Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13
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: 46006518
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2011935 characters in sequence are not A, C, G, or T
File 112 of 141
Found at i:36038552 original size:262 final size:262
Alignment explanation
Indices: 36038087--36038593 Score: 915
Period size: 262 Copynumber: 1.9 Consensus size: 262
36038077 CTGGAAGACA
36038087 TCTTCAAACTATGCTAATAGTTGTTGAAAGTCTTCAATGATAACCTACTTAGTCAGTGTTAAAAG
1 TCTTCAAACTATGCTAATAGTTGTTGAAAGTCTTCAATGATAACCTACTTAGTCAGTGTTAAAAG
* *
36038152 TGTCTATTTTCTATTGGTAATGAAACACCCCATATCTGACCTGATCATCGGATTCGAATTGCAAG
66 TGTCTATTTTCTATTGGTAATGAAACACCCCATATCTGACCTGATCATCGGATTCGAACTACAAG
*
36038217 ATACTACTTTCAATTATCCGAATTTAATATTCACTGAGTACAAGTATTACGGAAACCAAAAGTCA
131 ATACTACTTTCAATTATCCGAAATTAATATTCACTGAGTACAAGTATTACGGAAACCAAAAGTCA
* *
36038282 TCAATTTAACCTTGCAATATTCATGATTTTACTTCCAATTATATACTTTGCTAATAGTTGTTGAA
196 TCAATTTAACCTTGAAATATTCATGAATTTACTTCCAATTATATACTTTGCTAATAGTTGTTGAA
36038347 AG
261 AG
*
36038349 TCTTCAAACTCTGCTAATAGTTGTTGAAAGTCTTCAATGATAACCTACTTAGTCAGTGTTAAAAG
1 TCTTCAAACTATGCTAATAGTTGTTGAAAGTCTTCAATGATAACCTACTTAGTCAGTGTTAAAAG
* * *
36038414 TGTCTATTTTCTATTGGTAATGAAACACCCCATATCTGACCTGATCGTCGGATTTGGACTACAAG
66 TGTCTATTTTCTATTGGTAATGAAACACCCCATATCTGACCTGATCATCGGATTCGAACTACAAG
36038479 ATACTACTTTCAATTATCCGAAATTAATATTCACTGAGTACAAGTATTACGGAAACCAAAAGTCA
131 ATACTACTTTCAATTATCCGAAATTAATATTCACTGAGTACAAGTATTACGGAAACCAAAAGTCA
* *
36038544 TCAATTTAACCTTGAAATATTCATGAATTTCCTTTCAATTATATACTTTG
196 TCAATTTAACCTTGAAATATTCATGAATTTACTTCCAATTATATACTTTG
36038594 ATCTAATATA
Statistics
Matches: 234, Mismatches: 11, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
262 234 1.00
ACGTcount: A:0.33, C:0.18, G:0.13, T:0.36
Consensus pattern (262 bp):
TCTTCAAACTATGCTAATAGTTGTTGAAAGTCTTCAATGATAACCTACTTAGTCAGTGTTAAAAG
TGTCTATTTTCTATTGGTAATGAAACACCCCATATCTGACCTGATCATCGGATTCGAACTACAAG
ATACTACTTTCAATTATCCGAAATTAATATTCACTGAGTACAAGTATTACGGAAACCAAAAGTCA
TCAATTTAACCTTGAAATATTCATGAATTTACTTCCAATTATATACTTTGCTAATAGTTGTTGAA
AG
Found at i:36039601 original size:25 final size:25
Alignment explanation
Indices: 36039563--36039612 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
36039553 TTCATCTTGC
*
36039563 CTCTGCTTCGCTATAACAGAATTTA
1 CTCTGCTTCACTATAACAGAATTTA
36039588 CTCTGCTTCACTATAACAGAATTTA
1 CTCTGCTTCACTATAACAGAATTTA
36039613 TTCTTGGAGG
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:0.30, C:0.24, G:0.10, T:0.36
Consensus pattern (25 bp):
CTCTGCTTCACTATAACAGAATTTA
Found at i:36039886 original size:28 final size:28
Alignment explanation
Indices: 36039852--36039919 Score: 82
Period size: 28 Copynumber: 2.4 Consensus size: 28
36039842 AAATCCAACT
* * * *
36039852 TATAAGATAATCCTAATAGATTTCCATA
1 TATAAGATAATCCTAACAAACTTCCACA
* *
36039880 TATAAGATAATCTTGACAAACTTCCACA
1 TATAAGATAATCCTAACAAACTTCCACA
36039908 TATAAGATAATC
1 TATAAGATAATC
36039920 TTGGCAGACT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.44, C:0.16, G:0.07, T:0.32
Consensus pattern (28 bp):
TATAAGATAATCCTAACAAACTTCCACA
Found at i:36039938 original size:28 final size:28
Alignment explanation
Indices: 36039873--36039938 Score: 96
Period size: 28 Copynumber: 2.4 Consensus size: 28
36039863 CCTAATAGAT
36039873 TTCCATATATAAGATAATCTTGACAAAC
1 TTCCATATATAAGATAATCTTGACAAAC
* * *
36039901 TTCCACATATAAGATAATCTTGGCAGAC
1 TTCCATATATAAGATAATCTTGACAAAC
*
36039929 TTTCATATAT
1 TTCCATATAT
36039939 CTTTCATAAC
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.38, C:0.18, G:0.09, T:0.35
Consensus pattern (28 bp):
TTCCATATATAAGATAATCTTGACAAAC
Found at i:36049613 original size:95 final size:95
Alignment explanation
Indices: 36049512--36049729 Score: 269
Period size: 95 Copynumber: 2.3 Consensus size: 95
36049502 TGTTTATTGT
* * * *
36049512 TTTTTAAGAAAAAATCAATTAAATTAAGGTTTAGGGTTACTTGAGTAATTTAATTAAAAAAATTT
1 TTTTTAAGAAAAAATCAAATAAATTAAGGTTCAAGGTTACTTGAGTAAATTAATTAAAAAAATTT
36049577 AA-AAATCAGATTAGGGTTTAGAGTTAAAGG-
66 AATAAATCAGATTAGGGTTTAGAGTT--AGGA
* * * **
36049607 TTTTTAAGGAAAAATCAAATAAATTAGGGTTCAAGGTTACTTGAGTAAATTAATTATAAATTTTT
1 TTTTTAAGAAAAAATCAAATAAATTAAGGTTCAAGGTTACTTGAGTAAATTAATTAAAAAAATTT
* * *
36049672 AATAAATTAGTTTAGGGTTTAGTGTTAGGA
66 AATAAATCAGATTAGGGTTTAGAGTTAGGA
36049702 TTTTTAAGAAAAAAAACTCAAATAAATT
1 TTTTTAAG--AAAAAA-TCAAATAAATT
36049730 TGGGTTTGGG
Statistics
Matches: 105, Mismatches: 13, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
94 3 0.03
95 66 0.63
96 20 0.19
97 5 0.05
98 11 0.10
ACGTcount: A:0.44, C:0.04, G:0.16, T:0.37
Consensus pattern (95 bp):
TTTTTAAGAAAAAATCAAATAAATTAAGGTTCAAGGTTACTTGAGTAAATTAATTAAAAAAATTT
AATAAATCAGATTAGGGTTTAGAGTTAGGA
Found at i:36050021 original size:126 final size:125
Alignment explanation
Indices: 36049776--36050076 Score: 451
Period size: 126 Copynumber: 2.4 Consensus size: 125
36049766 TTGTTAATTT
* * * * *
36049776 AAAGAAGCT-CCACGTGGATGCGCTTTTGCTATAGTATGTCTTGAGAAAATAATTTCGAGTAGAC
1 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTA-GCCCTGAAAAAATAATTTCGAGTAGAC
* * * *
36049840 GTTTCTGAGCAAACAGTGTCAAAAATGCTTTAAGAAGGATGTTTTCTCAGTAGAAGTACTG
65 GTTTCTGAGAAAACAGTGTCAAAAACGCTTTAAGAAGGATGCTTTCTCAGCAGAAGTACTG
**
36049901 AAAGAAGCTCCCATATGGACGCGCTTTTGCTACAGTAGCCCCTGAAAAAATAATTTCGAGTAGAC
1 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAG-CCCTGAAAAAATAATTTCGAGTAGAC
* *
36049966 GTTTCTGAGAAAACAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAGAAGTACTG
65 GTTTCTGAGAAAACAGTGTCAAAAACGCTTTAAGAAGGATGCTTTCTCAGCAGAAGTACTG
36050027 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAAGCCCTGAAAAAA
1 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGT-AGCCCTGAAAAAA
36050077 GCTCCCACGT
Statistics
Matches: 158, Mismatches: 15, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
125 10 0.06
126 146 0.92
127 2 0.01
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.26
Consensus pattern (125 bp):
AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCCCTGAAAAAATAATTTCGAGTAGACG
TTTCTGAGAAAACAGTGTCAAAAACGCTTTAAGAAGGATGCTTTCTCAGCAGAAGTACTG
Found at i:36050079 original size:44 final size:44
Alignment explanation
Indices: 36050024--36050107 Score: 150
Period size: 44 Copynumber: 1.9 Consensus size: 44
36050014 AGCAGAAGTA
* *
36050024 CTGAAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAAGCC
1 CTGAAAAAAGCTCCCACGTGGACGCACTTTTGCTACAGTAAGCC
36050068 CTGAAAAAAGCTCCCACGTGGACGCACTTTTGCTACAGTA
1 CTGAAAAAAGCTCCCACGTGGACGCACTTTTGCTACAGTA
36050108 GCGCATGGCC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 38 1.00
ACGTcount: A:0.27, C:0.29, G:0.23, T:0.21
Consensus pattern (44 bp):
CTGAAAAAAGCTCCCACGTGGACGCACTTTTGCTACAGTAAGCC
Found at i:36055148 original size:310 final size:310
Alignment explanation
Indices: 36054586--36055206 Score: 1233
Period size: 310 Copynumber: 2.0 Consensus size: 310
36054576 TGGATGATTC
36054586 TACCTAATTAAATAAATTTTTAGCATACTATTATATTTTTAATCTACGTAATAATTGTAAAATCT
1 TACCTAATTAAATAAATTTTTAGCATACTATTATATTTTTAATCTACGTAATAATTGTAAAATCT
36054651 AATATAAAATTTACCTTGTTATAAGTGGGAATGTATATGGGTGGTCCACTCGAGGACGTAAAAAT
66 AATATAAAATTTACCTTGTTATAAGTGGGAATGTATATGGGTGGTCCACTCGAGGACGTAAAAAT
36054716 GGAAAACGAAACTGTGCCCATGACTGCAGTAGTGACAAGCAACCTCCGATTTTTACTTTACTTGG
131 GGAAAACGAAACTGTGCCCATGACTGCAGTAGTGACAAGCAACCTCCGATTTTTACTTTACTTGG
36054781 TCACGTCGCCCCGCACATCTCCCAATACAATGTGGCCAAAATGGCAAACCCCCAACTCAATTCAC
196 TCACGTCGCCCCGCACATCTCCCAATACAATGTGGCCAAAATGGCAAACCCCCAACTCAATTCAC
36054846 CAGCAACTCTAAAATCAACAAGTTTCAGCAGCCATCTTAGATGTACGAGG
261 CAGCAACTCTAAAATCAACAAGTTTCAGCAGCCATCTTAGATGTACGAGG
36054896 TACCTAATTAAATAAATTTTTAGCATACTATTATATTTTTAATCTACGTAATAATTGTAAAATCT
1 TACCTAATTAAATAAATTTTTAGCATACTATTATATTTTTAATCTACGTAATAATTGTAAAATCT
36054961 AATATAAAATTTACCTTGTTATAAGTGGGAATGTATATGGGTGGTCCACTCGAGGACGTAAAAAT
66 AATATAAAATTTACCTTGTTATAAGTGGGAATGTATATGGGTGGTCCACTCGAGGACGTAAAAAT
*
36055026 GGAAAACGAAACTGTGCCCATGCCTGCAGTAGTGACAAGCAACCTCCGATTTTTACTTTACTTGG
131 GGAAAACGAAACTGTGCCCATGACTGCAGTAGTGACAAGCAACCTCCGATTTTTACTTTACTTGG
36055091 TCACGTCGCCCCGCACATCTCCCAATACAATGTGGCCAAAATGGCAAACCCCCAACTCAATTCAC
196 TCACGTCGCCCCGCACATCTCCCAATACAATGTGGCCAAAATGGCAAACCCCCAACTCAATTCAC
36055156 CAGCAACTCTAAAATCAACAAGTTTCAGCAGCCATCTTAGATGTACGAGG
261 CAGCAACTCTAAAATCAACAAGTTTCAGCAGCCATCTTAGATGTACGAGG
36055206 T
1 T
36055207 TTCGTGACAA
Statistics
Matches: 310, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
310 310 1.00
ACGTcount: A:0.34, C:0.22, G:0.16, T:0.29
Consensus pattern (310 bp):
TACCTAATTAAATAAATTTTTAGCATACTATTATATTTTTAATCTACGTAATAATTGTAAAATCT
AATATAAAATTTACCTTGTTATAAGTGGGAATGTATATGGGTGGTCCACTCGAGGACGTAAAAAT
GGAAAACGAAACTGTGCCCATGACTGCAGTAGTGACAAGCAACCTCCGATTTTTACTTTACTTGG
TCACGTCGCCCCGCACATCTCCCAATACAATGTGGCCAAAATGGCAAACCCCCAACTCAATTCAC
CAGCAACTCTAAAATCAACAAGTTTCAGCAGCCATCTTAGATGTACGAGG
Found at i:36055954 original size:11 final size:11
Alignment explanation
Indices: 36055940--36055996 Score: 51
Period size: 11 Copynumber: 5.1 Consensus size: 11
36055930 TTTAAATAGG
36055940 AATTTGAGAGA
1 AATTTGAGAGA
*
36055951 AATTTGAGAGG
1 AATTTGAGAGA
* * * *
36055962 GAGTTAAGAGG
1 AATTTGAGAGA
36055973 AATTTGAGAGA
1 AATTTGAGAGA
*
36055984 ATATTAGAGAGA
1 A-ATTTGAGAGA
36055996 A
1 A
36055997 TATTAGAGAA
Statistics
Matches: 36, Mismatches: 9, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
11 26 0.72
12 10 0.28
ACGTcount: A:0.44, C:0.00, G:0.32, T:0.25
Consensus pattern (11 bp):
AATTTGAGAGA
Found at i:36055995 original size:12 final size:12
Alignment explanation
Indices: 36055978--36056005 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
36055968 AGAGGAATTT
36055978 GAGAGAATATTA
1 GAGAGAATATTA
36055990 GAGAGAATATTA
1 GAGAGAATATTA
36056002 GAGA
1 GAGA
36056006 AAGGATTTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.29, T:0.21
Consensus pattern (12 bp):
GAGAGAATATTA
Found at i:36059341 original size:16 final size:15
Alignment explanation
Indices: 36059320--36059387 Score: 82
Period size: 16 Copynumber: 4.3 Consensus size: 15
36059310 TTTGGTTCGC
*
36059320 TGTATTGAATTAGAGG
1 TGTATGGAA-TAGAGG
*
36059336 TGTATTGAATTAGAGG
1 TGTATGGAA-TAGAGG
36059352 TGTAATGGAATAGAGG
1 TGT-ATGGAATAGAGG
36059368 TGTAATGGAATAGAGG
1 TGT-ATGGAATAGAGG
36059384 TGTA
1 TGTA
36059388 ATAGCAAATC
Statistics
Matches: 50, Mismatches: 1, Indels: 3
0.93 0.02 0.06
Matches are distributed among these distances:
