Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D12
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: 58873029
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 639818 characters in sequence are not A, C, G, or T
File 120 of 196
Found at i:36270089 original size:39 final size:38
Alignment explanation
Indices: 36270036--36270169 Score: 117
Period size: 39 Copynumber: 3.4 Consensus size: 38
36270026 CGTTTGGACA
* *
36270036 AAAAACGCCACTAAAAATAAGCATTAGCGGCGCTTATAT
1 AAAAACGCCGCTAAAAATAAGCATTAGCGGCGCTT-TTT
** * * *
36270075 AAAAACGCCGCTAAAGGTCGAGAACTAGCGGCGCTTTTT
1 AAAAACGCCGCTAAAAAT-AAGCATTAGCGGCGCTTTTT
* * * *
36270114 GGAAACCGCCGCTAAAAATAAGCATTAGTGGCGTTTTTTT
1 -AAAAACGCCGCTAAAAATAAGCATTAGCGGCG-CTTTTT
*
36270154 AAAAGCGCCGC-AAAAA
1 AAAAACGCCGCTAAAAA
36270170 GTCTAAGCCC
Statistics
Matches: 74, Mismatches: 18, Indels: 7
0.75 0.18 0.07
Matches are distributed among these distances:
38 5 0.07
39 36 0.49
40 33 0.45
ACGTcount: A:0.37, C:0.21, G:0.21, T:0.21
Consensus pattern (38 bp):
AAAAACGCCGCTAAAAATAAGCATTAGCGGCGCTTTTT
Found at i:36270265 original size:41 final size:41
Alignment explanation
Indices: 36270206--36270446 Score: 376
Period size: 41 Copynumber: 5.9 Consensus size: 41
36270196 GAGTTTTTGG
*
36270206 GGCCTTTAGCGGCGTTTTTGAAAAAGCACCGCTAATGCTCT
1 GGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCT
*
36270247 GGCCTTTAGCGGCATTTTTGAAAAAGCGCCGCTAATGCTCT
1 GGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCT
* *
36270288 GGCTTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTTT
1 GGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCT
* * *
36270329 GACCTTTAACGGCGTTTTTAAAAAAGCGCCGCTAATGCT-T
1 GGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCT
* *
36270369 CGGCCTTTAGTGGCGTTTTTGAAAAAGCGCCGCTAATGCTCG
1 -GGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCT
*
36270411 GGCCTTTAGCGGCGTTTTTGAAAAAGCACCGCTAAT
1 GGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAAT
36270447 AATAATAAAA
Statistics
Matches: 182, Mismatches: 16, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
40 1 0.01
41 181 0.99
ACGTcount: A:0.22, C:0.23, G:0.25, T:0.30
Consensus pattern (41 bp):
GGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCT
Found at i:36271525 original size:129 final size:134
Alignment explanation
Indices: 36271373--36271635 Score: 340
Period size: 136 Copynumber: 2.0 Consensus size: 134
36271363 CAAGTTATGG
* *
36271373 TTTAGATTAATTAGTGTGTTTTAATTTATATATTAAATAATG-TT-TAGGGGTTAGGAATTT-GG
1 TTTAAATTAATTAGTGTGTTTTAATTTATATATTAAATAAGGTTTATAGGGGTTAGGAATTTAGG
* *
36271435 G-GTCGGGTT-AGGGTTTAG-GGTTTAAGGATTAGAGATTTAGGGTCGAGTTAGGGTTTAAGATT
66 GTGTCGGGTTAAGAG-TTAGTGATTTAAGGATTAGAGATTTAGGGTCGAGTTAGGGTTTAAGATT
36271497 TAGGA
130 TAGGA
* **
36271502 TTTAAATTAATTAGTGTTTTTTAATTTATATATTAAATAAGGTTTAAGTAGGGGTTAGGGGTTTA
1 TTTAAATTAATTAGTGTGTTTTAATTTATATATTAAATAAGGTTT-A-TAGGGGTTAGGAATTTA
* * * * * *
36271567 GGGTTTGGGGTTAAGAGTTAGTGATTTAGGGTTTAGAGATTTAGGGTCGGGTTAGGGTTTAAGGT
64 GGGTGTCGGGTTAAGAGTTAGTGATTTAAGGATTAGAGATTTAGGGTCGAGTTAGGGTTTAAGAT
36271632 TTAG
129 TTAG
36271636 ATTAATTAGT
Statistics
Matches: 113, Mismatches: 13, Indels: 9
0.84 0.10 0.07
Matches are distributed among these distances:
129 39 0.35
130 2 0.02
133 14 0.12
134 3 0.03
135 10 0.09
136 45 0.40
ACGTcount: A:0.27, C:0.01, G:0.30, T:0.42
Consensus pattern (134 bp):
TTTAAATTAATTAGTGTGTTTTAATTTATATATTAAATAAGGTTTATAGGGGTTAGGAATTTAGG
GTGTCGGGTTAAGAGTTAGTGATTTAAGGATTAGAGATTTAGGGTCGAGTTAGGGTTTAAGATTT
AGGA
Found at i:36271607 original size:15 final size:15
Alignment explanation
Indices: 36271584--36271613 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
36271574 GGGTTAAGAG
*
36271584 TTAGTGATTTAGGGT
1 TTAGAGATTTAGGGT
36271599 TTAGAGATTTAGGGT
1 TTAGAGATTTAGGGT
36271614 CGGGTTAGGG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.00, G:0.33, T:0.43
Consensus pattern (15 bp):
TTAGAGATTTAGGGT
Found at i:36271640 original size:129 final size:124
Alignment explanation
Indices: 36271371--36271671 Score: 329
Period size: 129 Copynumber: 2.3 Consensus size: 124
36271361 GTCAAGTTAT
* *
36271371 GGTTTAGATTAATTAGTGTGTTTTAATTTATATATTAAATAATGTTTAGGGGTTAGGAATTTGGG
1 GGTTTAGATTAATTAGTGTTTTTTAATTTATATATTAAATAAGGTTTAGGGGTTAGGAATTTGGG
* *
36271436 GTCGGGTTAGGGTTTAGGGTTTAAGGATTAGAGATTTAGGGTCGAGTTAGGGTTTAAGATTTA
66 GTCGGGTTAGAGTTTAGGATTTAAGGATTAGAGATTTAGGGTCGAGTTAGGGTTT-A-A--TA
* **
36271499 GGATTTAAATTAATTAGTGTTTTTTAATTTATATATTAAATAAGGTTTAAGTAGGGGTTAGGGGT
1 GG-TTTAGATTAATTAGTGTTTTTTAATTTATATATTAAATAAGG-TT---TAGGGGTTAGGAAT
* * * * *
36271564 TTAGGGTTTGGGGTTAAGAG-TTAGTGATTTAGGGTTTAGAGATTTAGGGTCGGGTTAGGGTTT-
61 TT-GGG-GTCGGGTT-AGAGTTTAG-GATTTAAGGATTAGAGATTTAGGGTCGAGTTAGGGTTTA
36271627 A-A
122 ATA
* * *
36271629 GGTTTAGATTAATTAGTATTTTTTAATTTATATACTAATTAAG
1 GGTTTAGATTAATTAGTGTTTTTTAATTTATATATTAAATAAG
36271672 TTCTTATATA
Statistics
Matches: 148, Mismatches: 16, Indels: 17
0.82 0.09 0.09
Matches are distributed among these distances:
128 2 0.01
129 76 0.51
130 5 0.03
133 15 0.10
134 3 0.02
135 10 0.07
136 37 0.25
ACGTcount: A:0.28, C:0.01, G:0.28, T:0.43
Consensus pattern (124 bp):
GGTTTAGATTAATTAGTGTTTTTTAATTTATATATTAAATAAGGTTTAGGGGTTAGGAATTTGGG
GTCGGGTTAGAGTTTAGGATTTAAGGATTAGAGATTTAGGGTCGAGTTAGGGTTTAATA
Found at i:36272824 original size:143 final size:141
Alignment explanation
Indices: 36272441--36273010 Score: 733
Period size: 141 Copynumber: 4.0 Consensus size: 141
36272431 CAAAACAGTG
* * * * *
36272441 TCGTTTTATTCCAAATGAAATAATTTTTTGCGGCGTTTTTTATGAAAAACGCCGCAAAAGGTAAG
1 TCGTTTTATTCCAAATAAAATAATTTTTTGCGGCGTTTTGTA--AAAAACGCCACAATAGATAAG
* *
36272506 CAATAGCGGCGTTTTT-TAAAAAACGCCACAAAA-ATAATTTTA-TTTT--AAAAATAGCGCCAT
64 CAATAGCGGCGTTTTTATAAAAAACGCCACAAAATA-AAATTTACTTTTAAAAAAATAGCACCAT
* ** *
36272566 TTTATATAGCAAAACAGTG
128 TTT-TTTA--AATTCA--C
* * *
36272585 TCGTTTTATTCCAAATAAAATAATTTTTTGCTGCGTTTTTATAAAAAAAACGCCGCAATAGATAA
1 TCGTTTTATTCCAAATAAAATAATTTTTTGCGGCG-TTTTGT--AAAAAACGCCACAATAGATAA
*
36272650 GCAATAGCGGCGTTTTTATAAAAAACGCCACAAAATAAAATTTACTTTTAAAAAAATAGCGCCAT
63 GCAATAGCGGCGTTTTTATAAAAAACGCCACAAAATAAAATTTACTTTTAAAAAAATAGCACCA-
36272715 TTTTTTTAAATTCAC
127 TTTTTTTAAATTCAC
36272730 TCGTTTTATTCCAAATAAAATAATTTTTTGCGGCGTTTGTGTAAAAAACGCCACAATAGATAAGC
1 TCGTTTTATTCCAAATAAAATAATTTTTTGCGGCGTTT-TGTAAAAAACGCCACAATAGATAAGC
* * *
36272795 AATAGTGGCGTTTTTATAAAAAACGCCACAAAATAAAATATACTTTTAAAAAAATAGAACCATTT
65 AATAGCGGCGTTTTTATAAAAAACGCCACAAAATAAAATTTACTTTTAAAAAAATAGCACCATTT
*
36272860 TTTTAAATTCTC
130 TTTTAAATTCAC
* * *
36272872 TCG-TTTATTCCAAATAAAATAATTTTTTGCGGCATCTATGTAAAAAACG-CAGCAATAAATAAG
1 TCGTTTTATTCCAAATAAAATAATTTTTTGCGGCGT-TTTGTAAAAAACGCCA-CAATAGATAAG
*
36272935 AAATAG-GGCGTTTTTATAAAAAAACGCCACAAAATAAAATTTACTTTTAAAAAAATAGCACCAT
64 CAATAGCGGCGTTTTTAT-AAAAAACGCCACAAAATAAAATTTACTTTTAAAAAAATAGCACCAT
36272999 TTTTTTAAATTC
128 TTTTTTAAATTC
36273011 CCTACCCCCT
Statistics
Matches: 389, Mismatches: 24, Indels: 29
0.88 0.05 0.07
Matches are distributed among these distances:
140 13 0.03
141 113 0.29
142 18 0.05
143 80 0.21
144 36 0.09
145 76 0.20
146 23 0.06
147 10 0.03
149 16 0.04
150 4 0.01
ACGTcount: A:0.41, C:0.14, G:0.12, T:0.33
Consensus pattern (141 bp):
TCGTTTTATTCCAAATAAAATAATTTTTTGCGGCGTTTTGTAAAAAACGCCACAATAGATAAGCA
ATAGCGGCGTTTTTATAAAAAACGCCACAAAATAAAATTTACTTTTAAAAAAATAGCACCATTTT
TTTAAATTCAC
Found at i:36273044 original size:21 final size:20
Alignment explanation
Indices: 36273020--36273064 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
36273010 CCCTACCCCC
*
36273020 TCCCCCCGAAATCCCCAACTT
1 TCCCCCCAAAATCCCCAA-TT
* *
36273041 TCCCCCTAAAATCCCTAATT
1 TCCCCCCAAAATCCCCAATT
36273061 TCCC
1 TCCC
36273065 ACGTCCAAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 6 0.29
21 15 0.71
ACGTcount: A:0.24, C:0.49, G:0.02, T:0.24
Consensus pattern (20 bp):
TCCCCCCAAAATCCCCAATT
Found at i:36277615 original size:43 final size:43
Alignment explanation
Indices: 36277549--36277726 Score: 230
Period size: 43 Copynumber: 4.1 Consensus size: 43
36277539 AGATTATGTT
* * * *
36277549 TTTAGCGGCGTTTGTGATAAAAAGCGCCGTTAAAGGTTTTGGTT
1 TTTAGCGGCGTTTGTGGT-AAAAGCGCCGCTAAAGGTCTTGGTC
*
36277593 TTTAGCGGCGTTTGTGGTAAAAGCGCCGCTAAAGGTCTTAGTC
1 TTTAGCGGCGTTTGTGGTAAAAGCGCCGCTAAAGGTCTTGGTC
* * * *
36277636 TTTAGCAGCGTTTGTGGTATAAGCGCCGCTAAAGGACTTGGTA
1 TTTAGCGGCGTTTGTGGTAAAAGCGCCGCTAAAGGTCTTGGTC
* * * *
36277679 TTTAGTGGCATTTTTGGAAAAAGCGCCGCTAAAGGTCTTGGTC
1 TTTAGCGGCGTTTGTGGTAAAAGCGCCGCTAAAGGTCTTGGTC
36277722 TTTAG
1 TTTAG
36277727 TGGCATTTTT
Statistics
Matches: 116, Mismatches: 18, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
43 99 0.85
44 17 0.15
ACGTcount: A:0.22, C:0.15, G:0.29, T:0.33
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGGTAAAAGCGCCGCTAAAGGTCTTGGTC
Found at i:36279741 original size:30 final size:30
Alignment explanation
Indices: 36279677--36279734 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
36279667 TATTTAAGTT
36279677 AATTAAGTTATTCGGATCAACTCGAATAAA
1 AATTAAGTTATTCGGATCAACTCGAATAAA
* * *
36279707 AATTAAGTTTTTCGGTTTAACTCGAATA
1 AATTAAGTTATTCGGATCAACTCGAATA
36279735 TGAATTACAC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.36
Consensus pattern (30 bp):
AATTAAGTTATTCGGATCAACTCGAATAAA
Found at i:36280231 original size:29 final size:30
Alignment explanation
Indices: 36280167--36280235 Score: 77
Period size: 29 Copynumber: 2.3 Consensus size: 30
36280157 TAACAATTGG
* *
36280167 AACTGAATTTTAAAATATGAAAAGTAAAGA
1 AACTAAATTCTAAAATATGAAAAGTAAAGA
** * *
36280197 GTCTAAATTCTAAAATAT-AAAATTATAGA
1 AACTAAATTCTAAAATATGAAAAGTAAAGA
36280226 AACTAAATTC
1 AACTAAATTC
36280236 CAAATCTACA
Statistics
Matches: 31, Mismatches: 8, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
29 17 0.55
30 14 0.45
ACGTcount: A:0.54, C:0.07, G:0.09, T:0.30
Consensus pattern (30 bp):
AACTAAATTCTAAAATATGAAAAGTAAAGA
Found at i:36281045 original size:13 final size:12
Alignment explanation
Indices: 36281010--36281037 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
36281000 AATAAAATTA
36281010 TAAAACTAAAAC
1 TAAAACTAAAAC
36281022 TAAAACTAAAAC
1 TAAAACTAAAAC
36281034 TAAA
1 TAAA
36281038 TTCTAAAAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.68, C:0.14, G:0.00, T:0.18
Consensus pattern (12 bp):
TAAAACTAAAAC
Found at i:36281185 original size:27 final size:27
Alignment explanation
Indices: 36281120--36281195 Score: 91
Period size: 27 Copynumber: 2.8 Consensus size: 27
36281110 GTAGTGATTC
* *
36281120 AATTCGGTTAATTCGGGTAATTCGGGT
1 AATTCAGTTAATTCGGTTAATTCGGGT
*
36281147 AATTCAGTTAATTCAGTTAATTCGGGT
1 AATTCAGTTAATTCGGTTAATTCGGGT
* *
36281174 AATT-TGTGTAATTTGGTTAATT
1 AATTCAGT-TAATTCGGTTAATT
36281196 TTTAACCAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
26 2 0.05
27 40 0.95
ACGTcount: A:0.26, C:0.08, G:0.22, T:0.43
Consensus pattern (27 bp):
AATTCAGTTAATTCGGTTAATTCGGGT
Found at i:36281196 original size:9 final size:9
Alignment explanation
Indices: 36281120--36281195 Score: 73
Period size: 9 Copynumber: 8.4 Consensus size: 9
36281110 GTAGTGATTC
36281120 AATTCGGTT
1 AATTCGGTT
*
36281129 AATTCGGGT
1 AATTCGGTT
*
36281138 AATTCGGGT
1 AATTCGGTT
*
36281147 AATTCAGTT
1 AATTCGGTT
*
36281156 AATTCAGTT
1 AATTCGGTT
*
36281165 AATTCGGGT
1 AATTCGGTT
*
36281174 AATT-TGTGT
1 AATTCGGT-T
*
36281183 AATTTGGTT
1 AATTCGGTT
36281192 AATT
1 AATT
36281196 TTTAACCAAA
Statistics
Matches: 57, Mismatches: 8, Indels: 4
0.83 0.12 0.06
Matches are distributed among these distances:
8 1 0.02
9 54 0.95
10 2 0.04
ACGTcount: A:0.26, C:0.08, G:0.22, T:0.43
Consensus pattern (9 bp):
AATTCGGTT
Found at i:36281949 original size:128 final size:128
Alignment explanation
Indices: 36281721--36281977 Score: 505
Period size: 128 Copynumber: 2.0 Consensus size: 128
36281711 AACCATAATT
