Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr6
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: 44797108
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 921406 characters in sequence are not A, C, G, or T
File 60 of 144
Found at i:18353177 original size:40 final size:40
Alignment explanation
Indices: 18353123--18353230 Score: 164
Period size: 40 Copynumber: 2.6 Consensus size: 40
18353113 AAATATATTT
*
18353123 ATTTTTTTAATTTTAAAATATTTTTTACATAC-TTTTTTA
1 ATTTTTTTAATTTTAAAATATTTTTTAAATACTTTTTTTA
*
18353162 ATTTTTTTAAATTTTAAAATATTTTTAAAATACTTTTTTTA
1 ATTTTTTT-AATTTTAAAATATTTTTTAAATACTTTTTTTA
18353203 ATTTTTTTTAATTTTAAAAATATTTTTT
1 A-TTTTTTTAATTTT-AAAATATTTTTT
18353231 TAATTTTAAA
Statistics
Matches: 62, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
39 8 0.13
40 22 0.35
41 14 0.23
42 18 0.29
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (40 bp):
ATTTTTTTAATTTTAAAATATTTTTTAAATACTTTTTTTA
Found at i:18353199 original size:30 final size:29
Alignment explanation
Indices: 18353165--18353262 Score: 99
Period size: 30 Copynumber: 3.3 Consensus size: 29
18353155 TTTTTTAATT
*
18353165 TTTTTAAATTTTAAAATATTTTTAAAATA
1 TTTTTAAATTTTAAAATATTTTAAAAATA
* ***
18353194 CTTTTTTTAATTTT-TTTTAATTTTAAAAATA
1 --TTTTTAAATTTTAAAAT-ATTTTAAAAATA
*
18353225 TTTTTTTAATTTTAAAATATTTTAAAAATA
1 -TTTTTAAATTTTAAAATATTTTAAAAATA
18353255 TTTTTAAA
1 TTTTTAAA
18353263 ATACTTTTTT
Statistics
Matches: 56, Mismatches: 9, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
29 7 0.12
30 26 0.46
31 23 0.41
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (29 bp):
TTTTTAAATTTTAAAATATTTTAAAAATA
Found at i:18353248 original size:10 final size:10
Alignment explanation
Indices: 18353233--18353296 Score: 58
Period size: 10 Copynumber: 6.1 Consensus size: 10
18353223 TATTTTTTTA
18353233 ATTTTAAAAT
1 ATTTTAAAAT
18353243 ATTTTAAAAAT
1 ATTTT-AAAAT
18353254 ATTTTTAAAAT
1 A-TTTTAAAAT
**
18353265 ACTTTTTTTAAT
1 A--TTTTAAAAT
*
18353277 TTTTTAAAAT
1 ATTTTAAAAT
18353287 -TTTTAAAAT
1 ATTTTAAAAT
18353296 A
1 A
18353297 AAAATGGGCC
Statistics
Matches: 45, Mismatches: 5, Indels: 8
0.78 0.09 0.14
Matches are distributed among these distances:
9 9 0.20
10 12 0.27
11 12 0.27
12 12 0.27
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.55
Consensus pattern (10 bp):
ATTTTAAAAT
Found at i:18353260 original size:42 final size:42
Alignment explanation
Indices: 18353213--18353294 Score: 123
Period size: 41 Copynumber: 2.0 Consensus size: 42
18353203 ATTTTTTTTA
*
18353213 ATTTTAAAAATA-TTTTTTTAATT-TTAAAATATTTTAAAAAT
1 ATTTTTAAAATACTTTTTTTAATTTTTAAAAT-TTTTAAAAAT
18353254 ATTTTTAAAATACTTTTTTTAATTTTTTAAAATTTTTAAAA
1 ATTTTTAAAATACTTTTTTTAA-TTTTTAAAATTTTTAAAA
18353295 TAAAAATGGG
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
41 11 0.30
42 9 0.24
43 10 0.27
44 7 0.19
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.56
Consensus pattern (42 bp):
ATTTTTAAAATACTTTTTTTAATTTTTAAAATTTTTAAAAAT
Found at i:18353262 original size:72 final size:71
Alignment explanation
Indices: 18353124--18353296 Score: 215
Period size: 72 Copynumber: 2.4 Consensus size: 71
18353114 AATATATTTA
* ** * * **
18353124 TTTTTTTAA-TTTTAAAATATTTTTTACATACTTTTTTAATTTTTTTAAATTTTAAAATATTTTT
1 TTTTTTTAATTTTTTAAA-ATTTTAAAAATATTTTTTTAATTTTTAAAAATTTTAAAATATTTTT
18353188 AAAATAC
65 AAAATAC
**
18353195 TTTTTTTAATTTTTTTTAATTTTAAAAATATTTTTTTAA-TTTTAAAATATTTTAAAAATATTTT
1 TTTTTTTAATTTTTTAAAATTTTAAAAATATTTTTTTAATTTTTAAAA-ATTTT-AAAATATTTT
18353259 TAAAATAC
64 TAAAATAC
*
18353267 TTTTTTTAATTTTTTAAAATTTTTAAAATA
1 TTTTTTTAATTTTTTAAAATTTTAAAAATA
18353297 AAAATGGGCC
Statistics
Matches: 87, Mismatches: 12, Indels: 5
0.84 0.12 0.05
Matches are distributed among these distances:
70 6 0.07
71 31 0.36
72 50 0.57
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (71 bp):
TTTTTTTAATTTTTTAAAATTTTAAAAATATTTTTTTAATTTTTAAAAATTTTAAAATATTTTTA
AAATAC
Found at i:18353270 original size:12 final size:11
Alignment explanation
Indices: 18353173--18353296 Score: 77
Period size: 11 Copynumber: 11.9 Consensus size: 11
18353163 TTTTTTTAAA
18353173 TTTTAAAATAT
1 TTTTAAAATAT
18353184 TTTTAAAATACT
1 TTTTAAAATA-T
**
18353196 TTTTTTAAT-T
1 TTTTAAAATAT
**
18353206 TTTT-TTA-AT
1 TTTTAAAATAT
*
18353215 TTTAAAAATAT
1 TTTTAAAATAT
* *
18353226 TTTT---TTAA
1 TTTTAAAATAT
18353234 TTTTAAAATAT
1 TTTTAAAATAT
*
18353245 TTTAAAAATAT
1 TTTTAAAATAT
18353256 TTTTAAAATACT
1 TTTTAAAATA-T
**
18353268 TTTTTTAAT-T
1 TTTTAAAATAT
18353278 TTTT-AAA-AT
1 TTTTAAAATAT
18353287 TTTTAAAATA
1 TTTTAAAATA
18353297 AAAATGGGCC
Statistics
Matches: 86, Mismatches: 16, Indels: 22
0.69 0.13 0.18
Matches are distributed among these distances:
8 6 0.07
9 13 0.15
10 14 0.16
11 37 0.43
12 16 0.19
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.59
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:18365565 original size:42 final size:42
Alignment explanation
Indices: 18365513--18365800 Score: 366
Period size: 42 Copynumber: 6.7 Consensus size: 42
18365503 TTAATGAATG
18365513 TAAAAGGGGTTGCTAAGTGCTGATTCCCCGTATCTTTGATTA
1 TAAAAGGGGTTGCTAAGTGCTGATTCCCCGTATCTTTGATTA
* *
18365555 TAAAAGGGGTTGCTATGTGTTGATTCCCCGTAT-TCTTGATTA
1 TAAAAGGGGTTGCTAAGTGCTGATTCCCCGTATCT-TTGATTA
* * *
18365597 TCAAAGGGGTTGCTAAGTGCTGATTCCCCGTAT-TCTAATTA
1 TAAAAGGGGTTGCTAAGTGCTGATTCCCCGTATCTTTGATTA
* *
18365638 TCAAAGGGGTTGCTAAGTGCTGATTCCCCGTATATTTGATTATA
1 TAAAAGGGGTTGCTAAGTGCTGATTCCCCGTATCTTTGA-T-TA
* * *
18365682 TAAAAAAAGGGGTTGCTATGTTCTGATTCCCCGCATCTTTGATTA
1 T---AAAAGGGGTTGCTAAGTGCTGATTCCCCGTATCTTTGATTA
* * *
18365727 TAAAAGGGGTTGCTATGTGCTGATTCCCCGTATCCTTGAATA
1 TAAAAGGGGTTGCTAAGTGCTGATTCCCCGTATCTTTGATTA
18365769 T-AAAGGTGGTTGCTAAGTGCTGATTCCGCCGT
1 TAAAAGG-GGTTGCTAAGTGCTGATTCC-CCGT
18365801 GTAACTATTA
Statistics
Matches: 218, Mismatches: 19, Indels: 17
0.86 0.07 0.07
Matches are distributed among these distances:
41 44 0.20
42 129 0.59
43 5 0.02
44 3 0.01
45 3 0.01
46 1 0.00
47 33 0.15
ACGTcount: A:0.24, C:0.17, G:0.24, T:0.35
Consensus pattern (42 bp):
TAAAAGGGGTTGCTAAGTGCTGATTCCCCGTATCTTTGATTA
Found at i:18365747 original size:130 final size:125
Alignment explanation
Indices: 18365515--18365800 Score: 400
Period size: 130 Copynumber: 2.2 Consensus size: 125
18365505 AATGAATGTA
*
18365515 AAAGGGGTTGCTAAGTGCTGATTCCCCGTATCTTTGATTATAAAAGGGGTTGCTATGTGTTGATT
1 AAAGGGGTTGCTAAGTGCTGATTCCCCGTATATTTGATTATAAAAGGGGTTGCTATGTGTTGATT
* * *
18365580 CCCCGTATTCTTGATTATCAAAGGGGTTGCTAAGTGCTGATTCCCCGTATTC-T-AATTAT
66 CCCCGCATTCTTGATTATAAAAGGGGTTGCTAAGTGCTGATTCCCCGTATCCTTGAA-TAT
18365639 CAAAGGGGTTGCTAAGTGCTGATTCCCCGTATATTTGATTATATAAAAAAAGGGGTTGCTATGT-
1 -AAAGGGGTTGCTAAGTGCTGATTCCCCGTATATTTGA-T-TAT---AAAAGGGGTTGCTATGTG
*
18365703 TCTGATTCCCCGCA-TCTTTGATTATAAAAGGGGTTGCTATGTGCTGATTCCCCGTATCCTTGAA
60 T-TGATTCCCCGCATTC-TTGATTATAAAAGGGGTTGCTAAGTGCTGATTCCCCGTATCCTTGAA
18365767 TAT
123 TAT
18365770 AAAGGTGGTTGCTAAGTGCTGATTCCGCCGT
1 AAAGG-GGTTGCTAAGTGCTGATTCC-CCGT
18365801 GTAACTATTA
Statistics
Matches: 145, Mismatches: 5, Indels: 15
0.88 0.03 0.09
Matches are distributed among these distances:
125 36 0.25
126 1 0.01
127 3 0.02
129 3 0.02
130 72 0.50
131 24 0.17
132 6 0.04
ACGTcount: A:0.23, C:0.17, G:0.24, T:0.35
Consensus pattern (125 bp):
AAAGGGGTTGCTAAGTGCTGATTCCCCGTATATTTGATTATAAAAGGGGTTGCTATGTGTTGATT
CCCCGCATTCTTGATTATAAAAGGGGTTGCTAAGTGCTGATTCCCCGTATCCTTGAATAT
Found at i:18372106 original size:15 final size:15
Alignment explanation
Indices: 18372088--18372116 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
18372078 TACTTGTACT
18372088 ATGTACACTTGCACC
1 ATGTACACTTGCACC
18372103 ATGTACACTTGCAC
1 ATGTACACTTGCAC
18372117 ATAACCACCG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.31, G:0.14, T:0.28
Consensus pattern (15 bp):
ATGTACACTTGCACC
Found at i:18375822 original size:16 final size:16
Alignment explanation
Indices: 18375801--18375831 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
18375791 ATTTTTTTAG
*
18375801 TTTAATTTTTGTTTTT
1 TTTAATTTTTATTTTT
18375817 TTTAATTTTTATTTT
1 TTTAATTTTTATTTT
18375832 ATTTGCTTCT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.16, C:0.00, G:0.03, T:0.81
Consensus pattern (16 bp):
TTTAATTTTTATTTTT
Found at i:18376998 original size:136 final size:136
Alignment explanation
Indices: 18376754--18377029 Score: 534
Period size: 136 Copynumber: 2.0 Consensus size: 136
18376744 ACTTAGATGC
18376754 GGTCACCATGTTATCGAATCAGGTAGAGCTTTTAAATAAGAAAATTGATAGTTTATATGGTTCTA
1 GGTCACCATGTTATCGAATCAGGTAGAGCTTTTAAATAAGAAAATTGATAGTTTATATGGTTCTA
*
18376819 TGCAGGTACATCCGGTGATGCAGTGCGATACGAATGAATGATGGATGAACAATCCAGAATGTTTA
66 TGCAGGTACATCCGGTGATGCAGTGCGATACGAATGAAGGATGGATGAACAATCCAGAATGTTTA
18376884 CCCTAT
131 CCCTAT
*
18376890 GGTCACCATGTTATTGAATCAGGTAGAGCTTTTAAATAAGAAAATTGATAGTTTATATGGTTCTA
1 GGTCACCATGTTATCGAATCAGGTAGAGCTTTTAAATAAGAAAATTGATAGTTTATATGGTTCTA
18376955 TGCAGGTACATCCGGTGATGCAGTGCGATACGAATGAAGGATGGATGAACAATCCAGAATGTTTA
66 TGCAGGTACATCCGGTGATGCAGTGCGATACGAATGAAGGATGGATGAACAATCCAGAATGTTTA
18377020 CCCTAT
131 CCCTAT
18377026 GGTC
1 GGTC
18377030 CTCGCACAGA
Statistics
Matches: 138, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
136 138 1.00
ACGTcount: A:0.32, C:0.14, G:0.24, T:0.30
Consensus pattern (136 bp):
GGTCACCATGTTATCGAATCAGGTAGAGCTTTTAAATAAGAAAATTGATAGTTTATATGGTTCTA
TGCAGGTACATCCGGTGATGCAGTGCGATACGAATGAAGGATGGATGAACAATCCAGAATGTTTA
CCCTAT
Found at i:18390363 original size:497 final size:497
Alignment explanation
Indices: 18389429--18390422 Score: 1970
Period size: 497 Copynumber: 2.0 Consensus size: 497
18389419 TCTGGATCAG
18389429 TTCGTCGTGGTCTTCATCGACAATATTTTGTTTTACCCTAAGACCGAGGGTGAGCATGATGAGAA
1 TTCGTCGTGGTCTTCATCGACAATATTTTGTTTTACCCTAAGACCGAGGGTGAGCATGATGAGAA
18389494 TCTTAGAGTAGTGTTTCAGATACTTCAAGGGAAGTAGCTCTACACTAAGTTGAGCAATTGTGAGT
66 TCTTAGAGTAGTGTTTCAGATACTTCAAGGGAAGTAGCTCTACACTAAGTTGAGCAATTGTGAGT
18389559 TGTGGTTGCGAGAGATAACTTTTCTAGGGCACGTGGTTTCTGCTGAGGGGATCCAAGTTGATCCA
131 TGTGGTTGCGAGAGATAACTTTTCTAGGGCACGTGGTTTCTGCTGAGGGGATCCAAGTTGATCCA
18389624 AGAAAGATTGAGGCTGTGCTTGATTGGAAGCAGTCTAAGAACGTATCTGAGATCCATAGTTTTCT
196 AGAAAGATTGAGGCTGTGCTTGATTGGAAGCAGTCTAAGAACGTATCTGAGATCCATAGTTTTCT
18389689 AAGTCTTGCGGGATATTATCAGCGATTTGTAGAGGGGTTCTCTCTAATTGCAGCTCCTTTGGCTA
261 AAGTCTTGCGGGATATTATCAGCGATTTGTAGAGGGGTTCTCTCTAATTGCAGCTCCTTTGGCTA
*
18389754 AGCTTTTGCACAATGATGTTTCTTTTGTTTGGACTAATGCGCTACAATCGAGCTTCGAGAAGCTT
326 AGCTTCTGCACAATGATGTTTCTTTTGTTTGGACTAATGCGCTACAATCGAGCTTCGAGAAGCTT
