Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A07
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: 93829987
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4250000 characters in sequence are not A, C, G, or T
File 236 of 295
Found at i:75696865 original size:29 final size:29
Alignment explanation
Indices: 75696802--75696869 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
75696792 TAATCAACCA
75696802 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
75696831 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
75696860 CGCACACTTA
1 CGCACACTTA
75696870 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:75697034 original size:29 final size:29
Alignment explanation
Indices: 75696974--75697041 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
75696964 TAATCAACCA
* *
75696974 CGCACACTTCGTGCCATGTACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
**
75697003 CGCACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
75697032 CGCACACTTA
1 CGCACACTTA
75697042 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.25, C:0.31, G:0.15, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:75697182 original size:29 final size:30
Alignment explanation
Indices: 75697143--75697221 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
75697133 CTTAATAATC
75697143 AACCACGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
75697173 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
75697202 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
75697222 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:75697215 original size:174 final size:173
Alignment explanation
Indices: 75696692--75697190 Score: 910
Period size: 172 Copynumber: 2.9 Consensus size: 173
75696682 AACTCAAGGT
* * *
75696692 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAGGTCGCACCCTTAATGTAAATAATTTATA
*
75696757 GAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGCA
66 GAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGTA
*
75696822 CTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 CTTTAAACTCGCACACTTAGTGCCATGCATTTCAAGTTCGCAC
*
75696865 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAGGTCGCACCCTTAATATAAATAA-TTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAGGTCGCACCCTTAATGTAAATAATTTATA
* *
75696929 GAAATATATATTGGGTTCGCACACATAATGCTTAATAATCAACCACGCACACTTCGTGCCATGTA
66 GAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGTA
75696994 CTTTAAACTCGCACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 CTTTAAACTCGCACACTTAGTGCCATGCATTTCAAGTTCGCAC
75697037 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAGGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAGGTCGCACCCTTAATGTAAATAATTTATA
75697102 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
66 G-AAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
75697167 ACTTTAAACTCGCACACTTAGTGC
130 ACTTTAAACTCGCACACTTAGTGC
75697191 TGTACAATTT
Statistics
Matches: 313, Mismatches: 11, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
172 167 0.53
173 61 0.19
174 85 0.27
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.30
Consensus pattern (173 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAGGTCGCACCCTTAATGTAAATAATTTATA
GAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGTA
CTTTAAACTCGCACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:75705114 original size:29 final size:29
Alignment explanation
Indices: 75705051--75705118 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
75705041 TAATCAACCG
75705051 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
75705080 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
75705109 CGCACACTTA
1 CGCACACTTA
75705119 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:75705231 original size:174 final size:174
Alignment explanation
Indices: 75704940--75705267 Score: 602
Period size: 174 Copynumber: 1.9 Consensus size: 174
75704930 AACTCAAGGT
* *
75704940 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
75705005 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
75705070 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
*
75705114 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAGGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
75705179 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
*
75705244 ACTTTAAACTCGCACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
75705268 TGTACAATTT
Statistics
Matches: 148, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
174 148 1.00
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:75705259 original size:29 final size:30
Alignment explanation
Indices: 75705220--75705298 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
75705210 CTTAATAATC
75705220 AACCACGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
75705250 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
75705279 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
75705299 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:75713461 original size:29 final size:30
Alignment explanation
Indices: 75713422--75713500 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
75713412 CTTAATAATC
75713422 AACCACGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
75713452 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
75713481 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
75713501 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:75731877 original size:27 final size:27
Alignment explanation
Indices: 75731829--75732007 Score: 173
Period size: 27 Copynumber: 6.6 Consensus size: 27
75731819 ATATTGAGCC
* * * * *
75731829 CGCACACTCAGTGCGATATAATCATCT
1 CGCACACTTAGTGCTACATAGTCATAT
* * *
75731856 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCATAT
* *
75731883 CGTACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCATA-T
** *
75731911 CGCACACTTAGTGCCGCATGGTCA-ATT
1 CGCACACTTAGTGCTACATAGTCATA-T
* *
75731938 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCATAT
*
75731965 CGCACACTTAGTGCAACATAGTCATAT
1 CGCACACTTAGTGCTACATAGTCATAT
75731992 CGCACACTTAGTGCTA
1 CGCACACTTAGTGCTA
75732008 TACAATTTAA
Statistics
Matches: 127, Mismatches: 21, Indels: 8
0.81 0.13 0.05
Matches are distributed among these distances:
27 105 0.83
28 22 0.17
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCATAT
Found at i:75731972 original size:82 final size:81
Alignment explanation
Indices: 75731855--75732005 Score: 214
Period size: 82 Copynumber: 1.9 Consensus size: 81
75731845 TATAATCATC
* * *
75731855 TCGCACACTTAGTGCTACGTAATCAAATCGTACACTTAGTGCTACATAGTCAAACTCGCACACTT
1 TCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCACACTT
75731920 AGTGCCGCATGGTCAAT
65 AGTGCCGCATGGTCAAT
* ** *
75731937 TCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCATATCGCACACTT
1 TCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCACACTT
75732001 AGTGC
65 AGTGC
75732006 TATACAATTT
Statistics
Matches: 61, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
81 16 0.26
82 45 0.74
ACGTcount: A:0.28, C:0.27, G:0.16, T:0.28
Consensus pattern (81 bp):
TCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCACACTTA
GTGCCGCATGGTCAAT
Found at i:75741611 original size:10 final size:10
Alignment explanation
Indices: 75741571--75741604 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
75741561 TGTAATATAA
*
75741571 CATATCATAT
1 CATAGCATAT
*
75741581 CGTAGCATAT
1 CATAGCATAT
75741591 CATAGCATAT
1 CATAGCATAT
75741601 CATA
1 CATA
75741605 TCGTATCCTG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.38, C:0.21, G:0.09, T:0.32
Consensus pattern (10 bp):
CATAGCATAT
Found at i:75741873 original size:7 final size:7
Alignment explanation
Indices: 75741847--75741881 Score: 52
Period size: 7 Copynumber: 4.9 Consensus size: 7
75741837 CATATCTTAC
75741847 TCATATA
1 TCATATA
*
75741854 TCATACA
1 TCATATA
75741861 TACATATA
1 T-CATATA
75741869 TCATATA
1 TCATATA
75741876 TCATAT
1 TCATAT
75741882 GGCATGCATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
7 19 0.76
8 6 0.24
ACGTcount: A:0.43, C:0.17, G:0.00, T:0.40
Consensus pattern (7 bp):
TCATATA
Found at i:75744666 original size:20 final size:20
Alignment explanation
Indices: 75744629--75744676 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
75744619 TTGACATGGG
75744629 CGTGTGACTATCCTACACGCT
1 CGTGTG-CTATCCTACACGCT
75744650 CGTGTGCTATTCC-ACACGCT
1 CGTGTGCTA-TCCTACACGCT
*
75744670 TGTGTGC
1 CGTGTGC
75744677 CTGGACCGTG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
20 16 0.64
21 9 0.36
ACGTcount: A:0.15, C:0.31, G:0.23, T:0.31
Consensus pattern (20 bp):
CGTGTGCTATCCTACACGCT
Found at i:75755017 original size:15 final size:15
Alignment explanation
Indices: 75754997--75755047 Score: 61
Period size: 15 Copynumber: 3.4 Consensus size: 15
75754987 AAAAAATTTA
75754997 ATAAATTTAAAATAT
1 ATAAATTTAAAATAT
*
75755012 ATAAATTATTAAATAT
1 ATAAATT-TAAAATAT
75755028 -TAAA-TTAAAATAAT
1 ATAAATTTAAAAT-AT
75755042 ATAAAT
1 ATAAAT
75755048 ATTTTTAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
13 5 0.17
14 3 0.10
15 15 0.50
16 7 0.23
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (15 bp):
ATAAATTTAAAATAT
Found at i:75756478 original size:13 final size:13
Alignment explanation
Indices: 75756456--75756512 Score: 57
Period size: 12 Copynumber: 4.5 Consensus size: 13
75756446 AAATTAGCCA
75756456 ATTTTT-TATTTT
1 ATTTTTATATTTT
75756468 ATTTTTATATTTT
1 ATTTTTATATTTT
*
75756481 -TGTTTTA-ATTTA
1 AT-TTTTATATTTT
*
75756493 ATTTTTAGATTTT
1 ATTTTTATATTTT
75756506 AATTTTT
1 -ATTTTT
75756513 CTTTTGTTTG
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
12 16 0.42
13 16 0.42
14 6 0.16
ACGTcount: A:0.23, C:0.00, G:0.04, T:0.74
Consensus pattern (13 bp):
ATTTTTATATTTT
Found at i:75756486 original size:25 final size:25
Alignment explanation
Indices: 75756458--75756505 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
75756448 ATTAGCCAAT
* * *
75756458 TTTTTATTTTATTTTTATATTTTTG
1 TTTTAATTTAATTTTTAGATTTTTG
75756483 TTTTAATTTAATTTTTAGATTTT
1 TTTTAATTTAATTTTTAGATTTT
75756506 AATTTTTCTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.21, C:0.00, G:0.04, T:0.75