36281721 ATACCTTAAAATTTACAGCTTGAGCGACTGTGTTGGAAGTTTAGGCCGTGCTAACTGGTGGTGTG
1 ATACCTTAAAATTTACAGCTTGAGCGACTGTGTTGGAAGTTTAGGCCGTGCTAACTGGTGGTGTG
*
36281786 GGGCAGCAGAACTAAGGTGAGGGGCTAATCTAATCTGTAAATCTGACGGCGGTTCCTCCACTA
66 GGGCAGCAGAACTAAGGTGAGGGGCTAATCTAATCTGTAAATCTGACGGCGGCTCCTCCACTA
36281849 ATACCTTAAAATTTACAGCTTGAGCGACTGTGTTGGAAGTTTAGGCCGTGCTAACTGGTGGTGTG
1 ATACCTTAAAATTTACAGCTTGAGCGACTGTGTTGGAAGTTTAGGCCGTGCTAACTGGTGGTGTG
36281914 GGGCAGCAGAACTAAGGTGAGGGGCTAATCTAATCTGTAAATCTGACGGCGGCTCCTCCACTA
66 GGGCAGCAGAACTAAGGTGAGGGGCTAATCTAATCTGTAAATCTGACGGCGGCTCCTCCACTA
36281977 A
1 A
36281978 AACGGCCTCT
Statistics
Matches: 128, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
128 128 1.00
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.27
Consensus pattern (128 bp):
ATACCTTAAAATTTACAGCTTGAGCGACTGTGTTGGAAGTTTAGGCCGTGCTAACTGGTGGTGTG
GGGCAGCAGAACTAAGGTGAGGGGCTAATCTAATCTGTAAATCTGACGGCGGCTCCTCCACTA
Found at i:36285601 original size:41 final size:41
Alignment explanation
Indices: 36285552--36285701 Score: 219
Period size: 41 Copynumber: 3.6 Consensus size: 41
36285542 GACTTTAAGT
36285552 CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGTTATAAAC
*
36285593 CTAGCAGGCTACGTGCCGATGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGTTATAAAC
* * * **
36285634 CTAGCAGGCTACGTACCGGTGATCTGAATCAAGCTATAAGT
1 CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGTTATAAAC
* *
36285675 CTAGCAGGCTATGTGCCGTTGAATCTG
1 CTAGCAGGCTACGTGCCGGTG-ATCTG
36285702 TTTTAATTAA
Statistics
Matches: 98, Mismatches: 10, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
41 93 0.95
42 5 0.05
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (41 bp):
CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGTTATAAAC
Found at i:36292503 original size:12 final size:12
Alignment explanation
Indices: 36292486--36292538 Score: 52
Period size: 12 Copynumber: 4.2 Consensus size: 12
36292476 TCGAATAAGC
36292486 ATGTATATATAT
1 ATGTATATATAT
36292498 ATGTATATATAT
1 ATGTATATATAT
*
36292510 AATGCTAGAATATAT
1 -ATG-TA-TATATAT
**
36292525 ATACATATATAT
1 ATGTATATATAT
36292537 AT
1 AT
36292539 AAGTTATTGA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
12 20 0.59
13 4 0.12
14 4 0.12
15 6 0.18
ACGTcount: A:0.45, C:0.04, G:0.08, T:0.43
Consensus pattern (12 bp):
ATGTATATATAT
Found at i:36293251 original size:41 final size:41
Alignment explanation
Indices: 36293202--36293351 Score: 210
Period size: 41 Copynumber: 3.6 Consensus size: 41
36293192 GACTTTAAGT
*
36293202 CTAGCAGGCTACGTGCCGGTGATCTGAATCAAGTTATAAAC
1 CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGTTATAAAC
*
36293243 CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGTTATAACC
1 CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGTTATAAAC
* * * **
36293284 CTAGCAGGCTACGTACCGGTGATCTAAATCAGGCTATAAGT
1 CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGTTATAAAC
* *
36293325 CTAGCAGGCTATGTGCCGTTGAATCTG
1 CTAGCAGGCTACGTGCCGGTG-ATCTG
36293352 TTTTAATTAA
Statistics
Matches: 97, Mismatches: 11, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
41 93 0.96
42 4 0.04
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (41 bp):
CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGTTATAAAC
Found at i:36294128 original size:24 final size:24
Alignment explanation
Indices: 36294101--36294147 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
36294091 TTCATGTGAA
36294101 CATAGACTCATTCAGCTT-TAATTT
1 CATA-ACTCATTCAGCTTCTAATTT
*
36294125 CATATCTCATTCAGCTTCTAATT
1 CATAACTCATTCAGCTTCTAATT
36294148 CAATTTACAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 12 0.57
24 9 0.43
ACGTcount: A:0.28, C:0.23, G:0.06, T:0.43
Consensus pattern (24 bp):
CATAACTCATTCAGCTTCTAATTT
Found at i:36294946 original size:46 final size:46
Alignment explanation
Indices: 36294879--36295063 Score: 307
Period size: 46 Copynumber: 4.0 Consensus size: 46
36294869 ACATTGTTAT
* * *
36294879 AACTCAGTATGGTTTTCTTCACGGAAATACCATACCTAGTTTTCAC
1 AACTCAGTATGGTTTTCTTCACCGAAACACCATACCTACTTTTCAC
* * *
36294925 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTATTTTTCAT
1 AACTCAGTATGGTTTTCTTCACCGAAACACCATACCTACTTTTCAC
*
36294971 ATCTCAGTATGGTTTTCTTCACCGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACCGAAACACCATACCTACTTTTCAC
36295017 AACTCAGTATGGTTTTCTTCACCGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACCGAAACACCATACCTACTTTTCAC
36295063 A
1 A
36295064 CTTTGCCATG
Statistics
Matches: 130, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 130 1.00
ACGTcount: A:0.28, C:0.27, G:0.10, T:0.35
Consensus pattern (46 bp):
AACTCAGTATGGTTTTCTTCACCGAAACACCATACCTACTTTTCAC
Found at i:36296336 original size:16 final size:17
Alignment explanation
Indices: 36296290--36296337 Score: 62
Period size: 17 Copynumber: 2.9 Consensus size: 17
36296280 AAATTCTTTT
*
36296290 TAAACCACAAAATTCAA
1 TAAATCACAAAATTCAA
*
36296307 TAAATCACAAAATTCAC
1 TAAATCACAAAATTCAA
*
36296324 TAATTCA-AAAATTC
1 TAAATCACAAAATTC
36296338 TTCTAAATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
16 7 0.25
17 21 0.75
ACGTcount: A:0.54, C:0.21, G:0.00, T:0.25
Consensus pattern (17 bp):
TAAATCACAAAATTCAA
Found at i:36299036 original size:151 final size:148
Alignment explanation
Indices: 36298725--36299031 Score: 339
Period size: 151 Copynumber: 2.0 Consensus size: 148
36298715 AATATATTTG
* *
36298725 CAAGTTGCATAAGACCTCAAGAATGTATGGGAAAATAGCATTATACTAAATGTATGGGACCTATG
1 CAAG-TGCATAAGACCTCAAGAATGTATGGGAAAACAACATTATACTAAATGTATGGGACCTATG
* * * * * * *
36298790 AAACCTTCATTTACACAGATATATAGAAGCAAGCAAGCAAGCATGCATGCATACATAGATACGTA
65 AAACCTTCATTTACACACACACACAGAACCAAGCAAGCAAGCATGCATGCATACACACATAC-TA
* *
36298855 CATAGTACATAAAAGTATTTG
129 CATAGTACAT-AAAGTATATA
*
36298876 CAAGTTGCATAAGACCTCAAGAATGTATGGGAAAACAACATTATACTAAATGTATTGGACCTATG
1 CAAG-TGCATAAGACCTCAAGAATGTATGGGAAAACAACATTATACTAAATGTATGGGACCTATG
* * * *
36298941 AAGCCTTCATTTACATACACACACAGACATCCATACATGCAAGCATGCATGCATGCATTCACACA
65 AAACCTTCATTTACACACACACACAGA-A-CC--A-A-GCAAGCAAGCATGCATGCATACACACA
* *
36299006 TA-TACATATGTACGT-ACGTATATA
124 TACTACATA-GTACATAAAGTATATA
36299030 CA
1 CA
36299032 TGCATGCATA
Statistics
Matches: 131, Mismatches: 18, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
151 83 0.63
152 1 0.01
153 1 0.01
154 8 0.06
155 7 0.05
156 6 0.05
157 25 0.19
ACGTcount: A:0.40, C:0.19, G:0.16, T:0.25
Consensus pattern (148 bp):
CAAGTGCATAAGACCTCAAGAATGTATGGGAAAACAACATTATACTAAATGTATGGGACCTATGA
AACCTTCATTTACACACACACACAGAACCAAGCAAGCAAGCATGCATGCATACACACATACTACA
TAGTACATAAAGTATATA
Found at i:36299224 original size:94 final size:94
Alignment explanation
Indices: 36299060--36299249 Score: 292
Period size: 94 Copynumber: 2.0 Consensus size: 94
36299050 TATCTAAAAG
* * *
36299060 TATTTGTAAGTTGCATAAGACCTCAAGAATGTATTGGAAAACAGAATTATACTAAATGTATTGGA
1 TATTTGCAAGTTGCATAAGACCTCAAGAATGTATGGGAAAACAGAATTATACTAAATGTATGGGA
*
36299125 CCTATGAAACCTTCATTTACAAACATACA
66 CCTATGAAACCTTAATTTACAAACATACA
* *
36299154 TATTTGCAAGTTGCATAAGACCTCAAGAATGTATGGGACAACA-ACATTATGCTAAATGTATGGG
1 TATTTGCAAGTTGCATAAGACCTCAAGAATGTATGGGAAAACAGA-ATTATACTAAATGTATGGG
* *
36299218 ATCTATGAAACCTTAATTTACATACATACA
65 ACCTATGAAACCTTAATTTACAAACATACA
36299248 TA
1 TA
36299250 CGTACATACG
Statistics
Matches: 87, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
93 1 0.01
94 86 0.99
ACGTcount: A:0.39, C:0.15, G:0.15, T:0.31
Consensus pattern (94 bp):
TATTTGCAAGTTGCATAAGACCTCAAGAATGTATGGGAAAACAGAATTATACTAAATGTATGGGA
CCTATGAAACCTTAATTTACAAACATACA
Found at i:36300467 original size:31 final size:31
Alignment explanation
Indices: 36300366--36300476 Score: 111
Period size: 31 Copynumber: 3.6 Consensus size: 31
36300356 TTGCATTTTG
* *
36300366 GAAAA-TTTGGAAAATTTTCATTTCTCCCTT
1 GAAAATTTTTGAAAATTTTCATTTTTCCCTT
* * * *
36300396 GAAAAGTTTAGAAAATTTTAATTAGGTTCCC-T
1 GAAAATTTTTGAAAATTTTCATT--TTTCCCTT
36300428 -AAAATTTTTGAAAATTTTCATTTTTCCCTT
1 GAAAATTTTTGAAAATTTTCATTTTTCCCTT
* *
36300458 GAAATTTTTTGAAATTTTT
1 GAAAATTTTTGAAAATTTT
36300477 AATTAAACTC
Statistics
Matches: 66, Mismatches: 10, Indels: 9
0.78 0.12 0.11
Matches are distributed among these distances:
29 5 0.08
30 6 0.09
31 50 0.76
32 1 0.02
33 4 0.06
ACGTcount: A:0.32, C:0.11, G:0.10, T:0.47
Consensus pattern (31 bp):
GAAAATTTTTGAAAATTTTCATTTTTCCCTT
Found at i:36300507 original size:21 final size:23
Alignment explanation
Indices: 36300469--36300514 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
36300459 AAATTTTTTG
36300469 AAATTTTTAATTAAACTCTC-TTA
1 AAATTTTTAA-TAAACTCTCATTA
36300492 AAATTTTTAA-AAACTCTCATTA
1 AAATTTTTAATAAACTCTCATTA
36300514 A
1 A
36300515 TCTCACAGCA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 8 0.36
22 4 0.18
23 10 0.45
ACGTcount: A:0.43, C:0.13, G:0.00, T:0.43
Consensus pattern (23 bp):
AAATTTTTAATAAACTCTCATTA
Found at i:36304217 original size:12 final size:12
Alignment explanation
Indices: 36304200--36304224 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
36304190 GCACCAGTTT
36304200 CTCATTTATACC
1 CTCATTTATACC
36304212 CTCATTTATACC
1 CTCATTTATACC
36304224 C
1 C
36304225 CTAGCTGGAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.36, G:0.00, T:0.40
Consensus pattern (12 bp):
CTCATTTATACC
Found at i:36312503 original size:14 final size:15
Alignment explanation
Indices: 36312467--36312506 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
36312457 ACAGAAAAGT
*
36312467 AAAA-CATTTTTC-A
1 AAAATCATTTTACAA
36312480 AAAATCATTTTACAA
1 AAAATCATTTTACAA
36312495 AAAAT-ATTTTAC
1 AAAATCATTTTAC
36312507 TGGCAATCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
13 4 0.17
14 14 0.58
15 6 0.25
ACGTcount: A:0.50, C:0.12, G:0.00, T:0.38
Consensus pattern (15 bp):
AAAATCATTTTACAA
Found at i:36315132 original size:3 final size:3
Alignment explanation
Indices: 36315097--36315177 Score: 58
Period size: 3 Copynumber: 26.3 Consensus size: 3
36315087 ATAAGAAAAC
* * * * *
36315097 ATA ATA CTA ACA ATA GTA TTA ATA A-A TATA ATA ATA ATA GTA A-A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA
*
36315141 GATA ATA ATG ATA ATA ATA ATA ACTAA ATA ATA ATA A
1 -ATA ATA ATA ATA ATA ATA ATA A-T-A ATA ATA ATA A
36315178 AAAATTGCTA
Statistics
Matches: 61, Mismatches: 11, Indels: 12
0.73 0.13 0.14
Matches are distributed among these distances:
2 2 0.03
3 53 0.87
4 4 0.07
5 2 0.03
ACGTcount: A:0.60, C:0.04, G:0.05, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:36316787 original size:44 final size:44
Alignment explanation
Indices: 36316679--36317358 Score: 297
Period size: 44 Copynumber: 15.7 Consensus size: 44
36316669 AATTCCTCGG
* * * *
36316679 TCTGTTCCACTGTAATCTCAGGGAGATAAGA-CC-TGA-TGCGA
1 TCTGCTCCACTGTAATCTCAGGGAGATAAGATCCTTTATTTCAA
* ** * * *
36316720 TCTACTCTGCTGTAA-CTTTAGAGAGATAAGATCCTTTATTTTAA
1 TCTGCTCCACTGTAATC-TCAGGGAGATAAGATCCTTTATTTCAA
* * * * * *
36316764 TCCGCTCCACTGTAATCTCAGAGAGATAGGAT--TACTAGCTTCGA
1 TCTGCTCCACTGTAATCTCAGGGAGATAAGATCCT-TTA-TTTCAA
* *
36316808 TCTGCTCCACTGTAATCTCAGGGAGATAAGA-CC-TGA-TACAA
1 TCTGCTCCACTGTAATCTCAGGGAGATAAGATCCTTTATTTCAA
** * * *
36316849 TCTATTCTACTGTAA-CTTCAGAGAGATAAGATCCTTTATTTTAA
1 TCTGCTCCACTGTAATC-TCAGGGAGATAAGATCCTTTATTTCAA
* * * * *
36316893 TCCGCTCCACTGTAATCTCGGGGAGATAGGAT--TACTAGCTTCAA
1 TCTGCTCCACTGTAATCTCAGGGAGATAAGATCCT-TTA-TTTCAA
* * * * ** *
36316937 TTTGCTCCGCTATAATCTTAGGGAGATAAGAT-CTGAAATTCTTCGA
1 TCTGCTCCACTGTAATCTCAGGGAGATAAGATCCT-TTA-T-TTCAA
* * ** * *
36316983 TCTGTTCCACTGTAATCTCAGGGAAATAAGA-CC--TGGTGCGA
1 TCTGCTCCACTGTAATCTCAGGGAGATAAGATCCTTTATTTCAA
* * * *
36317024 TCTACTCTACTGTAA-CTTCAGAGAGATAAGATCCTTTATTTTAA
1 TCTGCTCCACTGTAATC-TCAGGGAGATAAGATCCTTTATTTCAA
* * *
36317068 TCTGCTCCACTGTAATCTCAGGGAGATAGGAT--TACTAGCTTCAA
1 TCTGCTCCACTGTAATCTCAGGGAGATAAGATCCT-TTA-TTTCAA
* ** **
