Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009592.1 Hibiscus syriacus cultivar Beakdansim tig00116971_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 7920512
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 20 of 39
Found at i:3988189 original size:20 final size:20
Alignment explanation
Indices: 3988164--3988206 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
3988154 TCTAAGAGCC
*
3988164 CATTTAGGACCATTTAGATG
1 CATTTAGGACCATATAGATG
* *
3988184 CATTTAGGAGCATATAGTTG
1 CATTTAGGACCATATAGATG
3988204 CAT
1 CAT
3988207 GTGGTGGATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.35
Consensus pattern (20 bp):
CATTTAGGACCATATAGATG
Found at i:3998578 original size:20 final size:20
Alignment explanation
Indices: 3998553--3998595 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
3998543 TCTAAGAGCC
*
3998553 CATTTAGGACCATTTAGATG
1 CATTTAGGACCATATAGATG
* *
3998573 CATTTAGGAGCATATAGTTG
1 CATTTAGGACCATATAGATG
3998593 CAT
1 CAT
3998596 GTGGTGGATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.35
Consensus pattern (20 bp):
CATTTAGGACCATATAGATG
Found at i:4002064 original size:169 final size:170
Alignment explanation
Indices: 4001820--4002128 Score: 478
Period size: 169 Copynumber: 1.8 Consensus size: 170
4001810 GAAAAAACAA
* *
4001820 GAAAAAAAAAGAGATAATCTCAACCGTCTATTTTCAGACATCCAATTATCCTAAAAAAAAATCTT
1 GAAAAAAAAAGAGATAATCTCAACCGTCTATTTTCAGACATCCAATAATCCTAAAAAAAAATCTC
** * * * * *
4001885 GTTGTAAGTAGATCCTAACTCATATATATATATATGATAGAACACCAAAAGAGAAACAATAATTT
66 GTAATAAGTAGATCCTAACCCATATATATACATATAACAGAACACCAAAAGAGAAACAAGAATTT
4001950 AAAGAACACATATATGGGGTGGGGGGCAAGATATTCAATT
131 AAAGAACACATATATGGGGTGGGGGGCAAGATATTCAATT
** *
4001990 GAAAAAAAAA-AGATAATCTCAACCGTCTATTTTCATTCATCCAATAATCCTAAAAATGAAA-CT
1 GAAAAAAAAAGAGATAATCTCAACCGTCTATTTTCAGACATCCAATAATCCTAAAAA-AAAATCT
*
4002053 CGTAATAAGTAGATCCTAACCCATATATATACATATAACCGAACACCAAAAGAGAAACAAGAATT
65 CGTAATAAGTAGATCCTAACCCATATATATACATATAACAGAACACCAAAAGAGAAACAAGAATT
4002118 TAAAGAACACA
130 TAAAGAACACA
4002129 AATTGTGCAA
Statistics
Matches: 125, Mismatches: 13, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
169 112 0.90
170 13 0.10
ACGTcount: A:0.47, C:0.17, G:0.12, T:0.25
Consensus pattern (170 bp):
GAAAAAAAAAGAGATAATCTCAACCGTCTATTTTCAGACATCCAATAATCCTAAAAAAAAATCTC
GTAATAAGTAGATCCTAACCCATATATATACATATAACAGAACACCAAAAGAGAAACAAGAATTT
AAAGAACACATATATGGGGTGGGGGGCAAGATATTCAATT
Found at i:4025390 original size:35 final size:35
Alignment explanation
Indices: 4025312--4025391 Score: 85
Period size: 35 Copynumber: 2.3 Consensus size: 35
4025302 TTTTAAATAC
* *
4025312 AACAAACTTACAATAAGAATTAAATGGTAAATGAT
1 AACAAAATTACAATAAGAATTAAATGGTAAATCAT
*
4025347 AACCAAATTACAATAACTGATATTAAATGGT-AA-CA-
1 AACAAAATTACAATAA--GA-ATTAAATGGTAAATCAT
4025382 AACAAAATTA
1 AACAAAATTA
4025392 ACTGAAATAC
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
35 23 0.61
36 1 0.03
37 4 0.11
38 10 0.26
ACGTcount: A:0.55, C:0.11, G:0.09, T:0.25
Consensus pattern (35 bp):
AACAAAATTACAATAAGAATTAAATGGTAAATCAT
Found at i:4027719 original size:17 final size:18
Alignment explanation
Indices: 4027697--4027735 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
4027687 ATTATATTAA
4027697 TAAAAT-ATTAAATAAAG
1 TAAAATGATTAAATAAAG
* *
4027714 TAAAATGCTTAAATAAAT
1 TAAAATGATTAAATAAAG
4027732 TAAA
1 TAAA
4027736 TACATAATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.31
Consensus pattern (18 bp):
TAAAATGATTAAATAAAG
Found at i:4028115 original size:30 final size:29
Alignment explanation
Indices: 4028053--4028115 Score: 74
Period size: 29 Copynumber: 2.1 Consensus size: 29
4028043 TACTGCTACG
* *
4028053 GGTGTTAGATCGGGAAATATAATCTGACC
1 GGTGTTAGATCGGGAAATATAACCTCACC
*
4028082 GGTGTTAGATCGGTAAATAT-ACCGGTCACC
1 GGTGTTAGATCGGGAAATATAACC--TCACC
4028112 GGTG
1 GGTG
4028116 ATTTTTCGAG
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
28 2 0.07
29 19 0.66
30 8 0.28
ACGTcount: A:0.27, C:0.16, G:0.30, T:0.27
Consensus pattern (29 bp):
GGTGTTAGATCGGGAAATATAACCTCACC
Found at i:4028783 original size:16 final size:17
Alignment explanation
Indices: 4028746--4028783 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
4028736 GGATAAAAAA
* *
4028746 TTAAACAAATTATTTGT
1 TTAAAAAAATTATTTAT
4028763 TTAAAAAAATTA-TTAT
1 TTAAAAAAATTATTTAT
4028779 TTAAA
1 TTAAA
4028784 TTAATTGTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.45
Consensus pattern (17 bp):
TTAAAAAAATTATTTAT
Found at i:4029090 original size:22 final size:23
Alignment explanation
Indices: 4029046--4029090 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
4029036 AATTCGGTTC
**
4029046 GGTTAATAATTTTTAAATTAATTT
1 GGTTAATAA-TTTTAAAAAAATTT
4029070 GGTTAATAA-TTTAAAAAAATT
1 GGTTAATAATTTTAAAAAAATT
4029091 GGTACGATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 10 0.53
24 9 0.47
ACGTcount: A:0.44, C:0.00, G:0.09, T:0.47
Consensus pattern (23 bp):
GGTTAATAATTTTAAAAAAATTT
Found at i:4029199 original size:29 final size:29
Alignment explanation
Indices: 4029166--4029229 Score: 94
Period size: 29 Copynumber: 2.2 Consensus size: 29
4029156 AAAAAATCGG
4029166 TTAATTCGGTTCA-GTTAATAATTTTCAAA
1 TTAATTCGGTT-AGGTTAATAATTTTCAAA
*
4029195 TTAATTTGGTTAGGTTAATAATTTTCAAA
1 TTAATTCGGTTAGGTTAATAATTTTCAAA
*
4029224 TAAATT
1 TTAATT
4029230 TTGGTTAGAT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
28 1 0.03
29 31 0.97
ACGTcount: A:0.36, C:0.06, G:0.11, T:0.47
Consensus pattern (29 bp):
TTAATTCGGTTAGGTTAATAATTTTCAAA
Found at i:4029230 original size:29 final size:30
Alignment explanation
Indices: 4029179--4029242 Score: 103
Period size: 29 Copynumber: 2.2 Consensus size: 30
4029169 ATTCGGTTCA
*
4029179 GTTAATAATTTTCAAATTAA-TTTGGTTAG
1 GTTAATAATTTTCAAATAAATTTTGGTTAG
4029208 GTTAATAATTTTCAAATAAATTTTGGTTAG
1 GTTAATAATTTTCAAATAAATTTTGGTTAG
*
4029238 ATTAA
1 GTTAA
4029243 CTGAACTGAA
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 19 0.59
30 13 0.41
ACGTcount: A:0.38, C:0.03, G:0.12, T:0.47
Consensus pattern (30 bp):
GTTAATAATTTTCAAATAAATTTTGGTTAG
Found at i:4029262 original size:141 final size:141
Alignment explanation
Indices: 4029023--4029408 Score: 490
Period size: 142 Copynumber: 2.8 Consensus size: 141
4029013 ATTAATAATT
* *
4029023 AAAAAAATCGGTTAATTCGGTTCGGTTAATAATTTTTAAATTAA--T--TTGGTTAATAA-TTT-
1 AAAAAAATCGGTTAATTCGGTTCAGTTAATAATTTTCAAATTAATTTGGTTGGTTAATAATTTTC
* **
4029082 AAA-AAA-ATTGG-TACGATTAACCAAACCA-AATTAACCGAATTTTTGCTTCGATTAATTCCGT
66 AAATAAATTTTGGTTA-GATTAACTGAA-CAGAATTAACCGAATTTTTGCTTCGATTAATTCCGT
4029143 TAATAATTTTTT-
129 TAATAATTTTTTA
*
4029155 TAAAAAATCGGTTAATTCGGTTCAGTTAATAATTTTCAAATTAATTTGGTTAGGTTAATAATTTT
1 AAAAAAATCGGTTAATTCGGTTCAGTTAATAATTTTCAAATTAATTTGGTT-GGTTAATAATTTT
* * **
4029220 CAAATAAATTTTGGTTAGATTAACTGAACTGAATTAATCGAATTTTTGCTTCGATTAATTTGGTT
65 CAAATAAATTTTGGTTAGATTAACTGAACAGAATTAACCGAATTTTTGCTTCGATTAATTCCGTT
*
4029285 CATAATTTTTTA
130 AATAATTTTTTA
* * * *
4029297 AAAAAAATCGGTTAATTCAGTT-TGCTTAATCATTTTCAAATTAATTCGGTTTGGTTAATAATTT
1 AAAAAAATCGGTTAATTCGGTTCAG-TTAATAATTTTCAAATTAATTTGG-TTGGTTAATAATTT
* *
4029361 TCAAATAAATTTTGGTTCGATTAACTGAACAGAATTAACCGATTTTTT
64 TCAAATAAATTTTGGTTAGATTAACTGAACAGAATTAACCGAATTTTT
4029409 TCTTTGACCA
Statistics
Matches: 220, Mismatches: 20, Indels: 18
0.85 0.08 0.07
Matches are distributed among these distances:
132 41 0.19
134 1 0.00
136 2 0.01
137 9 0.04
138 3 0.01
139 3 0.01
140 4 0.02
141 55 0.25
142 100 0.45
143 2 0.01
ACGTcount: A:0.35, C:0.10, G:0.12, T:0.42
Consensus pattern (141 bp):
AAAAAAATCGGTTAATTCGGTTCAGTTAATAATTTTCAAATTAATTTGGTTGGTTAATAATTTTC
AAATAAATTTTGGTTAGATTAACTGAACAGAATTAACCGAATTTTTGCTTCGATTAATTCCGTTA
ATAATTTTTTA
Found at i:4029340 original size:29 final size:29
Alignment explanation
Indices: 4029308--4029371 Score: 92
Period size: 29 Copynumber: 2.2 Consensus size: 29
4029298 AAAAAATCGG
*
4029308 TTAATTCAGTTTGCTTAATCATTTTCAAA
1 TTAATTCAGTTTGCTTAATAATTTTCAAA
* *
4029337 TTAATTCGGTTTGGTTAATAATTTTCAAA
1 TTAATTCAGTTTGCTTAATAATTTTCAAA
*
4029366 TAAATT
1 TTAATT
4029372 TTGGTTCGAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.33, C:0.09, G:0.09, T:0.48
Consensus pattern (29 bp):
TTAATTCAGTTTGCTTAATAATTTTCAAA
Found at i:4029914 original size:29 final size:30
Alignment explanation
Indices: 4029857--4029931 Score: 89
Period size: 30 Copynumber: 2.5 Consensus size: 30
4029847 ATTAACGGTT
* * *
4029857 GGTGGTTTGATTGAATCAATTAAATAGTTG
1 GGTGGTCTGATTGATTCAATTAAATAGTTC
*
4029887 GGTGGTCTGATTGATTCAATTGAA-AGTTC
1 GGTGGTCTGATTGATTCAATTAAATAGTTC
**
4029916 GGTGGTCACATTGATT
1 GGTGGTCTGATTGATT
4029932 TTTTATCATA
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
29 18 0.46
30 21 0.54
ACGTcount: A:0.25, C:0.08, G:0.28, T:0.39
Consensus pattern (30 bp):
GGTGGTCTGATTGATTCAATTAAATAGTTC
Found at i:4031956 original size:20 final size:20
Alignment explanation
Indices: 4031931--4031975 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
4031921 GTCATCCAAT
*
4031931 TTTTTAAACCTCAGACCGGA
1 TTTTTAAACCCCAGACCGGA
4031951 TTTTTAAACCCCAGACCGGA
1 TTTTTAAACCCCAGACCGGA
4031971 TTTTT
1 TTTTT
4031976 TTCCGGATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.27, C:0.24, G:0.13, T:0.36
Consensus pattern (20 bp):
TTTTTAAACCCCAGACCGGA
Found at i:4032896 original size:19 final size:19
Alignment explanation
Indices: 4032872--4032910 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
4032862 ATGACCAACA
*
4032872 AAATCGCAATGCGATCTCT
1 AAATCGCAACGCGATCTCT
4032891 AAATCGCAACGCGATCTCT
1 AAATCGCAACGCGATCTCT
4032910 A
1 A
4032911 GTATCACAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.33, C:0.28, G:0.15, T:0.23
Consensus pattern (19 bp):
AAATCGCAACGCGATCTCT
Found at i:4032959 original size:20 final size:20
Alignment explanation
Indices: 4032934--4033020 Score: 95
Period size: 20 Copynumber: 4.3 Consensus size: 20
4032924 GTTTCCAGAT
*
4032934 TCGCAACGCGATTTTGACTA
1 TCGCAACGCGATTCTGACTA
* * * *
4032954 TCGCAATGCGAATATGTA-AA
1 TCGCAACGCGATTCTG-ACTA
4032974 TCGCAACGCGATTCTGACTA
1 TCGCAACGCGATTCTGACTA
* *
4032994 TCGCAACGTGATTCTGACTG
1 TCGCAACGCGATTCTGACTA
4033014 TCGCAAC
1 TCGCAAC
4033021 ACTGAATTTT
Statistics
Matches: 55, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
19 1 0.02
20 53 0.96
21 1 0.02
ACGTcount: A:0.28, C:0.25, G:0.21, T:0.26
Consensus pattern (20 bp):
TCGCAACGCGATTCTGACTA
Found at i:4033868 original size:24 final size:24
Alignment explanation
Indices: 4033836--4033889 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
4033826 GTATTTGAAA
4033836 TTTGATCTTGGTCAATACTCGGAC
1 TTTGATCTTGGTCAATACTCGGAC
* *
4033860 TTTGATCTTGGTTAATACTCGGAT
1 TTTGATCTTGGTCAATACTCGGAC
4033884 TTTGAT
1 TTTGAT
4033890 GATGTTTCAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.20, C:0.15, G:0.20, T:0.44
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACTCGGAC
Found at i:4036156 original size:18 final size:18
Alignment explanation
Indices: 4036123--4036157 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
4036113 AGAAAAAGGC
**
4036123 AATCAAAATCGTAATCAA
1 AATCAAAATCCCAATCAA
4036141 AATCAAAATCCCAATCA
1 AATCAAAATCCCAATCA
4036158 TAACCGGCTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.54, C:0.23, G:0.03, T:0.20
Consensus pattern (18 bp):
AATCAAAATCCCAATCAA
Found at i:4036468 original size:139 final size:140
Alignment explanation
Indices: 4036217--4036485 Score: 488
Period size: 139 Copynumber: 1.9 Consensus size: 140
4036207 AAACGTTGTA
4036217 TTATGTGTAAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTGGAGTTTGAACATTGCTA
1 TTATGTGTAAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTGGAGTTTGAACATTGCTA
*
4036282 TGATATGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACGCAAATTTGACTAT
66 TGATATGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACACAAATTTGACTAT
4036347 TATGTGTATT
131 TATGTGTATT
*
4036357 TTATGTGTAAACTTTTAACATTTTCAGTTAGGCAT-TATTAGTAAACTTGAG-TTGAACATTGCT
1 TTATGTGTAAACTTTTAACATTTTCAGTTAGGCATGTATTAGT-AACTGGAGTTTGAACATTGCT
*
4036420 ATGATATGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACACGAATTTGACTA
65 ATGATATGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACACAAATTTGACTA
4036485 T
130 T
4036486 CGCAACGCGA
Statistics
Matches: 125, Mismatches: 3, Indels: 3
0.95 0.02 0.02
Matches are distributed among these distances:
139 83 0.66
140 42 0.34
ACGTcount: A:0.30, C:0.13, G:0.15, T:0.42
Consensus pattern (140 bp):
TTATGTGTAAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTGGAGTTTGAACATTGCTA
TGATATGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACACAAATTTGACTAT
TATGTGTATT
Found at i:4036481 original size:20 final size:20
Alignment explanation
Indices: 4036456--4036552 Score: 131
Period size: 20 Copynumber: 4.8 Consensus size: 20
4036446 TTACACATTC
* *
4036456 ATTTGAATATCGCAACACGA
1 ATTTGACTATCGCAACGCGA
4036476 ATTTGACTATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
*
4036496 ATTTGACTATCGCAACGTGA
1 ATTTGACTATCGCAACGCGA
* * *
4036516 ATTTGATTATCGCAACGGGT
1 ATTTGACTATCGCAACGCGA
*
4036536 ATTTGACTATTGCAACG
1 ATTTGACTATCGCAACG
4036553 AGAAAATCGC
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 69 1.00
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.30
Consensus pattern (20 bp):
ATTTGACTATCGCAACGCGA
Found at i:4036615 original size:34 final size:34
Alignment explanation
Indices: 4036484--4036618 Score: 135
Period size: 34 Copynumber: 3.8 Consensus size: 34
4036474 GAATTTGACT
* *
4036484 ATCGCAACGCGAATTTGACTATCGCAACGTGAATTTGA
1 ATCGCAACGCGTATTTGACTATCGCAACGAGAA----A
* *
4036522 TTATCGCAACGGGTATTTGACTATTGCAACGAGAAA
1 --ATCGCAACGCGTATTTGACTATCGCAACGAGAAA
** *
4036558 ATCGCAACGCAAATTTGATTATCGCAACGAGAAA
1 ATCGCAACGCGTATTTGACTATCGCAACGAGAAA
* *
4036592 ATCGCAAAGCGTATTAGACTATCGCAA
1 ATCGCAACGCGTATTTGACTATCGCAA
4036619 TGCGAATTGA
Statistics
Matches: 81, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
34 51 0.63
36 1 0.01
40 29 0.36
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.24
Consensus pattern (34 bp):
ATCGCAACGCGTATTTGACTATCGCAACGAGAAA
Found at i:4036635 original size:19 final size:20
Alignment explanation
Indices: 4036592--4036635 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
4036582 CAACGAGAAA
*
4036592 ATCGCAAAGCGTATTAGACT
1 ATCGCAAAGCGAATTAGACT
*
4036612 ATCGCAATGCGAATT-GACT
1 ATCGCAAAGCGAATTAGACT
*
4036631 TTCGC
1 ATCGC
4036636 GTTGCGATTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 8 0.38
20 13 0.62
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.27
Consensus pattern (20 bp):
ATCGCAAAGCGAATTAGACT
Found at i:4036654 original size:20 final size:21
Alignment explanation
Indices: 4036625--4036682 Score: 68
Period size: 20 Copynumber: 2.9 Consensus size: 21
4036615 GCAATGCGAA
4036625 TTGA-CTTTCGCGTTGCGATT
1 TTGAGCTTTCGCGTTGCGATT
* *
4036645 TTG-GCTTTCGCATTGTGATT
1 TTGAGCTTTCGCGTTGCGATT
*
4036665 TTGAG-TTTAGCGTTGCGA
1 TTGAGCTTTCGCGTTGCGA
4036683 AAGTGTACCT
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
20 30 0.97
21 1 0.03
ACGTcount: A:0.12, C:0.16, G:0.28, T:0.45
Consensus pattern (21 bp):
TTGAGCTTTCGCGTTGCGATT
Found at i:4038280 original size:43 final size:43
Alignment explanation
Indices: 4038219--4038342 Score: 137
Period size: 42 Copynumber: 2.9 Consensus size: 43
4038209 ATGAATCGGG
* * * *
4038219 CTCTTGAATGGTGGGAGGGACCTCTTCAATGATGACAGGGGGC
1 CTCTTGAACGATGGGAGGGACCTCTTGAACGATGACAGGGGGC
** *
4038262 CTCTTGAACGATGGGAGGGGA-CTCTTGAGGGATGATA-GGGGC
1 CTCTTGAACGATGGGA-GGGACCTCTTGAACGATGACAGGGGGC
*
4038304 CTCTTGAACGATAGGAGAGG-CCTCTTGAACGATGACAGG
1 CTCTTGAACGATGGGAG-GGACCTCTTGAACGATGACAGG
4038343 TGAATCGGGC
Statistics
Matches: 67, Mismatches: 10, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
41 1 0.01
42 35 0.52
43 27 0.40
44 4 0.06
ACGTcount: A:0.23, C:0.18, G:0.37, T:0.22
Consensus pattern (43 bp):
CTCTTGAACGATGGGAGGGACCTCTTGAACGATGACAGGGGGC
Found at i:4038286 original size:21 final size:21
Alignment explanation
Indices: 4038219--4038337 Score: 103
Period size: 21 Copynumber: 5.6 Consensus size: 21
4038209 ATGAATCGGG
* * *
4038219 CTCTTGAATGGTGGGAGGGAC
1 CTCTTGAACGATGGGAGGGGC
* * **
4038240 CTCTTCAATGATGACAGGGGGC
1 CTCTTGAACGATGGGA-GGGGC
*
4038262 CTCTTGAACGATGGGAGGGGA
1 CTCTTGAACGATGGGAGGGGC
** **
4038283 CTCTTGAGGGATGATAGGGGC
1 CTCTTGAACGATGGGAGGGGC
* *
4038304 CTCTTGAACGATAGGAGAGGC
1 CTCTTGAACGATGGGAGGGGC
4038325 CTCTTGAACGATG
1 CTCTTGAACGATG
4038338 ACAGGTGAAT
Statistics
Matches: 75, Mismatches: 22, Indels: 2
0.76 0.22 0.02
Matches are distributed among these distances:
21 59 0.79
22 16 0.21
ACGTcount: A:0.23, C:0.18, G:0.37, T:0.23
Consensus pattern (21 bp):
CTCTTGAACGATGGGAGGGGC
Found at i:4038845 original size:19 final size:20
Alignment explanation
Indices: 4038813--4038855 Score: 70
Period size: 19 Copynumber: 2.2 Consensus size: 20
4038803 AATAGTTTCT
4038813 GAAACTTAAAATCGCAACAC
1 GAAACTTAAAATCGCAACAC
*
4038833 GAAACTT-AAATCGCAACGC
1 GAAACTTAAAATCGCAACAC
4038852 GAAA
1 GAAA
4038856 ATGACTATCG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.49, C:0.23, G:0.14, T:0.14
Consensus pattern (20 bp):
GAAACTTAAAATCGCAACAC
Found at i:4038867 original size:20 final size:20
Alignment explanation
Indices: 4038842--4038890 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
4038832 CGAAACTTAA
4038842 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
*
4038862 ATCGCAACGCGGAAATGACT
1 ATCGCAACGCGAAAATGACT
4038882 ATCGCAACG
1 ATCGCAACG
4038891 GGATAATCGT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.37, C:0.27, G:0.22, T:0.14
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:4039015 original size:20 final size:19
Alignment explanation
Indices: 4038990--4039074 Score: 107
Period size: 20 Copynumber: 4.3 Consensus size: 19
4038980 GATTATCCCA
*
4038990 TTGCGATAGTCAACTTCGCG
1 TTGCGATAGTC-ATTTCGCG
*
4039010 TTGCGATGGTCATTTCTGCG
1 TTGCGATAGTCATTTC-GCG
4039030 TTGCGATAGTCATTTCCGCG
1 TTGCGATAGTCATTT-CGCG
*
4039050 TTGCGATAGTCATTTTTGCG
1 TTGCGATAGTCA-TTTCGCG
4039070 TTGCG
1 TTGCG
4039075 GTTTAAGTTT
Statistics
Matches: 58, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
19 4 0.07
20 50 0.86
21 4 0.07
ACGTcount: A:0.14, C:0.21, G:0.27, T:0.38
Consensus pattern (19 bp):
TTGCGATAGTCATTTCGCG
Found at i:4039050 original size:40 final size:40
Alignment explanation
Indices: 4038990--4039074 Score: 127
Period size: 40 Copynumber: 2.1 Consensus size: 40
4038980 GATTATCCCA
*
4038990 TTGCGATAGTCAACTTCGCGTTGCGATGGTCATTTCTGCG
1 TTGCGATAGTCAACTTCGCGTTGCGATAGTCATTTCTGCG
* *
4039030 TTGCGATAGTC-ATTTCCGCGTTGCGATAGTCATTTTTGCG
1 TTGCGATAGTCAACTT-CGCGTTGCGATAGTCATTTCTGCG
4039070 TTGCG
1 TTGCG
4039075 GTTTAAGTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
39 3 0.07
40 38 0.93
ACGTcount: A:0.14, C:0.21, G:0.27, T:0.38
Consensus pattern (40 bp):
TTGCGATAGTCAACTTCGCGTTGCGATAGTCATTTCTGCG
Found at i:4040994 original size:20 final size:20
Alignment explanation
Indices: 4040971--4041014 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
4040961 GAAACTTAAA
4040971 ATCGCAACACGAAAATGACT
1 ATCGCAACACGAAAATGACT
* **
4040991 ATCGCAACGCGAATTTGACT
1 ATCGCAACACGAAAATGACT
4041011 ATCG
1 ATCG
4041015 TTGCGATTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.36, C:0.25, G:0.18, T:0.20
Consensus pattern (20 bp):
ATCGCAACACGAAAATGACT
Found at i:4041415 original size:22 final size:22
Alignment explanation
Indices: 4041389--4041439 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
4041379 GATGGAGATA
* *
4041389 GACGGATTTTGTCAGAGATGTG
1 GACGGATTTCGTCAGAGATGGG
*
4041411 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGTCAGAGATGGG
4041433 GACGGAT
1 GACGGAT
4041440 GACGCCGTAG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.22, C:0.12, G:0.41, T:0.25
Consensus pattern (22 bp):
GACGGATTTCGTCAGAGATGGG
Found at i:4041613 original size:20 final size:20
Alignment explanation
Indices: 4041590--4041650 Score: 71
Period size: 20 Copynumber: 3.4 Consensus size: 20
4041580 GAAAATCGTA
4041590 TTGCGATAGTCAGAATCGCG
1 TTGCGATAGTCAGAATCGCG
4041610 TTGCGAT--T----ATCGCG
1 TTGCGATAGTCAGAATCGCG
*
4041624 TTGCGATAGTCAGAATTGCG
1 TTGCGATAGTCAGAATCGCG
4041644 TTGCGAT
1 TTGCGAT
4041651 TATGTATTAT
Statistics
Matches: 34, Mismatches: 1, Indels: 12
0.72 0.02 0.26
Matches are distributed among these distances:
14 13 0.38
16 1 0.03
18 1 0.03
20 19 0.56
ACGTcount: A:0.21, C:0.18, G:0.30, T:0.31
Consensus pattern (20 bp):
TTGCGATAGTCAGAATCGCG
Found at i:4041623 original size:14 final size:14
Alignment explanation
Indices: 4041604--4041630 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
4041594 GATAGTCAGA
4041604 ATCGCGTTGCGATT
1 ATCGCGTTGCGATT
4041618 ATCGCGTTGCGAT
1 ATCGCGTTGCGAT
4041631 AGTCAGAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.22, G:0.30, T:0.33
Consensus pattern (14 bp):
ATCGCGTTGCGATT
Found at i:4041667 original size:21 final size:21
Alignment explanation
Indices: 4041615--4041672 Score: 66
Period size: 21 Copynumber: 2.8 Consensus size: 21
4041605 TCGCGTTGCG
4041615 ATTATCGCGTTGCGA-TAGTC
1 ATTATCGCGTTGCGATTAGTC
** *
4041635 AGAATTGCGTTGCGATTATGT-
1 ATTATCGCGTTGCGATTA-GTC
4041656 ATTATCGCGTTGCGATT
1 ATTATCGCGTTGCGATT
4041673 TACATATTCG
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
20 12 0.40
21 16 0.53
22 2 0.07
ACGTcount: A:0.21, C:0.16, G:0.26, T:0.38
Consensus pattern (21 bp):
ATTATCGCGTTGCGATTAGTC
Found at i:4041730 original size:20 final size:20
Alignment explanation
Indices: 4041590--4041731 Score: 66
Period size: 20 Copynumber: 7.3 Consensus size: 20
4041580 GAAAATCGTA
*
4041590 TTGCGATAGTCAGAATCGCG
1 TTGCGATAGTCAAAATCGCG
4041610 TTGCGAT--T----ATCGCG
1 TTGCGATAGTCAAAATCGCG
* *
4041624 TTGCGATAGTCAGAATTGCG
1 TTGCGATAGTCAAAATCGCG
**
4041644 TTGCGATTATGT-ATTATCGCG
1 TTGCGA-TA-GTCAAAATCGCG
* * * *
4041665 TTGCGAT-TTACATATTCGCA
1 TTGCGATAGT-CAAAATCGCG
** **
4041685 TTGCGATTTTACAAAATCGTA
1 TTGCGATAGT-CAAAATCGCG
*
4041706 ATGCGATAGTCAAAATCGCG
1 TTGCGATAGTCAAAATCGCG
4041726 TTGCGA
1 TTGCGA
4041732 ATCTGGAAAC
Statistics
Matches: 94, Mismatches: 17, Indels: 22
0.71 0.13 0.17
Matches are distributed among these distances:
14 13 0.14
16 1 0.01
18 2 0.02
20 45 0.48
21 31 0.33
22 2 0.02
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.33
Consensus pattern (20 bp):
TTGCGATAGTCAAAATCGCG
Found at i:4041781 original size:19 final size:19
Alignment explanation
Indices: 4041757--4041793 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
4041747 TGCGATACTG
*
4041757 GAGATCGCGTTACGATTTA
1 GAGATCGCATTACGATTTA
*
4041776 GAGATCGCATTTCGATTT
1 GAGATCGCATTACGATTT
4041794 TGTTGGTCAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.24, C:0.16, G:0.24, T:0.35
Consensus pattern (19 bp):
GAGATCGCATTACGATTTA
Found at i:4047468 original size:137 final size:137
Alignment explanation
Indices: 4047323--4047604 Score: 478
Period size: 137 Copynumber: 2.1 Consensus size: 137
4047313 ATAAATCCAC
*
4047323 TAATTACTATAAATTTAGAGTTATTCGAGTTCTATTTTATAATTCAACTCAAATTTAATTTTTTT
1 TAATTACTATAAATTTAGAGTTATTCGAGTTCTATTTTATAACTCAACTCAAATTTAA-TTTTTT
*
4047388 AGTCGAATCAGGTTTATGAAATTA-AAATTAATTCAAATCGAGTCA-ATCTTTTTTACATTGAAT
65 AGTCGAATCAAGTTTATGAAATTACAAATTAATTCAAATCGAGTCAGAT-TTTTTTACATTGAAT
4047451 CAAAAAATT
129 CAAAAAATT
* *
4047460 TAATTACTATAAATTTAGAGTTATTCGAGTTTTATTTTATAACTCAACTCGAATTTAATTTTTTA
1 TAATTACTATAAATTTAGAGTTATTCGAGTTCTATTTTATAACTCAACTCAAATTTAATTTTTTA
*
4047525 GTCGAGTCAAGTTTATGAAATTACAAATTAATTCAAATCGAGTCAGATTTTTTTACATTGAATCA