Consensus pattern (25 bp):
TTTTAATTTAATTTTTAGATTTTTG
Found at i:75756505 original size:19 final size:18
Alignment explanation
Indices: 75756471--75756510 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
75756461 TTATTTTATT
75756471 TTTATATTTTTGTTTTAA
1 TTTATATTTTTGTTTTAA
75756489 TTTA-ATTTTTAGATTTTAA
1 TTTATATTTTT-G-TTTTAA
75756508 TTT
1 TTT
75756511 TTCTTTTGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 6 0.30
18 5 0.25
19 9 0.45
ACGTcount: A:0.25, C:0.00, G:0.05, T:0.70
Consensus pattern (18 bp):
TTTATATTTTTGTTTTAA
Found at i:75756511 original size:25 final size:25
Alignment explanation
Indices: 75756458--75756511 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 25
75756448 ATTAGCCAAT
* * * **
75756458 TTTTTATTTTATTTTTATATTTTTG
1 TTTTAATTTAATTTTTAGATTTTAA
75756483 TTTTAATTTAATTTTTAGATTTTAA
1 TTTTAATTTAATTTTTAGATTTTAA
75756508 TTTT
1 TTTT
75756512 TCTTTTGTTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.22, C:0.00, G:0.04, T:0.74
Consensus pattern (25 bp):
TTTTAATTTAATTTTTAGATTTTAA
Found at i:75763281 original size:5 final size:5
Alignment explanation
Indices: 75763271--75763352 Score: 60
Period size: 5 Copynumber: 15.4 Consensus size: 5
75763261 TTATTATTTA
*
75763271 TTATT TTATT TTATT TTATT CTT-TCT TTCTT TTATT TTATTT TTAGTAT
1 TTATT TTATT TTATT TTATT -TTAT-T TTATT TTATT TTA-TT TTA-T-T
* *
75763320 TTATT CTACTT ATTA-T TTATC TTATT TTATT TT
1 TTATT TTA-TT -TTATT TTATT TTATT TTATT TT
75763353 GTTATTTTGT
Statistics
Matches: 63, Mismatches: 6, Indels: 16
0.74 0.07 0.19
Matches are distributed among these distances:
4 3 0.05
5 41 0.65
6 13 0.21
7 6 0.10
ACGTcount: A:0.18, C:0.07, G:0.01, T:0.73
Consensus pattern (5 bp):
TTATT
Found at i:75763326 original size:26 final size:25
Alignment explanation
Indices: 75763260--75763326 Score: 80
Period size: 26 Copynumber: 2.6 Consensus size: 25
75763250 ATTTACCCTA
*
75763260 TTTATTATTTATTATTTTATTTTAT
1 TTTATTATTTATTCTTTTATTTTAT
* *
75763285 TTTATTCTTTCTTTCTTTTATTTTATT
1 TTTATTATTT-ATTCTTTTATTTTA-T
*
75763312 TTTAGTATTTATTCT
1 TTTATTATTTATTCT
75763327 ACTTATTATT
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
25 9 0.26
26 16 0.47
27 9 0.26
ACGTcount: A:0.18, C:0.06, G:0.01, T:0.75
Consensus pattern (25 bp):
TTTATTATTTATTCTTTTATTTTAT
Found at i:75770673 original size:31 final size:31
Alignment explanation
Indices: 75770635--75770704 Score: 95
Period size: 31 Copynumber: 2.3 Consensus size: 31
75770625 GTAAAATTTA
* *
75770635 AAAAAATATAGAGACTAAAATTAACCAACTG
1 AAAAAATATAGAAACTAAAATTAACCAAATG
* * *
75770666 AAAAAATATAGAAATTAAAATTAATCAAATT
1 AAAAAATATAGAAACTAAAATTAACCAAATG
75770697 AAAAAATA
1 AAAAAATA
75770705 ATTATAAATT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.64, C:0.07, G:0.06, T:0.23
Consensus pattern (31 bp):
AAAAAATATAGAAACTAAAATTAACCAAATG
Found at i:75772665 original size:19 final size:21
Alignment explanation
Indices: 75772629--75772671 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
75772619 TAAAATCACA
* *
75772629 TTTATTTTTTATATTAATT-T
1 TTTATTTTATACATTAATTAT
75772649 TTTATTTTATACA-TAATTAT
1 TTTATTTTATACATTAATTAT
75772669 TTT
1 TTT
75772672 CACTTGCATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (21 bp):
TTTATTTTATACATTAATTAT
Found at i:75776693 original size:42 final size:42
Alignment explanation
Indices: 75776628--75776744 Score: 121
Period size: 42 Copynumber: 2.8 Consensus size: 42
75776618 AGCTCATAGA
*
75776628 ATGCCAAC-GTCCCAGACAAGGTCTTA-ATGTAATCAAATATCT
1 ATGCC-ACTGTCCCAGACAAGGTCTTACATGTAATCAAATA-CG
* * * * *
75776670 ATGCCACTGTCCCAGATAGGGTCTTACACGAAATCATATACG
1 ATGCCACTGTCCCAGACAAGGTCTTACATGTAATCAAATACG
* * *
75776712 ATGTCAATGTCCCAGACATGGTCTTACATGTAA
1 ATGCCACTGTCCCAGACAAGGTCTTACATGTAA
75776745 ATCTCAAACC
Statistics
Matches: 61, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
41 2 0.03
42 49 0.80
43 10 0.16
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.26
Consensus pattern (42 bp):
ATGCCACTGTCCCAGACAAGGTCTTACATGTAATCAAATACG
Found at i:75787972 original size:44 final size:42
Alignment explanation
Indices: 75787911--75788075 Score: 163
Period size: 43 Copynumber: 3.9 Consensus size: 42
75787901 TTTCGATATG
* *
75787911 TGATTTCATGTAAGACCACGTCTGGGACGTTGTCATCG-ATT
1 TGATTTCATGTAAGACCACGTCTGGGACATTGGCATCGTATT
* * *
75787952 TGAGATTTACGTGTAAGACCATGTCTAGGACATTGGCATCGTATT
1 T--GATTT-CATGTAAGACCACGTCTGGGACATTGGCATCGTATT
* * * *
75787997 TGATTTCATGTAAGACC-CTGTCTGGGATAGTGGCATTGATAGT
1 TGATTTCATGTAAGACCAC-GTCTGGGACATTGGCATCG-TATT
* * *
75788040 TGATTACATGTAAGACCAAGTCTGGGACGTTGGCAT
1 TGATTTCATGTAAGACCACGTCTGGGACATTGGCAT
75788076 TGTAGAGCCT
Statistics
Matches: 100, Mismatches: 17, Indels: 12
0.78 0.13 0.09
Matches are distributed among these distances:
41 1 0.01
42 25 0.25
43 43 0.43
44 27 0.27
45 4 0.04
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.33
Consensus pattern (42 bp):
TGATTTCATGTAAGACCACGTCTGGGACATTGGCATCGTATT
Found at i:75793489 original size:18 final size:18
Alignment explanation
Indices: 75793466--75793501 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
75793456 TAATAACAAG
75793466 TTTTAGGTAGCAATACCT
1 TTTTAGGTAGCAATACCT
75793484 TTTTAGGTAGCAATACCT
1 TTTTAGGTAGCAATACCT
75793502 CCAAGTTTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.39
Consensus pattern (18 bp):
TTTTAGGTAGCAATACCT
Found at i:75794254 original size:18 final size:18
Alignment explanation
Indices: 75794204--75794259 Score: 69
Period size: 18 Copynumber: 3.0 Consensus size: 18
75794194 ATAAATTTAA
75794204 AAATTTTTATAAATATTTT
1 AAATTTTTA-AAATATTTT
*
75794223 GAA-TTTTAAGAATATTTT
1 AAATTTTTAA-AATATTTT
75794241 AAATTTTTAAAATAATTTT
1 AAATTTTTAAAAT-ATTTT
75794260 TTTAAAATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
17 1 0.03
18 18 0.56
19 13 0.41
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.54
Consensus pattern (18 bp):
AAATTTTTAAAATATTTT
Found at i:75795035 original size:61 final size:60
Alignment explanation
Indices: 75794957--75795131 Score: 173
Period size: 61 Copynumber: 2.9 Consensus size: 60
75794947 ATTGTTATTA
75794957 AATTTTAACA-AGATTATTATTAAATATATTTTAATAAAAATAATAATAAATAATTTAAT-C
1 AATTTTAACATA-ATTATTATTAAATATATTTTAATAAAAATAATAAT-AATAATTTAATAC
* * *
75795017 ATATTTTAACATAATTATTATTAAATACAATTTAAT-GAAATAAT-AT-ATAATTTAATAAC
1 A-ATTTTAACATAATTATTATTAAATATATTTTAATAAAAATAATAATAATAATTTAAT-AC
* * * *
75795076 AATTTTAATATAAGTATTATTAAA-ATATGAATTAATAAAAAATCATAATATATAAT
1 AATTTTAACATAATTATTATTAAATATAT--TTTAAT-AAAAATAATAATA-ATAAT
75795132 ATTATAAAAA
Statistics
Matches: 94, Mismatches: 10, Indels: 18
0.77 0.08 0.15
Matches are distributed among these distances:
57 12 0.13
58 21 0.22
59 9 0.10
60 8 0.09
61 36 0.38
62 3 0.03
64 5 0.05
ACGTcount: A:0.53, C:0.03, G:0.02, T:0.41
Consensus pattern (60 bp):
AATTTTAACATAATTATTATTAAATATATTTTAATAAAAATAATAATAATAATTTAATAC
Found at i:75807761 original size:19 final size:18
Alignment explanation
Indices: 75807729--75807792 Score: 58
Period size: 19 Copynumber: 3.4 Consensus size: 18
75807719 CCAAATTACT
*
75807729 TTAAAATATGTAAATATAA
1 TTAAAATA-ATAAATATAA
*
75807748 TGT-AAATAAATAAATAAAA
1 T-TAAAAT-AATAAATATAA
75807767 TTAAAATAATATAATATAA
1 TTAAAATAATA-AATATAA
*
75807786 TAAAAAT
1 TTAAAAT
75807793 GATATTAATT
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
18 5 0.14
19 30 0.81
20 2 0.05
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (18 bp):
TTAAAATAATAAATATAA
Found at i:75813296 original size:6 final size:6
Alignment explanation
Indices: 75813276--75813310 Score: 61
Period size: 6 Copynumber: 5.7 Consensus size: 6
75813266 CCACTCCAAA
75813276 ACAGAT ACAGAAT ACAGAT ACAGAT ACAGAT ACAG
1 ACAGAT ACAG-AT ACAGAT ACAGAT ACAGAT ACAG
75813311 GTATAACATG
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 22 0.79
7 6 0.21
ACGTcount: A:0.51, C:0.17, G:0.17, T:0.14
Consensus pattern (6 bp):
ACAGAT
Found at i:75813535 original size:18 final size:18
Alignment explanation
Indices: 75813512--75813548 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
75813502 AATTTTAAAA
75813512 TTATGGGCCCACATGCCC
1 TTATGGGCCCACATGCCC
75813530 TTATGGGCCCACATGCCC
1 TTATGGGCCCACATGCCC
75813548 T
1 T
75813549 GACCCAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.16, C:0.38, G:0.22, T:0.24
Consensus pattern (18 bp):
TTATGGGCCCACATGCCC
Found at i:75818712 original size:15 final size:15
Alignment explanation
Indices: 75818678--75818712 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
75818668 GTCTCAAAGA
*
75818678 AATCCCAGTTCAGAC
1 AATCCCAGTTCAAAC
*
75818693 GATCCCAGTTCAAAC
1 AATCCCAGTTCAAAC
75818708 AATCC
1 AATCC
75818713 GGCTGCGTAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.34, C:0.34, G:0.11, T:0.20
Consensus pattern (15 bp):
AATCCCAGTTCAAAC
Found at i:75822595 original size:19 final size:20
Alignment explanation
Indices: 75822567--75822606 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
75822557 AGCACATGTA
*
75822567 TTCATAAAA-TTCAGAATTT
1 TTCATAAAATTTCACAATTT
*
75822586 TTCATCAAATTTCACAATTT
1 TTCATAAAATTTCACAATTT
75822606 T
1 T
75822607 ACATTTTAGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.38, C:0.15, G:0.03, T:0.45
Consensus pattern (20 bp):
TTCATAAAATTTCACAATTT
Found at i:75825198 original size:43 final size:43
Alignment explanation
Indices: 75825150--75825313 Score: 151
Period size: 43 Copynumber: 3.8 Consensus size: 43
75825140 TTCGAGAGGA
* * *
75825150 GATTACTTGTAAAACCATGTCTGGGATATTGGCATTGTAT-TG
1 GATTACGTGTAAGACCATGTCTGGGACATTGGCATTGTATATG
*
75825192 TGATTACGTGTAAGACCATGTCT-GGAGCATTGGTATCAT-TATATG
1 -GATTACGTGTAAGACCATGTCTGGGA-CATTGGCAT--TGTATATG
*
75825237 AATT-CGTGTAAGACCATGTCTGGGACATTGGCATTG-ATATG
1 GATTACGTGTAAGACCATGTCTGGGACATTGGCATTGTATATG
* * * * *
75825278 AGATAACATGTAATACCATATCTGGGATA-TGGCATT
1 -GATTACGTGTAAGACCATGTCTGGGACATTGGCATT
75825314 ATTTGAGCTT
Statistics
Matches: 101, Mismatches: 12, Indels: 17
0.78 0.09 0.13
Matches are distributed among these distances:
41 6 0.06
42 12 0.12
43 71 0.70
44 9 0.09
45 3 0.03
ACGTcount: A:0.29, C:0.13, G:0.24, T:0.34
Consensus pattern (43 bp):
GATTACGTGTAAGACCATGTCTGGGACATTGGCATTGTATATG