36317112 TCTGCTCCGCTGTAATCTCAGGGAGATAAGAT-CTGAAATTCTTCGG
1 TCTGCTCCACTGTAATCTCAGGGAGATAAGATCCT-TTA-T-TTCAA
* * ** * *
36317158 TCTGTTCCACTGTAATCTCAGGGAAATAAGA-CC--TGGTGCGA
1 TCTGCTCCACTGTAATCTCAGGGAGATAAGATCCTTTATTTCAA
* * *
36317199 TCTGCTCTACTTTAA-CTTCAGAGAGATAAGATCC----TTT-AA
1 TCTGCTCCACTGTAATC-TCAGGGAGATAAGATCCTTTATTTCAA
* * * *
36317238 TCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTATA-TTCAA
1 TCTGCTCCACTGTAATCTCAGGGAGATAAGA-TCCTTTATTTCAA
* * * * *
36317282 TCTGCTCCGCTGTAATCTTAGGGAGATAAGATCTGCAATT-CTTCGA
1 TCTGCTCCACTGTAATCTCAGGGAGATAAGATC--C-TTTATTTCAA
* * *
36317328 TCTGTTCCACCGTAATCTCAGGGAAATAAGA
1 TCTGCTCCACTGTAATCTCAGGGAGATAAGA
36317359 CTTGTATAAT
Statistics
Matches: 469, Mismatches: 128, Indels: 79
0.69 0.19 0.12
Matches are distributed among these distances:
39 25 0.05
40 8 0.02
41 106 0.23
42 11 0.02
43 14 0.03
44 204 0.43
45 8 0.02
46 93 0.20
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.31
Consensus pattern (44 bp):
TCTGCTCCACTGTAATCTCAGGGAGATAAGATCCTTTATTTCAA
Found at i:36316862 original size:129 final size:129
Alignment explanation
Indices: 36316679--36316972 Score: 462
Period size: 129 Copynumber: 2.3 Consensus size: 129
36316669 AATTCCTCGG
* * * * *
36316679 TCTGTTCCACTGTAATCTCAGGGAGATAAGACCTGATGCGATCTACTCTGCTGTAACTTTAGAGA
1 TCTGCTCCACTGTAATCTCAGGGAGATAAGACCTGATACAATCTACTCTACTGTAACTTCAGAGA
*
36316744 GATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGAGAGATAGGATTACTAGCTTCGA
66 GATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGAGAGATAGGATTACTAGCTTCAA
*
36316808 TCTGCTCCACTGTAATCTCAGGGAGATAAGACCTGATACAATCTATTCTACTGTAACTTCAGAGA
1 TCTGCTCCACTGTAATCTCAGGGAGATAAGACCTGATACAATCTACTCTACTGTAACTTCAGAGA
* *
36316873 GATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCGGGGAGATAGGATTACTAGCTTCAA
66 GATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGAGAGATAGGATTACTAGCTTCAA
* * * * *
36316937 TTTGCTCCGCTATAATCTTAGGGAGATAAGATCTGA
1 TCTGCTCCACTGTAATCTCAGGGAGATAAGACCTGA
36316973 AATTCTTCGA
Statistics
Matches: 151, Mismatches: 14, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
129 151 1.00
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.32
Consensus pattern (129 bp):
TCTGCTCCACTGTAATCTCAGGGAGATAAGACCTGATACAATCTACTCTACTGTAACTTCAGAGA
GATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGAGAGATAGGATTACTAGCTTCAA
Found at i:36316999 original size:175 final size:175
Alignment explanation
Indices: 36316802--36317359 Score: 919
Period size: 175 Copynumber: 3.2 Consensus size: 175
36316792 GGATTACTAG
* * * * * *
36316802 CTTCGATCTGCTCCACTGTAATCTCAGGGAGATAAGACCTGATACAATCTATTCTACTGTAACTT
1 CTTCGATCTGTTCCACTGTAATCTCAGGGAAATAAGACCTGGTGCGATCTACTCTACTGTAACTT
*
36316867 CAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCGGGGAGATAGGATTACTAGC
66 CAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGC
* *
36316932 TTCAATTTGCTCCGCTATAATCTTAGGGAGATAAGATCTGAAATT
131 TTCAATCTGCTCCGCTGTAATCTTAGGGAGATAAGATCTGAAATT
36316977 CTTCGATCTGTTCCACTGTAATCTCAGGGAAATAAGACCTGGTGCGATCTACTCTACTGTAACTT
1 CTTCGATCTGTTCCACTGTAATCTCAGGGAAATAAGACCTGGTGCGATCTACTCTACTGTAACTT
*
36317042 CAGAGAGATAAGATCCTTTATTTTAATCTGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGC
66 CAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGC
*
36317107 TTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATT
131 TTCAATCTGCTCCGCTGTAATCTTAGGGAGATAAGATCTGAAATT
* * *
36317152 CTTCGGTCTGTTCCACTGTAATCTCAGGGAAATAAGACCTGGTGCGATCTGCTCTACTTTAACTT
1 CTTCGATCTGTTCCACTGTAATCTCAGGGAAATAAGACCTGGTGCGATCTACTCTACTGTAACTT
**
36317217 CAGAGAGATAAGATCC-----TTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTATA
66 CAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGC
*
36317277 TTCAATCTGCTCCGCTGTAATCTTAGGGAGATAAGATCTGCAATT
131 TTCAATCTGCTCCGCTGTAATCTTAGGGAGATAAGATCTGAAATT
*
36317322 CTTCGATCTGTTCCACCGTAATCTCAGGGAAATAAGAC
1 CTTCGATCTGTTCCACTGTAATCTCAGGGAAATAAGAC
36317360 TTGTATAATG
Statistics
Matches: 362, Mismatches: 21, Indels: 5
0.93 0.05 0.01
Matches are distributed among these distances:
170 120 0.33
175 242 0.67
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (175 bp):
CTTCGATCTGTTCCACTGTAATCTCAGGGAAATAAGACCTGGTGCGATCTACTCTACTGTAACTT
CAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGC
TTCAATCTGCTCCGCTGTAATCTTAGGGAGATAAGATCTGAAATT
Found at i:36323435 original size:8 final size:8
Alignment explanation
Indices: 36323422--36323446 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
36323412 TAAGGATTAT
36323422 AAAATATA
1 AAAATATA
36323430 AAAATATA
1 AAAATATA
36323438 AAAATATA
1 AAAATATA
36323446 A
1 A
36323447 TATTTAGGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AAAATATA
Found at i:36323896 original size:3 final size:3
Alignment explanation
Indices: 36323861--36323941 Score: 58
Period size: 3 Copynumber: 26.3 Consensus size: 3
36323851 ATAAGAAAAC
* * * * *
36323861 ATA ATA CTA ACA ATA GTA TTA ATA A-A TATA ATA ATA ATA GTA A-A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA
*
36323905 GATA ATA ATG ATA ATA ATA ATA ACTAA ATA ATA ATA A
1 -ATA ATA ATA ATA ATA ATA ATA A-T-A ATA ATA ATA A
36323942 AAAATTGCTA
Statistics
Matches: 61, Mismatches: 11, Indels: 12
0.73 0.13 0.14
Matches are distributed among these distances:
2 2 0.03
3 53 0.87
4 4 0.07
5 2 0.03
ACGTcount: A:0.60, C:0.04, G:0.05, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:36327192 original size:33 final size:33
Alignment explanation
Indices: 36327155--36327219 Score: 121
Period size: 33 Copynumber: 2.0 Consensus size: 33
36327145 CTAGGATTAG
36327155 TCGAATTAAATTGAACTTTAAACTTCAAAATGT
1 TCGAATTAAATTGAACTTTAAACTTCAAAATGT
*
36327188 TCGAATTAAATTGATCTTTAAACTTCAAAATG
1 TCGAATTAAATTGAACTTTAAACTTCAAAATG
36327220 GTTTAATTGA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.42, C:0.12, G:0.09, T:0.37
Consensus pattern (33 bp):
TCGAATTAAATTGAACTTTAAACTTCAAAATGT
Found at i:36327572 original size:24 final size:24
Alignment explanation
Indices: 36327526--36327572 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
36327516 TTTTTTTTCA
*
36327526 AATCGACTTTAGTTGAGTAAATTG
1 AATCGACTTTAGTTCAGTAAATTG
*
36327550 AATCGACTTT-GATTCAGTCAATT
1 AATCGACTTTAG-TTCAGTAAATT
36327573 TTAATTAACC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 1 0.05
24 19 0.95
ACGTcount: A:0.32, C:0.13, G:0.17, T:0.38
Consensus pattern (24 bp):
AATCGACTTTAGTTCAGTAAATTG
Found at i:36333907 original size:19 final size:19
Alignment explanation
Indices: 36333867--36333908 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
36333857 ATTGAGAAAA
* *
36333867 AATTAAAATTAAGGGGTAG
1 AATTAAAAATAAGGAGTAG
*
36333886 AATTAAAAATAAGGAGTTG
1 AATTAAAAATAAGGAGTAG
36333905 AATT
1 AATT
36333909 TAGCTTAGAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.21, T:0.29
Consensus pattern (19 bp):
AATTAAAAATAAGGAGTAG
Found at i:36334304 original size:25 final size:25
Alignment explanation
Indices: 36334267--36334352 Score: 68
Period size: 25 Copynumber: 3.3 Consensus size: 25
36334257 CATAATTGAA
**
36334267 ATGAAATGGATTGATTTTGTATATT
1 ATGAAATATATTGATTTTGTATATT
* *
36334292 ATGAAATATATTGATTATGAATATT
1 ATGAAATATATTGATTTTGTATATT
36334317 GAATTG-AATATATGTGATATTGTGTATA-T
1 --A-TGAAATATAT-TGAT-TT-TGTATATT
36334346 ATGAAAT
1 ATGAAAT
36334353 TGAGACATTG
Statistics
Matches: 48, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
25 21 0.44
26 2 0.04
27 12 0.25
28 6 0.12
29 2 0.04
30 5 0.10
ACGTcount: A:0.38, C:0.00, G:0.17, T:0.44
Consensus pattern (25 bp):
ATGAAATATATTGATTTTGTATATT
Found at i:36334734 original size:27 final size:27
Alignment explanation
Indices: 36334704--36334758 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
36334694 TGAAATGAAT
*
36334704 ATGAGACGAGAAATGAAATATGAAATA
1 ATGAAACGAGAAATGAAATATGAAATA
* ** *
36334731 ATGAAATGAGATGTGAATTATGAAATA
1 ATGAAACGAGAAATGAAATATGAAATA
36334758 A
1 A
36334759 AATCGAGTAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.53, C:0.02, G:0.22, T:0.24
Consensus pattern (27 bp):
ATGAAACGAGAAATGAAATATGAAATA
Found at i:36340518 original size:44 final size:43
Alignment explanation
Indices: 36340468--36340566 Score: 139
Period size: 42 Copynumber: 2.3 Consensus size: 43
36340458 ATTTTAACCT
* *
36340468 ACTGCAACTTTAGGGGTATAAA-ACTTGTAGTTTTAATCTACTCC
1 ACTGCAACTTTAGGGG-A-AAAGACTTGTAGCTTCAATCTACTCC
*
36340512 ACTGCAACTTCA-GGGAAAAGACTTGTAGCTTCAATCTACTCC
1 ACTGCAACTTTAGGGGAAAAGACTTGTAGCTTCAATCTACTCC
36340554 ACTGCAACTTTAG
1 ACTGCAACTTTAG
36340567 AGAGGTAAGA
Statistics
Matches: 49, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
41 3 0.06
42 32 0.65
43 3 0.06
44 11 0.22
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.31
Consensus pattern (43 bp):
ACTGCAACTTTAGGGGAAAAGACTTGTAGCTTCAATCTACTCC
Found at i:36340747 original size:45 final size:44
Alignment explanation
Indices: 36340684--36341168 Score: 424
Period size: 45 Copynumber: 10.9 Consensus size: 44
36340674 AGGATTTATT
* * *
36340684 TTCAATCTACTCCGCTGCAATTTCAGGGAGATAAGACTTGTAGA
1 TTCAATCTGCTCCACTGCAATTTCAGGGAGATAAGATTTGTAGA
* *
36340728 TTTAATCTTGCTCCACTGCAACTTT-AGAGAGATAAGATTTGTA-A
1 TTCAATC-TGCTCCACTGCAA-TTTCAGGGAGATAAGATTTGTAGA
* * *
36340772 CTTTAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGT-GA
1 -TTCAATCTGCTCCACTGCAATTTCAGGGAGATAAGATTTGTAGA
* * * * * * **
36340816 CTTCAATCTGCGCTACAGCAATTTTAGAGTGATAAGATTTGCTATC
1 -TTCAATCTGCTCCACTGCAATTTCAGGGAGATAAGATTTG-TAGA
* * **
36340862 TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGTTTTGCTATC
1 TTCAATCTGCTCCACTGCAATTTCAGGGAGATAAGATTTG-TAGA
* * *
36340907 TTCAATTTGCTCCACTGCAACTTT-AGGGAGATAAGATTTGTGGT
1 TTCAATCTGCTCCACTGCAA-TTTCAGGGAGATAAGATTTGTAGA
* * * *
36340951 TTTAATTTGCTCCACTGCAACTTCAGGGAGATAAGATTGGT-GA
1 TTCAATCTGCTCCACTGCAATTTCAGGGAGATAAGATTTGTAGA
* * * * *
36340994 CTTCAATCTGCTCTACTGCAATTTTAGAGTGATAAGATTTGCTATA
1 -TTCAATCTGCTCCACTGCAATTTCAGGGAGATAAGATTTG-TAGA
* * * * **
36341040 TTCAATCTGCTCCACCGCAACTTCAGAGAGGTAAGATTTGCTATC
1 TTCAATCTGCTCCACTGCAATTTCAGGGAGATAAGATTTG-TAGA
* * * *
36341085 TTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTGTGGT
1 TTCAATCTGCTCCACTGCAATTTCAGGGAGATAAGATTTGTAGA
* * *
36341129 TTTAATTTGCTCCACTGAAACTTT-AGGGAGATAAGATTTG
1 TTCAATCTGCTCCACTGCAA-TTTCAGGGAGATAAGATTTG
36341169 CCATGATAAC
Statistics
Matches: 363, Mismatches: 65, Indels: 26
0.80 0.14 0.06
Matches are distributed among these distances:
43 5 0.01
44 169 0.47
45 183 0.50
46 6 0.02
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (44 bp):
TTCAATCTGCTCCACTGCAATTTCAGGGAGATAAGATTTGTAGA
Found at i:36340792 original size:89 final size:88
Alignment explanation
Indices: 36340687--36341168 Score: 504
Period size: 89 Copynumber: 5.4 Consensus size: 88
36340677 ATTTATTTTC
* * * * *
36340687 AATCTACTCCGCTGCAATTTCAGGGAGATAAGACTTGTAGATTTAATCTTGCTCCACTGCAACTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAGATTCAATC-TGCTCCACTGCAACTT
36340752 TAGAGAGATAAGATTTGTAACTTT
65 TAGAGAGATAAGATTTGTAACTTT
* * * * *
36340776 AATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGT-GACTTCAATCTGCGCTACAGCAATTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAGA-TTCAATCTGCTCCACTGCAACTT
* * *
36340840 TAGAGTGATAAGATTTGCTATCTTC
65 TAGAGAGATAAGATTTG-TAACTTT
* ** *
36340865 AATCTGCTCCACTGCAACTTCAGGGAGATAAGTTTTGCTATCTTCAATTTGCTCCACTGCAACTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG-TAGATTCAATCTGCTCCACTGCAACTT
* ***
36340930 TAGGGAGATAAGATTTGTGGTTTT
65 TAGAGAGATAAGATTTGTAACTTT
* * * *
36340954 AATTTGCTCCACTGCAACTTCAGGGAGATAAGATTGGT-GACTTCAATCTGCTCTACTGCAATTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAGA-TTCAATCTGCTCCACTGCAACTT
* *
36341018 TAGAGTGATAAGATTTGCTATA-TTC
65 TAGAGAGATAAGATTTG-TA-ACTTT
* * * **
36341043 AATCTGCTCCACCGCAACTTCAGAGAGGTAAGATTTGCTATCTTCAATCTGCTCCACTGCAACTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG-TAGATTCAATCTGCTCCACTGCAACTT