15 1 0.02
16 44 0.88
17 5 0.10
ACGTcount: A:0.34, C:0.00, G:0.34, T:0.32
Consensus pattern (15 bp):
TGTATGGAATAGAGG
Found at i:36059388 original size:16 final size:16
Alignment explanation
Indices: 36059330--36059389 Score: 95
Period size: 16 Copynumber: 3.8 Consensus size: 16
36059320 TGTATTGAAT
*
36059330 TAGAGGTGT-ATTGAA
1 TAGAGGTGTAATGGAA
36059345 TTAGAGGTGTAATGGAA
1 -TAGAGGTGTAATGGAA
36059362 TAGAGGTGTAATGGAA
1 TAGAGGTGTAATGGAA
36059378 TAGAGGTGTAAT
1 TAGAGGTGTAAT
36059390 AGCAAATCAA
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
16 37 0.88
17 5 0.12
ACGTcount: A:0.35, C:0.00, G:0.35, T:0.30
Consensus pattern (16 bp):
TAGAGGTGTAATGGAA
Found at i:36059473 original size:39 final size:43
Alignment explanation
Indices: 36059368--36059477 Score: 129
Period size: 45 Copynumber: 2.6 Consensus size: 43
36059358 GGAATAGAGG
36059368 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTT--A
* * ***
36059413 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGG-T-
1 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTA
36059453 TG-AATGGAATAGAGGTGTAATAGCA
1 TGTAATGGAATAGAGGTGTAATAGCA
36059478 TAATGGAAAA
Statistics
Matches: 57, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
39 20 0.35
40 2 0.04
43 1 0.02
44 11 0.19
45 23 0.40
ACGTcount: A:0.34, C:0.05, G:0.29, T:0.32
Consensus pattern (43 bp):
TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTA
Found at i:36059677 original size:16 final size:15
Alignment explanation
Indices: 36059652--36059698 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
36059642 TATAATTTAA
36059652 TAAAATTCTTAACAT
1 TAAAATTCTTAACAT
*
36059667 TAAATATTCTT-ATA-
1 TAAA-ATTCTTAACAT
36059681 T-AAATTCTTAACAT
1 TAAAATTCTTAACAT
36059695 TAAA
1 TAAA
36059699 TATAATTGTG
Statistics
Matches: 26, Mismatches: 2, Indels: 8
0.72 0.06 0.22
Matches are distributed among these distances:
12 6 0.23
13 4 0.15
14 2 0.08
15 8 0.31
16 6 0.23
ACGTcount: A:0.47, C:0.11, G:0.00, T:0.43
Consensus pattern (15 bp):
TAAAATTCTTAACAT
Found at i:36059698 original size:14 final size:14
Alignment explanation
Indices: 36059654--36059699 Score: 51
Period size: 12 Copynumber: 3.3 Consensus size: 14
36059644 TAATTTAATA
36059654 AAATTCTTAACATT
1 AAATTCTTAACATT
*
36059668 AAATATTCTT-ATA-T
1 -AA-ATTCTTAACATT
36059682 AAATTCTTAACATT
1 AAATTCTTAACATT
36059696 AAAT
1 AAAT
36059700 ATAATTGTGT
Statistics
Matches: 26, Mismatches: 2, Indels: 7
0.74 0.06 0.20
Matches are distributed among these distances:
12 6 0.23
13 4 0.15
14 6 0.23
15 4 0.15
16 6 0.23
ACGTcount: A:0.46, C:0.11, G:0.00, T:0.43
Consensus pattern (14 bp):
AAATTCTTAACATT
Found at i:36079983 original size:12 final size:12
Alignment explanation
Indices: 36079966--36080012 Score: 55
Period size: 12 Copynumber: 4.2 Consensus size: 12
36079956 ATGTATGTAA
36079966 ATTATGTAAGTT
1 ATTATGTAAGTT
36079978 ATTATGTAAG--
1 ATTATGTAAGTT
36079988 -TTATGTAAGTT
1 ATTATGTAAGTT
* *
36079999 ACTATGTAGGTT
1 ATTATGTAAGTT
36080011 AT
1 AT
36080013 GTTCGTTATG
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
9 9 0.31
12 20 0.69
ACGTcount: A:0.32, C:0.02, G:0.19, T:0.47
Consensus pattern (12 bp):
ATTATGTAAGTT
Found at i:36079996 original size:9 final size:9
Alignment explanation
Indices: 36079959--36080028 Score: 50
Period size: 9 Copynumber: 7.1 Consensus size: 9
36079949 AATATTTATG
*
36079959 TATGTAAAT
1 TATGTAAGT
36079968 TATGTAAGTTAT
1 TATGTAAG---T
36079980 TATGTAAGT
1 TATGTAAGT
36079989 TATGTAAGTT
1 TATGTAAG-T
*
36079999 ACTATGTAGGT
1 --TATGTAAGT
**
36080010 TATGTTCGT
1 TATGTAAGT
36080019 TATGTAAGT
1 TATGTAAGT
36080028 T
1 T
36080029 GTGATATGAT
Statistics
Matches: 49, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
9 31 0.63
10 1 0.02
11 1 0.02
12 16 0.33
ACGTcount: A:0.30, C:0.03, G:0.20, T:0.47
Consensus pattern (9 bp):
TATGTAAGT
Found at i:36080020 original size:21 final size:21
Alignment explanation
Indices: 36079959--36080014 Score: 85
Period size: 21 Copynumber: 2.7 Consensus size: 21
36079949 AATATTTATG
* *
36079959 TATGTAAATTATGTAAGTTAT
1 TATGTAAGTTATGTAAGTTAC
36079980 TATGTAAGTTATGTAAGTTAC
1 TATGTAAGTTATGTAAGTTAC
*
36080001 TATGTAGGTTATGT
1 TATGTAAGTTATGT
36080015 TCGTTATGTA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.32, C:0.02, G:0.20, T:0.46
Consensus pattern (21 bp):
TATGTAAGTTATGTAAGTTAC
Found at i:36080113 original size:91 final size:88
Alignment explanation
Indices: 36079919--36080115 Score: 218
Period size: 91 Copynumber: 2.2 Consensus size: 88
36079909 ATAATTAAGC
*
36079919 TATGTAAGTTATGTAAGTTAAGATATAATTAATATTTATGTATGTAAATTATGTAAGTTATTATG
1 TATGTAAGTTATGTAAGTTAAGATATAATTAATATTTATGTATGTAAATTATGTAAGTTATAATG
* *
36079984 TAAGTTATGTAAGTTACTATGTAGGT
66 TAAGCTATATAAG-T-CTATGTA-GT
** ** * *
36080010 TATGTTCGTTATGTAAGTTGTGATATGATTAATATTTATGTATGTAAATTATGATATGATTGATA
1 TATGTAAGTTATGTAAGTTAAGATATAATTAATATTTATGTATGTAAATTATG-TAAG-TT-AT-
*
36080075 AATTTAAGCTATATAAG-CTATGTA-T
62 AATGTAAGCTATATAAGTCTATGTAGT
36080100 TATGTAAGTTTATGTA
1 TATGTAAG-TTATGTA
36080116 TGTAGGAATA
Statistics
Matches: 89, Mismatches: 12, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
90 7 0.08
91 55 0.62
92 10 0.11
93 2 0.02
94 2 0.02
95 13 0.15
ACGTcount: A:0.35, C:0.02, G:0.17, T:0.46
Consensus pattern (88 bp):
TATGTAAGTTATGTAAGTTAAGATATAATTAATATTTATGTATGTAAATTATGTAAGTTATAATG
TAAGCTATATAAGTCTATGTAGT
Found at i:36080146 original size:9 final size:9
Alignment explanation
Indices: 36080132--36080177 Score: 83
Period size: 9 Copynumber: 5.1 Consensus size: 9
36080122 AATAAGTATA
*
36080132 ATGTAAGCT
1 ATGTAAGTT
36080141 ATGTAAGTT
1 ATGTAAGTT
36080150 ATGTAAGTT
1 ATGTAAGTT
36080159 ATGTAAGTT
1 ATGTAAGTT
36080168 ATGTAAGTT
1 ATGTAAGTT
36080177 A
1 A
36080178 AGATATAATA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
9 36 1.00
ACGTcount: A:0.35, C:0.02, G:0.22, T:0.41
Consensus pattern (9 bp):
ATGTAAGTT
Found at i:36080223 original size:39 final size:40
Alignment explanation
Indices: 36080169--36080244 Score: 127
Period size: 39 Copynumber: 1.9 Consensus size: 40
36080159 ATGTAAGTTA
* *
36080169 TGTAAGTTAAGATATAATATATATCCCTGTAAGTTATAAG
1 TGTAAGTTAAGATATAATATACATCCCGGTAAGTTATAAG
36080209 TGTAA-TTAAGATATAATATACATCCCGGTAAGTTAT
1 TGTAAGTTAAGATATAATATACATCCCGGTAAGTTAT
36080245 GTATTATATG
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
39 29 0.85
40 5 0.15
ACGTcount: A:0.39, C:0.09, G:0.14, T:0.37
Consensus pattern (40 bp):
TGTAAGTTAAGATATAATATACATCCCGGTAAGTTATAAG
Found at i:36080266 original size:27 final size:27
Alignment explanation
Indices: 36080236--36080348 Score: 107
Period size: 27 Copynumber: 4.4 Consensus size: 27
36080226 ATACATCCCG
36080236 GTAAGTTATGTATTATATGTATTATAT
1 GTAAGTTATGTATTATATGTATTATAT
**
36080263 GTAAGTTATG---TAGGT-TATTA-A-
1 GTAAGTTATGTATTATATGTATTATAT
* *
36080284 -TAAGTTAAGTTTTATATGTATTATAT
1 GTAAGTTATGTATTATATGTATTATAT
*
36080310 GTAAGTTATGTAGGT-TATGTATTATAT
1 GTAAGTTATGTA-TTATATGTATTATAT
*
36080337 GTAGGTTATGTA
1 GTAAGTTATGTA
36080349 GGTTATTATA
Statistics
Matches: 69, Mismatches: 9, Indels: 16
0.73 0.10 0.17
Matches are distributed among these distances:
20 8 0.12
22 1 0.01
23 8 0.12
24 8 0.12
25 1 0.01
27 42 0.61
28 1 0.01
ACGTcount: A:0.32, C:0.00, G:0.19, T:0.49
Consensus pattern (27 bp):
GTAAGTTATGTATTATATGTATTATAT
Found at i:36080306 original size:47 final size:47
Alignment explanation
Indices: 36080237--36080327 Score: 164
Period size: 47 Copynumber: 1.9 Consensus size: 47
36080227 TACATCCCGG
*
36080237 TAAGTTATGTATTATATGTATTATATGTAAGTTATGTAGGTTATTAA
1 TAAGTTAAGTATTATATGTATTATATGTAAGTTATGTAGGTTATTAA
*
36080284 TAAGTTAAGTTTTATATGTATTATATGTAAGTTATGTAGGTTAT
1 TAAGTTAAGTATTATATGTATTATATGTAAGTTATGTAGGTTAT
36080328 GTATTATATG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 42 1.00
ACGTcount: A:0.33, C:0.00, G:0.18, T:0.49
Consensus pattern (47 bp):
TAAGTTAAGTATTATATGTATTATATGTAAGTTATGTAGGTTATTAA
Found at i:36080346 original size:9 final size:9
Alignment explanation
Indices: 36080307--36080354 Score: 62
Period size: 9 Copynumber: 5.3 Consensus size: 9
36080297 ATATGTATTA
*
36080307 TATGTAAGT
1 TATGTAGGT
36080316 TATGTAGGT
1 TATGTAGGT
*
36080325 TATGTA-TT
1 TATGTAGGT
36080333 ATATGTAGGT
1 -TATGTAGGT
36080343 TATGTAGGT
1 TATGTAGGT
36080352 TAT
1 TAT
36080355 TATATTTTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
8 1 0.03
9 32 0.94
10 1 0.03
ACGTcount: A:0.27, C:0.00, G:0.25, T:0.48
Consensus pattern (9 bp):
TATGTAGGT
Found at i:36080349 original size:27 final size:27
Alignment explanation
Indices: 36080298--36080354 Score: 105
Period size: 27 Copynumber: 2.1 Consensus size: 27
36080288 TTAAGTTTTA
36080298 TATGTATTATATGTAAGTTATGTAGGT
1 TATGTATTATATGTAAGTTATGTAGGT
*
36080325 TATGTATTATATGTAGGTTATGTAGGT
1 TATGTATTATATGTAAGTTATGTAGGT
36080352 TAT
1 TAT
36080355 TATATTTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.28, C:0.00, G:0.23, T:0.49
Consensus pattern (27 bp):
TATGTATTATATGTAAGTTATGTAGGT
Found at i:36081154 original size:18 final size:18
Alignment explanation
Indices: 36081111--36081145 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
36081101 CAATCAACTT
36081111 AATA-TAAATTAAATCAA
1 AATATTAAATTAAATCAA
36081128 AATATTAAATTAAA-CAA
1 AATATTAAATTAAATCAA
36081145 A
1 A
36081146 TATGGTAAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.66, C:0.06, G:0.00, T:0.29
Consensus pattern (18 bp):
AATATTAAATTAAATCAA
Found at i:36083369 original size:7 final size:7
Alignment explanation
Indices: 36083359--36083445 Score: 54
Period size: 7 Copynumber: 12.4 Consensus size: 7
36083349 AACTATTAAC
36083359 CCCTAAA
1 CCCTAAA
*
36083366 CCCTTAA
1 CCCTAAA
*
36083373 CCC-CAA
1 CCCTAAA
*
36083379 CCCTTAA
1 CCCTAAA
*
36083386 CCCTTAA
1 CCCTAAA
*
36083393 CCCTTAA
1 CCCTAAA
36083400 CCCTTAAA
1 CCC-TAAA
36083408 CCCTAAA
1 CCCTAAA
36083415 CACC--AA
1 C-CCTAAA
36083421 CCCTTAAA
1 CCC-TAAA
* *
36083429 CCATAAT
1 CCCTAAA
*
36083436 CCATAAA
1 CCCTAAA
36083443 CCC
1 CCC
36083446 CTAACCCATA
Statistics
Matches: 66, Mismatches: 8, Indels: 12
0.77 0.09 0.14
Matches are distributed among these distances:
5 2 0.03
6 8 0.12
7 44 0.67
8 12 0.18
ACGTcount: A:0.37, C:0.44, G:0.00, T:0.20
Consensus pattern (7 bp):
CCCTAAA
Found at i:36083380 original size:21 final size:21
Alignment explanation
Indices: 36083356--36083430 Score: 80
Period size: 20 Copynumber: 3.6 Consensus size: 21