66 GTCGAATCAAGTTTATGAAATTACAAATTAATTCAAATCGAGTCAGATTTTTTTACATTGAATCA
*
4047590 AAGAATT
131 AAAAATT
4047597 TAATTACT
1 TAATTACT
4047605 CTAATCAAGT
Statistics
Matches: 137, Mismatches: 6, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
136 28 0.20
137 107 0.78
138 2 0.01
ACGTcount: A:0.37, C:0.10, G:0.10, T:0.43
Consensus pattern (137 bp):
TAATTACTATAAATTTAGAGTTATTCGAGTTCTATTTTATAACTCAACTCAAATTTAATTTTTTA
GTCGAATCAAGTTTATGAAATTACAAATTAATTCAAATCGAGTCAGATTTTTTTACATTGAATCA
AAAAATT
Found at i:4048930 original size:59 final size:59
Alignment explanation
Indices: 4048773--4048932 Score: 169
Period size: 60 Copynumber: 2.7 Consensus size: 59
4048763 TGCATCACAC
* * * * **
4048773 ATCCTTAAACTATTACCCTCATTTTATATTGGTCCTTAAACTTTTGAATATTCCAATTTA
1 ATCCTCAAACTATGACCC-CATTCTATATTGGTCCCTAAACTTTTGAATATTCCAAAATA
* ** * ** *
4048833 ATCCTCAAACTCTGACTCTAATTCTAAATTAATCCCTAAACTTTTGAATATTCCAAAATC
1 ATCCTCAAACTATGAC-CCCATTCTATATTGGTCCCTAAACTTTTGAATATTCCAAAATA
4048893 ATCC-CAAACTATGATCCCCATTCTATATTGGTCCCTAAAC
1 ATCCTCAAACTATGA-CCCCATTCTATATTGGTCCCTAAAC
4048933 CTTTAAATGC
Statistics
Matches: 79, Mismatches: 19, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
59 28 0.35
60 50 0.63
61 1 0.01
ACGTcount: A:0.33, C:0.25, G:0.05, T:0.38
Consensus pattern (59 bp):
ATCCTCAAACTATGACCCCATTCTATATTGGTCCCTAAACTTTTGAATATTCCAAAATA
Found at i:4051514 original size:138 final size:138
Alignment explanation
Indices: 4051363--4051632 Score: 477
Period size: 138 Copynumber: 2.0 Consensus size: 138
4051353 TGTGTTTTTG
* *
4051363 AAGTTAGAGTTTGTAATGCTTCTGGTAATGTACTATTTTTTCCATTATTTTTATTTTTAAGAAGT
1 AAGTTAGAGTTTGTAATGCTTCAGGTAATGTACTAATTTTTCCATTATTTTTATTTTTAAGAAGT
* * *
4051428 TTATGCATGAATTATAATTGCTTAGGATTCGGGGTACTTCGAAATTAACGAAACAAAATTGATTC
66 TTATGCATGAATTATAATTGCTTAGGATACAGGGTACTTCGAAATTAAAGAAACAAAATTGATTC
4051493 TTGGGTTA
131 TTGGGTTA
*
4051501 AAGTTAGATTTTGTAATGCTTCAGGTAATGTACTAATTTTTCCATTATTTTTATTTTTAAGAAGT
1 AAGTTAGAGTTTGTAATGCTTCAGGTAATGTACTAATTTTTCCATTATTTTTATTTTTAAGAAGT
*
4051566 TTATGCATGAATTATAATTGCTTAGGATACAGGTTACTTCGAAATTAAAGAAACAAAATTGATTC
66 TTATGCATGAATTATAATTGCTTAGGATACAGGGTACTTCGAAATTAAAGAAACAAAATTGATTC
4051631 TT
131 TT
4051633 ATGTTATGGA
Statistics
Matches: 125, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
138 125 1.00
ACGTcount: A:0.32, C:0.09, G:0.16, T:0.43
Consensus pattern (138 bp):
AAGTTAGAGTTTGTAATGCTTCAGGTAATGTACTAATTTTTCCATTATTTTTATTTTTAAGAAGT
TTATGCATGAATTATAATTGCTTAGGATACAGGGTACTTCGAAATTAAAGAAACAAAATTGATTC
TTGGGTTA
Found at i:4072334 original size:268 final size:270
Alignment explanation
Indices: 4071260--4072597 Score: 1701
Period size: 268 Copynumber: 5.0 Consensus size: 270
4071250 AGCCTGCAAA
*
4071260 GGCATTGTGCCAAACAAGATTTCAAGAAACATAAAGGAAGAATAACAAAGTTTAAAAATGACATC
1 GGCATTGTGCCAAACAAGATTTCAAGAAACATAAAGGAAGAATAACCAAGTTTAAAAATGACATC
4071325 AAGAAAGGATTTCTCTTTAGTCAAACCTAAGATCTTATTCGAAGCAACAAATGTCTAACAATACC
66 AAGAAA-G----CT-TTTAGTCAAACCTAAGATCTTATTCGAAGCAACAAATGTCTAACAATACC
* * * * **
4071390 TTCAGCTTCTCATTTTCAGCAGTAATTTTATTCACCAATTCATTGTCAATAACAAGGAACCCTTG
125 TTCAGCTGCTCATTTTCAGCAGTAAGTTTATTCATCAATTCATTGTCAATAACAGGGATTCC-TG
** * * *
4071455 AATCAAAGAAACTTGTTCAGAAATGTTCTTTGCAGCTTCATGTTCCTCAACTAGTAACTCTTTTG
189 AATCGCAGGAACTTGTTCAGCAATGTTCTTTGCAGCTTCATGTTCCTCAACTAGTAACTCCTTTG
*
4071520 TTTCCTGAACCAACAAT
254 TTTCCTGAACCTACAAT
* * * *
4071537 GACATTGTGCCAAACAAGATTTCAAGTAACAAAAAGGAAGAATAACCAAATTTAATAAATGACAT
1 GGCATTGTGCCAAACAAGATTTCAAGAAACATAAAGGAAGAATAACCAAGTTTAA-AAATGACAT
* * *
4071602 CAAGAAAGCCTTTT-GTCAAACCTAAGAACTTATTTGAAGCAACAAGTGTCTAACAATACCTTCA
65 CAAGAAAG-CTTTTAGTCAAACCTAAGATCTTATTCGAAGCAACAAATGTCTAACAATACCTTCA
*
4071666 GCTGCTCATTTTCAGCAGTAAGTTTATTCATCAATTCATTGTCAATAACAAGG-TT-C----TC-
129 GCTGCTCATTTTCAGCAGTAAGTTTATTCATCAATTCATTGTCAATAACAGGGATTCCTGAATCG
* * * * * *
4071724 C-CG--CAT-TTCAGCAATTTTTTTTCCAGCTTCATGTGCCTCAACTAGTAACTCAC-TTGTTTC
194 CAGGAACTTGTTCAGCAATGTTCTTTGCAGCTTCATGTTCCTCAACTAGTAACTC-CTTTGTTTC
4071784 CTGAACCTACAAT
258 CTGAACCTACAAT
* * ** * *
4071797 GGCATAGTGCCAAACATGATTTCAAGAAATGTAAAGGAACAATAACCAAGTTGAAAAATGACATC
1 GGCATTGTGCCAAACAAGATTTCAAGAAACATAAAGGAAGAATAACCAAGTTTAAAAATGACATC
* * *
4071862 AAGAAAGCTTTTAGTCAAACCTGAGATTTTATTCGAAGCAACAAATATCTAACAATACCTTC-GT
66 AAGAAAGCTTTTAGTCAAACCTAAGATCTTATTCGAAGCAACAAATGTCTAACAATACCTTCAG-
* * * * * * * *
4071926 CTGCTCATTATCAGCAGTAACTTTAGTAATCAATTCTTTGTCAATAACGGGGTTCTCCTGAACCG
130 CTGCTCATTTTCAGCAGTAAGTTTATTCATCAATTCATTGTCAATAACAGGGAT-TCCTGAATCG
*
4071991 CAGGAACTTGTTCAGCAATGTTCTTTGCAACTTCATGTTCCTCAACTAGTAACTCAC-TTGTTTC
194 CAGGAACTTGTTCAGCAATGTTCTTTGCAGCTTCATGTTCCTCAACTAGTAACTC-CTTTGTTTC
*
4072055 ATGAACCTACAAT
258 CTGAACCTACAAT
* * * *
4072068 GGCATTGTGCCAAACAAGATTTCAAGAAACGTAAAGCAATAATAACCAAGTTTAAAAAT-ATATC
1 GGCATTGTGCCAAACAAGATTTCAAGAAACATAAAGGAAGAATAACCAAGTTTAAAAATGACATC
* * *
4072132 AAGAAAGCTTTTAGTCAAACTTAAGATCTTATTCGAAGCAACAAATGACTGACAATACCTTCAGC
66 AAGAAAGCTTTTAGTCAAACCTAAGATCTTATTCGAAGCAACAAATGTCTAACAATACCTTCAGC
* * * * *
4072197 TGTTCATTTTCAGC-GTAGGTTTATTAATCAATTCATTGTCAATAA-TGGGAATACCTGAATCGC
131 TGCTCATTTTCAGCAGTAAGTTTATTCATCAATTCATTGTCAATAACAGGG-ATTCCTGAATCGC
* * * *
4072260 TGGAACTTGTTCAGCAATGTTCTTTGCAGCTTAACT-TTCTTCAACTAGTAACTCCTTTGTTTTC
195 AGGAACTTGTTCAGCAATGTTCTTTGCAGCTTCA-TGTTCCTCAACTAGTAACTCCTTTGTTTCC
4072324 TGAACCTACAAT
259 TGAACCTACAAT
* * * *
4072336 GGCATTGTTCCAAACAAGATTTCAAGAAATATAAAGGAAGAACAACAAAGTTTAAAAATGACATC
1 GGCATTGTGCCAAACAAGATTTCAAGAAACATAAAGGAAGAATAACCAAGTTTAAAAATGACATC
* *
4072401 AAG-AAGCCTTTAGTCAAACCTAAGATCTTATTTGAAGCAACAAATGTCTAACAATACCTTCAGC
66 AAGAAAGCTTTTAGTCAAACCTAAGATCTTATTCGAAGCAACAAATGTCTAACAATACCTTCAGC
* * *
4072465 TGCTCATTTTCAGCATTAGGTTTATTCATCAATTCATTGTCAATAACTGGGATCTCCTGAATCGC
131 TGCTCATTTTCAGCAGTAAGTTTATTCATCAATTCATTGTCAATAACAGGGAT-TCCTGAATCGC
* * * *
4072530 AGGAATTTGTTCAGCAATGTTC-TTGACAGCTTCACGTTCCTTAACTAGTAACTCTTTTGTTTCC
195 AGGAACTTGTTCAGCAATGTTCTTTG-CAGCTTCATGTTCCTCAACTAGTAACTCCTTTGTTTCC
4072594 TGAA
259 TGAA
4072598 GCTCAAGTTG
Statistics
Matches: 924, Mismatches: 111, Indels: 59
0.84 0.10 0.05
Matches are distributed among these distances:
258 6 0.01
259 105 0.11
260 105 0.11
261 3 0.00
262 1 0.00
265 2 0.00
266 1 0.00
267 2 0.00
268 200 0.22
269 70 0.08
270 145 0.16
271 115 0.12
272 97 0.10
273 3 0.00
274 2 0.00
277 51 0.06
278 16 0.02
ACGTcount: A:0.35, C:0.20, G:0.14, T:0.31
Consensus pattern (270 bp):
GGCATTGTGCCAAACAAGATTTCAAGAAACATAAAGGAAGAATAACCAAGTTTAAAAATGACATC
AAGAAAGCTTTTAGTCAAACCTAAGATCTTATTCGAAGCAACAAATGTCTAACAATACCTTCAGC
TGCTCATTTTCAGCAGTAAGTTTATTCATCAATTCATTGTCAATAACAGGGATTCCTGAATCGCA
GGAACTTGTTCAGCAATGTTCTTTGCAGCTTCATGTTCCTCAACTAGTAACTCCTTTGTTTCCTG
AACCTACAAT
Found at i:4072542 original size:538 final size:531
Alignment explanation
Indices: 4071260--4072597 Score: 1744
Period size: 531 Copynumber: 2.5 Consensus size: 531
4071250 AGCCTGCAAA
*
4071260 GGCATTGTGCCAAACAAGATTTCAAGAAACATAAAGGAAGAATAACAAAGTTTAAAAATGACATC
1 GGCATTGTGCCAAACAAGATTTCAAGAAATATAAAGGAAGAATAACAAAGTTTAAAAATGACATC
4071325 AAGAAAGGATTTCTCTTTAGTCAAACCTAAGATCTTATTCGAAGCAACAAATGTCTAACAATACC
66 AAGAAA-G----C-CTTTAGTCAAACCTAAGATCTTATTCGAAGCAACAAATGTCTAACAATACC
* * * * *
4071390 TTCAGCTTCTCATTTTCAGCAGTAATTTTATTCACCAATTCATTGTCAATAACAAGGAAC-CCTT
125 TTCAGCTGCTCATTTTCAGCAGTAACTTTATTCATCAATTCATTGTCAATAACAGGGATCTCC-T
** * *
4071454 GAATCAAAGAAACTTGTTCAGAAATGTTCTTTGCAGCTTCATGTTCCTCAACTAGTAACTCTTTT
189 GAATCGCAGGAACTTGTTCAGCAATGTTCTTTGCAGCTTCATGTTCCTCAACTAGTAACTCTTTT
* *
4071519 GTTTCCTGAACCAACAATGACATTGTGCCAAACAAGATTTCAAGTAACAAAAAGGAAGAATAACC
254 GTTTCCTGAACCAACAATGACATTGTGCCAAACAAGATTTCAAGAAACAAAAAGCAAGAATAACC
* *
4071584 AAATTTAATAAATGACATCAAGAAAGCCTTTTGTCAAACCTAAGAACTTATTTGAAGCAACAAGT
319 AAATTTAATAAATGACATCAAGAAAGCCTTTTGTCAAACCTAAGAACTTATTCGAAGCAACAAAT
* *
4071649 GTCTAACAATACCTTCAGCTGCTCATTTTCAGCAGTAAGTTTATTCATCAATTCATTGTCAATAA
384 GACTAACAATACCTTCAGCTGCTCATTTTCAGCAGTAAGTTTATTAATCAATTCATTGTCAATAA
* * * *
4071714 CAAGGTTCTCCCGCATTTCAGCAATTTTTTTTCCAGCTTCATGTGCCTCAACTAGTAACTCACTT
449 CAAGGTTATCCCGCATTTCAGCAATGTTCTTTCCAGCTTAATGTGCCTCAACTAGTAACTCACTT
4071779 GTTTCCTGAACCTACAAT
514 GTTTCCTGAACCTACAAT
* * * * * *
4071797 GGCATAGTGCCAAACATGATTTCAAGAAATGTAAAGGAACAATAACCAAGTTGAAAAATGACATC
1 GGCATTGTGCCAAACAAGATTTCAAGAAATATAAAGGAAGAATAACAAAGTTTAAAAATGACATC
* * * *
4071862 AAGAAAGCTTTTAGTCAAACCTGAGATTTTATTCGAAGCAACAAATATCTAACAATACCTTC-GT
66 AAGAAAGCCTTTAGTCAAACCTAAGATCTTATTCGAAGCAACAAATGTCTAACAATACCTTCAG-
* * * * * * *
4071926 CTGCTCATTATCAGCAGTAACTTTAGTAATCAATTCTTTGTCAATAACGGGGTTCTCCTGAACCG
130 CTGCTCATTTTCAGCAGTAACTTTATTCATCAATTCATTGTCAATAACAGGGATCTCCTGAATCG
* ** *
4071991 CAGGAACTTGTTCAGCAATGTTCTTTGCAACTTCATGTTCCTCAACTAGTAACTCACTTGTTTCA
195 CAGGAACTTGTTCAGCAATGTTCTTTGCAGCTTCATGTTCCTCAACTAGTAACTCTTTTGTTTCC
* * ** * *
4072056 TGAACCTACAATGGCATTGTGCCAAACAAGATTTCAAGAAACGTAAAGCAATAATAACCAAGTTT
260 TGAACCAACAATGACATTGTGCCAAACAAGATTTCAAGAAACAAAAAGCAAGAATAACCAAATTT
* * * *
4072121 AA-AAAT-ATATCAAGAAAG-CTTTTAGTCAAACTTAAGATCTTATTCGAAGCAACAAATGACTG
325 AATAAATGACATCAAGAAAGCCTTTT-GTCAAACCTAAGAACTTATTCGAAGCAACAAATGACTA
* * **
4072183 ACAATACCTTCAGCTGTTCATTTTCAGC-GTAGGTTTATTAATCAATTCATTGTCAATAA-TGGG
389 ACAATACCTTCAGCTGCTCATTTTCAGCAGTAAGTTTATTAATCAATTCATTGTCAATAACAAGG
* * * * *
4072246 AATACCTGAATCGCTGGAACTTGTTCAGCAATGTTCTTTGCAGCTTAACT-TTCTTCAACTAGTA
454 --T---T--ATC-C-CG--CAT-TTCAGCAATGTTCTTTCCAGCTTAA-TGTGCCTCAACTAGTA
*
4072310 ACTC-CTTTGTTTTCTGAACCTACAAT
506 ACTCAC-TTGTTTCCTGAACCTACAAT
* *
4072336 GGCATTGTTCCAAACAAGATTTCAAGAAATATAAAGGAAGAACAACAAAGTTTAAAAATGACATC
1 GGCATTGTGCCAAACAAGATTTCAAGAAATATAAAGGAAGAATAACAAAGTTTAAAAATGACATC
*
4072401 AAG-AAGCCTTTAGTCAAACCTAAGATCTTATTTGAAGCAACAAATGTCTAACAATACCTTCAGC
66 AAGAAAGCCTTTAGTCAAACCTAAGATCTTATTCGAAGCAACAAATGTCTAACAATACCTTCAGC
* ** *
4072465 TGCTCATTTTCAGCATTAGGTTTATTCATCAATTCATTGTCAATAACTGGGATCTCCTGAATCGC
131 TGCTCATTTTCAGCAGTAACTTTATTCATCAATTCATTGTCAATAACAGGGATCTCCTGAATCGC
* * *
4072530 AGGAATTTGTTCAGCAATGTTC-TTGACAGCTTCACGTTCCTTAACTAGTAACTCTTTTGTTTCC
196 AGGAACTTGTTCAGCAATGTTCTTTG-CAGCTTCATGTTCCTCAACTAGTAACTCTTTTGTTTCC
4072594 TGAA
260 TGAA
4072598 GCTCAAGTTG
Statistics
Matches: 691, Mismatches: 91, Indels: 37
0.84 0.11 0.05
Matches are distributed among these distances:
527 2 0.00
528 34 0.05
529 71 0.10
530 5 0.01
531 216 0.31
532 4 0.01
534 2 0.00
535 1 0.00
536 2 0.00
537 67 0.10
538 169 0.24
539 117 0.17
540 1 0.00
ACGTcount: A:0.35, C:0.20, G:0.14, T:0.31
Consensus pattern (531 bp):
GGCATTGTGCCAAACAAGATTTCAAGAAATATAAAGGAAGAATAACAAAGTTTAAAAATGACATC
AAGAAAGCCTTTAGTCAAACCTAAGATCTTATTCGAAGCAACAAATGTCTAACAATACCTTCAGC
TGCTCATTTTCAGCAGTAACTTTATTCATCAATTCATTGTCAATAACAGGGATCTCCTGAATCGC
AGGAACTTGTTCAGCAATGTTCTTTGCAGCTTCATGTTCCTCAACTAGTAACTCTTTTGTTTCCT
GAACCAACAATGACATTGTGCCAAACAAGATTTCAAGAAACAAAAAGCAAGAATAACCAAATTTA
ATAAATGACATCAAGAAAGCCTTTTGTCAAACCTAAGAACTTATTCGAAGCAACAAATGACTAAC
AATACCTTCAGCTGCTCATTTTCAGCAGTAAGTTTATTAATCAATTCATTGTCAATAACAAGGTT
ATCCCGCATTTCAGCAATGTTCTTTCCAGCTTAATGTGCCTCAACTAGTAACTCACTTGTTTCCT
GAACCTACAAT
Found at i:4072744 original size:96 final size:96
Alignment explanation
Indices: 4072574--4072902 Score: 480
Period size: 96 Copynumber: 3.4 Consensus size: 96
4072564 CGTTCCTTAA
* *
4072574 CTAGTAACTCTTTTGTTTCCTGAAGCTCAAGTTGCAGTTCCTGAAACTCAAGTTGATTCTTGTGC
1 CTAGTAACTCTTTTGTTTGCTGAAGCTCAAGTTGCAGTTCCTGAAACTCAAGTTGCTTCTTGTGC
*
4072639 ATAGAAGATTCAAGCTTTTCACTTTCCTGTT
66 ATAGAAGATTCAAGCCTTTCACTTTCCTGTT
* * * *
4072670 ATAGTAACTCTTTTGTTTGCTGAAGCTCAAGTTGCAGTTCCTGAAACTCAAGTTCCTTATTTTGC
1 CTAGTAACTCTTTTGTTTGCTGAAGCTCAAGTTGCAGTTCCTGAAACTCAAGTTGCTTCTTGTGC
* * *
4072735 AAAGCAGATTC-AGACCTTGCACTTTCCTGTT
66 ATAGAAGATTCAAG-CCTTTCACTTTCCTGTT
