
** *
49122986 ATTACAGCTCTATTCA
1 ATTACAATTCTATTCC
**
49123002 ATTACAGCTCTATTCC
1 ATTACAATTCTATTCC
49123018 ATTACA
1 ATTACA
49123024 GCGAACCAAA
Statistics
Matches: 65, Mismatches: 13, Indels: 10
0.74 0.15 0.11
Matches are distributed among these distances:
12 2 0.03
13 6 0.09
14 2 0.03
15 4 0.06
16 43 0.66
17 8 0.12
ACGTcount: A:0.34, C:0.24, G:0.04, T:0.37
Consensus pattern (16 bp):
ATTACAATTCTATTCC
Found at i:49122981 original size:45 final size:44
Alignment explanation
Indices: 49122896--49122991 Score: 131
Period size: 45 Copynumber: 2.2 Consensus size: 44
49122886 ATTAGAACAT
* *
49122896 CATTCCATTCGACCAAACACAAGAATACTATTACAATTCTATTC
1 CATTACATTCAACCAAACACAAGAATACTATTACAATTCTATTC
* *
49122940 CATTACATTCAACCAAACA-ATTGAATTACTATTACAGTTCTATTC
1 CATTACATTCAACCAAACACA-AGAA-TACTATTACAATTCTATTC
49122985 CATTACA
1 CATTACA
49122992 GCTCTATTCA
Statistics
Matches: 46, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
43 1 0.02
44 20 0.43
45 25 0.54
ACGTcount: A:0.39, C:0.25, G:0.04, T:0.32
Consensus pattern (44 bp):
CATTACATTCAACCAAACACAAGAATACTATTACAATTCTATTC
Found at i:49123024 original size:16 final size:16
Alignment explanation
Indices: 49122970--49123025 Score: 94
Period size: 16 Copynumber: 3.5 Consensus size: 16
49122960 TTGAATTACT
*
49122970 ATTACAGTTCTATTCC
1 ATTACAGCTCTATTCC
*
49122986 ATTACAGCTCTATTCA
1 ATTACAGCTCTATTCC
49123002 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
49123018 ATTACAGC
1 ATTACAGC
49123026 GAACCAAACT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
16 37 1.00
ACGTcount: A:0.29, C:0.27, G:0.07, T:0.38
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:49126216 original size:19 final size:20
Alignment explanation
Indices: 49126194--49126231 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
49126184 TGTTTCCATT
49126194 GATTAAAATTG-TGATTTTA
1 GATTAAAATTGATGATTTTA
**
49126213 GATTTTAATTGATGATTTT
1 GATTAAAATTGATGATTTT
49126232 GAAATATTAC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 9 0.56
20 7 0.44
ACGTcount: A:0.32, C:0.00, G:0.16, T:0.53
Consensus pattern (20 bp):
GATTAAAATTGATGATTTTA
Found at i:49126977 original size:13 final size:13
Alignment explanation
Indices: 49126959--49126983 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
49126949 TACGACTCAC
49126959 AGCTCGTGTGAGT
1 AGCTCGTGTGAGT
49126972 AGCTCGTGTGAG
1 AGCTCGTGTGAG
49126984 CATTCTGATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.16, G:0.40, T:0.28
Consensus pattern (13 bp):
AGCTCGTGTGAGT
Found at i:49127006 original size:25 final size:25
Alignment explanation
Indices: 49126972--49127034 Score: 99
Period size: 25 Copynumber: 2.5 Consensus size: 25
49126962 TCGTGTGAGT
*
49126972 AGCTCGTGTGAGCATTCTGATTTAC
1 AGCTCGTGTGAGCATTCTGATTCAC
49126997 AGCTCGTGTGAGCATTCTGATTCAC
1 AGCTCGTGTGAGCATTCTGATTCAC
* *
49127022 AACTTGTGTGAGC
1 AGCTCGTGTGAGC
49127035 TATCCCGGGT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.21, C:0.21, G:0.25, T:0.33
Consensus pattern (25 bp):
AGCTCGTGTGAGCATTCTGATTCAC
Found at i:49127649 original size:20 final size:19
Alignment explanation
Indices: 49127626--49127668 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 19
49127616 TAAAGAAAGT
49127626 AAATGC-AATAGAAAGTAATG
1 AAATGCAAAT-GAAAGTAA-G
49127646 AAATGCAAATGAAAGTAAG
1 AAATGCAAATGAAAGTAAG
49127665 AAAT
1 AAAT
49127669 TTTGGAAACG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 5 0.23
20 14 0.64
21 3 0.14
ACGTcount: A:0.58, C:0.05, G:0.19, T:0.19
Consensus pattern (19 bp):
AAATGCAAATGAAAGTAAG
Found at i:49128581 original size:29 final size:30
Alignment explanation
Indices: 49128539--49128596 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 30
49128529 TATGATGCTA
49128539 AATGTTAAATTGTAAA-TTAAGTACATATG
1 AATGTTAAATTGTAAATTTAAGTACATATG
49128568 AATGTTAAATTGTAAATTTAAGTACATAT
1 AATGTTAAATTGTAAATTTAAGTACATAT
49128597 AAGTGTGGAT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 16 0.57
30 12 0.43
ACGTcount: A:0.45, C:0.03, G:0.12, T:0.40
Consensus pattern (30 bp):
AATGTTAAATTGTAAATTTAAGTACATATG
Found at i:49129030 original size:42 final size:42
Alignment explanation
Indices: 49128966--49129060 Score: 154
Period size: 42 Copynumber: 2.3 Consensus size: 42
49128956 ACGGCCTAAC
* *
49128966 ACACAGCCTGGCACACGGGCGTGTGACGCTATTTAGAAGGGT
1 ACACGGCCTGGCACACGGGCGTGTAACGCTATTTAGAAGGGT
* *
49129008 ACACGGCCTGGCACACGGGCGTGTAAGGCTATTTCGAAGGGT
1 ACACGGCCTGGCACACGGGCGTGTAACGCTATTTAGAAGGGT
49129050 ACACGGCCTGG
1 ACACGGCCTGG
49129061 AACTCGGGTG
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 49 1.00
ACGTcount: A:0.22, C:0.25, G:0.35, T:0.18
Consensus pattern (42 bp):
ACACGGCCTGGCACACGGGCGTGTAACGCTATTTAGAAGGGT
Found at i:49136791 original size:9 final size:9
Alignment explanation
Indices: 49136777--49136813 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
49136767 TATAGTTTGA
49136777 TATTCGAAT
1 TATTCGAAT
49136786 TATTCGAAT
1 TATTCGAAT
*
49136795 TATTCGAGT
1 TATTCGAAT
49136804 TATTCGAAT
1 TATTCGAAT
49136813 T
1 T
49136814 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:49136885 original size:9 final size:9
Alignment explanation
Indices: 49136868--49136898 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
49136858 TCGAGTTGAT
49136868 TCGAATAAC
1 TCGAATAAC
*
49136877 TCGATTAAC
1 TCGAATAAC
49136886 TCGAATAAC
1 TCGAATAAC
49136895 TCGA
1 TCGA
49136899 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:49142156 original size:23 final size:23
Alignment explanation
Indices: 49142108--49142156 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
49142098 ATTTCATGAA
* *
49142108 TAAAATAAATATAATTATAAATT
1 TAAAATAAATATAATTAAAAAGT
* *
49142131 TAAAATTAATATATTTAAAAAGT
1 TAAAATAAATATAATTAAAAAGT
49142154 TAA
1 TAA
49142157 CCTAATTATA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (23 bp):
TAAAATAAATATAATTAAAAAGT
Found at i:49147775 original size:2 final size:2
Alignment explanation
Indices: 49147768--49147793 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
49147758 ATCTCCAACA
49147768 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
49147794 GGAAAAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:49151157 original size:13 final size:13
Alignment explanation
Indices: 49151139--49151185 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
49151129 AACTTGCGAG
49151139 ATCGAAAGGAAAA
1 ATCGAAAGGAAAA
* * *
49151152 ATCGAAACAGAGAG
1 ATCGAAA-GGAAAA
49151166 ATCGAAAGGAAAA
1 ATCGAAAGGAAAA
49151179 ATCGAAA
1 ATCGAAA
49151186 CAGAGATTAG
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
13 17 0.63
14 10 0.37
ACGTcount: A:0.57, C:0.11, G:0.23, T:0.09
Consensus pattern (13 bp):
ATCGAAAGGAAAA
Found at i:49151171 original size:14 final size:14
Alignment explanation
Indices: 49151150--49151191 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
49151140 TCGAAAGGAA
49151150 AAATCGAAACAGAG
1 AAATCGAAACAGAG
* * *
49151164 AGATCGAAA-GGAA
1 AAATCGAAACAGAG
49151177 AAATCGAAACAGAG
1 AAATCGAAACAGAG
49151191 A
1 A
49151192 TTAGAATGGT
Statistics
Matches: 21, Mismatches: 6, Indels: 2
0.72 0.21 0.07
Matches are distributed among these distances:
13 10 0.48
14 11 0.52
ACGTcount: A:0.57, C:0.12, G:0.24, T:0.07
Consensus pattern (14 bp):
AAATCGAAACAGAG
Found at i:49151172 original size:27 final size:27
Alignment explanation
Indices: 49151136--49151191 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
49151126 TATAACTTGC
49151136 GAGATCGAAAGGAAAAATCGAAACAGA
1 GAGATCGAAAGGAAAAATCGAAACAGA
49151163 GAGATCGAAAGGAAAAATCGAAACAGA
1 GAGATCGAAAGGAAAAATCGAAACAGA
49151190 GA
1 GA
49151192 TTAGAATGGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.55, C:0.11, G:0.27, T:0.07
Consensus pattern (27 bp):
GAGATCGAAAGGAAAAATCGAAACAGA
Found at i:49154359 original size:50 final size:50
Alignment explanation
Indices: 49154236--49154365 Score: 129
Period size: 50 Copynumber: 2.6 Consensus size: 50
49154226 CATCATCACA
* * * *
49154236 ACATTCCCCTATTGAAGTCGTGACATCAAGCTATTGCCTCCATGGTTATG
1 ACATTCCCTTAGTGAAGTCGTGACATCAAGCTACTGCCTCCATGGTTACG
* * * * *
49154286 GCATT-CCTCT-GCTGAAGTTGTGACATCAAGTTACTGCTTCTATGGTTACG
1 ACATTCCCT-TAG-TGAAGTCGTGACATCAAGCTACTGCCTCCATGGTTACG
* *
49154336 ACATTCCCTTAGTAAAGTCGTGACACCAAG
1 ACATTCCCTTAGTGAAGTCGTGACATCAAG
49154366 ATTTGATTGT
Statistics
Matches: 63, Mismatches: 13, Indels: 8
0.75 0.15 0.10
Matches are distributed among these distances:
49 2 0.03
50 57 0.90
51 4 0.06
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.32
Consensus pattern (50 bp):
ACATTCCCTTAGTGAAGTCGTGACATCAAGCTACTGCCTCCATGGTTACG
Found at i:49154785 original size:8 final size:8
Alignment explanation
Indices: 49154774--49154803 Score: 60
Period size: 8 Copynumber: 3.8 Consensus size: 8
49154764 CAACCTAGAT
49154774 AAACTTGA
1 AAACTTGA
49154782 AAACTTGA
1 AAACTTGA
49154790 AAACTTGA
1 AAACTTGA
49154798 AAACTT
1 AAACTT
49154804 TATAACTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.50, C:0.13, G:0.10, T:0.27
Consensus pattern (8 bp):
AAACTTGA
Found at i:49155393 original size:31 final size:31
Alignment explanation
Indices: 49155358--49155422 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
49155348 TTACATTTTG
*
49155358 GTCACTAAACTATTCGAAAA-TTTTCATTTAA
1 GTCACTAAACTATTC-AAAAGTTTTCACTTAA
* *
49155389 GTCACTGAACTATTCAAAAGTTTTTACTTAA
1 GTCACTAAACTATTCAAAAGTTTTCACTTAA
49155420 GTC
1 GTC
49155423 CTTGGGCTGT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
30 4 0.13
31 26 0.87
ACGTcount: A:0.35, C:0.17, G:0.09, T:0.38
Consensus pattern (31 bp):
GTCACTAAACTATTCAAAAGTTTTCACTTAA
Found at i:49165394 original size:17 final size:17
Alignment explanation
Indices: 49165326--49165384 Score: 63
Period size: 17 Copynumber: 3.6 Consensus size: 17
49165316 TAATCACATT
*
49165326 AATATTAAATT-AATAA
1 AATATTAAATTAAATTA
*
