Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167971.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_23, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 19268551
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 68000 characters in sequence are not A, C, G, or T
File 107 of 120
Found at i:15291058 original size:18 final size:19
Alignment explanation
Indices: 15291035--15291070 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
15291025 AATTAATAAT
*
15291035 ATTATT-TTTTTAAAAAAA
1 ATTATTATTATTAAAAAAA
15291053 ATTATTATTATTAAAAAA
1 ATTATTATTATTAAAAAA
15291071 TATAGATCCG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
ATTATTATTATTAAAAAAA
Found at i:15296907 original size:76 final size:76
Alignment explanation
Indices: 15296781--15296930 Score: 239
Period size: 76 Copynumber: 2.0 Consensus size: 76
15296771 TGACCTAATA
* * *
15296781 AATCTCGAATCTCTGTCACTAACAAAAGTTTAAGGAAGGCCCTAATACTTGATTACATGTTTAAA
1 AATCTCGAATCTCTATCACCAACAAAAGTTTAAGGAAGGCCCCAATACTTGATTACATGTTTAAA
15296846 TATTAGCCGTG
66 TATTAGCCGTG
* *
15296857 AATCTCGAATCTCTATCACCGACAAAGGTTTGAA-GAAGGCCCCAATACTTGATTACATGTTTAA
1 AATCTCGAATCTCTATCACCAACAAAAGTTT-AAGGAAGGCCCCAATACTTGATTACATGTTTAA
15296921 ATATTAGCCG
65 ATATTAGCCG
15296931 GGTCGTATCC
Statistics
Matches: 68, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
76 66 0.97
77 2 0.03
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.30
Consensus pattern (76 bp):
AATCTCGAATCTCTATCACCAACAAAAGTTTAAGGAAGGCCCCAATACTTGATTACATGTTTAAA
TATTAGCCGTG
Found at i:15306905 original size:21 final size:20
Alignment explanation
Indices: 15306858--15306913 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 20
15306848 TCTTAACCAT
*
15306858 TTTTAATATATATATATTTTTA
1 TTTTATTAT-TAT-TATTTTTA
*
15306880 -ATTATTATCTATTATTTTTA
1 TTTTATTAT-TATTATTTTTA
15306900 TTTTATTATTATTA
1 TTTTATTATTATTA
15306914 AAACAATTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
20 13 0.45
21 16 0.55
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (20 bp):
TTTTATTATTATTATTTTTA
Found at i:15306909 original size:17 final size:20
Alignment explanation
Indices: 15306819--15306912 Score: 67
Period size: 20 Copynumber: 4.9 Consensus size: 20
15306809 GGAAAAATAA
* *
15306819 TAATAATTATTCTATTATTAT
1 TAATTATTA-TCTATTATTTT
**
15306840 T-ATTATTATCTTAACCATTTT
1 TAATTATTATC-T-ATTATTTT
*
15306861 TAA-TA-TATATA-TATTTT
1 TAATTATTATCTATTATTTT
15306878 TAATTATTATCTATTATTTT
1 TAATTATTATCTATTATTTT
15306898 T-ATT-TTAT-TATTATT
1 TAATTATTATCTATTATT
15306913 AAAACAATTA
Statistics
Matches: 60, Mismatches: 7, Indels: 16
0.72 0.08 0.19
Matches are distributed among these distances:
17 15 0.25
18 7 0.12
19 11 0.18
20 17 0.28
21 9 0.15
22 1 0.02
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (20 bp):
TAATTATTATCTATTATTTT
Found at i:15308149 original size:17 final size:19
Alignment explanation
Indices: 15308127--15308161 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
15308117 AATTAATAAT
15308127 ATTATT-TT-TTAAAAAAA
1 ATTATTATTATTAAAAAAA
15308144 ATTATTATTATTAAAAAA
1 ATTATTATTATTAAAAAA
15308162 TATAGATCCG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 2 0.12
19 8 0.50
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
ATTATTATTATTAAAAAAA
Found at i:15314002 original size:76 final size:76
Alignment explanation
Indices: 15313876--15314023 Score: 235
Period size: 76 Copynumber: 1.9 Consensus size: 76
15313866 TGACCTAATA
* * *
15313876 AATCTCGAATCTCTGTCACTAACAAAAGTTTAAGGAAGGCCCTAATACTTGATTACATGTTTAAA
1 AATCTCGAATCTCTATCACCAACAAAAGTTTAAGGAAGGCCCCAATACTTGATTACATGTTTAAA
15313941 TATTAGCCGTG
66 TATTAGCCGTG
* *
15313952 AATCTCGAATCTCTATCACCGACAAAGGTTTGAA-GAAGGCCCCAATACTTGATTACATGTTTAA
1 AATCTCGAATCTCTATCACCAACAAAAGTTT-AAGGAAGGCCCCAATACTTGATTACATGTTTAA
15314016 ATATTAGC
65 ATATTAGC
15314024 TGGGCCGTAT
Statistics
Matches: 66, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
76 64 0.97
77 2 0.03
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.30
Consensus pattern (76 bp):
AATCTCGAATCTCTATCACCAACAAAAGTTTAAGGAAGGCCCCAATACTTGATTACATGTTTAAA
TATTAGCCGTG
Found at i:15327306 original size:23 final size:21
Alignment explanation
Indices: 15327258--15327297 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
15327248 AATCTAAAAT
*
15327258 AAAATTTATATTATTTAATAA
1 AAAATTTATATTATTAAATAA
15327279 AAAATTTAT-TTATTAAATA
1 AAAATTTATATTATTAAATA
15327298 TATAAAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (21 bp):
AAAATTTATATTATTAAATAA
Found at i:15330291 original size:177 final size:178
Alignment explanation
Indices: 15330077--15330431 Score: 676
Period size: 177 Copynumber: 2.0 Consensus size: 178
15330067 ATAATGTTGG
15330077 ATAAATTAGTTTTTATTTATTTTTGGGTGTATTATGGGTTTTAACATGTTGTTTGGTAAAGAATA
1 ATAAATTAGTTTTTATTTATTTTTGGGTGTATTATGGGTTTTAACATGTTGTTTGGTAAAGAATA
*
15330142 TTGGGTGAATGAGGTTGAGTGTTGTGGTTGGATTTATTATGTTGGAGTGTTTTGGTTGTACAGGA
66 TTGGGTGAATGAGGTTGAATGTTGTGGTTGGATTTATTATGTTGGAGTGTTTTGGTTGTACAGGA
15330207 GTTATAGATACCATTGGTCCTAGTGAGAATTGGATGGAAACGTTTCTA
131 GTTATAGATACCATTGGTCCTAGTGAGAATTGGATGGAAACGTTTCTA
*
15330255 ATAAATTAGTTTTT-TTTATTTTTGGGTGTGTTATGGGTTTTAACATGTTGTTTGGTAAAGAATA
1 ATAAATTAGTTTTTATTTATTTTTGGGTGTATTATGGGTTTTAACATGTTGTTTGGTAAAGAATA
*
15330319 TTGGGTGAATGAGGTTGAATGTTGTGGTTGGATTTATTATTTTGGAGTGTTTTGGTTGTACAGGA
66 TTGGGTGAATGAGGTTGAATGTTGTGGTTGGATTTATTATGTTGGAGTGTTTTGGTTGTACAGGA
15330384 GTTATAGATACCATTGGTCCTAGTGAGAATTGGATGGAAACGTTTCTA
131 GTTATAGATACCATTGGTCCTAGTGAGAATTGGATGGAAACGTTTCTA
15330432 TTTCTAGTTT
Statistics
Matches: 174, Mismatches: 3, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
177 160 0.92
178 14 0.08
ACGTcount: A:0.24, C:0.05, G:0.28, T:0.44
Consensus pattern (178 bp):
ATAAATTAGTTTTTATTTATTTTTGGGTGTATTATGGGTTTTAACATGTTGTTTGGTAAAGAATA
TTGGGTGAATGAGGTTGAATGTTGTGGTTGGATTTATTATGTTGGAGTGTTTTGGTTGTACAGGA
GTTATAGATACCATTGGTCCTAGTGAGAATTGGATGGAAACGTTTCTA
Found at i:15331160 original size:2 final size:2
Alignment explanation
Indices: 15331153--15331200 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
15331143 AGCACATCTA
15331153 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15331195 AT AT AT
1 AT AT AT
15331201 GAGGAGGGAT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15338602 original size:2 final size:2
Alignment explanation
Indices: 15338595--15338621 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
15338585 AAAGGACTAT
15338595 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
15338622 AGAACCATCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:15339263 original size:20 final size:22
Alignment explanation
Indices: 15339234--15339276 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
15339224 GTTCAACCTC
*
15339234 AAAAAGAA-CCCAGACA-AAAA
1 AAAAAAAACCCCAGACAGAAAA
15339254 AAAAAAAACCCCAGACAGAAAA
1 AAAAAAAACCCCAGACAGAAAA
15339276 A
1 A
15339277 GAGAGAGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 7 0.35
21 8 0.40
22 5 0.25
ACGTcount: A:0.70, C:0.21, G:0.09, T:0.00
Consensus pattern (22 bp):
AAAAAAAACCCCAGACAGAAAA
Found at i:15340388 original size:21 final size:21
Alignment explanation
Indices: 15340340--15340390 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
15340330 TTAGGAGTAA
15340340 TAATTTCCATTTATTCTTTTC
1 TAATTTCCATTTATTCTTTTC
** * * *
15340361 TCTTTTCCCTTTATTGTTTTT
1 TAATTTCCATTTATTCTTTTC
15340382 TAATTTCCA
1 TAATTTCCA
15340391 AACTAAAACG
Statistics
Matches: 22, Mismatches: 8, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.16, C:0.20, G:0.02, T:0.63
Consensus pattern (21 bp):
TAATTTCCATTTATTCTTTTC
Found at i:15342298 original size:98 final size:98
Alignment explanation
Indices: 15342186--15342383 Score: 378
Period size: 98 Copynumber: 2.0 Consensus size: 98
15342176 TTTTTTTTAG
*
15342186 TTTCTTTTGGCAGCCTTATTAAAGTTATATTAGTCTATATAATTGCTTGTTATGTAGTAGAATAG
1 TTTCTTTTGGCAGCCTTATTAAAGTTATATTAGTCTATATAATTGCCTGTTATGTAGTAGAATAG