Found at i:75829015 original size:389 final size:388
Alignment explanation
Indices: 75828309--75829053 Score: 927
Period size: 389 Copynumber: 1.9 Consensus size: 388
75828299 GTAATAGCTT
* * *
75828309 GTTTTTAGGTTAATCGGAACAGTGGTTTCGGGACCGCAATCTAAAGTCAAAATATTTATTTTATT
1 GTTTTTAGGTTAATCAGAACAGTGGTTTCGAGACCACAATCTAAAGTCAAAATATTTATTTTATT
* *
75828374 ATTTTATTAAGGTTTACAGTATGATAGAATGTTTCGTGTGAAAATTTCGTAAAGAAATTTTATCA
66 ATTTTATTAAGGTTTACAGTATGATAGAATGTTTCATGTGAAAATTTCGTAAAGAAATTTTACCA
*
75828439 TTTGAATGGTTAATTCGGTAAAAAAGACTAAATCGCGTTAAGCGTAAAAGTTGAATTCTATAAGT
131 TTTGAATGGTTAATTCGGTAAAAAAGACTAAATCGCGTAAAGCGTAAAAGTTGAATTCTATAAGT
* * * * * * * * *
75828504 TAAAGGTATTAAATGGCTATGAAATTAAATAATGGGAGTCCTTAAGTGGTAGTTATCCCATAAAT
196 GAAAGGAATCAAATAGCTAAGAAATGAAATAATGGGAGTACTTAAGTGGTAGATATACCAT-AAT
* * * * * * * *
75828569 TTTGATAGTGGAATTCTATGCCTTGGTATTGTTGAAATTTATGATGCTATTAAAGGTTAGTTTTG
260 TTTAATAGTGGAATACTATGACATGGTATAGATGAAATTTATAATGCTATTAAAGGTTAGTTTAG
*
75828634 TAAATTGGTTAATAAAGATTA-AATAAATAAAATCAAAGTCATTATTTTGTATATGTAATATCCC
325 TAAAATGGTTAATAAAG-TTATAATAAATAAAATCAAAGTCATTATTTTGTATATGTAATATCCC
*
75828698 GTTTTTAGGGTTAATCAGAATAGTGGTTTCGAGACCACAAT-TCAAAGTCAAAATATTTATTTTA
1 GTTTTTA-GGTTAATCAGAACAGTGGTTTCGAGACCACAATCT-AAAGTCAAAATATTTATTTTA
75828762 TTATTTTATTAAGGTTTACAGTATGATAGAATG-TTCATGTGAAAATTTCGTAAAGAAATTTTAC
64 TTATTTTATTAAGGTTTACAGTATGATAGAATGTTTCATGTGAAAATTTCGTAAAGAAATTTTAC
* * * * *
75828826 CGTTTGAGTGGTTAATTTGGTAAAAAGGACTAAATCGCAG-AAAGCGTAAAAGTTTAATTCTATA
129 CATTTGAATGGTTAATTCGGTAAAAAAGACTAAATCGC-GTAAAGCGTAAAAGTTGAATTCTATA
* * * *
75828890 AGTGAAATGAATCAATTAGCTAAAGAAATGAAATGAT-GG-GTACTTGCA-TGGTAGATATACCA
193 AGTGAAAGGAATCAAATAGCT-AAGAAATGAAATAATGGGAGTACTT-AAGTGGTAGATATACCA
* * * * *
75828952 T-TTTTATAATGAGTGG-ATAACTTTGGACAT-GTATAAGATG-GATTTTTAATGTTAGTTAAAG
256 TAATTT-TAAT-AGTGGAAT-ACTAT-GACATGGTAT-AGATGAAATTTATAATGCTA-TTAAAG
* *
75829013 GTTAGTTTAGTAAAATGGTTATTAAAGTTATAATAGATAAA
315 GTTAGTTTAGTAAAATGGTTAATAAAGTTATAATAAATAAA
75829054 TAAAATAAAA
Statistics
Matches: 303, Mismatches: 41, Indels: 24
0.82 0.11 0.07
Matches are distributed among these distances:
386 3 0.01
387 5 0.02
388 43 0.14
389 156 0.51
390 96 0.32
ACGTcount: A:0.36, C:0.08, G:0.19, T:0.37
Consensus pattern (388 bp):
GTTTTTAGGTTAATCAGAACAGTGGTTTCGAGACCACAATCTAAAGTCAAAATATTTATTTTATT
ATTTTATTAAGGTTTACAGTATGATAGAATGTTTCATGTGAAAATTTCGTAAAGAAATTTTACCA
TTTGAATGGTTAATTCGGTAAAAAAGACTAAATCGCGTAAAGCGTAAAAGTTGAATTCTATAAGT
GAAAGGAATCAAATAGCTAAGAAATGAAATAATGGGAGTACTTAAGTGGTAGATATACCATAATT
TTAATAGTGGAATACTATGACATGGTATAGATGAAATTTATAATGCTATTAAAGGTTAGTTTAGT
AAAATGGTTAATAAAGTTATAATAAATAAAATCAAAGTCATTATTTTGTATATGTAATATCCC
Found at i:75830001 original size:43 final size:43
Alignment explanation
Indices: 75829952--75830099 Score: 138
Period size: 43 Copynumber: 3.4 Consensus size: 43
75829942 GATGTCATTA
* *
75829952 CATGTAAGACCATGTCTGGAACATTGGCATTG-TATTATGATTAT
1 CATGTAAGACCATGTCTGGAACATTGACATCGTTATT-TGATT-T
* * *
75829996 -GTGTAAGACCATGTTTGGGACATTGACATCGTTATTTGATTT
1 CATGTAAGACCATGTCTGGAACATTGACATCGTTATTTGATTT
* * * ** * **
75830038 CATGTAAGACCCTGTCTGGGACAGTGACATCAATATGTGATAA
1 CATGTAAGACCATGTCTGGAACATTGACATCGTTATTTGATTT
*
75830081 CATGTAAGACCATATCTGG
1 CATGTAAGACCATGTCTGG
75830100 GATATGGCAT
Statistics
Matches: 86, Mismatches: 16, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
42 1 0.01
43 81 0.94
44 4 0.05
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.33
Consensus pattern (43 bp):
CATGTAAGACCATGTCTGGAACATTGACATCGTTATTTGATTT
Found at i:75831258 original size:21 final size:21
Alignment explanation
Indices: 75831228--75831267 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
75831218 ATGGTTGAAG
75831228 ATGAAATGGCATGATTTGTAT
1 ATGAAATGGCATGATTTGTAT
* *
75831249 ATGAATTGGCATGTTTTGT
1 ATGAAATGGCATGATTTGT
75831268 TTGCCTATAA
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:0.28, C:0.05, G:0.25, T:0.42
Consensus pattern (21 bp):
ATGAAATGGCATGATTTGTAT
Found at i:75832753 original size:43 final size:44
Alignment explanation
Indices: 75832692--75832857 Score: 153
Period size: 43 Copynumber: 3.9 Consensus size: 44
75832682 GCCGGGACAA
* * *
75832692 GATTACAG-GTAAAACCATGTTTGGGATATTGGCATTGTAT-TGT
1 GATTAC-GTGTAAGACCATGTCTGGGACATTGGCATTGTATATGT
* * *
75832735 GATTACGTGTAAGACCATGTCTGGGACATTGGTATCGT-TATAT
1 GATTACGTGTAAGACCATGTCTGGGACATTGGCATTGTATATGT
** * *
75832778 GATTTTGTGTATGACCATGTCTGGGACATTGGCATTG-ATATGA
1 GATTACGTGTAAGACCATGTCTGGGACATTGGCATTGTATATGT
* * * * *
75832821 GATAACATGTAAGACCATATCTAGGATA-TGGCATTGT
1 GATTACGTGTAAGACCATGTCTGGGACATTGGCATTGT
75832858 TTGAGCTTTA
Statistics
Matches: 98, Mismatches: 21, Indels: 8
0.77 0.17 0.06
Matches are distributed among these distances:
42 10 0.10
43 88 0.90
ACGTcount: A:0.28, C:0.12, G:0.25, T:0.35
Consensus pattern (44 bp):
GATTACGTGTAAGACCATGTCTGGGACATTGGCATTGTATATGT
Found at i:75840215 original size:46 final size:46
Alignment explanation
Indices: 75840165--75840468 Score: 493
Period size: 46 Copynumber: 6.6 Consensus size: 46
75840155 GCCATAGTGC
* * *
75840165 CTTTCAACTATGGTCTTACTCATTTTC-TGTCATGTTGCCATGGTAT
1 CTTTCAACCATGGTCTTATTCA-TTTCATATCATGTTGCCATGGTAT
* *
75840211 CTTTCAACCATGGTCTTGTTCATTTCATGTCATGTTGCCATGGTAT
1 CTTTCAACCATGGTCTTATTCATTTCATATCATGTTGCCATGGTAT
*
75840257 CTTTCAACCATGGTCTTATTCATTTCATATCATGTTACCATGGTAT
1 CTTTCAACCATGGTCTTATTCATTTCATATCATGTTGCCATGGTAT
75840303 CTTTCAACCATGGTCTTATTCATTTCATATCATGTTGCCATGGTAT
1 CTTTCAACCATGGTCTTATTCATTTCATATCATGTTGCCATGGTAT
* * *
75840349 CTGTCAACCATGGTCTTATTCATTTCATGTCACGTTGCCATGGTAT
1 CTTTCAACCATGGTCTTATTCATTTCATATCATGTTGCCATGGTAT
75840395 CTTTCAACCATGGTCTTATTCATTTCATATCATGTTGCCATGGTAT
1 CTTTCAACCATGGTCTTATTCATTTCATATCATGTTGCCATGGTAT
**
75840441 CTTTCAACCATGGTCTTACACATTTCAT
1 CTTTCAACCATGGTCTTATTCATTTCAT
75840469 TTCAGAAAAC
Statistics
Matches: 242, Mismatches: 15, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
45 4 0.02
46 238 0.98
ACGTcount: A:0.21, C:0.23, G:0.14, T:0.43
Consensus pattern (46 bp):
CTTTCAACCATGGTCTTATTCATTTCATATCATGTTGCCATGGTAT
Found at i:75848270 original size:41 final size:41
Alignment explanation
Indices: 75848214--75848307 Score: 161
Period size: 41 Copynumber: 2.3 Consensus size: 41
75848204 TTTTTTTTAG
* *
75848214 AAAATGCTTCCAACTGGAAGCCTTTTCAAGTGATATGCAGA
1 AAAACGCTTCTAACTGGAAGCCTTTTCAAGTGATATGCAGA
*
75848255 AAAACGCTTCTAACTGGAAGCCTTTTCCAGTGATATGCAGA
1 AAAACGCTTCTAACTGGAAGCCTTTTCAAGTGATATGCAGA
75848296 AAAACGCTTCTA
1 AAAACGCTTCTA
75848308 GCAGAAAGCT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 50 1.00
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.27
Consensus pattern (41 bp):
AAAACGCTTCTAACTGGAAGCCTTTTCAAGTGATATGCAGA
Found at i:75848322 original size:41 final size:41
Alignment explanation
Indices: 75848231--75848322 Score: 139
Period size: 41 Copynumber: 2.2 Consensus size: 41
75848221 TTCCAACTGG
* *
75848231 AAGCCTTTTCAAGTGATATGCAGAAAAACGCTTCTAACTGG
1 AAGCCTTTTCAAGTGATATGCAGAAAAACGCTTCTAACAGA
* *
75848272 AAGCCTTTTCCAGTGATATGCAGAAAAACGCTTCTAGCAGA
1 AAGCCTTTTCAAGTGATATGCAGAAAAACGCTTCTAACAGA
*
75848313 AAGCTTTTTC
1 AAGCCTTTTC
75848323 TGCCATATTT
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 46 1.00
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.28
Consensus pattern (41 bp):
AAGCCTTTTCAAGTGATATGCAGAAAAACGCTTCTAACAGA
Found at i:75849371 original size:22 final size:22
Alignment explanation
Indices: 75849344--75849388 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
75849334 ACTATTTTGT
75849344 AAAGTGATTTTGGTTAATTTTA
1 AAAGTGATTTTGGTTAATTTTA
75849366 AAAGTGATTTTGGTTAATTTTA
1 AAAGTGATTTTGGTTAATTTTA
75849388 A
1 A
75849389 GTTTAAGGAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.33, C:0.00, G:0.18, T:0.49
Consensus pattern (22 bp):
AAAGTGATTTTGGTTAATTTTA
Found at i:75849881 original size:24 final size:23
Alignment explanation
Indices: 75849852--75849917 Score: 59
Period size: 21 Copynumber: 2.9 Consensus size: 23
75849842 AATAAATAAA
*
75849852 ACCATAGTTGAAAGACACTATGG
1 ACCATAGTTGAAAGACACTATAG
*
75849875 CACCATA-TCAGAAATGA-A-TA-AG
1 -ACCATAGT-TGAAA-GACACTATAG
75849897 ACCATAGTTGAAAGACACTAT
1 ACCATAGTTGAAAGACACTAT
75849918 TACACTATAC
Statistics
Matches: 33, Mismatches: 3, Indels: 13
0.67 0.06 0.27
Matches are distributed among these distances:
20 2 0.06
21 11 0.33
22 4 0.12
23 3 0.09
24 11 0.33
25 2 0.06
ACGTcount: A:0.44, C:0.18, G:0.17, T:0.21
Consensus pattern (23 bp):
ACCATAGTTGAAAGACACTATAG
Found at i:75849962 original size:46 final size:45
Alignment explanation
Indices: 75849841--75850146 Score: 339
Period size: 45 Copynumber: 6.8 Consensus size: 45
75849831 TTGGCTTGAA
* * * *
75849841 AAATAAATAAAACCATAGTTGAAAGACACTATGGCACCATATCAG
1 AAATGAATAAGACCATAGTTGAAAGACACTATGGCACTATACCAG
**
75849886 AAATGAATAAGACCATAGTTGAAAGACACTATTACACTATACCAG
1 AAATGAATAAGACCATAGTTGAAAGACACTATGGCACTATACCAG
* * * *
75849931 AAAACGAAAAAGACCATAGTTGAAA-AGCACTATGGCATTATACTAG
1 -AAATGAATAAGACCATAGTTGAAAGA-CACTATGGCACTATACCAG
* *
75849977 AAATGAATAAGACTATAGTTGAAAGACACTATGGCACTATACCGAA
1 AAATGAATAAGACCATAGTTGAAAGACACTATGGCACTATACC-AG
* * * * * *
75850023 AAATAAATAAGACAAGAGTTGAAATACACTATGGCACTATGCCGG
1 AAATGAATAAGACCATAGTTGAAAGACACTATGGCACTATACCAG
** *
75850068 AAATGAATAAGACCATAGTTGAAAGACACTATGGCA-TCATGTCGG
1 AAATGAATAAGACCATAGTTGAAAGACACTATGGCACT-ATACCAG
* *
75850113 AAATAAATAAGACCAT-GTTTGAAAGACGCTATGG
1 AAATGAATAAGACCATAG-TTGAAAGACACTATGG
75850147 AATCCTTGAA
Statistics
Matches: 223, Mismatches: 32, Indels: 12
0.84 0.12 0.04
Matches are distributed among these distances:
44 2 0.01
45 144 0.65
46 77 0.35
ACGTcount: A:0.45, C:0.16, G:0.18, T:0.21
Consensus pattern (45 bp):
AAATGAATAAGACCATAGTTGAAAGACACTATGGCACTATACCAG
Found at i:75850101 original size:91 final size:91
Alignment explanation
Indices: 75849838--75850103 Score: 365
Period size: 91 Copynumber: 2.9 Consensus size: 91
75849828 TCATTGGCTT
* * *
75849838 GAAAAATAAATAAAACCATAGTTGAAAGACACTATGGCACCATATCAGAAATGAATAAGACCATA
1 GAAAAATAAATAAGACCATAGTTGAAA-ACACTATGGCACTATACCAGAAATGAATAAGACCATA
**
75849903 GTTGAAAGACACTATTACACTATACCA
65 GTTGAAAGACACTATGGCACTATACCA