18389819 TTGTTTGTTCTGACCTAGGCTCCTGTTCTGATACAGTCTAAATCCGGTAAAGAGTTTGTGGTTTA
391 TTGTTTGTTCTGACCTAGGCTCCTGTTCTGATACAGTCTAAATCCGGTAAAGAGTTTGTGGTTTA
18389884 TAGTGATGCGTCACACGTCAATTTGAGATATGTTCTGATGCA
456 TAGTGATGCGTCACACGTCAATTTGAGATATGTTCTGATGCA
18389926 TTCGTCGTGGTCTTCATCGACAATATTTTGTTTTACCCTAAGACCGAGGGTGAGCATGATGAGAA
1 TTCGTCGTGGTCTTCATCGACAATATTTTGTTTTACCCTAAGACCGAGGGTGAGCATGATGAGAA
*
18389991 TCTTAGAGTAGTGTTTCTGATACTTCAAGGGAAGTAGCTCTACACTAAGTTGAGCAATTGTGAGT
66 TCTTAGAGTAGTGTTTCAGATACTTCAAGGGAAGTAGCTCTACACTAAGTTGAGCAATTGTGAGT
18390056 TGTGGTTGCGAGAGATAACTTTTCTAGGGCACGTGGTTTCTGCTGAGGGGATCCAAGTTGATCCA
131 TGTGGTTGCGAGAGATAACTTTTCTAGGGCACGTGGTTTCTGCTGAGGGGATCCAAGTTGATCCA
18390121 AGAAAGATTGAGGCTGTGCTTGATTGGAAGCAGTCTAAGAACGTATCTGAGATCCATAGTTTTCT
196 AGAAAGATTGAGGCTGTGCTTGATTGGAAGCAGTCTAAGAACGTATCTGAGATCCATAGTTTTCT
18390186 AAGTCTTGCGGGATATTATCAGCGATTTGTAGAGGGGTTCTCTCTAATTGCAGCTCCTTTGGCTA
261 AAGTCTTGCGGGATATTATCAGCGATTTGTAGAGGGGTTCTCTCTAATTGCAGCTCCTTTGGCTA
18390251 AGCTTCTGCACAATGATGTTTCTTTTGTTTGGACTAATGCGCTACAATCGAGCTTCGAGAAGCTT
326 AGCTTCTGCACAATGATGTTTCTTTTGTTTGGACTAATGCGCTACAATCGAGCTTCGAGAAGCTT
18390316 TTGTTTGTTCTGACCTAGGCTCCTGTTCTGATACAGTCTAAATCCGGTAAAGAGTTTGTGGTTTA
391 TTGTTTGTTCTGACCTAGGCTCCTGTTCTGATACAGTCTAAATCCGGTAAAGAGTTTGTGGTTTA
18390381 TAGTGATGCGTCACACGTCAATTTGAGATATGTTCTGATGCA
456 TAGTGATGCGTCACACGTCAATTTGAGATATGTTCTGATGCA
18390423 AGATGGTAAG
Statistics
Matches: 495, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
497 495 1.00
ACGTcount: A:0.24, C:0.17, G:0.25, T:0.34
Consensus pattern (497 bp):
TTCGTCGTGGTCTTCATCGACAATATTTTGTTTTACCCTAAGACCGAGGGTGAGCATGATGAGAA
TCTTAGAGTAGTGTTTCAGATACTTCAAGGGAAGTAGCTCTACACTAAGTTGAGCAATTGTGAGT
TGTGGTTGCGAGAGATAACTTTTCTAGGGCACGTGGTTTCTGCTGAGGGGATCCAAGTTGATCCA
AGAAAGATTGAGGCTGTGCTTGATTGGAAGCAGTCTAAGAACGTATCTGAGATCCATAGTTTTCT
AAGTCTTGCGGGATATTATCAGCGATTTGTAGAGGGGTTCTCTCTAATTGCAGCTCCTTTGGCTA
AGCTTCTGCACAATGATGTTTCTTTTGTTTGGACTAATGCGCTACAATCGAGCTTCGAGAAGCTT
TTGTTTGTTCTGACCTAGGCTCCTGTTCTGATACAGTCTAAATCCGGTAAAGAGTTTGTGGTTTA
TAGTGATGCGTCACACGTCAATTTGAGATATGTTCTGATGCA
Found at i:18393087 original size:17 final size:17
Alignment explanation
Indices: 18393060--18393105 Score: 56
Period size: 17 Copynumber: 2.7 Consensus size: 17
18393050 CCGATATAAT
* * *
18393060 AAATATATTTATTTTTT
1 AAATATTTTTAATTTTA
*
18393077 AAATTTTTTTAATTTTA
1 AAATATTTTTAATTTTA
18393094 AAATATTTTTAA
1 AAATATTTTTAA
18393106 AATACTTTTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
AAATATTTTTAATTTTA
Found at i:18393136 original size:21 final size:21
Alignment explanation
Indices: 18393098--18393137 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
18393088 ATTTTAAAAT
**
18393098 ATTTTTAAAATACTTTTTTTA
1 ATTTTTAAAATAAATTTTTTA
18393119 ATTTTTAAAATAAATTTTT
1 ATTTTTAAAATAAATTTTT
18393138 AGTATTTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.60
Consensus pattern (21 bp):
ATTTTTAAAATAAATTTTTTA
Found at i:18396147 original size:13 final size:13
Alignment explanation
Indices: 18396129--18396153 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18396119 TCCAAAAAAG
18396129 TATATATTTAATA
1 TATATATTTAATA
18396142 TATATATTTAAT
1 TATATATTTAAT
18396154 TAAAAACTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TATATATTTAATA
Found at i:18396180 original size:16 final size:16
Alignment explanation
Indices: 18396143--18396180 Score: 58
Period size: 17 Copynumber: 2.3 Consensus size: 16
18396133 TATTTAATAT
18396143 ATATATTTAATTAAAA
1 ATATATTTAATTAAAA
*
18396159 ACTATATTTGATTAAAA
1 A-TATATTTAATTAAAA
18396176 ATATA
1 ATATA
18396181 AAATATATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 5 0.25
17 15 0.75
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.42
Consensus pattern (16 bp):
ATATATTTAATTAAAA
Found at i:18397508 original size:6 final size:6
Alignment explanation
Indices: 18397497--18397523 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
18397487 CATGATTTAG
18397497 TTCTAA TTCTAA TTCTAA TTCTAA TTC
1 TTCTAA TTCTAA TTCTAA TTCTAA TTC
18397524 GTTATTGCTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.30, C:0.19, G:0.00, T:0.52
Consensus pattern (6 bp):
TTCTAA
Found at i:18400412 original size:6 final size:6
Alignment explanation
Indices: 18400401--18400643 Score: 486
Period size: 6 Copynumber: 40.5 Consensus size: 6
18400391 CAATACATAA
18400401 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
1 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
18400449 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
1 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
18400497 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
1 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
18400545 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
1 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
18400593 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
1 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
18400641 ATA
1 ATA
18400644 TGATTGTCGC
Statistics
Matches: 237, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 237 1.00
ACGTcount: A:0.50, C:0.16, G:0.00, T:0.33
Consensus pattern (6 bp):
ATACAT
Found at i:18401431 original size:6 final size:6
Alignment explanation
Indices: 18401420--18401444 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
18401410 CATGATTTAG
18401420 TTCTAA TTCTAA TTCTAA TTCTAA T
1 TTCTAA TTCTAA TTCTAA TTCTAA T
18401445 CCGTTATTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.32, C:0.16, G:0.00, T:0.52
Consensus pattern (6 bp):
TTCTAA
Found at i:18405795 original size:3 final size:3
Alignment explanation
Indices: 18405787--18405823 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
18405777 TTCTTTCCCT
*
18405787 TCA TCA TCA TCA TCA TCA TCA TCA TCA CCA TCA TCA T
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA T
18405824 TACTAAACCC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.32, C:0.35, G:0.00, T:0.32
Consensus pattern (3 bp):
TCA
Found at i:18407236 original size:15 final size:15
Alignment explanation
Indices: 18407199--18407246 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
18407189 TCAAAATAAG
*
18407199 TAATTTTT-TAAAAA
1 TAATTTTTATAAATA
*
18407213 TAAATTTTATAAATA
1 TAATTTTTATAAATA
*
18407228 TAATTTTTAATAATTA
1 TAATTTTT-ATAAATA
18407244 TAA
1 TAA
18407247 CTAGAATGAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
14 7 0.25
15 12 0.43
16 9 0.32
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
TAATTTTTATAAATA
Found at i:18417834 original size:37 final size:37
Alignment explanation
Indices: 18417784--18417858 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
18417774 TATCAATATA
18417784 TGAAAGAACACAATTTGTGGTGGTTAATGCATTGGTT
1 TGAAAGAACACAATTTGTGGTGGTTAATGCATTGGTT
18417821 TGAAAGAACACAATTTGTGGTGGTTAATGCATTGGTT
1 TGAAAGAACACAATTTGTGGTGGTTAATGCATTGGTT
18417858 T
1 T
18417859 TAAAAGATAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.29, C:0.08, G:0.27, T:0.36
Consensus pattern (37 bp):
TGAAAGAACACAATTTGTGGTGGTTAATGCATTGGTT
Found at i:18421718 original size:30 final size:29
Alignment explanation
Indices: 18421665--18421759 Score: 129
Period size: 30 Copynumber: 3.2 Consensus size: 29
18421655 AAAATACTAT
*
18421665 TTACATTTTGACCCTCCACTTTTTCTAAAA
1 TTACATTTTGGCCC-CCACTTTTTCTAAAA
*
18421695 TTATATTTTGGCCCCCACTTTTTTCTAAAA
1 TTACATTTTGGCCCCCAC-TTTTTCTAAAA
*
18421725 TTACATTTT-GCCCCCTACTTTTTCAAAAA
1 TTACATTTTGGCCCCC-ACTTTTTCTAAAA
18421754 TTACAT
1 TTACAT
18421760 CTTAGCCTTG
Statistics
Matches: 59, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
29 26 0.44
30 33 0.56
ACGTcount: A:0.26, C:0.25, G:0.04, T:0.44
Consensus pattern (29 bp):
TTACATTTTGGCCCCCACTTTTTCTAAAA
Found at i:18422541 original size:16 final size:16
Alignment explanation
Indices: 18422522--18422553 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
18422512 CTCCAGCAGC
18422522 GGCCCAATCCAATAGA
1 GGCCCAATCCAATAGA
18422538 GGCCCAATCCAATAGA
1 GGCCCAATCCAATAGA
18422554 CTCCAGCAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.31, G:0.19, T:0.12
Consensus pattern (16 bp):
GGCCCAATCCAATAGA
Found at i:18435038 original size:76 final size:76
Alignment explanation
Indices: 18434756--18435207 Score: 602
Period size: 76 Copynumber: 6.0 Consensus size: 76
18434746 TCTTTTTTCG
* * * * **
18434756 TTTTTCAAAAAATCAACTCATAATCTGAGAGATGAGTTGAGCCTTGGGTTGCACATCGAGGTATT
1 TTTTTCAAAAAATCAACTCATAATCCGATAGGTGAGTTGAGCCTCGGGTTGCACGCCGAGGTATT
18434821 TTCAATTTCTA
66 TTCAATTTCTA
* * * *
18434832 TTTTTC-AAATATCAACTCATAATCCAATAGGTGAGTTGAGCTTCGGGTCGCACGCCGAGGTATT
1 TTTTTCAAAAAATCAACTCATAATCCGATAGGTGAGTTGAGCCTCGGGTTGCACGCCGAGGTATT
*
18434896 TTCAACTTCTA
66 TTCAATTTCTA
* * *
18434907 TTTTTCAAAAAAATCAACTCATAATTCGAGAGGTGAGTTGAGCCTCGGGTTGCACGCCGAGATAT
1 TTTTTC-AAAAAATCAACTCATAATCCGATAGGTGAGTTGAGCCTCGGGTTGCACGCCGAGGTAT
*
18434972 TTTCAACTTCTA
65 TTTCAATTTCTA
* * ** *
18434984 TTTTTCAAAAAATAAACCCATAATCCGATAGGTGAGTTGAGCCTCAAGTTGCACGCCGAGCTATT
1 TTTTTCAAAAAATCAACTCATAATCCGATAGGTGAGTTGAGCCTCGGGTTGCACGCCGAGGTATT
* *
18435049 TTCAGTTTCTG
66 TTCAATTTCTA
* **
18435060 TTTTTCAAAAAATCAACTCATAATCCGATAGGTGAGTTGAGCCTCGGGTCGCACATCGAGGTATT
1 TTTTTCAAAAAATCAACTCATAATCCGATAGGTGAGTTGAGCCTCGGGTTGCACGCCGAGGTATT
*
18435125 TTTAATTTCTA
66 TTCAATTTCTA
* * * *
18435136 TTTTTC-AAAGATCAACTCATAATCCGATAGGTGAGTTGAGCTTCGGATTGCACGTCGAGGTATT
1 TTTTTCAAAAAATCAACTCATAATCCGATAGGTGAGTTGAGCCTCGGGTTGCACGCCGAGGTATT
*
18435200 TTAAATTT
66 TTCAATTT
18435208 TAGTCTTTTA
Statistics
Matches: 329, Mismatches: 45, Indels: 5
0.87 0.12 0.01
Matches are distributed among these distances:
75 124 0.38
76 137 0.42
77 68 0.21
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.34
Consensus pattern (76 bp):
TTTTTCAAAAAATCAACTCATAATCCGATAGGTGAGTTGAGCCTCGGGTTGCACGCCGAGGTATT
TTCAATTTCTA
Found at i:18435847 original size:29 final size:30
Alignment explanation
Indices: 18435796--18435887 Score: 125
Period size: 30 Copynumber: 3.1 Consensus size: 30
18435786 AGAATACTAT
18435796 TTACATTTTGGCCCCCCACTTTTT-TAAAA
1 TTACATTTTGGCCCCCCACTTTTTCTAAAA
* * *
18435825 TTACATTTTGGCCTCCTATTTTTTCTAAAA
1 TTACATTTTGGCCCCCCACTTTTTCTAAAA
*
18435855 TTACATTTTTAG-CCCCCACTTTTTCTAAAA
1 TTACA-TTTTGGCCCCCCACTTTTTCTAAAA
18435885 TTA
1 TTA
18435888 TGTTGTATCC
Statistics
Matches: 54, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
29 21 0.39
30 28 0.52
31 5 0.09
ACGTcount: A:0.25, C:0.24, G:0.05, T:0.46
Consensus pattern (30 bp):
TTACATTTTGGCCCCCCACTTTTTCTAAAA