36083346 ATTAACTATT
36083356 AACCCCTAAACCCTTAACCCC
1 AACCCCTAAACCCTTAACCCC
* *
36083377 AA-CCCTTAACCCTTAACCCTT
1 AACCCCTAAACCCTTAACCC-C
* * *
36083398 AACCCTTAAACCCTAAACACC
1 AACCCCTAAACCCTTAACCCC
*
36083419 AACCCTTAAACC
1 AACCCCTAAACC
36083431 ATAATCCATA
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
20 16 0.36
21 16 0.36
22 13 0.29
ACGTcount: A:0.36, C:0.45, G:0.00, T:0.19
Consensus pattern (21 bp):
AACCCCTAAACCCTTAACCCC
Found at i:36083396 original size:14 final size:14
Alignment explanation
Indices: 36083354--36083470 Score: 78
Period size: 14 Copynumber: 8.3 Consensus size: 14
36083344 ACATTAACTA
*
36083354 TTAACCCCTAAACCC
1 TTAA-CCCTTAACCC
*
36083369 TTAACCC-CAACCC
1 TTAACCCTTAACCC
36083382 TTAACCCTTAACCC
1 TTAACCCTTAACCC
36083396 TTAACCCTTAAACCC
1 TTAACCCTT-AACCC
*
36083411 TAAACACC--AACCC
1 TTAAC-CCTTAACCC
* * *
36083424 TTAAACCATAATCCA
1 TTAACCCTTAA-CCC
* *
36083439 TAAACCCCTAACCC
1 TTAACCCTTAACCC
* * *
36083453 ATATCCCTTAAACC
1 TTAACCCTTAACCC
36083467 TTAA
1 TTAA
36083471 ATCATAGAAC
Statistics
Matches: 79, Mismatches: 17, Indels: 13
0.72 0.16 0.12
Matches are distributed among these distances:
12 2 0.03
13 20 0.25
14 32 0.41
15 23 0.29
16 2 0.03
ACGTcount: A:0.37, C:0.41, G:0.00, T:0.22
Consensus pattern (14 bp):
TTAACCCTTAACCC
Found at i:36083452 original size:42 final size:42
Alignment explanation
Indices: 36083356--36083449 Score: 116
Period size: 42 Copynumber: 2.2 Consensus size: 42
36083346 ATTAACTATT
* * * * * *
36083356 AACCCCTAAACCCTTAACCCCAACCCTTAACCCTTAACCCTT
1 AACCCCTAAACCCTAAACACCAACCCTTAAACCATAACCATA
*
36083398 AACCCTTAAACCCTAAACACCAACCCTTAAACCATAATCCATA
1 AACCCCTAAACCCTAAACACCAACCCTTAAACCATAA-CCATA
36083441 AACCCCTAA
1 AACCCCTAA
36083450 CCCATATCCC
Statistics
Matches: 43, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
42 32 0.74
43 11 0.26
ACGTcount: A:0.38, C:0.43, G:0.00, T:0.19
Consensus pattern (42 bp):
AACCCCTAAACCCTAAACACCAACCCTTAAACCATAACCATA
Found at i:36083632 original size:13 final size:13
Alignment explanation
Indices: 36083610--36083644 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
36083600 TAAACCCCTA
* *
36083610 AACCCCTAACCTC
1 AACCCTTAACCCC
36083623 AACCCTTAACCCC
1 AACCCTTAACCCC
36083636 AACCCTTAA
1 AACCCTTAA
36083645 ACCATAATCC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.34, C:0.49, G:0.00, T:0.17
Consensus pattern (13 bp):
AACCCTTAACCCC
Found at i:36083661 original size:22 final size:22
Alignment explanation
Indices: 36083636--36083685 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
36083626 CCTTAACCCC
36083636 AACCCTTAAACCATAAT-CCATA
1 AACCCTTAAACCAT-ATCCCATA
* *
36083658 AACCCTTAACCCATATCCCTTA
1 AACCCTTAAACCATATCCCATA
36083680 AACCCT
1 AACCCT
36083686 AAATTATAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 2 0.08
22 23 0.92
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.24
Consensus pattern (22 bp):
AACCCTTAAACCATATCCCATA
Found at i:36086340 original size:21 final size:21
Alignment explanation
Indices: 36086314--36086356 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
36086304 TTTTTGCATC
*
36086314 TCACAAATAAAGAAAAAA-ATT
1 TCACAAAGAAA-AAAAAACATT
36086335 TCACAAAGAAAAAAAAACATT
1 TCACAAAGAAAAAAAAACATT
36086356 T
1 T
36086357 TATTGAACGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.65, C:0.12, G:0.05, T:0.19
Consensus pattern (21 bp):
TCACAAAGAAAAAAAAACATT
Found at i:36086870 original size:9 final size:9
Alignment explanation
Indices: 36086834--36086872 Score: 51
Period size: 9 Copynumber: 4.3 Consensus size: 9
36086824 TAAATTTCAC
36086834 AATTCAAAT
1 AATTCAAAT
*
36086843 AACTCAAAT
1 AATTCAAAT
**
36086852 AATTTGAAT
1 AATTCAAAT
36086861 AATTCAAAT
1 AATTCAAAT
36086870 AAT
1 AAT
36086873 AGATTGATAT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.54, C:0.10, G:0.03, T:0.33
Consensus pattern (9 bp):
AATTCAAAT
Found at i:36086981 original size:20 final size:19
Alignment explanation
Indices: 36086958--36087024 Score: 75
Period size: 20 Copynumber: 3.4 Consensus size: 19
36086948 TACAAAATAA
36086958 TTCAAAATAATTTTCAAAAT
1 TTCAAAATAATTTT-AAAAT
36086978 TTCAAAATAAATTTT-AAAT
1 TTCAAAAT-AATTTTAAAAT
*
36086997 TTTAAAAT-ATTTATAAAAAT
1 TTCAAAATAATTT-T-AAAAT
36087017 TTCAAAAT
1 TTCAAAAT
36087025 TTATATTTTT
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
17 4 0.10
18 1 0.02
19 11 0.27
20 19 0.46
21 6 0.15
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (19 bp):
TTCAAAATAATTTTAAAAT
Found at i:36087539 original size:13 final size:14
Alignment explanation
Indices: 36087521--36087560 Score: 66
Period size: 13 Copynumber: 3.0 Consensus size: 14
36087511 ATTGGCCCGC
36087521 AAAGAAAAAA-AAA
1 AAAGAAAAAAGAAA
36087534 AAAGAAAAAAGAAA
1 AAAGAAAAAAGAAA
36087548 AAAG-AAAAAGAAA
1 AAAGAAAAAAGAAA
36087561 GCATTATGCA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
13 19 0.73
14 7 0.27
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (14 bp):
AAAGAAAAAAGAAA
Found at i:36087541 original size:7 final size:7
Alignment explanation
Indices: 36087521--36087560 Score: 66
Period size: 7 Copynumber: 6.0 Consensus size: 7
36087511 ATTGGCCCGC
36087521 AAAGAAA
1 AAAGAAA
36087528 AAA-AAA
1 AAAGAAA
36087534 AAAGAAA
1 AAAGAAA
36087541 AAAGAAA
1 AAAGAAA
36087548 AAAG-AA
1 AAAGAAA
36087554 AAAGAAA
1 AAAGAAA
36087561 GCATTATGCA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
6 12 0.39
7 19 0.61
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (7 bp):
AAAGAAA
Found at i:36087546 original size:20 final size:20
Alignment explanation
Indices: 36087521--36087560 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
36087511 ATTGGCCCGC
36087521 AAAGAAAAAAAAAAAAGAAA
1 AAAGAAAAAAAAAAAAGAAA
*
36087541 AAAGAAAAAAGAAAAAGAAA
1 AAAGAAAAAAAAAAAAGAAA
36087561 GCATTATGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (20 bp):
AAAGAAAAAAAAAAAAGAAA
Found at i:36087849 original size:23 final size:23
Alignment explanation
Indices: 36087795--36087850 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 23
36087785 AGGGAGAAGC
*
36087795 AAAAGA-TAATAGAAAATAAAAA
1 AAAAGATTAAAAGAAAATAAAAA
* *
36087817 AAAAGTTTAAAAGAACATAAAAGA
1 AAAAGATTAAAAGAAAATAAAA-A
36087841 AAAA-ATTAAA
1 AAAAGATTAAA
36087851 TTGCTCAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
22 5 0.18
23 18 0.64
24 5 0.18
ACGTcount: A:0.73, C:0.02, G:0.09, T:0.16
Consensus pattern (23 bp):
AAAAGATTAAAAGAAAATAAAAA
Found at i:36088287 original size:20 final size:20
Alignment explanation
Indices: 36088258--36088305 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
36088248 TTTATTTTTA
* *
36088258 ATTTTAATCCACATTTTTATG
1 ATTTT-ATCCACAATTTCATG
*
36088279 GTTTTATCCACAATTTCATG
1 ATTTTATCCACAATTTCATG
36088299 ATTTTAT
1 ATTTTAT
36088306 TTTGTCCATA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
20 19 0.83
21 4 0.17
ACGTcount: A:0.27, C:0.15, G:0.06, T:0.52
Consensus pattern (20 bp):
ATTTTATCCACAATTTCATG
Found at i:36090583 original size:18 final size:19
Alignment explanation
Indices: 36090546--36090592 Score: 78
Period size: 18 Copynumber: 2.5 Consensus size: 19
36090536 AATAATTATA
36090546 AAAATATTATTTATTTTTT
1 AAAATATTATTTATTTTTT
*
36090565 AGAATATTATTTA-TTTTT
1 AAAATATTATTTATTTTTT
36090583 AAAATATTAT
1 AAAATATTAT
36090593 CATATTAGCA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
18 14 0.54
19 12 0.46
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (19 bp):
AAAATATTATTTATTTTTT
Found at i:36098410 original size:20 final size:21
Alignment explanation
Indices: 36098373--36098421 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 21
36098363 TTAAATACAC
*
36098373 TTATAAAAACTATTATAA-TA
1 TTATAAAAACTATAATAACTA
* * *
36098393 TTATAAAAATTCTAATAACTT
1 TTATAAAAACTATAATAACTA
36098414 TTATAAAA
1 TTATAAAA
36098422 TTAATAAAAC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 15 0.62
21 9 0.38
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (21 bp):
TTATAAAAACTATAATAACTA
Found at i:36098475 original size:21 final size:22
Alignment explanation
Indices: 36098412--36098475 Score: 62
Period size: 21 Copynumber: 2.9 Consensus size: 22
36098402 TTCTAATAAC
*
36098412 TTTTATAAAATTAATAAAACATA
1 TTTTATAAAATTAATATAA-ATA
36098435 TTTTATAAAA--ACATATTAAA-A
1 TTTTATAAAATTA-ATA-TAAATA
*
36098456 TTTTATAAAATTGATATAAA
1 TTTTATAAAATTAATATAAA
36098476 CTTATAAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
21 16 0.46
22 7 0.20
23 12 0.34
ACGTcount: A:0.55, C:0.03, G:0.02, T:0.41
Consensus pattern (22 bp):
TTTTATAAAATTAATATAAATA
Found at i:36098494 original size:65 final size:64
Alignment explanation
Indices: 36098373--36098495 Score: 142
Period size: 65 Copynumber: 1.9 Consensus size: 64
36098363 TTAAATACAC
* * * * *
36098373 TTATAAAAACTATTATAATATTATAAAAATTCTAATAACTTTTATAAAATTAATAAAACATATT
1 TTATAAAAACTATTAAAATATTATAAAAATTATAATAACTTATAAAAAAATAATAAAACATATT
* *
36098437 TTATAAAAACATATTAAAATTTTAT-AAAATTGAT-ATAAACTTATAAAAAAATCATAAAA
1 TTATAAAAAC-TATTAAAATATTATAAAAATT-ATAAT-AACTTATAAAAAAATAATAAAA
36098496 ACTTGAATTA
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
64 18 0.37
65 31 0.63
ACGTcount: A:0.56, C:0.06, G:0.01, T:0.37
Consensus pattern (64 bp):
TTATAAAAACTATTAAAATATTATAAAAATTATAATAACTTATAAAAAAATAATAAAACATATT
Found at i:36107723 original size:18 final size:18
Alignment explanation
Indices: 36107700--36107748 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
36107690 ATATAATATG
36107700 TTATTCGAATTATTAGAA
1 TTATTCGAATTATTAGAA
* *
36107718 TTATTC-AAGTTATTTGAG
1 TTATTCGAA-TTATTAGAA
*
36107736 TTATTTGAATTAT
1 TTATTCGAATTAT
36107749 AAAATTCAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
17 2 0.08
18 22 0.85
19 2 0.08
ACGTcount: A:0.33, C:0.04, G:0.12, T:0.51
Consensus pattern (18 bp):
TTATTCGAATTATTAGAA
Found at i:36113676 original size:7 final size:7
Alignment explanation
Indices: 36113664--36113751 Score: 158
Period size: 7 Copynumber: 12.4 Consensus size: 7
36113654 TTGCAGATTA
36113664 AAAATTC
1 AAAATTC
36113671 AAAATTC
1 AAAATTC
36113678 AAAATTC
1 AAAATTC
36113685 AAAATTC
1 AAAATTC
36113692 AAAATTC
1 AAAATTC
36113699 AAAATTC
1 AAAATTC
*
36113706 AAAAAATC
1 -AAAATTC
36113714 AAAATTC
1 AAAATTC
36113721 AAAATTC
1 AAAATTC
36113728 AAAATTC
1 AAAATTC
36113735 AAAATTC
1 AAAATTC
36113742 AAAATTC
1 AAAATTC
36113749 AAA
1 AAA
36113752 TTTGAAGATT
Statistics