** * * *
75849930 GAAAACGAAA-AAGACCATAGTTGAAAAGCACTATGGCATTATACTAGAAATGAATAAGACTATA
1 GAAAAATAAATAAGACCATAGTTGAAAA-CACTATGGCACTATACCAGAAATGAATAAGACCATA
75849994 GTTGAAAGACACTATGGCACTATACC-
65 GTTGAAAGACACTATGGCACTATACCA
* * * *
75850020 GAAAAATAAATAAGACAAGAGTTGAAATACACTATGGCACTATGCCGGAAATGAATAAGACCATA
1 GAAAAATAAATAAGACCATAGTTGAAA-ACACTATGGCACTATACCAGAAATGAATAAGACCATA
75850085 GTTGAAAGACACTATGGCA
65 GTTGAAAGACACTATGGCA
75850104 TCATGTCGGA
Statistics
Matches: 152, Mismatches: 19, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
90 9 0.06
91 134 0.88
92 9 0.06
ACGTcount: A:0.47, C:0.16, G:0.17, T:0.20
Consensus pattern (91 bp):
GAAAAATAAATAAGACCATAGTTGAAAACACTATGGCACTATACCAGAAATGAATAAGACCATAG
TTGAAAGACACTATGGCACTATACCA
Found at i:75850116 original size:136 final size:136
Alignment explanation
Indices: 75849841--75850146 Score: 368
Period size: 136 Copynumber: 2.2 Consensus size: 136
75849831 TTGGCTTGAA
* * * * * *
75849841 AAATAAATAAAACCATAGTTGAAAGACACTATGGCACCATATCAGAAATGAATAAGACCATAGTT
1 AAATAAATAAGACCATAGTTGAAAGACACTATGGCACCATACCAAAAATAAATAAGACAAGAGTT
* *
75849906 GAAAGACACTATTACACTATACCAGAAAACGAAAAAGACCATAGTTGAAAAGCACTATGGCATTA
66 GAAAGACACTATGACACTATACCAGAAAACGAAAAAGACCATAGTTGAAAAGCACTATGGCATCA
75849971 TACTAG
131 TACTAG
* * *
75849977 AAATGAATAAGACTATAGTTGAAAGACACTATGGCACTATACCGAAAAATAAATAAGACAAGAGT
1 AAATAAATAAGACCATAGTTGAAAGACACTATGGCACCATACC-AAAAATAAATAAGACAAGAGT
* * * * * *
75850042 TGAAATACACTATGGCACTATGCC-GGAAATGAATAAGACCATAGTTG-AAAGACACTATGGCAT
65 TGAAAGACACTATGACACTATACCAGAAAACGAAAAAGACCATAGTTGAAAAG-CACTATGGCAT
* *
75850105 CAT-GTCGG
129 CATACT-AG
*
75850113 AAATAAATAAGACCAT-GTTTGAAAGACGCTATGG
1 AAATAAATAAGACCATAG-TTGAAAGACACTATGG
75850147 AATCCTTGAA
Statistics
Matches: 144, Mismatches: 22, Indels: 8
0.83 0.13 0.05
Matches are distributed among these distances:
135 6 0.04
136 101 0.70
137 37 0.26
ACGTcount: A:0.45, C:0.16, G:0.18, T:0.21
Consensus pattern (136 bp):
AAATAAATAAGACCATAGTTGAAAGACACTATGGCACCATACCAAAAATAAATAAGACAAGAGTT
GAAAGACACTATGACACTATACCAGAAAACGAAAAAGACCATAGTTGAAAAGCACTATGGCATCA
TACTAG
Found at i:75850352 original size:13 final size:13
Alignment explanation
Indices: 75850336--75850369 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
75850326 GAAATGATTA
75850336 TACGAAATAGTTG
1 TACGAAATAGTTG
*
75850349 TACGAAATGGTTG
1 TACGAAATAGTTG
*
75850362 TACAAAAT
1 TACGAAAT
75850370 GATTAAATGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.41, C:0.09, G:0.21, T:0.29
Consensus pattern (13 bp):
TACGAAATAGTTG
Found at i:75851222 original size:24 final size:24
Alignment explanation
Indices: 75851195--75851243 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
75851185 CAAATGTAAA
*
75851195 TAACCATGTTGCGCATGTTTAACT
1 TAACCATGTTGCACATGTTTAACT
75851219 TAACCATGTTGCACATGTTTAACT
1 TAACCATGTTGCACATGTTTAACT
75851243 T
1 T
75851244 TATAAAAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.27, C:0.20, G:0.14, T:0.39
Consensus pattern (24 bp):
TAACCATGTTGCACATGTTTAACT
Found at i:75855649 original size:43 final size:43
Alignment explanation
Indices: 75855601--75855765 Score: 154
Period size: 43 Copynumber: 3.8 Consensus size: 43
75855591 CAAAGCCATA
* * * *
75855601 TCCCAGATATGGTCTTACATGTTATCACATATCGATGCCACTG
1 TCCCAGACATGGTCTTACACGTAATCACATATCGATGCCAATG
* * ** * * *
75855644 TCCCAGATAGGGTCTTACACAAAATTGA-TTAACGATGCCAATG
1 TCCCAGACATGGTCTTACACGTAA-TCACATATCGATGCCAATG
* *
75855687 TCCCAGACATGGTCTTACACGTAATCTCA-ATACAATGCCAATG
1 TCCCAGACATGGTCTTACACGTAATCACATAT-CGATGCCAATG
* * *
75855730 TCCCAAACATGGTCTTACATGTAATCACATCTCGAT
1 TCCCAGACATGGTCTTACACGTAATCACATATCGAT
75855766 AACCTAATTT
Statistics
Matches: 95, Mismatches: 23, Indels: 8
0.75 0.18 0.06
Matches are distributed among these distances:
42 2 0.02
43 90 0.95
44 3 0.03
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.28
Consensus pattern (43 bp):
TCCCAGACATGGTCTTACACGTAATCACATATCGATGCCAATG
Found at i:75864038 original size:18 final size:18
Alignment explanation
Indices: 75864017--75864064 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
75864007 TGCACATTAA
75864017 AAAATATAAAATAT-ATAT
1 AAAATATAAAA-ATCATAT
*
75864035 AAAATCTAAAAATCATAT
1 AAAATATAAAAATCATAT
*
75864053 AAATTATAAAAA
1 AAAATATAAAAA
75864065 AACAATAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
17 2 0.08
18 24 0.92
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (18 bp):
AAAATATAAAAATCATAT
Found at i:75864284 original size:19 final size:19
Alignment explanation
Indices: 75864256--75864292 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
75864246 TTTAAAAAAA
*
75864256 TTATAGTTTTTATAATTTT
1 TTATAGTTTTAATAATTTT
*
75864275 TTATATTTTTAATAATTT
1 TTATAGTTTTAATAATTT
75864293 AATTTTTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (19 bp):
TTATAGTTTTAATAATTTT
Found at i:75866592 original size:3 final size:3
Alignment explanation
Indices: 75866556--75866600 Score: 54
Period size: 3 Copynumber: 15.0 Consensus size: 3
75866546 TAGAGAGGGG
* * * *
75866556 TTA TTG TTA TTA TTG TTA TTG TTA TTA CTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
75866601 AAGTTTTCTT
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.27, C:0.02, G:0.07, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:75872150 original size:108 final size:108
Alignment explanation
Indices: 75871961--75872160 Score: 373
Period size: 108 Copynumber: 1.9 Consensus size: 108
75871951 GTAAACGGAG
* *
75871961 ATATTTTGCCATTATTAGTTTTCTTCATTGTTGTTTGTCTGAGGGATAAGGACAATACTACTCTT
1 ATATTTTGCCATTATTAGTTTTCTTCATTGTTGATTGTCCGAGGGATAAGGACAATACTACTCTT
75872026 CATGGCAGTGTCATTGTTGGTGTTTTGCCATTATTTTGCTTTT
66 CATGGCAGTGTCATTGTTGGTGTTTTGCCATTATTTTGCTTTT
*
75872069 ATATTTTGCCATTATTAGTTTTCTTCATTGTTGATTGTCCGAGGGATAAGGACAGTACTACTCTT
1 ATATTTTGCCATTATTAGTTTTCTTCATTGTTGATTGTCCGAGGGATAAGGACAATACTACTCTT
75872134 CATGGCAGTGTCATTGTTGGTGTTTTG
66 CATGGCAGTGTCATTGTTGGTGTTTTG
75872161 GAAAGTGACA
Statistics
Matches: 89, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
108 89 1.00
ACGTcount: A:0.19, C:0.14, G:0.21, T:0.46
Consensus pattern (108 bp):
ATATTTTGCCATTATTAGTTTTCTTCATTGTTGATTGTCCGAGGGATAAGGACAATACTACTCTT
CATGGCAGTGTCATTGTTGGTGTTTTGCCATTATTTTGCTTTT
Found at i:75873745 original size:23 final size:24
Alignment explanation
Indices: 75873699--75873745 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
75873689 GGTTGATAAT
* *
75873699 TAAATTTAATTAAAAAGTAAAAAC
1 TAAATTTAATAAAAAAATAAAAAC
*
75873723 TAAA-TTAATAAAAAAATATAAAC
1 TAAATTTAATAAAAAAATAAAAAC
75873746 GTTAAAGTAG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 16 0.80
24 4 0.20
ACGTcount: A:0.66, C:0.04, G:0.02, T:0.28
Consensus pattern (24 bp):
TAAATTTAATAAAAAAATAAAAAC
Found at i:75882736 original size:27 final size:28
Alignment explanation
Indices: 75882660--75882736 Score: 95
Period size: 27 Copynumber: 2.8 Consensus size: 28
75882650 AAATTGCTGT
* *
75882660 TTAATTAGTAAAAATATTTTTAATTAAAT
1 TTAATTA-TAAAAATATTTTTAATAAAAA
*
75882689 TTAATTATAAAAATA-TATTAATAAAAA
1 TTAATTATAAAAATATTTTTAATAAAAA
*
75882716 TTAA-TATTAAAATATTTTTAA
1 TTAATTATAAAAATATTTTTAA
75882737 CAATAATTTA
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
26 9 0.21
27 18 0.43
28 8 0.19
29 7 0.17
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.45
Consensus pattern (28 bp):
TTAATTATAAAAATATTTTTAATAAAAA
Found at i:75883323 original size:22 final size:22
Alignment explanation
Indices: 75883277--75883323 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
75883267 AATAACAACA
* *
75883277 AAATAGTAGCAATACAATGACG
1 AAATAGTAGCAAAACAATAACG
* *
75883299 AAATAGTAGCAAAACAGTAATG
1 AAATAGTAGCAAAACAATAACG
75883321 AAA
1 AAA
75883324 AGTTTATTCG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.55, C:0.11, G:0.17, T:0.17
Consensus pattern (22 bp):
AAATAGTAGCAAAACAATAACG
Found at i:75887369 original size:31 final size:29
Alignment explanation
Indices: 75887334--75887391 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 29
75887324 AATAGTATTT
75887334 TATT-AATTTAATATTAAAGTGATTATCTTAA
1 TATTAAATTTAAT-TTAAAGT--TTATCTTAA
75887365 TATTAAATTTAATTTAAAGTTTATCTT
1 TATTAAATTTAATTTAAAGTTTATCTT
75887392 GTAGATAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
29 7 0.27
31 11 0.42
32 8 0.31
ACGTcount: A:0.40, C:0.03, G:0.05, T:0.52
Consensus pattern (29 bp):
TATTAAATTTAATTTAAAGTTTATCTTAA
Found at i:75887477 original size:59 final size:62
Alignment explanation
Indices: 75887361--75887478 Score: 154
Period size: 62 Copynumber: 2.0 Consensus size: 62
75887351 AGTGATTATC
* * * **
75887361 TTAATATTAAATTTAATTTAAAGTTTATCTTGTAGATAAATATTCTATTATTTTAATAAGAA
1 TTAATATTAAATCTAATCTAAAGTTTATCTTGTAGATAAATATTATATTAACTTAATAAGAA
75887423 TTAATATTAAATCTAATCTAATA-TTTATC-T-T-GATAAATATTATATTAACTTAATAA
1 TTAATATTAAATCTAATCTAA-AGTTTATCTTGTAGATAAATATTATATTAACTTAATAA
75887479 AAAATGATTA
Statistics
Matches: 50, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
59 22 0.44
60 1 0.02
61 1 0.02
62 25 0.50
63 1 0.02
ACGTcount: A:0.43, C:0.05, G:0.04, T:0.47
Consensus pattern (62 bp):
TTAATATTAAATCTAATCTAAAGTTTATCTTGTAGATAAATATTATATTAACTTAATAAGAA
Found at i:75890952 original size:24 final size:24
Alignment explanation
Indices: 75890925--75890972 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
75890915 GTTAATATGA
*
75890925 ATTATGGTATTTAGATTAAGACAT
1 ATTATGGTATTTACATTAAGACAT
75890949 ATTATGGTATTTACATTAAGACAT
1 ATTATGGTATTTACATTAAGACAT
75890973 GTGCACTTGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.38, C:0.06, G:0.15, T:0.42
Consensus pattern (24 bp):
ATTATGGTATTTACATTAAGACAT
Found at i:75897002 original size:12 final size:12
Alignment explanation
Indices: 75896979--75897010 Score: 55
Period size: 12 Copynumber: 2.6 Consensus size: 12
75896969 GTTGATAAAG
75896979 AAAATAAAATAAT
1 AAAAT-AAATAAT
75896992 AAAATAAATAAT
1 AAAATAAATAAT
75897004 AAAATAA
1 AAAATAA
75897011 TAACAGAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 14 0.74
13 5 0.26
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (12 bp):
AAAATAAATAAT
Found at i:75897023 original size:20 final size:20
Alignment explanation
Indices: 75896981--75897024 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