15342251 TGGTGTGCTTCAATGTTATGTCTTGGAGGTTCT
66 TGGTGTGCTTCAATGTTATGTCTTGGAGGTTCT
*
15342284 TTTCTTTTGGCAGCCTTATTAATGTTATATTAGTCTATATAATTGCCTGTTATGTAGTAGAATAG
1 TTTCTTTTGGCAGCCTTATTAAAGTTATATTAGTCTATATAATTGCCTGTTATGTAGTAGAATAG
15342349 TGGTGTGCTTCAATGTTATGTCTTGGAGGTTCT
66 TGGTGTGCTTCAATGTTATGTCTTGGAGGTTCT
15342382 TT
1 TT
15342384 CCAGAGAAAT
Statistics
Matches: 98, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
98 98 1.00
ACGTcount: A:0.22, C:0.11, G:0.21, T:0.46
Consensus pattern (98 bp):
TTTCTTTTGGCAGCCTTATTAAAGTTATATTAGTCTATATAATTGCCTGTTATGTAGTAGAATAG
TGGTGTGCTTCAATGTTATGTCTTGGAGGTTCT
Found at i:15351776 original size:32 final size:32
Alignment explanation
Indices: 15351740--15351846 Score: 103
Period size: 32 Copynumber: 3.3 Consensus size: 32
15351730 AAAACAATCT
*
15351740 TTCAAGTACCACATTAGTTAACAGATTCATAG
1 TTCAAGTACCACATTAGTTAACAAATTCATAG
* * ** * *
15351772 TTCAAGTACCATATTA---AATATTTTTAAAG
1 TTCAAGTACCACATTAGTTAACAAATTCATAG
15351801 TTTAACAAGTACCACATTAGTTAACAAATTCATAG
1 -TT--CAAGTACCACATTAGTTAACAAATTCATAG
15351836 TTCAAGTACCA
1 TTCAAGTACCA
15351847 TATTTGAGAT
Statistics
Matches: 57, Mismatches: 12, Indels: 12
0.70 0.15 0.15
Matches are distributed among these distances:
29 8 0.14
30 2 0.04
32 37 0.65
34 2 0.04
35 8 0.14
ACGTcount: A:0.40, C:0.17, G:0.09, T:0.34
Consensus pattern (32 bp):
TTCAAGTACCACATTAGTTAACAAATTCATAG
Found at i:15351821 original size:64 final size:64
Alignment explanation
Indices: 15351742--15351869 Score: 220
Period size: 64 Copynumber: 2.0 Consensus size: 64
15351732 AACAATCTTT
* *
15351742 CAAGTACCACATTAGTTAACAGATTCATAGTTCAAGTACCATATTAAATATTTTTAAAGTTTAA
1 CAAGTACCACATTAGTTAACAAATTCATAGTTCAAGTACCATATTAAAGATTTTTAAAGTTTAA
**
15351806 CAAGTACCACATTAGTTAACAAATTCATAGTTCAAGTACCATATTTGAGATTTTTAAAGTTTAA
1 CAAGTACCACATTAGTTAACAAATTCATAGTTCAAGTACCATATTAAAGATTTTTAAAGTTTAA
15351870 GTACCACATT
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
64 60 1.00
ACGTcount: A:0.40, C:0.14, G:0.10, T:0.36
Consensus pattern (64 bp):
CAAGTACCACATTAGTTAACAAATTCATAGTTCAAGTACCATATTAAAGATTTTTAAAGTTTAA
Found at i:15352606 original size:2 final size:2
Alignment explanation
Indices: 15352599--15352642 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
15352589 ACCCCCATTA
15352599 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
15352641 TC
1 TC
15352643 ACACACACAC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:15352647 original size:2 final size:2
Alignment explanation
Indices: 15352642--15352677 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
15352632 CTCTCTCTCT
15352642 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
15352678 TACTTACACA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:15362025 original size:24 final size:24
Alignment explanation
Indices: 15361976--15362025 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 24
15361966 CTCTCAATTC
* * *
15361976 AAAATTCAAGCAAAAACCACCTTA
1 AAAATCCAACCAAAAACCACCATA
15362000 AAAATCCAACCAAAAATCCA-CATA
1 AAAATCCAACCAAAAA-CCACCATA
15362024 AA
1 AA
15362026 GAAAAATATT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
24 19 0.86
25 3 0.14
ACGTcount: A:0.58, C:0.26, G:0.02, T:0.14
Consensus pattern (24 bp):
AAAATCCAACCAAAAACCACCATA
Found at i:15362739 original size:22 final size:22
Alignment explanation
Indices: 15362695--15362750 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
15362685 TATAAAAATA
*
15362695 ATTAATAAAATAATTTAAAATTT
1 ATTAA-AAAATTATTTAAAATTT
* **
15362718 TTTAAAAAATTATTTATGATTT
1 ATTAAAAAATTATTTAAAATTT
*
15362740 AATAAAAAATT
1 ATTAAAAAATT
15362751 TTTTTTTTAA
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
22 23 0.85
23 4 0.15
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.45
Consensus pattern (22 bp):
ATTAAAAAATTATTTAAAATTT
Found at i:15364287 original size:35 final size:35
Alignment explanation
Indices: 15364235--15364304 Score: 113
Period size: 35 Copynumber: 2.0 Consensus size: 35
15364225 ATTTAAATAT
* *
15364235 TTATAAATTTTGGTTTGAAAAAATAAAATATAAAA
1 TTATAAACTTTGATTTGAAAAAATAAAATATAAAA
*
15364270 TTATAAACTTTGATTTGAAAAAATAAAGTATAAAA
1 TTATAAACTTTGATTTGAAAAAATAAAATATAAAA
15364305 ACAGTTAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.54, C:0.01, G:0.09, T:0.36
Consensus pattern (35 bp):
TTATAAACTTTGATTTGAAAAAATAAAATATAAAA
Found at i:15365577 original size:12 final size:12
Alignment explanation
Indices: 15365562--15365612 Score: 54
Period size: 12 Copynumber: 4.4 Consensus size: 12
15365552 TAATTAATTT
15365562 TTTAATTTTATA
1 TTTAATTTTATA
15365574 TTTAATTTTATA
1 TTTAATTTTATA
*
15365586 TAT-A-TTTA-A
1 TTTAATTTTATA
*
15365595 TTTTATATTTATA
1 TTTAAT-TTTATA
15365608 TTTAA
1 TTTAA
15365613 AATAATATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
9 3 0.09
10 5 0.16
11 1 0.03
12 18 0.56
13 5 0.16
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (12 bp):
TTTAATTTTATA
Found at i:15365591 original size:16 final size:17
Alignment explanation
Indices: 15365569--15365612 Score: 72
Period size: 16 Copynumber: 2.6 Consensus size: 17
15365559 TTTTTTAATT
15365569 TTATATTTAATTTTATA
1 TTATATTTAATTTTATA
15365586 -TATATTTAATTTTATA
1 TTATATTTAATTTTATA
15365602 TTTATATTTAA
1 -TTATATTTAA
15365613 AATAATATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
16 16 0.64
18 9 0.36
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (17 bp):
TTATATTTAATTTTATA
Found at i:15371239 original size:22 final size:21
Alignment explanation
Indices: 15371209--15371257 Score: 62
Period size: 22 Copynumber: 2.3 Consensus size: 21
15371199 TTTATTTAGT
*
15371209 AAAAAAATTAATTAATTAATG
1 AAAAAAATTAATTAATTAACG
* *
15371230 AAAAATAATTTATTGATTAACG
1 AAAAA-AATTAATTAATTAACG
15371252 AAAAAA
1 AAAAAA
15371258 CAGATAATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 6 0.25
22 18 0.75
ACGTcount: A:0.61, C:0.02, G:0.06, T:0.31
Consensus pattern (21 bp):
AAAAAAATTAATTAATTAACG
Found at i:15371292 original size:15 final size:15
Alignment explanation
Indices: 15371274--15371319 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
15371264 ATTTTTTTAA
15371274 AAAAATTGTTTTATG
1 AAAAATTGTTTTATG
*
15371289 AAAAA-T-TTTTA-A
1 AAAAATTGTTTTATG
*
15371301 AAAAATTGTGTTATG
1 AAAAATTGTTTTATG
15371316 AAAA
1 AAAA
15371320 TTTAAAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 6
0.74 0.09 0.18
Matches are distributed among these distances:
12 5 0.20
13 6 0.24
14 5 0.20
15 9 0.36
ACGTcount: A:0.50, C:0.00, G:0.11, T:0.39
Consensus pattern (15 bp):
AAAAATTGTTTTATG
Found at i:15371303 original size:27 final size:27
Alignment explanation
Indices: 15371267--15371344 Score: 113
Period size: 27 Copynumber: 2.9 Consensus size: 27
15371257 ACAGATAATT
15371267 TTTTTAAAAAAATTGTTTTATGAAAAA
1 TTTTTAAAAAAATTGTTTTATGAAAAA
*
15371294 TTTTTAAAAAAATTGTGTTATG-AAAA
1 TTTTTAAAAAAATTGTTTTATGAAAAA
**
15371320 TTTAAAAAAAAATTTGTTTTATGAA
1 TTTTTAAAAAAA-TTGTTTTATGAA
15371345 TTTGAAAAAA
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
26 14 0.31
27 30 0.67
28 1 0.02
ACGTcount: A:0.47, C:0.00, G:0.09, T:0.44
Consensus pattern (27 bp):
TTTTTAAAAAAATTGTTTTATGAAAAA
Found at i:15371358 original size:27 final size:25
Alignment explanation
Indices: 15371272--15371357 Score: 84
Period size: 27 Copynumber: 3.3 Consensus size: 25
15371262 TAATTTTTTT
* **
15371272 AAAAAAATTGTTTTATGAAAAATTTTT
1 AAAAAAATTGTGTTATG--AAATTTAA
15371299 AAAAAAATTGTGTTATGAAAATTTAA
1 AAAAAAATTGTGTTATG-AAATTTAA
*
15371325 AAAAAAATTTGTTTTATG-AATTTGAA
1 AAAAAAA-TTGTGTTATGAAATTT-AA
15371351 AAAAAAA
1 AAAAAAA
15371358 AGATATTAAA
Statistics
Matches: 53, Mismatches: 4, Indels: 5
0.85 0.06 0.08
Matches are distributed among these distances:
25 5 0.09
26 23 0.43
27 25 0.47
ACGTcount: A:0.53, C:0.00, G:0.09, T:0.37
Consensus pattern (25 bp):
AAAAAAATTGTGTTATGAAATTTAA
Found at i:15371455 original size:22 final size:22
Alignment explanation
Indices: 15371430--15371514 Score: 84