* ***
36341108 CA-AGGAGATAAGATTTGTGGTTTT
65 TAGA-GAGATAAGATTTGTAACTTT
* * *
36341132 AATTTGCTCCACTGAAACTTTAGGGAGATAAGATTTG
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG
36341169 CCATGATAAC
Statistics
Matches: 323, Mismatches: 59, Indels: 22
0.80 0.15 0.05
Matches are distributed among these distances:
88 66 0.20
89 188 0.58
90 69 0.21
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (88 bp):
AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAGATTCAATCTGCTCCACTGCAACTTT
AGAGAGATAAGATTTGTAACTTT
Found at i:36340983 original size:178 final size:178
Alignment explanation
Indices: 36340684--36341168 Score: 720
Period size: 178 Copynumber: 2.7 Consensus size: 178
36340674 AGGATTTATT
* * * * ** *
36340684 TTCAATCTACTCCGCTGCAATTTCAGGGAGATAAGACTTG-TAGATTTAATCTTGCTCCACTGCA
1 TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTCAAT-TTGCTCCACTGCA
* *** * *
36340748 ACTTTAGAGAGATAAGATTTGTAACTTTAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTG
65 ACTTTAGGGAGATAAGATTTGTGGTTTTAATTTGCTCCACTGCAACTTCAGGGAGATAAGATTTG
*
36340813 TGACTTCAATCTGCGCTACAGCAATTTTAGAGTGATAAGATTTGCTATC
130 TGACTTCAATCTGCGCTACAGCAATTTTAGAGTGATAAGATTTGCTATA
*
36340862 TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGTTTTGCTATCTTCAATTTGCTCCACTGCAA
1 TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTCAATTTGCTCCACTGCAA
*
36340927 CTTTAGGGAGATAAGATTTGTGGTTTTAATTTGCTCCACTGCAACTTCAGGGAGATAAGATTGGT
66 CTTTAGGGAGATAAGATTTGTGGTTTTAATTTGCTCCACTGCAACTTCAGGGAGATAAGATTTGT
* *
36340992 GACTTCAATCTGCTCTACTGCAATTTTAGAGTGATAAGATTTGCTATA
131 GACTTCAATCTGCGCTACAGCAATTTTAGAGTGATAAGATTTGCTATA
* * * *
36341040 TTCAATCTGCTCCACCGCAACTTCAGAGAGGTAAGATTTGCTATCTTCAATCTGCTCCACTGCAA
1 TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTCAATTTGCTCCACTGCAA
* * * *
36341105 CTTCAAGGAGATAAGATTTGTGGTTTTAATTTGCTCCACTGAAACTTTAGGGAGATAAGATTTG
66 CTTTAGGGAGATAAGATTTGTGGTTTTAATTTGCTCCACTGCAACTTCAGGGAGATAAGATTTG
36341169 CCATGATAAC
Statistics
Matches: 278, Mismatches: 28, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
178 271 0.97
179 7 0.03
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (178 bp):
TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTCAATTTGCTCCACTGCAA
CTTTAGGGAGATAAGATTTGTGGTTTTAATTTGCTCCACTGCAACTTCAGGGAGATAAGATTTGT
GACTTCAATCTGCGCTACAGCAATTTTAGAGTGATAAGATTTGCTATA
Found at i:36353094 original size:19 final size:20
Alignment explanation
Indices: 36353067--36353120 Score: 58
Period size: 19 Copynumber: 2.8 Consensus size: 20
36353057 ATCGAATTTT
*
36353067 AATATTAAAAAAATAAA-AG
1 AATAATAAAAAAATAAATAG
*
36353086 AATAATAAATAAATAAATAG
1 AATAATAAAAAAATAAATAG
*
36353106 AA-AAAACAAAAAATA
1 AATAATA-AAAAAATA
36353121 TTAAATTTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
19 18 0.62
20 11 0.38
ACGTcount: A:0.76, C:0.02, G:0.04, T:0.19
Consensus pattern (20 bp):
AATAATAAAAAAATAAATAG
Found at i:36354401 original size:21 final size:21
Alignment explanation
Indices: 36354375--36354416 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
36354365 GCAGAGTAGT
*
36354375 TGGTGGTGGC-AGGCTAGGGTG
1 TGGTGGCGGCTAGG-TAGGGTG
36354396 TGGTGGCGGCTAGGTAGGGTG
1 TGGTGGCGGCTAGGTAGGGTG
36354417 CGGCGCTAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.10, C:0.10, G:0.57, T:0.24
Consensus pattern (21 bp):
TGGTGGCGGCTAGGTAGGGTG
Found at i:36356038 original size:13 final size:14
Alignment explanation
Indices: 36356020--36356049 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
36356010 CAATTTTTGG
36356020 GTTTTGA-TCTCGA
1 GTTTTGATTCTCGA
36356033 GTTTTGATTCTCGA
1 GTTTTGATTCTCGA
36356047 GTT
1 GTT
36356050 CAATTTTTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.44
14 9 0.56
ACGTcount: A:0.13, C:0.13, G:0.23, T:0.50
Consensus pattern (14 bp):
GTTTTGATTCTCGA
Found at i:36356063 original size:19 final size:20
Alignment explanation
Indices: 36356034--36356075 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
36356024 TGATCTCGAG
*
36356034 TTTTGATTCTCGAGTTCAAT
1 TTTTGATTCTCGAGTCCAAT
*
36356054 TTTTGA-TCTCTAGTCCAAT
1 TTTTGATTCTCGAGTCCAAT
36356073 TTT
1 TTT
36356076 CAAGTTCAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 14 0.70
20 6 0.30
ACGTcount: A:0.19, C:0.17, G:0.12, T:0.52
Consensus pattern (20 bp):
TTTTGATTCTCGAGTCCAAT
Found at i:36360860 original size:21 final size:22
Alignment explanation
Indices: 36360825--36360865 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
36360815 CATGTACTTC
36360825 ATTTTGAAGTAATTTCATCCTT
1 ATTTTGAAGTAATTTCATCCTT
*
36360847 ATTTTGAA-TAATTTGATCC
1 ATTTTGAAGTAATTTCATCC
36360866 ATGCCAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.29, C:0.12, G:0.10, T:0.49
Consensus pattern (22 bp):
ATTTTGAAGTAATTTCATCCTT
Found at i:36371457 original size:18 final size:18
Alignment explanation
Indices: 36371434--36371476 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
36371424 GAATAGATTT
36371434 TTAATTAAATAAATTT-AA
1 TTAATTAAA-AAATTTAAA
* *
36371452 TTAATTGAAAATTTTAAA
1 TTAATTAAAAAATTTAAA
36371470 TTAATTA
1 TTAATTA
36371477 CACCTTGAAC
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 5 0.24
18 16 0.76
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (18 bp):
TTAATTAAAAAATTTAAA
Found at i:36374901 original size:3 final size:3
Alignment explanation
Indices: 36374893--36374927 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
36374883 TATGCTACCA
36374893 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
36374928 GTGTTTGATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:36375404 original size:22 final size:22
Alignment explanation
Indices: 36375379--36375433 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
36375369 TAGGAAGCAA
* *
36375379 AATGTAGATTAGTAGGCACCGT
1 AATGCAGATCAGTAGGCACCGT
*
36375401 AATGCAGATCAGTAGGCATCGT
1 AATGCAGATCAGTAGGCACCGT
* *
36375423 AGTGCAAATCA
1 AATGCAGATCA
36375434 CGTACAGGCA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.35, C:0.16, G:0.25, T:0.24
Consensus pattern (22 bp):
AATGCAGATCAGTAGGCACCGT
Found at i:36381262 original size:127 final size:126
Alignment explanation
Indices: 36381033--36381263 Score: 266
Period size: 127 Copynumber: 1.8 Consensus size: 126
36381023 ATATTTTACC
** * *
36381033 ATTTAGGTTTAACGAGAAAATCGAAACCTTGTAAGTTAGGGTACAATTTCTTTAATCACCAAAAT
1 ATTTAGGTTTAACGAGAAAATCGAAACCCCGTAAGTTAGGGTACAATTTCTTGAATCACCAAAAC
* * * * * *
36381098 GCGAAATGTTACCTTATAATGAGATTTCTTTCATTTTTTAAAGTTTAAAGGGGTACTTTGCT
66 GCAAAATATGACCATATAATGAAATTTCATT-ATTTTTTAAAGTTTAAAGGGGTACTTTGCT
* ** **
36381160 ATTTAGGTTTAACGAGAAAATCGAATCCCCGTAAGTTAGGGTACGGTTTTCTTGAATTGCCAAAA
1 ATTTAGGTTTAACGAGAAAATCGAAACCCCGTAAGTTAGGGTAC-AATTTCTTGAATCACCAAAA
* **
36381225 CGCAAAATATGGCCATATGTTGAAATTTTCATT-TTTTTT
65 CGCAAAATATGACCATATAATGAAA-TTTCATTATTTTTT
36381264 GCATGTTTGG
Statistics
Matches: 84, Mismatches: 18, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
127 47 0.56
128 31 0.37
129 6 0.07
ACGTcount: A:0.32, C:0.13, G:0.17, T:0.37
Consensus pattern (126 bp):
ATTTAGGTTTAACGAGAAAATCGAAACCCCGTAAGTTAGGGTACAATTTCTTGAATCACCAAAAC
GCAAAATATGACCATATAATGAAATTTCATTATTTTTTAAAGTTTAAAGGGGTACTTTGCT
Found at i:36381471 original size:20 final size:20
Alignment explanation
Indices: 36381446--36381491 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
36381436 ATAAAATCAC
*
36381446 ATAATAACA-ATTTAAAGTAA
1 ATAATAA-AGATTTAAAATAA
*
36381466 ATAATAAAGATTTAAAATGA
1 ATAATAAAGATTTAAAATAA
36381486 ATAATA
1 ATAATA
36381492 TGAAATGCTC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 1 0.04
20 22 0.96
ACGTcount: A:0.61, C:0.02, G:0.07, T:0.30
Consensus pattern (20 bp):
ATAATAAAGATTTAAAATAA
Found at i:36382625 original size:3 final size:3
Alignment explanation
Indices: 36382617--36382656 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
36382607 TAATGTTCGT
*
36382617 AGA AGA AGA AGA AGA AGA AAA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
36382657 ATACAAAGAG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:36383681 original size:44 final size:44
Alignment explanation
Indices: 36383633--36383959 Score: 161
Period size: 44 Copynumber: 7.4 Consensus size: 44
36383623 AAGATTCGCT
* *
36383633 ATCTTTGATCTACTCCACTACTGCTTAGGGAGACAGGATCTACA
1 ATCTTTAATCTACTCCACTACTGCTTAGGGAGATAGGATCTACA
* * * ***
36383677 ATCTTTAACCTACTCCACTGCTGCTCAGGGAGATAGGA-CTGGT
1 ATCTTTAATCTACTCCACTACTGCTTAGGGAGATAGGATCTACA
** * * * *
36383720 GGCTTAAATCTACTTCC-CTACTACCTT-GGGAAGATAAGAT-TCACC
1 ATCTTTAATCTAC-TCCACTACT-GCTTAGGG-AGATAGGATCT-ACA
* * * *
36383765 ATCTTTGATCTGCTCCACTACTGTTTAGGGAGACAGGATCTACA
1 ATCTTTAATCTACTCCACTACTGCTTAGGGAGATAGGATCTACA
* * * ** * *
36383809 TTCTTCAACCTACTCCACTGTTGCTCAGGGAGATAGGAT-T--G
1 ATCTTTAATCTACTCCACTACTGCTTAGGGAGATAGGATCTACA
* * * * * *
36383850 ATGGCTTAAATCTGCTTCC-CTACTACCTT-GGGAATATAAGAT-TCACC
1 AT--CTTTAATCTAC-TCCACTACT-GCTTAGGG-AGATAGGATCT-ACA
* * * *
36383897 GTCTTTGATCTACTCCACTACAGCTTAGGGAGACAGGATCTACA
1 ATCTTTAATCTACTCCACTACTGCTTAGGGAGATAGGATCTACA
* *
36383941 ATCTTCAACCTACTCCACT
1 ATCTTTAATCTACTCCACT
36383960 GTTGCTCAGA
Statistics
Matches: 199, Mismatches: 65, Indels: 38
0.66 0.22 0.13
Matches are distributed among these distances:
41 1 0.01
43 33 0.17
44 131 0.66
45 33 0.17
47 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.30
Consensus pattern (44 bp):
ATCTTTAATCTACTCCACTACTGCTTAGGGAGATAGGATCTACA
Found at i:36383860 original size:132 final size:132
Alignment explanation
Indices: 36383623--36383968 Score: 575
Period size: 132 Copynumber: 2.6 Consensus size: 132
36383613 CCAGGGAAAG
* * *
36383623 AAGATTCGCTATCTTTGATCTACTCCACTACTGCTTAGGGAGACAGGATCTACAATCTTTAACCT
1 AAGATTCACCATCTTTGATCTACTCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCT
* *
36383688 ACTCCACTGCTGCTCAGGGAGATAGGACTGGTGGCTTAAATCTACTTCCCTACTACCTTGGGAAG
66 ACTCCACTGTTGCTCAGGGAGATAGGACTGATGGCTTAAATCTACTTCCCTACTACCTTGGGAAG
36383753 AT
131 AT
* * *
36383755 AAGATTCACCATCTTTGATCTGCTCCACTACTGTTTAGGGAGACAGGATCTACATTCTTCAACCT
1 AAGATTCACCATCTTTGATCTACTCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCT
* * *
36383820 ACTCCACTGTTGCTCAGGGAGATAGGATTGATGGCTTAAATCTGCTTCCCTACTACCTTGGGAAT
66 ACTCCACTGTTGCTCAGGGAGATAGGACTGATGGCTTAAATCTACTTCCCTACTACCTTGGGAAG
36383885 AT
131 AT
* *
36383887 AAGATTCACCGTCTTTGATCTACTCCACTACAGCTTAGGGAGACAGGATCTACAATCTTCAACCT
1 AAGATTCACCATCTTTGATCTACTCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCT
36383952 ACTCCACTGTTGCTCAG
66 ACTCCACTGTTGCTCAG
36383969 AGAGGTAAGG
Statistics
Matches: 198, Mismatches: 16, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
132 198 1.00
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.30
Consensus pattern (132 bp):
AAGATTCACCATCTTTGATCTACTCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCT
ACTCCACTGTTGCTCAGGGAGATAGGACTGATGGCTTAAATCTACTTCCCTACTACCTTGGGAAG
AT
Found at i:36385426 original size:11 final size:11
Alignment explanation
Indices: 36385406--36385438 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
36385396 CCTCTCTCAT
36385406 TTTTCTTTTTC
1 TTTTCTTTTTC
*
36385417 TTTTCCTTTTC
1 TTTTCTTTTTC
36385428 TTTTCTTTTTC
1 TTTTCTTTTTC
36385439 ATCATTTTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (11 bp):
TTTTCTTTTTC
Found at i:36385499 original size:34 final size:33
Alignment explanation
Indices: 36385442--36385510 Score: 111
Period size: 34 Copynumber: 2.1 Consensus size: 33
36385432 CTTTTTCATC
36385442 ATTTTCATTTTTTATTTTTTGAAATATTTTTTG
1 ATTTTCATTTTTTATTTTTTGAAATATTTTTTG
* *
36385475 ATTTTGATTTTGTTTTTTTTTGAAATATTTTTTG
1 ATTTTCATTTT-TTATTTTTTGAAATATTTTTTG
36385509 AT
1 AT
36385511 CAGATCTAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
33 10 0.30
34 23 0.70
ACGTcount: A:0.20, C:0.01, G:0.09, T:0.70
Consensus pattern (33 bp):