75896971 TGATAAAGAA
*
75896981 AATAAAATAATAAAATAAAT
1 AATAAAATAATAAAAGAAAT
* *
75897001 AATAAAATAATAACAGAATT
1 AATAAAATAATAAAAGAAAT
75897021 AATA
1 AATA
75897025 TTGCAAAACA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.25
Consensus pattern (20 bp):
AATAAAATAATAAAAGAAAT
Found at i:75902055 original size:23 final size:23
Alignment explanation
Indices: 75902020--75902154 Score: 134
Period size: 23 Copynumber: 5.7 Consensus size: 23
75902010 AACTCATCAT
75902020 AGCTC-ATAAGAGCTTACTGTTTC
1 AGCTCAAT-AGAGCTTACTGTTTC
* * * *
75902043 AGCTCATTGGAGCTTACCGATTC
1 AGCTCAATAGAGCTTACTGTTTC
75902066 AGCTCGAA-AGAGCTTACTG-TTC
1 AGCTC-AATAGAGCTTACTGTTTC
75902088 AGCTCAATAGAGCTTACCAT-TTTC
1 AGCTCAATAGAGCTTA-C-TGTTTC
75902112 AGCTCAATAGAGCTTACTGTTTATC
1 AGCTCAATAGAGCTTACTG-TT-TC
*
75902137 AGCTCAGTAAGAGCTTAC
1 AGCTCAAT-AGAGCTTAC
75902155 CGACATGTCT
Statistics
Matches: 94, Mismatches: 8, Indels: 17
0.79 0.07 0.14
Matches are distributed among these distances:
21 2 0.02
22 17 0.18
23 33 0.35
24 24 0.26
25 9 0.10
26 9 0.10
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (23 bp):
AGCTCAATAGAGCTTACTGTTTC
Found at i:75902113 original size:46 final size:45
Alignment explanation
Indices: 75902020--75902157 Score: 163
Period size: 46 Copynumber: 2.9 Consensus size: 45
75902010 AACTCATCAT
* *
75902020 AGCTCATAAGAGCTTACTGTTTCAGCTCATTGGAGCTTACCGATTC
1 AGCTCA-AAGAGCTTACTGTTTCAGCTCAATAGAGCTTACCGATTC
75902066 AGCTCGAAAGAGCTTACTG-TTCAGCTCAATAGAGCTTACC-ATTTTC
1 AGCTC-AAAGAGCTTACTGTTTCAGCTCAATAGAGCTTACCGA--TTC
*
75902112 AGCTCAATAGAGCTTACTGTTTATCAGCTCAGTAAGAGCTTACCGA
1 AGCTCAA-AGAGCTTACTG-TT-TCAGCTCAAT-AGAGCTTACCGA
75902158 CATGTCTTGA
Statistics
Matches: 80, Mismatches: 3, Indels: 13
0.83 0.03 0.14
Matches are distributed among these distances:
44 1 0.01
45 21 0.26
46 36 0.45
47 1 0.01
48 1 0.01
49 9 0.11
50 10 0.12
51 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (45 bp):
AGCTCAAAGAGCTTACTGTTTCAGCTCAATAGAGCTTACCGATTC
Found at i:75902117 original size:24 final size:24
Alignment explanation
Indices: 75902039--75902155 Score: 109
Period size: 24 Copynumber: 4.9 Consensus size: 24
75902029 GAGCTTACTG
* *
75902039 TTTCAGCTCATTGGAGCTTACCGA-
1 TTTCAGCTCAATAGAGCTTACC-AT
75902063 -TTCAGCTCGAA-AGAGCTTA-C-T
1 TTTCAGCTC-AATAGAGCTTACCAT
*
75902084 GTTCAGCTCAATAGAGCTTACCAT
1 TTTCAGCTCAATAGAGCTTACCAT
**
75902108 TTTCAGCTCAATAGAGCTTACTGT
1 TTTCAGCTCAATAGAGCTTACCAT
*
75902132 TTATCAGCTCAGTAAGAGCTTACC
1 TT-TCAGCTCAAT-AGAGCTTACC
75902156 GACATGTCTT
Statistics
Matches: 78, Mismatches: 7, Indels: 14
0.79 0.07 0.14
Matches are distributed among these distances:
21 2 0.03
22 17 0.22
23 16 0.21
24 25 0.32
25 9 0.12
26 9 0.12
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (24 bp):
TTTCAGCTCAATAGAGCTTACCAT
Found at i:75905268 original size:25 final size:25
Alignment explanation
Indices: 75905240--75905290 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
75905230 GAATTTGATA
75905240 TGATTCTGGGTATGGATTGGCTGAC
1 TGATTCTGGGTATGGATTGGCTGAC
75905265 TGATTCTGGGTATGGATTGGCTGAC
1 TGATTCTGGGTATGGATTGGCTGAC
75905290 T
1 T
75905291 ATGCACGATG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.16, C:0.12, G:0.35, T:0.37
Consensus pattern (25 bp):
TGATTCTGGGTATGGATTGGCTGAC
Found at i:75909655 original size:46 final size:45
Alignment explanation
Indices: 75909588--75909724 Score: 143
Period size: 46 Copynumber: 2.9 Consensus size: 45
75909578 AAACTCACCA
* * *
75909588 TAGCTCATAAGAGCTTACTGTTTCAGCTTATTGGAGCTTACCGA-TT
1 TAGCTCA-AAGAGCTTACTGTTTCAGCTCAATAGAGCTTACC-ATTT
*
75909634 TAGCTCGAAAGAGCTTACTG-TTCAGCTCAATAGAGCTTATCATTT
1 TAGCTC-AAAGAGCTTACTGTTTCAGCTCAATAGAGCTTACCATTT
*
75909679 TCAGCTCAATAGAGCTTACTGTTTATCAGCTCAGTAAGAGCTTACC
1 T-AGCTCAA-AGAGCTTACTG-TT-TCAGCTCAAT-AGAGCTTACC
75909725 GACCATGTCT
Statistics
Matches: 77, Mismatches: 6, Indels: 12
0.81 0.06 0.13
Matches are distributed among these distances:
44 1 0.01
45 22 0.29
46 34 0.44
47 1 0.01
48 1 0.01
49 9 0.12
50 9 0.12
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.34
Consensus pattern (45 bp):
TAGCTCAAAGAGCTTACTGTTTCAGCTCAATAGAGCTTACCATTT
Found at i:75909685 original size:24 final size:24
Alignment explanation
Indices: 75909589--75909723 Score: 88
Period size: 24 Copynumber: 5.7 Consensus size: 24
75909579 AACTCACCAT
*
75909589 AGCTC-ATAAGAGCTTACT-GTTTC
1 AGCTCAAT-AGAGCTTACTATTTTC
* * * *
75909612 AGCTTATTGGAGCTTACCGA-TTT-
1 AGCTCAATAGAGCTTA-CTATTTTC
*
75909635 AGCTCGAA-AGAGCTTAC--TGTTC
1 AGCTC-AATAGAGCTTACTATTTTC
75909657 AGCTCAATAGAGCTTA-TCATTTTC
1 AGCTCAATAGAGCTTACT-ATTTTC
*
75909681 AGCTCAATAGAGCTTACTGTTTATC
1 AGCTCAATAGAGCTTACTATTT-TC
*
75909706 AGCTCAGTAAGAGCTTAC
1 AGCTCAAT-AGAGCTTAC
75909724 CGACCATGTC
Statistics
Matches: 88, Mismatches: 11, Indels: 23
0.72 0.09 0.19
Matches are distributed among these distances:
21 4 0.05
22 14 0.16
23 22 0.25
24 29 0.33
25 10 0.11
26 9 0.10
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.33
Consensus pattern (24 bp):
AGCTCAATAGAGCTTACTATTTTC
Found at i:75926150 original size:40 final size:40
Alignment explanation
Indices: 75926095--75926170 Score: 152
Period size: 40 Copynumber: 1.9 Consensus size: 40
75926085 AAAAATAGTA
75926095 GAAATTGAATCAGAGATTGAATGAGATATCAAATTATAGC
1 GAAATTGAATCAGAGATTGAATGAGATATCAAATTATAGC
75926135 GAAATTGAATCAGAGATTGAATGAGATATCAAATTA
1 GAAATTGAATCAGAGATTGAATGAGATATCAAATTA
75926171 GAGCTTAATG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.46, C:0.07, G:0.20, T:0.28
Consensus pattern (40 bp):
GAAATTGAATCAGAGATTGAATGAGATATCAAATTATAGC
Found at i:75928530 original size:51 final size:49
Alignment explanation
Indices: 75928427--75928592 Score: 170
Period size: 49 Copynumber: 3.3 Consensus size: 49
75928417 AAACAATCTG
* ** * * * *
75928427 GTACTACACACGTGACGCAACCATCTGATACACGTAGTAGCCTGCATTTA
1 GTACTACACACGTGAC-TAATAATCCGGTACACATAGTAGCCTGCACTTA
* * * * *
75928477 GTACTACACACGTGATTGAAGTTATCGGGTACGCATAGTAGCCTACACTTA
1 GTACTACACACGTGACT-AA-TAATCCGGTACACATAGTAGCCTGCACTTA
* * *
75928528 GTACTACACATGCGACTAATAATCCGGTACACGTAGTAGCCTGCACTTA
1 GTACTACACACGTGACTAATAATCCGGTACACATAGTAGCCTGCACTTA
75928577 GTACTACACACGTGAC
1 GTACTACACACGTGAC
75928593 CTCACAATAG
Statistics
Matches: 94, Mismatches: 20, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
49 39 0.41
50 19 0.20
51 36 0.38
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (49 bp):
GTACTACACACGTGACTAATAATCCGGTACACATAGTAGCCTGCACTTA
Found at i:75928575 original size:49 final size:51
Alignment explanation
Indices: 75928455--75928588 Score: 173
Period size: 49 Copynumber: 2.7 Consensus size: 51
75928445 AACCATCTGA
* * * * *
75928455 TACACGTAGTAGCCTGCATTTAGTACTACACACGTGATTGAAGTTATCGGG
1 TACACGTAGTAGCCTGCACTTAGTACTACACACGCGACTGAAGTAATCCGG
* * * *
75928506 TACGCATAGTAGCCTACACTTAGTACTACACATGCGACT-AA-TAATCCGG
1 TACACGTAGTAGCCTGCACTTAGTACTACACACGCGACTGAAGTAATCCGG
75928555 TACACGTAGTAGCCTGCACTTAGTACTACACACG
1 TACACGTAGTAGCCTGCACTTAGTACTACACACG
75928589 TGACCTCACA
Statistics
Matches: 70, Mismatches: 13, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
49 36 0.51
50 2 0.03
51 32 0.46
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (51 bp):
TACACGTAGTAGCCTGCACTTAGTACTACACACGCGACTGAAGTAATCCGG
Found at i:75930912 original size:8 final size:8
Alignment explanation
Indices: 75930901--75930930 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
75930891 AGAGAGAGAG
75930901 AGTGAGTC
1 AGTGAGTC
75930909 AGTGAGTC
1 AGTGAGTC
*
75930917 AGTGAGTA
1 AGTGAGTC
75930925 AGTGAG
1 AGTGAG
75930931 AGAATTAGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.30, C:0.07, G:0.40, T:0.23
Consensus pattern (8 bp):
AGTGAGTC
Found at i:75949376 original size:43 final size:43
Alignment explanation
Indices: 75949328--75949464 Score: 143
Period size: 43 Copynumber: 3.2 Consensus size: 43
75949318 CGTGATTACA
**
75949328 TGTAAGACCATGTCTGAGACATTGGCATT-ATATTATGAATAA-G
1 TGTAAGACCATGTCTGAGACAGAGGCATTGATA-TATG-ATAACG
* * *
75949371 TGTAAGACCCTGTCTGGGACAGAGGCATTGATATGTGATAACG
1 TGTAAGACCATGTCTGAGACAGAGGCATTGATATATGATAACG
* * * * *
75949414 TGTAAGACCTTGTCTAAGACAGAGGCATCGATATGTGATAACA
1 TGTAAGACCATGTCTGAGACAGAGGCATTGATATATGATAACG
*
75949457 CGTAAGAC
1 TGTAAGAC
75949465 TATATATGGG
Statistics
Matches: 81, Mismatches: 11, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
42 4 0.05
43 74 0.91
44 3 0.04
ACGTcount: A:0.33, C:0.15, G:0.25, T:0.27
Consensus pattern (43 bp):
TGTAAGACCATGTCTGAGACAGAGGCATTGATATATGATAACG
Found at i:75954370 original size:32 final size:33
Alignment explanation
Indices: 75954340--75954453 Score: 122
Period size: 33 Copynumber: 3.5 Consensus size: 33
75954330 GGTGTACATT
* **
75954340 CCTTTTCAAGTGGTACACACAGAGTATACATTT
1 CCTTTTCAAGTGGTACACACAAAGTATACATAA
* ** * *
75954373 CCTCTTCATTTGGTAGACACAAAGTATACCTAA
1 CCTTTTCAAGTGGTACACACAAAGTATACATAA
* *
75954406 CCTTTCCAAGT-GTACACACAAAGTGTACATAA
1 CCTTTTCAAGTGGTACACACAAAGTATACATAA
*
75954438 CCTTTTCAAGTTGTAC
1 CCTTTTCAAGTGGTAC
75954454 CACTTAGGTA
Statistics
Matches: 64, Mismatches: 16, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
32 28 0.44
33 36 0.56
ACGTcount: A:0.32, C:0.24, G:0.13, T:0.32
Consensus pattern (33 bp):
CCTTTTCAAGTGGTACACACAAAGTATACATAA
Found at i:75956407 original size:43 final size:43
Alignment explanation
Indices: 75956359--75956474 Score: 146
Period size: 43 Copynumber: 2.7 Consensus size: 43
75956349 TGTGATTACA
*
75956359 TGTAAGACCATGTCTAGGACATTGGCATTG-TATT-ATGAATACG
1 TGTAAGACCATGTCTAGGACATTGGCATCGTTATTCA--AATACG
* * *
75956402 TGTAAGACCATGTCTGGGACATTGGCATCGTTATTCAATTTCG
1 TGTAAGACCATGTCTAGGACATTGGCATCGTTATTCAAATACG
**
75956445 TGTAAGACCATGTCTAGGACAGAGGCATCG
1 TGTAAGACCATGTCTAGGACATTGGCATCG
75956475 ATATGTGATA
Statistics
Matches: 64, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
43 59 0.92
44 4 0.06
45 1 0.02
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (43 bp):
TGTAAGACCATGTCTAGGACATTGGCATCGTTATTCAAATACG
Found at i:75956868 original size:10 final size:10
Alignment explanation
Indices: 75956853--75956877 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
75956843 CTAGCTCAGA
75956853 CATCAGGAAT
1 CATCAGGAAT