Matches: 78, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
7 72 0.92
8 6 0.08
ACGTcount: A:0.60, C:0.14, G:0.00, T:0.26
Consensus pattern (7 bp):
AAAATTC
Found at i:36113763 original size:7 final size:7
Alignment explanation
Indices: 36113753--36113796 Score: 52
Period size: 7 Copynumber: 6.3 Consensus size: 7
36113743 AAATTCAAAT
36113753 TTGAAGA
1 TTGAAGA
36113760 TTGAAGA
1 TTGAAGA
*
36113767 TTGAAAA
1 TTGAAGA
*
36113774 TTGAAAA
1 TTGAAGA
**
36113781 TTGGGGA
1 TTGAAGA
36113788 TTGAAGA
1 TTGAAGA
36113795 TT
1 TT
36113797 TAGGAAGGAA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.41, C:0.00, G:0.27, T:0.32
Consensus pattern (7 bp):
TTGAAGA
Found at i:36113778 original size:21 final size:21
Alignment explanation
Indices: 36113652--36113792 Score: 66
Period size: 21 Copynumber: 6.7 Consensus size: 21
36113642 AATAAAATAT
* * *
36113652 AATTGCAGATTAAAAATTCAA
1 AATTGAAGATTGAAAATTGAA
* * * *
36113673 AATTCAAAATTCAAAATTCAA
1 AATTGAAGATTGAAAATTGAA
* * * * *
36113694 AATTCAAAATTCAAAAAATCAA
1 AATTGAAGATT-GAAAATTGAA
* * * *
36113716 AATTCAAAATTCAAAATTCAA
1 AATTGAAGATTGAAAATTGAA
* * * *
36113737 AATTCAAAATTCAAATTTGAA
1 AATTGAAGATTGAAAATTGAA
*
36113758 GATTGAAGATTGAAAATTGAA
1 AATTGAAGATTGAAAATTGAA
**
36113779 AATTGGGGATTGAA
1 AATTGAAGATTGAA
36113793 GATTTAGGAA
Statistics
Matches: 101, Mismatches: 18, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
21 82 0.81
22 19 0.19
ACGTcount: A:0.53, C:0.09, G:0.09, T:0.28
Consensus pattern (21 bp):
AATTGAAGATTGAAAATTGAA
Found at i:36118965 original size:23 final size:24
Alignment explanation
Indices: 36118935--36119077 Score: 157
Period size: 23 Copynumber: 5.8 Consensus size: 24
36118925 NNNNNNNNNN
36118935 TTTAATTAAATTA-GGTTAGGGTT
1 TTTAATTAAATTAGGGTTAGGGTT
*
36118958 TTTAATT-AAGTAGGGTTAGGGTTTTT
1 TTTAATTAAATTAGGGTTAGGG---TT
*
36118984 AATTTAATTAAATAAGGTGTTAGGGTT
1 --TTTAATTAAATTAGG-GTTAGGGTT
**
36119011 TATTAAATTAGGTTAGGGTTAGGGTT
1 T-TT-AATTAAATTAGGGTTAGGGTT
36119037 TTTAATTAAATTA-GGTTAGGGTT
1 TTTAATTAAATTAGGGTTAGGGTT
36119060 TTTAATTAAATTAGGGTT
1 TTTAATTAAATTAGGGTT
36119078 TTTATTACAT
Statistics
Matches: 101, Mismatches: 8, Indels: 21
0.78 0.06 0.16
Matches are distributed among these distances:
22 4 0.04
23 38 0.38
24 12 0.12
25 3 0.03
26 14 0.14
27 11 0.11
28 7 0.07
29 5 0.05
30 7 0.07
ACGTcount: A:0.30, C:0.00, G:0.24, T:0.46
Consensus pattern (24 bp):
TTTAATTAAATTAGGGTTAGGGTT
Found at i:36119034 original size:56 final size:51
Alignment explanation
Indices: 36118935--36119077 Score: 161
Period size: 51 Copynumber: 2.8 Consensus size: 51
36118925 NNNNNNNNNN
*
36118935 TTTAATTAAATTAGGTTAGGGTTTTTAATTAAGTAGGGTTAGGGTTTTTAA
1 TTTAATTAAATAAGGTTAGGGTTTTTAATTAAGTAGGGTTAGGGTTTTTAA
*
36118986 TTTAATTAAATAAGGTGTTAGGGTTTATTAAATTAGGTTAGGGTTAGGG---TT--
1 TTTAATTAAATAA-G-GTTAGGGTTT-TT-AATTAAG-TAGGGTTAGGGTTTTTAA
* *
36119037 TTTAATTAAATTAGGTTAGGGTTTTTAATTAAATTAGGGTT
1 TTTAATTAAATAAGGTTAGGGTTTTTAATT-AAGTAGGGTT
36119078 TTTATTACAT
Statistics
Matches: 81, Mismatches: 5, Indels: 16
0.79 0.05 0.16
Matches are distributed among these distances:
47 11 0.14
48 3 0.04
49 10 0.12
50 1 0.01
51 24 0.30
52 1 0.01
53 12 0.15
54 2 0.02
55 6 0.07
56 11 0.14
ACGTcount: A:0.30, C:0.00, G:0.24, T:0.46
Consensus pattern (51 bp):
TTTAATTAAATAAGGTTAGGGTTTTTAATTAAGTAGGGTTAGGGTTTTTAA
Found at i:36119050 original size:29 final size:29
Alignment explanation
Indices: 36118968--36119059 Score: 118
Period size: 29 Copynumber: 3.2 Consensus size: 29
36118958 TTTAATTAAG
* **
36118968 TAGGGTTAGGGTTTTTAATTTAATTAAAT
1 TAGGGTTAGGGTTTTTAATTAAATTAGGT
*
36118997 AAGGTGTTAGGG--TTT-ATTAAATTAGGT
1 TAGG-GTTAGGGTTTTTAATTAAATTAGGT
36119024 TAGGGTTAGGGTTTTTAATTAAATTAGGT
1 TAGGGTTAGGGTTTTTAATTAAATTAGGT
36119053 TAGGGTT
1 TAGGGTT
36119060 TTTAATTAAA
Statistics
Matches: 54, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
26 7 0.13
27 12 0.22
28 6 0.11
29 22 0.41
30 7 0.13
ACGTcount: A:0.28, C:0.00, G:0.27, T:0.45
Consensus pattern (29 bp):
TAGGGTTAGGGTTTTTAATTAAATTAGGT
Found at i:36119188 original size:71 final size:71
Alignment explanation
Indices: 36119080--36119264 Score: 307
Period size: 71 Copynumber: 2.6 Consensus size: 71
36119070 TTAGGGTTTT
36119080 TATTACATCAAATAGAACTTCTATTTTATTATATCAAATAATATCAAAATAACTCGAAAAAATTT
1 TATTACATCAAATA-AACTTCTATTTTATTATATCAAATAATATCAAAATAACTCGAAAAAATTT
36119145 CTATGCC
65 CTATGCC
** * *
36119152 TATTTTATCAAATAAACTTCTATTTTATTATTTCAAATAATATCAAAATAACTTGAAAAAATTTC
1 TATTACATCAAATAAACTTCTATTTTATTATATCAAATAATATCAAAATAACTCGAAAAAATTTC
*
36119217 TATGCG
66 TATGCC
*
36119223 TATTACATCAAATAAACTTCTATTTTATTACATCAAATAATA
1 TATTACATCAAATAAACTTCTATTTTATTATATCAAATAATA
36119265 AATTTAAATA
Statistics
Matches: 104, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
71 92 0.88
72 12 0.12
ACGTcount: A:0.44, C:0.14, G:0.03, T:0.39
Consensus pattern (71 bp):
TATTACATCAAATAAACTTCTATTTTATTATATCAAATAATATCAAAATAACTCGAAAAAATTTC
TATGCC
Found at i:36119693 original size:18 final size:18
Alignment explanation
Indices: 36119666--36119700 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
36119656 CGAAAAAGGA
* *
36119666 TACATGTAAGGGTTAGGG
1 TACATATAAGGGCTAGGG
36119684 TACATATAAGGGCTAGG
1 TACATATAAGGGCTAGG
36119701 AAACACACCT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.31, C:0.09, G:0.34, T:0.26
Consensus pattern (18 bp):
TACATATAAGGGCTAGGG
Found at i:36120362 original size:7 final size:7
Alignment explanation
Indices: 36120352--36120376 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
36120342 TTATATACAT
36120352 AATACTA
1 AATACTA
36120359 AATACTA
1 AATACTA
36120366 AATACTA
1 AATACTA
36120373 AATA
1 AATA
36120377 TCAATCGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:36121336 original size:10 final size:10
Alignment explanation
Indices: 36121317--36121369 Score: 52
Period size: 11 Copynumber: 5.1 Consensus size: 10
36121307 GCCATTGATG
36121317 AAAATATAAA
1 AAAATATAAA
*
36121327 AAAATTTAAA
1 AAAATATAAA
* * *
36121337 ATTATTTTAAA
1 A-AAATATAAA
36121348 AAAATATAAAA
1 AAAATAT-AAA
36121359 AAAATATAAA
1 AAAATATAAA
36121369 A
1 A
36121370 TTATTTTAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
10 17 0.49
11 18 0.51
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (10 bp):
AAAATATAAA
Found at i:36121352 original size:31 final size:32
Alignment explanation
Indices: 36121317--36121382 Score: 116
Period size: 32 Copynumber: 2.1 Consensus size: 32
36121307 GCCATTGATG
*
36121317 AAAATAT-AAAAAAATTTAAAATTATTTTAAA
1 AAAATATAAAAAAAATATAAAATTATTTTAAA
36121348 AAAATATAAAAAAAATATAAAATTATTTTAAA
1 AAAATATAAAAAAAATATAAAATTATTTTAAA
36121380 AAA
1 AAA
36121383 TGAAATTGAG
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
31 7 0.21
32 26 0.79
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (32 bp):
AAAATATAAAAAAAATATAAAATTATTTTAAA
Found at i:36121443 original size:51 final size:51
Alignment explanation
Indices: 36121384--36121498 Score: 203
Period size: 51 Copynumber: 2.3 Consensus size: 51
36121374 TTTAAAAAAT
* *
36121384 GAAATTGAGGGGAAATTGAAATTAAATATGGATTTGAGAGAATTTTGGAAG
1 GAAATTGAGAGGAAATTGAAATTAAATATGGATTTGAGAGAAATTTGGAAG
*
36121435 GAAATTGAGAGGAAATTGAAATTAAATATGGGTTTGAGAGAAATTTGGAAG
1 GAAATTGAGAGGAAATTGAAATTAAATATGGATTTGAGAGAAATTTGGAAG
36121486 GAAATTGAGAGGA
1 GAAATTGAGAGGA
36121499 TTAGAGAGGA
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
51 61 1.00
ACGTcount: A:0.43, C:0.00, G:0.30, T:0.27
Consensus pattern (51 bp):
GAAATTGAGAGGAAATTGAAATTAAATATGGATTTGAGAGAAATTTGGAAG
Found at i:36122076 original size:18 final size:17
Alignment explanation
Indices: 36122043--36122087 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
36122033 TTCTAATTTT
36122043 TTTAAAAATTATTAAAA
1 TTTAAAAATTATTAAAA
36122060 TTTAAATAATTGA-TAAAA
1 TTTAAA-AATT-ATTAAAA
*
36122078 TTCAAAAATT
1 TTTAAAAATT
36122088 TTATAAAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
17 10 0.40
18 14 0.56
19 1 0.04
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (17 bp):
TTTAAAAATTATTAAAA
Found at i:36122093 original size:18 final size:18
Alignment explanation
Indices: 36122046--36122095 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
36122036 TAATTTTTTT
* *
36122046 AAAAATTAT-TAAAATTT
1 AAAAATTTTATAAAATTC
*
36122063 AAATAA-TTGATAAAATTC
1 AAA-AATTTTATAAAATTC
36122081 AAAAATTTTATAAAA
1 AAAAATTTTATAAAA
36122096 ATAAAAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
17 6 0.23
18 20 0.77
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (18 bp):
AAAAATTTTATAAAATTC
Found at i:36126158 original size:5 final size:5
Alignment explanation
Indices: 36126148--36126172 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
36126138 CATAAACAAG
36126148 CTTTT CTTTT CTTTT CTTTT CTTTT
1 CTTTT CTTTT CTTTT CTTTT CTTTT
36126173 TAACGAATGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (5 bp):
CTTTT
Found at i:36128875 original size:2 final size:2
Alignment explanation
Indices: 36128868--36128898 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
36128858 AAACTAAAAC
36128868 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
36128899 GCTCCACTGA
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:36129557 original size:14 final size:14
Alignment explanation
Indices: 36129538--36129564 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
36129528 GAGTTGACAA
36129538 AAAAAAGAAAAAGG
1 AAAAAAGAAAAAGG
36129552 AAAAAAGAAAAAG
1 AAAAAAGAAAAAG
36129565 TGGAAACAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (14 bp):
AAAAAAGAAAAAGG
Found at i:36147871 original size:13 final size:14
Alignment explanation
Indices: 36147853--36147881 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
36147843 ATAATATAAC
36147853 TATATTTAAT-ATT
1 TATATTTAATAATT
36147866 TATATTTAATAATT
1 TATATTTAATAATT
36147880 TA
1 TA
36147882 GTAAATGATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
TATATTTAATAATT
Found at i:36150661 original size:17 final size:17
Alignment explanation
Indices: 36150641--36150685 Score: 81
Period size: 17 Copynumber: 2.6 Consensus size: 17
36150631 AGATAAGTGG
*
36150641 CATTGTAAGAACGTTTA
1 CATTGCAAGAACGTTTA
36150658 CATTGCAAGAACGTTTA
1 CATTGCAAGAACGTTTA
36150675 CATTGCAAGAA
1 CATTGCAAGAA
36150686 AGATAACTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.38, C:0.16, G:0.18, T:0.29
Consensus pattern (17 bp):
CATTGCAAGAACGTTTA
Found at i:36151780 original size:24 final size:25