49165342 AATATT--ATCTAGA-TA
1 AATATTAAAT-TAAATTA
49165357 AATATTAAATTAAATTA
1 AATATTAAATTAAATTA
49165374 AATATTAAATT
1 AATATTAAATT
49165385 TATTAAAATA
Statistics
Matches: 35, Mismatches: 3, Indels: 9
0.74 0.06 0.19
Matches are distributed among these distances:
14 2 0.06
15 8 0.23
16 10 0.29
17 15 0.43
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.41
Consensus pattern (17 bp):
AATATTAAATTAAATTA
Found at i:49167552 original size:18 final size:18
Alignment explanation
Indices: 49167509--49167552 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
49167499 ACTCAATCCA
*
49167509 AACCCAAGTATCCAACCC
1 AACCCAATTATCCAACCC
49167527 AACCCAATTA-CCTAACCC
1 AACCCAATTATCC-AACCC
49167545 AACCCAAT
1 AACCCAAT
49167553 CATAAAAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 2 0.08
18 22 0.92
ACGTcount: A:0.41, C:0.43, G:0.02, T:0.14
Consensus pattern (18 bp):
AACCCAATTATCCAACCC
Found at i:49167602 original size:6 final size:6
Alignment explanation
Indices: 49167593--49167639 Score: 94
Period size: 6 Copynumber: 7.8 Consensus size: 6
49167583 AAATAAAATT
49167593 CTAAAA CTAAAA CTAAAA CTAAAA CTAAAA CTAAAA CTAAAA CTAAA
1 CTAAAA CTAAAA CTAAAA CTAAAA CTAAAA CTAAAA CTAAAA CTAAA
49167640 GTCCAAAAGT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 41 1.00
ACGTcount: A:0.66, C:0.17, G:0.00, T:0.17
Consensus pattern (6 bp):
CTAAAA
Found at i:49167736 original size:9 final size:9
Alignment explanation
Indices: 49167722--49167797 Score: 82
Period size: 9 Copynumber: 8.4 Consensus size: 9
49167712 GTAGTGATTC
*
49167722 AATTTGGTT
1 AATTCGGTT
*
49167731 AATTTGGTT
1 AATTCGGTT
*
49167740 AATTCGGGT
1 AATTCGGTT
49167749 AATTCGGTT
1 AATTCGGTT
* *
49167758 AATACAGTT
1 AATTCGGTT
49167767 AATTCAGG-T
1 AATTC-GGTT
*
49167776 AATTCAGTT
1 AATTCGGTT
49167785 AATTCGGTT
1 AATTCGGTT
49167794 AATT
1 AATT
49167798 TTTAACTAAA
Statistics
Matches: 56, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
8 1 0.02
9 54 0.96
10 1 0.02
ACGTcount: A:0.29, C:0.08, G:0.20, T:0.43
Consensus pattern (9 bp):
AATTCGGTT
Found at i:49167757 original size:27 final size:27
Alignment explanation
Indices: 49167722--49167797 Score: 98
Period size: 27 Copynumber: 2.8 Consensus size: 27
49167712 GTAGTGATTC
* * *
49167722 AATTTGGTTAATTTGGTTAATTCGGGT
1 AATTCGGTTAATTCGGTTAATTCAGGT
* *
49167749 AATTCGGTTAATACAGTTAATTCAGGT
1 AATTCGGTTAATTCGGTTAATTCAGGT
*
49167776 AATTCAGTTAATTCGGTTAATT
1 AATTCGGTTAATTCGGTTAATT
49167798 TTTAACTAAA
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.29, C:0.08, G:0.20, T:0.43
Consensus pattern (27 bp):
AATTCGGTTAATTCGGTTAATTCAGGT
Found at i:49168290 original size:16 final size:16
Alignment explanation
Indices: 49168269--49168301 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
49168259 TTCGCTGTAT
49168269 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
49168285 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
49168301 T
1 T
49168302 AGCAAATCAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.36, C:0.06, G:0.36, T:0.21
Consensus pattern (16 bp):
TGGAATAGAGGCGTAA
Found at i:49168673 original size:16 final size:16
Alignment explanation
Indices: 49168629--49168675 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
49168619 TACTATAAAA
*
49168629 TATAATTTAACATA-AT
1 TATAA-TTAAAATATAT
*
49168645 TATTATT-AAATATAT
1 TATAATTAAAATATAT
49168660 TATAATTAAAATATAT
1 TATAATTAAAATATAT
49168676 AATTTAGTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 4 0.15
15 10 0.38
16 12 0.46
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (16 bp):
TATAATTAAAATATAT
Found at i:49168747 original size:120 final size:121
Alignment explanation
Indices: 49168513--49168929 Score: 671
Period size: 120 Copynumber: 3.5 Consensus size: 121
49168503 ATTTAATCAT
*
49168513 ATTTAAACATAATAATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
49168578 ATCAATA-TCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATA
66 ATCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATA
* *
49168633 ATTT-AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAGTAAAATTCTTAAAA
1 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
* * *
49168697 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATG
66 ATCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATA
*
49168753 ATTT-AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
* *
49168817 ATCAAAATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATA
66 ATCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATA
* * * * * *
49168873 ATTTGAA-GTAATTAATATTAAAAATATTTTAATTAAAATATATGATTTAATAAAATT
1 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATT
49168930 TAAAATAATT
Statistics
Matches: 277, Mismatches: 18, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
119 63 0.23
120 212 0.77
121 2 0.01
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.42
Consensus pattern (121 bp):
ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
ATCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATA
Found at i:49168795 original size:18 final size:17
Alignment explanation
Indices: 49168774--49168808 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
49168764 TTATTATTAA
*
49168774 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
49168792 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
49168809 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:49168825 original size:16 final size:15
Alignment explanation
Indices: 49168800--49168829 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
49168790 ATATATAATT
49168800 TAATAAAATTCTTAA
1 TAATAAAATTCTTAA
49168815 TAATCAAAATTCTTA
1 TAAT-AAAATTCTTA
49168830 TATGAATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.50, C:0.10, G:0.00, T:0.40
Consensus pattern (15 bp):
TAATAAAATTCTTAA
Found at i:49168980 original size:47 final size:46
Alignment explanation
Indices: 49168911--49169169 Score: 184
Period size: 47 Copynumber: 5.7 Consensus size: 46
49168901 TTAATTAAAA
*
49168911 TATATG-ATTTAATAAAATTTAAAATAATTATAACTAATAAATTTTCT
1 TATATGAATTT-ATATAATTTAAAATAATTATAA-TAATAAATTTTCT
* * *
49168958 TATATGAATTTGTATAATTTAAAATAATTAT--TATTAAATATAAT-T
1 TATATGAATTTATATAATTTAAAATAATTATAATAATAAAT-T-TTCT
* * * *
49169003 TA-AT-AATAATATATAATTTCATAA-AATTCGTGATAATAAATTTTCT
1 TATATGAAT-TTATATAATTT-AAAATAATT-ATAATAATAAATTTTCT
* *
49169049 TATATGAATTTATATAATTTAAAATAA-T-TAATATTAAATATAAT-T
1 TATATGAATTTATATAATTTAAAATAATTATAATAATAAAT-T-TTCT
* * * *
49169094 TA-AT-AATGATATATAATTTCATAA-AATTCTTGATAATAAATTTTCT
1 TATATGAAT-TTATATAATTT-AAAATAATT-ATAATAATAAATTTTCT
*
49169140 TATATGAATTTATACAATTTAAAATAATTA
1 TATATGAATTTATATAATTTAAAATAATTA
49169170 ATATTAAATA
Statistics
Matches: 165, Mismatches: 24, Indels: 47
0.70 0.10 0.20
Matches are distributed among these distances:
43 6 0.04
44 45 0.27
45 18 0.11
46 17 0.10
47 69 0.42
48 10 0.06
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.46
Consensus pattern (46 bp):
TATATGAATTTATATAATTTAAAATAATTATAATAATAAATTTTCT
Found at i:49168987 original size:101 final size:94
Alignment explanation
Indices: 49168868--49169193 Score: 382
Period size: 91 Copynumber: 3.5 Consensus size: 94
49168858 ATACTATAAA
* * *
49168868 ATATAATTTGAAGTAATTAATATTAAAAATATTTTAATTAAAATATATGATTTAATAAAATTT-A
1 ATATAATTTAAAATAATTAATATTAAAAATAATTTAATT--AATA-ATGA--T-AT-AAATTTCA
* *
49168932 AAATAATT-ATAACTAATAAATTTTCTTATATGAATTT
59 TAA-AATTCATGA-TAATAAATTTTCTTATATGAATTT
* * *
49168969 GTATAATTTAAAATAATTATTATTAAATATAATTTAA-TAATAAT-ATAT-AATTTCATAAAATT
1 ATATAATTTAAAATAATTAATATTAAAAATAATTTAATTAATAATGATATAAATTTCATAAAATT
*
49169031 CGTGATAATAAATTTTCTTATATGAATTT
66 CATGATAATAAATTTTCTTATATGAATTT
* *
49169060 ATATAATTTAAAATAATTAATATTAAATATAATTTAA-TAATGAT-ATAT-AATTTCATAAAATT
1 ATATAATTTAAAATAATTAATATTAAAAATAATTTAATTAATAATGATATAAATTTCATAAAATT
*
49169122 CTTGATAATAAATTTTCTTATATGAATTT
66 CATGATAATAAATTTTCTTATATGAATTT
* *
49169151 ATACAATTTAAAATAATTAATATTAAATATAATTTAA-TAATAA
1 ATATAATTTAAAATAATTAATATTAAAAATAATTTAATTAATAA
49169194 AATGTTCTTA
Statistics
Matches: 208, Mismatches: 15, Indels: 14
0.88 0.06 0.06
Matches are distributed among these distances:
91 161 0.77
92 5 0.02
93 2 0.01
94 1 0.00
96 1 0.00
97 2 0.01
98 4 0.02
100 1 0.00
101 31 0.15
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.45
Consensus pattern (94 bp):
ATATAATTTAAAATAATTAATATTAAAAATAATTTAATTAATAATGATATAAATTTCATAAAATT
CATGATAATAAATTTTCTTATATGAATTT
Found at i:49169043 original size:91 final size:91
Alignment explanation
Indices: 49168945--49169193 Score: 453
Period size: 91 Copynumber: 2.7 Consensus size: 91
49168935 TAATTATAAC
* *
49168945 TAATAAATTTTCTTATATGAATTTGTATAATTTAAAATAATTATTATTAAATATAATTTAATAAT
1 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
49169010 AATATATAATTTCATAAAATTCGTGA
66 AATATATAATTTCATAAAATTCGTGA
49169036 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
1 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
* *
49169101 GATATATAATTTCATAAAATTCTTGA
66 AATATATAATTTCATAAAATTCGTGA
*
49169127 TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
1 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
49169192 AA
66 AA
49169194 AATGTTCTTA
Statistics
Matches: 152, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
91 152 1.00
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.46
Consensus pattern (91 bp):
TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
AATATATAATTTCATAAAATTCGTGA
Found at i:49169189 original size:17 final size:15
Alignment explanation
Indices: 49169158--49169196 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 15
49169148 TTTATACAAT
49169158 TTAAAATAATTAATA
1 TTAAAATAATTAATA
49169173 TTAAATATAATTTAATA
1 TTAAA-ATAA-TTAATA
*
49169190 ATAAAAT
1 TTAAAAT
49169197 GTTCTTATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 5 0.24
16 6 0.29
17 10 0.48