* *
4072766 CTAGTAACTCTTTTTTTTGCTGAAGCTCAAGTTGCATTTCCTGAAACTCAAGTTGCTTCTTGTGC
1 CTAGTAACTCTTTTGTTTGCTGAAGCTCAAGTTGCAGTTCCTGAAACTCAAGTTGCTTCTTGTGC
* *
4072831 ATAGTAGATTCAAACCTTTCACTTTCCTGTT
66 ATAGAAGATTCAAGCCTTTCACTTTCCTGTT
* * *
4072862 CTTGTAACTCTTTTGTTTGTTGAAGCTTAAGTTGCATGTTC
1 CTAGTAACTCTTTTGTTTGCTGAAGCTCAAGTTGCA-GTTC
4072903 TGCAAAGTAG
Statistics
Matches: 205, Mismatches: 25, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
95 2 0.01
96 199 0.97
97 4 0.02
ACGTcount: A:0.22, C:0.21, G:0.16, T:0.41
Consensus pattern (96 bp):
CTAGTAACTCTTTTGTTTGCTGAAGCTCAAGTTGCAGTTCCTGAAACTCAAGTTGCTTCTTGTGC
ATAGAAGATTCAAGCCTTTCACTTTCCTGTT
Found at i:4073226 original size:66 final size:66
Alignment explanation
Indices: 4073115--4073386 Score: 393
Period size: 66 Copynumber: 4.1 Consensus size: 66
4073105 CAAGTTGCAG
* * * * *
4073115 TTCCTCAAACTCAAGTTGCTTC-TCGTTCATAGTAGATTCAAACCTTTCACTTTCCTGTTTTTTG
1 TTCCTCAAACTCAAGTTGCATCTTC-TGCAAAGTAGATTCAAACCTTGCACTTTCCTGTTTTTTC
4073179 GA
65 GA
* * * * *
4073181 TTCCTCAAACTCCAGTTGCATCTTATGCAAAGTAGATTCATACCTTGCACTTTCTTGTTTTTTGG
1 TTCCTCAAACTCAAGTTGCATCTTCTGCAAAGTAGATTCAAACCTTGCACTTTCCTGTTTTTTCG
4073246 A
66 A
*
4073247 TTCCTCAAACTCAAGTTGCATATTCTGCAAAGTAGATTCAAACCTTGCACTTTCCTGTTTTTTCG
1 TTCCTCAAACTCAAGTTGCATCTTCTGCAAAGTAGATTCAAACCTTGCACTTTCCTGTTTTTTCG
4073312 A
66 A
* * * *
4073313 TTCCTCAAACTCAAGCTGCATCTTCTTCAAAGTAGATTCAAACTTTGCACTCTCCTGTTTTTTCG
1 TTCCTCAAACTCAAGTTGCATCTTCTGCAAAGTAGATTCAAACCTTGCACTTTCCTGTTTTTTCG
4073378 A
66 A
4073379 TTCCTCAA
1 TTCCTCAA
4073387 TGTCAACTTG
Statistics
Matches: 186, Mismatches: 19, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
66 185 0.99
67 1 0.01
ACGTcount: A:0.24, C:0.25, G:0.12, T:0.40
Consensus pattern (66 bp):
TTCCTCAAACTCAAGTTGCATCTTCTGCAAAGTAGATTCAAACCTTGCACTTTCCTGTTTTTTCG
A
Found at i:4080219 original size:17 final size:17
Alignment explanation
Indices: 4080197--4080231 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
4080187 TATTAATTGA
4080197 AACATATAAGAGTAAGG
1 AACATATAAGAGTAAGG
4080214 AACATATAAGAGTAAGG
1 AACATATAAGAGTAAGG
4080231 A
1 A
4080232 GCTGAGATTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.54, C:0.06, G:0.23, T:0.17
Consensus pattern (17 bp):
AACATATAAGAGTAAGG
Found at i:4083074 original size:6 final size:6
Alignment explanation
Indices: 4083043--4083072 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
4083033 CACAGTCAAT
*
4083043 GGAGAG GGAGAG GGAGAG GGAGAG AGAGAG
1 GGAGAG GGAGAG GGAGAG GGAGAG GGAGAG
4083073 AGTTCCTTGT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.37, C:0.00, G:0.63, T:0.00
Consensus pattern (6 bp):
GGAGAG
Found at i:4089407 original size:60 final size:60
Alignment explanation
Indices: 4089295--4089408 Score: 151
Period size: 60 Copynumber: 1.9 Consensus size: 60
4089285 TTATATGATA
* * * *
4089295 TTGTTTTGTTGAGTCATCTGATTATTAAAAATTACAAAATGGTTCCTTAACTATAGAGAG
1 TTGTTTTGTTGAGTCATCTAATTATTAAAAATTAAAAAATGGATCCTCAACTATAGAGAG
*
4089355 TTGTTTTGTTGAGTC-TCTAAATTATTAAAAGTTAAAAAAT-GATCACTCAACTAT
1 TTGTTTTGTTGAGTCATCT-AATTATTAAAAATTAAAAAATGGATC-CTCAACTAT
4089409 TCATTATGTT
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
59 6 0.13
60 41 0.87
ACGTcount: A:0.35, C:0.11, G:0.14, T:0.40
Consensus pattern (60 bp):
TTGTTTTGTTGAGTCATCTAATTATTAAAAATTAAAAAATGGATCCTCAACTATAGAGAG
Found at i:4091081 original size:21 final size:21
Alignment explanation
Indices: 4091038--4091088 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
4091028 TTAATAATTA
4091038 TGTTTTTATGACATTTTTCTTT
1 TGTTTTT-TGACATTTTTCTTT
*
4091060 TGTTTTTTGATATGTTTT-TTT
1 TGTTTTTTGACAT-TTTTCTTT
*
4091081 TCTTTTTT
1 TGTTTTTT
4091089 TTATTTGTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
21 15 0.58
22 11 0.42
ACGTcount: A:0.10, C:0.06, G:0.10, T:0.75
Consensus pattern (21 bp):
TGTTTTTTGACATTTTTCTTT
Found at i:4094458 original size:24 final size:25
Alignment explanation
Indices: 4094412--4094458 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
4094402 GCTCGGGAAT
* *
4094412 ATTTTTTTAAAATTATGATACTTAA
1 ATTTTTTTAAAATTATCAAACTTAA
*
4094437 ATTTTTTTAAAA-TCTCAAACTT
1 ATTTTTTTAAAATTATCAAACTT
4094459 TAAGTTAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 7 0.37
25 12 0.63
ACGTcount: A:0.38, C:0.09, G:0.02, T:0.51
Consensus pattern (25 bp):
ATTTTTTTAAAATTATCAAACTTAA
Found at i:4095658 original size:19 final size:20
Alignment explanation
Indices: 4095609--4095663 Score: 76
Period size: 19 Copynumber: 2.8 Consensus size: 20
4095599 GATTCTGACT
4095609 ATCGCATTGCGATTTCCCAA
1 ATCGCATTGCGATTTCCCAA
* *
4095629 ATTCGCGTTGCGATTT-CCTA
1 A-TCGCATTGCGATTTCCCAA
4095649 ATCGCATTGCGATTT
1 ATCGCATTGCGATTT
4095664 AGTAAATCAC
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 13 0.42
20 5 0.16
21 13 0.42
ACGTcount: A:0.20, C:0.25, G:0.18, T:0.36
Consensus pattern (20 bp):
ATCGCATTGCGATTTCCCAA
Found at i:4099173 original size:33 final size:33
Alignment explanation
Indices: 4099126--4099250 Score: 196
Period size: 33 Copynumber: 3.8 Consensus size: 33
4099116 GGAAATTACT
* *
4099126 ATCGTAATGCGAAATAAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
4099159 ATCACAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
4099192 ATCGCAATGCGAAATGAAAATCGCAACGAGGGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* *
4099225 ATCGCAAAGTGAAATGAAAATCGCAA
1 ATCGCAATGCGAAATGAAAATCGCAA
4099251 TGCGAATTTA
Statistics
Matches: 85, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 85 1.00
ACGTcount: A:0.47, C:0.17, G:0.22, T:0.14
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:4099196 original size:14 final size:14
Alignment explanation
Indices: 4099144--4099231 Score: 50
Period size: 14 Copynumber: 5.6 Consensus size: 14
4099134 GCGAAATAAA
4099144 AATCGCAACGAGAG
1 AATCGCAACGAGAG
* *
4099158 AATCACAATGCGAAATGAA
1 AATCGCAA--CG--A-GAG
4099177 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
4099191 AATCGCAATGCGAAATGAA
1 AATCGCAA--CG--A-GAG
*
4099210 AATCGCAACGAGGG
1 AATCGCAACGAGAG
4099224 AATCGCAA
1 AATCGCAA
4099232 AGTGAAATGA
Statistics
Matches: 57, Mismatches: 7, Indels: 20
0.68 0.08 0.24
Matches are distributed among these distances:
14 26 0.46
15 2 0.04
16 4 0.07
17 4 0.07
18 2 0.04
19 19 0.33
ACGTcount: A:0.45, C:0.19, G:0.24, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:4099215 original size:19 final size:19
Alignment explanation
Indices: 4099126--4099256 Score: 76
Period size: 19 Copynumber: 7.7 Consensus size: 19
4099116 GGAAATTACT
* *
4099126 ATCGTAATGCGAAATAAAA
1 ATCGCAATGCGAAATGAAA
*
4099145 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
*
4099159 ATCACAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
4099178 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
4099192 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
**
4099211 ATCGCAA--CG--A-GGGA
1 ATCGCAATGCGAAATGAAA
* *
4099225 ATCGCAAAGTGAAATGAAA
1 ATCGCAATGCGAAATGAAA
4099244 ATCGCAATGCGAA
1 ATCGCAATGCGAA
4099257 TTTAGTTTCG
Statistics
Matches: 82, Mismatches: 15, Indels: 30
0.65 0.12 0.24
Matches are distributed among these distances:
14 27 0.33
15 3 0.04
16 5 0.06
17 6 0.07
18 3 0.04
19 38 0.46
ACGTcount: A:0.47, C:0.17, G:0.23, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:4099295 original size:19 final size:19
Alignment explanation
Indices: 4099245--4099328 Score: 72
Period size: 19 Copynumber: 4.7 Consensus size: 19
4099235 GAAATGAAAA
* *
4099245 TCGCAATGCGAATTTAGTT
1 TCGCATTGCGATTTTAGTT
** *
4099264 TCGTGTTGTGATTTTAGTT
1 TCGCATTGCGATTTTAGTT
4099283 TCGCATTGCGATTTT-G--
1 TCGCATTGCGATTTTAGTT
4099299 TCG--TTGCGATTTTCA-TT
1 TCGCATTGCGATTTT-AGTT
4099316 TCGCATTGCGATT
1 TCGCATTGCGATT
4099329 CTCTCGTTGC
Statistics
Matches: 51, Mismatches: 8, Indels: 12
0.72 0.11 0.17
Matches are distributed among these distances:
14 10 0.20
16 3 0.06
17 3 0.06
18 1 0.02
19 34 0.67
ACGTcount: A:0.15, C:0.15, G:0.23, T:0.46
Consensus pattern (19 bp):
TCGCATTGCGATTTTAGTT
Found at i:4099318 original size:33 final size:33
Alignment explanation
Indices: 4099268--4099393 Score: 200
Period size: 33 Copynumber: 3.8 Consensus size: 33
4099258 TTAGTTTCGT
* * *
4099268 GTTGTGATTTT-AGTTTCGCATTGCGATTTTGTC
1 GTTGCGATTTTCA-TTTCGCATTGCGATTCTCTC
4099301 GTTGCGATTTTCATTTCGCATTGCGATTCTCTC
1 GTTGCGATTTTCATTTCGCATTGCGATTCTCTC
4099334 GTTGCGATTTTCATTTCGCATTGCGATTCTCTC
1 GTTGCGATTTTCATTTCGCATTGCGATTCTCTC
*
4099367 GTTGCGATTTTCATTTCACATTGCGAT
1 GTTGCGATTTTCATTTCGCATTGCGAT
4099394 AGTCATTTTT
Statistics
Matches: 88, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
33 87 0.99
34 1 0.01
ACGTcount: A:0.13, C:0.20, G:0.20, T:0.47
Consensus pattern (33 bp):
GTTGCGATTTTCATTTCGCATTGCGATTCTCTC
Found at i:4099340 original size:14 final size:14
Alignment explanation
Indices: 4099321--4099375 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
4099311 TCATTTCGCA
4099321 TTGCGATTCTCTCG
1 TTGCGATTCTCTCG
*
4099335 TTGCGATTTTCATTTCG
1 TTGCGA--TTC-TCTCG
4099352 CATTGCGATTCTCTCG
1 --TTGCGATTCTCTCG
4099368 TTGCGATT
1 TTGCGATT
4099376 TTCATTTCAC
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 14 0.41
16 7 0.21
17 7 0.21
19 6 0.18
ACGTcount: A:0.11, C:0.24, G:0.20, T:0.45
Consensus pattern (14 bp):
TTGCGATTCTCTCG
Found at i:4099359 original size:19 final size:19
Alignment explanation
Indices: 4099302--4099393 Score: 87
Period size: 19 Copynumber: 5.4 Consensus size: 19
4099292 GATTTTGTCG
4099302 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
4099321 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
4099335 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
4099354 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
*
4099368 TTGCGATTTTCATTTCACA
1 TTGCGATTTTCATTTCGCA
4099387 TTGCGAT
1 TTGCGAT
4099394 AGTCATTTTT
Statistics
Matches: 58, Mismatches: 5, Indels: 20
0.70 0.06 0.24
Matches are distributed among these distances:
14 12 0.21
16 14 0.24
17 13 0.22
19 19 0.33
ACGTcount: A:0.14, C:0.23, G:0.17, T:0.46
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:4099519 original size:14 final size:13
Alignment explanation
Indices: 4099500--4099538 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 13
4099490 CATCAATTAA
4099500 ACAAATCAACTTTT
1 ACAAATCAA-TTTT
4099514 ACAAATCATATTTT
1 ACAAATCA-ATTTT
4099528 ACAAATCAATT
1 ACAAATCAATT
4099539 AAACAATAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
13 3 0.12
14 20 0.83
15 1 0.04
ACGTcount: A:0.46, C:0.18, G:0.00, T:0.36
Consensus pattern (13 bp):
ACAAATCAATTTT
Found at i:4100953 original size:21 final size:21
Alignment explanation
Indices: 4100887--4100953 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
4100877 GTGAATTGGG
*
4100887 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
4100907 CCTCTTCAACGATGACAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
4100929 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
4100950 CTCT
1 CTCT
4100954 CGAGGAATGA
Statistics
Matches: 32, Mismatches: 13, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.19, C:0.21, G:0.36, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:4100972 original size:42 final size:41
Alignment explanation
Indices: 4100887--4101009 Score: 113
Period size: 42 Copynumber: 2.9 Consensus size: 41
4100877 GTGAATTGGG
* * * *
4100887 CTCTTGAATGGTGGGA-GGGACCTCTTCAACGATGACAGTGGC
1 CTCTTGAACGGTGGGAGGGGA-CTC-TCGAGGATGACAGGGGC
*
4100929 CTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGC
1 CTCTTGAACGGTGGGAGGGGACTCTCGAGG-ATGACAGGGGC
* * * * *
4100971 CTCTTCAACGATAGGAGTGGACTCTTGAGGGATGACAGG
1 CTCTTGAACGGTGGGAGGGGACTCTCGA-GGATGACAGG
4101010 CGAGTCGGGC
Statistics
Matches: 67, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