75956863 CATCAGGAAT
1 CATCAGGAAT
75956873 CATCA
1 CATCA
75956878 TCACACTATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.40, C:0.24, G:0.16, T:0.20
Consensus pattern (10 bp):
CATCAGGAAT
Found at i:75962072 original size:24 final size:24
Alignment explanation
Indices: 75962045--75962091 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
75962035 ATACTAATTT
75962045 AGTTAACTATTTAAATAATAATAC
1 AGTTAACTATTTAAATAATAATAC
75962069 AGTTAACTATTTAAATAATAATA
1 AGTTAACTATTTAAATAATAATA
75962092 TATATTATAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.51, C:0.06, G:0.04, T:0.38
Consensus pattern (24 bp):
AGTTAACTATTTAAATAATAATAC
Found at i:75975435 original size:34 final size:34
Alignment explanation
Indices: 75975392--75975459 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
75975382 CATAGACACA
75975392 TGGAAAACATTATGAATTCTGTCAAGCTCTGGTG
1 TGGAAAACATTATGAATTCTGTCAAGCTCTGGTG
75975426 TGGAAAACATTATGAATTCTGTCAAGCTCTGGTG
1 TGGAAAACATTATGAATTCTGTCAAGCTCTGGTG
75975460 GTAATGTCAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.32
Consensus pattern (34 bp):
TGGAAAACATTATGAATTCTGTCAAGCTCTGGTG
Found at i:75975843 original size:43 final size:43
Alignment explanation
Indices: 75975794--75975994 Score: 341
Period size: 43 Copynumber: 4.7 Consensus size: 43
75975784 TGAAAAAAAT
*
75975794 GCCGCTAAAAGTCAAGGCTTTTAGCGGCGTTTGTGGG-AGAAGC
1 GCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGGAAG-AGC
*
75975837 GCCGCTAAAGGTCAAGGCTTTTAGTGGCGTTTGTGGGAAGAGC
1 GCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGGAAGAGC
*
75975880 GCTGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGGAAGAGC
1 GCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGGAAGAGC
75975923 GCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGGAAGAGC
1 GCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGGAAGAGC
* *
75975966 GCCGCTAAAGGTTAAAGCTTTTAGCGGCG
1 GCCGCTAAAGGTCAAGGCTTTTAGCGGCG
75975995 CTTTTTCTAC
Statistics
Matches: 150, Mismatches: 7, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
43 148 0.99
44 2 0.01
ACGTcount: A:0.22, C:0.18, G:0.36, T:0.24
Consensus pattern (43 bp):
GCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGGAAGAGC
Found at i:75976104 original size:31 final size:31
Alignment explanation
Indices: 75976069--75976135 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 31
75976059 CTTCCTGCAT
* *
75976069 TAAAATCCAACCAAATACAACAAATATAATA
1 TAAAATCCAACCAAAAACAACAAATATAACA
* * * *
75976100 TAAAATGCAGCCAAAAACAGCAAATTTAACA
1 TAAAATCCAACCAAAAACAACAAATATAACA
75976131 TAAAA
1 TAAAA
75976136 AATATAACCA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.60, C:0.18, G:0.04, T:0.18
Consensus pattern (31 bp):
TAAAATCCAACCAAAAACAACAAATATAACA
Found at i:75981919 original size:9 final size:9
Alignment explanation
Indices: 75981905--75981945 Score: 66
Period size: 9 Copynumber: 4.6 Consensus size: 9
75981895 TTTTTATGTT
75981905 TTATGTAAG
1 TTATGTAAG
75981914 TTATGTAAG
1 TTATGTAAG
75981923 TTATGT-AG
1 TTATGTAAG
75981931 ATTATGTAAG
1 -TTATGTAAG
75981941 TTATG
1 TTATG
75981946 AAATTTGAAC
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
8 2 0.07
9 26 0.87
10 2 0.07
ACGTcount: A:0.32, C:0.00, G:0.22, T:0.46
Consensus pattern (9 bp):
TTATGTAAG
Found at i:75982022 original size:9 final size:9
Alignment explanation
Indices: 75982008--75982135 Score: 103
Period size: 9 Copynumber: 13.6 Consensus size: 9
75981998 ATGTATTAGT
75982008 TAAGTTATG
1 TAAGTTATG
75982017 TAAGTTGTTATG
1 TAA---GTTATG
*
75982029 TACGTTATG
1 TAAGTTATG
*
75982038 TGAGTTATG
1 TAAGTTATG
*
75982047 TAAATTATG
1 TAAGTTATG
*
75982056 TAAATTATG
1 TAAGTTATG
* *
75982065 TGATTTATG
1 TAAGTTATG
75982074 TAAGTTGTTATG
1 TAA---GTTATG
*
75982086 TAAATTATG
1 TAAGTTATG
*
75982095 TAAGTTATA
1 TAAGTTATG
*
75982104 TGAGTTATG
1 TAAGTTATG
75982113 TAAGTTATG
1 TAAGTTATG
* *
75982122 TAATTTATT
1 TAAGTTATG
75982131 TAAGT
1 TAAGT
75982136 AATGATCAAT
Statistics
Matches: 95, Mismatches: 18, Indels: 12
0.76 0.14 0.10
Matches are distributed among these distances:
9 79 0.83
12 16 0.17
ACGTcount: A:0.32, C:0.01, G:0.20, T:0.48
Consensus pattern (9 bp):
TAAGTTATG
Found at i:75982084 original size:57 final size:57
Alignment explanation
Indices: 75982012--75982135 Score: 167
Period size: 57 Copynumber: 2.2 Consensus size: 57
75982002 ATTAGTTAAG
** * * *
75982012 TTATGTAAGTTGTTATGTACGTTATGTGAGTTATGTAAATTATGTAAATTATGTGAT
1 TTATGTAAGTTGTTATGTAAATTATGTAAGTTATATAAATTATGTAAATTATGTAAT
* * *
75982069 TTATGTAAGTTGTTATGTAAATTATGTAAGTTATATGAGTTATGTAAGTTATGTAAT
1 TTATGTAAGTTGTTATGTAAATTATGTAAGTTATATAAATTATGTAAATTATGTAAT
*
75982126 TTATTTAAGT
1 TTATGTAAGT
75982136 AATGATCAAT
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
57 58 1.00
ACGTcount: A:0.31, C:0.01, G:0.19, T:0.48
Consensus pattern (57 bp):
TTATGTAAGTTGTTATGTAAATTATGTAAGTTATATAAATTATGTAAATTATGTAAT
Found at i:75985887 original size:11 final size:11
Alignment explanation
Indices: 75985873--75985922 Score: 64
Period size: 11 Copynumber: 4.4 Consensus size: 11
75985863 AATATTTTAA
75985873 AAATTCTTGAC
1 AAATTCTTGAC
* *
75985884 AAATTATTTTGTC
1 AAA-T-TCTTGAC
75985897 AAATTCTTGAC
1 AAATTCTTGAC
75985908 AAATTCTTGAC
1 AAATTCTTGAC
75985919 AAAT
1 AAAT
75985923 ATACAAGTTG
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
11 23 0.70
12 2 0.06
13 8 0.24
ACGTcount: A:0.38, C:0.14, G:0.08, T:0.40
Consensus pattern (11 bp):
AAATTCTTGAC
Found at i:75986322 original size:18 final size:19
Alignment explanation
Indices: 75986301--75986336 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
75986291 TTTGAAATTC
75986301 TTCATCTCT-CAATTCTAT
1 TTCATCTCTGCAATTCTAT
*
75986319 TTCATCTTTGCAATTCTA
1 TTCATCTCTGCAATTCTA
75986337 CAGAAAGAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.22, C:0.25, G:0.03, T:0.50
Consensus pattern (19 bp):
TTCATCTCTGCAATTCTAT
Found at i:75986981 original size:40 final size:41
Alignment explanation
Indices: 75986928--75987004 Score: 120
Period size: 40 Copynumber: 1.9 Consensus size: 41
75986918 GCGTTTTGCA
* *
75986928 AAAGCGTCGCTAATTCTCAGTTTTT-GCGGCGTTTTTTACG
1 AAAGCGCCACTAATTCTCAGTTTTTAGCGGCGTTTTTTACG
*
75986968 AAAGCGCCACTAATTCTCTGTTTTTAGCGGCGTTTTT
1 AAAGCGCCACTAATTCTCAGTTTTTAGCGGCGTTTTT
75987005 GCTAATGCCT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
40 22 0.67
41 11 0.33
ACGTcount: A:0.18, C:0.21, G:0.21, T:0.40
Consensus pattern (41 bp):
AAAGCGCCACTAATTCTCAGTTTTTAGCGGCGTTTTTTACG
Found at i:75988162 original size:41 final size:43
Alignment explanation
Indices: 75988080--75988165 Score: 113
Period size: 43 Copynumber: 2.0 Consensus size: 43
75988070 GATAACAAAC
* *
75988080 CCGGCCCATACCATTAACTTAATATATATACTATACCATTGAA
1 CCGGCCCAAACCATAAACTTAATATATATACTATACCATTGAA
* * *
75988123 CCGGCCTAAACCATAAACTTAA-A-ATATATTCTACCATTGAA
1 CCGGCCCAAACCATAAACTTAATATATATACTATACCATTGAA
75988164 CC
1 CC
75988166 CTAAACCATA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
41 18 0.47
42 1 0.03
43 19 0.50
ACGTcount: A:0.38, C:0.27, G:0.07, T:0.28
Consensus pattern (43 bp):
CCGGCCCAAACCATAAACTTAATATATATACTATACCATTGAA
Found at i:75988382 original size:28 final size:28
Alignment explanation
Indices: 75988346--75988412 Score: 82
Period size: 28 Copynumber: 2.4 Consensus size: 28
75988336 AGTTTATGGA
* *
75988346 TTAGTGTTTATGGTTT-ATGTTTTAAAAT
1 TTAGGGTTTAGGGTTTAATG-TTTAAAAT
*
75988374 TTAGGGTTTAGGGTTTAATGTTTAAGAT
1 TTAGGGTTTAGGGTTTAATGTTTAAAAT
75988402 TTAAGGGTTTA
1 TT-AGGGTTTA
75988413 CAGAAAGCCA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
28 23 0.68
29 11 0.32
ACGTcount: A:0.25, C:0.00, G:0.24, T:0.51
Consensus pattern (28 bp):
TTAGGGTTTAGGGTTTAATGTTTAAAAT
Found at i:75988397 original size:21 final size:21
Alignment explanation
Indices: 75988350--75988412 Score: 54
Period size: 21 Copynumber: 3.0 Consensus size: 21
75988340 TATGGATTAG
* * *
75988350 TGTTTATGGTTTATGTTTTAA
1 TGTTTAAGGTTTAGGGTTTAA
** *
75988371 AATTTAGGGTTTAGGGTTTAA
1 TGTTTAAGGTTTAGGGTTTAA
*
75988392 TGTTTAAGATTTAAGGGTTTA
1 TGTTTAAGGTTT-AGGGTTTA
75988413 CAGAAAGCCA
Statistics
Matches: 32, Mismatches: 9, Indels: 1
0.76 0.21 0.02
Matches are distributed among these distances:
21 24 0.75
22 8 0.25
ACGTcount: A:0.25, C:0.00, G:0.24, T:0.51
Consensus pattern (21 bp):
TGTTTAAGGTTTAGGGTTTAA
Found at i:75988996 original size:41 final size:41
Alignment explanation
Indices: 75988721--75989030 Score: 306
Period size: 41 Copynumber: 7.7 Consensus size: 41
75988711 CCAAAAATGT
*
75988721 CGCTATTGATCAGTTTTTAGTGGTGTTTTGGATAAAAACGC
1 CGCTATTGATCAGTTTTTAGTGGCGTTTTGGATAAAAACGC
* * *
75988762 CACAATTGATCAGTTTTTAGTGGCGTTTTGGATAAAGACGC
1 CGCTATTGATCAGTTTTTAGTGGCGTTTTGGATAAAAACGC
* * * * *
75988803 CACAATTGATCACTTTTTAGTGGCGTTTGGGAT-GAAACGC
1 CGCTATTGATCAGTTTTTAGTGGCGTTTTGGATAAAAACGC
* * *
75988843 CGCAATTGATCAGTTTTTAGTGGCGTTTGGGATTAAAACG-
1 CGCTATTGATCAGTTTTTAGTGGCGTTTTGGATAAAAACGC
* ** *
75988883 C-CTATTGATCAGCTTTTAGTGGCG-TTTGGCGAAAAAGGC
1 CGCTATTGATCAGTTTTTAGTGGCGTTTTGGATAAAAACGC
* * * **
75988922 CGCTA-TGACCAATTTTTAGTGGCTTTTTGGCCAAAAACGC
1 CGCTATTGATCAGTTTTTAGTGGCGTTTTGGATAAAAACGC
* * * ** * *
75988962 TGCTATTGACCAGTTTTTAGTGGCGTTTTTGCCAAAAGCAC
1 CGCTATTGATCAGTTTTTAGTGGCGTTTTGGATAAAAACGC
* * *
75989003 CGCTATAGTTTAGTTTTTAGTGGCGTTT
1 CGCTATTGATCAGTTTTTAGTGGCGTTT
75989031 CGGACAAACG
Statistics
Matches: 229, Mismatches: 35, Indels: 10
0.84 0.13 0.04
Matches are distributed among these distances:
38 9 0.04
39 37 0.16
40 57 0.25
41 126 0.55
ACGTcount: A:0.24, C:0.16, G:0.25, T:0.36
Consensus pattern (41 bp):
CGCTATTGATCAGTTTTTAGTGGCGTTTTGGATAAAAACGC
Found at i:75996444 original size:73 final size:73
Alignment explanation
Indices: 75996326--75996491 Score: 307
Period size: 73 Copynumber: 2.3 Consensus size: 73
75996316 GACTTGGGTT
* *
75996326 ACACGGCC-AGCCACACGCCCATGTGCTTGGCCGTATGGACCATTTAATTTTTGAAAATTCGGTG
1 ACACGGCCAAGACACACGCCCATGTACTTGGCCGTATGGACCATTTAATTTTTGAAAATTCGGTG
75996390 CAGGATTC
66 CAGGATTC
75996398 ACACGGCCAAGACACACGCCCATGTACTTGGCCGTATGGACCATTTAATTTTTGAAAATTCGGTG
1 ACACGGCCAAGACACACGCCCATGTACTTGGCCGTATGGACCATTTAATTTTTGAAAATTCGGTG
75996463 CAGGATTC
66 CAGGATTC
75996471 ACACGGCCAAGACACACGCCC