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
TTAAAATAATTAATA
Found at i:49182976 original size:22 final size:22
Alignment explanation
Indices: 49182948--49182990 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
49182938 TTTATTGTTC
49182948 AAACATGAGAGCTTAGTACGTG
1 AAACATGAGAGCTTAGTACGTG
49182970 AAACATGAGAGCTTAGTACGT
1 AAACATGAGAGCTTAGTACGT
49182991 TATACTTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.37, C:0.14, G:0.26, T:0.23
Consensus pattern (22 bp):
AAACATGAGAGCTTAGTACGTG
Found at i:49183199 original size:15 final size:15
Alignment explanation
Indices: 49183179--49183227 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
49183169 TTTGATAAAC
49183179 TGAAAAATTAAGTGT
1 TGAAAAATTAAGTGT
* **
49183194 TGAAAAAATAAGTAC
1 TGAAAAATTAAGTGT
* *
49183209 TGAAAATTTAATTGT
1 TGAAAAATTAAGTGT
49183224 TGAA
1 TGAA
49183228 TTTAAGTTAT
Statistics
Matches: 26, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.49, C:0.02, G:0.16, T:0.33
Consensus pattern (15 bp):
TGAAAAATTAAGTGT
Found at i:49185859 original size:20 final size:20
Alignment explanation
Indices: 49185831--49185868 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
49185821 CCCCCCCCCA
49185831 AAAAAAATAAAAAATAAAAT
1 AAAAAAATAAAAAATAAAAT
* *
49185851 AAAACAATAATAAATAAA
1 AAAAAAATAAAAAATAAA
49185869 TGAAATAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.82, C:0.03, G:0.00, T:0.16
Consensus pattern (20 bp):
AAAAAAATAAAAAATAAAAT
Found at i:49188241 original size:30 final size:30
Alignment explanation
Indices: 49188207--49188269 Score: 126
Period size: 30 Copynumber: 2.1 Consensus size: 30
49188197 TTGAGTAGAG
49188207 CTTCATAGGAAGGTACTTAAACTAGATGGT
1 CTTCATAGGAAGGTACTTAAACTAGATGGT
49188237 CTTCATAGGAAGGTACTTAAACTAGATGGT
1 CTTCATAGGAAGGTACTTAAACTAGATGGT
49188267 CTT
1 CTT
49188270 AAGTGTCTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.32, C:0.14, G:0.22, T:0.32
Consensus pattern (30 bp):
CTTCATAGGAAGGTACTTAAACTAGATGGT
Found at i:49190844 original size:43 final size:42
Alignment explanation
Indices: 49190750--49190913 Score: 150
Period size: 43 Copynumber: 3.9 Consensus size: 42
49190740 TAGGGTTACC
* * *
49190750 GAGATTACGTGTAAGACCATATCTGGGATATGGCATCAATAT
1 GAGATTTCGTGTAAGACCATGTCTGGGACATGGCATCAATAT
* * **
49190792 GAGACTTCGTGTAAGACCATGTTTGGGACATTGGCATCGGTAT
1 GAGATTTCGTGTAAGACCATGTCTGGGACA-TGGCATCAATAT
* * ** *
49190835 GTGATTTCGTGTAAGACCATGGCTGGG-CTATTGGCATTGATAC
1 GAGATTTCGTGTAAGACCATGTCTGGGAC-A-TGGCATCAATAT
* * * *
49190878 GAGATTACATGTAAGACCATATCTGGGATATGGCAT
1 GAGATTTCGTGTAAGACCATGTCTGGGACATGGCAT
49190914 TGTTACGGTA
Statistics
Matches: 99, Mismatches: 20, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
42 32 0.32
43 67 0.68
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.30
Consensus pattern (42 bp):
GAGATTTCGTGTAAGACCATGTCTGGGACATGGCATCAATAT
Found at i:49190912 original size:85 final size:85
Alignment explanation
Indices: 49190752--49190913 Score: 193
Period size: 85 Copynumber: 1.9 Consensus size: 85
49190742 GGGTTACCGA
* * * * *
49190752 GATTACGTGTAAGACCATATCTGGGATATGGCATCAATATGAGACTTCGTGTAAGACCATGTTTG
1 GATTACGTGTAAGACCATAGCTGGGATATGGCATCAATACGAGACTTCATGTAAGACCATATCTG
49190817 GGACATTGGCATCGGTATGT
66 GGACATTGGCATCGGTATGT
* * * **
49190837 GATTTCGTGTAAGACCATGGCTGGGCTATTGGCATTGATACGAGA-TTACATGTAAGACCATATC
1 GATTACGTGTAAGACCATAGCTGGGATA-TGGCATCAATACGAGACTT-CATGTAAGACCATATC
*
49190901 TGGGATA-TGGCAT
64 TGGGACATTGGCAT
49190914 TGTTACGGTA
Statistics
Matches: 64, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
85 32 0.50
86 32 0.50
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.30
Consensus pattern (85 bp):
GATTACGTGTAAGACCATAGCTGGGATATGGCATCAATACGAGACTTCATGTAAGACCATATCTG
GGACATTGGCATCGGTATGT
Found at i:49201549 original size:28 final size:28
Alignment explanation
Indices: 49201518--49201690 Score: 179
Period size: 28 Copynumber: 6.2 Consensus size: 28
49201508 GAATATTTTC
49201518 GTGGCAATATATAAAAAGGAATGCCTTT
1 GTGGCAATATATAAAAAGGAATGCCTTT
* * *
49201546 GTGGCAAAATATTAAAATGAATGCCTTT
1 GTGGCAATATATAAAAAGGAATGCCTTT
* * * * *
49201574 GTGGAAAAATATGAAAATGAATGCCTTC
1 GTGGCAATATATAAAAAGGAATGCCTTT
* *
49201602 ATGGCAATATATAAAAAAGAATGCCTTT
1 GTGGCAATATATAAAAAGGAATGCCTTT
* * *
49201630 GTGGCAATATATGAATAGAAATGCCTTT
1 GTGGCAATATATAAAAAGGAATGCCTTT
* * *
49201658 GTGGCAA-ACTCT-GAAAGGAATGTCTTT
1 GTGGCAATA-TATAAAAAGGAATGCCTTT
49201685 GTGGCA
1 GTGGCA
49201691 GACTTTGAAA
Statistics
Matches: 122, Mismatches: 22, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
27 18 0.15
28 104 0.85
ACGTcount: A:0.38, C:0.12, G:0.21, T:0.29
Consensus pattern (28 bp):
GTGGCAATATATAAAAAGGAATGCCTTT
Found at i:49201687 original size:27 final size:27
Alignment explanation
Indices: 49201532--49201803 Score: 203
Period size: 27 Copynumber: 10.0 Consensus size: 27
49201522 CAATATATAA
* * *
49201532 AAAGGAATGCCTTTGTGGCAAAATATTA
1 AAAGGAATGCCTTTGTGGCAAACT-CTG
* * * *
49201560 AAATGAATGCCTTTGTGGAAAAATATG
1 AAAGGAATGCCTTTGTGGCAAACTCTG
* ** * *
49201587 AAAATGAATGCCTTCATGGCAATA-TATAA
1 -AAAGGAATGCCTTTGTGGCAA-ACTCT-G
* *
49201616 AAAAGAATGCCTTTGTGGCAATA-TATG
1 AAAGGAATGCCTTTGTGGCAA-ACTCTG
*
49201643 AATAGAAATGCCTTTGTGGCAAACTCTG
1 AA-AGGAATGCCTTTGTGGCAAACTCTG
* * *
49201671 AAAGGAATGTCTTTGTGGCAGACTTTG
1 AAAGGAATGCCTTTGTGGCAAACTCTG
* * *
49201698 AAAGAAATGCCTTTATGGCGAACTCTG
1 AAAGGAATGCCTTTGTGGCAAACTCTG
* *
49201725 AAAGGAATGCCTTTGTGGCAGACT-TT
1 AAAGGAATGCCTTTGTGGCAAACTCTG
* *
49201751 AAAGGGAATGCCTTTGTGGCAGACT-TT
1 AAA-GGAATGCCTTTGTGGCAAACTCTG
*
49201778 AAAGGAATGCC-TTGATGGCATACTCT
1 AAAGGAATGCCTTTG-TGGCAAACTCT
49201804 ATCTAATAGC
Statistics
Matches: 205, Mismatches: 31, Indels: 17
0.81 0.12 0.07
Matches are distributed among these distances:
25 3 0.01
26 20 0.10
27 93 0.45
28 88 0.43
29 1 0.00
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.29
Consensus pattern (27 bp):
AAAGGAATGCCTTTGTGGCAAACTCTG
Found at i:49203943 original size:31 final size:31
Alignment explanation
Indices: 49203905--49204317 Score: 477
Period size: 31 Copynumber: 13.3 Consensus size: 31
49203895 ACTGAATTCT
* * *
49203905 TGAAAAGGTTATATCCGAAATGTATATAAAA
1 TGAAAAGGTTATATCCGAAACGAATATTAAA
* *
49203936 TGAAAAGGTTATATCCGAAACAAATATTAAT
1 TGAAAAGGTTATATCCGAAACGAATATTAAA
* *
49203967 TGAAAAGATTATATCCGAAACGAATATCAAA
1 TGAAAAGGTTATATCCGAAACGAATATTAAA
* * * *
49203998 AGAAAAGGTTATATCCAAAATGAATATTAAT
1 TGAAAAGGTTATATCCGAAACGAATATTAAA
* **
49204029 TGAAAAGGTTATATCTGAAAC-AGATACCAAA
1 TGAAAAGGTTATATCCGAAACGA-ATATTAAA
* *
49204060 TGAAAATGATATATCCGAAACGAATATTAAA
1 TGAAAAGGTTATATCCGAAACGAATATTAAA
* *
49204091 TGAAAAGGTTATATCCGAAACAAATATTAAT
1 TGAAAAGGTTATATCCGAAACGAATATTAAA
* *
49204122 TGAAAAGATTATATCCGAAACGAATATCAAA
1 TGAAAAGGTTATATCCGAAACGAATATTAAA
* * *
49204153 AGAAAAGGTTATATCCGAAATGAATATTAAT
1 TGAAAAGGTTATATCCGAAACGAATATTAAA
* * **
49204184 TGAAAAGGTTATATCTGAAACAAATACCAAA
1 TGAAAAGGTTATATCCGAAACGAATATTAAA
*
49204215 TGAAAATGTTATATCCGAAACGAATATTAAA
1 TGAAAAGGTTATATCCGAAACGAATATTAAA
* ** *
49204246 TGAAAAGGTTATATCCAAAACGGGTATCAAA
1 TGAAAAGGTTATATCCGAAACGAATATTAAA
* * * * *
49204277 TGAAAAAGTTATATCCAAAACGGATGTCAAA
1 TGAAAAGGTTATATCCGAAACGAATATTAAA
49204308 TGAAAAGGTT
1 TGAAAAGGTT
49204318 CAAAAGGTTG
Statistics
Matches: 319, Mismatches: 61, Indels: 4
0.83 0.16 0.01
Matches are distributed among these distances:
30 1 0.00
31 317 0.99
32 1 0.00
ACGTcount: A:0.49, C:0.10, G:0.15, T:0.26
Consensus pattern (31 bp):
TGAAAAGGTTATATCCGAAACGAATATTAAA
Found at i:49205923 original size:27 final size:26
Alignment explanation
Indices: 49205857--49205923 Score: 71
Period size: 27 Copynumber: 2.5 Consensus size: 26
49205847 TGGCTATCGC
* * *
49205857 AACATAGGGAGTCCATCGGGATAGTA
1 AACATGGGGAGTCCATCGGGACAATA
* *
49205883 AACACGGGGTAGTCCATTGGGACAATA
1 AACATGGGG-AGTCCATCGGGACAATA
49205910 AACATGGGAGAGTC
1 AACATGGG-GAGTC
49205924 TGCCAGGACA
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
26 7 0.21
27 25 0.76
28 1 0.03
ACGTcount: A:0.34, C:0.16, G:0.31, T:0.18
Consensus pattern (26 bp):
AACATGGGGAGTCCATCGGGACAATA
Found at i:49206058 original size:121 final size:120
Alignment explanation
Indices: 49205831--49206085 Score: 352
Period size: 121 Copynumber: 2.1 Consensus size: 120
49205821 GAGGTTTAAG
* * *
49205831 GTGTAAGACCATAGCTTGGCTATCGCAACATAGGGAGTCCATCGGGATAGTAAACACGGGGTAGT
1 GTGTAAGACCATAGCTTGACTATCGCAACATAGAGAGTCCATCGGGACAGTAAACACGGGGTAGT
* * *
49205896 CCATTGGGACAATAAACATGGGAGAGTCTGCCAGGACATTAAACATGGGGTTACAT
66 CCACTGAGACAATAAACATGGGAGAGTCTGCCAGGACATTAAACAT-GGGTTACAA
* *
49205952 GTGTAAGACCATAGCTTGACTGTGGCAACATAGAGAG-CCTATCGGGACAGTAAACACGGGGTAG
1 GTGTAAGACCATAGCTTGACTATCGCAACATAGAGAGTCC-ATCGGGACAGTAAACACGGGGTAG
** * * *
49206016 TCTGCTGAGACAATAAACATTGGAGAGT-TCGCTAGGATATTAAACATGGGTTACAA
65 TCCACTGAGACAATAAACATGGGAGAGTCT-GCCAGGACATTAAACATGGGTTACAA
49206072 GTGTAAGACCATAG
1 GTGTAAGACCATAG
49206086 TTATGCTATG
Statistics
Matches: 119, Mismatches: 13, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
120 25 0.21
121 94 0.79
ACGTcount: A:0.33, C:0.17, G:0.28, T:0.22
Consensus pattern (120 bp):
GTGTAAGACCATAGCTTGACTATCGCAACATAGAGAGTCCATCGGGACAGTAAACACGGGGTAGT
CCACTGAGACAATAAACATGGGAGAGTCTGCCAGGACATTAAACATGGGTTACAA
Found at i:49210433 original size:19 final size:19
Alignment explanation
Indices: 49210409--49210465 Score: 77
Period size: 19 Copynumber: 3.2 Consensus size: 19
49210399 ATTATGTTTT
49210409 TATATTATATTATTATTA-A
1 TATATTATATTA-TATTATA
49210428 TATATTATATTATATTATA
1 TATATTATATTATATTATA
49210447 TATA-TATA-TATA-TATA
1 TATATTATATTATATTATA
49210463 TAT
1 TAT
49210466 CAAAAGAAAG
Statistics
Matches: 37, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.19
17 4 0.11
18 9 0.24
19 17 0.46
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (19 bp):
TATATTATATTATATTATA