Alignment explanation
Indices: 36151730--36151780 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 25
36151720 ATTTTTAGAA
*
36151730 AAATTAATTTTGATCAAGTAAAATT
1 AAATTAATTTAGATCAAGTAAAATT
* *
36151755 AAATTAA-TTAGATTAATTAAAATT
1 AAATTAATTTAGATCAAGTAAAATT
36151779 AA
1 AA
36151781 TATGATATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 16 0.70
25 7 0.30
ACGTcount: A:0.53, C:0.02, G:0.06, T:0.39
Consensus pattern (25 bp):
AAATTAATTTAGATCAAGTAAAATT
Found at i:36152245 original size:20 final size:19
Alignment explanation
Indices: 36152220--36152269 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
36152210 TAATAGTATT
36152220 TTATTAATTTAATATTAAA
1 TTATTAATTTAATATTAAA
36152239 CTTATT-ATGTTAATATTAAA
1 -TTATTAAT-TTAATATTAAA
36152259 -T-TTAATTTAAT
1 TTATTAATTTAAT
36152270 GTTTATATTG
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
17 7 0.25
18 3 0.11
19 2 0.07
20 16 0.57
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (19 bp):
TTATTAATTTAATATTAAA
Found at i:36152348 original size:62 final size:62
Alignment explanation
Indices: 36152248--36152367 Score: 140
Period size: 62 Copynumber: 1.9 Consensus size: 62
36152238 ACTTATTATG
* *
36152248 TTAATATTAAATTTAATTTAATGTTTATATTGTAGAT-AATCATTCTATTATTTTAATAAGAT
1 TTAATATTAAATTTAATTTAATGTTTATATTGTAGATAAAT-ATTATATTAATTTAATAAGAT
* *
36152310 TTAATATTAAATTTAATCTT-CTAGTATT-TATT-TTGATAAATATTATATTAATTTAATA
1 TTAATATTAAATTTAAT-TTAAT-GT-TTATATTGTAGATAAATATTATATTAATTTAATA
36152368 TTAAAGTGAT
Statistics
Matches: 50, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
62 37 0.74
63 11 0.22
64 2 0.04
ACGTcount: A:0.39, C:0.03, G:0.05, T:0.53
Consensus pattern (62 bp):
TTAATATTAAATTTAATTTAATGTTTATATTGTAGATAAATATTATATTAATTTAATAAGAT
Found at i:36159571 original size:24 final size:24
Alignment explanation
Indices: 36159539--36159588 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
36159529 TTGAATAAAC
36159539 TTAAATGAAAAGTCAAGAGTTATG
1 TTAAATGAAAAGTCAAGAGTTATG
* *
36159563 TTAAGTGAAAGGTCAAGAGTTATG
1 TTAAATGAAAAGTCAAGAGTTATG
36159587 TT
1 TT
36159589 TTTTTAATGG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.40, C:0.04, G:0.24, T:0.32
Consensus pattern (24 bp):
TTAAATGAAAAGTCAAGAGTTATG
Found at i:36163850 original size:24 final size:24
Alignment explanation
Indices: 36163818--36163867 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
36163808 TTGAATAAAC
36163818 TTAAATGAAAAGTCAAGAGTTATG
1 TTAAATGAAAAGTCAAGAGTTATG
*
36163842 TTAAATGAAAGGTCAAGAGTTATG
1 TTAAATGAAAAGTCAAGAGTTATG
36163866 TT
1 TT
36163868 TTTTTTAATG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.42, C:0.04, G:0.22, T:0.32
Consensus pattern (24 bp):
TTAAATGAAAAGTCAAGAGTTATG
Found at i:36171767 original size:20 final size:20
Alignment explanation
Indices: 36171742--36171783 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
36171732 TTCATAAAAC
36171742 CTGAACCTATGTTGTGTTAT
1 CTGAACCTATGTTGTGTTAT
36171762 CTGAACCTATGTTGTGTTAT
1 CTGAACCTATGTTGTGTTAT
36171782 CT
1 CT
36171784 ATGGAAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.19, C:0.17, G:0.19, T:0.45
Consensus pattern (20 bp):
CTGAACCTATGTTGTGTTAT
Found at i:36173806 original size:30 final size:30
Alignment explanation
Indices: 36173772--36173834 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
36173762 GCAAGTGAAC
*
36173772 CATTTGTTTATTTACATGTATTAGTGTATA
1 CATTTGTTTATTTACATGCATTAGTGTATA
36173802 CATTTGTTTATTTACATGCATTAGTGTATA
1 CATTTGTTTATTTACATGCATTAGTGTATA
36173832 CAT
1 CAT
36173835 GTCTATAGCT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.27, C:0.10, G:0.13, T:0.51
Consensus pattern (30 bp):
CATTTGTTTATTTACATGCATTAGTGTATA
Found at i:36177729 original size:22 final size:22
Alignment explanation
Indices: 36177703--36177746 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
36177693 TATCGAGTCT
36177703 TCCTCTTAGTCCCACTAAAAAG
1 TCCTCTTAGTCCCACTAAAAAG
*
36177725 TCCTCTTAGTCCTACTAAAAAG
1 TCCTCTTAGTCCCACTAAAAAG
36177747 AACGTAGTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.32, C:0.30, G:0.09, T:0.30
Consensus pattern (22 bp):
TCCTCTTAGTCCCACTAAAAAG
Found at i:36178178 original size:15 final size:15
Alignment explanation
Indices: 36178158--36178188 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
36178148 TGGAAGAAGG
36178158 TACAGATCACCCACA
1 TACAGATCACCCACA
36178173 TACAGATCACCCACA
1 TACAGATCACCCACA
36178188 T
1 T
36178189 GTTGGTTGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.39, G:0.06, T:0.16
Consensus pattern (15 bp):
TACAGATCACCCACA
Found at i:36178652 original size:16 final size:16
Alignment explanation
Indices: 36178631--36178661 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
36178621 TTTTGGTAAT
36178631 AGAAATAAAAGAATTG
1 AGAAATAAAAGAATTG
36178647 AGAAATAAAAGAATT
1 AGAAATAAAAGAATT
36178662 CCACTAGTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.65, C:0.00, G:0.16, T:0.19
Consensus pattern (16 bp):
AGAAATAAAAGAATTG
Found at i:36179673 original size:12 final size:12
Alignment explanation
Indices: 36179646--36179685 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
36179636 ATTAAAAACT
*
36179646 TTGATTAATG-C
1 TTGATTCATGAC
36179657 TTGATTCATGAC
1 TTGATTCATGAC
*
36179669 TTGATTCAAGAC
1 TTGATTCATGAC
36179681 TTGAT
1 TTGAT
36179686 GATAAAATGA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
11 9 0.35
12 17 0.65
ACGTcount: A:0.28, C:0.12, G:0.17, T:0.42
Consensus pattern (12 bp):
TTGATTCATGAC
Found at i:36181047 original size:22 final size:21
Alignment explanation
Indices: 36181011--36181051 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
36181001 ATGAAAATAA
*
36181011 AATAAAATAGTAAAATTAAAT
1 AATAAAATAGGAAAATTAAAT
36181032 AATAATAATAGGAAAATTAA
1 AATAA-AATAGGAAAATTAA
36181052 TTTTTTTTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.66, C:0.00, G:0.07, T:0.27
Consensus pattern (21 bp):
AATAAAATAGGAAAATTAAAT
Found at i:36203090 original size:2 final size:2
Alignment explanation
Indices: 36203085--36203110 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
36203075 GAAGTTGCTT
36203085 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
36203111 ATGTTTAGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:36210125 original size:22 final size:20
Alignment explanation
Indices: 36210091--36210132 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 20
36210081 ATTACTTTCC
*
36210091 TGTATTCAATTTTCTTTTAA
1 TGTATTCAATTTTCCTTTAA
36210111 TGTATATCATATTTTCCTTTAA
1 TGTAT-TCA-ATTTTCCTTTAA
36210133 AACTTTTAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 5 0.26
21 3 0.16
22 11 0.58
ACGTcount: A:0.26, C:0.12, G:0.05, T:0.57
Consensus pattern (20 bp):
TGTATTCAATTTTCCTTTAA
Found at i:36215343 original size:16 final size:17
Alignment explanation
Indices: 36215322--36215356 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
36215312 AATTAATTTA
*
36215322 AATTAATTAATTTT-TC
1 AATTAAATAATTTTCTC
36215338 AATTAAATAATTTTCTC
1 AATTAAATAATTTTCTC
36215355 AA
1 AA
36215357 CCCAATTCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.43, C:0.09, G:0.00, T:0.49
Consensus pattern (17 bp):
AATTAAATAATTTTCTC
Found at i:36224049 original size:18 final size:18
Alignment explanation
Indices: 36224015--36224055 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 18
36224005 GGTTTTCGTA
36224015 TTTTTTTTCGTTCAAATT
1 TTTTTTTTCGTTCAAATT
*
36224033 TATTTTTTTGGTT-AAATT
1 T-TTTTTTTCGTTCAAATT
36224051 TTTTT
1 TTTTT
36224056 ATAAAATTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 4 0.19
18 7 0.33
19 10 0.48
ACGTcount: A:0.17, C:0.05, G:0.07, T:0.71
Consensus pattern (18 bp):
TTTTTTTTCGTTCAAATT
Found at i:36224815 original size:12 final size:12
Alignment explanation
Indices: 36224800--36224854 Score: 55
Period size: 11 Copynumber: 4.8 Consensus size: 12
36224790 AACAAATCCT
36224800 CTCTCAAATTTC
1 CTCTCAAATTTC
*
36224812 CTCTC-AATTTT
1 CTCTCAAATTTC
36224823 CTCTC-AATTTC
1 CTCTCAAATTTC
36224834 CT-TCCAAATTT-
1 CTCT-CAAATTTC
*
36224845 ATCTCAAATT
1 CTCTCAAATT
36224855 CATATTTAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
10 1 0.03
11 25 0.68
12 11 0.30
ACGTcount: A:0.25, C:0.29, G:0.00, T:0.45
Consensus pattern (12 bp):
CTCTCAAATTTC
Found at i:36224825 original size:23 final size:23
Alignment explanation
Indices: 36224799--36224854 Score: 71
Period size: 22 Copynumber: 2.5 Consensus size: 23
36224789 AAACAAATCC
*
36224799 TCTCTCAAATTTCC-TCTCAATTT
1 TCTCTCAAATTTCCTTC-CAAATT
36224822 TCTCTC-AATTTCCTTCCAAATT
1 TCTCTCAAATTTCCTTCCAAATT
*
36224844 TATCTCAAATT
1 TCTCTCAAATT
36224855 CATATTTAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
22 17 0.59
23 12 0.41
ACGTcount: A:0.25, C:0.29, G:0.00, T:0.46
Consensus pattern (23 bp):
TCTCTCAAATTTCCTTCCAAATT
Found at i:36227469 original size:50 final size:50
Alignment explanation
Indices: 36227406--36227619 Score: 428
Period size: 50 Copynumber: 4.3 Consensus size: 50
36227396 TCGATACACA
36227406 TAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTACTGTTCACG
1 TAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTACTGTTCACG
36227456 TAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTACTGTTCACG
1 TAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTACTGTTCACG
36227506 TAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTACTGTTCACG
1 TAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTACTGTTCACG
36227556 TAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTACTGTTCACG
1 TAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTACTGTTCACG
36227606 TAGTAGCCTTCACA
1 TAGTAGCCTTCACA
36227620 CATGTGACCA
Statistics
Matches: 164, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 164 1.00
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.32
Consensus pattern (50 bp):
TAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTACTGTTCACG
Found at i:36227647 original size:41 final size:43
Alignment explanation
Indices: 36227602--36227713 Score: 129
Period size: 51 Copynumber: 2.5 Consensus size: 43
36227592 TTTTACTGTT
*
36227602 CACGTAGTAGCCTTCACACA-T-GTGACCATTATTTATCGATA
1 CACGTAGTAGCCTTCACACACTAGTGACCATTATTTACCGATA
36227643 CACGTAGTAGCCTTCACACAGTACTACACACGTGACCATTATTTACCGATA
1 CACGTAGTAGCCTTCACAC---ACT----A-GTGACCATTATTTACCGATA
36227694 CACGTAGTAGCCTTCACACA
1 CACGTAGTAGCCTTCACACA
36227714 GTACTACACA
Statistics
Matches: 60, Mismatches: 1, Indels: 13