41 4 0.06
42 57 0.85
43 6 0.09
ACGTcount: A:0.23, C:0.19, G:0.37, T:0.22
Consensus pattern (41 bp):
CTCTTGAACGGTGGGAGGGGACTCTCGAGGATGACAGGGGC
Found at i:4101446 original size:19 final size:19
Alignment explanation
Indices: 4101406--4101527 Score: 128
Period size: 19 Copynumber: 6.5 Consensus size: 19
4101396 TCTAGAACTT
*
4101406 AAAATCGCAACGTGAAAAATG
1 AAAATCGCAACGCG--AAATG
**
4101427 ACTATCGCAACGCGAAATG
1 AAAATCGCAACGCGAAATG
*
4101446 AAAATCGCAACGAGAGAATG
1 AAAATCGCAACGCGA-AATG
4101466 AAAATCGCAACGCGAAATG
1 AAAATCGCAACGCGAAATG
*
4101485 AAAATCG-AA-ACG--A-G
1 AAAATCGCAACGCGAAATG
*
4101499 AGAATCGCAACGCGAAATG
1 AAAATCGCAACGCGAAATG
4101518 AAAATCGCAA
1 AAAATCGCAA
4101528 TGAGAGAATC
Statistics
Matches: 84, Mismatches: 11, Indels: 14
0.77 0.10 0.13
Matches are distributed among these distances:
14 7 0.08
15 3 0.04
16 2 0.02
17 2 0.02
18 3 0.04
19 38 0.45
20 18 0.21
21 11 0.13
ACGTcount: A:0.48, C:0.19, G:0.21, T:0.11
Consensus pattern (19 bp):
AAAATCGCAACGCGAAATG
Found at i:4101475 original size:39 final size:38
Alignment explanation
Indices: 4101406--4101536 Score: 155
Period size: 39 Copynumber: 3.5 Consensus size: 38
4101396 TCTAGAACTT
* * *
4101406 AAAATCGCAACGTGAAAAATGACTATCGCAACGCGAAATG
1 AAAATCGCAACGAG-AGAATGA-AATCGCAACGCGAAATG
4101446 AAAATCGCAACGAGAGAATGAAAATCGCAACGCGAAATG
1 AAAATCGCAACGAGAGAATG-AAATCGCAACGCGAAATG
*
4101485 AAAATCGAAAC--GAG-A-G-AATCGCAACGCGAAATG
1 AAAATCGCAACGAGAGAATGAAATCGCAACGCGAAATG
*
4101518 AAAATCGCAATGAGAGAAT
1 AAAATCGCAACGAGAGAAT
4101537 CGCAATGCGG
Statistics
Matches: 80, Mismatches: 6, Indels: 13
0.81 0.06 0.13
Matches are distributed among these distances:
33 26 0.32
35 4 0.05
36 2 0.03
37 3 0.04
39 31 0.39
40 14 0.17
ACGTcount: A:0.48, C:0.18, G:0.22, T:0.12
Consensus pattern (38 bp):
AAAATCGCAACGAGAGAATGAAATCGCAACGCGAAATG
Found at i:4101510 original size:33 final size:33
Alignment explanation
Indices: 4101430--4101562 Score: 167
Period size: 33 Copynumber: 3.8 Consensus size: 33
4101420 AAAAATGACT
4101430 ATCGCAACGCGAAATGAAAATCGCAACGAGAGAATGAAA
1 ATCGCAACGCGAAATGAAAATCGCAAC--GAG-A-G--A
*
4101469 ATCGCAACGCGAAATGAAAATCGAAACGAGAGA
1 ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
*
4101502 ATCGCAACGCGAAATGAAAATCGCAATGAGAGA
1 ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
* * *
4101535 ATCGCAATGCGGAATGAAAATTGCAACG
1 ATCGCAACGCGAAATGAAAATCGCAACG
4101563 CGATTATAGT
Statistics
Matches: 87, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
33 56 0.64
35 1 0.01
36 1 0.01
37 3 0.03
39 26 0.30
ACGTcount: A:0.46, C:0.18, G:0.24, T:0.12
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
Found at i:4101596 original size:20 final size:20
Alignment explanation
Indices: 4101571--4101608 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
4101561 CGCGATTATA
4101571 GTTTCGCGTTGCGATTTTTG
1 GTTTCGCGTTGCGATTTTTG
4101591 GTTTCGCGTTGCGATTTT
1 GTTTCGCGTTGCGATTTT
4101609 GTCGTTGCGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.05, C:0.16, G:0.29, T:0.50
Consensus pattern (20 bp):
GTTTCGCGTTGCGATTTTTG
Found at i:4101635 original size:19 final size:19
Alignment explanation
Indices: 4101604--4101699 Score: 87
Period size: 19 Copynumber: 5.2 Consensus size: 19
4101594 TCGCGTTGCG
4101604 ATTTTGTCGTTGCGATTTTC
1 ATTTTG-CGTTGCGATTTTC
4101624 ATTTTGCGTTGCGA--TTC
1 ATTTTGCGTTGCGATTTTC
* *
4101641 --TCT-CATTGCGATTTTC
1 ATTTTGCGTTGCGATTTTC
* *
4101657 GTTTCGCGTTGCGATTTTC
1 ATTTTGCGTTGCGATTTTC
4101676 ATTCTCT-CGTTGCGATTTTC
1 ATT-T-TGCGTTGCGATTTTC
4101696 ATTT
1 ATTT
4101700 CAACCAAAAG
Statistics
Matches: 62, Mismatches: 7, Indels: 15
0.74 0.08 0.18
Matches are distributed among these distances:
14 7 0.11
15 2 0.03
16 3 0.05
17 3 0.05
18 1 0.02
19 23 0.37
20 23 0.37
ACGTcount: A:0.10, C:0.20, G:0.19, T:0.51
Consensus pattern (19 bp):
ATTTTGCGTTGCGATTTTC
Found at i:4101638 original size:33 final size:33
Alignment explanation
Indices: 4101572--4101675 Score: 136
Period size: 33 Copynumber: 3.1 Consensus size: 33
4101562 GCGATTATAG
* *
4101572 TTTCGCGTTGCGATTTTTGGTTTCGCGTTGCGAT
1 TTTCTCGTTGCGA-TTTTCGTTTCGCGTTGCGAT
* * *
4101606 TTTGTCGTTGCGATTTTCATTTTGCGTTGCGAT
1 TTTCTCGTTGCGATTTTCGTTTCGCGTTGCGAT
* *
4101639 TCTCTCATTGCGATTTTCGTTTCGCGTTGCGAT
1 TTTCTCGTTGCGATTTTCGTTTCGCGTTGCGAT
4101672 TTTC
1 TTTC
4101676 ATTCTCTCGT
Statistics
Matches: 59, Mismatches: 11, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
33 48 0.81
34 11 0.19
ACGTcount: A:0.08, C:0.19, G:0.24, T:0.49
Consensus pattern (33 bp):
TTTCTCGTTGCGATTTTCGTTTCGCGTTGCGAT
Found at i:4101907 original size:94 final size:94
Alignment explanation
Indices: 4101791--4102258 Score: 743
Period size: 94 Copynumber: 5.1 Consensus size: 94
4101781 ATGGATTGCA
* *
4101791 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCAGAGTATTAAAGAATACACAGT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
*
4101855 TTAGCAGAATTGGCAGCAAACGAACAAAT
66 TTAGCAGAATTGGCAGCAACCGAACAAAT
* * * *
4101884 TTACTTTTAACCAAAGGACAAAACAAAGACAAATACTAACTTCACAGTGTCAAAGAATACACATT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
*
4101949 TTAGCAGAATTGGCAACAACCGAACAAAT
66 TTAGCAGAATTGGCAGCAACCGAACAAAT
*
4101978 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACGGT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
4102043 TTAGCAGAATTGGCAGCAACCGAACAAAT
66 TTAGCAGAATTGGCAGCAACCGAACAAAT
*
4102072 TTACTTTCAACCAAAAGACAAAACAAAGAAAAATACTAACTTCACAGTGTTAAAGAATACACAGT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
*
4102137 TTAGCAGAATTGGCAGCAACCGAATAAAT
66 TTAGCAGAATTGGCAGCAACCGAACAAAT
* * *
4102166 TTAC-TTCAACCAAAAGATAACA-AAAGACAAATACTAACTTCACAGTGTT----AATAAACAGT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
* *
4102225 TTAGCAGTATTGGCAGCAACCGAATAAAT
66 TTAGCAGAATTGGCAGCAACCGAACAAAT
4102254 TTACT
1 TTACT
4102259 AAGCAATCTA
Statistics
Matches: 351, Mismatches: 22, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
88 41 0.12
92 26 0.07
93 20 0.06
94 264 0.75
ACGTcount: A:0.47, C:0.19, G:0.13, T:0.22
Consensus pattern (94 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
TTAGCAGAATTGGCAGCAACCGAACAAAT
Found at i:4103994 original size:20 final size:19
Alignment explanation
Indices: 4103949--4104099 Score: 98
Period size: 14 Copynumber: 8.6 Consensus size: 19
4103939 TCTTTTGGTT
*
4103949 GAAATGAAAATCGCAATGA
1 GAAATGAAAATCGCAACGA
*
4103968 GAGAATGAAAATCGCAACGCG
1 GA-AATGAAAATCGCAACG-A
**
4103989 GAAATGACTATCGCAACGA
1 GAAATGAAAATCGCAACGA
* *
4104008 G--A-G--AATCGTAACGC
1 GAAATGAAAATCGCAACGA
4104022 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGA
*
4104041 G--A-G--AATCGCAACGC
1 GAAATGAAAATCGCAACGA
*
4104055 GAAATTAAAATCGCAACGA
1 GAAATGAAAATCGCAACGA
*
4104074 G--A-G--AATCGCAACGC
1 GAAATGAAAATCGCAACGA
4104088 GAAATGAAAATC
1 GAAATGAAAATC
4104100 ACAATGCGAT
Statistics
Matches: 100, Mismatches: 15, Indels: 34
0.67 0.10 0.23
Matches are distributed among these distances:
14 31 0.31
16 5 0.05
17 5 0.05
19 28 0.28
20 29 0.29
21 2 0.02
ACGTcount: A:0.46, C:0.19, G:0.23, T:0.13
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGA
Found at i:4104035 original size:33 final size:33
Alignment explanation
Indices: 4103977--4104099 Score: 201
Period size: 33 Copynumber: 3.7 Consensus size: 33
4103967 AGAGAATGAA
**
4103977 AATCGCAACGCGGAAATGACTATCGCAACGAGAG
1 AATCGCAACGC-GAAATGAAAATCGCAACGAGAG
*
4104011 AATCGTAACGCGAAATGAAAATCGCAACGAGAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAGAG
*
4104044 AATCGCAACGCGAAATTAAAATCGCAACGAGAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAGAG
4104077 AATCGCAACGCGAAATGAAAATC
1 AATCGCAACGCGAAATGAAAATC
4104100 ACAATGCGAT
Statistics
Matches: 83, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
33 73 0.88
34 10 0.12
ACGTcount: A:0.44, C:0.21, G:0.23, T:0.12
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAGAG
Found at i:4104200 original size:20 final size:20
Alignment explanation
Indices: 4104135--4104225 Score: 114
Period size: 20 Copynumber: 4.5 Consensus size: 20
4104125 CAATTATATC
*
4104135 GTTGCGATTTTCA-TTTCGC
1 GTTGCGATTTTCATTTTCGT
4104154 GTTGCGATTTTCATTTCTC-T
1 GTTGCGATTTTCATTT-TCGT
**
4104174 CGTTGCGATAGTCATTTTCGT
1 -GTTGCGATTTTCATTTTCGT
*
4104195 GTTGCGATTTTCATTTTCAT
1 GTTGCGATTTTCATTTTCGT
4104215 GTTGCGATTTT
1 GTTGCGATTTT
4104226 AAGTTTATAA
Statistics
Matches: 62, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
19 13 0.21
20 32 0.52
21 17 0.27
ACGTcount: A:0.12, C:0.18, G:0.20, T:0.51
Consensus pattern (20 bp):
GTTGCGATTTTCATTTTCGT
Found at i:4104798 original size:20 final size:20
Alignment explanation
Indices: 4104752--4104951 Score: 102
Period size: 20 Copynumber: 9.8 Consensus size: 20
4104742 ATGGCGCTAT
*
4104752 GTAAATCGCAATGCGAATTAG
1 GTAAATCGCAATGCG-ATTAC
* * *
4104773 GAAAATTGTAATGCGATTAC
1 GTAAATCGCAATGCGATTAC
*
4104793 GTAAATCGCAATGCGAATAC
1 GTAAATCGCAATGCGATTAC
*
4104813 GT-AATCGCATTGCGATTTAC
1 GTAAATCGCAATGCGA-TTAC
* * *
4104833 GT-AATCACATTGCGATTTTC
1 GTAAATCGCAATGCGA-TTAC
* * * *
4104853 CTAATTCGCATTACGATTTAC
1 GTAAATCGCAATGCGA-TTAC
*
4104874 GT-AATCGCATTGCGATTTAC
1 GTAAATCGCAATGCGA-TTAC
* * * *
4104894 GT-ATTTGCATTGCGAATTAG
1 GTAAATCGCAATGCG-ATTAC
* * **
4104914 GAAAATCGCAACGCGAATTTG
1 GTAAATCGCAATGCG-ATTAC
*
4104935 GGAAATCGCAATGCGAT
1 GTAAATCGCAATGCGAT
4104952 AGTCAGAATC
Statistics
Matches: 144, Mismatches: 31, Indels: 9
0.78 0.17 0.05
Matches are distributed among these distances:
19 12 0.08
20 78 0.54
21 54 0.38
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.30
Consensus pattern (20 bp):
GTAAATCGCAATGCGATTAC
Found at i:4106514 original size:27 final size:27
Alignment explanation
Indices: 4106483--4106550 Score: 104
Period size: 27 Copynumber: 2.6 Consensus size: 27
4106473 TCTATTTACA
*
4106483 AAATCATATCTCTATAGGAATGGTAAC
1 AAATCATATCTCTATAGGAATGGAAAC
4106510 AAATCATATCTCTATAGGAATGGAAAC
1 AAATCATATCTCTATAGGAATGGAAAC
*
4106537 AACTC--ATCTCTATA
1 AAATCATATCTCTATA
4106551 ATTCCTACAC
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
25 9 0.23
27 30 0.77
ACGTcount: A:0.41, C:0.18, G:0.12, T:0.29
Consensus pattern (27 bp):
AAATCATATCTCTATAGGAATGGAAAC
Found at i:4110273 original size:27 final size:27
Alignment explanation
Indices: 4110242--4110309 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
4110232 TCTATTTACA
*
4110242 AAATCATATCTCTATAGGAATGGTAAC
1 AAATCATATCTCTATAGGAATGATAAC
4110269 AAATCATATCTCTATAGGAATGATAAC
1 AAATCATATCTCTATAGGAATGATAAC
4110296 AAATC--ATCTCTATA
1 AAATCATATCTCTATA
4110310 ATTCCTACAG
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
25 9 0.22
27 31 0.77
ACGTcount: A:0.43, C:0.16, G:0.10, T:0.31
Consensus pattern (27 bp):
AAATCATATCTCTATAGGAATGATAAC
Found at i:4118236 original size:55 final size:54
Alignment explanation
Indices: 4118171--4118668 Score: 314
Period size: 55 Copynumber: 9.1 Consensus size: 54
4118161 GGGATAAATG
* * * *
4118171 AGACTTGAAAAATCTTCAAATGACGAGCCTGCTCCCTATTCCTTCAG-GAAGTATA
1 AGACTCGAAAAATCTTCAAA-AATGAGCCTGCTCTCTATTCCTTCAGAG-AGTATA
* * * *
4118226 AGACTCGAAAAATCTTCATAAAATGTGTCTGCTCTCTATTCATTCATAGAGTATA
1 AGACTCGAAAAATCTTCA-AAAATGAGCCTGCTCTCTATTCCTTCAGAGAGTATA
* *
4118281 AGACTTGAACAATCTTCAATAAAATGAGTCCT-CTCTCTATTCCTTCAGAGAGTAT-
1 AGACTCGAAAAATCTTC-A-AAAATGAG-CCTGCTCTCTATTCCTTCAGAGAGTATA
* * * **
4118336 AGAACTCGGAAAATCTTCAATAAA-CAGGTCC-GCTCCCTATTTTTTCAGAGAGTATA
1 AG-ACTCGAAAAATCTTCAA-AAATGA-G-CCTGCTCTCTATTCCTTCAGAGAGTATA
* * * * *
4118392 GGACTC----AATCTTTAACAAACGTGTCCT-CTCCCTATTCCTTCAGAGAGTAT-
1 AGACTCGAAAAATCTTCAA-AAATGAG-CCTGCTCTCTATTCCTTCAGAGAGTATA
** * *
4118442 AGAACTCGAGCAATCTTCATAAAACGGGTCC-GCTCTCTATTCCTTCAGAGAGTAT-
1 AG-ACTCGAAAAATCTTCA-AAAATGAG-CCTGCTCTCTATTCCTTCAGAGAGTATA
* * *