Found at i:49210443 original size:10 final size:10
Alignment explanation
Indices: 49210408--49210465 Score: 66
Period size: 10 Copynumber: 5.6 Consensus size: 10
49210398 GATTATGTTT
49210408 TTATATTATA
1 TTATATTATA
49210418 TTATTATTA-A
1 TTA-TATTATA
49210428 -TATATTATA
1 TTATATTATA
49210437 TTATATTATA
1 TTATATTATA
49210447 TATATATATATA
1 T-TATAT-TATA
49210459 TATATAT
1 T-TATAT
49210466 CAAAAGAAAG
Statistics
Matches: 43, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
8 5 0.12
9 3 0.07
10 14 0.33
11 10 0.23
12 11 0.26
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (10 bp):
TTATATTATA
Found at i:49210448 original size:2 final size:2
Alignment explanation
Indices: 49210409--49210465 Score: 58
Period size: 2 Copynumber: 32.5 Consensus size: 2
49210399 ATTATGTTTT
49210409 TA TA T- TA TA T- TA T- TA T- TA -A TA TA T- TA TA T- TA TA T-
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
49210443 TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA T
49210466 CAAAAGAAAG
Statistics
Matches: 47, Mismatches: 0, Indels: 16
0.75 0.00 0.25
Matches are distributed among these distances:
1 8 0.17
2 39 0.83
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (2 bp):
TA
Found at i:49211576 original size:45 final size:45
Alignment explanation
Indices: 49211494--49211633 Score: 178
Period size: 45 Copynumber: 3.1 Consensus size: 45
49211484 TATTGCCGGC
* * *
49211494 TTACTGA-TCAGGCAC-TTATGTGCCGACTACTGTTACTGTTACTG
1 TTACTGATTCA-GCACTTTGTGTGTCGAATACTGTTACTGTTACTG
* *
49211538 TTACTGATTC-GATACTTTGTGTGTCGAATATTGTTACTGTTACTG
1 TTACTGATTCAG-CACTTTGTGTGTCGAATACTGTTACTGTTACTG
* *
49211583 TTACAGATTCAGCACTTTGTGTGTTGAATACTGTTACTGTTACTG
1 TTACTGATTCAGCACTTTGTGTGTCGAATACTGTTACTGTTACTG
49211628 TTACTG
1 TTACTG
49211634 CTACCGTTAC
Statistics
Matches: 82, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
43 1 0.01
44 9 0.11
45 71 0.87
46 1 0.01
ACGTcount: A:0.21, C:0.17, G:0.20, T:0.42
Consensus pattern (45 bp):
TTACTGATTCAGCACTTTGTGTGTCGAATACTGTTACTGTTACTG
Found at i:49211622 original size:6 final size:6
Alignment explanation
Indices: 49211611--49211652 Score: 57
Period size: 6 Copynumber: 6.8 Consensus size: 6
49211601 GTGTGTTGAA
* *
49211611 TACTGT TACTGT TACTGT TACTGC TACCGT TACTGTT TACTG
1 TACTGT TACTGT TACTGT TACTGT TACTGT TACTG-T TACTG
49211653 ATCAGGTACT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
6 25 0.81
7 6 0.19
ACGTcount: A:0.17, C:0.21, G:0.17, T:0.45
Consensus pattern (6 bp):
TACTGT
Found at i:49222069 original size:42 final size:44
Alignment explanation
Indices: 49221994--49222079 Score: 106
Period size: 42 Copynumber: 2.0 Consensus size: 44
49221984 TGTAACTATT
*
49221994 TGACTTGTGACACACGACCGTGTGCTAGACCGTGT-A-ACTCAC
1 TGACTTGTGACACACGACCGTGTACTAGACCGTGTGATACTCAC
* * *
49222036 TGACTTGAT-ACACACGATCGTGTATTAGGCCGTGTGATACTCAC
1 TGACTTG-TGACACACGACCGTGTACTAGACCGTGTGATACTCAC
49222080 ACCTAAAATA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
42 29 0.78
43 2 0.05
44 6 0.16
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.27
Consensus pattern (44 bp):
TGACTTGTGACACACGACCGTGTACTAGACCGTGTGATACTCAC
Found at i:49228903 original size:15 final size:15
Alignment explanation
Indices: 49228883--49228912 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
49228873 TAAAGATTGG
49228883 ATCAAATTGAATCAA
1 ATCAAATTGAATCAA
49228898 ATCAAATTGAATCAA
1 ATCAAATTGAATCAA
49228913 GTAACAAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.53, C:0.13, G:0.07, T:0.27
Consensus pattern (15 bp):
ATCAAATTGAATCAA
Found at i:49241392 original size:16 final size:16
Alignment explanation
Indices: 49241367--49241418 Score: 68
Period size: 16 Copynumber: 3.2 Consensus size: 16
49241357 TGGTTCACTA
*
49241367 TAATTGAATAGAGCTG
1 TAATTAAATAGAGCTG
*
49241383 TAATTAAATAGAGTTG
1 TAATTAAATAGAGCTG
* *
49241399 TAATGAAATAAAGCTG
1 TAATTAAATAGAGCTG
49241415 TAAT
1 TAAT
49241419 CAGTAATTCA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.44, C:0.04, G:0.19, T:0.33
Consensus pattern (16 bp):
TAATTAAATAGAGCTG
Found at i:49242055 original size:62 final size:62
Alignment explanation
Indices: 49241982--49242109 Score: 238
Period size: 62 Copynumber: 2.1 Consensus size: 62
49241972 GATAGGAGAA
49241982 AATTTTATTTTTTCTATTTTTTCAGTGCGGATTTTACACAACATAGGGAAATCACTATTTCT
1 AATTTTATTTTTTCTATTTTTTCAGTGCGGATTTTACACAACATAGGGAAATCACTATTTCT
* *
49242044 AATTTTCTTTTTTCTATTTTTTCAGTGCGGATTTTACACAACATGGGGAAATCACTATTTCT
1 AATTTTATTTTTTCTATTTTTTCAGTGCGGATTTTACACAACATAGGGAAATCACTATTTCT
49242106 AATT
1 AATT
49242110 GAAAAATTGA
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
62 64 1.00
ACGTcount: A:0.27, C:0.15, G:0.12, T:0.47
Consensus pattern (62 bp):
AATTTTATTTTTTCTATTTTTTCAGTGCGGATTTTACACAACATAGGGAAATCACTATTTCT
Found at i:49242124 original size:62 final size:62
Alignment explanation
Indices: 49241996--49242124 Score: 177
Period size: 62 Copynumber: 2.1 Consensus size: 62
49241986 TTATTTTTTC
****** **
49241996 TATTTTTTCAGTGCGGATTTTACACAACATAGGGAAATCACTATTTCTAATTTTCTTTTTTC
1 TATTTTTTCAGTGCGGATTTTACACAACATAGGGAAATCACTATTTCTAATTGAAAAATTGA
*
49242058 TATTTTTTCAGTGCGGATTTTACACAACATGGGGAAATCACTATTTCTAATTGAAAAATTGA
1 TATTTTTTCAGTGCGGATTTTACACAACATAGGGAAATCACTATTTCTAATTGAAAAATTGA
49242120 TATTT
1 TATTT
49242125 CTAATTCAAA
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
62 58 1.00
ACGTcount: A:0.29, C:0.14, G:0.13, T:0.43
Consensus pattern (62 bp):
TATTTTTTCAGTGCGGATTTTACACAACATAGGGAAATCACTATTTCTAATTGAAAAATTGA
Found at i:49243850 original size:41 final size:41
Alignment explanation
Indices: 49243793--49243874 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
49243783 AACGGAAAAA
49243793 GACATTTTCTAGTATACCAAAACACACTTTGATTTCATATC
1 GACATTTTCTAGTATACCAAAACACACTTTGATTTCATATC
49243834 GACATTTTCTAGTATACCAAAACACACTTTGATTTCATATC
1 GACATTTTCTAGTATACCAAAACACACTTTGATTTCATATC
49243875 TTGTGGCTTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.34, C:0.22, G:0.07, T:0.37
Consensus pattern (41 bp):
GACATTTTCTAGTATACCAAAACACACTTTGATTTCATATC
Found at i:49245773 original size:11 final size:11
Alignment explanation
Indices: 49245757--49245782 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
49245747 TTGCCTATGC
49245757 TTTTGATTTAA
1 TTTTGATTTAA
49245768 TTTTGATTTAA
1 TTTTGATTTAA
49245779 TTTT
1 TTTT
49245783 CCTCTTTTGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.23, C:0.00, G:0.08, T:0.69
Consensus pattern (11 bp):
TTTTGATTTAA
Found at i:49248199 original size:21 final size:21
Alignment explanation
Indices: 49248175--49248241 Score: 75
Period size: 21 Copynumber: 3.2 Consensus size: 21
49248165 ATAATGCTAA
49248175 TAAAAAATTTGAAATCGTTGT
1 TAAAAAATTTGAAATCGTTGT
* *
49248196 TAAAACATTTGTAAAATC--TAT
1 TAAAAAATTTG--AAATCGTTGT
*
49248217 AAAAAAATTTGAAATCGTTGT
1 TAAAAAATTTGAAATCGTTGT
49248238 TAAA
1 TAAA
49248242 GCATTTGTAA
Statistics
Matches: 36, Mismatches: 6, Indels: 8
0.72 0.12 0.16
Matches are distributed among these distances:
19 5 0.14
21 26 0.72
23 5 0.14
ACGTcount: A:0.48, C:0.06, G:0.10, T:0.36
Consensus pattern (21 bp):
TAAAAAATTTGAAATCGTTGT
Found at i:49248232 original size:42 final size:43
Alignment explanation
Indices: 49248176--49248271 Score: 176
Period size: 42 Copynumber: 2.3 Consensus size: 43
49248166 TAATGCTAAT
49248176 AAAAAATTTGAAATCGTTGTTAAAACATTTGTAAAATCTAT-A
1 AAAAAATTTGAAATCGTTGTTAAAACATTTGTAAAATCTATAA
*
49248218 AAAAAATTTGAAATCGTTGTTAAAGCATTTGTAAAATCTATAA
1 AAAAAATTTGAAATCGTTGTTAAAACATTTGTAAAATCTATAA
49248261 AAAAAATTTGA
1 AAAAAATTTGA
49248272 TATAAATTAG
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
42 40 0.77
43 12 0.23
ACGTcount: A:0.49, C:0.06, G:0.10, T:0.34
Consensus pattern (43 bp):
AAAAAATTTGAAATCGTTGTTAAAACATTTGTAAAATCTATAA
Found at i:49249950 original size:2 final size:2
Alignment explanation
Indices: 49249943--49249967 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
49249933 ATTCAATTAC
49249943 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
49249968 TTGAAAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:49254883 original size:2 final size:2
Alignment explanation
Indices: 49254876--49254904 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
49254866 AAAGTACATA
49254876 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
49254905 CCTGAGTGTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:49258708 original size:17 final size:17
Alignment explanation
Indices: 49258638--49258752 Score: 78
Period size: 17 Copynumber: 6.9 Consensus size: 17
49258628 GTCAAGTTTA
* *
49258638 GTGAGCTCGTAGTCTTG
1 GTGAGCTCGCAGTTTTG
**
49258655 GTGAGCTCATA-TATTTG
1 GTGAGCTCGCAGT-TTTG
* * *
49258672 GTGAGCTTGCAGTCTGG
1 GTGAGCTCGCAGTTTTG
*
49258689 GTGAGCTCGCACTTTTG
1 GTGAGCTCGCAGTTTTG
* *
49258706 GTGAACTCACAGTTTT-
1 GTGAGCTCGCAGTTTTG
49258722 GTAGAGCTCGCA-TATTT-
1 GT-GAGCTCGCAGT-TTTG
49258739 G-GAGCTCGCAGTTT
1 GTGAGCTCGCAGTTT
49258753 GCATGGATGG
Statistics
Matches: 77, Mismatches: 16, Indels: 12
0.73 0.15 0.11
Matches are distributed among these distances:
15 11 0.14
16 5 0.06
17 60 0.78
18 1 0.01
ACGTcount: A:0.17, C:0.18, G:0.30, T:0.35
Consensus pattern (17 bp):
GTGAGCTCGCAGTTTTG
Found at i:49266298 original size:45 final size:45
Alignment explanation
Indices: 49266226--49266350 Score: 130
Period size: 45 Copynumber: 2.8 Consensus size: 45
49266216 CTTATAGTAC
* *
49266226 TATC-GGTGAAATCAACACATAACAACCACCTTTAT-ACTCAATGG
1 TATCAGGTGAAATCAGCACATAGCAACCACCTTTATAAC-CAATGG
* * * *
49266270 TAT-AGAGTGAAATTAGCACATAGGAACCACCTATATAACCATTGG
1 TATCAG-GTGAAATCAGCACATAGCAACCACCTTTATAACCAATGG
* * *
49266315 TATCTGGTGAAATCAGTACATAGCAACTACCTTTAT
1 TATCAGGTGAAATCAGCACATAGCAACCACCTTTAT
49266351 TTTCATTAAT
Statistics
Matches: 65, Mismatches: 12, Indels: 7
0.77 0.14 0.08
Matches are distributed among these distances:
44 4 0.06
45 58 0.89
46 3 0.05
ACGTcount: A:0.38, C:0.21, G:0.14, T:0.27
Consensus pattern (45 bp):
TATCAGGTGAAATCAGCACATAGCAACCACCTTTATAACCAATGG
Found at i:49270365 original size:179 final size:179
Alignment explanation
Indices: 49270065--49270428 Score: 615
Period size: 179 Copynumber: 2.0 Consensus size: 179
49270055 TTTTGCTTAC
*
49270065 AATTTACTACAGAATCATGTTGAGTTAACTAGTCCATACCCAGAATCACATCAAATTCATTAAAT
1 AATTTACCACAGAATCATGTTGAGTTAACTAGTCCATACCCAGAATCACATCAAATTCATTAAAT
*
49270130 GGTAATAATATTAAATCAACTGGGAAACAATAACCCCGTATCATTAACGGACAATTCTTACAAAT
66 GGTAATAATATTAAATCAACCGGGAAACAATAACCCCGTATCATTAACGGACAATTCTTACAAAT
*
49270195 TTTATCCACCATCACGTA-CTGGCCTAGAGGATTTGATACTTTAACCACG
131 TTTATCCACCATCACGTACCT-GCCTAGAGGATTTGATAATTTAACCACG
* *
49270244 AATTTACCACA-ACATCATGTTGAGTTAACTAGTCCATACCTAGAATCATATCAAATTCATTAAA
1 AATTTACCACAGA-ATCATGTTGAGTTAACTAGTCCATACCCAGAATCACATCAAATTCATTAAA
*
49270308 TTGTAATAATATTAAATCAACCGGGAAACAATAACCCCGTATCATTAACGGACAATTCTTACAAA
65 TGGTAATAATATTAAATCAACCGGGAAACAATAACCCCGTATCATTAACGGACAATTCTTACAAA
* * *
49270373 TTTTATCCACCATCACGTACCTGCCTAGGGGGTTTGATAATTTAACTACG
130 TTTTATCCACCATCACGTACCTGCCTAGAGGATTTGATAATTTAACCACG
49270423 AATTTA
1 AATTTA
49270429 GTGGACTCAA
Statistics
Matches: 174, Mismatches: 9, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
178 1 0.01
179 171 0.98
180 2 0.01
ACGTcount: A:0.37, C:0.21, G:0.12, T:0.30
Consensus pattern (179 bp):
AATTTACCACAGAATCATGTTGAGTTAACTAGTCCATACCCAGAATCACATCAAATTCATTAAAT
GGTAATAATATTAAATCAACCGGGAAACAATAACCCCGTATCATTAACGGACAATTCTTACAAAT
TTTATCCACCATCACGTACCTGCCTAGAGGATTTGATAATTTAACCACG
Found at i:49271077 original size:17 final size:17
Alignment explanation
Indices: 49271047--49271080 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
49271037 AGCTTGTCTT
49271047 TTCTCTTTACTAAGCTC
1 TTCTCTTTACTAAGCTC
49271064 TTCTGCTTTA-TAAGCTC
1 TTCT-CTTTACTAAGCTC
49271081 AATCAACCAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.18, C:0.26, G:0.09, T:0.47
Consensus pattern (17 bp):
TTCTCTTTACTAAGCTC
Found at i:49282157 original size:51 final size:52
Alignment explanation
Indices: 49282081--49282199 Score: 195
Period size: 52 Copynumber: 2.3 Consensus size: 52
49282071 GTGGCCCACG
* *
49282081 CATAGTACCACCCTTGTAGCCAAAGCTA-CCTTCTTCACAAAGTGACCTTCA
1 CATAGTACCACACTTGTAACCAAAGCTATCCTTCTTCACAAAGTGACCTTCA
* *
49282132 CATAGTACCACACTTGTAACCAAAGCTATCTTTCTTCACAAAGTGGCCTTCA
1 CATAGTACCACACTTGTAACCAAAGCTATCCTTCTTCACAAAGTGACCTTCA
49282184 CATAGTACCACACTTG
1 CATAGTACCACACTTG
49282200 AGTCACTAGT
Statistics
Matches: 63, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
51 26 0.41
52 37 0.59
ACGTcount: A:0.30, C:0.31, G:0.12, T:0.27
Consensus pattern (52 bp):
CATAGTACCACACTTGTAACCAAAGCTATCCTTCTTCACAAAGTGACCTTCA
Found at i:49289451 original size:39 final size:39
Alignment explanation
Indices: 49289389--49289473 Score: 134
Period size: 39 Copynumber: 2.2 Consensus size: 39
49289379 AGCCATAAAT
*
49289389 AACATTCTTTAATCAACAGAATTTCCTATCAATCAAGAA
1 AACAATCTTTAATCAACAGAATTTCCTATCAATCAAGAA
* * *
49289428 AACAATCTTTATTCAACATAATTTCCTATCAATCAAGCA
1 AACAATCTTTAATCAACAGAATTTCCTATCAATCAAGAA
49289467 AACAATC
1 AACAATC
49289474 ACAAGGTTGA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 42 1.00
ACGTcount: A:0.44, C:0.22, G:0.04, T:0.31
Consensus pattern (39 bp):
AACAATCTTTAATCAACAGAATTTCCTATCAATCAAGAA
Found at i:49290307 original size:24 final size:26
Alignment explanation
Indices: 49290259--49290307 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
49290249 ACATTCATTT
*
49290259 ATTAAAACATACTTATGAAAGAAATG
1 ATTAAAACATACTTATGAAAAAAATG
49290285 ATTAAAACATAC-T-TGAAAAAAAT
1 ATTAAAACATACTTATGAAAAAAAT
49290308 TTAAACTTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 9 0.41
25 1 0.05
26 12 0.55
ACGTcount: A:0.57, C:0.08, G:0.08, T:0.27
Consensus pattern (26 bp):
ATTAAAACATACTTATGAAAAAAATG
Found at i:49297219 original size:52 final size:51
Alignment explanation
Indices: 49297100--49297229 Score: 190
Period size: 52 Copynumber: 2.5 Consensus size: 51
49297090 ACGGATACCC
* *
49297100 AGTGGCCTGCACATAGTACCACCCTTGTAGCCAAAGCTACCTTCTTCACAA
1 AGTGGCCTTCACATAGTACCACACTTGTAGCCAAAGCTACCTTCTTCACAA
* * *
49297151 ACTGACCTTCACATAGTACCACACTTGT-GACCAAAGCTATCTTTCTTCACAA
1 AGTGGCCTTCACATAGTACCACACTTGTAG-CCAAAGCTA-CCTTCTTCACAA
49297203 AGTGGCCTTCACATAGTACCACACTTG
1 AGTGGCCTTCACATAGTACCACACTTG
49297230 AGTCACTAGT
Statistics
Matches: 70, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
50 1 0.01
51 33 0.47
52 36 0.51
ACGTcount: A:0.28, C:0.32, G:0.14, T:0.26
Consensus pattern (51 bp):
AGTGGCCTTCACATAGTACCACACTTGTAGCCAAAGCTACCTTCTTCACAA
Found at i:49304934 original size:66 final size:66
Alignment explanation
Indices: 49304828--49304976 Score: 255
Period size: 66 Copynumber: 2.3 Consensus size: 66
49304818 AAGGAGGTGT
* * *
49304828 TAGCAACGACATACTCATTTAGGCATACATTACCTTACACATATATACATTTTAAGATAATTTGA
1 TAGCAACCACATACTCATTTAGGCATACATCACATTACACATATATACATTTTAAGATAATTTGA
49304893 A
66 A
*
49304894 TAGCAACCACATACTCATTTAGGCATACATCACATTACACATATATACATTTTAAGATAATTTGC
1 TAGCAACCACATACTCATTTAGGCATACATCACATTACACATATATACATTTTAAGATAATTTGA
49304959 A
66 A
49304960 TAGCAACCACATA-TCAT
1 TAGCAACCACATACTCAT
49304977 ATAATCTCAT
Statistics
Matches: 79, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
65 4 0.05
66 75 0.95
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.32
Consensus pattern (66 bp):
TAGCAACCACATACTCATTTAGGCATACATCACATTACACATATATACATTTTAAGATAATTTGA
A
Found at i:49306267 original size:10 final size:10
Alignment explanation
Indices: 49306254--49306282 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
49306244 AAAATTCATT
49306254 AAATCCTTAG
1 AAATCCTTAG
49306264 AAATCCTTAG
1 AAATCCTTAG
49306274 AAATCCTTA
1 AAATCCTTA
49306283 AAAAAAACTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.41, C:0.21, G:0.07, T:0.31
Consensus pattern (10 bp):
AAATCCTTAG
Found at i:49312088 original size:32 final size:31
Alignment explanation
Indices: 49312043--49312138 Score: 174
Period size: 31 Copynumber: 3.1 Consensus size: 31
49312033 CTTAGATGAT
49312043 TTTAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
49312074 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
1 TTTAAAGAG-TTTTATTAGGATTCAATTACTC
*
49312106 TTGAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
49312137 TT
1 TT
49312139 GTAATTTGCC
Statistics
Matches: 63, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
31 33 0.52
32 30 0.48
ACGTcount: A:0.31, C:0.09, G:0.14, T:0.46
Consensus pattern (31 bp):
TTTAAAGAGTTTTATTAGGATTCAATTACTC
Found at i:49313321 original size:62 final size:59
Alignment explanation
Indices: 49313233--49313366 Score: 180
Period size: 62 Copynumber: 2.2 Consensus size: 59
49313223 TCCAAAAATA
* * * * *
49313233 ATATTATTTTAAT-ATATTTAATATTAAATTTAATTTAATTTTTATCTTATAGACAAATATT
1 ATATTAATTTAATAAGATTTAATATTAAATTTAATCTAATATTCATCTTA-AG--AAATATT
*
49313294 CTATTAATTTAATAAGATTTAATATTAAATTTAATCTAATATTCATCTTAAGAAATATT
1 ATATTAATTTAATAAGATTTAATATTAAATTTAATCTAATATTCATCTTAAGAAATATT
49313353 ATATTAATTTAATA
1 ATATTAATTTAATA
49313367 TTAAAGTGAT
Statistics
Matches: 65, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
59 20 0.31
61 13 0.20
62 32 0.49
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.50
Consensus pattern (59 bp):
ATATTAATTTAATAAGATTTAATATTAAATTTAATCTAATATTCATCTTAAGAAATATT
Found at i:49317416 original size:15 final size:15
Alignment explanation
Indices: 49317396--49317426 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
49317386 TGAACCCGAT
*
49317396 ATGGAAGAGGCCCAA
1 ATGGAACAGGCCCAA
49317411 ATGGAACAGGCCCAA
1 ATGGAACAGGCCCAA
49317426 A
1 A
49317427 AGCCCCTCAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.42, C:0.23, G:0.29, T:0.06
Consensus pattern (15 bp):
ATGGAACAGGCCCAA
Found at i:49320046 original size:51 final size:49
Alignment explanation
Indices: 49319988--49320151 Score: 171
Period size: 51 Copynumber: 3.3 Consensus size: 49
49319978 TTCAATTCAA
49319988 TTCAATCCAATTCATCATCAACACACAAATATTTCATATAATATAACATGT
1 TTCAATCC-ATTC-TCATCAACACACAAATATTTCATATAATATAACATGT
** * *
49320039 TTCAATCCATTCTCAT-ATTACACATCAAAT-GCTCATTTCAAT-T--CA--A
1 TTCAATCCATTCTCATCA--ACACA-CAAATATTTCATAT-AATATAACATGT
49320085 TTCAATCCAATTCATCATCAACACACAAATATTTCATATAATATAACATGT
1 TTCAATCC-ATTC-TCATCAACACACAAATATTTCATATAATATAACATGT
49320136 TTCAATCCATTCTCAT
1 TTCAATCCATTCTCAT
49320152 ATTACACATC
Statistics
Matches: 92, Mismatches: 8, Indels: 28
0.72 0.06 0.22
Matches are distributed among these distances:
46 16 0.17
47 15 0.16
48 7 0.08
49 11 0.12
50 19 0.21
51 24 0.26
ACGTcount: A:0.39, C:0.24, G:0.02, T:0.35
Consensus pattern (49 bp):
TTCAATCCATTCTCATCAACACACAAATATTTCATATAATATAACATGT
Found at i:49320087 original size:97 final size:97
Alignment explanation
Indices: 49319974--49320167 Score: 388
Period size: 97 Copynumber: 2.0 Consensus size: 97
49319964 TTATCTCATT
49319974 TCATTTCAATTCAATTCAATCCAATTCATCATCAACACACAAATATTTCATATAATATAACATGT
1 TCATTTCAATTCAATTCAATCCAATTCATCATCAACACACAAATATTTCATATAATATAACATGT
49320039 TTCAATCCATTCTCATATTACACATCAAATGC
66 TTCAATCCATTCTCATATTACACATCAAATGC
49320071 TCATTTCAATTCAATTCAATCCAATTCATCATCAACACACAAATATTTCATATAATATAACATGT
1 TCATTTCAATTCAATTCAATCCAATTCATCATCAACACACAAATATTTCATATAATATAACATGT
49320136 TTCAATCCATTCTCATATTACACATCAAATGC
66 TTCAATCCATTCTCATATTACACATCAAATGC
49320168 CCACTAAATA
Statistics
Matches: 97, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
97 97 1.00
ACGTcount: A:0.39, C:0.24, G:0.02, T:0.35
Consensus pattern (97 bp):
TCATTTCAATTCAATTCAATCCAATTCATCATCAACACACAAATATTTCATATAATATAACATGT
TTCAATCCATTCTCATATTACACATCAAATGC
Found at i:49320089 original size:46 final size:48
Alignment explanation
Indices: 49320021--49320167 Score: 126
Period size: 46 Copynumber: 3.0 Consensus size: 48