Found at i:18436836 original size:25 final size:25
Alignment explanation
Indices: 18436763--18436862 Score: 111
Period size: 23 Copynumber: 4.1 Consensus size: 25
18436753 AAACCAAATA
18436763 CAGCAGA-CTCAGCAGA--CCCAATC
1 CAGCAGACCT-AGCAGAGGCCCAATC
*
18436786 TAGCAGACCTAGCAGA--CCCAATC
1 CAGCAGACCTAGCAGAGGCCCAATC
*
18436809 CAGCAGACCTAGTAGAGGCCCAATC
1 CAGCAGACCTAGCAGAGGCCCAATC
* *
18436834 CAGCAGACTCCAGCAGCGGCCCAATC
1 CAGCAGAC-CTAGCAGAGGCCCAATC
18436860 CAG
1 CAG
18436863 TGGAGGCCCG
Statistics
Matches: 67, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
23 33 0.49
24 2 0.03
25 15 0.22
26 17 0.25
ACGTcount: A:0.32, C:0.37, G:0.21, T:0.10
Consensus pattern (25 bp):
CAGCAGACCTAGCAGAGGCCCAATC
Found at i:18436862 original size:26 final size:23
Alignment explanation
Indices: 18436748--18436849 Score: 105
Period size: 23 Copynumber: 4.3 Consensus size: 23
18436738 CAGGCCCAAT
* * *
18436748 CCAGCAAACCAAATACAGCAGAC
1 CCAGCAGACCCAATCCAGCAGAC
* *
18436771 TCAGCAGACCCAATCTAGCAGAC
1 CCAGCAGACCCAATCCAGCAGAC
*
18436794 CTAGCAGACCCAATCCAGCAGAC
1 CCAGCAGACCCAATCCAGCAGAC
* *
18436817 CTAGTAGAGGCCCAATCCAGCAGAC
1 CCAGCAGA--CCCAATCCAGCAGAC
18436842 TCCAGCAG
1 -CCAGCAG
18436850 CGGCCCAATC
Statistics
Matches: 65, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
23 45 0.69
25 15 0.23
26 5 0.08
ACGTcount: A:0.36, C:0.35, G:0.19, T:0.10
Consensus pattern (23 bp):
CCAGCAGACCCAATCCAGCAGAC
Found at i:18436896 original size:17 final size:17
Alignment explanation
Indices: 18436874--18436924 Score: 59
Period size: 17 Copynumber: 3.1 Consensus size: 17
18436864 GGAGGCCCGT
18436874 CCAGCAACAGCCCAACA
1 CCAGCAACAGCCCAACA
*
18436891 CCAGCAACTGCCCAAC-
1 CCAGCAACAGCCCAACA
* * *
18436907 CCAACAGCGGCCCAACA
1 CCAGCAACAGCCCAACA
18436924 C
1 C
18436925 TTGAGGCAGC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
16 13 0.45
17 16 0.55
ACGTcount: A:0.35, C:0.49, G:0.14, T:0.02
Consensus pattern (17 bp):
CCAGCAACAGCCCAACA
Found at i:18440258 original size:19 final size:17
Alignment explanation
Indices: 18440234--18440319 Score: 74
Period size: 19 Copynumber: 4.9 Consensus size: 17
18440224 TATTTAATTA
18440234 ATTTTTAAATTTTAAAAAT
1 ATTTTTAAATTTT--AAAT
18440253 ATTTTTAAATTTTAAAT
1 ATTTTTAAATTTTAAAT
18440270 ATTTTTAAA----AAAT
1 ATTTTTAAATTTTAAAT
18440283 AGTTTTTATATATTTTTTAAA-
1 A-TTTTTA-A-A--TTTTAAAT
18440304 ATTTTTAAATTTTAAA
1 ATTTTTAAATTTTAAA
18440320 AATTAATTAA
Statistics
Matches: 58, Mismatches: 0, Indels: 21
0.73 0.00 0.27
Matches are distributed among these distances:
13 5 0.09
14 6 0.10
15 1 0.02
16 8 0.14
17 13 0.22
18 1 0.02
19 14 0.24
20 6 0.10
21 1 0.02
22 3 0.05
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (17 bp):
ATTTTTAAATTTTAAAT
Found at i:18443090 original size:6 final size:6
Alignment explanation
Indices: 18443079--18443107 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
18443069 TAGTATAAGG
18443079 TTTTTA TTTTTA TTTTTA TTTTTA TTTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTT
18443108 TCTAAAAATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (6 bp):
TTTTTA
Found at i:18444903 original size:12 final size:12
Alignment explanation
Indices: 18444886--18444921 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
18444876 AAGGTCACTC
18444886 TTTTTTATTTCG
1 TTTTTTATTTCG
**
18444898 TTTTTTATTTAT
1 TTTTTTATTTCG
18444910 TTTTTTATTTCG
1 TTTTTTATTTCG
18444922 AAATATAAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.11, C:0.06, G:0.06, T:0.78
Consensus pattern (12 bp):
TTTTTTATTTCG
Found at i:18445600 original size:12 final size:12
Alignment explanation
Indices: 18445583--18445622 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
18445573 TTATTTAACC
*
18445583 TTATTATTGCTA
1 TTATTATTACTA
18445595 TTATTATTACTA
1 TTATTATTACTA
*
18445607 TTATTAATTATTA
1 TTATT-ATTACTA
18445620 TTA
1 TTA
18445623 GTTTTTATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
12 16 0.64
13 9 0.36
ACGTcount: A:0.33, C:0.05, G:0.03, T:0.60
Consensus pattern (12 bp):
TTATTATTACTA
Found at i:18447029 original size:20 final size:20
Alignment explanation
Indices: 18447004--18447044 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
18446994 ATATATTAAG
18447004 TAAATTAATTTCAATTATAT
1 TAAATTAATTTCAATTATAT
18447024 TAAATTAATTTCAATTATAT
1 TAAATTAATTTCAATTATAT
18447044 T
1 T
18447045 TAGAGGAGGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (20 bp):
TAAATTAATTTCAATTATAT
Found at i:18449990 original size:20 final size:19
Alignment explanation
Indices: 18449944--18450001 Score: 62
Period size: 20 Copynumber: 2.8 Consensus size: 19
18449934 CATGTTTAAT
*
18449944 TATTTATATTTATAATTAATA
1 TATTTATATTT-TAA-TAAAA
18449965 TAATTTATTATTTTAATAAAA
1 T-ATTTA-TATTTTAATAAAA
18449986 TATTTAATATTTTAAT
1 TATTT-ATATTTTAAT
18450002 TTATTTAAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
20 13 0.39
21 7 0.21
22 8 0.24
23 5 0.15
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
TATTTATATTTTAATAAAA
Found at i:18451240 original size:110 final size:110
Alignment explanation
Indices: 18451001--18451407 Score: 658
Period size: 110 Copynumber: 3.7 Consensus size: 110
18450991 GATAAACGAG
* *
18451001 AAATCGAAACCCAGCACCTTAGGGCACG-TTCCTCGAATTTCCAAACGCAAAACATTGCCTTATT
1 AAATCGACACCCAGCACCTTAGGGCACGTTTTCTCGAATTTCCAAACGCAAAACATTGCCTTATT
* * *
18451065 TTGAAATTTTT--GAAGGGATATTTAGCTATTTGGTTGAATGAGAA
66 TTGAAATTTTTAAGAA-GGATATTAAGCCATTTGGTTGAACGAGAA
* * *
18451109 AAATCGACACCCAGCACCTTAGGACATGTTTTCTCAAATTTCCAAACGCAAAACATTGCCTTATT
1 AAATCGACACCCAGCACCTTAGGGCACGTTTTCTCGAATTTCCAAACGCAAAACATTGCCTTATT
*
18451174 TTGAAATTTTTAAGAAGGATATTAAGCCATTTTGTTGAACGAGAA
66 TTGAAATTTTTAAGAAGGATATTAAGCCATTTGGTTGAACGAGAA
*
18451219 AAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACGCAAAACATTGCCTTATT
1 AAATCGACACCCAGCACCTTAGGGCACGTTTTCTCGAATTTCCAAACGCAAAACATTGCCTTATT
18451284 TTGAAATTTTTAAGAAGGATATTAAGCCATTTGGTTGAACGAGAA
66 TTGAAATTTTTAAGAAGGATATTAAGCCATTTGGTTGAACGAGAA
**
18451329 AAATCGACACCCAATACCTTAGGGCACGTTTTCTCGAATTTCCCAAACGCAAAACATTGCCTTAT
1 AAATCGACACCCAGCACCTTAGGGCACGTTTTCTCGAATTT-CCAAACGCAAAACATTGCCTTAT
*
18451394 TTTAAAATTTTTAA
65 TTTGAAATTTTTAA
18451408 TTTTGAAGTA
Statistics
Matches: 279, Mismatches: 16, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
108 25 0.09
109 45 0.16
110 170 0.61
111 39 0.14
ACGTcount: A:0.34, C:0.20, G:0.15, T:0.31
Consensus pattern (110 bp):
AAATCGACACCCAGCACCTTAGGGCACGTTTTCTCGAATTTCCAAACGCAAAACATTGCCTTATT
TTGAAATTTTTAAGAAGGATATTAAGCCATTTGGTTGAACGAGAA
Found at i:18457812 original size:15 final size:16
Alignment explanation
Indices: 18457792--18457822 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
18457782 GTGTTTGTTG
18457792 AAGCTG-AGGCAAATA
1 AAGCTGCAGGCAAATA
18457807 AAGCTGCAGGCAAATA
1 AAGCTGCAGGCAAATA
18457823 TGATAATGCC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.45, C:0.16, G:0.26, T:0.13
Consensus pattern (16 bp):
AAGCTGCAGGCAAATA
Found at i:18462942 original size:21 final size:22
Alignment explanation
Indices: 18462913--18462954 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
18462903 ATTAAATAAA
*
18462913 TAACTAAAAAT-TTATAAATAT
1 TAACAAAAAATATTATAAATAT
18462934 TAACAAAAAATAATTATAAAT
1 TAACAAAAAAT-ATTATAAAT
18462955 TATAAACCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 10 0.56
23 8 0.44
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (22 bp):
TAACAAAAAATATTATAAATAT
Found at i:18462956 original size:21 final size:21
Alignment explanation
Indices: 18462899--18462956 Score: 50
Period size: 21 Copynumber: 2.7 Consensus size: 21
18462889 TTGGTCCAAT
*
18462899 AATAATTAAATAAA-TAACTAAA
1 AATAATT--ATAAATTAACAAAA
18462921 AAT--TTATAAATATTAACAAAA
1 AATAATTAT-AA-ATTAACAAAA
18462942 AATAATTATAAATTA
1 AATAATTATAAATTA
18462957 TAAACCAATT
Statistics
Matches: 30, Mismatches: 1, Indels: 11
0.71 0.02 0.26
Matches are distributed among these distances:
18 2 0.07
19 2 0.07
20 3 0.10
21 14 0.47
22 5 0.17
23 4 0.13
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (21 bp):
AATAATTATAAATTAACAAAA
Found at i:18465291 original size:28 final size:28
Alignment explanation
Indices: 18465244--18465301 Score: 80
Period size: 28 Copynumber: 2.1 Consensus size: 28
18465234 TATTTTTTTT
* *
18465244 ACCCTGAATCTAGAATCTTGAACCCTAA
1 ACCCTAAATCTAGAACCTTGAACCCTAA
* *
18465272 ACCCTAAATCTCGAACCTTGAACCTTAA
1 ACCCTAAATCTAGAACCTTGAACCCTAA
18465300 AC
1 AC
18465302 TCGTAACCCT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.36, C:0.31, G:0.09, T:0.24
Consensus pattern (28 bp):
ACCCTAAATCTAGAACCTTGAACCCTAA
Found at i:18465295 original size:21 final size:21
Alignment explanation
Indices: 18465244--18465314 Score: 65
Period size: 21 Copynumber: 3.4 Consensus size: 21
18465234 TATTTTTTTT
* *
18465244 ACCCTGAA-TCTAGAATCTTGA
1 ACCCTGAACCCTA-AATCTCGA
*
18465265 ACCCTAAACCCTAAATCTCGA
1 ACCCTGAACCCTAAATCTCGA
* *
18465286 ACCTTGAACCTTAAA-CTCGTA
1 ACCCTGAACCCTAAATCTCG-A
18465307 ACCCTGAA
1 ACCCTGAA
18465315 TCTTAAACCC
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
20 4 0.10
21 34 0.83
22 3 0.07
ACGTcount: A:0.35, C:0.31, G:0.10, T:0.24
Consensus pattern (21 bp):
ACCCTGAACCCTAAATCTCGA
Found at i:18465319 original size:21 final size:20
Alignment explanation
Indices: 18465263--18465322 Score: 66
Period size: 21 Copynumber: 2.9 Consensus size: 20
18465253 CTAGAATCTT
* *
18465263 GAACCCTAAACCCTAAATCTC
1 GAACCCTGAACCTTAAA-CTC
*
18465284 GAACCTTGAACCTTAAACTC
1 GAACCCTGAACCTTAAACTC
*
18465304 GTAACCCTGAATCTTAAAC
1 G-AACCCTGAACCTTAAAC
18465323 CCTGAATCCA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
20 4 0.12
21 29 0.88
ACGTcount: A:0.37, C:0.32, G:0.08, T:0.23
Consensus pattern (20 bp):
GAACCCTGAACCTTAAACTC
Found at i:18468126 original size:32 final size:32
Alignment explanation
Indices: 18468065--18468126 Score: 81
Period size: 31 Copynumber: 1.9 Consensus size: 32
18468055 ACTCAAATAT
* *
18468065 AATTTATAAGTTTAGAGTTTAATTAAATTTAA
1 AATTTATAAATTTAGAGTTTAAATAAATTTAA
*
18468097 AATTTA-AAATTTAGAGTTTAAGATGAATTT
1 AATTTATAAATTTAGAGTTTAA-ATAAATTT
18468127 TGTGTTGATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
31 14 0.54
32 12 0.46
ACGTcount: A:0.44, C:0.00, G:0.11, T:0.45
Consensus pattern (32 bp):
AATTTATAAATTTAGAGTTTAAATAAATTTAA
Found at i:18473414 original size:11 final size:11
Alignment explanation
Indices: 18473398--18473422 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
18473388 TAAAGAAGGG
18473398 ATTTATTTATA
1 ATTTATTTATA
18473409 ATTTATTTATA
1 ATTTATTTATA
18473420 ATT