4118497 AGAACTCGAACAATCTTCAACAAACGTGTCC-GCTCTCTATTCCTTCAGAGAGTAT-
1 AG-ACTCGAAAAATCTTCAA-AAATGAG-CCTGCTCTCTATTCCTTCAGAGAGTATA
* * * *
4118552 AGAACTCGAACAATCTTCATGAAACGGGTCC-GCTCTCTATTCCTTCAGAGAGTAT-
1 AG-ACTCGAAAAATCTTCA-AAAATGAG-CCTGCTCTCTATTCCTTCAGAGAGTATA
* * * *
4118607 AGAACTCGAACAATCTTCAACGAACTTG-TCCT-CTCCCTATTCCTTCAGAGAGTATA
1 AG-ACTCGAAAAATCTTCAA--AA-ATGAGCCTGCTCTCTATTCCTTCAGAGAGTATA
*
4118663 TGACTC
1 AGACTC
4118669 AATCTTTAAT
Statistics
Matches: 376, Mismatches: 42, Indels: 50
0.80 0.09 0.11
Matches are distributed among these distances:
50 1 0.00
51 40 0.11
54 3 0.01
55 279 0.74
56 50 0.13
57 3 0.01
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (54 bp):
AGACTCGAAAAATCTTCAAAAATGAGCCTGCTCTCTATTCCTTCAGAGAGTATA
Found at i:4118555 original size:110 final size:110
Alignment explanation
Indices: 4118202--4118662 Score: 596
Period size: 110 Copynumber: 4.2 Consensus size: 110
4118192 GACGAGCCTG
* * *
4118202 CTCCCTATTCCTTCAG-GAAGTATA-AGACTCGAAAAATCTTCATAAAATGTGTCTGCTCTCTAT
1 CTCCCTATTCCTTCAGAG-AGTATAGA-ACTCGAAAAATCTTCATAAAACGGGTCCGCTCTCTAT
* * * * * *
4118265 TCATTCATAGAGTATA-AGACTTGAACAATCTTCAATAAAATGAGTCCT
64 TCCTTCAGAGAGTATAGA-ACTCGAACAATCTTCAA-CAAACGTGTCCT
* * * *
4118313 CTCTCTATTCCTTCAGAGAGTATAGAACTCGGAAAATCTTCA-ATAAACAGGTCCGCTCCCTATT
1 CTCCCTATTCCTTCAGAGAGTATAGAACTCGAAAAATCTTCATA-AAACGGGTCCGCTCTCTATT
** * *
4118377 TTTTCAGAGAGTATAGGACT----CAATCTTTAACAAACGTGTCCT
65 CCTTCAGAGAGTATAGAACTCGAACAATCTTCAACAAACGTGTCCT
**
4118419 CTCCCTATTCCTTCAGAGAGTATAGAACTCGAGCAATCTTCATAAAACGGGTCCGCTCTCTATTC
1 CTCCCTATTCCTTCAGAGAGTATAGAACTCGAAAAATCTTCATAAAACGGGTCCGCTCTCTATTC
*
4118484 CTTCAGAGAGTATAGAACTCGAACAATCTTCAACAAACGTGTCCG
66 CTTCAGAGAGTATAGAACTCGAACAATCTTCAACAAACGTGTCCT
* * *
4118529 CTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCATGAAACGGGTCCGCTCTCTATTC
1 CTCCCTATTCCTTCAGAGAGTATAGAACTCGAAAAATCTTCATAAAACGGGTCCGCTCTCTATTC
* *
4118594 CTTCAGAGAGTATAGAACTCGAACAATCTTCAACGAACTTGTCCT
66 CTTCAGAGAGTATAGAACTCGAACAATCTTCAACAAACGTGTCCT
4118639 CTCCCTATTCCTTCAGAGAGTATA
1 CTCCCTATTCCTTCAGAGAGTATA
4118663 TGACTCAATC
Statistics
Matches: 308, Mismatches: 33, Indels: 19
0.86 0.09 0.05
Matches are distributed among these distances:
106 82 0.27
107 10 0.03
110 148 0.48
111 66 0.21
112 2 0.01
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.30
Consensus pattern (110 bp):
CTCCCTATTCCTTCAGAGAGTATAGAACTCGAAAAATCTTCATAAAACGGGTCCGCTCTCTATTC
CTTCAGAGAGTATAGAACTCGAACAATCTTCAACAAACGTGTCCT
Found at i:4118660 original size:165 final size:164
Alignment explanation
Indices: 4118201--4118662 Score: 548
Period size: 165 Copynumber: 2.8 Consensus size: 164
4118191 TGACGAGCCT
* * *
4118201 GCTCCCTATTCCTTCAG-GAAGTATA-AGACTCGAAAAATCTTCATAAAATGTGTCTGCTCTCTA
1 GCTCCCTATTCCTTCAGAG-AGTATAGA-ACTCGAACAATCTTCATAAAACGTGTCCGCTCTCTA
* * * *
4118264 TTCATTCATAGAGTATA-AGACTTGAACAATCTTCAATAAAATGAGTCCTCTCTCTATTCCTTCA
64 TTCCTTCAGAGAGTATAGA-ACTCGAACAATCTTCAA-AAACT-AGTCCTCTCTCTATTCCTTCA
*
4118328 GAGAGTATAGAACTCGGAAAATCTTCAATAAACAGGTCC
126 GAGAGTATAGAACTCGGAAAATCTTCAACAAACAGGTCC
** * * * *
4118367 GCTCCCTATTTTTTCAGAGAGTATAGGACT----CAATCTTTA-ACAAACGTGTCCTCTCCCTAT
1 GCTCCCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCATA-AAACGTGTCCGCTCTCTAT
* ** *
4118427 TCCTTCAGAGAGTATAGAACTCGAGCAATCTTCATAAAACGGGTCCGCTCTCTATTCCTTCAGAG
65 TCCTTCAGAGAGTATAGAACTCGAACAATCTTCA-AAAACTAGTCCTCTCTCTATTCCTTCAGAG
4118492 AGTATAGAACTC-GAACAATCTTCAACAAAC-GTGTCC
129 AGTATAGAACTCGGAA-AATCTTCAACAAACAG-GTCC
* * *
4118528 GCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCATGAAACGGGTCCGCTCTCTATT
1 GCTCCCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCATAAAACGTGTCCGCTCTCTATT
* * *
4118593 CCTTCAGAGAGTATAGAACTCGAACAATCTTCAACGAACTTGTCCTCTCCCTATTCCTTCAGAGA
66 CCTTCAGAGAGTATAGAACTCGAACAATCTTCAA-AAACTAGTCCTCTCTCTATTCCTTCAGAGA
4118658 GTATA
130 GTATA
4118663 TGACTCAATC
Statistics
Matches: 250, Mismatches: 33, Indels: 27
0.81 0.11 0.09
Matches are distributed among these distances:
160 4 0.02
161 78 0.31
162 53 0.21
163 2 0.01
164 1 0.00
165 87 0.35
166 24 0.10
167 1 0.00
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.30
Consensus pattern (164 bp):
GCTCCCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCATAAAACGTGTCCGCTCTCTATT
CCTTCAGAGAGTATAGAACTCGAACAATCTTCAAAAACTAGTCCTCTCTCTATTCCTTCAGAGAG
TATAGAACTCGGAAAATCTTCAACAAACAGGTCC
Found at i:4120056 original size:7 final size:7
Alignment explanation
Indices: 4120040--4120133 Score: 75
Period size: 7 Copynumber: 13.0 Consensus size: 7
4120030 CCTTCTTTTA
4120040 TTTC-TT
1 TTTCTTT
4120046 TTTCTTT
1 TTTCTTT
4120053 TTTCTTCTT
1 TTTC-T-TT
*
4120062 TTTCATT
1 TTTCTTT
4120069 TTTCATTT
1 TTTC-TTT
*
4120077 TTTATTT
1 TTTCTTT
*
4120084 TTTATTT
1 TTTCTTT
*
4120091 TTTATTT
1 TTTCTTT
*
4120098 TCTCTTT
1 TTTCTTT
4120105 TCATT-TTT
1 T--TTCTTT
*
4120113 CTTCTTT
1 TTTCTTT
4120120 TTTCTTT
1 TTTCTTT
4120127 TTTCTTT
1 TTTCTTT
4120134 CACCATTTTT
Statistics
Matches: 73, Mismatches: 8, Indels: 13
0.78 0.09 0.14
Matches are distributed among these distances:
6 6 0.08
7 51 0.70
8 9 0.12
9 7 0.10
ACGTcount: A:0.06, C:0.14, G:0.00, T:0.80
Consensus pattern (7 bp):
TTTCTTT
Found at i:4120142 original size:21 final size:20
Alignment explanation
Indices: 4120118--4120174 Score: 53
Period size: 21 Copynumber: 2.8 Consensus size: 20
4120108 TTTTTCTTCT
4120118 TTTTTCTTTTTTCTTTCACCA
1 TTTTTCTTTTTTCTTTC-CCA
* *
4120139 TTTTTATTATTTT-TTTCTCA
1 TTTTTCTT-TTTTCTTTCCCA
*
4120159 TTTTTCATTTCTTCTT
1 TTTTTC-TTTTTTCTT
4120175 CAAGCGAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
20 10 0.34
21 15 0.52
22 4 0.14
ACGTcount: A:0.11, C:0.18, G:0.00, T:0.72
Consensus pattern (20 bp):
TTTTTCTTTTTTCTTTCCCA
Found at i:4120143 original size:57 final size:57
Alignment explanation
Indices: 4120035--4120175 Score: 148
Period size: 57 Copynumber: 2.5 Consensus size: 57
4120025 TGAACCCTTC
* ***
4120035 TTTTA-TTTCT-TTTTCTTTTTTCTTCTTTTTCATTTTTCATTTTTTATTTTTTATT
1 TTTTATTTTCTCTTTTCATTTTTCTTCTTTTTCATTTTTCATTTACCATTTTTTATT
*
4120090 TTTTATTTTCTCTTTTCATTTTTCTTCTTTTTTCTTTTTTC-TTTCACCA-TTTTTATT
1 TTTTATTTTCTCTTTTCATTTTTCTTC-TTTTTCATTTTTCATTT-ACCATTTTTTATT
*
4120147 ATTT-TTTTCTCATTTTTCATTTCTTCTTC
1 TTTTATTTTCTC--TTTTCATTT-TTCTTC
4120176 AAGCGAAATA
Statistics
Matches: 73, Mismatches: 6, Indels: 10
0.82 0.07 0.11
Matches are distributed among these distances:
55 5 0.07
56 12 0.16
57 28 0.38
58 22 0.30
59 6 0.08
ACGTcount: A:0.09, C:0.16, G:0.00, T:0.75
Consensus pattern (57 bp):
TTTTATTTTCTCTTTTCATTTTTCTTCTTTTTCATTTTTCATTTACCATTTTTTATT
Found at i:4123645 original size:2 final size:2
Alignment explanation
Indices: 4123638--4123669 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
4123628 GAAAGAGAAG
*
4123638 AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4123670 GGGAGGATCT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:4129870 original size:45 final size:47
Alignment explanation
Indices: 4129805--4129902 Score: 137
Period size: 45 Copynumber: 2.1 Consensus size: 47
4129795 CGTTATTCAC
* *
4129805 AAAAAGAAATCCTAACCGCATGATATCTAATTCGCATGC-TTGTTCG
1 AAAAAGAAATCCTAACCGCATGATATCTAATTCACATGCATTATTCG
* *
4129851 AAAAATAAA-CCTAACCGCATGATATCTAGTTCACATGCATTTATTCG
1 AAAAAGAAATCCTAACCGCATGATATCTAATTCACATGCA-TTATTCG
4129898 AAAAA
1 AAAAA
4129903 ATGAAAATAA
Statistics
Matches: 46, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
45 27 0.59
46 8 0.17
47 11 0.24
ACGTcount: A:0.40, C:0.20, G:0.12, T:0.28
Consensus pattern (47 bp):
AAAAAGAAATCCTAACCGCATGATATCTAATTCACATGCATTATTCG
Found at i:4134539 original size:16 final size:16
Alignment explanation
Indices: 4134518--4134548 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
4134508 ATGCATCAAT
*
4134518 TATAAATGGTATTAAA
1 TATAAATGCTATTAAA
4134534 TATAAATGCTATTAA
1 TATAAATGCTATTAA
4134549 GTTCAATTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.03, G:0.10, T:0.39
Consensus pattern (16 bp):
TATAAATGCTATTAAA
Found at i:4136724 original size:23 final size:23
Alignment explanation
Indices: 4136674--4136728 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 23
4136664 ACAATAAACA
* *
4136674 ACTT-TTAAACAGGCTTTCAACG
1 ACTTATTAAACAGGCTTTAAAAG
*
4136696 ACTTATTAAACATGCTTTAAAAG
1 ACTTATTAAACAGGCTTTAAAAG
*
4136719 ATTTA-TAAAC
1 ACTTATTAAAC
4136729 GACCTTTCTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
22 9 0.32
23 19 0.68
ACGTcount: A:0.40, C:0.16, G:0.09, T:0.35
Consensus pattern (23 bp):
ACTTATTAAACAGGCTTTAAAAG
Found at i:4141056 original size:3 final size:3
Alignment explanation
Indices: 4141048--4141080 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
4141038 GGGGAAAAAC
4141048 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
4141081 CTGTTTAAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:4141231 original size:3 final size:3
Alignment explanation
Indices: 4141225--4141254 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
4141215 GAAAAACTAC
4141225 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
4141255 CTGTTTAAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:4141262 original size:174 final size:174
Alignment explanation
Indices: 4140972--4141320 Score: 680
Period size: 174 Copynumber: 2.0 Consensus size: 174
4140962 GAAAATAGCT
*
4140972 ACCAAGACTCTTCCTGATTGTGCAAAAGTACATAACAAGAAACTAACCAAAAGTCCTCCTCTAAA
1 ACCAAGACTCTTCCTGATTGTGCAAAAGTACATAACAAGAAACTAACCAAAAGTCCCCCTCTAAA
*
4141037 AGGGGAAAAACTATTATTATTATTATTATTATTATTATTATTATCTGTTTAAGAAAAAAGAAACT
66 AGGGGAAAAACTACTATTATTATTATTATTATTATTATTATTATCTGTTTAAGAAAAAAGAAACT
4141102 CAAAGCACCCTCTCATATAGAAGCAAAGGAAAACATAGAGCACG
131 CAAAGCACCCTCTCATATAGAAGCAAAGGAAAACATAGAGCACG
4141146 ACCAAGACTCTTCCTGATTGTGCAAAAGTACATAACAAGAAACTAACCAAAAGTCCCCCTCTAAA
1 ACCAAGACTCTTCCTGATTGTGCAAAAGTACATAACAAGAAACTAACCAAAAGTCCCCCTCTAAA
4141211 AGGGGAAAAACTACTATTATTATTATTATTATTATTATTATTATCTGTTTAAGAAAAAAGAAACT
66 AGGGGAAAAACTACTATTATTATTATTATTATTATTATTATTATCTGTTTAAGAAAAAAGAAACT
4141276 CAAAGCACCCTCTCATATAGAAGCAAAGGAAAACATAGAGCACG
131 CAAAGCACCCTCTCATATAGAAGCAAAGGAAAACATAGAGCACG
4141320 A
1 A
4141321 AAGCCTTACA
Statistics
Matches: 173, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
174 173 1.00
ACGTcount: A:0.43, C:0.18, G:0.13, T:0.26
Consensus pattern (174 bp):
ACCAAGACTCTTCCTGATTGTGCAAAAGTACATAACAAGAAACTAACCAAAAGTCCCCCTCTAAA
AGGGGAAAAACTACTATTATTATTATTATTATTATTATTATTATCTGTTTAAGAAAAAAGAAACT
CAAAGCACCCTCTCATATAGAAGCAAAGGAAAACATAGAGCACG
Found at i:4145511 original size:21 final size:19
Alignment explanation
Indices: 4145487--4145535 Score: 64
Period size: 21 Copynumber: 2.5 Consensus size: 19
4145477 TATTGTGTTG
*
4145487 ATATAATAGTCCATAATACTA
1 ATATAATAATCCA-AATA-TA
4145508 ATATAATAATCCAAATATA
1 ATATAATAATCCAAATATA
4145527 A-ATAATAAT
1 ATATAATAAT
4145536 GTGATAAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 8 0.30
19 3 0.11
20 4 0.15
21 12 0.44
ACGTcount: A:0.55, C:0.10, G:0.02, T:0.33
Consensus pattern (19 bp):
ATATAATAATCCAAATATA
Found at i:4146430 original size:21 final size:20
Alignment explanation
Indices: 4146399--4146447 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 20
4146389 TTATATTTGA
4146399 TTAAAAA-AA-TTTCAATGTG
1 TTAAAAATAATTTTCAA-GTG
4146418 TGTAAAAATAATTTTTCAAGTG
1 T-TAAAAATAA-TTTTCAAGTG
4146440 TTAAAAAT
1 TTAAAAAT
4146448 GTCAAAAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
19 1 0.04
20 6 0.23
21 9 0.35
22 4 0.15
23 6 0.23
ACGTcount: A:0.47, C:0.04, G:0.10, T:0.39
Consensus pattern (20 bp):
TTAAAAATAATTTTCAAGTG
Found at i:4149635 original size:19 final size:19
Alignment explanation
Indices: 4149611--4149652 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
4149601 TCTATAACAG
4149611 ATTCATAACAAACTCCAAC