Period size: 22 Copynumber: 3.8 Consensus size: 22
15371420 TTATAATTAA
15371430 TATTATATTAATAAATAAATAT
1 TATTATATTAATAAATAAATAT
* *
15371452 TATTATATTGATAAAT-ATTAT
1 TATTATATTAATAAATAAATAT
* *
15371473 CATATTA-ATTAATAAATATTATAA
1 --TATTATATTAATAAATA-AATAT
*
15371497 TAATATATTAATAAATAA
1 TATTATATTAATAAATAA
15371515 TATAAAAATA
Statistics
Matches: 50, Mismatches: 8, Indels: 10
0.74 0.12 0.15
Matches are distributed among these distances:
21 4 0.08
22 28 0.56
23 16 0.32
24 2 0.04
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.45
Consensus pattern (22 bp):
TATTATATTAATAAATAAATAT
Found at i:15371486 original size:18 final size:17
Alignment explanation
Indices: 15371423--15371518 Score: 62
Period size: 18 Copynumber: 5.8 Consensus size: 17
15371413 ATTTTACTTA
*
15371423 TAATTAATATTATATTAAT
1 TAATAAATATTATA-T-AT
*
15371442 AAATAAATATTATTATAT
1 TAATAAATATTA-TATAT
*
15371460 TGATAAATATTATCATAT
1 TAATAAATATTAT-ATAT
*
15371478 TAATTAATA--A-ATAT
1 TAATAAATATTATATAT
15371492 T-AT-AATA--ATATAT
1 TAATAAATATTATATAT
*
15371505 TAATAAATAATATA
1 TAATAAATATTATA
15371519 AAAATAATAA
Statistics
Matches: 64, Mismatches: 6, Indels: 16
0.74 0.07 0.19
Matches are distributed among these distances:
12 5 0.08
13 7 0.11
14 7 0.11
15 4 0.06
16 1 0.02
17 4 0.06
18 23 0.36
19 11 0.17
20 2 0.03
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.45
Consensus pattern (17 bp):
TAATAAATATTATATAT
Found at i:15371528 original size:9 final size:10
Alignment explanation
Indices: 15371482--15371531 Score: 50
Period size: 9 Copynumber: 4.9 Consensus size: 10
15371472 TCATATTAAT
15371482 TAATAAATATTA
1 TAATAAATA--A
*
15371494 TAATAATATAT
1 TAATAA-ATAA
15371505 TAATAAATAA
1 TAATAAATAA
15371515 T-ATAAA-AA
1 TAATAAATAA
15371523 TAATAAATA
1 TAATAAATA
15371532 GTTTTATTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
8 3 0.09
9 10 0.30
10 5 0.15
11 6 0.18
12 6 0.18
13 3 0.09
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (10 bp):
TAATAAATAA
Found at i:15371680 original size:25 final size:26
Alignment explanation
Indices: 15371615--15371680 Score: 64
Period size: 25 Copynumber: 2.6 Consensus size: 26
15371605 TTTCAATATT
* *
15371615 AATA-ATTTAAATGATAAATAATTTC
1 AATATATTTTAATAATAAATAATTTC
* *
15371640 AATATACTTTAGTAATAAATAATTT-
1 AATATATTTTAATAATAAATAATTTC
**
15371665 TTTATATTTTAATAAT
1 AATATATTTTAATAAT
15371681 TATATTAATA
Statistics
Matches: 32, Mismatches: 8, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
25 16 0.50
26 16 0.50
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (26 bp):
AATATATTTTAATAATAAATAATTTC
Found at i:15371799 original size:20 final size:21
Alignment explanation
Indices: 15371759--15371802 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
15371749 TAACTCATCT
*
15371759 AAATAATAAAAACTCTCTTTC
1 AAATAATAAAAACTATCTTTC
*
15371780 AAATAATATAAA-TATCTTTC
1 AAATAATAAAAACTATCTTTC
15371800 AAA
1 AAA
15371803 AACATTTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 10 0.48
21 11 0.52
ACGTcount: A:0.52, C:0.14, G:0.00, T:0.34
Consensus pattern (21 bp):
AAATAATAAAAACTATCTTTC
Found at i:15382643 original size:26 final size:28
Alignment explanation
Indices: 15382614--15382672 Score: 77
Period size: 26 Copynumber: 2.2 Consensus size: 28
15382604 TTAATTTTTG
*
15382614 ATAATTTTAAATAT-AAAATAT-AAAAA
1 ATAATTTCAAATATAAAAATATGAAAAA
*
15382640 ATAATTTCGAATATAAAAATATGAAAAA
1 ATAATTTCAAATATAAAAATATGAAAAA
*
15382668 GTAAT
1 ATAAT
15382673 AGAAAGGTGT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 12 0.43
27 7 0.25
28 9 0.32
ACGTcount: A:0.61, C:0.02, G:0.05, T:0.32
Consensus pattern (28 bp):
ATAATTTCAAATATAAAAATATGAAAAA
Found at i:15385762 original size:33 final size:36
Alignment explanation
Indices: 15385702--15385771 Score: 101
Period size: 33 Copynumber: 2.0 Consensus size: 36
15385692 ATTCAGGTAG
* *
15385702 TTCTAAATATATATATATAAAAAGATATTTTTTATA
1 TTCTAAATATATATATAGAAAAAGATATTTTCTATA
15385738 TTCTAAATATA-A-A-AGAAAAAGATATTTTCTATA
1 TTCTAAATATATATATAGAAAAAGATATTTTCTATA
15385771 T
1 T
15385772 CAAGGTCTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
33 19 0.59
34 1 0.03
35 1 0.03
36 11 0.34
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.43
Consensus pattern (36 bp):
TTCTAAATATATATATAGAAAAAGATATTTTCTATA
Found at i:15390754 original size:2 final size:2
Alignment explanation
Indices: 15390747--15390777 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
15390737 AATGAGATAG
15390747 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
15390778 TTTCCATTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:15391991 original size:19 final size:19
Alignment explanation
Indices: 15391946--15391992 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
15391936 ATAGTAATTT
15391946 TTTAATTAAAATAATAAAA
1 TTTAATTAAAATAATAAAA
* **
15391965 -ATATATTAAAATTTTAAAA
1 TTTA-ATTAAAATAATAAAA
15391984 TTTAATTAA
1 TTTAATTAA
15391993 GATTACGAGT
Statistics
Matches: 22, Mismatches: 4, Indels: 4
0.73 0.13 0.13
Matches are distributed among these distances:
18 2 0.09
19 18 0.82
20 2 0.09
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (19 bp):
TTTAATTAAAATAATAAAA
Found at i:15397564 original size:3 final size:3
Alignment explanation
Indices: 15397556--15397601 Score: 83
Period size: 3 Copynumber: 15.3 Consensus size: 3
15397546 CATCCAATTC
*
15397556 AAT AAT AAT AAT AAT AAT AAT AAT AAT CAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
15397602 CAACATTAAG
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:15401103 original size:12 final size:12
Alignment explanation
Indices: 15401086--15401110 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
15401076 TATCTCAACC
15401086 ATATGCAACACA
1 ATATGCAACACA
15401098 ATATGCAACACA
1 ATATGCAACACA
15401110 A
1 A
15401111 GTAAGAAAAT
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:0.52, C:0.24, G:0.08, T:0.16
Consensus pattern (12 bp):
ATATGCAACACA
Found at i:15404931 original size:20 final size:20
Alignment explanation
Indices: 15404906--15404945 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
15404896 CATTTAATTT
15404906 TATTTTAA-AATATATTTTAA
1 TATTTTAATAA-ATATTTTAA
15404926 TATTTTAATAAATATTTTAA
1 TATTTTAATAAATATTTTAA
15404946 AAAATAAAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 17 0.89
21 2 0.11
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
TATTTTAATAAATATTTTAA
Found at i:15407966 original size:4 final size:4
Alignment explanation
Indices: 15407957--15407985 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
15407947 AGTTATAAAA
15407957 AAAG AAAG AAAG AAAG AAAG AAAG AAAG A
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG A
15407986 GAGTAGAAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:15411022 original size:25 final size:25
Alignment explanation
Indices: 15410988--15411043 Score: 103
Period size: 25 Copynumber: 2.2 Consensus size: 25
15410978 TCAGTCTAAA
15410988 AATATCTGAATAACAAAGTTATATC
1 AATATCTGAATAACAAAGTTATATC
15411013 AATATCTGAATAACAAAGTTATATC
1 AATATCTGAATAACAAAGTTATATC
*
15411038 TATATC
1 AATATC
15411044 AATGCTAGCG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.46, C:0.12, G:0.07, T:0.34
Consensus pattern (25 bp):
AATATCTGAATAACAAAGTTATATC
Found at i:15415993 original size:17 final size:17
Alignment explanation
Indices: 15415971--15416010 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
15415961 ATAATTAATT
*
15415971 TTTTTTGTAATCCTATC
1 TTTTTTATAATCCTATC
15415988 TTTTTTATAATCCTATC
1 TTTTTTATAATCCTATC
15416005 TTTTTT
1 TTTTTT
15416011 TTTAAATACA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.17, C:0.15, G:0.03, T:0.65
Consensus pattern (17 bp):
TTTTTTATAATCCTATC
Found at i:15420653 original size:14 final size:14
Alignment explanation
Indices: 15420634--15420664 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
15420624 TTGATCTTGT
15420634 ATTAAATATTTGGA
1 ATTAAATATTTGGA