1 ATT
18473423 AATATTTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (11 bp):
ATTTATTTATA
Found at i:18474096 original size:10 final size:10
Alignment explanation
Indices: 18474079--18474162 Score: 77
Period size: 10 Copynumber: 8.8 Consensus size: 10
18474069 ATTTTTTTTC
18474079 TAATTTTTAA
1 TAATTTTTAA
*
18474089 TAAATTTT-A
1 TAATTTTTAA
*
18474098 -AATTTTTTA
1 TAATTTTTAA
* *
18474107 TATTTTTTAC
1 TAATTTTTAA
*
18474117 TAAATTTTAA
1 TAATTTTTAA
18474127 TAATTTTT-A
1 TAATTTTTAA
*
18474136 TGATTTTTAA
1 TAATTTTTAA
*
18474146 TAGTTTTT-A
1 TAATTTTTAA
18474155 TAATTTTT
1 TAATTTTT
18474163 TTGCCACATG
Statistics
Matches: 58, Mismatches: 13, Indels: 7
0.74 0.17 0.09
Matches are distributed among these distances:
8 6 0.10
9 18 0.31
10 34 0.59
ACGTcount: A:0.33, C:0.01, G:0.02, T:0.63
Consensus pattern (10 bp):
TAATTTTTAA
Found at i:18474104 original size:28 final size:28
Alignment explanation
Indices: 18474072--18474163 Score: 103
Period size: 29 Copynumber: 3.2 Consensus size: 28
18474062 TTTTTACATT
*
18474072 TTTTTTCTAATTTTTAATAAATTTTAAA
1 TTTTTTATAATTTTTAATAAATTTTAAA
* *
18474100 TTTTTTATATTTTTTACTAAATTTTAATA
1 TTTTTTATAATTTTTAATAAATTTTAA-A
* * **
18474129 ATTTTTATGATTTTTAATAGTTTTTATAA
1 TTTTTTATAATTTTTAATAAATTTTA-AA
18474158 TTTTTT
1 TTTTTT
18474164 TGCCACATGT
Statistics
Matches: 52, Mismatches: 10, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
28 24 0.46
29 27 0.52
30 1 0.02
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.65
Consensus pattern (28 bp):
TTTTTTATAATTTTTAATAAATTTTAAA
Found at i:18474113 original size:38 final size:39
Alignment explanation
Indices: 18474062--18474162 Score: 107
Period size: 38 Copynumber: 2.6 Consensus size: 39
18474052 TTTTTTACTG
*
18474062 TTTTTACATTTTTTTTCTAATTTTTAATAAATTTTA-AAT
1 TTTTTATA-TTTTTTTCTAATTTTTAATAAATTTTATAAT
* * * *
18474101 TTTTTATATTTTTTACTAAATTTTAATAATTTTTATGAT
1 TTTTTATATTTTTTTCTAATTTTTAATAAATTTTATAAT
* * *
18474140 TTTTAATA-GTTTTTATAATTTTT
1 TTTTTATATTTTTTTCTAATTTTT
18474163 TTGCCACATG
Statistics
Matches: 51, Mismatches: 10, Indels: 3
0.80 0.16 0.05
Matches are distributed among these distances:
38 35 0.69
39 16 0.31
ACGTcount: A:0.30, C:0.03, G:0.02, T:0.65
Consensus pattern (39 bp):
TTTTTATATTTTTTTCTAATTTTTAATAAATTTTATAAT
Found at i:18474162 original size:9 final size:9
Alignment explanation
Indices: 18474073--18474162 Score: 74
Period size: 9 Copynumber: 9.6 Consensus size: 9
18474063 TTTTACATTT
*
18474073 TTTTTCTAA
1 TTTTTATAA
18474082 TTTTTAATAA
1 TTTTT-ATAA
*
18474092 ATTTTA-AA
1 TTTTTATAA
*
18474100 TTTTTTATAT
1 -TTTTTATAA
18474110 TTTTTACTAAA
1 TTTTTA-T-AA
*
18474121 TTTTAATAA
1 TTTTTATAA
*
18474130 TTTTTATGA
1 TTTTTATAA
*
18474139 TTTTTAATAG
1 TTTTT-ATAA
18474149 TTTTTATAA
1 TTTTTATAA
18474158 TTTTT
1 TTTTT
18474163 TTGCCACATG
Statistics
Matches: 64, Mismatches: 11, Indels: 12
0.74 0.13 0.14
Matches are distributed among these distances:
8 2 0.03
9 39 0.61
10 17 0.27
11 6 0.09
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.64
Consensus pattern (9 bp):
TTTTTATAA
Found at i:18474246 original size:13 final size:13
Alignment explanation
Indices: 18474228--18474252 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18474218 AGAGGCAATC
18474228 AACTTTAACAGTT
1 AACTTTAACAGTT
18474241 AACTTTAACAGT
1 AACTTTAACAGT
18474253 AAAATGGCTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.16, G:0.08, T:0.36
Consensus pattern (13 bp):
AACTTTAACAGTT
Found at i:18474356 original size:94 final size:93
Alignment explanation
Indices: 18474258--18474450 Score: 205
Period size: 93 Copynumber: 2.1 Consensus size: 93
18474248 ACAGTAAAAT
* * * ** *
18474258 GGCTTTTTTAATATATTTTGAAAGTTCAAGTACC-CTTTAAAGTGCAAAAAAAACAA-AGGGGCT
1 GGCTTTTTTAATACACTTTAAAAGTTCAAGTACCAAATT-AAGTGCAAAAAAAA-AAGAGGGACT
* *
18474321 TAATTGTTTTTCTTTTTGAA-AAAGTTTGAGG
64 TAATTGCTTTT-TTTTTAAACAAAGTTTGA-G
* * *
18474352 GGC-TTTTTGATACACTTTAAAAGTTTAAGTACCAAATTGAGTGCAAAAAAAAAAGTAGGGACTT
1 GGCTTTTTTAATACACTTTAAAAGTTCAAGTACCAAATTAAGTGCAAAAAAAAAAG-AGGGACTT
*
18474416 AATTGCTTTTTTTTTAAACAAATTTTGAG
65 AATTGCTTTTTTTTTAAACAAAGTTTGAG
18474445 GGCTTT
1 GGCTTT
18474451 ATATTTTTTA
Statistics
Matches: 82, Mismatches: 12, Indels: 10
0.79 0.12 0.10
Matches are distributed among these distances:
92 2 0.02
93 49 0.60
94 31 0.38
ACGTcount: A:0.35, C:0.10, G:0.18, T:0.38
Consensus pattern (93 bp):
GGCTTTTTTAATACACTTTAAAAGTTCAAGTACCAAATTAAGTGCAAAAAAAAAAGAGGGACTTA
ATTGCTTTTTTTTTAAACAAAGTTTGAG
Found at i:18474375 original size:93 final size:92
Alignment explanation
Indices: 18474278--18474450 Score: 208
Period size: 93 Copynumber: 1.9 Consensus size: 92
18474268 ATATATTTTG
** * * *
18474278 AAAGTTCAAGTACC-CTTTAAAGTGCAAAAAAAACAA-AGGGGCTTAATTGTTTTTCTTTTTGAA
1 AAAGTTCAAGTACCAAATT-AAGTGCAAAAAAAA-AAGAGGGACTTAATTGCTTTT-TTTTTAAA
18474341 -AAAGTTTGAGGGGCTTTTTGATACACTTTA
63 CAAAGTTTGA-GGGCTTTTTGATACACTTTA
* *
18474371 AAAGTTTAAGTACCAAATTGAGTGCAAAAAAAAAAGTAGGGACTTAATTGCTTTTTTTTTAAACA
1 AAAGTTCAAGTACCAAATTAAGTGCAAAAAAAAAAG-AGGGACTTAATTGCTTTTTTTTTAAACA
*
18474436 AATTTTGAGGGCTTT
65 AAGTTTGAGGGCTTT
18474451 ATATTTTTTA
Statistics
Matches: 68, Mismatches: 8, Indels: 8
0.81 0.10 0.10
Matches are distributed among these distances:
92 2 0.03
93 40 0.59
94 26 0.38
ACGTcount: A:0.36, C:0.10, G:0.18, T:0.35
Consensus pattern (92 bp):
AAAGTTCAAGTACCAAATTAAGTGCAAAAAAAAAAGAGGGACTTAATTGCTTTTTTTTTAAACAA
AGTTTGAGGGCTTTTTGATACACTTTA
Found at i:18478065 original size:33 final size:33
Alignment explanation
Indices: 18478023--18478088 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
18478013 CTCGCCAAGA
*
18478023 GGTTTTTTCTCTTTGTCCAAACTCATGGCTGAC
1 GGTTTTTTCTCTTTGTCCAAACTCACGGCTGAC
18478056 GGTTTTTTCTCTTTGTCCAAACTCACGGCTGAC
1 GGTTTTTTCTCTTTGTCCAAACTCACGGCTGAC
18478089 CAGTCAAGAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.15, C:0.26, G:0.18, T:0.41
Consensus pattern (33 bp):
GGTTTTTTCTCTTTGTCCAAACTCACGGCTGAC
Found at i:18482436 original size:10 final size:10
Alignment explanation
Indices: 18482421--18482475 Score: 51
Period size: 10 Copynumber: 5.6 Consensus size: 10
18482411 TATAAAATCA
18482421 TAAAAATATT
1 TAAAAATATT
*
18482431 TAAAAAT-TA
1 TAAAAATATT
*
18482440 TAAAAATGTT
1 TAAAAATATT
18482450 TAAAAA-ATT
1 TAAAAATATT
**
18482459 GCAAAATATT
1 TAAAAATATT
18482469 ATAAAAA
1 -TAAAAA
18482476 AAATAGCAAA
Statistics
Matches: 35, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
9 14 0.40
10 17 0.49
11 4 0.11
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.33
Consensus pattern (10 bp):
TAAAAATATT
Found at i:18482442 original size:19 final size:19
Alignment explanation
Indices: 18482414--18482455 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
18482404 ATATTTATAT
18482414 AAAATCATAAAAATATTTA
1 AAAATCATAAAAATATTTA
* *
18482433 AAAATTATAAAAATGTTTA
1 AAAATCATAAAAATATTTA
18482452 AAAA
1 AAAA
18482456 ATTGCAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.31
Consensus pattern (19 bp):
AAAATCATAAAAATATTTA
Found at i:18482479 original size:22 final size:22
Alignment explanation
Indices: 18482451--18482516 Score: 68
Period size: 20 Copynumber: 3.2 Consensus size: 22
18482441 AAAAATGTTT
18482451 AAAAAATTGCAAAATATTATAA
1 AAAAAATTGCAAAATATTATAA
*
18482473 AAAAAATAGC-AAA-ATTATAA
1 AAAAAATTGCAAAATATTATAA
* * *
18482493 AACAAACT-AAAAATA-TATAA
1 AAAAAATTGCAAAATATTATAA
18482513 AAAA
1 AAAA
18482517 GTTATAAGCC
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
20 23 0.64
21 4 0.11
22 9 0.25
ACGTcount: A:0.70, C:0.06, G:0.03, T:0.21
Consensus pattern (22 bp):
AAAAAATTGCAAAATATTATAA
Found at i:18485930 original size:31 final size:32
Alignment explanation
Indices: 18485871--18485935 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
18485861 GGCAAATTAC
18485871 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
18485903 AAGAGTAATTGAATCCTAAT-AAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
18485934 AA
1 AA
18485936 ATTATCTAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 13 0.39
32 20 0.61
ACGTcount: A:0.48, C:0.12, G:0.09, T:0.31
Consensus pattern (32 bp):
AAGAGTAATTGAATCCTAATAAAAACTCTTTA
Found at i:18498574 original size:33 final size:33
Alignment explanation
Indices: 18498519--18498631 Score: 147
Period size: 33 Copynumber: 3.4 Consensus size: 33
18498509 GATTTTTTTG
*
18498519 TTTAGGGTTTAGGGTTAGGGTTTTGTTAAAATAA
1 TTTAGGG-TTAGGATTAGGGTTTTGTTAAAATAA
*
18498553 TTTAGGGTTAAGATTAGGGTTTTGTTAAAATAA
1 TTTAGGGTTAGGATTAGGGTTTTGTTAAAATAA
* * *
18498586 TTTAAGTTTAGGGTTTAAGGG-TTTGTTAAAATAA
1 TTTAGGGTTA-GGATT-AGGGTTTTGTTAAAATAA
18498620 TTTAGGGTTAGG
1 TTTAGGGTTAGG
18498632 GTGGTTTAAG
Statistics
Matches: 69, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
33 34 0.49
34 31 0.45
35 4 0.06
ACGTcount: A:0.29, C:0.00, G:0.27, T:0.43
Consensus pattern (33 bp):
TTTAGGGTTAGGATTAGGGTTTTGTTAAAATAA
Found at i:18498616 original size:34 final size:34
Alignment explanation
Indices: 18498519--18498633 Score: 155
Period size: 34 Copynumber: 3.4 Consensus size: 34
18498509 GATTTTTTTG
18498519 TTTAGGGTTTAGGG-TTAGGGTTTTGTTAAAATAA
1 TTTAGGG-TTAGGGTTTAGGGTTTTGTTAAAATAA
* *
18498553 TTTAGGGTTA-AGATTAGGGTTTTGTTAAAATAA
1 TTTAGGGTTAGGGTTTAGGGTTTTGTTAAAATAA
* *
18498586 TTTAAGTTTAGGGTTTAAGGG-TTTGTTAAAATAA
1 TTTAGGGTTAGGGTTT-AGGGTTTTGTTAAAATAA
18498620 TTTAGGGTTAGGGT
1 TTTAGGGTTAGGGT
18498634 GGTTTAAGAG
Statistics
Matches: 71, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
32 1 0.01
33 31 0.44
34 35 0.49
35 4 0.06
ACGTcount: A:0.29, C:0.00, G:0.28, T:0.43
Consensus pattern (34 bp):
TTTAGGGTTAGGGTTTAGGGTTTTGTTAAAATAA
Found at i:18498749 original size:34 final size:34
Alignment explanation
Indices: 18498662--18498784 Score: 137
Period size: 34 Copynumber: 3.7 Consensus size: 34
18498652 AATAAATCAA
**
18498662 GGTTTAGAGTTTTT-TTAAAA-TAATTAAATTAG
1 GGTTTAGAGTTTTTAAAAAAATTAATTAAATTAG
* *
18498694 GTTTTAG-G-GTTTAAAATAAATTAATTAAATTAG
1 GGTTTAGAGTTTTTAAAA-AAATTAATTAAATTAG
*
18498727 GGTTTAGAGTTTTTAAGAAAATTAATTAAATTAG
1 GGTTTAGAGTTTTTAAAAAAATTAATTAAATTAG
**
18498761 GGTTTAGTTTTTTTAAAAATAATT
1 GGTTTAGAGTTTTTAAAAA-AATT
18498785 TTGTGTAGGT
Statistics
Matches: 75, Mismatches: 10, Indels: 9
0.80 0.11 0.10
Matches are distributed among these distances:
30 3 0.04
31 2 0.03
32 9 0.12
33 18 0.24
34 33 0.44
35 10 0.13
ACGTcount: A:0.39, C:0.00, G:0.15, T:0.46
Consensus pattern (34 bp):
GGTTTAGAGTTTTTAAAAAAATTAATTAAATTAG
Found at i:18499068 original size:125 final size:124
Alignment explanation