1 ATTCATAACAAACTCCAAC
* *
4149630 ATTCATAACAGATTCCAAC
1 ATTCATAACAAACTCCAAC
4149649 ATTC
1 ATTC
4149653 CTTAACAACC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.43, C:0.29, G:0.02, T:0.26
Consensus pattern (19 bp):
ATTCATAACAAACTCCAAC
Found at i:4152084 original size:15 final size:15
Alignment explanation
Indices: 4152064--4152101 Score: 76
Period size: 15 Copynumber: 2.5 Consensus size: 15
4152054 AAAGAGGCTT
4152064 GTGCAAGTAGTACAA
1 GTGCAAGTAGTACAA
4152079 GTGCAAGTAGTACAA
1 GTGCAAGTAGTACAA
4152094 GTGCAAGT
1 GTGCAAGT
4152102 TCAATCACAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.37, C:0.13, G:0.29, T:0.21
Consensus pattern (15 bp):
GTGCAAGTAGTACAA
Found at i:4154261 original size:19 final size:19
Alignment explanation
Indices: 4154237--4154278 Score: 75
Period size: 19 Copynumber: 2.2 Consensus size: 19
4154227 TCTATAACAG
*
4154237 ATTCATAACAGACTCCAAC
1 ATTCATAACAAACTCCAAC
4154256 ATTCATAACAAACTCCAAC
1 ATTCATAACAAACTCCAAC
4154275 ATTC
1 ATTC
4154279 CTTAGCAACC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.43, C:0.31, G:0.02, T:0.24
Consensus pattern (19 bp):
ATTCATAACAAACTCCAAC
Found at i:4154664 original size:13 final size:13
Alignment explanation
Indices: 4154646--4154679 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
4154636 GACAAGATGG
4154646 TTTTGACCGATAA
1 TTTTGACCGATAA
4154659 TTTTGACCGATAA
1 TTTTGACCGATAA
4154672 TTTTGACC
1 TTTTGACC
4154680 ATTGGATAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.26, C:0.18, G:0.15, T:0.41
Consensus pattern (13 bp):
TTTTGACCGATAA
Found at i:4157305 original size:20 final size:19
Alignment explanation
Indices: 4157261--4157308 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 19
4157251 TAAATTAGAA
*
4157261 TTAAATAGTACTATAATAT
1 TTAAATAGTACAATAATAT
4157280 TATAAATATGTACAATTAA-AT
1 T-TAAATA-GTACAA-TAATAT
4157301 TTAAATAG
1 TTAAATAG
4157309 AAACTTGAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
19 2 0.08
20 12 0.48
21 8 0.32
22 3 0.12
ACGTcount: A:0.50, C:0.04, G:0.06, T:0.40
Consensus pattern (19 bp):
TTAAATAGTACAATAATAT
Found at i:4159951 original size:22 final size:23
Alignment explanation
Indices: 4159925--4159969 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
4159915 TTATTAGAAT
4159925 TATTTAATGATATTAAT-ATAAA
1 TATTTAATGATATTAATAATAAA
* **
4159947 TATTTTATTTTATTAATAATAAA
1 TATTTAATGATATTAATAATAAA
4159970 AAGTAAATAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (23 bp):
TATTTAATGATATTAATAATAAA
Found at i:4171404 original size:29 final size:29
Alignment explanation
Indices: 4171362--4171438 Score: 127
Period size: 29 Copynumber: 2.7 Consensus size: 29
4171352 TAACTAAATT
4171362 GATGTAAGCAATGACATCATTACTTAAAC
1 GATGTAAGCAATGACATCATTACTTAAAC
* *
4171391 GATGTAAGCAATGACATCTTTACTTAAAT
1 GATGTAAGCAATGACATCATTACTTAAAC
*
4171420 GATGTAAGCCATGACATCA
1 GATGTAAGCAATGACATCA
4171439 ATTTAGTTTG
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 44 1.00
ACGTcount: A:0.39, C:0.17, G:0.16, T:0.29
Consensus pattern (29 bp):
GATGTAAGCAATGACATCATTACTTAAAC
Found at i:4176133 original size:29 final size:29
Alignment explanation
Indices: 4176090--4176170 Score: 144
Period size: 29 Copynumber: 2.8 Consensus size: 29
4176080 CTCACCTAAC
4176090 TAAATTGATGTAAGCAATGACATCATTACT
1 TAAA-TGATGTAAGCAATGACATCATTACT
*
4176120 TAAATGATGTAAGCAATGACATCTTTACT
1 TAAATGATGTAAGCAATGACATCATTACT
4176149 TAAATGATGTAAGCAATGACAT
1 TAAATGATGTAAGCAATGACAT
4176171 TAATTTAGTT
Statistics
Matches: 50, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
29 46 0.92
30 4 0.08
ACGTcount: A:0.41, C:0.12, G:0.15, T:0.32
Consensus pattern (29 bp):
TAAATGATGTAAGCAATGACATCATTACT
Found at i:4181067 original size:19 final size:20
Alignment explanation
Indices: 4181043--4181081 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
4181033 TCTTCTTCAC
* *
4181043 TCTCTCTCCTTTCT-TATTT
1 TCTCTCCCCTCTCTATATTT
4181062 TCTCTCCCCTCTCTATATTT
1 TCTCTCCCCTCTCTATATTT
4181082 CTCCATAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.08, C:0.36, G:0.00, T:0.56
Consensus pattern (20 bp):
TCTCTCCCCTCTCTATATTT
Found at i:4181985 original size:5 final size:5
Alignment explanation
Indices: 4181975--4182024 Score: 64
Period size: 5 Copynumber: 9.2 Consensus size: 5
4181965 TTTAGACTGC
4181975 AAATA AAATA AAATAA AAATA AAATA AAATA ATAATAA AAATA ATAATA
1 AAATA AAATA AAAT-A AAATA AAATA AAATA A-AAT-A AAATA A-AATA
4182024 A
1 A
4182025 CTAAATAATA
Statistics
Matches: 41, Mismatches: 0, Indels: 7
0.85 0.00 0.15
Matches are distributed among these distances:
5 23 0.56
6 16 0.39
7 2 0.05
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (5 bp):
AAATA
Found at i:4181995 original size:6 final size:6
Alignment explanation
Indices: 4181975--4182024 Score: 54
Period size: 6 Copynumber: 9.0 Consensus size: 6
4181965 TTTAGACTGC
*
4181975 AAAT-A AAAT-A AAATAA AAAT-A AAAT-A AAATAA TAATAA AAATAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA
*
4182019 TAATAA
1 AAATAA
4182025 CTAAATAATA
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
5 19 0.47
6 21 0.52
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (6 bp):
AAATAA
Found at i:4181996 original size:16 final size:16
Alignment explanation
Indices: 4181975--4182024 Score: 73
Period size: 16 Copynumber: 3.0 Consensus size: 16
4181965 TTTAGACTGC
4181975 AAATAAAATAAAATAA
1 AAATAAAATAAAATAA
4181991 AAATAAAATAAAATAA
1 AAATAAAATAAAATAA
*
4182007 TAATAAAAATAATAATAA
1 AAAT-AAAATAA-AATAA
4182025 CTAAATAATA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
16 19 0.61
17 7 0.23
18 5 0.16
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (16 bp):
AAATAAAATAAAATAA
Found at i:4182325 original size:41 final size:41
Alignment explanation
Indices: 4182262--4182352 Score: 137
Period size: 41 Copynumber: 2.2 Consensus size: 41
4182252 GCTGATTCAC
* *
4182262 TCCACTTCTCTTCAGAGTAGATTGAATCGAGGCAGACTTGT
1 TCCACTGCTCTTCAGAGCAGATTGAATCGAGGCAGACTTGT
* * *
4182303 TCCAGTGCTCTTCAGTGCAGATTGAATCGAGGTAGACTTGT
1 TCCACTGCTCTTCAGAGCAGATTGAATCGAGGCAGACTTGT
4182344 TCCACTGCT
1 TCCACTGCT
4182353 GCTTAGGGAA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 44 1.00
ACGTcount: A:0.22, C:0.23, G:0.23, T:0.32
Consensus pattern (41 bp):
TCCACTGCTCTTCAGAGCAGATTGAATCGAGGCAGACTTGT
Found at i:4182713 original size:45 final size:45
Alignment explanation
Indices: 4182530--4182715 Score: 113
Period size: 46 Copynumber: 4.2 Consensus size: 45
4182520 GGTTCGTTGC
* *
4182530 TCTTCAGGGTAGATCAGATCTGGAAACGTTGATTCATTCCAAC-GT
1 TCTTCAGGGTAGATCAGATCTGAAAAAGTTGATTCATTCC-ACTGT
* * ** *
4182575 TCTTCA--G-AGA--AGAT-TGAATCAAGGTAGATTTGTTCCACTGA
1 TCTTCAGGGTAGATCAGATCTGAA--AAAGTTGATTCATTCCACTGT
* * * * * *
4182616 TCCTCAGGGAAGATCAAATCTGGAAAAAAG-GGA-TC-TGCTCTACTGC
1 TCTTCAGGGTAGATCAGATCT-G-AAAAAGTTGATTCAT--TCCACTGT
*
4182662 TCTTCAGGGTAGATCAGATCTGAAAATGTTGATTCATTCCACTGT
1 TCTTCAGGGTAGATCAGATCTGAAAAAGTTGATTCATTCCACTGT
4182707 TCTTCAGGG
1 TCTTCAGGG
4182716 AATATTGAAT
Statistics
Matches: 105, Mismatches: 20, Indels: 32
0.67 0.13 0.20
Matches are distributed among these distances:
39 3 0.03
40 6 0.06
41 18 0.17
42 3 0.03
43 2 0.02
44 9 0.09
45 25 0.24
46 31 0.30
47 5 0.05
48 1 0.01
49 2 0.02
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.30
Consensus pattern (45 bp):
TCTTCAGGGTAGATCAGATCTGAAAAAGTTGATTCATTCCACTGT
Found at i:4182847 original size:131 final size:132
Alignment explanation
Indices: 4182302--4183133 Score: 918
Period size: 132 Copynumber: 6.2 Consensus size: 132
4182292 GGCAGACTTG
* * * * * * *
4182302 TTCCAGTGCTCTTCAGTGCAGATTGAATCGAGGTAGACTTGTTCCACTGCTGCTTAGGGAAGATC
1 TTCCACTGTTCTTCAGGGAAGATTGAATCGAGGTAGATTTGTTCCACTGCTCCTCAGGGAAGATC
* * * * * * **
4182367 AAATCTAGAAAAAGGGGATCTTA-TCCGCTGCTCTTCATGGTAGATTAGATCTGGAAACATTGAT
66 AAATATGGAAAAAAGGGATC-TACTCTGCTGCTCTTCAGGGTAGATCAGATCTGGAAATGTTGAT
4182431 TCA
130 TCA
* * * * ** * * *
4182434 TTCCACTATTTTTTAGGGAAGATTAAATCGAGACATACTTGTTCCATTGCTCCTCAGGGAAGATC
1 TTCCACTGTTCTTCAGGGAAGATTGAATCGAGGTAGATTTGTTCCACTGCTCCTCAGGGAAGATC
* * ** * *
4182499 AATTATGGAAAAAGGGGATCTGGT-TCGTTGCTCTTCAGGGTAGATCAGATCTGGAAACGTTGAT
66 AAATATGGAAAAAAGGGATCTACTCT-GCTGCTCTTCAGGGTAGATCAGATCTGGAAATGTTGAT
4182563 TCA
130 TCA
* * *
4182566 TTCCAAC-GTTCTTCAGAGAAGATTGAATCAAGGTAGATTTGTTCCACTGATCCTCAGGGAAGAT
1 TTCC-ACTGTTCTTCAGGGAAGATTGAATCGAGGTAGATTTGTTCCACTGCTCCTCAGGGAAGAT
* * * *
4182630 CAAATCTGGAAAAAAGGGATCTGCTCTACTGCTCTTCAGGGTAGATCAGATCTGAAAATGTTGAT
65 CAAATATGGAAAAAAGGGATCTACTCTGCTGCTCTTCAGGGTAGATCAGATCTGGAAATGTTGAT
4182695 TCA
130 TCA
* **
4182698 TTCCACTGTTCTTCAGGGAATATTGAATCGAGGTAGATTTGTTTTACTGCTCCTCAGGGAAGATC
1 TTCCACTGTTCTTCAGGGAAGATTGAATCGAGGTAGATTTGTTCCACTGCTCCTCAGGGAAGATC
* * *
4182763 AAATATGG-AAAAAGGGATATACTCTGCTGCTCTTCAGGGTAGATCAGATATAGAAATGTTGATT
66 AAATATGGAAAAAAGGGATCTACTCTGCTGCTCTTCAGGGTAGATCAGATCTGGAAATGTTGATT
4182827 CA
131 CA
* * * * * * *
4182829 TTCCATTATTCTTTAGGGAAGATTGAATTGAGGTAGATTTGTTCTACTACTCCACAGGGAAGATC
1 TTCCACTGTTCTTCAGGGAAGATTGAATCGAGGTAGATTTGTTCCACTGCTCCTCAGGGAAGATC
* * * *
4182894 AAATTTGGAAAAAAAGGGATCTGCTCTGCTGCTCTGCTGCTCTTCAGGGTAGATTAGATCTGAAA
66 AAATATGG-AAAAAAGGGA-------T-CTACTCTGCTGCTCTTCAGGGTAGATCAGATCTGGAA
* *
4182959 ATGTTAATTTA
122 ATGTTGATTCA
* *
4182970 TTCCACTGTTATTCAGGGAAGATT-AATCGAGGTAGATTTGTTCCACTGCTCCTCAGGTAAGATC
1 TTCCACTGTTCTTCAGGGAAGATTGAATCGAGGTAGATTTGTTCCACTGCTCCTCAGGGAAGATC
* * * * * * *
4183034 AAATATGGAAAAAAGGGATATAATCCGCTTCTCTTCAAGGTAGATCAAATATGGAAATGTTGATT
66 AAATATGGAAAAAAGGGATCTACTCTGCTGCTCTTCAGGGTAGATCAGATCTGGAAATGTTGATT
4183099 CA
131 CA
* *
4183101 TTCTACTGTTCTTCAGGGAAGATTGAATTGAGG
1 TTCCACTGTTCTTCAGGGAAGATTGAATCGAGG
4183134 CAGACTTGAT
Statistics
Matches: 586, Mismatches: 98, Indels: 32
0.82 0.14 0.04
Matches are distributed among these distances:
131 177 0.30
132 284 0.48
133 12 0.02
139 10 0.02
140 43 0.07
141 60 0.10
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.31
Consensus pattern (132 bp):
TTCCACTGTTCTTCAGGGAAGATTGAATCGAGGTAGATTTGTTCCACTGCTCCTCAGGGAAGATC
AAATATGGAAAAAAGGGATCTACTCTGCTGCTCTTCAGGGTAGATCAGATCTGGAAATGTTGATT
CA
Found at i:4183047 original size:141 final size:141
Alignment explanation
Indices: 4182784--4183133 Score: 389
Period size: 141 Copynumber: 2.6 Consensus size: 141
4182774 AAGGGATATA
* * * *
4182784 CTCTGCTGCTCTTCAGGGTAGATCAGATATAGAAATGTTGATTCATTCCATTATTCTTTAGGGAA
1 CTCTGCTGCTCTTCAGGGTAGATCAGATATAGAAATGTTAATTCATTCCACTATTATTCAGGGAA
* * *
4182849 GATTGAATTGAGGTAGATTTGTTCTACTACTCCACAGGGAAGATCAAATTTGGAAAAAAAGGGAT
66 GATTGAATCGAGGTAGATTTGTTCCACTACTCCACAGGGAAGATCAAATATGGAAAAAAAGGGAT
4182914 CTGCTCTGCTG
131 CTGCTCTGCTG
* * * *
4182925 CTCTGCTGCTCTTCAGGGTAGATTAGATCT-GAAAATGTTAATTTATTCCACTGTTATTCAGGGA
1 CTCTGCTGCTCTTCAGGGTAGATCAGATATAG-AAATGTTAATTCATTCCACTATTATTCAGGGA
* * *
4182989 AGATT-AATCGAGGTAGATTTGTTCCACTGCTCCTCAGGTAAGATCAAATATGG-AAAAAAGGGA
65 AGATTGAATCGAGGTAGATTTGTTCCACTACTCCACAGGGAAGATCAAATATGGAAAAAAAGGGA
* **
4183052 TATAATC--C-G
130 TCTGCTCTGCTG
* * * * * * *
4183061 --CT--T-CTCTTCAAGGTAGATCAAATATGGAAATGTTGATTCATTCTACTGTTCTTCAGGGAA
1 CTCTGCTGCTCTTCAGGGTAGATCAGATATAGAAATGTTAATTCATTCCACTATTATTCAGGGAA
*
4183121 GATTGAATTGAGG
66 GATTGAATCGAGG
4183134 CAGACTTGAT
Statistics
Matches: 180, Mismatches: 26, Indels: 15
0.81 0.12 0.07
Matches are distributed among these distances:
131 51 0.28
132 9 0.05
134 2 0.01
136 1 0.01
137 1 0.01
139 14 0.08
140 43 0.24
141 59 0.33
ACGTcount: A:0.30, C:0.15, G:0.22, T:0.33
Consensus pattern (141 bp):
CTCTGCTGCTCTTCAGGGTAGATCAGATATAGAAATGTTAATTCATTCCACTATTATTCAGGGAA
GATTGAATCGAGGTAGATTTGTTCCACTACTCCACAGGGAAGATCAAATATGGAAAAAAAGGGAT
CTGCTCTGCTG
Found at i:4184032 original size:241 final size:242
Alignment explanation