15420648 ATTAAATATTTGGA
1 ATTAAATATTTGGA
15420662 ATT
1 ATT
15420665 GCATTATACG
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:0.42, C:0.00, G:0.13, T:0.45
Consensus pattern (14 bp):
ATTAAATATTTGGA
Found at i:15424912 original size:21 final size:22
Alignment explanation
Indices: 15424883--15424923 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
15424873 TCTTGAATCC
*
15424883 AATCTTATTTTCG-TAAACTAA
1 AATCATATTTTCGATAAACTAA
*
15424904 AATCATATTTTTGATAAACT
1 AATCATATTTTCGATAAACT
15424924 TTAAACTTGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.39, C:0.12, G:0.05, T:0.44
Consensus pattern (22 bp):
AATCATATTTTCGATAAACTAA
Found at i:15428603 original size:2 final size:2
Alignment explanation
Indices: 15428596--15428630 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
15428586 CACATGGTTG
15428596 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
15428631 AAGAGGTGAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:15428786 original size:2 final size:2
Alignment explanation
Indices: 15428779--15428805 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
15428769 ATTAGATCTT
15428779 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
15428806 CATCTAACAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:15429741 original size:26 final size:26
Alignment explanation
Indices: 15429712--15429765 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
15429702 TTGAGCTGTG
15429712 TTGACTGTTATGAACTCTATCTTGAT
1 TTGACTGTTATGAACTCTATCTTGAT
*
15429738 TTGACTTTTATGAACTCTATCTTGAT
1 TTGACTGTTATGAACTCTATCTTGAT
15429764 TT
1 TT
15429766 CAAGATTTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.22, C:0.15, G:0.13, T:0.50
Consensus pattern (26 bp):
TTGACTGTTATGAACTCTATCTTGAT
Found at i:15431609 original size:24 final size:24
Alignment explanation
Indices: 15431558--15431603 Score: 69
Period size: 22 Copynumber: 2.0 Consensus size: 24
15431548 ATAAAGTACA
*
15431558 GATATGAATATGTAATACAAACAT
1 GATATGAATATGTAATACAAAAAT
15431582 GATAT-AATATG-AATACAAAAAT
1 GATATGAATATGTAATACAAAAAT
15431604 TTGATACTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 10 0.48
23 6 0.29
24 5 0.24
ACGTcount: A:0.54, C:0.07, G:0.11, T:0.28
Consensus pattern (24 bp):
GATATGAATATGTAATACAAAAAT
Found at i:15438047 original size:29 final size:30
Alignment explanation
Indices: 15437992--15438068 Score: 86
Period size: 29 Copynumber: 2.6 Consensus size: 30
15437982 ATAAAATTAA
* * *
15437992 ATAATTATTTAAATT-TTTATTATTTTATT
1 ATAATTAATTAAATTCTTAAATATTTTATT
15438021 ATAATTAATTAAATTCTTAAATA-TTTATT
1 ATAATTAATTAAATTCTTAAATATTTTATT
* *
15438050 TTTATTCAATTAAATTCTT
1 ATAATT-AATTAAATTCTT
15438069 TTTAAACATC
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
29 24 0.59
30 17 0.41
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (30 bp):
ATAATTAATTAAATTCTTAAATATTTTATT
Found at i:15438583 original size:2 final size:2
Alignment explanation
Indices: 15438576--15438611 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
15438566 ATTTCTTATT
15438576 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
15438612 CACATTTACA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:15443634 original size:23 final size:24
Alignment explanation
Indices: 15443605--15443653 Score: 75
Period size: 22 Copynumber: 2.1 Consensus size: 24
15443595 AACTTTCATG
*
15443605 AAATTTTTTTAAAAA-AATTT-AT
1 AAATTTTTTAAAAAATAATTTAAT
15443627 AAATTTTTTAAAAAATAATTTAAT
1 AAATTTTTTAAAAAATAATTTAAT
15443651 AAA
1 AAA
15443654 AATTTGATTG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 14 0.58
23 5 0.21
24 5 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (24 bp):
AAATTTTTTAAAAAATAATTTAAT
Found at i:15446026 original size:13 final size:13
Alignment explanation
Indices: 15446004--15446033 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
15445994 AACGGAAACT
*
15446004 CAAAATAATTTTA
1 CAAAAGAATTTTA
15446017 CAAAAGAATTTTA
1 CAAAAGAATTTTA
15446030 CAAA
1 CAAA
15446034 TTAAAGAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.57, C:0.10, G:0.03, T:0.30
Consensus pattern (13 bp):
CAAAAGAATTTTA
Found at i:15446910 original size:23 final size:23
Alignment explanation
Indices: 15446884--15446936 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
15446874 ATTACAATTG
*
15446884 TTAAATTTTAAATCTTAAATTTA
1 TTAAATTTTAAATCTTAAATTAA
* ** *
15446907 TTAAATATTATTTTTTAAATTAA
1 TTAAATTTTAAATCTTAAATTAA
15446930 TTAAATT
1 TTAAATT
15446937 AAACCTCAAA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (23 bp):
TTAAATTTTAAATCTTAAATTAA
Found at i:15448666 original size:71 final size:71
Alignment explanation
Indices: 15448584--15448718 Score: 189
Period size: 71 Copynumber: 1.9 Consensus size: 71
15448574 ATAAAATTTG
* * *
15448584 AATTTAAAATTTATTAAATATCACTTTTTAAAAATATTTAAATTAACTAGATTTTTTATTAATTT
1 AATTTAAAATTTATTAAATATCACTTTTTAAAAACATCTAAACTAACTAGATTTTTTATTAATTT
15448649 TAATTA
66 TAATTA
* * ** * *
15448655 AATTTCAAATTTATTAAATGTTGCTTTTTAAAAACATCTAAACTAACTGGGTTTTTTATTAATT
1 AATTTAAAATTTATTAAATATCACTTTTTAAAAACATCTAAACTAACTAGATTTTTTATTAATT
15448719 CTAAATATTC
Statistics
Matches: 55, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
71 55 1.00
ACGTcount: A:0.40, C:0.07, G:0.04, T:0.49
Consensus pattern (71 bp):
AATTTAAAATTTATTAAATATCACTTTTTAAAAACATCTAAACTAACTAGATTTTTTATTAATTT
TAATTA
Found at i:15448932 original size:61 final size:64
Alignment explanation
Indices: 15448816--15448935 Score: 176
Period size: 61 Copynumber: 1.9 Consensus size: 64
15448806 GTAGATGACA
* *
15448816 AAATGTATTATCAATTATAAAAGACAAAGCCCAAAAAGGAAAAAAAAAATGCAATATGAGCTAT
1 AAATGCATTATAAATTATAAAAGACAAAGCCCAAAAAGGAAAAAAAAAATGCAATATGAGCTAT
*
15448880 AAATGCATTATAAATTAT-AAA-A-AAAGCCC-AAAAGGAAAAAAAAAAATTCAATATGA
1 AAATGCATTATAAATTATAAAAGACAAAGCCCAAAAAGG-AAAAAAAAAATGCAATATGA
15448936 ACTACGTATA
Statistics
Matches: 52, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
60 6 0.12
61 26 0.50
62 1 0.02
63 3 0.06
64 16 0.31
ACGTcount: A:0.59, C:0.10, G:0.11, T:0.20
Consensus pattern (64 bp):
AAATGCATTATAAATTATAAAAGACAAAGCCCAAAAAGGAAAAAAAAAATGCAATATGAGCTAT
Found at i:15450116 original size:17 final size:17
Alignment explanation
Indices: 15450094--15450126 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
15450084 AACTCCCACG
15450094 TAATTTTATCATGTTTA
1 TAATTTTATCATGTTTA
*
15450111 TAATTTTATTATGTTT
1 TAATTTTATCATGTTT
15450127 CCAATCTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.27, C:0.03, G:0.06, T:0.64
Consensus pattern (17 bp):
TAATTTTATCATGTTTA
Found at i:15450980 original size:20 final size:21
Alignment explanation
Indices: 15450949--15450988 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
15450939 CAATGTTAAT
*
15450949 ATATTAAAAATAATTTAAATG
1 ATATTAAAAATAATTAAAATG
15450970 ATATT-AAAATAATTAAAAT
1 ATATTAAAAATAATTAAAAT
15450989 AATAGACCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.38
Consensus pattern (21 bp):
ATATTAAAAATAATTAAAATG
Found at i:15458365 original size:61 final size:61
Alignment explanation
Indices: 15458293--15458411 Score: 184
Period size: 61 Copynumber: 2.0 Consensus size: 61
15458283 AATAATTTAT
* * * ** *
15458293 ATATAATAATTAAATTATCATATTTGGTAAGAATTTAATGATTTTGTATGATATATAAATG
1 ATATAATAATTAAATTATCATATTTGATAAAAATTTAATAATTTAATATAATATATAAATG
15458354 ATATAATAATTAAATTATCATATTTGATAAAAATTTAATAATTTAATATAATATATAA
1 ATATAATAATTAAATTATCATATTTGATAAAAATTTAATAATTTAATATAATATATAA
15458412 TGGTGATCTT
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
61 52 1.00
ACGTcount: A:0.48, C:0.02, G:0.07, T:0.44
Consensus pattern (61 bp):
ATATAATAATTAAATTATCATATTTGATAAAAATTTAATAATTTAATATAATATATAAATG
Found at i:15462052 original size:2 final size:2
Alignment explanation
Indices: 15462045--15462078 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
15462035 CTCATATCCA
15462045 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15462079 TATTATAGGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15462863 original size:20 final size:20