0.81 0.01 0.18
Matches are distributed among these distances:
41 19 0.32
44 1 0.02
45 1 0.02
48 1 0.02
51 38 0.63
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.27
Consensus pattern (43 bp):
CACGTAGTAGCCTTCACACACTAGTGACCATTATTTACCGATA
Found at i:36227672 original size:51 final size:51
Alignment explanation
Indices: 36227617--36227727 Score: 204
Period size: 51 Copynumber: 2.2 Consensus size: 51
36227607 AGTAGCCTTC
* *
36227617 ACACATGTGACCATTATTTATCGATACACGTAGTAGCCTTCACACAGTACT
1 ACACACGTGACCATTATTTACCGATACACGTAGTAGCCTTCACACAGTACT
36227668 ACACACGTGACCATTATTTACCGATACACGTAGTAGCCTTCACACAGTACT
1 ACACACGTGACCATTATTTACCGATACACGTAGTAGCCTTCACACAGTACT
36227719 ACACACGTG
1 ACACACGTG
36227728 TTCATCGATA
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
51 58 1.00
ACGTcount: A:0.32, C:0.28, G:0.14, T:0.26
Consensus pattern (51 bp):
ACACACGTGACCATTATTTACCGATACACGTAGTAGCCTTCACACAGTACT
Found at i:36230398 original size:18 final size:18
Alignment explanation
Indices: 36230371--36230410 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
36230361 CAGGTGCGTT
* *
36230371 TCCTAGCCCTTTTATGTA
1 TCCTAACCCTTATATGTA
36230389 TCCTAACCCTTATATGTA
1 TCCTAACCCTTATATGTA
36230407 TCCT
1 TCCT
36230411 TTTCCGAGTC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.20, C:0.30, G:0.07, T:0.42
Consensus pattern (18 bp):
TCCTAACCCTTATATGTA
Found at i:36230678 original size:21 final size:21
Alignment explanation
Indices: 36230652--36230698 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
36230642 CAACTCCGAC
* *
36230652 AACCAG-ATGCCCTACCGGAAG
1 AACCAGAAT-CCCCACCGCAAG
36230673 AACCAGAATCCCCACCGCAAG
1 AACCAGAATCCCCACCGCAAG
36230694 AACCA
1 AACCA
36230699 CAACCCCCGC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 21 0.91
22 2 0.09
ACGTcount: A:0.38, C:0.38, G:0.17, T:0.06
Consensus pattern (21 bp):
AACCAGAATCCCCACCGCAAG
Found at i:36230706 original size:21 final size:21
Alignment explanation
Indices: 36230665--36230706 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
36230655 CAGATGCCCT
* * *
36230665 ACCGGAAGAACCAGAATCCCC
1 ACCGCAAGAACCACAACCCCC
36230686 ACCGCAAGAACCACAACCCCC
1 ACCGCAAGAACCACAACCCCC
36230707 GCCGAAAGCT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.38, C:0.45, G:0.14, T:0.02
Consensus pattern (21 bp):
ACCGCAAGAACCACAACCCCC
Found at i:36230996 original size:33 final size:33
Alignment explanation
Indices: 36230956--36231166 Score: 311
Period size: 33 Copynumber: 6.4 Consensus size: 33
36230946 AAGCCCTAAC
*
36230956 AAAAACCCTAGCCCTAACCCTAACCCTTAACTT
1 AAAAACCCTAACCCTAACCCTAACCCTTAACTT
36230989 AAAAACCCTAACCAC-AACCCTAACCCTTAACTT
1 AAAAACCCTAACC-CTAACCCTAACCCTTAACTT
36231022 AAAAACCCTAACCAC-AACCCTAACCCTTAACTT
1 AAAAACCCTAACC-CTAACCCTAACCCTTAACTT
*
36231055 AAAAACCCTAACCATAACCCTAACCCTTAACTT
1 AAAAACCCTAACCCTAACCCTAACCCTTAACTT
* *
36231088 AAAAACCCTAGCCCTAACCCTAACCTCTAAAC-T
1 AAAAACCCTAACCCTAACCCTAACC-CTTAACTT
* * *
36231121 AAAAACCCTGACCCTAATCTTAACCCTTAACTT
1 AAAAACCCTAACCCTAACCCTAACCCTTAACTT
36231154 AAAAACCCTAACC
1 AAAAACCCTAACC
36231167 ATTAAATTAA
Statistics
Matches: 163, Mismatches: 11, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
32 5 0.03
33 152 0.93
34 6 0.04
ACGTcount: A:0.41, C:0.38, G:0.01, T:0.20
Consensus pattern (33 bp):
AAAAACCCTAACCCTAACCCTAACCCTTAACTT
Found at i:36231209 original size:23 final size:22
Alignment explanation
Indices: 36231145--36231282 Score: 99
Period size: 21 Copynumber: 6.4 Consensus size: 22
36231135 TAATCTTAAC
* *
36231145 CCTT-AACTTAAAAACCCT-AA
1 CCTTAAACTTAAAAAACATAAA
* *
36231165 CCATTAAA-TTAAAAACCCTAAA
1 CC-TTAAACTTAAAAAACATAAA
36231187 CCTTAAACTTAAAAAATCATAAA
1 CCTTAAACTTAAAAAA-CATAAA
*
36231210 -CTCTAAACTTAAAAAACCTAAA
1 CCT-TAAACTTAAAAAACATAAA
* * * * *
36231232 CCCTAAAC-CATAAATCATAAC
1 CCTTAAACTTAAAAAACATAAA
36231253 CCTT-AACTTAAAAAACATTAAA
1 CCTTAAACTTAAAAAACA-TAAA
*
36231275 CCCTAAAC
1 CCTTAAAC
36231283 CCTAAACATG
Statistics
Matches: 93, Mismatches: 15, Indels: 17
0.74 0.12 0.14
Matches are distributed among these distances:
20 5 0.05
21 35 0.38
22 31 0.33
23 22 0.24
ACGTcount: A:0.51, C:0.25, G:0.00, T:0.23
Consensus pattern (22 bp):
CCTTAAACTTAAAAAACATAAA
Found at i:36231267 original size:43 final size:44
Alignment explanation
Indices: 36231200--36231311 Score: 140
Period size: 43 Copynumber: 2.5 Consensus size: 44
36231190 TAAACTTAAA
*
36231200 AAATCATAAACTCTAAACTTAAAAAAC-CTAAACCCTAAACCAT
1 AAATCATAAACCCTAAACTTAAAAAACACTAAACCCTAAACCAT
* * *
36231243 AAATCAT-AACCCTTAACTTAAAAAACATTAAACCCTAAACCCT
1 AAATCATAAACCCTAAACTTAAAAAACACTAAACCCTAAACCAT
36231286 AAA-CATGAAAACCCTAAACCTTAAAA
1 AAATCAT--AAACCCTAAA-CTTAAAA
36231312 TTTAAAACCC
Statistics
Matches: 59, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
42 20 0.34
43 24 0.41
45 8 0.14
46 7 0.12
ACGTcount: A:0.53, C:0.26, G:0.01, T:0.21
Consensus pattern (44 bp):
AAATCATAAACCCTAAACTTAAAAAACACTAAACCCTAAACCAT
Found at i:36231401 original size:43 final size:44
Alignment explanation
Indices: 36231341--36231654 Score: 268
Period size: 43 Copynumber: 7.0 Consensus size: 44
36231331 AACCTATCTT
* *
36231341 AACCCT-AACTTAAAAACCCT-AACCATTAAATTAAAAACCCTA
1 AACCCTAAACCTAAAAACCCTAAACCATTAAACTAAAAACCCTA
* * *
36231383 AACCCTAAACCTAAAAACCATAAACCCTTAAGCTAAAAATCGCAACCCTA
1 AACCCTAAACCTAAAAACCCTAAACCATTAAACT--AAA----AACCCTA
* * * *
36231433 AACCCCAAACCTAAAAACCCTACA-CACTAAACTTAAAACCCTA
1 AACCCTAAACCTAAAAACCCTAAACCATTAAACTAAAAACCCTA
* *
36231476 AACCCTTAACCTAAAAACCCTAAACCA-TAAACCTAAAAATCCT-
1 AACCCTAAACCTAAAAACCCTAAACCATTAAA-CTAAAAACCCTA
* *
36231519 AACCCTCAACCTAAAAATTGTACCCTAAACC-TCAAACCTAAAAACCCT-
1 AACCCTAAACCT-AAAA----ACCCTAAACCATTAAA-CTAAAAACCCTA
* ** *
36231567 AACCCTTAACCTAAAAACCCTAAACCCCTAACCTAAAAACCCT-
1 AACCCTAAACCTAAAAACCCTAAACCATTAAACTAAAAACCCTA
* *
36231610 AACCCTCAACCTAAAAACCCTAAACCCTT-AACATAAAAACCCTA
1 AACCCTAAACCTAAAAACCCTAAACCATTAAAC-TAAAAACCCTA
36231654 A
1 A
36231655 CCTAAAGGCT
Statistics
Matches: 226, Mismatches: 27, Indels: 36
0.78 0.09 0.12
Matches are distributed among these distances:
42 8 0.04
43 113 0.50
44 27 0.12
46 3 0.01
47 6 0.03
48 35 0.15
49 6 0.03
50 28 0.12
ACGTcount: A:0.47, C:0.34, G:0.01, T:0.17
Consensus pattern (44 bp):
AACCCTAAACCTAAAAACCCTAAACCATTAAACTAAAAACCCTA
Found at i:36231470 original size:50 final size:50
Alignment explanation
Indices: 36231376--36231470 Score: 129
Period size: 50 Copynumber: 1.9 Consensus size: 50
36231366 TTAAATTAAA
* * *
36231376 AACCCTAAACCCTAAACCTAAAAACCATAAACCCTTAAGCTAAAAATCGC
1 AACCCTAAACCCCAAACCTAAAAACCATAAACACTTAAACTAAAAATCGC
* * *
36231426 AACCCTAAACCCCAAACCTAAAAACCCTACACAC-TAAACTTAAAA
1 AACCCTAAACCCCAAACCTAAAAACCATAAACACTTAAACTAAAAA
36231471 CCCTAAACCC
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
49 9 0.23
50 30 0.77
ACGTcount: A:0.49, C:0.34, G:0.02, T:0.15
Consensus pattern (50 bp):
AACCCTAAACCCCAAACCTAAAAACCATAAACACTTAAACTAAAAATCGC
Found at i:36231475 original size:93 final size:93
Alignment explanation
Indices: 36231351--36231620 Score: 250
Period size: 93 Copynumber: 2.9 Consensus size: 93
36231341 AACCCTAACT
* * * *
36231351 TAAAAACCCTAACCATTAAATTAAAAACCCTAAACCCTAAACCTAAAAACCATAAACCCTTAAGC
1 TAAAAACCCTAACCACTAAATTAAAAACCCTAAACCCTAAACCTAAAAACCATAAACCATAAACC
36231416 TAAAAATCGC-AACCCTAAACCCCAAACC
66 TAAAAATC-CTAACCCTAAACCCCAAACC
* *
36231444 TAAAAACCCT-ACACACTAAACTT-AAAACCCTAAACCCTTAACCTAAAAACCCTAAACCATAAA
1 TAAAAACCCTAAC-CACTAAA-TTAAAAACCCTAAACCCTAAACCTAAAAACCATAAACCATAAA
* * **
36231507 CCTAAAAATCCTAACCCTCAA-CCTAAAAA
64 CCTAAAAATCCTAACCCTAAACCCCAAACC
*** * * * * *
36231536 T-TGTACCCTAAAC-CTCAAACCTAAAAACCCT-AACCCTTAACCTAAAAACCCTAAACCCCT-A
1 TAAAAACCCTAACCACT-AAA-TTAAAAACCCTAAACCCTAAACCTAAAAACCATAAA-CCATAA
* *
36231597 ACCTAAAAACCCTAACCCTCAACC
63 ACCTAAAAATCCTAACCCTAAACC
36231621 TAAAAACCCT
Statistics
Matches: 152, Mismatches: 17, Indels: 17
0.82 0.09 0.09
Matches are distributed among these distances:
90 2 0.01
91 57 0.38
92 22 0.14
93 69 0.45
94 2 0.01
ACGTcount: A:0.47, C:0.35, G:0.01, T:0.17
Consensus pattern (93 bp):
TAAAAACCCTAACCACTAAATTAAAAACCCTAAACCCTAAACCTAAAAACCATAAACCATAAACC
TAAAAATCCTAACCCTAAACCCCAAACC
Found at i:36231480 original size:50 final size:51
Alignment explanation
Indices: 36231375--36231486 Score: 122
Period size: 50 Copynumber: 2.2 Consensus size: 51
36231365 ATTAAATTAA
* * * *
36231375 AAACCCTAAACCCTAAACCTAAAAACCATAAACCCTTAAGCTAAAAATCGC
1 AAACCCTAAACCCCAAACCTAAAAACCATAAACACTTAAACTAAAAATCCC
* * *
36231426 -AACCCTAAACCCCAAACCTAAAAACCCTACACAC-TAAACTTAAAA-CCC
1 AAACCCTAAACCCCAAACCTAAAAACCATAAACACTTAAACTAAAAATCCC
*
36231474 TAAACCCTTAACC
1 -AAACCCTAAACC
36231487 TAAAAACCCT
Statistics
Matches: 51, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
48 2 0.04
49 9 0.18
50 40 0.78
ACGTcount: A:0.47, C:0.36, G:0.02, T:0.15
Consensus pattern (51 bp):
AAACCCTAAACCCCAAACCTAAAAACCATAAACACTTAAACTAAAAATCCC
Found at i:36231535 original size:21 final size:21
Alignment explanation
Indices: 36231340--36231656 Score: 228
Period size: 22 Copynumber: 14.2 Consensus size: 21
36231330 AAACCTATCT
*
36231340 TAACCCT-AACTTAAAAACCC
1 TAACCCTCAACCTAAAAACCC
* * **
36231360 TAACCATTAAATTAAAAACCC
1 TAACCCTCAACCTAAAAACCC
* *
36231381 TAAACCCTAAACCTAAAAACCA
1 T-AACCCTCAACCTAAAAACCC
* *
36231403 TAAACCCTTAAGCTAAAAATCGCAACCC
1 T-AACCCTCAACCT--AAA----AACCC
36231431 TAAACCC-CAAACCTAAAAACCC
1 T-AACCCTC-AACCTAAAAACCC
* * *
36231453 TACACACT-AAACTTAAAACCC
1 TA-ACCCTCAACCTAAAAACCC
*
36231474 TAAACCCTTAACCTAAAAACCC
1 T-AACCCTCAACCTAAAAACCC
* * *
36231496 TAAACCATAAACCTAAAAATCC
1 T-AACCCTCAACCTAAAAACCC
36231518 TAACCCTCAACCTAAAAATTGTACCC
1 TAACCCTCAACCT-AAAA----ACCC
*
36231544 TAAACCTCAAACCTAAAAACCC
1 TAACCCTC-AACCTAAAAACCC
*
36231566 TAACCCTTAACCTAAAAACCC
1 TAACCCTCAACCTAAAAACCC
36231587 TAAACCC-CTAACCTAAAAACCC
1 T-AACCCTC-AACCTAAAAACCC
36231609 TAACCCTCAACCTAAAAACCC
1 TAACCCTCAACCTAAAAACCC
* *
36231630 TAAACCCTTAACATAAAAACCC
1 T-AACCCTCAACCTAAAAACCC
36231652 TAACC
1 TAACC
36231657 TAAAGGCTTA
Statistics
Matches: 244, Mismatches: 30, Indels: 45
0.76 0.09 0.14
Matches are distributed among these distances:
20 6 0.02
21 77 0.32
22 121 0.50
24 3 0.01
26 17 0.07
27 5 0.02
28 15 0.06
ACGTcount: A:0.47, C:0.35, G:0.01, T:0.17
Consensus pattern (21 bp):
TAACCCTCAACCTAAAAACCC
Found at i:36231543 original size:20 final size:21
Alignment explanation
Indices: 36231136--36231660 Score: 115