ATTTTCATTTTTTATTTTTTGAAATATTTTTTG
Found at i:36397653 original size:18 final size:20
Alignment explanation
Indices: 36397627--36397664 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
36397617 AAACTACAAC
*
36397627 TCTACAAAAC-ATGGTTTTT
1 TCTACAAAACTAAGGTTTTT
36397646 TCTA-AAAACTAAGGTTTTT
1 TCTACAAAACTAAGGTTTTT
36397665 CGTAAATAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.34, C:0.13, G:0.11, T:0.42
Consensus pattern (20 bp):
TCTACAAAACTAAGGTTTTT
Found at i:36402613 original size:27 final size:27
Alignment explanation
Indices: 36402582--36402652 Score: 90
Period size: 27 Copynumber: 2.6 Consensus size: 27
36402572 TGTTCCGACC
36402582 CACAGCTCGTGTGAGCAG-GCTAATTTT
1 CACAGCTCGTGTGAGCAGAGC-AATTTT
* * *
36402609 TACAGCTTGTGTGAGCAGAGCCATTTT
1 CACAGCTCGTGTGAGCAGAGCAATTTT
*
36402636 CATAGCTCGTGTGAGCA
1 CACAGCTCGTGTGAGCA
36402653 TACATGTACA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
27 35 0.95
28 2 0.05
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.30
Consensus pattern (27 bp):
CACAGCTCGTGTGAGCAGAGCAATTTT
Found at i:36409607 original size:26 final size:26
Alignment explanation
Indices: 36409578--36409653 Score: 80
Period size: 26 Copynumber: 2.9 Consensus size: 26
36409568 CACCAATATC
* *
36409578 GCAGCAAAACTGCCAGTAATAGTGAT
1 GCAGCAAAACTGCCAGTAACAGTAAT
** *
36409604 GCAGCAATGCTGCTAGTAACAGTAAT
1 GCAGCAAAACTGCCAGTAACAGTAAT
* * *
36409630 GCAGCAAAGCTTCTAGTAACAGTA
1 GCAGCAAAACTGCCAGTAACAGTA
36409654 TATGTGGCAA
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 43 1.00
ACGTcount: A:0.37, C:0.20, G:0.22, T:0.21
Consensus pattern (26 bp):
GCAGCAAAACTGCCAGTAACAGTAAT
Found at i:36409674 original size:27 final size:26
Alignment explanation
Indices: 36409590--36409674 Score: 62
Period size: 26 Copynumber: 3.2 Consensus size: 26
36409580 AGCAAAACTG
* * * **
36409590 CCAGTAATAGTGATGCAGCAATGCTG
1 CCAGTAACAGTAATGCAGCAAAGCCA
* **
36409616 CTAGTAACAGTAATGCAGCAAAGCTT
1 CCAGTAACAGTAATGCAGCAAAGCCA
* **
36409642 CTAGTAACAGTATATGTGGCAAAGCCA
1 CCAGTAACAGTA-ATGCAGCAAAGCCA
36409669 CCAGTA
1 CCAGTA
36409675 GAGTATACTT
Statistics
Matches: 48, Mismatches: 10, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
26 33 0.69
27 15 0.31
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.22
Consensus pattern (26 bp):
CCAGTAACAGTAATGCAGCAAAGCCA
Found at i:36409744 original size:32 final size:32
Alignment explanation
Indices: 36409708--36409789 Score: 101
Period size: 36 Copynumber: 2.4 Consensus size: 32
36409698 ATCCCACCCC
36409708 ATGCAGTATGTCATGCCATATAATATACGTGT
1 ATGCAGTATGTCATGCCATATAATATACGTGT
* * *
36409740 ATGCAGTATGTCATACATGTCATATATTATATGTGT
1 ATGCAGTATG---T-CATGCCATATAATATACGTGT
36409776 ATGCAGTATGTCAT
1 ATGCAGTATGTCAT
36409790 ACTCAATAAC
Statistics
Matches: 43, Mismatches: 3, Indels: 8
0.80 0.06 0.15
Matches are distributed among these distances:
32 13 0.30
33 1 0.02
35 1 0.02
36 28 0.65
ACGTcount: A:0.30, C:0.13, G:0.18, T:0.38
Consensus pattern (32 bp):
ATGCAGTATGTCATGCCATATAATATACGTGT
Found at i:36409755 original size:20 final size:20
Alignment explanation
Indices: 36409732--36409791 Score: 58
Period size: 20 Copynumber: 3.2 Consensus size: 20
36409722 GCCATATAAT
36409732 ATACGTGTATGCAGTATGTC
1 ATACGTGTATGCAGTATGTC
*
36409752 ATACATGTCAT--A-TAT-T-
1 ATACGTGT-ATGCAGTATGTC
*
36409768 ATATGTGTATGCAGTATGTC
1 ATACGTGTATGCAGTATGTC
36409788 ATAC
1 ATAC
36409792 TCAATAACAG
Statistics
Matches: 30, Mismatches: 4, Indels: 12
0.65 0.09 0.26
Matches are distributed among these distances:
15 2 0.07
16 6 0.20
17 2 0.07
18 6 0.20
19 2 0.07
20 10 0.33
21 2 0.07
ACGTcount: A:0.30, C:0.13, G:0.18, T:0.38
Consensus pattern (20 bp):
ATACGTGTATGCAGTATGTC
Found at i:36409776 original size:36 final size:36
Alignment explanation
Indices: 36409719--36409791 Score: 119
Period size: 36 Copynumber: 2.0 Consensus size: 36
36409709 TGCAGTATGT
36409719 CATGCCATATAATATACGTGTATGCAGTATGTCATA
1 CATGCCATATAATATACGTGTATGCAGTATGTCATA
* * *
36409755 CATGTCATATATTATATGTGTATGCAGTATGTCATA
1 CATGCCATATAATATACGTGTATGCAGTATGTCATA
36409791 C
1 C
36409792 TCAATAACAG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.32, C:0.15, G:0.16, T:0.37
Consensus pattern (36 bp):
CATGCCATATAATATACGTGTATGCAGTATGTCATA
Found at i:36409912 original size:27 final size:27
Alignment explanation
Indices: 36409868--36409956 Score: 144
Period size: 27 Copynumber: 3.3 Consensus size: 27
36409858 TATAACAGTT
* *
36409868 ATTTTACCCTTTGAGGGTAATTC-AGTC
1 ATTTTACCCTTCGGGGGTAATTCGA-TC
36409895 ATTTTACCCTTCGGGGGTAATTCGATC
1 ATTTTACCCTTCGGGGGTAATTCGATC
36409922 ATTTTACCCTTCGGGGGTAATTCGATC
1 ATTTTACCCTTCGGGGGTAATTCGATC
36409949 ATTTTACC
1 ATTTTACC
36409957 ATGATTCGCA
Statistics
Matches: 59, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
27 58 0.98
28 1 0.02
ACGTcount: A:0.20, C:0.21, G:0.19, T:0.39
Consensus pattern (27 bp):
ATTTTACCCTTCGGGGGTAATTCGATC
Found at i:36411451 original size:14 final size:14
Alignment explanation
Indices: 36411432--36411462 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
36411422 TGATTGTTTT
*
36411432 TAATCTAAATTTAC
1 TAATCTAAATTAAC
36411446 TAATCTAAATTAAC
1 TAATCTAAATTAAC
36411460 TAA
1 TAA
36411463 GAATACAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.48, C:0.13, G:0.00, T:0.39
Consensus pattern (14 bp):
TAATCTAAATTAAC
Found at i:36412864 original size:15 final size:16
Alignment explanation
Indices: 36412840--36412873 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
36412830 CACTGTATTA
36412840 TATTTAATATT-AAAT
1 TATTTAATATTAAAAT
*
36412855 TATTTTATATTAAAAT
1 TATTTAATATTAAAAT
36412871 TAT
1 TAT
36412874 ACAAGTAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
TATTTAATATTAAAAT
Found at i:36413808 original size:12 final size:13
Alignment explanation
Indices: 36413784--36413813 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
36413774 ACTTCTTCAA
36413784 TTCTCTCTCAAAT
1 TTCTCTCTCAAAT
36413797 TTCTCTCT-AAAT
1 TTCTCTCTCAAAT
36413809 TTCTC
1 TTCTC
36413814 AAAGCTCTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.53
13 8 0.47
ACGTcount: A:0.20, C:0.30, G:0.00, T:0.50
Consensus pattern (13 bp):
TTCTCTCTCAAAT
Found at i:36422385 original size:24 final size:23
Alignment explanation
Indices: 36422334--36422386 Score: 61
Period size: 24 Copynumber: 2.3 Consensus size: 23
36422324 TGATATATAT
*
36422334 ATATATTTAAATTACAAACGCAA
1 ATATAATTAAATTACAAACGCAA
* * *
36422357 TTATAATTACAATTACAAAGGTAA
1 ATATAATTA-AATTACAAACGCAA
36422381 ATATAA
1 ATATAA
36422387 AAAATGCATA
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
23 7 0.29
24 17 0.71
ACGTcount: A:0.53, C:0.09, G:0.06, T:0.32
Consensus pattern (23 bp):
ATATAATTAAATTACAAACGCAA
Found at i:36422487 original size:16 final size:18
Alignment explanation
Indices: 36422466--36422504 Score: 64
Period size: 16 Copynumber: 2.3 Consensus size: 18
36422456 AATTATCTTG
36422466 ATTTAAACT-AAAA-TAA
1 ATTTAAACTAAAAATTAA
36422482 ATTTAAACTAAAAATTAA
1 ATTTAAACTAAAAATTAA
36422500 ATTTA
1 ATTTA
36422505 TTATTATACA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 9 0.43
17 4 0.19
18 8 0.38
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (18 bp):
ATTTAAACTAAAAATTAA
Found at i:36423277 original size:15 final size:17
Alignment explanation
Indices: 36423257--36423291 Score: 56
Period size: 15 Copynumber: 2.2 Consensus size: 17
36423247 ATTGCTTCTC
36423257 TTCTTTTTT-C-TTTTT
1 TTCTTTTTTACATTTTT
36423272 TTCTTTTTTACATTTTT
1 TTCTTTTTTACATTTTT
36423289 TTC
1 TTC
36423292 CCACATCTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 9 0.50
16 1 0.06
17 8 0.44
ACGTcount: A:0.06, C:0.14, G:0.00, T:0.80
Consensus pattern (17 bp):
TTCTTTTTTACATTTTT
Found at i:36426196 original size:15 final size:16
Alignment explanation
Indices: 36426172--36426205 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
36426162 CACCGTATTA
36426172 TATTTAATATT-AAAT
1 TATTTAATATTAAAAT
*
36426187 TATTTTATATTAAAAT
1 TATTTAATATTAAAAT
36426203 TAT
1 TAT
36426206 ATAAGTAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
TATTTAATATTAAAAT
Found at i:36428512 original size:14 final size:14
Alignment explanation
Indices: 36428493--36428523 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
36428483 TGATTATTGT
*
36428493 TAATCTAAATTTAC
1 TAATCTAAATTAAC
36428507 TAATCTAAATTAAC
1 TAATCTAAATTAAC
36428521 TAA
1 TAA
36428524 GTACGCTACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.48, C:0.13, G:0.00, T:0.39
Consensus pattern (14 bp):
TAATCTAAATTAAC
Found at i:36430182 original size:12 final size:11
Alignment explanation
Indices: 36430139--36430185 Score: 67
Period size: 11 Copynumber: 4.2 Consensus size: 11
36430129 ACACATTATT
*
36430139 TCTCAAGTTTC
1 TCTCAAATTTC
36430150 TCTCAAATTTC
1 TCTCAAATTTC
*
36430161 TGTCAAATTTC
1 TCTCAAATTTC
36430172 TCTCTAAATTTC
1 TCTC-AAATTTC
36430184 TC
1 TC
36430186 AAAGCTCTCT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
11 23 0.72
12 9 0.28
ACGTcount: A:0.23, C:0.26, G:0.04, T:0.47
Consensus pattern (11 bp):
TCTCAAATTTC
Found at i:36430422 original size:25 final size:24
Alignment explanation
Indices: 36430371--36430421 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
36430361 TTCAATATTA
* *
36430371 TTTAATACTTTTTATTTATGTAAT
1 TTTAATAATTTTTATTTATATAAT
36430395 TTTAATTAATTTTTATTT-TATAAT
1 TTTAA-TAATTTTTATTTATATAAT
36430419 TTT
1 TTT
36430422 TTATATTAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 13 0.54
25 11 0.46
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (24 bp):
TTTAATAATTTTTATTTATATAAT
Found at i:36431149 original size:28 final size:28
Alignment explanation
Indices: 36431118--36431172 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
36431108 TGAGTGGGCC
36431118 ACACGAGCATGCGGGCCCACACGGGCAT
1 ACACGAGCATGCGGGCCCACACGGGCAT
* * *
36431146 ACACGGGCGTGTGGGCCCACACGGGCA
1 ACACGAGCATGCGGGCCCACACGGGCA
36431173 CAGACGAATG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.22, C:0.35, G:0.36, T:0.07
Consensus pattern (28 bp):
ACACGAGCATGCGGGCCCACACGGGCAT
Found at i:36431185 original size:28 final size:28
Alignment explanation
Indices: 36431113--36431190 Score: 68
Period size: 28 Copynumber: 2.8 Consensus size: 28
36431103 TGGGCTGAGT
* * *
36431113 GGGC-CACACGAGCATGCGGGCCCACAC
1 GGGCACACACGAACGTGTGGGCCCACAC
* **
36431140 GGGCATACACGGGCGTGTGGGCCCACAC
1 GGGCACACACGAACGTGTGGGCCCACAC
* * *
36431168 GGGCACAGACGAATGTGTAGGCC
1 GGGCACACACGAACGTGTGGGCC
36431191 TATTTTTACA
Statistics
Matches: 40, Mismatches: 10, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
27 4 0.10
28 36 0.90
ACGTcount: A:0.22, C:0.32, G:0.37, T:0.09
Consensus pattern (28 bp):
GGGCACACACGAACGTGTGGGCCCACAC
Found at i:36435341 original size:94 final size:93
Alignment explanation
Indices: 36435180--36435375 Score: 320
Period size: 94 Copynumber: 2.1 Consensus size: 93
36435170 AACATTGATT
* *
36435180 TTTTTAATATATTTTTACAAAATGTTTTTATATTATTTCATTTAATAAAATAAAAGTTGTTTTTA
1 TTTTTAATATATTTGTACAAAATGTTTTTATATTATTTCATTTAATAAAATAAAAGTTGTGTTTA
*
36435245 ATATTTTAATAATAATTTATTTTTTTATA
66 ATATTTTAATAATAATTTA-TATTTTATA
* * *
36435274 TTTTTAATATATTTGTACACACTGTTTTTATATTATTTTATTTAATAAAATAAAAGTTGTGTTTA
1 TTTTTAATATATTTGTACAAAATGTTTTTATATTATTTCATTTAATAAAATAAAAGTTGTGTTTA
*
36435339 ATATTTTAATAGTAATTTATATTTTATA
66 ATATTTTAATAATAATTTATATTTTATA
36435367 TTTTTAATA
1 TTTTTAATA
36435376 AAATAGAAGT
Statistics
Matches: 95, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
93 17 0.18
94 78 0.82
ACGTcount: A:0.36, C:0.03, G:0.05, T:0.57
Consensus pattern (93 bp):
TTTTTAATATATTTGTACAAAATGTTTTTATATTATTTCATTTAATAAAATAAAAGTTGTGTTTA
ATATTTTAATAATAATTTATATTTTATA
Found at i:36437134 original size:38 final size:39
Alignment explanation
Indices: 36437055--36437134 Score: 117