Alignment explanation
Indices: 15462838--15462881 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
15462828 ATTTTATCCA
* *
15462838 TTTATTTTTCTTTTATTTA-T
1 TTTATTATTATTTT-TTTAGT
15462858 TTTATTATTATTTTTTTAGT
1 TTTATTATTATTTTTTTAGT
15462878 TTTA
1 TTTA
15462882 AAAATAAGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 4 0.19
20 17 0.81
ACGTcount: A:0.18, C:0.02, G:0.02, T:0.77
Consensus pattern (20 bp):
TTTATTATTATTTTTTTAGT
Found at i:15464298 original size:3 final size:3
Alignment explanation
Indices: 15464290--15464320 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
15464280 AGTTCAGTCA
15464290 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
15464321 TGATGTTTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:15464773 original size:17 final size:17
Alignment explanation
Indices: 15464751--15464783 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
15464741 GTAAATAAAT
15464751 TGAAAAA-ATAATTTTTA
1 TGAAAAAGA-AATTTTTA
15464768 TGAAAAAGAAATTTTT
1 TGAAAAAGAAATTTTT
15464784 TTTATAATTC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 14 0.93
18 1 0.07
ACGTcount: A:0.52, C:0.00, G:0.09, T:0.39
Consensus pattern (17 bp):
TGAAAAAGAAATTTTTA
Found at i:15465195 original size:13 final size:14
Alignment explanation
Indices: 15465156--15465205 Score: 59
Period size: 13 Copynumber: 3.7 Consensus size: 14
15465146 ATTTAAATTT
*
15465156 AAATAATTATATAA
1 AAATAATTATATTA
*
15465170 AAAT-ATTAAATTA
1 AAATAATTATATTA
15465183 AAATAATT-TATTA
1 AAATAATTATATTA
*
15465196 AAAAAATTAT
1 AAATAATTAT
15465206 TTGACAAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
13 22 0.73
14 8 0.27
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (14 bp):
AAATAATTATATTA
Found at i:15469263 original size:17 final size:19
Alignment explanation
Indices: 15469236--15469271 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
15469226 TTGATAATTT
15469236 AAAAATAATAT-AATATGA
1 AAAAATAATATAAATATGA
15469254 AAAAAT-ATATAAATATGA
1 AAAAATAATATAAATATGA
15469272 TATAATTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.67, C:0.00, G:0.06, T:0.28
Consensus pattern (19 bp):
AAAAATAATATAAATATGA
Found at i:15475656 original size:12 final size:12
Alignment explanation
Indices: 15475639--15475663 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
15475629 CACTAATATG
15475639 CTGGATGCATAA
1 CTGGATGCATAA
15475651 CTGGATGCATAA
1 CTGGATGCATAA
15475663 C
1 C
15475664 CTTTTCAATA
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:0.32, C:0.20, G:0.24, T:0.24
Consensus pattern (12 bp):
CTGGATGCATAA
Found at i:15483930 original size:55 final size:55
Alignment explanation
Indices: 15483871--15483979 Score: 209
Period size: 55 Copynumber: 2.0 Consensus size: 55
15483861 AATAAAAGAA
*
15483871 AAACAAATATCATATTGTATATAAAATATTAATAAAAGTAAAAATACACAAATTT
1 AAACAAATATCATATTATATATAAAATATTAATAAAAGTAAAAATACACAAATTT
15483926 AAACAAATATCATATTATATATAAAATATTAATAAAAGTAAAAATACACAAATT
1 AAACAAATATCATATTATATATAAAATATTAATAAAAGTAAAAATACACAAATT
15483980 ATTCTAAGTT
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 53 1.00
ACGTcount: A:0.60, C:0.07, G:0.03, T:0.30
Consensus pattern (55 bp):
AAACAAATATCATATTATATATAAAATATTAATAAAAGTAAAAATACACAAATTT
Found at i:15484643 original size:5 final size:5
Alignment explanation
Indices: 15484624--15484657 Score: 52
Period size: 5 Copynumber: 7.0 Consensus size: 5
15484614 TTTATAAATT
*
15484624 ATATA AAAT- ATATA ATATA ATATA ATATA ATATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA
15484658 TAATGTAAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
4 3 0.12
5 23 0.88
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (5 bp):
ATATA
Found at i:15485373 original size:21 final size:21
Alignment explanation
Indices: 15485349--15485388 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
15485339 TTAATCTTGG
* *
15485349 TTTTGCTGTTGAAATTTAAGT
1 TTTTGATGTTGAAAGTTAAGT
*
15485370 TTTTGATGTTTAAAGTTAA
1 TTTTGATGTTGAAAGTTAA
15485389 TGAAATTTGG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.28, C:0.03, G:0.17, T:0.53
Consensus pattern (21 bp):
TTTTGATGTTGAAAGTTAAGT
Found at i:15487209 original size:6 final size:6
Alignment explanation
Indices: 15487198--15487233 Score: 72
Period size: 6 Copynumber: 6.0 Consensus size: 6
15487188 TATGTAAAAT
15487198 ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA
1 ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA
15487234 TTGAAAGGCC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (6 bp):
ATATAA
Found at i:15487793 original size:24 final size:22
Alignment explanation
Indices: 15487761--15487804 Score: 61
Period size: 24 Copynumber: 1.9 Consensus size: 22
15487751 AACTAAATAA
15487761 ATTAAAATATAATTATAATTAATT
1 ATTAAAATATAA-TA-AATTAATT
*
15487785 ATTAGAATATAATAAATTAA
1 ATTAAAATATAATAAATTAA
15487805 ATAAATAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 6 0.32
23 2 0.11
24 11 0.58
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (22 bp):
ATTAAAATATAATAAATTAATT
Found at i:15487811 original size:18 final size:19
Alignment explanation
Indices: 15487756--15487811 Score: 53
Period size: 18 Copynumber: 2.9 Consensus size: 19
15487746 TCTATAACTA
*
15487756 AATAAATTAAAATATAATTAT
1 AATAAATT-AAATAGAA-TAT
* *
15487777 AATTAATT-ATTAGAATAT
1 AATAAATTAAATAGAATAT
15487795 AATAAATTAAATA-AATA
1 AATAAATTAAATAGAATA
15487812 ATTGACAAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
18 14 0.48
19 8 0.28
21 7 0.24
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.38
Consensus pattern (19 bp):
AATAAATTAAATAGAATAT
Found at i:15496045 original size:2 final size:2
Alignment explanation
Indices: 15496038--15496072 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
15496028 GATTAATTTT
15496038 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
15496073 CAGAAACTGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:15496751 original size:2 final size:2
Alignment explanation
Indices: 15496744--15496772 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
15496734 CTCTTGTTCA
15496744 AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15496773 TTGATTCTCC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:15504450 original size:15 final size:15
Alignment explanation
Indices: 15504417--15504453 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
15504407 TGTTTGAAAA
15504417 AAGAAA-GAAGGGAG
1 AAGAAAGGAAGGGAG
15504431 AAGAAAGGAAGGTGAG
1 AAGAAAGGAAGG-GAG
15504447 -AGAAAGG
1 AAGAAAGG
15504454 GATTTTGAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 6 0.29
15 12 0.57
16 3 0.14
ACGTcount: A:0.54, C:0.00, G:0.43, T:0.03
Consensus pattern (15 bp):
AAGAAAGGAAGGGAG
Found at i:15505033 original size:28 final size:31
Alignment explanation
Indices: 15505002--15505066 Score: 91
Period size: 31 Copynumber: 2.2 Consensus size: 31
15504992 AATATATTTT
*
15505002 TTTAAATT-T-AATAT-TTTATAATATGATA
1 TTTAAATTATAAATATATTTATAATATAATA
*
15505030 TTTAAATTATAAATTTATTTATAATATAATA
1 TTTAAATTATAAATATATTTATAATATAATA
15505061 TTTAAA
1 TTTAAA
15505067 AATATTTAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
28 8 0.25
29 1 0.03
30 4 0.12
31 19 0.59
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (31 bp):
TTTAAATTATAAATATATTTATAATATAATA
Found at i:15505050 original size:17 final size:18
Alignment explanation
Indices: 15505018--15505064 Score: 53
Period size: 17 Copynumber: 2.6 Consensus size: 18
15505008 TTTAATATTT
*
15505018 TATAATATGATATTTA-AA
1 TATAATAT-TTATTTATAA
15505036 TTATAA-ATTTATTTATAA
1 -TATAATATTTATTTATAA
15505054 TATAATATTTA
1 TATAATATTTA
15505065 AAAATATTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
17 11 0.44
18 9 0.36
19 5 0.20
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (18 bp):
TATAATATTTATTTATAA
Found at i:15505145 original size:19 final size:19
Alignment explanation