Period size: 22 Copynumber: 23.7 Consensus size: 21
36231126 CCCTGACCCT
* * *
36231136 AATCTTAACCCTTAACTTAAA
1 AATCCTAACCCTAAACCTAAA
* * *
36231157 AACCCTAACCATTAAA-TTAAA
1 AATCCTAACC-CTAAACCTAAA
* * *
36231178 AACCCTAAACCTTAAACTTAAAA
1 AATCCT-AACCCTAAACCT-AAA
* * *
36231201 AATCATAAACTCTAAACTTAAA
1 AATCCT-AACCCTAAACCTAAA
* *
36231223 AAACCTAAACCCTAAACC-ATA
1 AATCCT-AACCCTAAACCTAAA
* * *
36231244 AATCATAACCCTTAACTTAAA
1 AATCCTAACCCTAAACCTAAA
* *
36231265 AAACATTAAACCCTAAACCCTAAA
1 AATC-CT-AACCCTAAA-CCTAAA
* *** *
36231289 CATGAAAACCCTAAACCTTAA
1 AATCCTAACCCTAAACCTAAA
*
36231310 AAT-TTAAAACCCTAAACTCTAAA
1 AATCCT--AACCCTAAAC-CTAAA
* * *
36231333 CCTATCTTAACCCT-AACTTAAA
1 --AATCCTAACCCTAAACCTAAA
* * *
36231355 AACCCTAACCATTAAA-TTAAA
1 AATCCTAACC-CTAAACCTAAA
*
36231376 AACCCTAAACCCTAAACCTAAA
1 AATCCT-AACCCTAAACCTAAA
* *
36231398 AA-CCATAAACCCTTAAGCTAAA
1 AATCC-T-AACCCTAAACCTAAA
**
36231420 AATCGC-AACCCTAAACC-CCA
1 AATC-CTAACCCTAAACCTAAA
*
36231440 AA-CCTAAAAACCCTACACACTAAACTTAA
1 AATCCT---AACCCTA-A-AC----CTAAA
* *
36231469 AACCCTAAACCCTTAACCTAAA
1 AATCCT-AACCCTAAACCTAAA
* *
36231491 AACCCTAAACCATAAACCTAAA
1 AATCCT-AACCCTAAACCTAAA
*
36231513 AATCCTAACCCTCAACCTAAA
1 AATCCTAACCCTAAACCTAAA
** *
36231534 AATTGT-ACCCTAAACCT-CA
1 AATCCTAACCCTAAACCTAAA
36231553 AA-CCTAAAAACCCTAACCCTTAACCTAAA
1 AATCCT---AACCCT-A-----AACCTAAA
*
36231582 AACCCTAAACCCCT-AACCTAAA
1 AATCCT-AA-CCCTAAACCTAAA
* *
36231604 AACCCTAACCCTCAACCTAAA
1 AATCCTAACCCTAAACCTAAA
* * *
36231625 AACCCTAAACCCTTAACATAAA
1 AATCCT-AACCCTAAACCTAAA
*
36231647 AACCCTAA-CCTAAA
1 AATCCTAACCCTAAA
36231661 GGCTTAAAAA
Statistics
Matches: 391, Mismatches: 65, Indels: 97
0.71 0.12 0.18
Matches are distributed among these distances:
18 2 0.01
19 4 0.01
20 38 0.10
21 104 0.27
22 153 0.39
23 36 0.09
24 15 0.04
25 2 0.01
26 4 0.01
27 1 0.00
28 16 0.04
29 10 0.03
30 6 0.02
ACGTcount: A:0.48, C:0.31, G:0.01, T:0.20
Consensus pattern (21 bp):
AATCCTAACCCTAAACCTAAA
Found at i:36234907 original size:125 final size:125
Alignment explanation
Indices: 36234664--36234999 Score: 458
Period size: 125 Copynumber: 2.7 Consensus size: 125
36234654 CAAACATGCT
* *
36234664 ACTGTAGCAAAAGCGCGTCCACGTGGGCACGATTTCACAAATTCTTCTCATAAAGCATCCTGCTA
1 ACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCAGAAAGCATCCTGCTA
* * *
36234729 GAAGCGATTTTATACTATTTGCTCAGAAACATCAACTCGAAATTATTTCTTTCAGGACCA
66 GAAGCGATTTTAAACTATTTACTCAGAAACATCAACTCGAAATAATTTCTTTCAGGACCA
* * * ** *
36234789 ACTGTAGCAGAAGCGCGTCCACGAGGGCGCGATTTCAGAAATTCTTCTCAGATCGCATCCTGCTT
1 ACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCAGAAAGCATCCTGCTA
* ** *
36234854 GAAGCGTTTTTTAAACTATTTACTCAGAAATGTCAACTCGAAATAATTT-TTTCAGGACCT
66 GAAGCG-ATTTTAAACTATTTACTCAGAAACATCAACTCGAAATAATTTCTTTCAGGACCA
* * * **
36234914 ACTGTAGCAAAACCGCCTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTAATA
1 ACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCAGAAAGCATCCTGCTA
* *
36234979 GAAGCAATTTTATACTATTTA
66 GAAGCGATTTTAAACTATTTA
36235000 TAATCCATAA
Statistics
Matches: 181, Mismatches: 29, Indels: 3
0.85 0.14 0.01
Matches are distributed among these distances:
124 13 0.07
125 132 0.73
126 36 0.20
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.29
Consensus pattern (125 bp):
ACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCAGAAAGCATCCTGCTA
GAAGCGATTTTAAACTATTTACTCAGAAACATCAACTCGAAATAATTTCTTTCAGGACCA
Found at i:36236694 original size:32 final size:32
Alignment explanation
Indices: 36236658--36236724 Score: 125
Period size: 32 Copynumber: 2.1 Consensus size: 32
36236648 GGTTCTTTAA
36236658 AAATATTTCATAAAAGTCGTTCTCAATTAAAC
1 AAATATTTCATAAAAGTCGTTCTCAATTAAAC
*
36236690 AAATATTTCATAAAAGTCGTTGTCAATTAAAC
1 AAATATTTCATAAAAGTCGTTCTCAATTAAAC
36236722 AAA
1 AAA
36236725 CATGCATTTG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.46, C:0.13, G:0.07, T:0.33
Consensus pattern (32 bp):
AAATATTTCATAAAAGTCGTTCTCAATTAAAC
Found at i:36240742 original size:96 final size:96
Alignment explanation
Indices: 36240578--36240769 Score: 375
Period size: 96 Copynumber: 2.0 Consensus size: 96
36240568 ACCAAGATTT
36240578 CAGGGACATTCATCTATAAGTTGTGCCATAATCAAATTATGTTTTTTTGCATTAAAAGAACCATT
1 CAGGGACATTCATCTATAAGTTGTGCCATAATCAAATTATGTTTTTTTGCATTAAAAGAACCATT
*
36240643 TCCATCGACAAATAAGCTCCTAGAATTAGCA
66 TCCATAGACAAATAAGCTCCTAGAATTAGCA
36240674 CAGGGACATTCATCTATAAGTTGTGCCATAATCAAATTATGTTTTTTTGCATTAAAAGAACCATT
1 CAGGGACATTCATCTATAAGTTGTGCCATAATCAAATTATGTTTTTTTGCATTAAAAGAACCATT
36240739 TCCATAGACAAATAAGCTCCTAGAATTAGCA
66 TCCATAGACAAATAAGCTCCTAGAATTAGCA
36240770 GTCTTTTCAT
Statistics
Matches: 95, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
96 95 1.00
ACGTcount: A:0.36, C:0.18, G:0.14, T:0.32
Consensus pattern (96 bp):
CAGGGACATTCATCTATAAGTTGTGCCATAATCAAATTATGTTTTTTTGCATTAAAAGAACCATT
TCCATAGACAAATAAGCTCCTAGAATTAGCA
Found at i:36242360 original size:2 final size:2
Alignment explanation
Indices: 36242353--36242380 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
36242343 ATATACATGC
36242353 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
36242381 TTACCGGGTA
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):
AT
Found at i:36243232 original size:9 final size:10
Alignment explanation
Indices: 36243207--36243240 Score: 54
Period size: 9 Copynumber: 3.6 Consensus size: 10
36243197 ATAAATAATT
36243207 TAAAAAT-TA
1 TAAAAATATA
36243216 TAAAAATAT-
1 TAAAAATATA
36243225 TAAAAATATA
1 TAAAAATATA
36243235 TAAAAA
1 TAAAAA
36243241 GTTCATGAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 16 0.70
10 7 0.30
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (10 bp):
TAAAAATATA
Found at i:36243236 original size:19 final size:17
Alignment explanation
Indices: 36243197--36243240 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 17
36243187 TACTATATCA
36243197 ATAAATAATTTAAAAATT
1 ATAAA-AATTTAAAAATT
36243215 ATAAAAATATTAAAAATAT
1 ATAAAAAT-TTAAAAAT-T
36243234 ATAAAAA
1 ATAAAAA
36243241 GTTCATGAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
17 3 0.12
18 13 0.54
19 8 0.33
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (17 bp):
ATAAAAATTTAAAAATT
Found at i:36244695 original size:16 final size:16
Alignment explanation
Indices: 36244664--36244703 Score: 57
Period size: 17 Copynumber: 2.6 Consensus size: 16
36244654 CGATTTGCTT
36244664 CTTTTTTTTCTTTTTG
1 CTTTTTTTTCTTTTTG
36244680 CCTTTTTTTTC-TTTTG
1 -CTTTTTTTTCTTTTTG
36244696 -TTTTTTTT
1 CTTTTTTTT
36244704 ATTTATTTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 8 0.35
16 5 0.22
17 10 0.43
ACGTcount: A:0.00, C:0.12, G:0.05, T:0.82
Consensus pattern (16 bp):
CTTTTTTTTCTTTTTG
Found at i:36245807 original size:42 final size:42
Alignment explanation
Indices: 36245582--36245786 Score: 347
Period size: 43 Copynumber: 4.8 Consensus size: 42
36245572 GTTTACAAAC
36245582 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
*
36245624 AAAAACGCCGCTAAAGACAATGTTCTTTAGCGGCGCTTAGAAA
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAG-AA
* *
36245667 AAAAACGCCTCTAAAGACCATGTTCTTTAGCGGCGCTTAGGAG
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTA-GAA
36245710 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
* *
36245752 AAAAACGCCGCTAAAGATCATGTTCTTTAGTGGCG
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCG
36245787 TTTATTATTA
Statistics
Matches: 153, Mismatches: 8, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
42 74 0.48
43 78 0.51
44 1 0.01
ACGTcount: A:0.33, C:0.22, G:0.22, T:0.22
Consensus pattern (42 bp):
AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
Found at i:36245951 original size:57 final size:57
Alignment explanation
Indices: 36245854--36245966 Score: 219
Period size: 56 Copynumber: 2.0 Consensus size: 57
36245844 TACAAAAACG
36245854 CCACTATATTTGGGATTTTTTATATTAAAATTTTCATTTTTTCAGCCCTCCTGTAGC
1 CCACTATATTTGGGATTTTTTATATTAAAATTTTCATTTTTTCAGCCCTCCTGTAGC
36245911 CCACTATA-TTGGGATTTTTTATATTAAAATTTTCATTTTTTCAGCCCTCCTGTAGC
1 CCACTATATTTGGGATTTTTTATATTAAAATTTTCATTTTTTCAGCCCTCCTGTAGC
36245967 AACAAATCAA
Statistics
Matches: 56, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
56 48 0.86
57 8 0.14
ACGTcount: A:0.23, C:0.19, G:0.11, T:0.47
Consensus pattern (57 bp):
CCACTATATTTGGGATTTTTTATATTAAAATTTTCATTTTTTCAGCCCTCCTGTAGC
Found at i:36246263 original size:21 final size:21
Alignment explanation
Indices: 36246216--36246263 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
36246206 TTGCTCTGCT
* *
36246216 CTGCTTCTCTCACTGCAGCCT
1 CTGCTTCCCTCACTGCAGCCG
* *
36246237 CCGCTTCCCTCGCTGCAGCCG
1 CTGCTTCCCTCACTGCAGCCG
36246258 CTGCTT
1 CTGCTT
36246264 TCCNNNNNNN
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.06, C:0.46, G:0.19, T:0.29
Consensus pattern (21 bp):
CTGCTTCCCTCACTGCAGCCG
Found at i:36256380 original size:43 final size:42
Alignment explanation
Indices: 36256279--36256483 Score: 315
Period size: 42 Copynumber: 4.8 Consensus size: 42
36256269 TAATAATAAA
* *
36256279 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAA
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTCTAAG
*
36256321 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTCTCCTAAG
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTT-TTCTAAG
*
36256364 CGCCGCTAAAGAACATGGTCTTT-GAAGGCGTTTTTTTTCTAAG
1 CGCCGCTAAAGAACATGGTCTTTAG-CGGCG-TTTTTTTCTAAG
*
36256407 CGCCTG-TAAAGAACATTGTCTTTAGCGGCGTTTTTTTCTAAG
1 CGCC-GCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTCTAAG
36256449 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTT
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTT
36256484 GTTTGTAAAC
Statistics
Matches: 149, Mismatches: 8, Indels: 12
0.88 0.05 0.07
Matches are distributed among these distances:
41 1 0.01
42 79 0.53
43 62 0.42
44 7 0.05
ACGTcount: A:0.22, C:0.21, G:0.22, T:0.34
Consensus pattern (42 bp):
CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTCTAAG
Found at i:36256398 original size:85 final size:85
Alignment explanation
Indices: 36256279--36256495 Score: 314
Period size: 85 Copynumber: 2.5 Consensus size: 85
36256269 TAATAATAAA
* *
36256279 CGCCGCTAAAGAACATGATCTTTAGCGGCG-TTTTTTTCTAAACGCC-GCTAAAGAACATGGTCT
1 CGCCGCTAAAGAACATGGTCTTTAGAGGCGTTTTTTTTCTAAACGCCTG-TAAAGAACATGGTCT
36256342 TTAGCGGCGTTTTTCTCCTAAG
65 TTAGCGGCGTTTTT-TCCTAAG
* *
36256364 CGCCGCTAAAGAACATGGTCTTT-GAAGGCGTTTTTTTTCTAAGCGCCTGTAAAGAACATTGTCT