Period size: 41 Copynumber: 2.0 Consensus size: 39
36437045 GTGTGGTGGG
*
36437055 GGAGTGTTGGAGTGATTTTAGGAGGAAAAAAATATGAGATT
1 GGAGTGTTGGAGTGATTTTAGAAGG--AAAAATATGAGATT
*
36437096 GGAGTGTTGGAGTGATTTTAGAAGG-AAAATATGGGATT
1 GGAGTGTTGGAGTGATTTTAGAAGGAAAAATATGAGATT
36437134 G
1 G
36437135 TGGAGTTATC
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
38 13 0.35
41 24 0.65
ACGTcount: A:0.34, C:0.00, G:0.36, T:0.30
Consensus pattern (39 bp):
GGAGTGTTGGAGTGATTTTAGAAGGAAAAATATGAGATT
Found at i:36437750 original size:18 final size:18
Alignment explanation
Indices: 36437727--36437761 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
36437717 CCCAGCCGTC
36437727 TTCTCATTTCTTTCTCAT
1 TTCTCATTTCTTTCTCAT
36437745 TTCTCATTTCTTTCTCA
1 TTCTCATTTCTTTCTCA
36437762 CGTCTGAAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.11, C:0.29, G:0.00, T:0.60
Consensus pattern (18 bp):
TTCTCATTTCTTTCTCAT
Found at i:36440317 original size:61 final size:61
Alignment explanation
Indices: 36440244--36440437 Score: 191
Period size: 61 Copynumber: 3.2 Consensus size: 61
36440234 TTATACTATT
*
36440244 ATATATTATAATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATC
1 ATATATTATAATTTAAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATC
* * * * * * * *
36440305 ATATATTTTAATTAAAATATATTTA-ATAATAATTATGTTAA-ATT-A-TATTTTA-TAGTATC
1 ATATATTATAATTTAAGTAAATTCATATAAGAA-TAT-TTAATATTAAGAATTTTATTA-AATC
* * * * *
36440364 ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
1 ATATATTATAATTTAAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATC
*
36440425 ATATATTTTAATT
1 ATATATTATAATT
36440438 AAAATATATT
Statistics
Matches: 101, Mismatches: 24, Indels: 16
0.72 0.17 0.11
Matches are distributed among these distances:
58 4 0.04
59 33 0.33
60 14 0.14
61 44 0.44
62 6 0.06
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.48
Consensus pattern (61 bp):
ATATATTATAATTTAAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATC
Found at i:36440356 original size:120 final size:120
Alignment explanation
Indices: 36440202--36440468 Score: 453
Period size: 120 Copynumber: 2.2 Consensus size: 120
36440192 AAAAATTGAT
* * *
36440202 TATATTTAATAATAATTATGTTATATTATATTTTATACTATTATATATTATAATTTTAGTAAATT
1 TATATTTAATAATAATTATGTTAAATTATATTTTATACTATCATATATTATAATTTGAGTAAATT
*
36440267 CATATAAGAATATTTAATATTAAGAATTTTATTAAATCATATATTTTAATTAAAA
66 CATATAAGAATATTGAATATTAAGAATTTTATTAAATCATATATTTTAATTAAAA
* *
36440322 TATATTTAATAATAATTATGTTAAATTATATTTTATAGTATCATATATTATGATTTGAGTAAATT
1 TATATTTAATAATAATTATGTTAAATTATATTTTATACTATCATATATTATAATTTGAGTAAATT
* *
36440387 CATATAAGAATATTGATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAA
66 CATATAAGAATATTGAATATTAAGAATTTTATTAAATCATATATTTTAATTAAAA
36440442 TATATTTAATAATAATTATGTTTAAAT
1 TATATTTAATAATAATTATG-TTAAAT
36440469 ATGATTAAAT
Statistics
Matches: 138, Mismatches: 8, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
120 132 0.96
121 6 0.04
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (120 bp):
TATATTTAATAATAATTATGTTAAATTATATTTTATACTATCATATATTATAATTTGAGTAAATT
CATATAAGAATATTGAATATTAAGAATTTTATTAAATCATATATTTTAATTAAAA
Found at i:36440440 original size:18 final size:17
Alignment explanation
Indices: 36440412--36440446 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
36440402 ATTATTAAGA
*
36440412 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
36440429 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
36440447 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:36440675 original size:44 final size:45
Alignment explanation
Indices: 36440610--36440700 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
36440600 ACCTCTATTC
* * *
36440610 CATTCAACCAAACACAAGATTA-CTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
***
36440654 CATTCAACCAAACAGTGGATTAGCTATTACACCTCTAATCCAATA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
36440699 CA
1 CA
36440701 CCTCTAATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.37, C:0.29, G:0.07, T:0.27
Consensus pattern (45 bp):
CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
Found at i:36440702 original size:16 final size:16
Alignment explanation
Indices: 36440681--36440749 Score: 129
Period size: 16 Copynumber: 4.2 Consensus size: 16
36440671 GATTAGCTAT
36440681 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
36440697 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
36440714 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
36440730 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
36440746 TACA
1 TACA
36440750 GCGAACCAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
16 36 0.69
17 16 0.31
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:36440723 original size:33 final size:32
Alignment explanation
Indices: 36440681--36440749 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 32
36440671 GATTAGCTAT
36440681 TACACCTCTAATCCAATACACCTCTAATCCCAA
1 TACACCTCTAATCCAATACACCTCTAAT-CCAA
36440714 TACACCTCTAATCCAATACACCTCTAATCCAA
1 TACACCTCTAATCCAATACACCTCTAATCCAA
36440746 TACA
1 TACA
36440750 GCGAACCAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 8 0.22
33 28 0.78
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.25
Consensus pattern (32 bp):
TACACCTCTAATCCAATACACCTCTAATCCAA
Found at i:36451974 original size:14 final size:14
Alignment explanation
Indices: 36451955--36451985 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
36451945 CTACTAAACT
36451955 AAATAAATGTTTTA
1 AAATAAATGTTTTA
36451969 AAATAAATGTTTTA
1 AAATAAATGTTTTA
36451983 AAA
1 AAA
36451986 ATTTTCAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.39
Consensus pattern (14 bp):
AAATAAATGTTTTA
Found at i:36455778 original size:17 final size:18
Alignment explanation
Indices: 36455746--36455780 Score: 54
Period size: 17 Copynumber: 1.9 Consensus size: 18
36455736 TGTGGTCAGC
36455746 CCGTGTGGAAATGCTCAAG
1 CCGTGTGG-AATGCTCAAG
36455765 CCGTGTGG-ATGCTCAA
1 CCGTGTGGAATGCTCAA
36455781 AATAACTCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.50
19 8 0.50
ACGTcount: A:0.23, C:0.23, G:0.31, T:0.23
Consensus pattern (18 bp):
CCGTGTGGAATGCTCAAG
Found at i:36459211 original size:3 final size:3
Alignment explanation
Indices: 36459193--36459291 Score: 51
Period size: 3 Copynumber: 33.0 Consensus size: 3
36459183 AGAAACATTT
* * * *
36459193 TAA TAA AAA GAA TAA TAA TAA CAA TAA TAA CAA TAA TAA -AA TAGA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A
* ** * ** *
36459238 AAA TAA CGA GAA TGC TAA TAA AAA TAA TAA TAA TAAA TAAA TAA -AA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA T-AA TAA TAA
36459284 TAA -AA TAA
1 TAA TAA TAA
36459292 ACAATGAAAA
Statistics
Matches: 71, Mismatches: 20, Indels: 10
0.70 0.20 0.10
Matches are distributed among these distances:
2 6 0.08
3 56 0.79
4 9 0.13
ACGTcount: A:0.69, C:0.04, G:0.05, T:0.22
Consensus pattern (3 bp):
TAA
Found at i:36459289 original size:14 final size:15
Alignment explanation
Indices: 36459253--36459292 Score: 50
Period size: 14 Copynumber: 2.8 Consensus size: 15
36459243 ACGAGAATGC
36459253 TAATAAAA-ATAATAA
1 TAATAAAATA-AATAA
36459268 TAAT-AAATAAATAA
1 TAATAAAATAAATAA
36459282 -AATAAAATAAA
1 TAATAAAATAAA
36459293 CAATGAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
13 3 0.13
14 15 0.65
15 5 0.22
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (15 bp):
TAATAAAATAAATAA
Found at i:36464842 original size:15 final size:16
Alignment explanation
Indices: 36464822--36464856 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
36464812 ACACCGTATT
36464822 TTATTTAATATT-AAA
1 TTATTTAATATTAAAA
*
36464837 TTATTTTATATTAAAA
1 TTATTTAATATTAAAA
36464853 TTAT
1 TTAT
36464857 ATAAGTAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 11 0.61
16 7 0.39
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
TTATTTAATATTAAAA
Found at i:36466006 original size:28 final size:28
Alignment explanation
Indices: 36465970--36466027 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 28
36465960 TAAAGATTAA
*
36465970 TTTTAATTT-T-TAAATATTATTTAATATT
1 TTTTAATTTATGTAAAT-TTAATT-ATATT
*
36465998 TTTTCATTTATGTAAATTTAATTATATT
1 TTTTAATTTATGTAAATTTAATTATATT
36466026 TT
1 TT
36466028 ATTTTATAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
28 15 0.58
29 6 0.23
30 5 0.19
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.64
Consensus pattern (28 bp):
TTTTAATTTATGTAAATTTAATTATATT
Found at i:36467576 original size:18 final size:18
Alignment explanation
Indices: 36467553--36467596 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
36467543 TGCCAGGTGC
*
36467553 GTATCCTTGCCCTTATAT
1 GTATCCTTACCCTTATAT
*
36467571 GTATCCTAACCCTTATAT
1 GTATCCTTACCCTTATAT
36467589 GTATCCTT
1 GTATCCTT
36467597 TTCCCAGTCC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.20, C:0.27, G:0.09, T:0.43
Consensus pattern (18 bp):
GTATCCTTACCCTTATAT
Found at i:36468095 original size:93 final size:93
Alignment explanation
Indices: 36467959--36468153 Score: 336
Period size: 93 Copynumber: 2.1 Consensus size: 93
36467949 ACATTGATAT
* * *
36467959 TTTTTAATATGTTTGTACAAAATGTTTTTATATTGTTTAATTTAATAAAATAAAAGTTGTTTTTA
1 TTTTTAATATATTTGTACAAAATGTTTTTATATTATTTAATTTAATAAAATAAAAGTTCTTTTTA
*
36468024 ATATTTTAATAGTAATTTATTTTTTATA
66 ATATTTTAATAGTAATTTATATTTTATA
* *
36468052 TTTTTAATATATTTGTACAAACTGTTTTTATATTATTTCATTTAATAAAATAAAAGTTCTTTTTA
1 TTTTTAATATATTTGTACAAAATGTTTTTATATTATTTAATTTAATAAAATAAAAGTTCTTTTTA
36468117 ATATTTTAATAGTAATTTATATTTTATA
66 ATATTTTAATAGTAATTTATATTTTATA
36468145 TTTTTAATA
1 TTTTTAATA
36468154 AAATAGGAGT
Statistics
Matches: 96, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 96 1.00
ACGTcount: A:0.36, C:0.03, G:0.06, T:0.56
Consensus pattern (93 bp):
TTTTTAATATATTTGTACAAAATGTTTTTATATTATTTAATTTAATAAAATAAAAGTTCTTTTTA
ATATTTTAATAGTAATTTATATTTTATA
Found at i:36468156 original size:55 final size:55
Alignment explanation
Indices: 36468092--36468213 Score: 149
Period size: 55 Copynumber: 2.2 Consensus size: 55
36468082 TATTATTTCA
****
36468092 TTTAATAAAATAAAAGTTCTTTTTAATATTTTAATAGTAATTT-ATA-TTTTATATT
1 TTTAATAAAATAAAAGTTCTTTTTAATAAGACAATA-T-ATTTAATATTTTTATATT
** *
36468147 TTTAATAAAATAGGAGTTCTTTTTAATAAGACAATATTTTTAATATTTTTATATT
1 TTTAATAAAATAAAAGTTCTTTTTAATAAGACAATATATTTAATATTTTTATATT
36468202 TTTAATAAAATA
1 TTTAATAAAATA
36468214 GAAATAATGC
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
53 3 0.05
54 4 0.07
55 51 0.88
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.52
Consensus pattern (55 bp):
TTTAATAAAATAAAAGTTCTTTTTAATAAGACAATATATTTAATATTTTTATATT
Found at i:36468195 original size:8 final size:9
Alignment explanation
Indices: 36468179--36468208 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
36468169 TTAATAAGAC
36468179 AATATTTTT
1 AATATTTTT
36468188 AATATTTTT
1 AATATTTTT
36468197 -ATATTTTT
1 AATATTTTT
36468205 AATA
1 AATA
36468209 AAATAGAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 8 0.40
9 12 0.60
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (9 bp):
AATATTTTT
Found at i:36474396 original size:15 final size:15
Alignment explanation
Indices: 36474376--36474420 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
36474366 TGAAAGAAGG
36474376 GAAGAAAATAAAATA
1 GAAGAAAATAAAATA
* *
36474391 GAAGAAAATGAAAGA
1 GAAGAAAATAAAATA
* *
36474406 AAATAAAATAAAATA
1 GAAGAAAATAAAATA
36474421 TAAACATGTC
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.73, C:0.00, G:0.13, T:0.13
Consensus pattern (15 bp):
GAAGAAAATAAAATA
Found at i:36477951 original size:24 final size:24
Alignment explanation
Indices: 36477924--36477972 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
36477914 AAAACCTCGT
36477924 GGTAAGGAATTCAAACACTGTTTA
1 GGTAAGGAATTCAAACACTGTTTA
36477948 GGTAAGGAATTCAAACACTGTTTA