Indices: 15505114--15505175 Score: 85
Period size: 18 Copynumber: 3.4 Consensus size: 19
15505104 AAAATTAATT
15505114 ATATTAAAAATAAATATT-
1 ATATTAAAAATAAATATTA
*
15505132 TTATTAATAAATAAAT-TTA
1 ATATTAA-AAATAAATATTA
15505151 ATATTAAAAATAAATATTA
1 ATATTAAAAATAAATATTA
15505170 A-ATTAA
1 ATATTAA
15505176 TTAATATATT
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
18 21 0.54
19 18 0.46
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (19 bp):
ATATTAAAAATAAATATTA
Found at i:15505160 original size:37 final size:37
Alignment explanation
Indices: 15505114--15505208 Score: 113
Period size: 37 Copynumber: 2.6 Consensus size: 37
15505104 AAAATTAATT
**
15505114 ATATTAAAAATAAATATTTTATTAATAAATAAATTTA
1 ATATTAAAAATAAATATTAAATTAATAAATAAATTTA
* *
15505151 ATATTAAAAATAAATATTAAATTAATTAATATATTT-
1 ATATTAAAAATAAATATTAAATTAATAAATAAATTTA
* *
15505187 ATAATT-TAAATATATATTAAAT
1 AT-ATTAAAAATAAATATTAAAT
15505209 ATTTTTAAAA
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
36 16 0.31
37 35 0.69
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (37 bp):
ATATTAAAAATAAATATTAAATTAATAAATAAATTTA
Found at i:15505181 original size:19 final size:19
Alignment explanation
Indices: 15505111--15505208 Score: 82
Period size: 18 Copynumber: 5.4 Consensus size: 19
15505101 TTTAAAATTA
*
15505111 ATTATATTAA-AAATAAAT
1 ATTAAATTAATAAATAAAT
**
15505129 ATTTTATTAATAAATAAAT
1 ATTAAATTAATAAATAAAT
15505148 -TTAATATTAA-AAATAAAT
1 ATTAA-ATTAATAAATAAAT
* *
15505166 ATTAAATTAATTAATATAT
1 ATTAAATTAATAAATAAAT
*
15505185 -TTATAATT--TAAATATAT
1 ATTA-AATTAATAAATAAAT
15505202 ATTAAAT
1 ATTAAAT
15505209 ATTTTTAAAA
Statistics
Matches: 68, Mismatches: 6, Indels: 13
0.78 0.07 0.15
Matches are distributed among these distances:
17 11 0.16
18 30 0.44
19 27 0.40
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
ATTAAATTAATAAATAAAT
Found at i:15505212 original size:19 final size:19
Alignment explanation
Indices: 15505158--15505212 Score: 53
Period size: 19 Copynumber: 3.0 Consensus size: 19
15505148 TTAATATTAA
* *
15505158 AAATAAATATTAAATTAATT
1 AAATATATATTAAA-TATTT
*
15505178 -AATATAT-TTATA-ATTT
1 AAATATATATTAAATATTT
15505194 AAATATATATTAAATATTT
1 AAATATATATTAAATATTT
15505213 TTAAAATTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 7
0.72 0.10 0.18
Matches are distributed among these distances:
16 3 0.11
17 7 0.25
18 8 0.29
19 10 0.36
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
AAATATATATTAAATATTT
Found at i:15505237 original size:28 final size:27
Alignment explanation
Indices: 15505162--15505241 Score: 74
Period size: 28 Copynumber: 2.9 Consensus size: 27
15505152 TATTAAAAAT
*
15505162 AAATATTAAA-TTAA-TTAATATATTTA
1 AAAT-TTAAATTTAATTTAATATTTTTA
* * *
15505188 TAATTTAAATATATATTAAATATTTTTA
1 AAATTTAAATTTA-ATTTAATATTTTTA
*
15505216 AAATTTAGAGTTTAATTTAATATTTT
1 AAATTTA-AATTTAATTTAATATTTT
15505242 ATTATAATTT
Statistics
Matches: 42, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
25 5 0.12
26 5 0.12
27 1 0.02
28 27 0.64
29 4 0.10
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (27 bp):
AAATTTAAATTTAATTTAATATTTTTA
Found at i:15506041 original size:14 final size:14
Alignment explanation
Indices: 15506022--15506068 Score: 58
Period size: 14 Copynumber: 3.2 Consensus size: 14
15506012 TCTATGTAAA
15506022 ATTAATTTAATATT
1 ATTAATTTAATATT
15506036 ATTAATTTAATATAAT
1 ATTAATTTAATAT--T
**
15506052 ATTAATAAAATATT
1 ATTAATTTAATATT
15506066 ATT
1 ATT
15506069 TTTATATAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
14 17 0.59
16 12 0.41
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (14 bp):
ATTAATTTAATATT
Found at i:15506058 original size:11 final size:11
Alignment explanation
Indices: 15506022--15506066 Score: 51
Period size: 11 Copynumber: 4.4 Consensus size: 11
15506012 TCTATGTAAA
*
15506022 ATTAATTTAAT
1 ATTAATATAAT
15506033 ATT-AT-TAAT
1 ATTAATATAAT
15506042 -TTAATATAAT
1 ATTAATATAAT
*
15506052 ATTAATAAAAT
1 ATTAATATAAT
15506063 ATTA
1 ATTA
15506067 TTTTTATATA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
8 2 0.07
9 6 0.20
10 6 0.20
11 16 0.53
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (11 bp):
ATTAATATAAT
Found at i:15506111 original size:40 final size:44
Alignment explanation
Indices: 15506067--15506170 Score: 112
Period size: 40 Copynumber: 2.4 Consensus size: 44
15506057 TAAAATATTA
*
15506067 TTTTTATATAAATT-ATGTCTT-AATT-A-TACATAAATAA-AAT
1 TTTTTATATAAATTAATATCTTAAATTAAGTA-ATAAATAATAAT
*
15506107 TTTTTAT-TAAATTAATATCTTAAATTAAGTATTAAATAATAAT
1 TTTTTATATAAATTAATATCTTAAATTAAGTAATAAATAATAAT
*
15506150 TTTATTAATATAAATTCATAT
1 TTT-TT-ATATAAATTAATAT
15506171 AAATAAATAT
Statistics
Matches: 53, Mismatches: 3, Indels: 10
0.80 0.05 0.15
Matches are distributed among these distances:
39 6 0.11
40 13 0.25
41 4 0.08
42 8 0.15
43 8 0.15
44 2 0.04
45 2 0.04
46 10 0.19
ACGTcount: A:0.45, C:0.04, G:0.02, T:0.49
Consensus pattern (44 bp):
TTTTTATATAAATTAATATCTTAAATTAAGTAATAAATAATAAT
Found at i:15506192 original size:20 final size:20
Alignment explanation
Indices: 15506156--15506193 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
15506146 TAATTTTATT
*
15506156 AATATAAATTCATATAAATA
1 AATATAAATTCAAATAAATA
15506176 AATATAAAATT-AAATAAA
1 AATAT-AAATTCAAATAAA
15506194 CAACAAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.32
Consensus pattern (20 bp):
AATATAAATTCAAATAAATA
Found at i:15510924 original size:72 final size:72
Alignment explanation
Indices: 15510803--15510948 Score: 249
Period size: 72 Copynumber: 2.0 Consensus size: 72
15510793 TGCTTCTTGA
15510803 ACTTGAAAAATTCCACAATGATAGAAATTTAATACAATCCAATACACCAACAGACACCACTTACT
1 ACTTGAAAAATTCCACAATGATAGAAATTTAATACAATCCAATACACCAACAGACACCACTTACT
15510868 TCAATAC
66 TCAATAC
* * *
15510875 ACTTGAAAAATTCCATAATGATAGAAATTTAATTCAATCCAATGA-ACCAACAGACACCACTTAT
1 ACTTGAAAAATTCCACAATGATAGAAATTTAATACAATCCAAT-ACACCAACAGACACCACTTAC
15510939 TTCAATAC
65 TTCAATAC
15510947 AC
1 AC
15510949 ACGAGCAAGC
Statistics
Matches: 70, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
72 69 0.99
73 1 0.01
ACGTcount: A:0.45, C:0.23, G:0.06, T:0.25
Consensus pattern (72 bp):
ACTTGAAAAATTCCACAATGATAGAAATTTAATACAATCCAATACACCAACAGACACCACTTACT
TCAATAC
Found at i:15512195 original size:2 final size:2
Alignment explanation
Indices: 15512188--15512212 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
15512178 GAGGGATGTT
15512188 GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA G
15512213 TACCGCTTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:15513093 original size:2 final size:2
Alignment explanation
Indices: 15513086--15513113 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
15513076 TTCTTCTAAT
15513086 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
15513114 AAAGAATGGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:15529453 original size:48 final size:48
Alignment explanation
Indices: 15529397--15529493 Score: 194
Period size: 48 Copynumber: 2.0 Consensus size: 48
15529387 TCTCGAAAAC
15529397 AAGCACTCAGCCCTTTCCAGCATTCCCTTCTTGCAAAGATCATCAATG
1 AAGCACTCAGCCCTTTCCAGCATTCCCTTCTTGCAAAGATCATCAATG
15529445 AAGCACTCAGCCCTTTCCAGCATTCCCTTCTTGCAAAGATCATCAATG
1 AAGCACTCAGCCCTTTCCAGCATTCCCTTCTTGCAAAGATCATCAATG
15529493 A
1 A
15529494 GTGCGGTATA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.28, C:0.33, G:0.12, T:0.27
Consensus pattern (48 bp):
AAGCACTCAGCCCTTTCCAGCATTCCCTTCTTGCAAAGATCATCAATG
Found at i:15531533 original size:24 final size:26
Alignment explanation
Indices: 15531493--15531552 Score: 65
Period size: 24 Copynumber: 2.5 Consensus size: 26
15531483 AAATTTATAT
*
15531493 TTTAAA-T-AAAATTATATATA-TAA
1 TTTAAATTAAAAATAATATATATTAA
*
15531516 -TTAAATTAAAAATAATATTTATTAA
1 TTTAAATTAAAAATAATATATATTAA
*
15531541 TTTTAATTAAAA
1 TTTAAATTAAAA
15531553 TTAAATTAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
22 5 0.17
23 1 0.03
24 11 0.37
25 3 0.10