49320011 CACAAATATT
*
49320021 TCATATAATATAACATGTTTCAATCCATTCTCATATTACACATCAAATGC
1 TCATATAATAT-ACA-GATTCAATCCATTCTCATATTACACATCAAATGC
* **
49320071 TCATTTCAAT-T-CA-ATTCAATCCAATTCATCATCA--ACACA-CAAATATT
1 TCATAT-AATATACAGATTCAATCC-ATTC-TCAT-ATTACACATCAAAT-GC
*
49320118 TCATATAATATAACATGTTTCAATCCATTCTCATATTACACATCAAATGC
1 TCATATAATAT-ACA-GATTCAATCCATTCTCATATTACACATCAAATGC
49320168 CCACTAAATA
Statistics
Matches: 76, Mismatches: 8, Indels: 26
0.69 0.07 0.24
Matches are distributed among these distances:
46 16 0.21
47 15 0.20
48 7 0.09
49 7 0.09
50 15 0.20
51 16 0.21
ACGTcount: A:0.39, C:0.23, G:0.03, T:0.35
Consensus pattern (48 bp):
TCATATAATATACAGATTCAATCCATTCTCATATTACACATCAAATGC
Found at i:49322558 original size:35 final size:33
Alignment explanation
Indices: 49322503--49322574 Score: 83
Period size: 35 Copynumber: 2.1 Consensus size: 33
49322493 TTAATTTATG
*
49322503 TTTGCATATTTTTATTATTATCTTGTCTATTTA
1 TTTGCATATTTTTATTATTATCTTATCTATTTA
* *
49322536 TTTG-ATATTTTTCATGTCATTATTTTATTTATTTA
1 TTTGCATATTTTT-AT-T-ATTATCTTATCTATTTA
49322571 TTTG
1 TTTG
49322575 TTTATTCATA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
32 8 0.24
33 6 0.18
34 1 0.03
35 18 0.55
ACGTcount: A:0.21, C:0.07, G:0.07, T:0.65
Consensus pattern (33 bp):
TTTGCATATTTTTATTATTATCTTATCTATTTA
Found at i:49334389 original size:44 final size:43
Alignment explanation
Indices: 49334341--49335111 Score: 339
Period size: 44 Copynumber: 17.8 Consensus size: 43
49334331 TAACAGATCG
*
49334341 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCGGACTAAGTAAGCA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAG-AAGCA
* * *
49334385 AGTCTTATC-CTCCAGAAGTTGCAGT-GAGGCAGACTGAAGATGGAA
1 AGTCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGACT-AAGA-AGCA
* * * ** *
49334430 AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGCCGGTA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAG-AAGCA
* ** * * *
49334475 A-TCCTATCTTGCTGAAGTTGCAGTGG-GCAGATTAA-AACCTT
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGC-A
* * * * * * * *
49334516 AGATCTTATCTCTCTGAAATTGCAG-AGATCAGA-T-CGCATCT
1 AG-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGCA
*
49334557 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCGGACTAAGTAAGCA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAG-AAGCA
* * *
49334601 AGTCTTATC-CTCCTGAAGTTGCAGTGAAGCAAACTGAAGATGGCA
1 AGTCTTATCTC-CCTGAAGTTGCAGTGGAGCAGACT-AAGA-AGCA
* * ** *
49334646 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGGTA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAG-AAGCA
* * * * * * * *
49334691 A-TCCTATTTCGCTAAAGTTGCAGTGG-GCGGATTAA-AACCTT
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGC-A
* * * * * * * * *
49334732 AGATCTTATCTCTCTGAAATGGCAG-AGAGTAGA-T-CGCATCT
1 AG-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGCA
* *
49334773 AGTCTTATCTCCCTGAAGTTGTAGTGGAGCGGACTAAGTAAGCA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAG-AAGCA
*
49334817 AGTCTTATC-CTCCTGAAGTTGCAGT-GAGGCAGACTGAAGATGGCA
1 AGTCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGACT-AAGA-AGCA
* * * * ** *
49334862 AATCTTATCTCCCTGAAATTGTAGTGGAGCAGATTAAAGTCGGTA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAG-AAGCA
* ** * * * * * *
49334907 A-TCCTATCTTGCTGAAGTTTCAGTGG-GCGGATTAAAAACCTC
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGC-A
* * * * * *
49334949 AGATCTTATCTCTCTGAAGTTGCAG-AGAGCAGA-TCA-CATCG
1 AG-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGCA
*
49334990 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAAACA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAG-AAGCA
* * *
49335034 AGTCTTATC-CTCCTGAAGTTGCAGT-AAGGTAGACTGAAGATGGCA
1 AGTCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGACT-AAGA-AGCA
* ** * *
49335079 AATCTTATCTCTTTAAAGTTGCAGAGGAGCAGA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
49335112 TTAAAGCCGA
Statistics
Matches: 544, Mismatches: 132, Indels: 101
0.70 0.17 0.13
Matches are distributed among these distances:
40 59 0.11
41 27 0.05
42 21 0.04
43 74 0.14
44 208 0.38
45 146 0.27
46 9 0.02
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.27
Consensus pattern (43 bp):
AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGCA
Found at i:49334715 original size:216 final size:216
Alignment explanation
Indices: 49334341--49335229 Score: 1388
Period size: 216 Copynumber: 4.1 Consensus size: 216
49334331 TAACAGATCG
*
49334341 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCGGACTAAGTAAGCAAGTCTTATCCTCCAGAAGTTG
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCGGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTG
* * *
49334406 CAGTGAGGCAGACTGAAGATGGAAAATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGCC
66 CAGTGAAGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCC
*
49334471 GGTAATCCTATCTTGCTGAAGTTGCAGTGGGCAGATTAAAACCTTAGATCTTATCTCTCTGAAAT
131 GGTAATCCTATCTTGCTGAAGTTGCAGTGGGCGGATTAAAACCTTAGATCTTATCTCTCTGAAAT
*
49334536 TGCAGAGATCAGATCGCATCT
196 TGCAGAGAGCAGATCGCATCT
49334557 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCGGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTG
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCGGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTG
*
49334622 CAGTGAAGCAAACTGAAGATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCC
66 CAGTGAAGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCC
*
49334687 GGTAATCCTAT-TTCGCTAAAGTTGCAGTGGGCGGATTAAAACCTTAGATCTTATCTCTCTGAAA
131 GGTAATCCTATCTT-GCTGAAGTTGCAGTGGGCGGATTAAAACCTTAGATCTTATCTCTCTGAAA
* *
49334751 TGGCAGAGAGTAGATCGCATCT
195 TTGCAGAGAGCAGATCGCATCT
*
49334773 AGTCTTATCTCCCTGAAGTTGTAGTGGAGCGGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTG
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCGGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTG
* * * *
49334838 CAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAATTGTAGTGGAGCAGATTAAAGTC
66 CAGTGAAGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCC
* * *
49334903 GGTAATCCTATCTTGCTGAAGTTTCAGTGGGCGGATTAAAAACCTCAGATCTTATCTCTCTGAAG
131 GGTAATCCTATCTTGCTGAAGTTGCAGTGGGCGGATT-AAAACCTTAGATCTTATCTCTCTGAAA
* *
49334968 TTGCAGAGAGCAGATCACATCG
195 TTGCAGAGAGCAGATCGCATCT
* * *
49334990 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAAACAAGTCTTATCCTCCTGAAGTTG
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCGGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTG
* ** * *
49335055 CAGT-AAGGTAGACTGAAGATGGCAAATCTTATCTCTTTAAAGTTGCAGAGGAGCAGATTAAAGC
66 CAGTGAA-GCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGC
* * * * * *
49335119 CGATAATCCTATCTTCCTGAAGTTGTAGTAGAGTGGATTAAAACCTTGGATCTTATCTCTCT-AA
130 CGGTAATCCTATCTTGCTGAAGTTGCAGT-GGGCGGATTAAAACCTTAGATCTTATCTCTCTGAA
*
49335183 AGTTGCAGAGAGCAGATCGCATTT
194 A-TTGCAGAGAGCAGATCGCATCT
*
49335207 AGTCTTATCTCCTTGAAGTTGCA
1 AGTCTTATCTCCCTGAAGTTGCA
49335230 CCAGAAGCAG
Statistics
Matches: 617, Mismatches: 50, Indels: 11
0.91 0.07 0.02
Matches are distributed among these distances:
215 2 0.00
216 362 0.59
217 246 0.40
218 7 0.01
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.28
Consensus pattern (216 bp):
AGTCTTATCTCCCTGAAGTTGCAGTGGAGCGGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTG
CAGTGAAGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCC
GGTAATCCTATCTTGCTGAAGTTGCAGTGGGCGGATTAAAACCTTAGATCTTATCTCTCTGAAAT
TGCAGAGAGCAGATCGCATCT
Found at i:49336952 original size:9 final size:9
Alignment explanation
Indices: 49336938--49336968 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
49336928 GTTAAACGAA
49336938 TCGAGTTAT
1 TCGAGTTAT
*
49336947 TCGAGTTAA
1 TCGAGTTAT
49336956 TCGAGTTAT
1 TCGAGTTAT
49336965 TCGA
1 TCGA
49336969 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:49337039 original size:9 final size:9
Alignment explanation
Indices: 49337022--49337058 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
49337012 TGAGTTTTCA
49337022 AATTCGAAT
1 AATTCGAAT
*
49337031 AACTCGAAT
1 AATTCGAAT
49337040 AATTCGAAT
1 AATTCGAAT
49337049 AATTCGAAT
1 AATTCGAAT
49337058 A
1 A
49337059 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:49340774 original size:2 final size:2
Alignment explanation
Indices: 49340767--49340798 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
49340757 TCCAAACAAA
49340767 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
49340799 TCACATTTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:49342072 original size:31 final size:31
Alignment explanation
Indices: 49342018--49342088 Score: 90
Period size: 31 Copynumber: 2.3 Consensus size: 31
49342008 ATAAACTAAT
49342018 TTTTACAAAATTCTAAAATATATAAATATAAA
1 TTTTA-AAAATTCTAAAATATATAAATATAAA
* *
49342050 TTTTAAAAGTTC-AAAATAATATATATATAAA
1 TTTTAAAAATTCTAAAAT-ATATAAATATAAA
*
49342081 TTGTAAAA
1 TTTTAAAA
49342089 TTTTATAATT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
30 5 0.14
31 25 0.71
32 5 0.14
ACGTcount: A:0.55, C:0.04, G:0.03, T:0.38
Consensus pattern (31 bp):
TTTTAAAAATTCTAAAATATATAAATATAAA
Found at i:49342115 original size:28 final size:28
Alignment explanation
Indices: 49342086--49342152 Score: 82
Period size: 27 Copynumber: 2.4 Consensus size: 28
49342076 ATAAATTGTA
* *
49342086 AAATTTTATAATTCAAAAAAGG-TATTT
1 AAATTTTAAAATTCAAAAAAGGATACTT
* *
49342113 AAATTTAAAAATTGAAAAAAGGATACTT
1 AAATTTTAAAATTCAAAAAAGGATACTT
49342141 AAATTTTCAAAA
1 AAATTTT-AAAA
49342153 ATATATAATT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
27 19 0.58
28 10 0.30
29 4 0.12
ACGTcount: A:0.54, C:0.04, G:0.07, T:0.34
Consensus pattern (28 bp):
AAATTTTAAAATTCAAAAAAGGATACTT
Found at i:49342364 original size:7 final size:7
Alignment explanation
Indices: 49342352--49342387 Score: 72
Period size: 7 Copynumber: 5.1 Consensus size: 7