Indices: 18498838--18499352 Score: 622
Period size: 124 Copynumber: 4.1 Consensus size: 124
18498828 GATTTTAGTT
* * ** * * * * *
18498838 TTTTTCTACAATATTTCAGAAAAATTAATTTTGAGAATACGGTTCTGAA-AAGATAATGTCAAAA
1 TTTTTCTACAGTAGTTCCTAAAAAATAATTTTGAGAAGACGATTCTGAACAA-ATAGTGTAAAAA
* * * ** *
18498902 ACGCTTCAAGCAGAATGCACTGTCATCAAAATTACTGAAAAAAGCTCAAACGTAGACGCTA
65 ACGCTTCAAGCAGGATGCACTGTCAGCAAAAATACTGAAAAAAGCTCCCACGT-GACGCTC
* *
18498963 TTTTTCTACAGTAGTTCCTAAAAAATAATTTTGAGAAGACGATTATGAACAAAT-GTGTTAAAAA
1 TTTTTCTACAGTAGTTCCTAAAAAATAATTTTGAGAAGACGATTCTGAACAAATAGTGTAAAAAA
* * *
18499027 CGCTTCAAGCAGGATGCACTGTCAGTAAAAATATTGAAAAAAGCTCCCACGTGGACACTC
66 CGCTTCAAGCAGGATGCACTGTCAGCAAAAATACTGAAAAAAGCTCCCACGT-GACGCTC
*
18499087 TTTTTCTACAGTAGTTCCTAAAAAATAATTTTGAGAAGACGATTCTGAACAAATGGTGTAAAAAA
1 TTTTTCTACAGTAGTTCCTAAAAAATAATTTTGAGAAGACGATTCTGAACAAATAGTGTAAAAAA
* * * *
18499152 TGCTTTAAGCAAGATGCACTGTCAGCAAAAATACTGAAAAAAAGCTCCCACATTGACGCTC
66 CGCTTCAAGCAGGATGCACTGTCAGCAAAAATACTG-AAAAAAGCTCCCAC-GTGACGCTC
* * * *
18499213 TTTTTTCTACAGTAGTTCCTAAAAAAATAATTTTGAGAAGATGGTTCTGAATAAATTGTGTAAAA
1 -TTTTTCTACAGTAGTTCCT-AAAAAATAATTTTGAGAAGACGATTCTGAACAAATAGTGTAAAA
* * * * *
18499278 AATGCTTCAAGCAGGATGCACTGTTAGCAAAATTGA-TGAAAAAAGCTCTCACGTGAATGCTC
64 AACGCTTCAAGCAGGATGCACTGTCAGCAAAAAT-ACTGAAAAAAGCTCCCACGTG-ACGCTC
18499340 TTTTTCTACAGTA
1 TTTTTCTACAGTA
18499353 ATTTTTGTTT
Statistics
Matches: 342, Mismatches: 40, Indels: 15
0.86 0.10 0.04
Matches are distributed among these distances:
124 111 0.32
125 83 0.24
126 37 0.11
127 38 0.11
128 72 0.21
129 1 0.00
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.29
Consensus pattern (124 bp):
TTTTTCTACAGTAGTTCCTAAAAAATAATTTTGAGAAGACGATTCTGAACAAATAGTGTAAAAAA
CGCTTCAAGCAGGATGCACTGTCAGCAAAAATACTGAAAAAAGCTCCCACGTGACGCTC
Found at i:18499459 original size:57 final size:57
Alignment explanation
Indices: 18499371--18499485 Score: 185
Period size: 57 Copynumber: 2.0 Consensus size: 57
18499361 TTGGCCTTAT
* *
18499371 GCTATAAATGAGCCAAATTTCATTATCAGGTTGTATAAGTTACAGCAAGAAAAATTA
1 GCTATAAATGAGCCAAATTTCATTATCAGGTTGCATAAGCTACAGCAAGAAAAATTA
* * *
18499428 GCTATAAATGAGCCAAATTTTATTCTCAGGTTGCATAAGCTATAGCAAGAAAAATTA
1 GCTATAAATGAGCCAAATTTCATTATCAGGTTGCATAAGCTACAGCAAGAAAAATTA
18499485 G
1 G
18499486 AGAGGCTAAG
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
57 53 1.00
ACGTcount: A:0.41, C:0.13, G:0.17, T:0.30
Consensus pattern (57 bp):
GCTATAAATGAGCCAAATTTCATTATCAGGTTGCATAAGCTACAGCAAGAAAAATTA
Found at i:18501378 original size:18 final size:18
Alignment explanation
Indices: 18501352--18501394 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
18501342 GACTGGAAAA
* *
18501352 AGGAAACATATAAGGGTT
1 AGGATACATATAAGGGCT
*
18501370 AGGATACATATAAGTGCT
1 AGGATACATATAAGGGCT
18501388 AGGATAC
1 AGGATAC
18501395 TCACCTGCCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.42, C:0.09, G:0.26, T:0.23
Consensus pattern (18 bp):
AGGATACATATAAGGGCT
Found at i:18504855 original size:3 final size:3
Alignment explanation
Indices: 18504811--18504835 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
18504801 CAAGACATAG
18504811 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
18504836 CTTATTAGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:18506283 original size:17 final size:19
Alignment explanation
Indices: 18506261--18506295 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
18506251 CTAAAATAGT
18506261 AACAAAA-TTA-ACAATAA
1 AACAAAAGTTATACAATAA
18506278 AACAAAAGTTATACAATA
1 AACAAAAGTTATACAATA
18506296 TCCAAACAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 3 0.19
19 6 0.38
ACGTcount: A:0.66, C:0.11, G:0.03, T:0.20
Consensus pattern (19 bp):
AACAAAAGTTATACAATAA
Found at i:18506702 original size:26 final size:28
Alignment explanation
Indices: 18506651--18506702 Score: 72
Period size: 26 Copynumber: 1.9 Consensus size: 28
18506641 AGTTAATAAA
*
18506651 TTCTCTTTGAGTTTTCTTTTTCAAGAAT
1 TTCTCTTTGAGTTTTCTTTTACAAGAAT
*
18506679 TTCTC-TTGAG-TTTCTTTTAGAAGA
1 TTCTCTTTGAGTTTTCTTTTACAAGA
18506703 GTTTTAATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 12 0.55
27 5 0.23
28 5 0.23
ACGTcount: A:0.19, C:0.13, G:0.13, T:0.54
Consensus pattern (28 bp):
TTCTCTTTGAGTTTTCTTTTACAAGAAT
Found at i:18517697 original size:18 final size:18
Alignment explanation
Indices: 18517657--18517690 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
18517647 AGATTATTTT
18517657 TAAAAATTTATAAAATTA
1 TAAAAATTTATAAAATTA
18517675 TAAAAA-TTA-AAAATTA
1 TAAAAATTTATAAAATTA
18517691 AATAAAAGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 3 0.19
18 6 0.38
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (18 bp):
TAAAAATTTATAAAATTA
Found at i:18519176 original size:32 final size:31
Alignment explanation
Indices: 18519127--18519186 Score: 77
Period size: 32 Copynumber: 1.9 Consensus size: 31
18519117 GATTTATTAT
18519127 TTAAAAAATTTATATTATAATATTTGAATAAA
1 TTAAAAAATTTATATTATAATA-TTGAATAAA
* *
18519159 TTAAAATATTT-TAATTATATTATTGAAT
1 TTAAAAAATTTAT-ATTATAATATTGAAT
18519187 CAATGGAGAG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
31 7 0.28
32 18 0.72
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (31 bp):
TTAAAAAATTTATATTATAATATTGAATAAA
Found at i:18522965 original size:96 final size:89
Alignment explanation
Indices: 18522859--18523032 Score: 242
Period size: 96 Copynumber: 1.9 Consensus size: 89
18522849 ATTTATTATT
* *
18522859 TGTTTTATAATATTTTTTTATTCAAA-ATTTTTTTTTGAATTTTTTTAAAAAATTATTTATTATT
1 TGTTTTATAATATTTGTTTATTCAAACATTTTTTTTT--A-TTTTTT--AAAA-TATTTATTA-G
18522923 TGTTTTATAATATTGTAAATGCATATTTTAAA
59 T-TTTTATAATATTGTAAATGCATATTTTAAA
18522955 TGTTTTATAATATTTGTTTATTCAAACATTTTTTTTTATTTTTTAAAATATTTATTAGTTTTTAT
1 TGTTTTATAATATTTGTTTATTCAAACATTTTTTTTTATTTTTTAAAATATTTATTAGTTTTTAT
*
18523020 AATATTTTAAATG
66 AATATTGTAAATG
18523033 TTTTATAATA
Statistics
Matches: 74, Mismatches: 3, Indels: 9
0.86 0.03 0.10
Matches are distributed among these distances:
89 18 0.24
90 1 0.01
91 9 0.12
92 4 0.05
94 6 0.08
95 1 0.01
96 25 0.34
97 10 0.14
ACGTcount: A:0.32, C:0.02, G:0.05, T:0.60
Consensus pattern (89 bp):
TGTTTTATAATATTTGTTTATTCAAACATTTTTTTTTATTTTTTAAAATATTTATTAGTTTTTAT
AATATTGTAAATGCATATTTTAAA
Found at i:18523027 original size:10 final size:10
Alignment explanation
Indices: 18523014--18523046 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
18523004 ATTTATTAGT
18523014 TTTTATAATA
1 TTTTATAATA
*
18523024 TTTTA-AATG
1 TTTTATAATA
18523033 TTTTATAATA
1 TTTTATAATA
18523043 TTTT
1 TTTT
18523047 TTATTCAAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
9 8 0.40
10 12 0.60
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (10 bp):
TTTTATAATA
Found at i:18523117 original size:9 final size:10
Alignment explanation
Indices: 18523093--18523127 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
18523083 ATTTATTATT
18523093 TATTTTATAA
1 TATTTTATAA
18523103 TATTTTA-AA
1 TATTTTATAA
*
18523112 TGTTTTATAA
1 TATTTTATAA
18523122 TATTTT
1 TATTTT
18523128 TTATTCAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
9 8 0.36
10 14 0.64
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (10 bp):
TATTTTATAA
Found at i:18523155 original size:80 final size:80
Alignment explanation
Indices: 18522945--18523189 Score: 376
Period size: 81 Copynumber: 3.1 Consensus size: 80
18522935 TTGTAAATGC
* *
18522945 ATATTTTAAATGTTTTATAATATTTGTTTATTCAAACATTTTTTT---TTAT-TTTTTAAAATAT
1 ATATTTTAAATGTTTTATAATATTT-TTTATTCAAACGTTTTTTTAAATT-TGTTTTTAAATTAT
*
18523006 TTATTA-GT-TTTTATA
64 TTATTATTTATTTTATA
*
18523021 ATATTTTAAATGTTTTATAATATTTTTTATTCAAACGTTTTTTTAAAATTTGTTTTTTAATTATT
1 ATATTTTAAATGTTTTATAATATTTTTTATTCAAACGTTTTTTT-AAATTTGTTTTTAAATTATT
18523086 TATTATTTATTTTATA
65 TATTATTTATTTTATA
18523102 ATATTTTAAATGTTTTATAATATTTTTTATTCAAACGTTTTTTTAAATTTGTTTTTAAATTATTT
1 ATATTTTAAATGTTTTATAATATTTTTTATTCAAACGTTTTTTTAAATTTGTTTTTAAATTATTT
18523167 ATTATTTATTTTATA
66 ATTATTTATTTTATA
18523182 ATAATTTT
1 AT-ATTTT
18523190 TATTCAAACG
Statistics
Matches: 156, Mismatches: 5, Indels: 11
0.91 0.03 0.06
Matches are distributed among these distances:
75 18 0.12
76 25 0.16
78 1 0.01
79 18 0.12
80 38 0.24
81 56 0.36
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.62
Consensus pattern (80 bp):
ATATTTTAAATGTTTTATAATATTTTTTATTCAAACGTTTTTTTAAATTTGTTTTTAAATTATTT
ATTATTTATTTTATA
Found at i:18523178 original size:21 final size:21
Alignment explanation
Indices: 18523154--18523193 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
18523144 TTAAATTTGT
*
18523154 TTTTA-AATTATTTATTATTTA
1 TTTTATAATAATTT-TTATTTA
18523175 TTTTATAATAATTTTTATT
1 TTTTATAATAATTTTTATT
18523194 CAAACGTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (21 bp):
TTTTATAATAATTTTTATTTA
Found at i:18525237 original size:196 final size:196
Alignment explanation
Indices: 18524896--18525294 Score: 620
Period size: 196 Copynumber: 2.0 Consensus size: 196
18524886 ATTTCTCTTT
* * * *
18524896 TAGCTTCAACCCAAATTTTTAAAGTCATACCAAATTTTTTATGGATATTAAAATTCCTATTTAAA
1 TAGCTTGAACCCAAATTTTTAAAGTCATACCAAAATTTCTATGGATATCAAAATTCCTATTTAAA
* * * * *
18524961 TATCAAAATTTCCCCTTTCTCACCCGTACGAGTTTGTATCAAAATTTCTAACGCTATACTAATAT
66 GATCAAAATTTCCCCTTTCTCACCCGTAAGAGCTTCTATCAAAATTTCTAACGCTATACTAATAC
** * * *
18525026 TTTTAATGAAACCATTAGATTTTTTGGTATATTAAAATTCTTTTTTGTAGCTTGTAGTCTCACCA
131 TTTTAATGAAACCATTAGATAGTTTGGTATATTAAAATTCTCTTTTCTAGCTCGTAGTCTCACCA
18525091 A
196 A
18525092 TAGCTTGAACCCAAATTTTTAAAGTCATACCAAAATTTCTATGGATATCAAAATTCCTAATTT-A
1 TAGCTTGAACCCAAATTTTTAAAGTCATACCAAAATTTCTATGGATATCAAAATTCCT-ATTTAA
* * *
18525156 AGATCAAAATTTTCCCTTTCTCGCCCGTAAGAGCTTCTATCAAAATTTCTAACGCTATACTACTA
65 AGATCAAAATTTCCCCTTTCTCACCCGTAAGAGCTTCTATCAAAATTTCTAACGCTATACTAATA
*
18525221 CTTTTAATGAAACCATTAGATAGTTTGGTATATTAAAATTCTCTTTTCTAGCTCGTGGTCTCACC
130 CTTTTAATGAAACCATTAGATAGTTTGGTATATTAAAATTCTCTTTTCTAGCTCGTAGTCTCACC
18525286 AA
195 AA
18525288 TAGCTTG
1 TAGCTTG
18525295 TCTATGGATA
Statistics
Matches: 184, Mismatches: 18, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
196 180 0.98
197 4 0.02
ACGTcount: A:0.32, C:0.19, G:0.10, T:0.39
Consensus pattern (196 bp):
TAGCTTGAACCCAAATTTTTAAAGTCATACCAAAATTTCTATGGATATCAAAATTCCTATTTAAA
GATCAAAATTTCCCCTTTCTCACCCGTAAGAGCTTCTATCAAAATTTCTAACGCTATACTAATAC
TTTTAATGAAACCATTAGATAGTTTGGTATATTAAAATTCTCTTTTCTAGCTCGTAGTCTCACCA
A
Found at i:18532867 original size:15 final size:16
Alignment explanation
Indices: 18532843--18532875 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