26 10 0.33
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (26 bp):
TTTAAATTAAAAATAATATATATTAA
Found at i:15531567 original size:26 final size:25
Alignment explanation
Indices: 15531481--15531571 Score: 84
Period size: 26 Copynumber: 3.7 Consensus size: 25
15531471 AATTTTATTC
*
15531481 TTAAATT-TAT-ATTTTAAATAAAA
1 TTAAATTATATAATTTTAATTAAAA
* *
15531504 TTATA-TATATAA-TTAAATTAAAA
1 TTAAATTATATAATTTTAATTAAAA
*
15531527 ATAATATT-TATTAATTTTAATTAAAA
1 TTAA-ATTATA-TAATTTTAATTAAAA
15531553 TTAAATTAATATAATTTTA
1 TTAAATT-ATATAATTTTA
15531572 TATAATATCA
Statistics
Matches: 53, Mismatches: 7, Indels: 13
0.73 0.10 0.18
Matches are distributed among these distances:
22 1 0.02
23 18 0.34
24 4 0.08
25 7 0.13
26 21 0.40
27 2 0.04
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (25 bp):
TTAAATTATATAATTTTAATTAAAA
Found at i:15556717 original size:22 final size:22
Alignment explanation
Indices: 15556692--15556734 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
15556682 TCAAAAATAA
15556692 ATTTGATAAAAAAATAAAAATT
1 ATTTGATAAAAAAATAAAAATT
** *
15556714 ATTTTTTAAAAATATAAAAAT
1 ATTTGATAAAAAAATAAAAAT
15556735 AAAATATTCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.37
Consensus pattern (22 bp):
ATTTGATAAAAAAATAAAAATT
Found at i:15556916 original size:24 final size:26
Alignment explanation
Indices: 15556859--15556916 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 26
15556849 ATGTACATCT
*
15556859 TTTATTTTTATATATAAAAATAATTT
1 TTTATTTTTATATATAAAAATAATTA
* * *
15556885 TTTGTTTTTATATA-AAAATTTA-TA
1 TTTATTTTTATATATAAAAATAATTA
15556909 TTTATTTT
1 TTTATTTT
15556917 AATTATCAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
24 8 0.30
25 6 0.22
26 13 0.48
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (26 bp):
TTTATTTTTATATATAAAAATAATTA
Found at i:15557040 original size:14 final size:15
Alignment explanation
Indices: 15557008--15557044 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
15556998 TTCTCTCTCA
15557008 AATTT-ATTTTTTAT
1 AATTTAATTTTTTAT
15557022 AATTTAATTTTTT-T
1 AATTTAATTTTTTAT
*
15557036 GATTTAATT
1 AATTTAATT
15557045 CACAAAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 14 0.67
15 7 0.33
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (15 bp):
AATTTAATTTTTTAT
Found at i:15561668 original size:3 final size:3
Alignment explanation
Indices: 15561660--15561686 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
15561650 AAGCTCGCTC
15561660 TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT
15561687 CCATTATCGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TCT
Found at i:15561736 original size:30 final size:28
Alignment explanation
Indices: 15561671--15561741 Score: 72
Period size: 27 Copynumber: 2.5 Consensus size: 28
15561661 CTTCTTCTTC
*
15561671 TTCTTCTTCTTCTTCTCCATTATCGTCG
1 TTCTTCTTCATCTTCTCCATTATCGTCG
* * * *
15561699 -TCATCTTCCTCTTCTTCCATATGTCGTTG
1 TTCTTCTTCATCTTC-TCCAT-TATCGTCG
15561728 TTCTTCTTCATCTT
1 TTCTTCTTCATCTT
15561742 TTGAAAATCG
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
27 12 0.35
28 5 0.15
29 6 0.18
30 11 0.32
ACGTcount: A:0.08, C:0.31, G:0.07, T:0.54
Consensus pattern (28 bp):
TTCTTCTTCATCTTCTCCATTATCGTCG
Found at i:15564266 original size:11 final size:11
Alignment explanation
Indices: 15564252--15564290 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
15564242 TTTATAAATT
*
15564252 ATTTAGATTTA
1 ATTTAAATTTA
**
15564263 ATTTAAATAAA
1 ATTTAAATTTA
15564274 ATTTAAATTTA
1 ATTTAAATTTA
15564285 ATTTAA
1 ATTTAA
15564291 TTATTAATGA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (11 bp):
ATTTAAATTTA
Found at i:15564267 original size:22 final size:20
Alignment explanation
Indices: 15564241--15564289 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 20
15564231 ATACGTTACT
*
15564241 ATTTATAAATTATTTAGATTTA
1 ATTTATAAA--ATTTAAATTTA
15564263 ATTTAAATAAAATTTAAATTTA
1 ATTT--ATAAAATTTAAATTTA
15564285 ATTTA
1 ATTTA
15564290 ATTATTAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
20 1 0.04
22 18 0.75
24 5 0.21
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (20 bp):
ATTTATAAAATTTAAATTTA
Found at i:15567638 original size:18 final size:18
Alignment explanation
Indices: 15567604--15567639 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
15567594 AAATTAATAA
* *
15567604 ATTTTATATTAATATTAT
1 ATTTTATATAAAAATTAT
15567622 ATTTTATATAAAAATTAT
1 ATTTTATATAAAAATTAT
15567640 GTAATATAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
ATTTTATATAAAAATTAT
Found at i:15569386 original size:2 final size:2
Alignment explanation
Indices: 15569379--15569403 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
15569369 ATTAAAGATT
15569379 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
15569404 TGATTCTGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:15570784 original size:104 final size:102
Alignment explanation
Indices: 15570604--15570801 Score: 351
Period size: 104 Copynumber: 1.9 Consensus size: 102
15570594 TTAATTTACA
15570604 TTTACTCTGAATCCATTGCCCCTCCTCTTCCATAAAGATTGAAGTTTTATAAATTTCTGATTCCA
1 TTTACTCTGAATCCATTGCCCCTCCTCTTCCATAAAGATTGAAGTTTTATAAATTTCTGATTCCA
*
15570669 ATATTTCTTTGTTGTGCTGTTATCTGTATGAGTCAAT
66 ATATTTCTTTGTTGTGATGTTATCTGTATGAGTCAAT
*
15570706 TTTACTTTGAATCCATTAGCCCCTCCTTCTTCCATAAAGATTGAAGTTTTATAAATTTCTGATTC
1 TTTACTCTGAATCCATT-GCCCCTCC-TCTTCCATAAAGATTGAAGTTTTATAAATTTCTGATTC
*
15570771 CAATATTTGTTTGTTGTGATGTTATCTGTAT
64 CAATATTTCTTTGTTGTGATGTTATCTGTAT
15570802 AAGGCCATTT
Statistics
Matches: 91, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
102 16 0.18
103 8 0.09
104 67 0.74
ACGTcount: A:0.24, C:0.18, G:0.13, T:0.45
Consensus pattern (102 bp):
TTTACTCTGAATCCATTGCCCCTCCTCTTCCATAAAGATTGAAGTTTTATAAATTTCTGATTCCA
ATATTTCTTTGTTGTGATGTTATCTGTATGAGTCAAT
Found at i:15571099 original size:12 final size:13
Alignment explanation
Indices: 15571082--15571111 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
15571072 AATTGAGTTT
15571082 AAAAAG-AAAAAA
1 AAAAAGCAAAAAA
15571094 AAAAAGCAAAAAA
1 AAAAAGCAAAAAA
15571107 AAAAA
1 AAAAA
15571112 AAACATAACA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 6 0.35
13 11 0.65
ACGTcount: A:0.90, C:0.03, G:0.07, T:0.00
Consensus pattern (13 bp):
AAAAAGCAAAAAA
Found at i:15571123 original size:20 final size:19
Alignment explanation
Indices: 15571082--15571124 Score: 52
Period size: 18 Copynumber: 2.2 Consensus size: 19
15571072 AATTGAGTTT
*
15571082 AAAAAGAAAAAAAAAAAGC
1 AAAAAGAAAAAAAAAAAAC
15571101 AAAAA-AAAAAAAAACATAAC
1 AAAAAGAAAAAAAAA-A-AAC
15571121 AAAA
1 AAAA
15571125 GTCAAAATGT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 9 0.43
19 6 0.29
20 6 0.29
ACGTcount: A:0.86, C:0.07, G:0.05, T:0.02
Consensus pattern (19 bp):
AAAAAGAAAAAAAAAAAAC
Found at i:15575909 original size:2 final size:2
Alignment explanation
Indices: 15575902--15575941 Score: 57
Period size: 2 Copynumber: 20.5 Consensus size: 2
15575892 AAGTTCTTTT
15575902 TG TG TG TG AT- TG TG TG TG TG TG TG TG TG TG TG TG T- TG TG T
1 TG TG TG TG -TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
15575942 TTTCCACAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
1 2 0.06
2 32 0.91
3 1 0.03
ACGTcount: A:0.03, C:0.00, G:0.45, T:0.53
Consensus pattern (2 bp):
TG
Found at i:15576867 original size:20 final size:20
Alignment explanation
Indices: 15576842--15576882 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
15576832 GCTTTTGATT
15576842 TTTGACCGTCTATTCAAGCA
1 TTTGACCGTCTATTCAAGCA
15576862 TTTGACCGTCTATTCAAGCA
1 TTTGACCGTCTATTCAAGCA
15576882 T
1 T
15576883 ACTTAAACTA
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:0.24, C:0.24, G:0.15, T:0.37
Consensus pattern (20 bp):
TTTGACCGTCTATTCAAGCA
Found at i:15580438 original size:16 final size:17
Alignment explanation
Indices: 15580417--15580450 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
15580407 ATCAATTATA
*