49342342 TTAAAATTAT
49342352 TTATATA
1 TTATATA
49342359 TTATATA
1 TTATATA
49342366 TTATATA
1 TTATATA
49342373 TTATATA
1 TTATATA
49342380 TTATATA
1 TTATATA
49342387 T
1 T
49342388 GATTTTTACA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (7 bp):
TTATATA
Found at i:49342554 original size:16 final size:16
Alignment explanation
Indices: 49342516--49342568 Score: 63
Period size: 17 Copynumber: 3.3 Consensus size: 16
49342506 AGTCAAATGT
*
49342516 ATTTTTTAATA-TTTA
1 ATTTTTTAAAATTTTA
* *
49342531 AATATTTAAAATTTTA
1 ATTTTTTAAAATTTTA
49342547 ATTTTTTAAAAATTTTA
1 ATTTTTT-AAAATTTTA
49342564 ATTTT
1 ATTTT
49342569 ATTTTTATTT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
15 8 0.26
16 9 0.29
17 14 0.45
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
ATTTTTTAAAATTTTA
Found at i:49343419 original size:20 final size:22
Alignment explanation
Indices: 49343396--49343441 Score: 71
Period size: 20 Copynumber: 2.2 Consensus size: 22
49343386 ATAAAAATGC
49343396 ATAAAT-AATTTTAAAAAATA-
1 ATAAATAAATTTTAAAAAATAT
49343416 AT-AATAAATTTTAAAAAATAT
1 ATAAATAAATTTTAAAAAATAT
49343437 ATAAA
1 ATAAA
49343442 CATAAAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
19 3 0.13
20 16 0.70
21 2 0.09
22 2 0.09
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (22 bp):
ATAAATAAATTTTAAAAAATAT
Found at i:49346546 original size:27 final size:29
Alignment explanation
Indices: 49346492--49346556 Score: 80
Period size: 27 Copynumber: 2.3 Consensus size: 29
49346482 AATTAAAATT
* *
49346492 TATTAGTATATATATTTAAAATAATTATG
1 TATTATTATATATATTTAAAATAATTATA
* *
49346521 TATTCTTATATAT-TTTAAAAT-TTTATA
1 TATTATTATATATATTTAAAATAATTATA
49346548 TATTATTAT
1 TATTATTAT
49346557 TTTCAACAGT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 12 0.39
28 8 0.26
29 11 0.35
ACGTcount: A:0.40, C:0.02, G:0.03, T:0.55
Consensus pattern (29 bp):
TATTATTATATATATTTAAAATAATTATA
Found at i:49346607 original size:22 final size:22
Alignment explanation
Indices: 49346484--49346607 Score: 85
Period size: 23 Copynumber: 5.3 Consensus size: 22
49346474 AAAATTAAAA
*
49346484 TTAAAATTTATTAGTATATATAT
1 TTAAAATTTATTATTATATAT-T
49346507 TTAAAATAATTATGTATTCTTATATATT
1 TTAAAAT--TTAT-TA---TTATATATT
49346535 TTAAAATTTTATATATTAT-TATT
1 TTAAAA-TTTAT-TATTATATATT
* *
49346558 TTCAACAGTT-TT-TTATATATT
1 TT-AAAATTTATTATTATATATT
*
49346579 TTTAAATTTATTATTATAT-TT
1 TTAAAATTTATTATTATATATT
49346600 TTGAAAAT
1 TT-AAAAT
49346608 ATTTATGTGG
Statistics
Matches: 81, Mismatches: 8, Indels: 25
0.71 0.07 0.22
Matches are distributed among these distances:
20 8 0.10
21 13 0.16
22 11 0.14
23 15 0.19
24 7 0.09
25 4 0.05
26 2 0.02
27 6 0.07
28 7 0.09
29 8 0.10
ACGTcount: A:0.38, C:0.02, G:0.03, T:0.56
Consensus pattern (22 bp):
TTAAAATTTATTATTATATATT
Found at i:49346610 original size:20 final size:20
Alignment explanation
Indices: 49346573--49346610 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
49346563 CAGTTTTTTA
*
49346573 TATATTTTTAAATTTATTAT
1 TATATTTTTAAATATATTAT
49346593 TATATTTTTGAAA-ATATT
1 TATATTTTT-AAATATATT
49346611 TATGTGGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 13 0.81
21 3 0.19
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.61
Consensus pattern (20 bp):
TATATTTTTAAATATATTAT
Found at i:49355549 original size:25 final size:25
Alignment explanation
Indices: 49355521--49355572 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
49355511 ATAATTGGGT
* *
49355521 AGCTCTTCCGAGCCATATATCAGGA
1 AGCTCATCCGAGCCATATAACAGGA
**
49355546 AGCTCATGTGAGCCATATAACAGGA
1 AGCTCATCCGAGCCATATAACAGGA
49355571 AG
1 AG
49355573 TTCAAGCGAG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.33, C:0.23, G:0.23, T:0.21
Consensus pattern (25 bp):
AGCTCATCCGAGCCATATAACAGGA
Found at i:49355583 original size:25 final size:25
Alignment explanation
Indices: 49355529--49355624 Score: 79
Period size: 24 Copynumber: 3.9 Consensus size: 25
49355519 GTAGCTCTTC
* *
49355529 CGAGCCATATATCAGGAAGCTCATG
1 CGAGCCATATAACAGGAAGCTCAAG
* *
49355554 TGAGCCATATAACAGGAAGTTCAAG
1 CGAGCCATATAACAGGAAGCTCAAG
* * * **
49355579 CGAGCCA-ACATCGGGAAGCTCTGG
1 CGAGCCATATAACAGGAAGCTCAAG
* *
49355603 AGAGCCAT-TAACGGGAAGCTCA
1 CGAGCCATATAACAGGAAGCTCA
49355625 TAAGAGCCAT
Statistics
Matches: 55, Mismatches: 15, Indels: 3
0.75 0.21 0.04
Matches are distributed among these distances:
24 28 0.51
25 27 0.49
ACGTcount: A:0.33, C:0.23, G:0.27, T:0.17
Consensus pattern (25 bp):
CGAGCCATATAACAGGAAGCTCAAG
Found at i:49355607 original size:24 final size:24
Alignment explanation
Indices: 49355580--49355731 Score: 98
Period size: 25 Copynumber: 6.2 Consensus size: 24
49355570 AAGTTCAAGC
* *
49355580 GAGCCAACATCGGGAAGCTCTGGA
1 GAGCCAATATCGGGAAGCTCTGAA
* *
49355604 GAGCCATTAACGGGAAGCTCAT-AA
1 GAGCCAATATCGGGAAGCTC-TGAA
*
49355628 GAGCCATTTATCGGGAAGCTCTGAA
1 GAGCCA-ATATCGGGAAGCTCTGAA
* *
49355653 GAGCCAAATAAT-GGAAAGCTCCGAA
1 GAGCC-AAT-ATCGGGAAGCTCTGAA
*
49355678 GAGCCAAATAAT-GGAAAGCTCGTG-A
1 GAGCC-AAT-ATCGGGAAGCTC-TGAA
* *
49355703 GAGCCAAATATCAGGACA-CTCAGAA
1 GAGCC-AATATCGGGA-AGCTCTGAA
49355728 GAGC
1 GAGC
49355732 TGCGGTGTGT
Statistics
Matches: 107, Mismatches: 12, Indels: 17
0.79 0.09 0.12
Matches are distributed among these distances:
24 28 0.26
25 74 0.69
26 5 0.05
ACGTcount: A:0.37, C:0.21, G:0.27, T:0.15
Consensus pattern (24 bp):
GAGCCAATATCGGGAAGCTCTGAA
Found at i:49355608 original size:49 final size:50
Alignment explanation
Indices: 49355529--49355663 Score: 143
Period size: 49 Copynumber: 2.7 Consensus size: 50
49355519 GTAGCTCTTC
* * *
49355529 CGAGCCATATATCAGGAAGCTCAT-GTGAGCCATATAACAGGAAGTTCA-A
1 CGAGCCATATATCGGGAAGCTC-TGGAGAGCCATATAACAGGAAGCTCATA
* *
49355578 GCGAGCCA-ACATCGGGAAGCTCTGGAGAGCCAT-TAACGGGAAGCTCATA
1 -CGAGCCATATATCGGGAAGCTCTGGAGAGCCATATAACAGGAAGCTCATA
* * * *
49355627 AGAGCCATTTATCGGGAAGCTCTGAAGAGCCAAATAA
1 CGAGCCATATATCGGGAAGCTCTGGAGAGCCATATAA
49355664 TGGAAAGCTC
Statistics
Matches: 71, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
48 19 0.27
49 42 0.59
50 10 0.14
ACGTcount: A:0.35, C:0.21, G:0.26, T:0.18
Consensus pattern (50 bp):
CGAGCCATATATCGGGAAGCTCTGGAGAGCCATATAACAGGAAGCTCATA
Found at i:49355647 original size:25 final size:24
Alignment explanation
Indices: 49355588--49355658 Score: 99
Period size: 25 Copynumber: 2.9 Consensus size: 24
49355578 GCGAGCCAAC
*
49355588 ATCGGGAAGCTCTGGAGAGCCATT
1 ATCGGGAAGCTCTGAAGAGCCATT
*
49355612 AACGGGAAGCTCAT-AAGAGCCATTT
1 ATCGGGAAGCTC-TGAAGAGCCA-TT
49355637 ATCGGGAAGCTCTGAAGAGCCA
1 ATCGGGAAGCTCTGAAGAGCCA
49355659 AATAATGGAA
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
24 19 0.46
25 22 0.54
ACGTcount: A:0.31, C:0.21, G:0.30, T:0.18
Consensus pattern (24 bp):
ATCGGGAAGCTCTGAAGAGCCATT
Found at i:49355671 original size:25 final size:25
Alignment explanation
Indices: 49355643--49355712 Score: 115
Period size: 25 Copynumber: 2.8 Consensus size: 25
49355633 ATTTATCGGG
49355643 AAGCTCTGAAGAGCCAAATAATGGA
1 AAGCTCTGAAGAGCCAAATAATGGA
*
49355668 AAGCTCCGAAGAGCCAAATAATGGA
1 AAGCTCTGAAGAGCCAAATAATGGA
49355693 AAGCTCGTG-AGAGCCAAATA
1 AAGCTC-TGAAGAGCCAAATA
49355713 TCAGGACACT
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
25 41 0.98
26 1 0.02
ACGTcount: A:0.43, C:0.19, G:0.24, T:0.14
Consensus pattern (25 bp):
AAGCTCTGAAGAGCCAAATAATGGA
Found at i:49359257 original size:22 final size:22
Alignment explanation
Indices: 49359232--49359280 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
49359222 ACTTTGGTAA
* *
49359232 TCTCTAATCAGCACTTCGGTGC
1 TCTCTAATCAGCACTACGATGC
* *
49359254 TCTCTACTTAGCACTACGATGC
1 TCTCTAATCAGCACTACGATGC
49359276 TCTCT
1 TCTCT
49359281 GGTGTGGCGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.18, C:0.33, G:0.14, T:0.35
Consensus pattern (22 bp):
TCTCTAATCAGCACTACGATGC
Found at i:49360501 original size:7 final size:7
Alignment explanation
Indices: 49360489--49360520 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
49360479 AAAATATATT
49360489 TTTTTAA
1 TTTTTAA
49360496 TTTTTAA
1 TTTTTAA
49360503 TTTTTAA
1 TTTTTAA
49360510 -TTTTAA
1 TTTTTAA
49360516 TTTTT
1 TTTTT
49360521 TTCTTTTTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.25
7 18 0.75
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (7 bp):
TTTTTAA
Found at i:49360513 original size:13 final size:14
Alignment explanation
Indices: 49360489--49360520 Score: 57
Period size: 13 Copynumber: 2.4 Consensus size: 14
49360479 AAAATATATT
49360489 TTTTTAATTTTTAA
1 TTTTTAATTTTTAA
49360503 TTTTTAA-TTTTAA
1 TTTTTAATTTTTAA
49360516 TTTTT
1 TTTTT
49360521 TTCTTTTTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 11 0.61
14 7 0.39
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (14 bp):
TTTTTAATTTTTAA
Found at i:49361416 original size:16 final size:16
Alignment explanation
Indices: 49361397--49361455 Score: 57
Period size: 16 Copynumber: 3.6 Consensus size: 16
49361387 TTTTTAACAT
*
49361397 ATATAATATATATTAA
1 ATATTATATATATTAA
* *
49361413 ATATTATTTGTATT-A
1 ATATTATATATATTAA
49361428 ATATTATATACTATTAAA
1 ATATTATATA-TATT-AA
49361446 ATATTCATAT
1 ATATT-ATAT
49361456 TTTTATATTA
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
15 9 0.26
16 15 0.44
18 6 0.18
19 4 0.12
ACGTcount: A:0.46, C:0.03, G:0.02, T:0.49
Consensus pattern (16 bp):
ATATTATATATATTAA
Found at i:49361464 original size:32 final size:30
Alignment explanation
Indices: 49361396--49361467 Score: 76
Period size: 32 Copynumber: 2.3 Consensus size: 30
49361386 ATTTTTAACA
*
49361396 TATATAATATATATTAAATATTATTTGTAT
1 TATATTATATATATTAAATATTATTTGTAT
49361426 TAATATTATATACTATTAAAATATTCATATT-T-T
1 T-ATATTATATA-TATT-AAATATT-AT-TTGTAT
49361459 TATATTATA
1 TATATTATA
49361468 AAAATTAATT
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
30 1 0.03
31 9 0.25
32 12 0.33
33 9 0.25
34 3 0.08