18532833 CAACTCTTAT
18532843 AATAAACCAAA-TCAA
1 AATAAACCAAATTCAA
*
18532858 AATAACCCAAATTCAA
1 AATAAACCAAATTCAA
18532874 AA
1 AA
18532876 AACTTTTAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.64, C:0.21, G:0.00, T:0.15
Consensus pattern (16 bp):
AATAAACCAAATTCAA
Found at i:18533968 original size:51 final size:51
Alignment explanation
Indices: 18533906--18534005 Score: 182
Period size: 51 Copynumber: 2.0 Consensus size: 51
18533896 CAACAATGGA
* *
18533906 TGCATTCATCACTAAAGATCCATCATCACCCTTTGCTTCTTTCTTTTCTTC
1 TGCATTAATCACTAAAGATCCATCATCACCCTTTGCCTCTTTCTTTTCTTC
18533957 TGCATTAATCACTAAAGATCCATCATCACCCTTTGCCTCTTTCTTTTCT
1 TGCATTAATCACTAAAGATCCATCATCACCCTTTGCCTCTTTCTTTTCT
18534006 ATTTCTTCAT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 47 1.00
ACGTcount: A:0.21, C:0.31, G:0.06, T:0.42
Consensus pattern (51 bp):
TGCATTAATCACTAAAGATCCATCATCACCCTTTGCCTCTTTCTTTTCTTC
Found at i:18538193 original size:25 final size:25
Alignment explanation
Indices: 18538165--18538212 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
18538155 CAGAAACTGT
18538165 CAGCATCGTATTTGTATTGAAATTA
1 CAGCATCGTATTTGTATTGAAATTA
*
18538190 CAGCATCTTATTTGTATTGAAAT
1 CAGCATCGTATTTGTATTGAAAT
18538213 ATGTATGAGG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.31, C:0.12, G:0.15, T:0.42
Consensus pattern (25 bp):
CAGCATCGTATTTGTATTGAAATTA
Found at i:18542995 original size:28 final size:28
Alignment explanation
Indices: 18542964--18543020 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
18542954 GCTTAATTAC
* *
18542964 AAATGTGTTAAAATTATTAATTAAAAAT
1 AAATGTGTTAAAAATACTAATTAAAAAT
* * *
18542992 AAATTTTTTAAAAATACTAATTACAAAT
1 AAATGTGTTAAAAATACTAATTAAAAAT
18543020 A
1 A
18543021 TTTAATGGTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.54, C:0.04, G:0.04, T:0.39
Consensus pattern (28 bp):
AAATGTGTTAAAAATACTAATTAAAAAT
Found at i:18549694 original size:6 final size:6
Alignment explanation
Indices: 18549683--18549707 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
18549673 TATGAAAGAA
18549683 AGAAAG AGAAAG AGAAAG AGAAAG A
1 AGAAAG AGAAAG AGAAAG AGAAAG A
18549708 AATGCATGGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (6 bp):
AGAAAG
Found at i:18550882 original size:109 final size:109
Alignment explanation
Indices: 18550704--18551113 Score: 667
Period size: 109 Copynumber: 3.8 Consensus size: 109
18550694 ATATTTGGCA
* * **
18550704 ATTTGGTTAAACGAGAAAAATCGACACCCAGCACCTTAGGGTATGTTTTCTCAAATTTCCAAATA
1 ATTTGGTTAAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACG
*
18550769 CAAAACATTGTCTTATTTTAAAATTTTTAAAAGGATATTAAGCC
66 CAAAACATTGCCTTATTTTAAAATTTTTAAAAGGATATTAAGCC
*
18550813 ATTTGGTTAAACGAGAAAAATCGACACCCAGCACCTTATGGCATGTTTTCTCGAATTTCCAAACG
1 ATTTGGTTAAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACG
18550878 CAAAACATTGCCTTATTTTAAAATTTTTAAAAGGATATTAAGCC
66 CAAAACATTGCCTTATTTTAAAATTTTTAAAAGGATATTAAGCC
* *
18550922 ATTTGGTTGAACGAGAAAAATCGACACACAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACG
1 ATTTGGTTAAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACG
* * * *
18550987 CAAAACATTGCCTTATTTTGAAATTTTTAGAAGGATATTTAGCT
66 CAAAACATTGCCTTATTTTAAAATTTTTAAAAGGATATTAAGCC
* * *
18551031 ATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCACGTTTTCTCGAATTTCCAAATG
1 ATTTGGTTAAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACG
* *
18551096 CTAAATATTGCCTTATTT
66 CAAAACATTGCCTTATTT
18551114 AGAAAAGTTT
Statistics
Matches: 283, Mismatches: 18, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
109 283 1.00
ACGTcount: A:0.34, C:0.19, G:0.15, T:0.32
Consensus pattern (109 bp):
ATTTGGTTAAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACG
CAAAACATTGCCTTATTTTAAAATTTTTAAAAGGATATTAAGCC
Found at i:18551171 original size:21 final size:21
Alignment explanation
Indices: 18551145--18551184 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
18551135 GTACGATGTT
18551145 AATATGCATAATG-AAATAATA
1 AATATG-ATAATGTAAATAATA
18551166 AATATGATAATGTAAATAA
1 AATATGATAATGTAAATAA
18551185 ACATAATACA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.57, C:0.03, G:0.10, T:0.30
Consensus pattern (21 bp):
AATATGATAATGTAAATAATA
Found at i:18551355 original size:18 final size:19
Alignment explanation
Indices: 18551334--18551377 Score: 54
Period size: 18 Copynumber: 2.3 Consensus size: 19
18551324 CAATAACAAC
*
18551334 AAATAATGAAAAT-AAATA
1 AAATAATCAAAATAAAATA
*
18551352 AAATTATCAAAATAAAAATA
1 AAATAATCAAAAT-AAAATA
18551372 AAATAA
1 AAATAA
18551378 AATTTATGTA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
18 11 0.52
20 10 0.48
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.23
Consensus pattern (19 bp):
AAATAATCAAAATAAAATA
Found at i:18552794 original size:10 final size:10
Alignment explanation
Indices: 18552766--18552800 Score: 52
Period size: 10 Copynumber: 3.3 Consensus size: 10
18552756 GGCCATCTGA
18552766 TTTGGGTTTG
1 TTTGGGTTTG
18552776 TAATTGGGTTTG
1 T--TTGGGTTTG
18552788 TTTGGGTTTG
1 TTTGGGTTTG
18552798 TTT
1 TTT
18552801 AAGTGTACTG
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
10 13 0.57
12 10 0.43
ACGTcount: A:0.06, C:0.00, G:0.34, T:0.60
Consensus pattern (10 bp):
TTTGGGTTTG
Found at i:18553626 original size:3 final size:3
Alignment explanation
Indices: 18553611--18553660 Score: 84
Period size: 3 Copynumber: 16.7 Consensus size: 3
18553601 CAATGACCGA
18553611 TAT TAT TGA- TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
18553656 TAT TA
1 TAT TA
18553661 GAAATTTGCT
Statistics
Matches: 45, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
2 1 0.02
3 43 0.96
4 1 0.02
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:18561740 original size:4 final size:4
Alignment explanation
Indices: 18561731--18561755 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
18561721 ATATTCTGTG
18561731 ACAT ACAT ACAT ACAT ACAT ACAT A
1 ACAT ACAT ACAT ACAT ACAT ACAT A
18561756 TTGTTTTAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.52, C:0.24, G:0.00, T:0.24
Consensus pattern (4 bp):
ACAT
Found at i:18568289 original size:18 final size:20
Alignment explanation
Indices: 18568259--18568316 Score: 77
Period size: 18 Copynumber: 3.0 Consensus size: 20
18568249 AAATATTAAA
*
18568259 AAATATTTTTTTATAATTTT
1 AAATAATTTTTTATAATTTT
18568279 -AATAA-TTTTTA-AATTTT
1 AAATAATTTTTTATAATTTT
18568296 AAATAATTTTTTATAACTTTT
1 AAATAATTTTTTATAA-TTTT
18568317 TTGAATCTTA
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
17 6 0.18
18 11 0.33
19 10 0.30
20 2 0.06
21 4 0.12
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (20 bp):
AAATAATTTTTTATAATTTT
Found at i:18568316 original size:11 final size:10
Alignment explanation
Indices: 18568265--18568318 Score: 51
Period size: 9 Copynumber: 5.6 Consensus size: 10
18568255 TAAAAAATAT
18568265 TTTTTTATAA
1 TTTTTTATAA
*
18568275 -TTTTAATAA
1 TTTTTTATAA
18568284 -TTTTTA-AA
1 TTTTTTATAA
**
18568292 TTTTAAATAA
1 TTTTTTATAA
18568302 TTTTTTATAA
1 TTTTTTATAA
18568312 CTTTTTT
1 -TTTTTT
18568319 GAATCTTAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
8 2 0.06
9 17 0.49
10 10 0.29
11 6 0.17
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (10 bp):
TTTTTTATAA
Found at i:18579235 original size:19 final size:18
Alignment explanation
Indices: 18579200--18579235 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
18579190 GAAGGAGGCA
*
18579200 ATGATTGAAGAAATCAAC
1 ATGATTGAAAAAATCAAC
18579218 ATGATTGAAAAGAATCAA
1 ATGATTGAAAA-AATCAA
18579236 ACCTGAAATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.53, C:0.08, G:0.17, T:0.22
Consensus pattern (18 bp):
ATGATTGAAAAAATCAAC
Found at i:18588832 original size:54 final size:54
Alignment explanation
Indices: 18588759--18588874 Score: 153
Period size: 54 Copynumber: 2.1 Consensus size: 54
18588749 TTTACTTATT
* * *
18588759 TTTAAAATATCACATTATGGATT-TTAAAATAATTGTTTCTTTCACTATTTTTCA
1 TTTAAAACATCACATTATGG-TTATTAAAATAACTATTTCTTTCACTATTTTTCA
* * *
18588813 TTTAAAACATCATATTATGGTTATTAAAATAACTATTTCTTTTATTATTTTTCA
1 TTTAAAACATCACATTATGGTTATTAAAATAACTATTTCTTTCACTATTTTTCA
18588867 TTTGAAAA
1 TTT-AAAA
18588875 GAGTAAGTAG
Statistics
Matches: 54, Mismatches: 6, Indels: 3
0.86 0.10 0.05
Matches are distributed among these distances:
53 2 0.04
54 48 0.89
55 4 0.07
ACGTcount: A:0.35, C:0.09, G:0.05, T:0.50
Consensus pattern (54 bp):
TTTAAAACATCACATTATGGTTATTAAAATAACTATTTCTTTCACTATTTTTCA
Found at i:18591476 original size:28 final size:28
Alignment explanation
Indices: 18591444--18591531 Score: 69
Period size: 28 Copynumber: 3.1 Consensus size: 28
18591434 ATATGTATAA
18591444 ACATAATTATATAAAATTCATTCCATAC
1 ACATAATTATATAAAATTCATTCCATAC
* * *
18591472 ACATACA-AAGT-TACATACTT-ATGT--ATAA
1 ACATA-ATTA-TATA-A-AATTCAT-TCCATAC
18591500 ACATAATTATATAAAATTCATTCCATAC
1 ACATAATTATATAAAATTCATTCCATAC
18591528 ACAT
1 ACAT
18591532 GCAAAGTTAC
Statistics
Matches: 44, Mismatches: 6, Indels: 20
0.63 0.09 0.29
Matches are distributed among these distances:
26 4 0.09
27 5 0.11
28 26 0.59
29 5 0.11
30 4 0.09
ACGTcount: A:0.47, C:0.17, G:0.02, T:0.34
Consensus pattern (28 bp):
ACATAATTATATAAAATTCATTCCATAC
Found at i:18591521 original size:56 final size:56
Alignment explanation
Indices: 18591435--18591569 Score: 261
Period size: 56 Copynumber: 2.4 Consensus size: 56
18591425 AAGTGTATCA
18591435 TATGTATAAACATAATTATATAAAATTCATTCCATACACATACAAAGTTACATACT
1 TATGTATAAACATAATTATATAAAATTCATTCCATACACATACAAAGTTACATACT
*
18591491 TATGTATAAACATAATTATATAAAATTCATTCCATACACATGCAAAGTTACATACT
1 TATGTATAAACATAATTATATAAAATTCATTCCATACACATACAAAGTTACATACT
18591547 TATGTATAAACATAATTATATAA
1 TATGTATAAACATAATTATATAA
18591570 TACTATCATT
Statistics
Matches: 78, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
56 78 1.00
ACGTcount: A:0.47, C:0.14, G:0.04, T:0.35
Consensus pattern (56 bp):
TATGTATAAACATAATTATATAAAATTCATTCCATACACATACAAAGTTACATACT
Found at i:18595205 original size:205 final size:205
Alignment explanation
Indices: 18594853--18595262 Score: 793
Period size: 205 Copynumber: 2.0 Consensus size: 205
18594843 GATGAAATCT
18594853 AGGTGAATTCTTTCTTATGTATTGTTTTGCTTCTTAGTTGTTAATCGATTATTTTCGTGTTTTTT
1 AGGTGAATTCTTTCTTATGTATTGTTTTGCTTCTTAGTTGTTAATCGATTATTTTCGTGTTTTTT
18594918 GTTCTTTTTCGTGTTCGTTAGTTAATAAAATTAGTTATTTTTAATTTTTAATTAATCACTCGAAT
66 GTTCTTTTTCGTGTTCGTTAGTTAATAAAATTAGTTATTTTTAATTTTTAATTAATCACTCGAAT
*
18594983 TATTCAATTAAATAATATAAAGACAATAATTACTAGTACTTTTAGTCTTCGTGGAAATGATATCT