1 GGTAAGGAATTCAAACACTGTTTA
36477972 G
1 G
36477973 TTTTGTTTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.37, C:0.12, G:0.22, T:0.29
Consensus pattern (24 bp):
GGTAAGGAATTCAAACACTGTTTA
Found at i:36482424 original size:14 final size:15
Alignment explanation
Indices: 36482405--36482436 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
36482395 TACTAAACTT
36482405 AATAAATGTTTTA-A
1 AATAAATGTTTTACA
36482419 AATAAATGTTTTACA
1 AATAAATGTTTTACA
36482434 AAT
1 AAT
36482437 TTTCGATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 13 0.76
15 4 0.24
ACGTcount: A:0.50, C:0.03, G:0.06, T:0.41
Consensus pattern (15 bp):
AATAAATGTTTTACA
Found at i:36482738 original size:18 final size:17
Alignment explanation
Indices: 36482710--36482744 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
36482700 CACCAAAAGA
36482710 AATTTTAATTTTATATT
1 AATTTTAATTTTATATT
36482727 AATTTATAATTTTATATT
1 AATTT-TAATTTTATATT
36482745 TTATTTTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (17 bp):
AATTTTAATTTTATATT
Found at i:36482764 original size:25 final size:24
Alignment explanation
Indices: 36482711--36482767 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 24
36482701 ACCAAAAGAA
36482711 ATTTTA-ATTTTATATTAATTTAT
1 ATTTTATATTTTATATTAATTTAT
*
36482734 AATTTTATATTTTATTTTATTATTTAT
1 -ATTTTATATTTTATATTA--ATTTAT
36482761 -TTTTATA
1 ATTTTATA
36482768 ATGATTTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
24 6 0.21
25 17 0.59
27 6 0.21
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (24 bp):
ATTTTATATTTTATATTAATTTAT
Found at i:36483026 original size:24 final size:23
Alignment explanation
Indices: 36482975--36483027 Score: 61
Period size: 24 Copynumber: 2.3 Consensus size: 23
36482965 TTAATTTGAT
*
36482975 ATATATTTAAATTACAAACGCAA
1 ATATAATTAAATTACAAACGCAA
* * *
36482998 TTATAATTACAATTACAAAGGTAA
1 ATATAATTA-AATTACAAACGCAA
36483022 ATATAA
1 ATATAA
36483028 AAAATGCATA
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
23 7 0.29
24 17 0.71
ACGTcount: A:0.53, C:0.09, G:0.06, T:0.32
Consensus pattern (23 bp):
ATATAATTAAATTACAAACGCAA
Found at i:36483128 original size:16 final size:18
Alignment explanation
Indices: 36483107--36483145 Score: 55
Period size: 16 Copynumber: 2.3 Consensus size: 18
36483097 AATTATCTTG
*
36483107 ATTTAAAC-TAAAA-TAA
1 ATTTAAACGAAAAATTAA
36483123 ATTTAAACGAAAAATTAA
1 ATTTAAACGAAAAATTAA
36483141 ATTTA
1 ATTTA
36483146 TTATTATACG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 8 0.40
17 4 0.20
18 8 0.40
ACGTcount: A:0.59, C:0.05, G:0.03, T:0.33
Consensus pattern (18 bp):
ATTTAAACGAAAAATTAA
Found at i:36489619 original size:31 final size:31
Alignment explanation
Indices: 36489556--36489667 Score: 106
Period size: 31 Copynumber: 3.7 Consensus size: 31
36489546 TGACTAAATT
* * *
36489556 AAAATTAAAGTTTCAAGTATACATTTGAACC
1 AAAATTAAAGTTTCATGTATACAATTGCACC
* * *
36489587 AAAATTAGAGTTTCATGTGTATAATTGCACC
1 AAAATTAAAGTTTCATGTATACAATTGCACC
*
36489618 -AAATTACAG-TTCATGTATACAATTGCA-C
1 AAAATTAAAGTTTCATGTATACAATTGCACC
*
36489646 ATTAAATCAAAGTTT-ATGTATA
1 A--AAATTAAAGTTTCATGTATA
36489668 ATTTTGAGAT
Statistics
Matches: 66, Mismatches: 11, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
28 1 0.02
29 16 0.24
30 8 0.12
31 39 0.59
32 2 0.03
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.35
Consensus pattern (31 bp):
AAAATTAAAGTTTCATGTATACAATTGCACC
Found at i:36493509 original size:44 final size:44
Alignment explanation
Indices: 36493461--36494078 Score: 229
Period size: 44 Copynumber: 13.8 Consensus size: 44
36493451 TTTTGGTTTC
* *
36493461 AATCTACTCCACTACAACTCTAGAGAGATAAGACTTGTAGCTTT
1 AATCTACTCCACTGCAACTCTAGAGAGATAAGATTTGTAGCTTT
** * * * *
36493505 AATCTGTTCTACTGTAACT-TCAGGGAGATAAGATTTGTAGTTTGTAGTTTT
1 AATCTACTCCACTGCAACTCT-AGAGAGAT-A-A---G-A-TTTGTAGCTTT
* * * *
36493556 AATCTACTCTACTACAACT-TCAAAGAGATAAGATTTGT-GGTCTT
1 AATCTACTCCACTGCAACTCT-AGAGAGATAAGATTTGTAGCT-TT
* * * * * * * * * *
36493600 AATTTGCCCCTCTGTAATTTTA-AGGAAATAAGACTAGTAGCTTT
1 AATCTACTCCACTGCAACTCTAGA-GAGATAAGATTTGTAGCTTT
* * * * * * *
36493644 AATTTGCTCTACTGCAACTTTAAAGAGATAAGATTTGTGGCATT
1 AATCTACTCCACTGCAACTCTAGAGAGATAAGATTTGTAGCTTT
* * * * * * *
36493688 AATTTGCTCCACTGCAATTTCAATA-AAATAAGACTTGTAGCTTT
1 AATCTACTCCACTGCAA-CTCTAGAGAGATAAGATTTGTAGCTTT
* ** * * * *
36493732 AATTTTTTCCACTGTAACTTTAGGGAGATAAGATTTGTAGCTTC
1 AATCTACTCCACTGCAACTCTAGAGAGATAAGATTTGTAGCTTT
* * *
36493776 AATCTACT-CATCTACAACTCTAGGGAGATAAGATTTGCTATCTTT
1 AATCTACTCCA-CTGCAACTCTAGAGAGATAAGATTTG-TAGCTTT
* * * * * *
36493821 AATCTACTCCACTGCAACT-TCAGGGGGATAAGGTTTACTATCTTC
1 AATCTACTCCACTGCAACTCT-AGAGAGATAAGATTT-GTAGCTTT
* * * * *
36493866 AATCTGCTCCACT-CTAACT-TCAGGGAAATAATATTTGTAGCTTC
1 AATCTACTCCACTGC-AACTCT-AGAGAGATAAGATTTGTAGCTTT
* * * * * **
36493910 AATCTAATCCATTACAACT-TCAGGGAAATAAGATTTGTAGCTCC
1 AATCTACTCCACTGCAACTCT-AGAGAGATAAGATTTGTAGCTTT
* * * *
36493954 AATATTCTCCACTGCAACT-TCAGGGAGATAACATTTGTAGCTTT
1 AATCTACTCCACTGCAACTCT-AGAGAGATAAGATTTGTAGCTTT
* * * * *
36493998 AATTCGA-TCCACTGTAACT-TCAGGGATATGAGATTTGTAGC-TT
1 AA-TCTACTCCACTGCAACTCT-AGAGAGATAAGATTTGTAGCTTT
* * * * *
36494041 CATCTTGCTCCACTGCATCTTTAGGGAGATAAGATTTG
1 AATC-TACTCCACTGCAACTCTAGAGAGATAAGATTTG
36494079 CTATATTCAA
Statistics
Matches: 443, Mismatches: 105, Indels: 52
0.74 0.17 0.09
Matches are distributed among these distances:
42 2 0.00
43 11 0.02
44 310 0.70
45 80 0.18
46 4 0.01
49 2 0.00
50 2 0.00
51 32 0.07
ACGTcount: A:0.30, C:0.18, G:0.16, T:0.35
Consensus pattern (44 bp):
AATCTACTCCACTGCAACTCTAGAGAGATAAGATTTGTAGCTTT
Found at i:36493557 original size:51 final size:51
Alignment explanation
Indices: 36493495--36493593 Score: 135
Period size: 51 Copynumber: 1.9 Consensus size: 51
36493485 GAGATAAGAC
** ** **
36493495 TTGTAGCTTTAATCTGTTCTACTGTAACTTCAGGGAGATAAGATTTGTAGT
1 TTGTAGCTTTAATCTACTCTACTACAACTTCAAAGAGATAAGATTTGTAGT
*
36493546 TTGTAGTTTTAATCTACTCTACTACAACTTCAAAGAGATAAGATTTGT
1 TTGTAGCTTTAATCTACTCTACTACAACTTCAAAGAGATAAGATTTGT
36493594 GGTCTTAATT
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
51 41 1.00
ACGTcount: A:0.29, C:0.13, G:0.17, T:0.40
Consensus pattern (51 bp):
TTGTAGCTTTAATCTACTCTACTACAACTTCAAAGAGATAAGATTTGTAGT
Found at i:36493707 original size:88 final size:88
Alignment explanation
Indices: 36493548--36493769 Score: 266
Period size: 88 Copynumber: 2.5 Consensus size: 88
36493538 TTTGTAGTTT
* * * * *
36493548 GTAGTTTTAATCTACTCTACTACAACTTCAAAGAGATAAGATTTGTGGTCTTAATTTGCCCCTCT
1 GTAGCTTTAATTTACTCTACTGCAACTTTAAAGAGATAAGATTTGTGGTCTTAATTTGCCCCACT
* * *
36493613 GTAATTTTAAGGAAATAAGACTA
66 GCAATTTCAAGAAAATAAGACTA
* *
36493636 GTAGCTTTAATTTGCTCTACTGCAACTTTAAAGAGATAAGATTTGTGG-CATTAATTTGCTCCAC
1 GTAGCTTTAATTTACTCTACTGCAACTTTAAAGAGATAAGATTTGTGGTC-TTAATTTGCCCCAC
* *
36493700 TGCAATTTCAATAAAATAAGACTT
65 TGCAATTTCAAGAAAATAAGACTA
** * * **
36493724 GTAGCTTTAATTTTTTCCACTGTAACTTTAGGGAGATAAGATTTGT
1 GTAGCTTTAATTTACTCTACTGCAACTTTAAAGAGATAAGATTTGT
36493770 AGCTTCAATC
Statistics
Matches: 115, Mismatches: 18, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
87 1 0.01
88 114 0.99
ACGTcount: A:0.32, C:0.15, G:0.16, T:0.38
Consensus pattern (88 bp):
GTAGCTTTAATTTACTCTACTGCAACTTTAAAGAGATAAGATTTGTGGTCTTAATTTGCCCCACT
GCAATTTCAAGAAAATAAGACTA
Found at i:36493807 original size:88 final size:87
Alignment explanation
Indices: 36493715--36494078 Score: 340
Period size: 88 Copynumber: 4.1 Consensus size: 87
36493705 TTTCAATAAA
* * ** * *
36493715 ATAAGACTTGTAGCTTTAATTTTTTCCACTGTAACTTTAGGGAGATAAGATTTGTAGCTTCAATC
1 ATAAGATTTGTAGCTTTAATCTAATCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATC
36493780 TACT-CATCTACAAC-TCTAGGGAG
66 TACTCCA-CT-CAACTTC-AGGGAG
* * * * * *
36493803 ATAAGATTTGCTATCTTTAATCTACTCCACTGCAACTTCAGGGGGATAAGGTTTACTATCTTCAA
1 ATAAGATTTG-TAGCTTTAATCTAATCCACTGCAACTTCAGGGAGATAAGATTT-GTAGCTTCAA
* *
36493868 TCTGCTCCACTCTAACTTCAGGGAA
64 TCTACTCCACTC-AACTTCAGGGAG
* * * * * * *
36493893 ATAATATTTGTAGCTTCAATCTAATCCATTACAACTTCAGGGAAATAAGATTTGTAGCTCCAATA
1 ATAAGATTTGTAGCTTTAATCTAATCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATC
*
36493958 TTCTCCACTGCAACTTCAGGGAG
66 TACTCCACT-CAACTTCAGGGAG
* * * * *
36493981 ATAACATTTGTAGCTTTAAT-TCGATCCACTGTAACTTCAGGGATATGAGATTTGTAGCTTC-AT
1 ATAAGATTTGTAGCTTTAATCT-AATCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAAT
* * *
36494044 CTTGCTCCACTGCATCTTTAGGGAG
65 C-TACTCCACT-CAACTTCAGGGAG
36494069 ATAAGATTTG
1 ATAAGATTTG
36494079 CTATATTCAA
Statistics
Matches: 226, Mismatches: 42, Indels: 16
0.80 0.15 0.06
Matches are distributed among these distances:
87 3 0.01
88 115 0.51
89 72 0.32
90 32 0.14
91 4 0.02
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.35
Consensus pattern (87 bp):
ATAAGATTTGTAGCTTTAATCTAATCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATC
TACTCCACTCAACTTCAGGGAG
Found at i:36497308 original size:10 final size:10
Alignment explanation
Indices: 36497295--36497328 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
36497285 AGCTCAAATA
36497295 AGCTTGTTTG
1 AGCTTGTTTG
* *
36497305 AGCTCGTTTC
1 AGCTTGTTTG
36497315 AGCTTGTTTG
1 AGCTTGTTTG
36497325 AGCT
1 AGCT
36497329 CATTTTAATT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.12, C:0.18, G:0.26, T:0.44
Consensus pattern (10 bp):
AGCTTGTTTG
Found at i:36503582 original size:19 final size:20
Alignment explanation
Indices: 36503560--36503611 Score: 65
Period size: 19 Copynumber: 2.7 Consensus size: 20
36503550 GGGTCTTTTT
*
36503560 ATGAAATTTAATGCAT-ATG-
1 ATGAAATGTAATGC-TGATGA
36503579 ATGAAATGTAATGCTGATGA
1 ATGAAATGTAATGCTGATGA
36503599 ATGAAATG-AATGC
1 ATGAAATGTAATGC
36503612 AAAAAGAGGC
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
18 1 0.03
19 21 0.70
20 8 0.27
ACGTcount: A:0.42, C:0.06, G:0.21, T:0.31
Consensus pattern (20 bp):
ATGAAATGTAATGCTGATGA
Found at i:36511048 original size:21 final size:21
Alignment explanation
Indices: 36511015--36511055 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
36511005 AGAAAATTAA
** *
36511015 AATGTAATTTTTTATTATTTT
1 AATGTAAAATTTTATAATTTT
36511036 AATGTAAAATTTTATAATTT
1 AATGTAAAATTTTATAATTT
36511056 CTCGAGAGAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.59
Consensus pattern (21 bp):
AATGTAAAATTTTATAATTTT
Found at i:36513549 original size:21 final size:20
Alignment explanation
Indices: 36513516--36513558 Score: 50
Period size: 21 Copynumber: 2.1 Consensus size: 20
36513506 TAAAATACCC
*
36513516 TTTTTTAACATTTTAACTAT
1 TTTTTTAACATTTCAACTAT
* *
36513536 TTTTTTATATATTTCAATTAT
1 TTTTTTA-ACATTTCAACTAT
36513557 TT
1 TT
36513559 ATAATTAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.65
Consensus pattern (20 bp):
TTTTTTAACATTTCAACTAT
Found at i:36516343 original size:31 final size:31
Alignment explanation
Indices: 36516305--36516364 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
36516295 AAACGGTCAC
* *
36516305 TAAACTATTCGAAAGTTTTCATTTAAGTCGT
1 TAAACTATTCAAAAGTTTTCATCTAAGTCGT
*
36516336 TAAACTATTCAAAAGTTTTTATCTAAGTC
1 TAAACTATTCAAAAGTTTTCATCTAAGTC
36516365 ATTGGAATGT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.35, C:0.13, G:0.10, T:0.42
Consensus pattern (31 bp):
TAAACTATTCAAAAGTTTTCATCTAAGTCGT
Found at i:36533274 original size:49 final size:48
Alignment explanation
Indices: 36533220--36533356 Score: 193
Period size: 49 Copynumber: 2.8 Consensus size: 48
36533210 TATTTTCTCG
*
36533220 ATGCCATAGTCCAACTATGGTCTTACATGTAATCACATAACATATACAA
1 ATGCCATAG-CCAACTATGGTCTTACACGTAATCACATAACATATACAA
* * *
36533269 ATGCCATAGCCCATCTATGGTCTTACACGTAATCACAAAACATATACCA
1 ATGCCATAG-CCAACTATGGTCTTACACGTAATCACATAACATATACAA
* *
36533318 ATGCCATAGCCTAGCTATGGTCTTACACGGAATCACATA
1 ATGCCATAGCC-AACTATGGTCTTACACGTAATCACATA
36533357 TAACTTATTG
Statistics
Matches: 79, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