Indices: 4183356--4184034 Score: 941
Period size: 242 Copynumber: 2.8 Consensus size: 242
4183346 TTCATTTTCT
* * * *
4183356 GAAAATA-CTAAATGAGAAAGTTTGAAAATCATTTTCTCATTTTTTTTAAAATCATGTGAAAACA
1 GAAAATATTTAAATGAGAAACTTTGGAAATCATTTTCTCATTTTTTCTAAAATCATGTGAAAACA
* * * * *
4183420 TAACTGCCTGAAGGTCTTATGGATGGTCCGAATGACTTATTATCTTGTTCGAAAGACTTATAGAT
66 T-CCTGCCCGAAGGTCTTATGGATGGCCCGAAGGACTTATTATCTTGATCGAAAGACTTATAGAT
* * *
4183485 GACCTGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGC-CTGAAGGACTTACTATGTA
130 GACCTGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGACTC-GAAAGACTTACTAAGTA
* ** *
4183549 AGAAACTTTGGAAATTGTTTTCTTACTTTTAAAAAGAAACTAATTTTTA
194 AGAAACTTTGAAAATCATTTTCTTACTTTTAAAAAGAAACCAATTTTTA
* * * *
4183598 GAAAAGATTTAAATGAGAAACGTTGGAAATCACTTTCTCATTTTTTCAAAAATCATGTGAAAACA
1 GAAAATATTTAAATGAGAAACTTTGGAAATCATTTTCTCATTTTTTCTAAAATCATGTGAAAACA
* * * *
4183663 GCTTGCCCGAAGGTCTTATAGATGGCCCGAAGGACTTATCATCTTGATCGAAAGACTTATAGATG
66 TCCTGCCCGAAGGTCTTATGGATGGCCCGAAGGACTTATTATCTTGATCGAAAGACTTATAGATG
* * *
4183728 ATCTGAAGGATTTAAGAATCATGCTCGAAAGACTTACTGATGACTCAAAAGACTTACTAAGTAAG
131 ACCTGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGACTCGAAAGACTTACTAAGTAAG
*
4183793 AAACTTTGAAAATCATTTTCTTACTTTTCAAAAGAAACCAATTTTTA
196 AAACTTTGAAAATCATTTTCTTACTTTTAAAAAGAAACCAATTTTTA
* *
4183840 GAAAATATTTAAATGAGAAACTTTGGAAATTATTTTCTCA-TTTTTCTAAAATAATGTGAAAACA
1 GAAAATATTTAAATGAGAAACTTTGGAAATCATTTTCTCATTTTTTCTAAAATCATGTGAAAACA
* * * * * * **
4183904 TCCTACCCGAAGATCTTATGGATGACCCAAAGGACTTATTATTTTGCTAAAAAGACTTATAGATG
66 TCCTGCCCGAAGGTCTTATGGATGGCCCGAAGGACTTATTATCTTGATCGAAAGACTTATAGATG
* * * *
4183969 ACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTAATGACTCGAATGACTTAATAAGTAAG
131 ACCTGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGACTCGAAAGACTTACTAAGTAAG
4184034 A
196 A
4184035 GACCCTTGGA
Statistics
Matches: 382, Mismatches: 53, Indels: 5
0.87 0.12 0.01
Matches are distributed among these distances:
241 134 0.35
242 197 0.52
243 51 0.13
ACGTcount: A:0.37, C:0.15, G:0.16, T:0.32
Consensus pattern (242 bp):
GAAAATATTTAAATGAGAAACTTTGGAAATCATTTTCTCATTTTTTCTAAAATCATGTGAAAACA
TCCTGCCCGAAGGTCTTATGGATGGCCCGAAGGACTTATTATCTTGATCGAAAGACTTATAGATG
ACCTGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGACTCGAAAGACTTACTAAGTAAG
AAACTTTGAAAATCATTTTCTTACTTTTAAAAAGAAACCAATTTTTA
Found at i:4185190 original size:25 final size:26
Alignment explanation
Indices: 4185139--4185190 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 26
4185129 CATTCTCGAG
4185139 GGATTATCTTATTTGAAAAAAATGTTT
1 GGATTATCTTATTTG-AAAAAATGTTT
*
4185166 GGATTATCTTGTTTG-AAAAATGTTT
1 GGATTATCTTATTTGAAAAAATGTTT
4185191 TTCTCATTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 10 0.42
27 14 0.58
ACGTcount: A:0.33, C:0.04, G:0.17, T:0.46
Consensus pattern (26 bp):
GGATTATCTTATTTGAAAAAATGTTT
Found at i:4185775 original size:2 final size:2
Alignment explanation
Indices: 4185768--4185792 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4185758 TCAGATTTAT
4185768 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
4185793 TCATAAAGAC
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:4191714 original size:22 final size:23
Alignment explanation
Indices: 4191686--4191733 Score: 73
Period size: 22 Copynumber: 2.1 Consensus size: 23
4191676 TTAATTTCTG
4191686 TTTGGGTGTTA-TTTGTGTAAA-A
1 TTTGGGTGTTAGTTT-TGTAAATA
4191708 TTTGGGTGTTAGTTTTGTAAATA
1 TTTGGGTGTTAGTTTTGTAAATA
4191731 TTT
1 TTT
4191734 ACAGAAGGTG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
22 17 0.71
23 7 0.29
ACGTcount: A:0.21, C:0.00, G:0.25, T:0.54
Consensus pattern (23 bp):
TTTGGGTGTTAGTTTTGTAAATA
Found at i:4197105 original size:20 final size:20
Alignment explanation
Indices: 4197082--4197139 Score: 84
Period size: 20 Copynumber: 3.0 Consensus size: 20
4197072 GAGGGATTAT
4197082 CAGTGGTCCTTCGGGACAAA
1 CAGTGGTCCTTCGGGACAAA
4197102 CAGTGGTCCTTCGGGAC--A
1 CAGTGGTCCTTCGGGACAAA
* *
4197120 TAGTGGTCATTCGGGACAAA
1 CAGTGGTCCTTCGGGACAAA
4197140 TATTCAGTGC
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
18 16 0.47
20 18 0.53
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.22
Consensus pattern (20 bp):
CAGTGGTCCTTCGGGACAAA
Found at i:4197126 original size:18 final size:18
Alignment explanation
Indices: 4197082--4197137 Score: 76
Period size: 18 Copynumber: 3.0 Consensus size: 18
4197072 GAGGGATTAT
4197082 CAGTGGTCCTTCGGGACAAA
1 CAGTGGTCCTTCGGGAC--A
4197102 CAGTGGTCCTTCGGGACA
1 CAGTGGTCCTTCGGGACA
* *
4197120 TAGTGGTCATTCGGGACA
1 CAGTGGTCCTTCGGGACA
4197138 AATATTCAGT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
18 17 0.50
20 17 0.50
ACGTcount: A:0.21, C:0.23, G:0.32, T:0.23
Consensus pattern (18 bp):
CAGTGGTCCTTCGGGACA
Found at i:4201081 original size:2 final size:2
Alignment explanation
Indices: 4201074--4201107 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
4201064 AAGTATATGA
* *
4201074 AT AT AT AT AT AT AT TT AT AT AT AT AA AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4201108 CTAATTCATG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4202062 original size:20 final size:20
Alignment explanation
Indices: 4202039--4202116 Score: 97
Period size: 20 Copynumber: 4.0 Consensus size: 20
4202029 GAGGGATTAT
*
4202039 CAGTGGTCCTTCGGGATAAA
1 CAGTGGTCCTTCGGGACAAA
* *
4202059 CAGTGGTCTTTCGGGACAAC
1 CAGTGGTCCTTCGGGACAAA
4202079 CAGTGGTCCTTCGGGAC--A
1 CAGTGGTCCTTCGGGACAAA
* *
4202097 TAGTGGTCATTCGGGACAAA
1 CAGTGGTCCTTCGGGACAAA
4202117 TATTCAGTGC
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
18 15 0.31
20 34 0.69
ACGTcount: A:0.23, C:0.22, G:0.31, T:0.24
Consensus pattern (20 bp):
CAGTGGTCCTTCGGGACAAA
Found at i:4202111 original size:38 final size:39
Alignment explanation
Indices: 4202039--4202115 Score: 111
Period size: 38 Copynumber: 2.0 Consensus size: 39
4202029 GAGGGATTAT
*
4202039 CAGTGGTCCTTCGGGATAAACAGTGGTCTTTCGGGACAAC
1 CAGTGGTCCTTCGGGA-AAACAGTGGTCATTCGGGACAAC
* *
4202079 CAGTGGTCCTTCGGG-ACATAGTGGTCATTCGGGACAA
1 CAGTGGTCCTTCGGGAAAACAGTGGTCATTCGGGACAA
4202116 ATATTCAGTG
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
38 19 0.56
40 15 0.44
ACGTcount: A:0.22, C:0.22, G:0.31, T:0.25
Consensus pattern (39 bp):
CAGTGGTCCTTCGGGAAAACAGTGGTCATTCGGGACAAC
Found at i:4203039 original size:2 final size:2
Alignment explanation
Indices: 4203032--4203074 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
4203022 TGTTAGAATA
4203032 AT AT AT AT AT AT AT AT 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 AT AT AT AT AT AT AT AT
4203074 A
1 A
4203075 ACTTTTATGG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:4204394 original size:110 final size:110
Alignment explanation
Indices: 4204196--4204414 Score: 393
Period size: 110 Copynumber: 2.0 Consensus size: 110
4204186 TTAAAGATGA
* *
4204196 AGCCGATATTTTTTATGAGATCTGATAAGAGAATTATAAAGGAAAGATGAAAATTTCTTAATAAG
1 AGCCGATATTTTTTATGAGATCTGATAAGAGAATTATAAAGGAAAGACGAAAAATTCTTAATAAG
*
4204261 CATTTTATAAGTAGAGAGTGAAGAGATTAAAGACTTTTGAAGTCT
66 AATTTTATAAGTAGAGAGTGAAGAGATTAAAGACTTTTGAAGTCT
* *
4204306 AGCCTATATTTTTTATGAGATTTGATAAGAGAATTATAAAGGAAAGACGAAAAATTCTTAATAAG
1 AGCCGATATTTTTTATGAGATCTGATAAGAGAATTATAAAGGAAAGACGAAAAATTCTTAATAAG
4204371 AATTTTATAAGTAGAGAGTGAAGAGATTAAAGACTTTTGAAGTC
66 AATTTTATAAGTAGAGAGTGAAGAGATTAAAGACTTTTGAAGTC
4204415 GGTTCGACGG
Statistics
Matches: 104, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
110 104 1.00
ACGTcount: A:0.42, C:0.06, G:0.20, T:0.32
Consensus pattern (110 bp):
AGCCGATATTTTTTATGAGATCTGATAAGAGAATTATAAAGGAAAGACGAAAAATTCTTAATAAG
AATTTTATAAGTAGAGAGTGAAGAGATTAAAGACTTTTGAAGTCT
Found at i:4208240 original size:2 final size:2
Alignment explanation
Indices: 4208233--4208281 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
4208223 TAATAAGTAT
4208233 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4208275 TA TA TA T
1 TA TA TA T
4208282 TAATTGTATT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:4209467 original size:52 final size:53
Alignment explanation
Indices: 4209389--4209493 Score: 194
Period size: 52 Copynumber: 2.0 Consensus size: 53
4209379 TGAGCTAAAA
4209389 CCCTGCTCCGTCCCATTTAAGTGGGAGTGAGAAACTAA-TTATCGTGATGGTT
1 CCCTGCTCCGTCCCATTTAAGTGGGAGTGAGAAACTAATTTATCGTGATGGTT
*
4209441 CCCTGCTCCGTCCCATTTAAGTGGGAGTGAGAAACTAATTTCTCGTGATGGTT
1 CCCTGCTCCGTCCCATTTAAGTGGGAGTGAGAAACTAATTTATCGTGATGGTT
4209494 TTCACCTCCG
Statistics
Matches: 51, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
52 38 0.75
53 13 0.25
ACGTcount: A:0.22, C:0.22, G:0.25, T:0.31
Consensus pattern (53 bp):
CCCTGCTCCGTCCCATTTAAGTGGGAGTGAGAAACTAATTTATCGTGATGGTT
Found at i:4211782 original size:103 final size:103
Alignment explanation
Indices: 4211662--4211868 Score: 414
Period size: 103 Copynumber: 2.0 Consensus size: 103
4211652 CTAACCATGA
4211662 ATCACCCTCCACACTGGGGGATAAAGGTGAAAGATATCTATTCGCAGAAGTAAAGATTGTCAATC
1 ATCACCCTCCACACTGGGGGATAAAGGTGAAAGATATCTATTCGCAGAAGTAAAGATTGTCAATC
4211727 CAGGTTTTATTACAGGGGCAAGTCTCCATGAAATAAAG
66 CAGGTTTTATTACAGGGGCAAGTCTCCATGAAATAAAG
4211765 ATCACCCTCCACACTGGGGGATAAAGGTGAAAGATATCTATTCGCAGAAGTAAAGATTGTCAATC
1 ATCACCCTCCACACTGGGGGATAAAGGTGAAAGATATCTATTCGCAGAAGTAAAGATTGTCAATC
4211830 CAGGTTTTATTACAGGGGCAAGTCTCCATGAAATAAAG
66 CAGGTTTTATTACAGGGGCAAGTCTCCATGAAATAAAG
4211868 A
1 A
4211869 GAAACAACAA
Statistics
Matches: 104, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
103 104 1.00
ACGTcount: A:0.35, C:0.18, G:0.22, T:0.24
Consensus pattern (103 bp):
ATCACCCTCCACACTGGGGGATAAAGGTGAAAGATATCTATTCGCAGAAGTAAAGATTGTCAATC
CAGGTTTTATTACAGGGGCAAGTCTCCATGAAATAAAG
Found at i:4212052 original size:8 final size:8
Alignment explanation
Indices: 4212041--4212112 Score: 51
Period size: 8 Copynumber: 8.9 Consensus size: 8
4212031 ATAAAAGATA
4212041 AAAAAAAG
1 AAAAAAAG
*
4212049 -AAAAGAG
1 AAAAAAAG
*
4212056 AAAAGATAG
1 AAAA-AAAG
4212065 AAAAATGAAG
1 AAAAA--AAG
4212075 AAAAAAAG
1 AAAAAAAG
*
4212083 --AAAGAG
1 AAAAAAAG
4212089 AAAAAAAG
1 AAAAAAAG
*
4212097 AATAAAAG
1 AAAAAAAG
4212105 AATAAAAA
1 AA-AAAAA
4212113 AGAGAAGAAG
Statistics
Matches: 50, Mismatches: 7, Indels: 13
0.71 0.10 0.19
Matches are distributed among these distances:
6 5 0.10
7 6 0.12
8 21 0.42
9 11 0.22
10 7 0.14
ACGTcount: A:0.78, C:0.00, G:0.17, T:0.06
Consensus pattern (8 bp):
AAAAAAAG
Found at i:4212081 original size:22 final size:21
Alignment explanation
Indices: 4212033--4212121 Score: 63
Period size: 22 Copynumber: 4.0 Consensus size: 21
4212023 TCAAGACAAT
*
4212033 AAAAGATAAAAAAAAGAA-AAGA
1 AAAAGAT-AGAAAAAGAAGAA-A
4212055 GAAAAGATAGAAAAATGAAGAAA
1 -AAAAGATAGAAAAA-GAAGAAA
* * *
4212078 AAAAGAAAGAGAAAAAAAGAAT
1 AAAAGATAGA-AAAAGAAGAAA
*
4212100 AAAAGAATAAAAAAGAGAAGAA
1 AAAAG-ATAGAAAA-AGAAGAA
4212122 GAAAGAGAAC
Statistics
Matches: 54, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
22 28 0.52
23 24 0.44
24 2 0.04
ACGTcount: A:0.76, C:0.00, G:0.18, T:0.06
Consensus pattern (21 bp):
AAAAGATAGAAAAAGAAGAAA
Found at i:4212084 original size:34 final size:34
Alignment explanation
Indices: 4212030--4212123 Score: 104
Period size: 33 Copynumber: 2.7 Consensus size: 34
4212020 TATTCAAGAC
*
4212030 AATAAAAGATA-AAAAAAAGAAAAGAGAAAAGATAG
1 AATAAAAGA-AGAAAAAAAGAAAAGAGAAAA-AAAG
*
4212065 AA-AAATGAAGAAAAAAAG-AAAGAGAAAAAAAG
1 AATAAAAGAAGAAAAAAAGAAAAGAGAAAAAAAG
*
4212097 AATAAAAGAATAAAAAAGAGAAGAAGA
1 AATAAAAGAAGAAAAAA-AGAA-AAGA
4212124 AAGAGAACAC
Statistics
Matches: 50, Mismatches: 4, Indels: 9
0.79 0.06 0.14
Matches are distributed among these distances:
32 5 0.10
33 23 0.46
34 15 0.30
35 3 0.06
36 4 0.08
ACGTcount: A:0.76, C:0.00, G:0.18, T:0.06
Consensus pattern (34 bp):
AATAAAAGAAGAAAAAAAGAAAAGAGAAAAAAAG
Done.