Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 313 of 444
Found at i:90262540 original size:14 final size:13
Alignment explanation
Indices: 90262510--90262558 Score: 57
Period size: 14 Copynumber: 3.8 Consensus size: 13
90262500 TACCTTTTTT
90262510 TTTCTT-TT-TTC
1 TTTCTTCTTCTTC
90262521 TTTCTTCTTCTTC
1 TTTCTTCTTCTTC
*
90262534 TTCTCTTCTTCTCC
1 TT-TCTTCTTCTTC
90262548 TTTCTCTCTTC
1 TTTCT-TCTTC
90262559 CGTGTGAGGA
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
11 6 0.18
12 2 0.06
13 8 0.24
14 17 0.52
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (13 bp):
TTTCTTCTTCTTC
Found at i:90263336 original size:23 final size:22
Alignment explanation
Indices: 90263310--90263366 Score: 73
Period size: 23 Copynumber: 2.6 Consensus size: 22
90263300 AATCTCTCAT
90263310 GTTTGAATTATAATTATCA-AGAA
1 GTTTGAATTATAA-TATCACA-AA
90263333 GTTTGAATTATAATATCACAAA
1 GTTTGAATTATAATATCACAAA
*
90263355 -TTTAAATTATAA
1 GTTTGAATTATAA
90263367 GTAATCACGA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
21 11 0.34
22 7 0.22
23 14 0.44
ACGTcount: A:0.46, C:0.05, G:0.09, T:0.40
Consensus pattern (22 bp):
GTTTGAATTATAATATCACAAA
Found at i:90269401 original size:40 final size:40
Alignment explanation
Indices: 90269355--90269518 Score: 222
Period size: 40 Copynumber: 4.1 Consensus size: 40
90269345 CGGGATTTAA
90269355 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGC
*
90269395 CCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGC
* * * * *
90269435 CCGGATATAATC-GCTAGCATAAATGCCTTCGGGACATAGC
1 CCGGATATAA-CAACTCGCACAAATGCCTTCGGGTCTTAGC
* * * *
90269475 CCGGATATAGCAACTCGCACGAATGCCTTCGGATCTTAGT
1 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGC
90269515 CCGG
1 CCGG
90269519 TTATCATCCG
Statistics
Matches: 106, Mismatches: 16, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
39 1 0.01
40 104 0.98
41 1 0.01
ACGTcount: A:0.26, C:0.29, G:0.23, T:0.23
Consensus pattern (40 bp):
CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGC
Found at i:90278710 original size:33 final size:30
Alignment explanation
Indices: 90278650--90278719 Score: 86
Period size: 33 Copynumber: 2.2 Consensus size: 30
90278640 CTAAGAAAAT
*
90278650 ATATATATATATATAAATAATAGTATTAGAA
1 ATATATATATATATAAATAATAATATTA-AA
* *
90278681 ATCATATAGTATATATAACTGATAATATTAAA
1 AT-ATATA-TATATATAAATAATAATATTAAA
90278713 ATATATA
1 ATATATA
90278720 CATAATATTA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
31 7 0.21
32 9 0.26
33 18 0.53
ACGTcount: A:0.53, C:0.03, G:0.06, T:0.39
Consensus pattern (30 bp):
ATATATATATATATAAATAATAATATTAAA
Found at i:90278942 original size:3 final size:3
Alignment explanation
Indices: 90278934--90278981 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
90278924 ACAAGGATAT
90278934 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
90278982 TTGAAACACA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:90279097 original size:3 final size:3
Alignment explanation
Indices: 90279089--90279134 Score: 83
Period size: 3 Copynumber: 15.3 Consensus size: 3
90279079 TATTTCTAAC
*
90279089 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAA AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
90279135 TTGAAATGCA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:90279626 original size:11 final size:12