131 TATTCAATTAAATAATATAAAGACAATAATTACTAGTACTTTTAGTCTTCGTGGAAATGATATAT
18595048 TTGCTCACTA
196 TTGCTCACTA
*
18595058 AGGTGAATTCTTTCTTATGTATTGTTTTGCTTCTTGGTTGTTAATCGATTATTTTCGTGTTTTTT
1 AGGTGAATTCTTTCTTATGTATTGTTTTGCTTCTTAGTTGTTAATCGATTATTTTCGTGTTTTTT
18595123 GTTCTTTTTCGTGTTCGTTAGTTAATAAAATTAGTTATTTTTAATTTTTAATTAATCACTCGAAT
66 GTTCTTTTTCGTGTTCGTTAGTTAATAAAATTAGTTATTTTTAATTTTTAATTAATCACTCGAAT
*
18595188 TATTCGATTAAATAATATAAAGACAATAATTACTAGTACTTTTAGTCTTCGTGGAAATGATATAT
131 TATTCAATTAAATAATATAAAGACAATAATTACTAGTACTTTTAGTCTTCGTGGAAATGATATAT
18595253 TTGCTCACTA
196 TTGCTCACTA
18595263 TAGCTATACT
Statistics
Matches: 202, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
205 202 1.00
ACGTcount: A:0.27, C:0.10, G:0.13, T:0.49
Consensus pattern (205 bp):
AGGTGAATTCTTTCTTATGTATTGTTTTGCTTCTTAGTTGTTAATCGATTATTTTCGTGTTTTTT
GTTCTTTTTCGTGTTCGTTAGTTAATAAAATTAGTTATTTTTAATTTTTAATTAATCACTCGAAT
TATTCAATTAAATAATATAAAGACAATAATTACTAGTACTTTTAGTCTTCGTGGAAATGATATAT
TTGCTCACTA
Found at i:18602096 original size:20 final size:20
Alignment explanation
Indices: 18602059--18602098 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
18602049 CGTAAAATGA
**
18602059 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATAATTTACT
*
18602079 TTTCTGTAAAATAATTTACT
1 TTTCTGGAAAATAATTTACT
18602099 ATAAAATATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.30, C:0.10, G:0.10, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATAATTTACT
Found at i:18608268 original size:41 final size:41
Alignment explanation
Indices: 18608222--18608299 Score: 156
Period size: 41 Copynumber: 1.9 Consensus size: 41
18608212 AATGGTTAAC
18608222 ATGCAAATGTGACAAACAAAAACCCAAAAATCGATTTAGGT
1 ATGCAAATGTGACAAACAAAAACCCAAAAATCGATTTAGGT
18608263 ATGCAAATGTGACAAACAAAAACCCAAAAATCGATTT
1 ATGCAAATGTGACAAACAAAAACCCAAAAATCGATTT
18608300 GGGTTGTACA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.50, C:0.18, G:0.13, T:0.19
Consensus pattern (41 bp):
ATGCAAATGTGACAAACAAAAACCCAAAAATCGATTTAGGT
Found at i:18609786 original size:131 final size:132
Alignment explanation
Indices: 18609621--18609862 Score: 378
Period size: 131 Copynumber: 1.8 Consensus size: 132
18609611 ATTTATGTCA
* * *
18609621 TTTCCATATTTAAAACAATGAAAACCTGAAATTTAGTTTCAGTTTTAGTCTGGGTTTTTCTCCTT
1 TTTCCATATTTAAAACAAAGAAAACCCGAAATTTAGTTTCAGTTTTAGTCTGGGTTTTGCTCCTT
* *
18609686 CTTTAAAAAACATTCCATTTTCTAAGTGAAAAATCTGAAATTTTGTAGGCACTTTTGGCTCTAAT
66 CTTTAAAAAACATTCCATTTTCAAAGTGAAAAATCTCAAATTTTGTAGGCACTTTTGGCTCTAAT
18609751 TG
131 TG
* * *
18609753 TTTCCAT-TTTTAATCAAAGAAAACCCGAAATTTAGTTTCAGTTTTGGTCTGGGTTTTGCTCCTT
1 TTTCCATATTTAAAACAAAGAAAACCCGAAATTTAGTTTCAGTTTTAGTCTGGGTTTTGCTCCTT
* * *
18609817 CTTTAAAAAAGATTCCTTTTTCAAAGTGAAAAATCTCAACTTTTGT
66 CTTTAAAAAACATTCCATTTTCAAAGTGAAAAATCTCAAATTTTGT
18609863 GGGGGAGTTT
Statistics
Matches: 99, Mismatches: 11, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
131 92 0.93
132 7 0.07
ACGTcount: A:0.30, C:0.16, G:0.13, T:0.42
Consensus pattern (132 bp):
TTTCCATATTTAAAACAAAGAAAACCCGAAATTTAGTTTCAGTTTTAGTCTGGGTTTTGCTCCTT
CTTTAAAAAACATTCCATTTTCAAAGTGAAAAATCTCAAATTTTGTAGGCACTTTTGGCTCTAAT
TG
Found at i:18613647 original size:4 final size:4
Alignment explanation
Indices: 18613638--18613668 Score: 55
Period size: 4 Copynumber: 8.0 Consensus size: 4
18613628 TGCGAACTTC
18613638 AATT AATT AATT AATT AATT AATT AA-T AATT
1 AATT AATT AATT AATT AATT AATT AATT AATT
18613669 CGAAAAACTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.12
4 23 0.88
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (4 bp):
AATT
Found at i:18620451 original size:19 final size:19
Alignment explanation
Indices: 18620414--18620452 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
18620404 ACAAATGTTG
*
18620414 AATTAAAAACAAGTGAATA
1 AATTAAAAACAAGTCAATA
* *
18620433 AATTAAGAACAATTCAATA
1 AATTAAAAACAAGTCAATA
18620452 A
1 A
18620453 TGAGAAAACG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.62, C:0.08, G:0.08, T:0.23
Consensus pattern (19 bp):
AATTAAAAACAAGTCAATA
Found at i:18620543 original size:9 final size:10
Alignment explanation
Indices: 18620527--18620552 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
18620517 TATAATCAAT
18620527 ATTTTTTTCG
1 ATTTTTTTCG
18620537 ATTTTTTTCG
1 ATTTTTTTCG
18620547 ATTTTT
1 ATTTTT
18620553 GTTGAACAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.12, C:0.08, G:0.08, T:0.73
Consensus pattern (10 bp):
ATTTTTTTCG
Found at i:18621571 original size:6 final size:6
Alignment explanation
Indices: 18621539--18621606 Score: 70
Period size: 6 Copynumber: 11.7 Consensus size: 6
18621529 AAAGCAACTA
* *
18621539 AAAACA AAAACA AAAAC- AAAA-G TAAAACG AAAACG AAAACG AAAACG
1 AAAACG AAAACG AAAACG AAAACG -AAAACG AAAACG AAAACG AAAACG
* *
18621586 AAAAAG AAAAAG AAAA-G AAAA
1 AAAACG AAAACG AAAACG AAAA
18621607 AAACTCAATG
Statistics
Matches: 58, Mismatches: 1, Indels: 7
0.88 0.02 0.11
Matches are distributed among these distances:
5 9 0.16
6 48 0.83
7 1 0.02
ACGTcount: A:0.76, C:0.10, G:0.12, T:0.01
Consensus pattern (6 bp):
AAAACG
Found at i:18621571 original size:18 final size:17
Alignment explanation
Indices: 18621545--18621607 Score: 60
Period size: 17 Copynumber: 3.6 Consensus size: 17
18621535 ACTAAAAACA
18621545 AAAAC-AAAAACAAAAG
1 AAAACGAAAAACAAAAG
18621561 TAAAACG-AAAACGAAAACG
1 -AAAACGAAAAAC-AAAA-G
*
18621580 AAAACGAAAAAGAAAAAG
1 AAAACGAAAAA-CAAAAG
18621598 AAAA-GAAAAA
1 AAAACGAAAAA
18621608 AACTCAATGA
Statistics
Matches: 40, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
17 16 0.40
18 15 0.38
19 9 0.22
ACGTcount: A:0.76, C:0.10, G:0.13, T:0.02
Consensus pattern (17 bp):
AAAACGAAAAACAAAAG
Found at i:18621571 original size:23 final size:24
Alignment explanation
Indices: 18621539--18621601 Score: 65
Period size: 23 Copynumber: 2.6 Consensus size: 24
18621529 AAAGCAACTA
18621539 AAAACAAAAACAAAAAC-AAAAGT
1 AAAACAAAAACAAAAACGAAAAGT
* * *
18621562 AAAACGAAAACGAAAACGAAAACGA
1 AAAACAAAAACAAAAACGAAAA-GT
* *
18621587 AAAAGAAAAAGAAAA
1 AAAACAAAAACAAAA
18621602 GAAAAAAACT
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
23 15 0.48
24 4 0.13
25 12 0.39
ACGTcount: A:0.76, C:0.11, G:0.11, T:0.02
Consensus pattern (24 bp):
AAAACAAAAACAAAAACGAAAAGT
Found at i:18621664 original size:13 final size:12
Alignment explanation
Indices: 18621636--18621678 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
18621626 AAATTAAAGG
* *
18621636 TAATTGTAAGAA
1 TAATAGTAAAAA
18621648 TAATAGTAAAAAA
1 TAATAGT-AAAAA
*
18621661 TAATACTAAAAA
1 TAATAGTAAAAA
18621673 TAATAG
1 TAATAG
18621679 AAATAGCAGA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
12 16 0.62
13 10 0.38
ACGTcount: A:0.60, C:0.02, G:0.09, T:0.28
Consensus pattern (12 bp):
TAATAGTAAAAA
Found at i:18622105 original size:63 final size:64
Alignment explanation
Indices: 18621928--18622094 Score: 205
Period size: 63 Copynumber: 2.6 Consensus size: 64
18621918 TGGCTCACAC
* * *
18621928 GGCCGTGTGTGTTTTCCTTCACTTTTCTCACGTCCATGTGAGATCCCACACGCCCGTGTGGTTA
1 GGCCGTGTGTGTTTTCCTTCACTTCTCACACGCCCATGTGAGATCCCACACGCCCGTGTGGTTA
* * * * *
18621992 GGCCGTGTGTG-TTTCTTTCACTTCTCCCACGCCCATATGAGATCCCACACGTCTG-GTGGCTT-
1 GGCCGTGTGTGTTTTCCTTCACTTCTCACACGCCCATGTGAGATCCCACACGCCCGTGTGG-TTA
* * *
18622054 GGTCGTGTGTGTTTTCCTTCGCTTCTCACACGCCCCTGTGA
1 GGCCGTGTGTGTTTTCCTTCACTTCTCACACGCCCATGTGA
18622095 AACCTCACAC
Statistics
Matches: 88, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
62 14 0.16
63 63 0.72
64 11 0.12
ACGTcount: A:0.11, C:0.31, G:0.23, T:0.34
Consensus pattern (64 bp):
GGCCGTGTGTGTTTTCCTTCACTTCTCACACGCCCATGTGAGATCCCACACGCCCGTGTGGTTA
Found at i:18634161 original size:27 final size:27
Alignment explanation
Indices: 18634106--18634161 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
18634096 ATTCGCCATT
*
18634106 AAGGCTATTCTCTCAGAGTTCACTACA
1 AAGGCTATTCTCTCAGAGTTCACCACA
*
18634133 AAGGCTATTCTCTCAGAGTTCACCGCA
1 AAGGCTATTCTCTCAGAGTTCACCACA
18634160 AA
1 AA
18634162 AGTTTTTTTC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (27 bp):
AAGGCTATTCTCTCAGAGTTCACCACA
Found at i:18636128 original size:12 final size:13
Alignment explanation
Indices: 18636089--18636126 Score: 60
Period size: 12 Copynumber: 3.0 Consensus size: 13
18636079 TACCCTTTGT
*
18636089 ACAAGCCCAATAA
1 ACAAACCCAATAA
18636102 ACAAA-CCAATAA
1 ACAAACCCAATAA
18636114 ACAAACCCAATAA
1 ACAAACCCAATAA
18636127 CACCCTGACC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 12 0.52
13 11 0.48
ACGTcount: A:0.61, C:0.29, G:0.03, T:0.08
Consensus pattern (13 bp):
ACAAACCCAATAA
Found at i:18639886 original size:333 final size:333
Alignment explanation
Indices: 18639521--18640186 Score: 1332
Period size: 333 Copynumber: 2.0 Consensus size: 333
18639511 ATGTGTTATG
18639521 GGATTATTAAATATGCATAAAAAGTATTGTAAAAGTGAAATTGTGGAAAAATATGAAATTTTTAT
1 GGATTATTAAATATGCATAAAAAGTATTGTAAAAGTGAAATTGTGGAAAAATATGAAATTTTTAT
18639586 GATGACAAGGAATAAATTGTTAAACTTGGGAAAATATGTGAATGAAATAATAGAAGTGAAATACA
66 GATGACAAGGAATAAATTGTTAAACTTGGGAAAATATGTGAATGAAATAATAGAAGTGAAATACA
18639651 TAGAAATTTGATATGTGAAACAAGATATTGAGATGAATTATGTGATTAAAGTGTAACAAGAAAGA
131 TAGAAATTTGATATGTGAAACAAGATATTGAGATGAATTATGTGATTAAAGTGTAACAAGAAAGA
18639716 AAATTGATTTAATATGATTAATTAGTGAATATTGAACTTTTATGACAAAAAGGGACTCAATTGAA
196 AAATTGATTTAATATGATTAATTAGTGAATATTGAACTTTTATGACAAAAAGGGACTCAATTGAA
18639781 AAGTTATGAAAGTTTATAAAAATATTTGATAAGTGAAGAATGTAGTAGAGAATGTAACATCCCGG
261 AAGTTATGAAAGTTTATAAAAATATTTGATAAGTGAAGAATGTAGTAGAGAATGTAACATCCCGG
18639846 TGCTTTGA
326 TGCTTTGA
18639854 GGATTATTAAATATGCATAAAAAGTATTGTAAAAGTGAAATTGTGGAAAAATATGAAATTTTTAT
1 GGATTATTAAATATGCATAAAAAGTATTGTAAAAGTGAAATTGTGGAAAAATATGAAATTTTTAT
18639919 GATGACAAGGAATAAATTGTTAAACTTGGGAAAATATGTGAATGAAATAATAGAAGTGAAATACA
66 GATGACAAGGAATAAATTGTTAAACTTGGGAAAATATGTGAATGAAATAATAGAAGTGAAATACA
18639984 TAGAAATTTGATATGTGAAACAAGATATTGAGATGAATTATGTGATTAAAGTGTAACAAGAAAGA
131 TAGAAATTTGATATGTGAAACAAGATATTGAGATGAATTATGTGATTAAAGTGTAACAAGAAAGA
18640049 AAATTGATTTAATATGATTAATTAGTGAATATTGAACTTTTATGACAAAAAGGGACTCAATTGAA
196 AAATTGATTTAATATGATTAATTAGTGAATATTGAACTTTTATGACAAAAAGGGACTCAATTGAA
18640114 AAGTTATGAAAGTTTATAAAAATATTTGATAAGTGAAGAATGTAGTAGAGAATGTAACATCCCGG
261 AAGTTATGAAAGTTTATAAAAATATTTGATAAGTGAAGAATGTAGTAGAGAATGTAACATCCCGG
18640179 TGCTTTGA
326 TGCTTTGA
18640187 CCTGACTTGA
Statistics
Matches: 333, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
333 333 1.00
ACGTcount: A:0.45, C:0.05, G:0.20, T:0.31
Consensus pattern (333 bp):