1 ACACGGCCAAGACACACGCCC
75996492 GTGTCTCTAC
Statistics
Matches: 91, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
72 8 0.09
73 83 0.91
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (73 bp):
ACACGGCCAAGACACACGCCCATGTACTTGGCCGTATGGACCATTTAATTTTTGAAAATTCGGTG
CAGGATTC
Found at i:75999170 original size:9 final size:9
Alignment explanation
Indices: 75999136--75999192 Score: 62
Period size: 9 Copynumber: 6.4 Consensus size: 9
75999126 TTTGGTTAAA
*
75999136 AATTAACAG
1 AATTAACCG
**
75999145 AATTAAAAG
1 AATTAACCG
75999154 AATTAACCG
1 AATTAACCG
75999163 AATTAACCG
1 AATTAACCG
* *
75999172 -ATCACCCG
1 AATTAACCG
75999180 AATTAACCG
1 AATTAACCG
75999189 AATT
1 AATT
75999193 GAATCACTAC
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
8 6 0.15
9 34 0.85
ACGTcount: A:0.47, C:0.19, G:0.11, T:0.23
Consensus pattern (9 bp):
AATTAACCG
Found at i:75999222 original size:17 final size:17
Alignment explanation
Indices: 75999200--75999334 Score: 72
Period size: 17 Copynumber: 7.4 Consensus size: 17
75999190 ATTGAATCAC
75999200 TACATAATTAAAAACAT
1 TACATAATTAAAAACAT
** * *
75999217 TACATAAGTCTTTGAATCAC
1 TACATAA---TTAAAAACAT
*
75999237 TACATAATTAAAAATAT
1 TACATAATTAAAAACAT
* * *
75999254 TACATAAGTCTATGAATCAC
1 TACATAA-T-TA-AAAACAT
*
75999274 TACATAAATAAAAACAT
1 TACATAATTAAAAACAT
** * *
75999291 TACATAAGTCTTTGAATCAC
1 TACATAA---TTAAAAACAT
75999311 TACATAATTAAAAACAT
1 TACATAATTAAAAACAT
75999328 TACATAA
1 TACATAA
75999335 GTCTTGAAAT
Statistics
Matches: 83, Mismatches: 26, Indels: 18
0.65 0.20 0.14
Matches are distributed among these distances:
17 43 0.52
18 3 0.04
19 2 0.02
20 35 0.42
ACGTcount: A:0.50, C:0.15, G:0.04, T:0.31
Consensus pattern (17 bp):
TACATAATTAAAAACAT
Found at i:75999242 original size:20 final size:20
Alignment explanation
Indices: 75999217--75999317 Score: 70
Period size: 20 Copynumber: 5.3 Consensus size: 20
75999207 TTAAAAACAT
75999217 TACATAAGTCTTTGAATCAC
1 TACATAAGTCTTTGAATCAC
*** *
75999237 TACATAA-T-TAAAAAT-AT
1 TACATAAGTCTTTGAATCAC
*
75999254 TACATAAGTCTATGAATCAC
1 TACATAAGTCTTTGAATCAC
* ** * *
75999274 TACATAA---ATAAAAACAT
1 TACATAAGTCTTTGAATCAC
75999291 TACATAAGTCTTTGAATCAC
1 TACATAAGTCTTTGAATCAC
75999311 TACATAA
1 TACATAA
75999318 TTAAAAACAT
Statistics
Matches: 57, Mismatches: 18, Indels: 12
0.66 0.21 0.14
Matches are distributed among these distances:
17 19 0.33
18 5 0.09
19 6 0.11
20 27 0.47
ACGTcount: A:0.47, C:0.16, G:0.06, T:0.32
Consensus pattern (20 bp):
TACATAAGTCTTTGAATCAC
Found at i:75999356 original size:37 final size:37
Alignment explanation
Indices: 75999191--75999339 Score: 271
Period size: 37 Copynumber: 4.0 Consensus size: 37
75999181 ATTAACCGAA
75999191 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
1 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
*
75999228 TTGAATCACTACATAATTAAAAATATTACATAAGTCT
1 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
* *
75999265 ATGAATCACTACATAAATAAAAACATTACATAAGTCT
1 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
75999302 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
1 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
75999339 T
1 T
75999340 GAAATTAACA
Statistics
Matches: 106, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 106 1.00
ACGTcount: A:0.47, C:0.15, G:0.05, T:0.32
Consensus pattern (37 bp):
TTGAATCACTACATAATTAAAAACATTACATAAGTCT
Found at i:76006270 original size:14 final size:14
Alignment explanation
Indices: 76006251--76006320 Score: 65
Period size: 14 Copynumber: 5.1 Consensus size: 14
76006241 ATGAAGTTTG
76006251 AAATTATTATATTA
1 AAATTATTATATTA
*
76006265 AAATTATTATAAT-
1 AAATTATTATATTA
* * *
76006278 AAA-TA-GAAATTTG
1 AAATTATTATA-TTA
76006291 AAATTATTATATTA
1 AAATTATTATATTA
*
76006305 AAATTATTATAATA
1 AAATTATTATATTA
76006319 AA
1 AA
76006321 TAGAAATTTC
Statistics
Matches: 44, Mismatches: 8, Indels: 8
0.73 0.13 0.13
Matches are distributed among these distances:
11 2 0.05
12 3 0.07
13 6 0.14
14 31 0.70
15 2 0.05
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (14 bp):
AAATTATTATATTA
Found at i:76006291 original size:40 final size:40
Alignment explanation
Indices: 76006247--76006329 Score: 166
Period size: 40 Copynumber: 2.1 Consensus size: 40
76006237 TATTATGAAG
76006247 TTTGAAATTATTATATTAAAATTATTATAATAAATAGAAA
1 TTTGAAATTATTATATTAAAATTATTATAATAAATAGAAA
76006287 TTTGAAATTATTATATTAAAATTATTATAATAAATAGAAA
1 TTTGAAATTATTATATTAAAATTATTATAATAAATAGAAA
76006327 TTT
1 TTT
76006330 CAATTGTTAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.45
Consensus pattern (40 bp):
TTTGAAATTATTATATTAAAATTATTATAATAAATAGAAA
Found at i:76006515 original size:21 final size:21
Alignment explanation
Indices: 76006438--76006517 Score: 72
Period size: 20 Copynumber: 3.7 Consensus size: 21
76006428 CTATCAAATG
*
76006438 AATTAATTTATGAAAAATAATTAT
1 AATTAATTT-T-AAAAATAA-TAA
* *
76006462 AATTAATTGTAAAAAAAAT-A
1 AATTAATTTTAAAAATAATAA
* * *
76006482 ATTTTATTATAAAAATAATAA
1 AATTAATTTTAAAAATAATAA
76006503 AATTAATTTTAAAAA
1 AATTAATTTTAAAAA
76006518 AAGGCCTTAT
Statistics
Matches: 45, Mismatches: 10, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
20 15 0.33
21 14 0.31
22 7 0.16
23 1 0.02
24 8 0.18
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.39
Consensus pattern (21 bp):
AATTAATTTTAAAAATAATAA
Found at i:76011315 original size:14 final size:15
Alignment explanation
Indices: 76011287--76011324 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
76011277 AAGAAAAGGG
*
76011287 GGTTTGGTTGCAGAT
1 GGTTGGGTTGCAGAT
76011302 GGTTGGGTTG-AGAT
1 GGTTGGGTTGCAGAT
76011316 GGATTGGGT
1 GG-TTGGGT
76011325 GGTGGTGAGG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 6 0.29
15 15 0.71
ACGTcount: A:0.13, C:0.03, G:0.47, T:0.37
Consensus pattern (15 bp):
GGTTGGGTTGCAGAT
Found at i:76012771 original size:35 final size:34
Alignment explanation
Indices: 76012684--76012771 Score: 95
Period size: 35 Copynumber: 2.5 Consensus size: 34
76012674 ATATACTCAA
* * *
76012684 TCAGATACAGATATAGATTCGGGTATAAGCCCAT
1 TCAGATACAGATACAGATTCGAGCATAAGCCCAT
* * *
76012718 TACCGATACAGATGCAGATTCGAGCCTAAGCCCAT
1 T-CAGATACAGATACAGATTCGAGCATAAGCCCAT
*
76012753 CTCAGATATAGATACAGAT
1 -TCAGATACAGATACAGAT
76012772 GTAAAAATCA
Statistics
Matches: 43, Mismatches: 9, Indels: 3
0.78 0.16 0.05
Matches are distributed among these distances:
34 1 0.02
35 41 0.95
36 1 0.02
ACGTcount: A:0.35, C:0.22, G:0.19, T:0.24
Consensus pattern (34 bp):
TCAGATACAGATACAGATTCGAGCATAAGCCCAT
Found at i:76015000 original size:26 final size:27
Alignment explanation
Indices: 76014971--76015039 Score: 63
Period size: 27 Copynumber: 2.6 Consensus size: 27
76014961 AGATAAATAT
*
76014971 ATTAATTTGAATATTTT-TTAAA-AAAA
1 ATTAATTT-AATATTTTAATAAAGAAAA
* *
76014997 ATT-ATTTCAAAATTTTAATAAAGTAAA
1 ATTAATTT-AATATTTTAATAAAGAAAA
*
76015024 ATCAATTTAATATTTT
1 ATTAATTTAATATTTT
76015040 CTACATTAAT
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
25 11 0.32
26 7 0.21
27 12 0.35
28 4 0.12
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.46
Consensus pattern (27 bp):
ATTAATTTAATATTTTAATAAAGAAAA
Found at i:76025431 original size:21 final size:22
Alignment explanation
Indices: 76025379--76025431 Score: 67
Period size: 21 Copynumber: 2.5 Consensus size: 22
76025369 CCCAGATGCA
76025379 TATAAA-ATATATTATAAATAT
1 TATAAATATATATTATAAATAT
*
76025400 TATACAT-TATATTATAAAT-T
1 TATAAATATATATTATAAATAT
*
76025420 TTTAAATATATA
1 TATAAATATATA
76025432 AAATCCAACC
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
20 6 0.22
21 21 0.78
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (22 bp):
TATAAATATATATTATAAATAT
Found at i:76025641 original size:22 final size:22
Alignment explanation
Indices: 76025613--76025657 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
76025603 TTGGGGAATC
76025613 CCCGACTTCCTCCCAGTGAAGT
1 CCCGACTTCCTCCCAGTGAAGT
76025635 CCCGACTTCCTCCCAGTGAAGT
1 CCCGACTTCCTCCCAGTGAAGT
76025657 C
1 C
76025658 TATTGGAGGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.18, C:0.42, G:0.18, T:0.22
Consensus pattern (22 bp):
CCCGACTTCCTCCCAGTGAAGT
Found at i:76028024 original size:20 final size:18
Alignment explanation
Indices: 76027986--76028020 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
76027976 CAACTGAATC
76027986 ATATTTTATAAAATTTTA
1 ATATTTTATAAAATTTTA
*
76028004 ATATTTTATATAATTTT
1 ATATTTTATAAAATTTT
76028021 TTAAAAATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
ATATTTTATAAAATTTTA
Found at i:76029134 original size:26 final size:22
Alignment explanation
Indices: 76029085--76029129 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
76029075 TCAACTGACA
76029085 TAGAGATGCAGTCAGTGCTGCT
1 TAGAGATGCAGTCAGTGCTGCT
76029107 TAGAGATGCAGTCAGTGCTGCT
1 TAGAGATGCAGTCAGTGCTGCT
76029129 T
1 T
76029130 CCTTACTCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.22, C:0.18, G:0.31, T:0.29
Consensus pattern (22 bp):
TAGAGATGCAGTCAGTGCTGCT
Found at i:76029177 original size:12 final size:12
Alignment explanation
Indices: 76029156--76029188 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
76029146 GCACACACGC
76029156 AAAA-AAAAAAA
1 AAAAGAAAAAAA
76029167 AAAAGAAAAAAA
1 AAAAGAAAAAAA
76029179 AAAAGAAAAA
1 AAAAGAAAAA
76029189 CAAACTGTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 4 0.19
12 17 0.81
ACGTcount: A:0.94, C:0.00, G:0.06, T:0.00
Consensus pattern (12 bp):
AAAAGAAAAAAA
Found at i:76038078 original size:20 final size:20
Alignment explanation
Indices: 76038035--76038103 Score: 63
Period size: 20 Copynumber: 3.5 Consensus size: 20
76038025 AAAAAAAATC
76038035 AAAGAAAAAGAAG-AGAATGAGA
1 AAAGAAAAAGAAGAAG-A-G-GA
76038057 AAAGAAAAAGAAGAAGAGGA
1 AAAGAAAAAGAAGAAGAGGA
* **
76038077 AAAGGAGGAGAAGAAGA-GA
1 AAAGAAAAAGAAGAAGAGGA
76038096 AAA-AAAAA
1 AAAGAAAAA
76038104 TTCTAGAATG
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
18 2 0.05
19 5 0.12
20 16 0.40
21 1 0.03
22 14 0.35
23 2 0.05
ACGTcount: A:0.70, C:0.00, G:0.29, T:0.01
Consensus pattern (20 bp):
AAAGAAAAAGAAGAAGAGGA
Found at i:76038672 original size:29 final size:31
Alignment explanation
Indices: 76038612--76038673 Score: 92