35 2 0.06
ACGTcount: A:0.43, C:0.03, G:0.01, T:0.53
Consensus pattern (30 bp):
TATATTATATATATTAAATATTATTTGTAT
Found at i:49361660 original size:28 final size:28
Alignment explanation
Indices: 49361629--49361705 Score: 82
Period size: 31 Copynumber: 2.6 Consensus size: 28
49361619 ATAATTTATT
*
49361629 AAAATATAATAAATTTATTATTAAATTA
1 AAAATATAATAAATTTATTATTAAAATA
* *
49361657 AAAATATATTACATATATTTTTATTAAAATA
1 AAAATATAATA-A-AT-TTATTATTAAAATA
*
49361688 AAAATATGAATATATTTA
1 AAAATAT-AATAAATTTA
49361706 ATAATATTTA
Statistics
Matches: 39, Mismatches: 6, Indels: 7
0.75 0.12 0.13
Matches are distributed among these distances:
28 10 0.26
29 3 0.08
30 4 0.10
31 19 0.49
32 3 0.08
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.43
Consensus pattern (28 bp):
AAAATATAATAAATTTATTATTAAAATA
Found at i:49362031 original size:27 final size:26
Alignment explanation
Indices: 49361994--49362044 Score: 75
Period size: 27 Copynumber: 1.9 Consensus size: 26
49361984 GGTTTTAATT
*
49361994 TTTTGGTTTTGGATTTCATATTTTGG
1 TTTTGGTTTTGAATTTCATATTTTGG
*
49362020 TTTTGAGTTTTGAATTTGATATTTT
1 TTTTG-GTTTTGAATTTCATATTTT
49362045 TGAATTTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 5 0.23
27 17 0.77
ACGTcount: A:0.16, C:0.02, G:0.20, T:0.63
Consensus pattern (26 bp):
TTTTGGTTTTGAATTTCATATTTTGG
Found at i:49362097 original size:20 final size:23
Alignment explanation
Indices: 49362051--49362103 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 23
49362041 TTTTTGAATT
49362051 TATTTATATTTAATAATAAATAA
1 TATTTATATTTAATAATAAATAA
*
49362074 TATTTAT-TTTTA-AATAAA-AA
1 TATTTATATTTAATAATAAATAA
49362094 TATTTATATT
1 TATTTATATT
49362104 ATTTTTAAAC
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
20 9 0.32
21 8 0.29
22 4 0.14
23 7 0.25
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (23 bp):
TATTTATATTTAATAATAAATAA
Found at i:49362625 original size:85 final size:85
Alignment explanation
Indices: 49362508--49362686 Score: 288
Period size: 85 Copynumber: 2.1 Consensus size: 85
49362498 TAACATAAAG
* * *
49362508 TAATTA-TATCGTAATTCCCAATGTCATATTTGGTAGTACAAATTGTAATTACATAGTTACATAA
1 TAATTACTATCGTAATTCCCAATGTCATATTTGGTAGTACAAATCGTAATTACACAGTTACAAAA
49362572 TTTATATTTTTAAAAACTAT
66 TTTATATTTTTAAAAACTAT
* * * *
49362592 TAATTACTATCGTAATTCCCAGTGTTATGTTTGGTAGTACAAATCGTAATTACACGGTTACAAAA
1 TAATTACTATCGTAATTCCCAATGTCATATTTGGTAGTACAAATCGTAATTACACAGTTACAAAA
49362657 TTTATATTTTTAAAAACTAT
66 TTTATATTTTTAAAAACTAT
49362677 TAATTACTAT
1 TAATTACTAT
49362687 AAAAAAATTA
Statistics
Matches: 87, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
84 6 0.07
85 81 0.93
ACGTcount: A:0.37, C:0.12, G:0.09, T:0.42
Consensus pattern (85 bp):
TAATTACTATCGTAATTCCCAATGTCATATTTGGTAGTACAAATCGTAATTACACAGTTACAAAA
TTTATATTTTTAAAAACTAT
Found at i:49370541 original size:18 final size:17
Alignment explanation
Indices: 49370501--49370551 Score: 54
Period size: 18 Copynumber: 3.1 Consensus size: 17
49370491 AAACGGACGG
*
49370501 ATAGAA-AGAAAATTAA
1 ATAGAAGAGAAAAATAA
49370517 A-AG-AGAGAAGAAATAA
1 ATAGAAGAGAA-AAATAA
49370533 ATAGAAGAGGAAAAATAA
1 ATAGAAGA-GAAAAATAA
49370551 A
1 A
49370552 AAGCCGAAGG
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
14 1 0.03
15 6 0.21
16 7 0.24
17 2 0.07
18 10 0.34
19 3 0.10
ACGTcount: A:0.69, C:0.00, G:0.20, T:0.12
Consensus pattern (17 bp):
ATAGAAGAGAAAAATAA
Found at i:49371049 original size:3 final size:3
Alignment explanation
Indices: 49371043--49371077 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
49371033 CCCTAATAGT
*
49371043 AGA AGA AGA ATA AGA AGA AGA AGA AGA AG- AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
49371078 GACTGTAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 27 0.93
ACGTcount: A:0.66, C:0.00, G:0.31, T:0.03
Consensus pattern (3 bp):
AGA
Found at i:49372695 original size:16 final size:17
Alignment explanation
Indices: 49372674--49372709 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
49372664 TCAATCATCC
49372674 CTCATCCCTCATCC-CT
1 CTCATCCCTCATCCTCT
*
49372690 CTCATCTCTCATCCTCT
1 CTCATCCCTCATCCTCT
49372707 CTC
1 CTC
49372710 TCAACTCTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 13 0.72
17 5 0.28
ACGTcount: A:0.11, C:0.53, G:0.00, T:0.36
Consensus pattern (17 bp):
CTCATCCCTCATCCTCT
Found at i:49379225 original size:15 final size:15
Alignment explanation
Indices: 49379207--49379244 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
49379197 TGAAGATAAA
*
49379207 AAAAATGAATACTAT
1 AAAAATGAATAATAT
49379222 AAAAAT-AATAATAT
1 AAAAATGAATAATAT
*
49379236 CAAAATGAA
1 AAAAATGAA
49379245 GTTTAAAGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
14 12 0.60
15 8 0.40
ACGTcount: A:0.66, C:0.05, G:0.05, T:0.24
Consensus pattern (15 bp):
AAAAATGAATAATAT
Found at i:49379616 original size:27 final size:26
Alignment explanation
Indices: 49379561--49379623 Score: 67
Period size: 27 Copynumber: 2.4 Consensus size: 26
49379551 TTTAAAGCAC
* *
49379561 AAAAGTATATATACATAAATATTTAA
1 AAAAGTATATAAAAATAAATATTTAA
*
49379587 AAAAGTATCATAAAAATAAA-ATTATTA
1 AAAAGTAT-ATAAAAATAAATATT-TAA
49379614 AAAA-TATATA
1 AAAAGTATATA
49379624 GATAATATTA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
25 3 0.09
26 14 0.44
27 15 0.47
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (26 bp):
AAAAGTATATAAAAATAAATATTTAA
Found at i:49379730 original size:21 final size:21
Alignment explanation
Indices: 49379688--49379730 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
49379678 GCCAAAATCA
* *
49379688 GTATTTAATAAAGTAATTTAC
1 GTATATAATAAAGTAATATAC
49379709 GTATATAA-AAAGTAAATATAC
1 GTATATAATAAAGT-AATATAC
49379730 G
1 G
49379731 AACTAATGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.49, C:0.05, G:0.12, T:0.35
Consensus pattern (21 bp):
GTATATAATAAAGTAATATAC
Found at i:49382326 original size:20 final size:20
Alignment explanation
Indices: 49382289--49382326 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
49382279 ATTTTTCTAG
*
49382289 TTTAAATTATTTTATTAAAT
1 TTTAAATTATTTAATTAAAT
49382309 TTTAAATT-TTTAAGTTAA
1 TTTAAATTATTTAA-TTAA
49382327 TAAAGGGGGT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (20 bp):
TTTAAATTATTTAATTAAAT
Found at i:49394695 original size:243 final size:243
Alignment explanation
Indices: 49394267--49394704 Score: 804
Period size: 243 Copynumber: 1.8 Consensus size: 243
49394257 GGAGTCGTAT
* * **
49394267 GGTCGTGTGGCCAGGTTGTGTAAATTATTAAAGTTGTGTGGGTCAACATGCAAAAATTCAAAAAA
1 GGTCGTGTGGCCAGGTTGTGTAAATCACTAAAGCCGTGTGGGTCAACATGCAAAAATTCAAAAAA
*
49394332 AGTCACATGACCATGTGCTTGGGTCGTGTAACAACCTGGGACAGTGTGCAAAAACTAAGTGTCCA
66 AGTCACATGACCATGTGCTTGGGTCGTGTAACAACCTGGGACAATGTGCAAAAACTAAGTGTCCA
49394397 TATCTATAGTACTCACACGGACGTATGGCCTACCCATGTGCCAATCGGGAACTGTGTAGAACATA
131 TATCTATAGTACTCACACGGACGTATGGCCTACCCATGTGCCAATCGGGAACTGTGTAGAACATA
49394462 AAATAACTTACCCTAGTGGTTATACAGCCATGTCACCAGCCTGTGTGG
196 AAATAACTTACCCTAGTGGTTATACAGCCATGTCACCAGCCTGTGTGG
*
49394510 GGTCGTGTGGCCAGGTTGTGTAAATCACTAAAGCCGTGTGGGTCAACATGTAAAAATTCAAAAAA
1 GGTCGTGTGGCCAGGTTGTGTAAATCACTAAAGCCGTGTGGGTCAACATGCAAAAATTCAAAAAA
* *
49394575 AGTCACATGACCATGTGCTTGGGTCGTGTAACAACTTGGGACAATGTGTAAAAACTAAGTGTCCA
66 AGTCACATGACCATGTGCTTGGGTCGTGTAACAACCTGGGACAATGTGCAAAAACTAAGTGTCCA
49394640 TATCTATAGTACTCACACGGACGTATGGCCTACCCATGTGCCAATCGGGAACTGTGTAGAACATA
131 TATCTATAGTACTCACACGGACGTATGGCCTACCCATGTGCCAATCGGGAACTGTGTAGAACATA
49394705 GTGGTTATAC
Statistics
Matches: 187, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
243 187 1.00
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.26
Consensus pattern (243 bp):
GGTCGTGTGGCCAGGTTGTGTAAATCACTAAAGCCGTGTGGGTCAACATGCAAAAATTCAAAAAA
AGTCACATGACCATGTGCTTGGGTCGTGTAACAACCTGGGACAATGTGCAAAAACTAAGTGTCCA
TATCTATAGTACTCACACGGACGTATGGCCTACCCATGTGCCAATCGGGAACTGTGTAGAACATA
AAATAACTTACCCTAGTGGTTATACAGCCATGTCACCAGCCTGTGTGG
Found at i:49397387 original size:24 final size:24
Alignment explanation
Indices: 49397340--49397387 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
49397330 GATGAATTAT
* *
49397340 AATTTAAAGTATATTGGTTGAATA
1 AATTTAAAGTATAATGATTGAATA
49397364 AATTTAAAGTATGAATGATT-AATA
1 AATTTAAAGTAT-AATGATTGAATA
49397388 TACTGTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 16 0.76
25 5 0.24
ACGTcount: A:0.46, C:0.00, G:0.15, T:0.40
Consensus pattern (24 bp):
AATTTAAAGTATAATGATTGAATA
Found at i:49397890 original size:76 final size:74
Alignment explanation
Indices: 49397747--49397893 Score: 168
Period size: 76 Copynumber: 2.0 Consensus size: 74
49397737 ATATGTCATT
* * * **
49397747 ATATAAGTATATGAGGTTCGATTATATATATATATACATGTATAAGATCTAGTTTTGAAGTTTAG
1 ATATAAGTATATGAGGTTCGAATATATATATATATACATGTATAAGATCTAGTATTGAAATCAAG
49397812 TATGAATTG
66 TATGAATTG
* * * * ** *
49397821 ATATATGTATATGTTAGTTTCGAATATGTATATATTTACATGTATAATTTCTTGTATTGAAATCA
1 ATATAAGTATATG--AGGTTCGAATATATATATATATACATGTATAAGATCTAGTATTGAAATCA
49397886 AGTATGAA
64 AGTATGAA
49397894 ATTATAATAC
Statistics
Matches: 59, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
74 12 0.20
76 47 0.80
ACGTcount: A:0.36, C:0.05, G:0.16, T:0.44
Consensus pattern (74 bp):
ATATAAGTATATGAGGTTCGAATATATATATATATACATGTATAAGATCTAGTATTGAAATCAAG
TATGAATTG
Found at i:49403617 original size:37 final size:39
Alignment explanation
Indices: 49403550--49403632 Score: 125
Period size: 37 Copynumber: 2.2 Consensus size: 39
49403540 GCAAATGACT
*
49403550 TTAAAATTATTAAAATTAATTTTTTGAAATATGAAATTA
1 TTAAAATTATTAAAATTAATTTTTTGAAATATAAAATTA
* *
49403589 TTAAAATTATT-ATA-TATTTTTTTGAAATATAAAATTA
1 TTAAAATTATTAAAATTAATTTTTTGAAATATAAAATTA
49403626 TTAAAAT
1 TTAAAAT
49403633 AGATCATTGC
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
37 28 0.68
38 2 0.05
39 11 0.27
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (39 bp):
TTAAAATTATTAAAATTAATTTTTTGAAATATAAAATTA
Done.