GGATTATTAAATATGCATAAAAAGTATTGTAAAAGTGAAATTGTGGAAAAATATGAAATTTTTAT
GATGACAAGGAATAAATTGTTAAACTTGGGAAAATATGTGAATGAAATAATAGAAGTGAAATACA
TAGAAATTTGATATGTGAAACAAGATATTGAGATGAATTATGTGATTAAAGTGTAACAAGAAAGA
AAATTGATTTAATATGATTAATTAGTGAATATTGAACTTTTATGACAAAAAGGGACTCAATTGAA
AAGTTATGAAAGTTTATAAAAATATTTGATAAGTGAAGAATGTAGTAGAGAATGTAACATCCCGG
TGCTTTGA
Found at i:18641768 original size:22 final size:23
Alignment explanation
Indices: 18641743--18641807 Score: 69
Period size: 25 Copynumber: 2.7 Consensus size: 23
18641733 TCTTTATTTA
*
18641743 TTTTTTGAATTATAAAA-ATCGT
1 TTTTTTGAATTATAAAATATCAT
*
18641765 TTTTTTGAATTTATAATAATGTCAT
1 TTTTTTGAA-TTATAA-AATATCAT
*
18641790 TTTTTTAAATTAATAAAA
1 TTTTTTGAATT-ATAAAA
18641808 CTCTAAAAGT
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
22 9 0.25
23 6 0.17
24 6 0.17
25 15 0.42
ACGTcount: A:0.38, C:0.03, G:0.06, T:0.52
Consensus pattern (23 bp):
TTTTTTGAATTATAAAATATCAT
Found at i:18642178 original size:19 final size:20
Alignment explanation
Indices: 18642151--18642197 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 20
18642141 TTTCTCTCAA
*
18642151 AAATCTTAAAATT-ATATAT
1 AAATTTTAAAATTAATATAT
* *
18642170 AAATTTT-AATTTAATGTAT
1 AAATTTTAAAATTAATATAT
18642189 AAATTTTAA
1 AAATTTTAA
18642198 TTTAATTTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
18 4 0.17
19 18 0.78
20 1 0.04
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (20 bp):
AAATTTTAAAATTAATATAT
Found at i:18642198 original size:19 final size:19
Alignment explanation
Indices: 18642167--18642203 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
18642157 TAAAATTATA
18642167 TATAAATTTTAATTTAATG
1 TATAAATTTTAATTTAATG
18642186 TATAAATTTTAATTTAAT
1 TATAAATTTTAATTTAAT
18642204 TTAATTGTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (19 bp):
TATAAATTTTAATTTAATG
Found at i:18642417 original size:30 final size:29
Alignment explanation
Indices: 18642383--18642439 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
18642373 AAATTGGATC
* *
18642383 AAATCAAAATTTAATTTATAAAATTGCACA
1 AAATC-AAAGTTAATATATAAAATTGCACA
*
18642413 AAATCAAAGTTCATATATAAAATTGCA
1 AAATCAAAGTTAATATATAAAATTGCA
18642440 TATTAAACTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 19 0.79
30 5 0.21
ACGTcount: A:0.53, C:0.11, G:0.05, T:0.32
Consensus pattern (29 bp):
AAATCAAAGTTAATATATAAAATTGCACA
Found at i:18650916 original size:16 final size:17
Alignment explanation
Indices: 18650884--18650916 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
18650874 GGACAAGTAA
18650884 ATGAAATATGTGATGAT
1 ATGAAATATGTGATGAT
*
18650901 ATGAATTATG-GATGAT
1 ATGAAATATGTGATGAT
18650917 TACAAAGGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.39, C:0.00, G:0.24, T:0.36
Consensus pattern (17 bp):
ATGAAATATGTGATGAT
Found at i:18653307 original size:38 final size:37
Alignment explanation
Indices: 18653265--18653367 Score: 100
Period size: 38 Copynumber: 2.7 Consensus size: 37
18653255 GTCGGTAAAA
* *
18653265 CCAACAATTGTATGTGTGCCCAGCATTGGTTGGT-ATAT
1 CCAACAA-TGTATGTGTGCCCAGCACTAGTTGGTGA-AT
* *
18653303 CCAACGAATATATGTGTGCCCTGCACTAGTTGGTGAAT
1 CCAAC-AATGTATGTGTGCCCAGCACTAGTTGGTGAAT
** *
18653341 CTGACAAATGTATGTGTGCCCAACACT
1 CCAAC-AATGTATGTGTGCCCAGCACT
18653368 GGCCCGTGAA
Statistics
Matches: 53, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
38 50 0.94
39 3 0.06
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.30
Consensus pattern (37 bp):
CCAACAATGTATGTGTGCCCAGCACTAGTTGGTGAAT
Found at i:18657424 original size:6 final size:7
Alignment explanation
Indices: 18657408--18657432 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
18657398 AAAAAAGATA
18657408 TTTTAAT
1 TTTTAAT
18657415 TTTTAAT
1 TTTTAAT
18657422 TTTTAAT
1 TTTTAAT
18657429 TTTT
1 TTTT
18657433 CGGTAAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (7 bp):
TTTTAAT
Found at i:18659780 original size:24 final size:24
Alignment explanation
Indices: 18659721--18659791 Score: 90
Period size: 24 Copynumber: 3.0 Consensus size: 24
18659711 TACTTAGGTA
* *
18659721 ATTTTCCGTCAA-TCGTCATTTAC
1 ATTTTCCGTCAATTCATCCTTTAC
* *
18659744 ATCTTCCGCCAATTCATCCTTTAC
1 ATTTTCCGTCAATTCATCCTTTAC
*
18659768 ATTTTCTGTCAATTCATCCTTTAC
1 ATTTTCCGTCAATTCATCCTTTAC
18659792 CAAATAACAA
Statistics
Matches: 40, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
23 10 0.25
24 30 0.75
ACGTcount: A:0.21, C:0.30, G:0.06, T:0.44
Consensus pattern (24 bp):
ATTTTCCGTCAATTCATCCTTTAC
Found at i:18661262 original size:94 final size:94
Alignment explanation
Indices: 18661093--18661271 Score: 209
Period size: 94 Copynumber: 1.9 Consensus size: 94
18661083 TTGTTACAAG
* * * *
18661093 GGAGATAAGATTCACTATAGTAGAATCAATCCAACCCATTGCAACTTTAGAGGTATAAGATTTAT
1 GGAGATAAGAGTCACTATAGTAGAATCAATCCAACCCACTACAACTTAAGAGGTATAAGATTTAT
*
18661158 AGTTTCAATCTATTCCACTACAATTTCAA
66 AGTTTCAATCTACTCCACTACAATTTCAA
* * * * * * *
18661187 GGAGATAAGAGTCACTATGGTTGATTCAATCCGACCCACTACCACTTCAAG-GGTATAGGATTTG
1 GGAGATAAGAGTCACTATAGTAGAATCAATCCAACCCACTACAACTT-AAGAGGTATAAGATTTA
*
18661251 TAGCTTT-AATCTGCTCCACTA
65 TAG-TTTCAATCTACTCCACTA
18661272 TAACTTCAGT
Statistics
Matches: 70, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
94 65 0.93
95 5 0.07
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.31
Consensus pattern (94 bp):
GGAGATAAGAGTCACTATAGTAGAATCAATCCAACCCACTACAACTTAAGAGGTATAAGATTTAT
AGTTTCAATCTACTCCACTACAATTTCAA
Found at i:18661501 original size:232 final size:232
Alignment explanation
Indices: 18661095--18661568 Score: 578
Period size: 232 Copynumber: 2.0 Consensus size: 232
18661085 GTTACAAGGG
* * *
18661095 AGATAAGATTCACTATAGTAGAATCAATCCAACCCATTGCAACTTTAGAGGTATAAGATTTATAG
1 AGATAAGATTCACTATAGTAGAATCAATCCAACCCACTGCAAATTCAGAGGTATAAGATTTATAG
* * * * * * * *
18661160 TTTCAATCTATTCCACTACAATTTCAAGGAGATAAGAGTCACTATGGTTGATTCAATCCGACCCA
66 CTTCAATCTACTCCACTAAAACTTCAAGGAGATAAGAGTCACTATAGTAGAATCAATCCAACCCA
* * * *
18661225 CTACCACTTCAAGGGTATAGGATTTGTAGCTTTAATCTGCTCCACTATAACTTCAGTGAAATAAG
131 CTACAACTTCAAGGGTATAGGATTTGTAGCTTCAATCTGCTCCACTACAACTTCAGGGAAATAAG
* *
18661290 ATTTGTAGCTTCAGT-CTGTTTAACTGCAACTTC-AGTA
196 ATTTGTAGCTTCA-TCCTGCTCAACTGCAACTTCAAG-A
* * * * * * * *
18661327 AGATAAGATTCGCTATAGTAGATTTAATCCGACCTACTGCAAATTCAGGGGTATAGGATTTGTAG
1 AGATAAGATTCACTATAGTAGAATCAATCCAACCCACTGCAAATTCAGAGGTATAAGATTTATAG
*
18661392 CTTCAATCTACTCCA-TAGAAACTTC-AGTGAGATAAGATTCACTATAGTAGAATCAATCCAACC
66 CTTCAATCTACTCCACTA-AAACTTCAAG-GAGATAAGAGTCACTATAGTAGAATCAATCCAACC
** * * * *
18661455 CACTGTAACTTTAGGGGTATAGGATTTGTAGCTTCAATCTGCTCCACTACAACTTTAGGGAGATA
129 CACTACAACTTCAAGGGTATAGGATTTGTAGCTTCAATCTGCTCCACTACAACTTCAGGGAAATA
* *
18661520 AGATTTGTAGCTTCATCCTGCTCCACTGCAACTTCAAGG
194 AGATTTGTAGCTTCATCCTGCTCAACTGCAACTTCAAGA
18661559 AGATAAGATT
1 AGATAAGATT
18661569 TGTAGCTTCA
Statistics
Matches: 204, Mismatches: 34, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
231 5 0.02
232 197 0.97
233 2 0.01
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.31
Consensus pattern (232 bp):
AGATAAGATTCACTATAGTAGAATCAATCCAACCCACTGCAAATTCAGAGGTATAAGATTTATAG
CTTCAATCTACTCCACTAAAACTTCAAGGAGATAAGAGTCACTATAGTAGAATCAATCCAACCCA
CTACAACTTCAAGGGTATAGGATTTGTAGCTTCAATCTGCTCCACTACAACTTCAGGGAAATAAG
ATTTGTAGCTTCATCCTGCTCAACTGCAACTTCAAGA
Found at i:18661509 original size:44 final size:42
Alignment explanation
Indices: 18661454--18661612 Score: 183
Period size: 44 Copynumber: 3.6 Consensus size: 42
18661444 TCAATCCAAC
* *
18661454 CCACTGTAACTTTAGGGGTATAGGATTTGTAGCTTCAATCTGCT
1 CCACTGCAACTTTAGGGG-ATAAGATTTGTAGCTTC-ATCTGCT
*
18661498 CCACTACAACTTTAGGGAGATAAGATTTGTAGCTTCATCCTGCT
1 CCACTGCAACTTTAGGG-GATAAGATTTGTAGCTTCAT-CTGCT
* *
18661542 CCACTGCAACTTCAAGGAGATAAGATTTGTAGCTTCATCTTGCT
1 CCACTGCAACTT-TAGGGGATAAGATTTGTAGCTTCATC-TGCT
* * *
18661586 TCACTGCAACTTCAGAGAGATAAGATT
1 CCACTGCAACTTTAG-GGGATAAGATT
18661613 CCCTATGGTA
Statistics
Matches: 102, Mismatches: 8, Indels: 10
0.85 0.07 0.08
Matches are distributed among these distances:
43 5 0.05
44 93 0.91
45 4 0.04
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (42 bp):
CCACTGCAACTTTAGGGGATAAGATTTGTAGCTTCATCTGCT
Found at i:18661509 original size:94 final size:94
Alignment explanation
Indices: 18661289--18661524 Score: 294
Period size: 94 Copynumber: 2.5 Consensus size: 94
18661279 AGTGAAATAA
* * ** * * * * *
18661289 GATTTGTAGCTTCAGTCTGTTTAACTGCAACTTCAGTAAGATAAGATTCGCTATAGTAGATTTAA
1 GATTTGTAGCTTCAATCTGCTCCACTACAACTTCAGTGAGATAAGATTCACTATAGTAGAATCAA
* *
18661354 TCCGACCTACTGCAAATTCAGGGGTATAG
66 TCCAACCCACTGCAAATTCAGGGGTATAG
* *
18661383 GATTTGTAGCTTCAATCTACTCCA-TAGAAACTTCAGTGAGATAAGATTCACTATAGTAGAATCA
1 GATTTGTAGCTTCAATCTGCTCCACTA-CAACTTCAGTGAGATAAGATTCACTATAGTAGAATCA
* * *
18661447 ATCCAACCCACTGTAACTTTAGGGGTATAG
65 ATCCAACCCACTGCAAATTCAGGGGTATAG
* *
18661477 GATTTGTAGCTTCAATCTGCTCCACTACAACTTTAGGGAGATAAGATT
1 GATTTGTAGCTTCAATCTGCTCCACTACAACTTCAGTGAGATAAGATT
18661525 TGTAGCTTCA
Statistics
Matches: 120, Mismatches: 20, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
93 1 0.01
94 117 0.98
95 2 0.02
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.32
Consensus pattern (94 bp):
GATTTGTAGCTTCAATCTGCTCCACTACAACTTCAGTGAGATAAGATTCACTATAGTAGAATCAA
TCCAACCCACTGCAAATTCAGGGGTATAG
Found at i:18669668 original size:10 final size:11
Alignment explanation
Indices: 18669636--18669668 Score: 52
Period size: 10 Copynumber: 3.2 Consensus size: 11
18669626 TAATTCATGT
18669636 AATGAAATG-A
1 AATGAAATGAA
18669646 AATGAAATGAA
1 AATGAAATGAA
18669657 AAT-AAATGAA
1 AATGAAATGAA
18669667 AA
1 AA
18669669 AAAGGCATTG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 18 0.82
11 4 0.18
ACGTcount: A:0.67, C:0.00, G:0.15, T:0.18
Consensus pattern (11 bp):
AATGAAATGAA
Found at i:18673655 original size:16 final size:16
Alignment explanation
Indices: 18673636--18673667 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
18673626 AATAGGACGT
18673636 AGTTGTAAAAGTCTTA
1 AGTTGTAAAAGTCTTA
18673652 AGTTGTAAAAGTCTTA
1 AGTTGTAAAAGTCTTA
18673668 GAAACACAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.06, G:0.19, T:0.38
Consensus pattern (16 bp):
AGTTGTAAAAGTCTTA
Found at i:18674401 original size:4 final size:4
Alignment explanation
Indices: 18674392--18674431 Score: 80
Period size: 4 Copynumber: 10.0 Consensus size: 4
18674382 CATAATACCA
18674392 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
18674432 GTGTAATAAC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 36 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (4 bp):
AAAT
Done.