48 2 0.03
49 77 0.97
ACGTcount: A:0.36, C:0.26, G:0.12, T:0.26
Consensus pattern (48 bp):
ATGCCATAGCCAACTATGGTCTTACACGTAATCACATAACATATACAA
Found at i:36540147 original size:44 final size:44
Alignment explanation
Indices: 36540080--36540838 Score: 513
Period size: 44 Copynumber: 16.7 Consensus size: 44
36540070 TCGTCGTGGA
* * * * **
36540080 AAATCTTATCTCCCTAAAATTGCAATGGAGTAGATTAAAGCCAC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATAC
* * **
36540124 AAATCTTATCTCCCTAAAGTTGCAATGGAGCAGATTAAAGCCAC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATAC
* * *
36540168 AAATCTTATCTTCCTGAAGTTACAGTGGAGCAAATTGAAA-ATAGC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAAGATA-C
* * * * *
36540213 AAATCCTAT-TACCCTAAAGTTGTAGTGGAACAAATTAAAGCTACAAGTTAC
1 AAATCTTATCT-CCCTGAAGTTGCAGTGGAGCAGATTAAAG-----A--TAC
* * * * * *
36540264 AAATCTTATCTCTCTGACGTTGCAGTAGAGTAGATTGAAGTTAC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATAC
* * **
36540308 AAATCTTATCTCCTTGAAGTTGCAGTGAAGCAGATTAAAGCCAC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATAC
* * *
36540352 AAATCTTATCTCCCTGAAGTTGCAGTTGAGCAGAATGAAGATAGC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATA-C
* ** * **
36540397 AAATCGTATCTTTCTGAAGTTGCAATAAAGCAGATTAAAG-TCAC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGAT-AC
* * * *
36540441 AAATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAATATAGT
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATA-C
* * * * * * * *
36540486 GAATCGTATCTCACTGAAGTTGTAGTAGAGCAGATTGAAGCTAA
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATAC
36540530 AAATCTTATCTCCCT-AGAGTTGCAGTGGAGCAGATTAAAGATA-
1 AAATCTTATCTCCCTGA-AGTTGCAGTGGAGCAGATTAAAGATAC
* * * *
36540573 ATGAATCTTATCTCCTTGAAGTTGTAGTGGATCAGATTGAAGATAGC
1 A--AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATA-C
* * * * * *
36540620 AAACCTTATCTCTCTAAAGTTGCAGTGGAACAAATTAAAGCTACAAGATAG
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-T-----TA-AAGATAC
* * * * *
36540671 AAATCTTAACTCTCTGAAGTTGCAGTGGAACAAATTGAAGATAC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATAC
* * * * *
36540715 GAATCTTATTTCCCTAAAGTTGCAGTGGAACAGATTAAGGCTACAAGTTAC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-T-----TA-AAGATAC
* * * *
36540766 AAATCTTATCTCTCTAAAGTTGCAGTGAAGCATATTGAAA-ATAC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAAGATAC
* *
36540810 AAATCTTATTTCCCAGAAGTTGCAGTGGA
1 AAATCTTATCTCCCTGAAGTTGCAGTGGA
36540839 ACGGATCTTA
Statistics
Matches: 564, Mismatches: 114, Indels: 74
0.75 0.15 0.10
Matches are distributed among these distances:
43 2 0.00
44 281 0.50
45 169 0.30
46 3 0.01
47 1 0.00
50 4 0.01
51 95 0.17
52 9 0.02
ACGTcount: A:0.36, C:0.17, G:0.18, T:0.29
Consensus pattern (44 bp):
AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATAC
Found at i:36540250 original size:89 final size:88
Alignment explanation
Indices: 36540080--36540743 Score: 431
Period size: 89 Copynumber: 7.3 Consensus size: 88
36540070 TCGTCGTGGA
* * * * * * ** * *
36540080 AAATCTTATCTCCCTAAAATTGCAATGGAGTAGATTAAAGCCA-CAAATCTTATCTCCCTAAAGT
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTGAAGATAGCAAATCGTATCTCCCTGAAGT
* *
36540144 TGCAATGGAGCAGATTAAAGCCAC
66 TGCAGT-GAACAGATTAAAGCCAC
* * * * *
36540168 AAATCTTATCTTCCTGAAGTTACAGTGGAGCAAATTGAAAATAGCAAATCCTAT-TACCCTAAAG
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTGAAGATAGCAAATCGTATCT-CCCTGAAG
* *
36540232 TTGTAGTGGAACAAATTAAAGCTACAAGTTAC
65 TTGCAGT-GAACAGATTAAAGC--C-----AC
* * * * * * * *
36540264 AAATCTTATCTCTCTGACGTTGCAGTAGAGTAGATTGAAGTTA-CAAATCTTATCTCCTTGAAGT
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTGAAGATAGCAAATCGTATCTCCCTGAAGT
36540328 TGCAGTGAAGCAGATTAAAGCCAC
66 TGCAGTGAA-CAGATTAAAGCCAC
* **
36540352 AAATCTTATCTCCCTGAAGTTGCAGTTGAGCAGAA-TGAAGATAGCAAATCGTATCTTTCTGAAG
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCA-AATTGAAGATAGCAAATCGTATCTCCCTGAAG
* * *
36540416 TTGCAATAAAGCAGATTAAAGTCAC
65 TTGCAGTGAA-CAGATTAAAGCCAC
* * * ** *
36540441 AAATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAATATAGTGAATCGTATCTCACTGAAGT
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTGAAGATAGCAAATCGTATCTCCCTGAAGT
* * * * *
36540506 TGTAGTAGAGCAGATTGAAGCTAA
66 TGCAGT-GAACAGATTAAAGCCAC
* * *** * *
36540530 AAATCTTATCTCCCT-AGAGTTGCAGTGGAGCAGATTAAAGATAATGAATCTTATCTCCTTGAAG
1 AAATCTTATCTCCCTGA-AGTTGCAGTGGAGCAAATTGAAGATAGCAAATCGTATCTCCCTGAAG
* * * **
36540594 TTGTAGTGGATCAGATTGAAGATAGC
65 TTGCAGT-GAACAGATTAAAGCCA-C
* * * * * * *
36540620 AAACCTTATCTCTCTAAAGTTGCAGTGGAACAAATTAAAGCTACAAGATAG-AAATCTTAACTCT
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAATT---G----AAGATAGCAAATCGTATCTCC
* * **
36540684 CTGAAGTTGCAGTGGAACAAATTGAAGATAC
59 CTGAAGTTGCAGT-GAACAGATTAAAGCCAC
* * *
36540715 GAATCTTATTTCCCTAAAGTTGCAGTGGA
1 AAATCTTATCTCCCTGAAGTTGCAGTGGA
36540744 ACAGATTAAG
Statistics
Matches: 464, Mismatches: 87, Indels: 43
0.78 0.15 0.07
Matches are distributed among these distances:
88 72 0.16
89 219 0.47
90 31 0.07
91 2 0.00
93 1 0.00
94 3 0.01
95 57 0.12
96 73 0.16
97 6 0.01
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.29
Consensus pattern (88 bp):
AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTGAAGATAGCAAATCGTATCTCCCTGAAGT
TGCAGTGAACAGATTAAAGCCAC
Found at i:36540436 original size:184 final size:176
Alignment explanation
Indices: 36540080--36540572 Score: 476
Period size: 184 Copynumber: 2.7 Consensus size: 176
36540070 TCGTCGTGGA
* * * * ** *
36540080 AAATCTTATCTCCCTAAAATTGCAATGGAGTAGATTAAAGCCACAAATCTTATCTCCCTAAAGTT
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGTTACAAATCTTATCT-CCTGAAGTT
* * * * *
36540145 GCAATGGAGCAGATTAAAGCCACAAATCTTATCTTCCTGAAGTTACAGTGGAGCA-AATTGAAAA
65 GCAGTGAAGCAGATTAAAGCCACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAA-TGAAGA
* * *
36540209 TAGCAAATCCTATTACCCTAAAGTTGTAGTGGAACAAATTAAAGCTACAAGTTAC
129 TAGCAAATCCTATTACCCTAAAGTTGCAATGAAACAAATTAAAG-T-C-----AC
* * *
36540264 AAATCTTATCTCTCTGACGTTGCAGTAGAGTAGATTGAAGTTACAAATCTTATCTCCTTGAAGTT
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGTTACAAATCTTATCTCC-TGAAGTT
*
36540329 GCAGTGAAGCAGATTAAAGCCACAAATCTTATCTCCCTGAAGTTGCAGTTGAGCAGAATGAAGAT
65 GCAGTGAAGCAGATTAAAGCCACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAATGAAGAT
* ** * *
36540394 AGCAAATCGTATCT-TTCTGAAGTTGCAAT-AAAGCAGATTAAAGTCAC
130 AGCAAATCCTAT-TACCCTAAAGTTGCAATGAAA-CAAATTAAAGTCAC
* * ** *
36540441 AAATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAA-TATAGTGAATCGTATCTCACTGAAG
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGT-TA-CAAATCTTATCTC-CTGAAG
* * * * * *
36540505 TTGTAGT-AGAGCAGATTGAAGCTAAAAATCTTATCTCCCT-AGAGTTGCAGTGGAGCAGATTAA
63 TTGCAGTGA-AGCAGATTAAAGCCACAAATCTTATCTCCCTGA-AGTTGCAGTGGAGCAGAATGA
36540568 AGATA
126 AGATA
36540573 ATGAATCTTA
Statistics
Matches: 261, Mismatches: 39, Indels: 24
0.81 0.12 0.07
Matches are distributed among these distances:
176 1 0.00
177 40 0.15
178 72 0.28
179 1 0.00
182 1 0.00
183 5 0.02
184 138 0.53
185 3 0.01
ACGTcount: A:0.36, C:0.17, G:0.18, T:0.28
Consensus pattern (176 bp):
AAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGTTACAAATCTTATCTCCTGAAGTTG
CAGTGAAGCAGATTAAAGCCACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAATGAAGATA
GCAAATCCTATTACCCTAAAGTTGCAATGAAACAAATTAAAGTCAC
Found at i:36540691 original size:51 final size:50
Alignment explanation
Indices: 36540612--36540792 Score: 205
Period size: 51 Copynumber: 3.7 Consensus size: 50
36540602 GATCAGATTG
*
36540612 AAGATAGCAAACCTTATCTCTCTAAAGTTGCAGTGGAACAAATTAAAGCTAC
1 AAGATAG-AAATCTTATCTCTCTAAAGTTGCAGTGGAACAAATT-AAGCTAC
* *
36540664 AAGATAGAAATCTTAACTCTCTGAAGTTGCAGTGGAACAAATT--G----
1 AAGATAGAAATCTTATCTCTCTAAAGTTGCAGTGGAACAAATTAAGCTAC
* * *
36540708 AAGATACG-AATCTTATTTCCCTAAAGTTGCAGTGGAACAGATTAAGGCTAC
1 AAGATA-GAAATCTTATCTCTCTAAAGTTGCAGTGGAACAAATTAA-GCTAC
* *
36540759 AAGTTACAAATCTTATCTCTCTAAAGTTGCAGTG
1 AAGATAGAAATCTTATCTCTCTAAAGTTGCAGTG
36540793 AAGCATATTG
Statistics
Matches: 108, Mismatches: 12, Indels: 19
0.78 0.09 0.14
Matches are distributed among these distances:
44 36 0.33
45 1 0.01
47 1 0.01
48 1 0.01
51 62 0.57
52 7 0.06
ACGTcount: A:0.37, C:0.17, G:0.18, T:0.28
Consensus pattern (50 bp):
AAGATAGAAATCTTATCTCTCTAAAGTTGCAGTGGAACAAATTAAGCTAC
Found at i:36540758 original size:95 final size:95
Alignment explanation
Indices: 36540308--36540840 Score: 416
Period size: 89 Copynumber: 5.8 Consensus size: 95
36540298 TTGAAGTTAC
* ** *
36540308 AAATCTTATCTC-CTTGAAGTTGCAGT-GAAGCAGATTAAAGCCACAAATCTTATCTCCCTGAAG
1 AAATCTTATCTCTC-TGAAGTTGCAGTGGAA-CAGATTGAAGATACAAATCTTATCTCCCTAAAG
* * *
36540371 TTGCAGTTGAGCAG----AA--T-GAAGATAG
64 TTGCAGTGGAACAGATTAAAGCTACAAGATAG
* * * * * *
36540396 CAAATCGTATCTTTCTGAAGTTGCAAT-AAAGCAGATTAAAG-TCACAAATCTTATCTCCCTGAA
1 -AAATCTTATCTCTCTGAAGTTGCAGTGGAA-CAGATTGAAGAT-ACAAATCTTATCTCCCTAAA
* * * *
36540459 GTTACAGTGGAGCAGATTGAA--TA-TAG-T-G
63 GTTGCAGTGGAACAGATTAAAGCTACAAGATAG
* * * * * * * *
36540487 -AATCGTATCTCACTGAAGTTGTAGTAGAGCAGATTGAAGCTAAAAATCTTATCTCCCTAGAGTT
1 AAATCTTATCTCTCTGAAGTTGCAGTGGAACAGATTGAAGATACAAATCTTATCTCCCTAAAGTT
* *
36540551 GCAGTGGAGCAGATTAAAG--A-TA-AT-G
66 GCAGTGGAACAGATTAAAGCTACAAGATAG
* * * *
36540576 -AATCTTATCTC-CTTGAAGTTGTAGTGGATCAGATTGAAGATAGCAAACCTTATCTCTCTAAAG
1 AAATCTTATCTCTC-TGAAGTTGCAGTGGAACAGATTGAAGATA-CAAATCTTATCTCCCTAAAG
*
36540639 TTGCAGTGGAACAAATTAAAGCTACAAGATAG
64 TTGCAGTGGAACAGATTAAAGCTACAAGATAG
* * * *
36540671 AAATCTTAACTCTCTGAAGTTGCAGTGGAACAAATTGAAGATACGAATCTTATTTCCCTAAAGTT
1 AAATCTTATCTCTCTGAAGTTGCAGTGGAACAGATTGAAGATACAAATCTTATCTCCCTAAAGTT
* * *
36540736 GCAGTGGAACAGATTAAGGCTACAAGTTAC
66 GCAGTGGAACAGATTAAAGCTACAAGATAG
* * * *
36540766 AAATCTTATCTCTCTAAAGTTGCAGT-GAAGCATATTGAAAATACAAATCTTATTTCCC-AGAAG
1 AAATCTTATCTCTCTGAAGTTGCAGTGGAA-CAGATTGAAGATACAAATCTTATCTCCCTA-AAG
36540829 TTGCAGTGGAAC
64 TTGCAGTGGAAC
36540841 GGATCTTATC
Statistics
Matches: 374, Mismatches: 48, Indels: 38
0.81 0.10 0.08
Matches are distributed among these distances:
88 1 0.00
89 174 0.47
90 38 0.10
91 1 0.00
92 2 0.01
93 6 0.02
94 6 0.02
95 109 0.29
96 36 0.10
97 1 0.00
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.29
Consensus pattern (95 bp):
AAATCTTATCTCTCTGAAGTTGCAGTGGAACAGATTGAAGATACAAATCTTATCTCCCTAAAGTT
GCAGTGGAACAGATTAAAGCTACAAGATAG
Found at i:36540904 original size:75 final size:75
Alignment explanation
Indices: 36540768--36540913 Score: 170
Period size: 75 Copynumber: 1.9 Consensus size: 75
36540758 CAAGTTACAA
* * * *
36540768 ATCTTATCTCTCTAAAGTTGCAGTGAAGCATATTGAAAATACAAATCTTATTTCCCAGAAGTTGC
1 ATCTTATCTCTCTAAAGTTGCAGTGAAGCAGATTGAAAATACAAACCCTATTACCCAGAAGTTGC
36540833 AGTGGAACGG
66 AGTGGAACGG
* * * * *
36540843 ATCTTATCTCTCTGAAGTTGTAGTGGAGCAGATTG-AAGTGACAAACCCTA-TACCTCTGAAGTT
1 ATCTTATCTCTCTAAAGTTGCAGTGAAGCAGATTGAAAAT-ACAAACCCTATTACC-CAGAAGTT
*
36540906 GTAGTGGA
64 GCAGTGGA
36540914 GTAGATTGAA
Statistics
Matches: 59, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
74 6 0.10
75 53 0.90
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.31
Consensus pattern (75 bp):
ATCTTATCTCTCTAAAGTTGCAGTGAAGCAGATTGAAAATACAAACCCTATTACCCAGAAGTTGC
AGTGGAACGG
Found at i:36540920 original size:44 final size:44
Alignment explanation
Indices: 36540852--36540946 Score: 145
Period size: 44 Copynumber: 2.2 Consensus size: 44
36540842 GATCTTATCT
***
36540852 CTCTGAAGTTGTAGTGGAGCAGATTGAAGTGACAAACCCTATAC
1 CTCTGAAGTTGTAGTGGAGCAGATTGAAACAACAAACCCTATAC
* *
36540896 CTCTGAAGTTGTAGTGGAGTAGATTGAAACAACAAATCCTATAC
1 CTCTGAAGTTGTAGTGGAGCAGATTGAAACAACAAACCCTATAC
36540940 CTCTGAA
1 CTCTGAA
36540947 ATAGCAGTGG
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.26
Consensus pattern (44 bp):
CTCTGAAGTTGTAGTGGAGCAGATTGAAACAACAAACCCTATAC
Done.