Period size: 29 Copynumber: 2.1 Consensus size: 31
76038602 GGAGAAGAAG
*
76038612 AAGTATAAACATATTGGGTCATTTATGCAAA
1 AAGTATAAACATATTGGGTCATTTATGAAAA
*
76038643 AAGTA-AAA-ATATTGGGTCATTTATTAAAA
1 AAGTATAAACATATTGGGTCATTTATGAAAA
76038672 AA
1 AA
76038674 TGGAAAAGGA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 21 0.72
30 3 0.10
31 5 0.17
ACGTcount: A:0.47, C:0.06, G:0.15, T:0.32
Consensus pattern (31 bp):
AAGTATAAACATATTGGGTCATTTATGAAAA
Found at i:76045344 original size:21 final size:21
Alignment explanation
Indices: 76045303--76045345 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
76045293 TAAAGTGGTT
*
76045303 GAGATTGAGGGGTAAGTGGGA
1 GAGATTGAGGGATAAGTGGGA
*
76045324 GAGATTTGAGGGATTAG-GGGA
1 GAGA-TTGAGGGATAAGTGGGA
76045345 G
1 G
76045346 TTAATATGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.28, C:0.00, G:0.51, T:0.21
Consensus pattern (21 bp):
GAGATTGAGGGATAAGTGGGA
Found at i:76046059 original size:13 final size:13
Alignment explanation
Indices: 76046041--76046066 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
76046031 CGTGTGGACC
76046041 CACACAGACGTGT
1 CACACAGACGTGT
76046054 CACACAGACGTGT
1 CACACAGACGTGT
76046067 GGATCTTGGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.31, G:0.23, T:0.15
Consensus pattern (13 bp):
CACACAGACGTGT
Found at i:76048471 original size:30 final size:31
Alignment explanation
Indices: 76048446--76048504 Score: 93
Period size: 30 Copynumber: 1.9 Consensus size: 31
76048436 ATAAATACTC
* *
76048446 AAAATTTGAGGGATTAA-AGTGTAAATATGA
1 AAAATTTGAAGGACTAATAGTGTAAATATGA
76048476 AAAATTTGAAGGACTAATAGTGTAAATAT
1 AAAATTTGAAGGACTAATAGTGTAAATAT
76048505 TTTAAGGGTG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 15 0.58
31 11 0.42
ACGTcount: A:0.47, C:0.02, G:0.20, T:0.31
Consensus pattern (31 bp):
AAAATTTGAAGGACTAATAGTGTAAATATGA
Found at i:76050058 original size:51 final size:51
Alignment explanation
Indices: 76049971--76050082 Score: 143
Period size: 51 Copynumber: 2.2 Consensus size: 51
76049961 TATCCGGATC
* * **
76049971 AAATATGAAGCTCTTGTTGAAGTTAGAGTAACAAAGTAATAATTCCAGATG
1 AAATATGAAGCTCTTATTGAAGCTAGAACAACAAAGTAATAATTCCAGATG
** **
76050022 AAATATGAAGCTCTTATTGAAGCTAGAACATTAAAGTAATAATTCTGGATG
1 AAATATGAAGCTCTTATTGAAGCTAGAACAACAAAGTAATAATTCCAGATG
*
76050073 AAGTATGAAG
1 AAATATGAAG
76050083 TAAGTTTGAG
Statistics
Matches: 52, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.42, C:0.09, G:0.20, T:0.29
Consensus pattern (51 bp):
AAATATGAAGCTCTTATTGAAGCTAGAACAACAAAGTAATAATTCCAGATG
Found at i:76055048 original size:21 final size:22
Alignment explanation
Indices: 76055018--76055058 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
76055008 TAGTAAAAGT
76055018 CATTTCTCTAACCA-TAAACATG
1 CATTTCTCT-ACCATTAAACATG
76055040 CATTT-TCTACCATTAAACA
1 CATTTCTCTACCATTAAACA
76055059 CAAAAATACA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.22
21 9 0.50
22 5 0.28
ACGTcount: A:0.37, C:0.27, G:0.02, T:0.34
Consensus pattern (22 bp):
CATTTCTCTACCATTAAACATG
Found at i:76062106 original size:35 final size:35
Alignment explanation
Indices: 76062066--76062222 Score: 242
Period size: 35 Copynumber: 4.5 Consensus size: 35
76062056 ATGGCAAAGG
76062066 GTGAAACGTAGGTATGGTATCATCCATACTGAGTT
1 GTGAAACGTAGGTATGGTATCATCCATACTGAGTT
* * *
76062101 CTGAAACATAGGTATGGTATCATCCATACCGAGTT
1 GTGAAACGTAGGTATGGTATCATCCATACTGAGTT
* *
76062136 GTGAAACGTAGGTATGGTATAAACCATACTGAGTT
1 GTGAAACGTAGGTATGGTATCATCCATACTGAGTT
*
76062171 GTGAAACGTAGGTATGGTATTATCCATACTGAGTT
1 GTGAAACGTAGGTATGGTATCATCCATACTGAGTT
**
76062206 AAGAAACGTAGGTATGG
1 GTGAAACGTAGGTATGG
76062223 CGTTTCCCAT
Statistics
Matches: 110, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
35 110 1.00
ACGTcount: A:0.32, C:0.13, G:0.25, T:0.29
Consensus pattern (35 bp):
GTGAAACGTAGGTATGGTATCATCCATACTGAGTT
Found at i:76062240 original size:35 final size:35
Alignment explanation
Indices: 76062068--76062240 Score: 150
Period size: 35 Copynumber: 4.9 Consensus size: 35
76062058 GGCAAAGGGT
* * * **
76062068 GAAACGTAGGTATGGTATCATCCATACTGAGTTCT
1 GAAACGTAGGTATGGCATTATCCATACCGAGTTAA
* * * **
76062103 GAAACATAGGTATGGTATCATCCATACCGAGTTGT
1 GAAACGTAGGTATGGCATTATCCATACCGAGTTAA
* * * * **
76062138 GAAACGTAGGTATGGTATAAACCATACTGAGTTGT
1 GAAACGTAGGTATGGCATTATCCATACCGAGTTAA
* *
76062173 GAAACGTAGGTATGGTATTATCCATACTGAGTTAA
1 GAAACGTAGGTATGGCATTATCCATACCGAGTTAA
* *
76062208 GAAACGTAGGTATGGCGTT-TCCCATGCCGAGTT
1 GAAACGTAGGTATGGCATTAT-CCATACCGAGTT
76062241 GTCAAATTAG
Statistics
Matches: 122, Mismatches: 15, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
34 1 0.01
35 121 0.99
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (35 bp):
GAAACGTAGGTATGGCATTATCCATACCGAGTTAA
Found at i:76062240 original size:70 final size:70
Alignment explanation
Indices: 76062068--76062260 Score: 208
Period size: 70 Copynumber: 2.8 Consensus size: 70
76062058 GGCAAAGGGT
* * * * * *
76062068 GAAACGTAGGTATGGTATCATCCATACTGAGTTCTGAAACATAGGTATGGTATCATCCATACCGA
1 GAAACGTAGGTATGGCATAAACCATACCGAGTTGTGAAACATAGGTATGGTATTATCCATACCGA
**
76062133 GTTGT
66 GTTAA
* * * *
76062138 GAAACGTAGGTATGGTATAAACCATACTGAGTTGTGAAACGTAGGTATGGTATTATCCATACTGA
1 GAAACGTAGGTATGGCATAAACCATACCGAGTTGTGAAACATAGGTATGGTATTATCCATACCGA
76062203 GTTAA
66 GTTAA
* *** * * *
76062208 GAAACGTAGGTATGGCGTTTCCCATGCCGAGTTGTCAAA-TTAGGTATGGTATT
1 GAAACGTAGGTATGGCATAAACCATACCGAGTTGTGAAACATAGGTATGGTATT
76062261 TCAATGAGGA
Statistics
Matches: 106, Mismatches: 17, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
69 13 0.12
70 93 0.88
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.31
Consensus pattern (70 bp):
GAAACGTAGGTATGGCATAAACCATACCGAGTTGTGAAACATAGGTATGGTATTATCCATACCGA
GTTAA
Found at i:76065659 original size:48 final size:48
Alignment explanation
Indices: 76065587--76065974 Score: 668
Period size: 48 Copynumber: 8.0 Consensus size: 48
76065577 AGATAAATAT
76065587 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
76065635 ATATGTATATGTGGTAAAGTCGAATGGCTAATGTGGAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
76065683 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAACATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
76065731 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAACATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
76065779 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
76065827 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTG-AA-ATATGTATGAG
*
76065877 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
76065925 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTAGGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
76065973 AT
1 AT
76065975 GTGTGTATAT
Statistics
Matches: 328, Mismatches: 10, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
48 278 0.85
49 4 0.01
50 46 0.14
ACGTcount: A:0.35, C:0.06, G:0.28, T:0.31
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
Found at i:76066165 original size:37 final size:37
Alignment explanation
Indices: 76066115--76066217 Score: 170
Period size: 37 Copynumber: 2.8 Consensus size: 37
76066105 GGAAATATAT
76066115 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
76066152 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* * *
76066189 CCCGAGTAAGACCCGATAACTACGTGTGG
1 TCCGGGTAAGACCCGATGACTACGTGTGG
76066218 GGACTATTTG
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 62 1.00
ACGTcount: A:0.24, C:0.21, G:0.31, T:0.23
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:76067767 original size:40 final size:40
Alignment explanation
Indices: 76067487--76067755 Score: 484
Period size: 40 Copynumber: 6.7 Consensus size: 40
76067477 AGAATTGAGA
76067487 GTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGT
1 GTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGT
*
76067527 GTTATATCTGGGCTAAGTCCCGAAGAGCATTCGTGCTGGT
1 GTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGT
76067567 GTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGT
1 GTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGT
*
76067607 GCTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGT
1 GTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGT
* *
76067647 GTTATATCTGGGCTAAGTCCCGAAGAGCATTCATGCTGGT
1 GTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGT
*
76067687 GTTATATCCGGGCAAAGTCCCGAAGAGCATTCGTGCTGGT
1 GTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGT
*
76067727 GTTATATCCGGGCTAGGTCCCGAAGAGCA
1 GTTATATCCGGGCTAAGTCCCGAAGAGCA
76067756 ATCATGTTGG
Statistics
Matches: 218, Mismatches: 11, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 218 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (40 bp):
GTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGT
Found at i:76067981 original size:25 final size:25
Alignment explanation
Indices: 76067931--76067981 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
76067921 TGTGTAACAA
* *
76067931 CAAATGAATAGGGGCACTATATGTG
1 CAAATGAATAGAGGCACTAGATGTG
*
76067956 CAAATGATTAGAGGCACTGAGA-GTG
1 CAAATGAATAGAGGCACT-AGATGTG
76067981 C
1 C
76067982 GAGTTCTTCA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 20 0.91
26 2 0.09
ACGTcount: A:0.35, C:0.14, G:0.29, T:0.22
Consensus pattern (25 bp):
CAAATGAATAGAGGCACTAGATGTG
Found at i:76071651 original size:5 final size:5
Alignment explanation
Indices: 76071641--76071680 Score: 53
Period size: 5 Copynumber: 7.6 Consensus size: 5
76071631 CCAATTAGTG
*
76071641 AAAAT AAAAT AAAAT AAAGTAA AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAA--AT AAAAT AAAAT AAAAT AAA
76071681 GAACACACAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
5 27 0.87
7 4 0.13
ACGTcount: A:0.80, C:0.00, G:0.03, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:76071668 original size:17 final size:17
Alignment explanation
Indices: 76071646--76071680 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
76071636 TAGTGAAAAT
*
76071646 AAAATAAAATAAAGTAA
1 AAAATAAAATAAAATAA
76071663 AAAATAAAATAAAATAA
1 AAAATAAAATAAAATAA
76071680 A
1 A
76071681 GAACACACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.80, C:0.00, G:0.03, T:0.17
Consensus pattern (17 bp):
AAAATAAAATAAAATAA
Done.