15580417 TAATTTTTGTTT-ATTT
1 TAATTTTTATTTCATTT
15580433 TAATTTTTATTTCATTT
1 TAATTTTTATTTCATTT
15580450 T
1 T
15580451 TATTCAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.21, C:0.03, G:0.03, T:0.74
Consensus pattern (17 bp):
TAATTTTTATTTCATTT
Found at i:15580508 original size:25 final size:25
Alignment explanation
Indices: 15580480--15580527 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
15580470 ACGCCCTATG
*
15580480 TTTTTT-TTTA-ATAAATTTTTTAA
1 TTTTTTGTTTATATAAATTTATTAA
15580503 TTTTTTGTTTATATAAATTTATTAA
1 TTTTTTGTTTATATAAATTTATTAA
15580528 AAAAATTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 6 0.27
24 4 0.18
25 12 0.55
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (25 bp):
TTTTTTGTTTATATAAATTTATTAA
Found at i:15580847 original size:21 final size:21
Alignment explanation
Indices: 15580823--15580864 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
15580813 ATAATTTTAT
15580823 AATAAAATAAAATAATTAATA
1 AATAAAATAAAATAATTAATA
**
15580844 AATATGATAAAATAATTAATA
1 AATAAAATAAAATAATTAATA
15580865 TTTAATAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (21 bp):
AATAAAATAAAATAATTAATA
Found at i:15585022 original size:5 final size:5
Alignment explanation
Indices: 15584984--15585021 Score: 58
Period size: 5 Copynumber: 7.6 Consensus size: 5
15584974 CTCATCTACA
* *
15584984 TTCTT TTCTT TCCTT TTCTT TTCTT TTCTT TTCAT TTC
1 TTCTT TTCTT TTCTT TTCTT TTCTT TTCTT TTCTT TTC
15585022 ACTCCCTCCA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
5 30 1.00
ACGTcount: A:0.03, C:0.24, G:0.00, T:0.74
Consensus pattern (5 bp):
TTCTT
Found at i:15586270 original size:2 final size:2
Alignment explanation
Indices: 15586263--15586289 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
15586253 ATATAAAAAG
15586263 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
15586290 GTTATGGTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:15592768 original size:20 final size:21
Alignment explanation
Indices: 15592743--15592782 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
15592733 CCCATTTTCG
*
15592743 ATAAAAAAAA-TTTTAAAATA
1 ATAAAAAAAACTCTTAAAATA
15592763 ATAAAAAAAACTCTTAAAAT
1 ATAAAAAAAACTCTTAAAAT
15592783 TTACAATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.28
Consensus pattern (21 bp):
ATAAAAAAAACTCTTAAAATA
Found at i:15592867 original size:30 final size:29
Alignment explanation
Indices: 15592790--15592901 Score: 129
Period size: 31 Copynumber: 3.8 Consensus size: 29
15592780 AATTTACAAT
* *
15592790 TTTATT-TATATAAATTTTTATATTTTTAT
1 TTTATTCTAAATAAATTTTTA-ATTTTTAA
15592819 TTTATTC-AAATAAATTTTTAATTTTTAA
1 TTTATTCTAAATAAATTTTTAATTTTTAA
*
15592847 TTTATATCTAAATAATTTTTTAATTTTTTAA
1 TTTAT-TCTAAATAAATTTTTAA-TTTTTAA
* *
15592878 TTTATGCTTAAATAAGTTTTTAAT
1 TTTATTC-TAAATAAATTTTTAAT
15592902 ATATATATTT
Statistics
Matches: 73, Mismatches: 5, Indels: 9
0.84 0.06 0.10
Matches are distributed among these distances:
28 12 0.16
29 20 0.27
30 15 0.21
31 26 0.36
ACGTcount: A:0.35, C:0.03, G:0.02, T:0.61
Consensus pattern (29 bp):
TTTATTCTAAATAAATTTTTAATTTTTAA
Found at i:15592922 original size:15 final size:16
Alignment explanation
Indices: 15592894--15592926 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
15592884 CTTAAATAAG
*
15592894 TTTTTAATATATATAT
1 TTTTTAATAGATATAT
15592910 TTTTTAA-AGATATAT
1 TTTTTAATAGATATAT
15592925 TT
1 TT
15592927 AAATATAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (16 bp):
TTTTTAATAGATATAT
Found at i:15595697 original size:25 final size:25
Alignment explanation
Indices: 15595660--15595709 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
15595650 AGGCACGAAT
15595660 GCATGGGGACATTCACCAGTAGAAA
1 GCATGGGGACATTCACCAGTAGAAA
*
15595685 GCATGGGGCCATTCACCAGTAGAAA
1 GCATGGGGACATTCACCAGTAGAAA
15595710 CTAAGGCCCA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.34, C:0.22, G:0.28, T:0.16
Consensus pattern (25 bp):
GCATGGGGACATTCACCAGTAGAAA
Found at i:15597110 original size:62 final size:62
Alignment explanation
Indices: 15597024--15597215 Score: 196
Period size: 62 Copynumber: 3.1 Consensus size: 62
15597014 AAAAAAATAC
* *
15597024 TATTTAAGATATTTTTTACTAAAAAAGTATTAAATAA-TCCATTTCAAAAAAATATTAGAAAT
1 TATTTAAGATTTTTTTTACTAAAAAAGCATTAAATAATTCC-TTTCAAAAAAATATTAGAAAT
* *
15597086 TATTTAAGATTTTTTTTA-TAAAAAATGCATTAAATAATTCCTTTTAAAAAAATATTAGAGAT
1 TATTTAAGATTTTTTTTACTAAAAAA-GCATTAAATAATTCCTTTCAAAAAAATATTAGAAAT
* * * *** * *
15597148 TATTTAA-AGTATTTTTGACCAAAAAAATTTTAAATAATCTTCTTT--AAAAAATATTAGAGAT
1 TATTTAAGA-TTTTTTTTACTAAAAAAGCATTAAATAAT-TCCTTTCAAAAAAATATTAGAAAT
*
15597209 TAATTAA
1 TATTTAA
15597216 AGCGTTTTTT
Statistics
Matches: 113, Mismatches: 12, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
61 30 0.27
62 69 0.61
63 14 0.12
ACGTcount: A:0.47, C:0.06, G:0.06, T:0.41
Consensus pattern (62 bp):
TATTTAAGATTTTTTTTACTAAAAAAGCATTAAATAATTCCTTTCAAAAAAATATTAGAAAT
Found at i:15599338 original size:23 final size:23
Alignment explanation
Indices: 15599308--15599351 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
15599298 CCTTTCAGCC
*
15599308 TTTCCCTCCTAATCCCTCCCTGG
1 TTTCCCTCCAAATCCCTCCCTGG
*
15599331 TTTCCCTCCAAATCCTTCCCT
1 TTTCCCTCCAAATCCCTCCCT
15599352 ATTAATGGTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.11, C:0.48, G:0.05, T:0.36
Consensus pattern (23 bp):
TTTCCCTCCAAATCCCTCCCTGG
Found at i:15599411 original size:6 final size:6
Alignment explanation
Indices: 15599400--15599430 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
15599390 TACTTGTTCC
15599400 CTACAG CTACAG CTACAG CTACAG CTACAG C
1 CTACAG CTACAG CTACAG CTACAG CTACAG C
15599431 CAAGATCAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.32, C:0.35, G:0.16, T:0.16
Consensus pattern (6 bp):
CTACAG
Found at i:15612445 original size:14 final size:14
Alignment explanation
Indices: 15612421--15612455 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
15612411 AATATCCTTT
*
15612421 TTTTATTAAAATTTC
1 TTTT-TTAAAATTCC
15612436 TTTTTTAAAATTCC
1 TTTTTTAAAATTCC
15612450 TTTTTT
1 TTTTTT
15612456 TTTCAAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 15 0.79
15 4 0.21
ACGTcount: A:0.26, C:0.09, G:0.00, T:0.66
Consensus pattern (14 bp):
TTTTTTAAAATTCC
Found at i:15612456 original size:17 final size:17
Alignment explanation
Indices: 15612410--15612464 Score: 53
Period size: 17 Copynumber: 3.3 Consensus size: 17
15612400 TCTCTCTAAC
15612410 AAATATCCTTTTTTTATTA
1 AAAT-TCCTTTTTTT-TTA
*
15612429 AAA-T--TTCTTTTTTA
1 AAATTCCTTTTTTTTTA
*
15612443 AAATTCCTTTTTTTTTC
1 AAATTCCTTTTTTTTTA
15612460 AAATT
1 AAATT
15612465 AAGATTTAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
14 6 0.20
15 7 0.23
17 14 0.47
19 3 0.10
ACGTcount: A:0.29, C:0.11, G:0.00, T:0.60
Consensus pattern (17 bp):
AAATTCCTTTTTTTTTA
Found at i:15617559 original size:35 final size:31
Alignment explanation
Indices: 15617488--15617562 Score: 132
Period size: 31 Copynumber: 2.4 Consensus size: 31
15617478 TTTCCCGGAA
*
15617488 ATAATTAATTTCATATAACATCTTGATAAGT
1 ATAATTAATTTCATACAACATCTTGATAAGT
15617519 ATAATTAATTTCATACAACATCTTGATAAGT
1 ATAATTAATTTCATACAACATCTTGATAAGT
*
15617550 ACAATTAATTTCA
1 ATAATTAATTTCA
15617563 CATTTTCGTG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.43, C:0.12, G:0.05, T:0.40
Consensus pattern (31 bp):
ATAATTAATTTCATACAACATCTTGATAAGT
Found at i:15619049 original size:16 final size:16
Alignment explanation
Indices: 15619009--15619050 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 16
15618999 AATAATTATC
*
15619009 AAATATTAAAAAATTT
1 AAATATTAAAAAAATT
* *
15619025 CAA-ACTAAAAAAATT
1 AAATATTAAAAAAATT
15619040 AAATATTAAAA
1 AAATATTAAAA
15619051 TAAGTTTAAG
Statistics
Matches: 20, Mismatches: 5, Indels: 2
0.74 0.19 0.07
Matches are distributed among these distances:
15 12 0.60
16 8 0.40
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.29
Consensus pattern (16 bp):
AAATATTAAAAAAATT
Done.