1 CGCCGCTAAAGAACATGGTCTTTAG-AGGCGTTTTTTTTCTAAACGCCTGTAAAGAACATGGTCT
*
36256428 TTAGCGGCGTTTTTTTCTAAG
65 TTAGCGGCGTTTTTTCCTAAG
* *
36256449 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTGTTTGTAAACGC
1 CGCCGCTAAAGAACATGGTCTTTAGAGGCGTTTTT-TTTCTAAACGC
36256496 TGCAGACGTT
Statistics
Matches: 119, Mismatches: 8, Indels: 9
0.88 0.06 0.07
Matches are distributed among these distances:
84 1 0.01
85 64 0.54
86 53 0.45
87 1 0.01
ACGTcount: A:0.23, C:0.21, G:0.23, T:0.34
Consensus pattern (85 bp):
CGCCGCTAAAGAACATGGTCTTTAGAGGCGTTTTTTTTCTAAACGCCTGTAAAGAACATGGTCTT
TAGCGGCGTTTTTTCCTAAG
Found at i:36260056 original size:174 final size:175
Alignment explanation
Indices: 36259755--36260103 Score: 691
Period size: 174 Copynumber: 2.0 Consensus size: 175
36259745 TATTTTTTTA
36259755 AAATTTACCGAAAAGGGCCCGGTATTTTATTATTTACCGGAATGAGCCATTTTCCTCAAAATCGC
1 AAATTTACCGAAAAGGGCCCGGTATTTTATTATTTACCGGAATGAGCCATTTTCCTCAAAATCGC
36259820 GTCCACGTCAGCGCGATGTCAGGGGACGTGTCAGCAAATCATGTCCACGTCAGCGCGCTTTGCTT
66 GTCCACGTCAGCGCGATGTCAGGGGACGTGTCAGCAAATCATGTCCACGTCAGCGCGCTTTGCTT
36259885 ATGTGGACACAAATCGCGCCTACGGGGACGCGATTTGATGACACG
131 ATGTGGACACAAATCGCGCCTACGGGGACGCGATTTGATGACACG
36259930 AAATTTACCG-AAAGGGCCCGGTATTTTATTATTTACCGGAATGAGCCATTTTCCTCAAAATCGC
1 AAATTTACCGAAAAGGGCCCGGTATTTTATTATTTACCGGAATGAGCCATTTTCCTCAAAATCGC
36259994 GTCCACGTCAGCGCGATGTCAGGGGACGTGTCAGCAAATCATGTCCACGTCAGCGCGCTTTGCTT
66 GTCCACGTCAGCGCGATGTCAGGGGACGTGTCAGCAAATCATGTCCACGTCAGCGCGCTTTGCTT
36260059 ATGTGGACACAAATCGCGCCTACGGGGACGCGATTTGATGACACG
131 ATGTGGACACAAATCGCGCCTACGGGGACGCGATTTGATGACACG
36260104 TCCCCTGACA
Statistics
Matches: 174, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
174 164 0.94
175 10 0.06
ACGTcount: A:0.25, C:0.25, G:0.25, T:0.25
Consensus pattern (175 bp):
AAATTTACCGAAAAGGGCCCGGTATTTTATTATTTACCGGAATGAGCCATTTTCCTCAAAATCGC
GTCCACGTCAGCGCGATGTCAGGGGACGTGTCAGCAAATCATGTCCACGTCAGCGCGCTTTGCTT
ATGTGGACACAAATCGCGCCTACGGGGACGCGATTTGATGACACG
Found at i:36264267 original size:14 final size:14
Alignment explanation
Indices: 36264248--36264278 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
36264238 TCAAGTTGAG
*
36264248 TTGAATTTTAAAAT
1 TTGAATATTAAAAT
36264262 TTGAATATTAAAAT
1 TTGAATATTAAAAT
36264276 TTG
1 TTG
36264279 GATAACTCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.42, C:0.00, G:0.10, T:0.48
Consensus pattern (14 bp):
TTGAATATTAAAAT
Found at i:36265385 original size:16 final size:18
Alignment explanation
Indices: 36265359--36265393 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
36265349 TAAAATTGGG
36265359 TTGAGAAAATT-ATTTAA
1 TTGAGAAAATTAATTTAA
36265376 TTGA-AAAATTAATTTAA
1 TTGAGAAAATTAATTTAA
36265393 T
1 T
36265394 AAATAATATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (18 bp):
TTGAGAAAATTAATTTAA
Found at i:36266357 original size:10 final size:9
Alignment explanation
Indices: 36266328--36266366 Score: 62
Period size: 9 Copynumber: 4.3 Consensus size: 9
36266318 TCAAAGTCTT
36266328 TAATTTTTA
1 TAATTTTTA
36266337 T-ATTTTTA
1 TAATTTTTA
36266345 TAATTTTTAA
1 TAATTTTT-A
36266355 TAATTTTTA
1 TAATTTTTA
36266364 TAA
1 TAA
36266367 GTTTATATCA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
8 8 0.29
9 11 0.39
10 9 0.32
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (9 bp):
TAATTTTTA
Found at i:36273628 original size:4 final size:4
Alignment explanation
Indices: 36273619--36273647 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
36273609 NNNNNNNGTT
36273619 TTAA TTAA TTAA TTAA TTAA TTAA TTAA T
1 TTAA TTAA TTAA TTAA TTAA TTAA TTAA T
36273648 GACATATACA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (4 bp):
TTAA
Found at i:36275057 original size:63 final size:63
Alignment explanation
Indices: 36274990--36275182 Score: 146
Period size: 63 Copynumber: 3.1 Consensus size: 63
36274980 ATGTATTTAA
36274990 AATTTTAATAATTAATAAATGATGGTAAAATATTTCAGAAAGTTATAAAATTTATGTGATAAT
1 AATTTTAATAATTAATAAATGATGGTAAAATATTTCAGAAAGTTATAAAATTTATGTGATAAT
*** ** * * * * * * * * ** **
36275053 AA-TTTAACT-ATCGGTTCATCACT--TATAGTTTTTGATAAA-ATACAATTGGTTTTATGTTTT
1 AATTTTAA-TAATTAATAAATGA-TGGTAAAATATTTCAGAAAGTTATAA---AATTTATGTGAT
36275113 AA-
61 AAT
36275115 AATTTTAATAATTAATAAATGATGGTAAAATATTTCAGAAAGTTATAAAATTTATGTGATAAT
1 AATTTTAATAATTAATAAATGATGGTAAAATATTTCAGAAAGTTATAAAATTTATGTGATAAT
36275178 AATTT
1 AATTT
36275183 AACTATCGGT
Statistics
Matches: 85, Mismatches: 34, Indels: 22
0.60 0.24 0.16
Matches are distributed among these distances:
60 4 0.05
61 11 0.13
62 25 0.29
63 30 0.35
64 11 0.13
65 4 0.05
ACGTcount: A:0.42, C:0.04, G:0.11, T:0.42
Consensus pattern (63 bp):
AATTTTAATAATTAATAAATGATGGTAAAATATTTCAGAAAGTTATAAAATTTATGTGATAAT
Found at i:36275121 original size:125 final size:126
Alignment explanation
Indices: 36274973--36275224 Score: 497
Period size: 125 Copynumber: 2.0 Consensus size: 126
36274963 ATATATTTAA
36274973 TGGTTTTATGTATTTAAAATTTTAATAATTAATAAATGATGGTAAAATATTTCAGAAAGTTATAA
1 TGGTTTTATGTATTTAAAATTTTAATAATTAATAAATGATGGTAAAATATTTCAGAAAGTTATAA
36275038 AATTTATGTGATAATAATTTAACTATCGGTTCATCACTTATAGTTTTTGATAAAATACAAT
66 AATTTATGTGATAATAATTTAACTATCGGTTCATCACTTATAGTTTTTGATAAAATACAAT
36275099 TGGTTTTATGT-TTTAAAATTTTAATAATTAATAAATGATGGTAAAATATTTCAGAAAGTTATAA
1 TGGTTTTATGTATTTAAAATTTTAATAATTAATAAATGATGGTAAAATATTTCAGAAAGTTATAA
36275163 AATTTATGTGATAATAATTTAACTATCGGTTCATCACTTATAGTTTTTGATAAAATACAAT
66 AATTTATGTGATAATAATTTAACTATCGGTTCATCACTTATAGTTTTTGATAAAATACAAT
36275224 T
1 T
36275225 ACTATTTTAT
Statistics
Matches: 126, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
125 115 0.91
126 11 0.09
ACGTcount: A:0.40, C:0.06, G:0.11, T:0.43
Consensus pattern (126 bp):
TGGTTTTATGTATTTAAAATTTTAATAATTAATAAATGATGGTAAAATATTTCAGAAAGTTATAA
AATTTATGTGATAATAATTTAACTATCGGTTCATCACTTATAGTTTTTGATAAAATACAAT
Found at i:36275184 original size:62 final size:62
Alignment explanation
Indices: 36274993--36275184 Score: 142
Period size: 62 Copynumber: 3.1 Consensus size: 62
36274983 TATTTAAAAT
36274993 TTTAATAATTAATAAATGATGGTAAAATATTTCAGAAAGTTATAAAATTTATGTGATAATAA
1 TTTAATAATTAATAAATGATGGTAAAATATTTCAGAAAGTTATAAAATTTATGTGATAATAA
*** ** * * * * * * * * ** **
36275055 TTTAACT-ATCGGTTCATCACT--TATAGTTTTTGATAAA-ATACAATTGGTTTTATGTTTTAA-
1 TTTAA-TAATTAATAAATGA-TGGTAAAATATTTCAGAAAGTTATAA---AATTTATGTGATAAT
36275115 AA
61 AA
36275117 TTTTAATAATTAATAAATGATGGTAAAATATTTCAGAAAGTTATAAAATTTATGTGATAATAA
1 -TTTAATAATTAATAAATGATGGTAAAATATTTCAGAAAGTTATAAAATTTATGTGATAATAA
36275180 TTTAA
1 TTTAA
36275185 CTATCGGTTC
Statistics
Matches: 85, Mismatches: 34, Indels: 22
0.60 0.24 0.16
Matches are distributed among these distances:
60 4 0.05
61 11 0.13
62 30 0.35
63 25 0.29
64 11 0.13
65 4 0.05
ACGTcount: A:0.43, C:0.04, G:0.11, T:0.42
Consensus pattern (62 bp):
TTTAATAATTAATAAATGATGGTAAAATATTTCAGAAAGTTATAAAATTTATGTGATAATAA
Found at i:36285234 original size:23 final size:22
Alignment explanation
Indices: 36285194--36285236 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
36285184 TTCAGGTATT
**
36285194 TTTTTATTCTTCTTTTTTTCCC
1 TTTTTATTCTTCCATTTTTCCC
36285216 TTTTTATATCTTCCATTTTTC
1 TTTTTAT-TCTTCCATTTTTC
36285237 TTCTTTATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.09, C:0.21, G:0.00, T:0.70
Consensus pattern (22 bp):
TTTTTATTCTTCCATTTTTCCC
Found at i:36286432 original size:30 final size:30
Alignment explanation
Indices: 36286398--36286647 Score: 374
Period size: 30 Copynumber: 8.3 Consensus size: 30
36286388 GCATATGTTT
* *
36286398 TATACATTACCGAATTGATTCATATTTGGA
1 TATACATTGCCGAATTGATTCGTATTTGGA
**
36286428 TATACATTGTTGAATTGATTCGTATTTGGA
1 TATACATTGCCGAATTGATTCGTATTTGGA
36286458 TATACATTGCCGAATTGATTCGTATTTGGA
1 TATACATTGCCGAATTGATTCGTATTTGGA
**
36286488 TATACATTGTTGAATTGATTCGTATTTGGA
1 TATACATTGCCGAATTGATTCGTATTTGGA
* * *
36286518 TATACATTGCCGAATTGATTTGTATATAGA
1 TATACATTGCCGAATTGATTCGTATTTGGA
*
36286548 TATACATTGCCGAATTGATTCGTATTTGTA
1 TATACATTGCCGAATTGATTCGTATTTGGA
* * *
36286578 TATACATTGCCGAATTGATTTGTATATAGA
1 TATACATTGCCGAATTGATTCGTATTTGGA
*
36286608 TATACATTGCCGAATTGATTCGTATTTGTA
1 TATACATTGCCGAATTGATTCGTATTTGGA
36286638 TATACATTGC
1 TATACATTGC
36286648 NNNNNNNNNN
Statistics
Matches: 195, Mismatches: 25, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 195 1.00
ACGTcount: A:0.29, C:0.11, G:0.17, T:0.42
Consensus pattern (30 bp):
TATACATTGCCGAATTGATTCGTATTTGGA
Found at i:36286471 original size:60 final size:60
Alignment explanation
Indices: 36286398--36286960 Score: 380
Period size: 60 Copynumber: 9.6 Consensus size: 60
36286388 GCATATGTTT
* * * * **
36286398 TATACATTACCGAATTGATTCATATTTGGATATACATTGTTGAATTGATTCGTATTTGGA
1 TATACATTGCCGAATTGATTCGTATATAGATATACATTGCCGAATTGATTCGTATTTGGA
* * **
36286458 TATACATTGCCGAATTGATTCGTATTTGGATATACATTGTTGAATTGATTCGTATTTGGA
1 TATACATTGCCGAATTGATTCGTATATAGATATACATTGCCGAATTGATTCGTATTTGGA
* *
36286518 TATACATTGCCGAATTGATTTGTATATAGATATACATTGCCGAATTGATTCGTATTTGTA
1 TATACATTGCCGAATTGATTCGTATATAGATATACATTGCCGAATTGATTCGTATTTGGA
* *
36286578 TATACATTGCCGAATTGATTTGTATATAGATATACATTGCCGAATTGATTCGTATTTGTA
1 TATACATTGCCGAATTGATTCGTATATAGATATACATTGCCGAATTGATTCGTATTTGGA
***************************** *
36286638 TATACATTG-C-NNNNNNNNNNNNNNNNNNNNNNNNNNNNNG---T-A----T-TTGGGA
1 TATACATTGCCGAATTGATTCGTATATAGATATACATTGCCGAATTGATTCGTATTTGGA
* * * *
36286687 TATACA-TGCCGAATTGATTTGTATATAGATATACATTGCCGAATTTATTTGTATTTAGA
1 TATACATTGCCGAATTGATTCGTATATAGATATACATTGCCGAATTGATTCGTATTTGGA
* * * * * * * *
36286746 TATACATTGTCAAATTGATTCGTATATGGATGTACATTGCCGAACTAATTTGTATATGGA
1 TATACATTGCCGAATTGATTCGTATATAGATATACATTGCCGAATTGATTCGTATTTGGA
* * * * ** * * *
36286806 AATACATTACCGAATTGATTCGTATATGGATATACATTACTAAATTGATTTGTATATAGA
1 TATACATTGCCGAATTGATTCGTATATAGATATACATTGCCGAATTGATTCGTATTTGGA
* * * * *
36286866 TATACATTGTCGAATTGATTTGTATATGGATATACATTGCCGAATTTATTTGTATTTGGA
1 TATACATTGCCGAATTGATTCGTATATAGATATACATTGCCGAATTGATTCGTATTTGGA
* *
36286926 TATACATTGCCAAATTGATTTGTATAT-G-TATACAT
1 TATACATTGCCGAATTGATTCGTATATAGATATACAT
36286961 ATATATTGCC
Statistics
Matches: 389, Mismatches: 102, Indels: 26
0.75 0.20 0.05
Matches are distributed among these distances:
48 2 0.01
49 11 0.03
50 2 0.01
53 1 0.00
54 2 0.01
55 1 0.00
58 9 0.02
59 12 0.03
60 349 0.90
ACGTcount: A:0.29, C:0.10, G:0.16, T:0.40
Consensus pattern (60 bp):
TATACATTGCCGAATTGATTCGTATATAGATATACATTGCCGAATTGATTCGTATTTGGA
Done.