Alignment explanation
Indices: 90279610--90279645 Score: 58
Period size: 11 Copynumber: 3.2 Consensus size: 12
90279600 AGAAAAAAAA
90279610 GAAGAGAG-AGG
1 GAAGAGAGAAGG
90279621 GAAGAGAGAAGG
1 GAAGAGAGAAGG
90279633 G-AGAGAGAAGG
1 GAAGAGAGAAGG
90279644 GA
1 GA
90279646 GGGGAATCCG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 19 0.83
12 4 0.17
ACGTcount: A:0.47, C:0.00, G:0.53, T:0.00
Consensus pattern (12 bp):
GAAGAGAGAAGG
Found at i:90280908 original size:14 final size:14
Alignment explanation
Indices: 90280885--90280914 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
90280875 TTGAAAATAT
90280885 GTTGAATTGGATTG
1 GTTGAATTGGATTG
*
90280899 GTTGATTTGGATTG
1 GTTGAATTGGATTG
90280913 GT
1 GT
90280915 CTCGATATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.17, C:0.00, G:0.37, T:0.47
Consensus pattern (14 bp):
GTTGAATTGGATTG
Found at i:90283181 original size:16 final size:15
Alignment explanation
Indices: 90283160--90283200 Score: 50
Period size: 14 Copynumber: 2.8 Consensus size: 15
90283150 AAACAAAAGG
90283160 AAGTAATGGAGGGGAA
1 AAGTAAT-GAGGGGAA
*
90283176 AAGTAA-GATGGGAA
1 AAGTAATGAGGGGAA
90283190 AA-TAATGAGGG
1 AAGTAATGAGGG
90283201 CATAACTGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
13 3 0.14
14 13 0.59
16 6 0.27
ACGTcount: A:0.46, C:0.00, G:0.39, T:0.15
Consensus pattern (15 bp):
AAGTAATGAGGGGAA
Found at i:90285634 original size:2 final size:2
Alignment explanation
Indices: 90285629--90285671 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
90285619 AAACGTTGAA
90285629 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
90285671 A
1 A
90285672 AAAGTCATTA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:90285767 original size:104 final size:101
Alignment explanation
Indices: 90285664--90285850 Score: 239
Period size: 102 Copynumber: 1.8 Consensus size: 101
90285654 TATATATATA
* * *
90285664 TATATATAAAAGTCATTAGCTTTAAATATATAGAGAGACCAAATATGTAAACTTTGAAAATTAAA
1 TATATAT-AAA-TCATTACCTTT-AA-ATATAGAGAGACCAAATATGTAAAATCTGAAAATTAAA
*
90285729 TTTGTTAAAAATATATAAAAAAAATTTAAAATAAATATACT
62 TTTATTAAAAA-ATATAAAAAAAATTTAAAATAAATATACT
* ** * **
90285770 TATATATAAATCATTACCTTTAAATATAGAGGGACTGAATGTGTAAAATCTGAGGATTAAATTTA
1 TATATATAAATCATTACCTTTAAATATAGAGAGACCAAATATGTAAAATCTGAAAATTAAATTTA
90285835 TTAAAAAATATAAAAA
66 TTAAAAAATATAAAAA
90285851 TCATTAGCTT
Statistics
Matches: 71, Mismatches: 10, Indels: 5
0.83 0.12 0.06
Matches are distributed among these distances:
101 9 0.13
102 40 0.56
103 2 0.03
104 10 0.14
105 3 0.04
106 7 0.10
ACGTcount: A:0.51, C:0.06, G:0.10, T:0.34
Consensus pattern (101 bp):
TATATATAAATCATTACCTTTAAATATAGAGAGACCAAATATGTAAAATCTGAAAATTAAATTTA
TTAAAAAATATAAAAAAAATTTAAAATAAATATACT
Found at i:90293610 original size:12 final size:11
Alignment explanation
Indices: 90293595--90293634 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
90293585 AAAAAAACTT
90293595 AGAAAAATGTAG
1 AGAAAAAT-TAG
*
90293607 AGAAAAATTAA
1 AGAAAAATTAG
*
90293618 AGAAAACTTAG
1 AGAAAAATTAG
90293629 AGAAAA
1 AGAAAA
90293635 TTAAACCTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
11 17 0.68
12 8 0.32
ACGTcount: A:0.65, C:0.03, G:0.17, T:0.15
Consensus pattern (11 bp):
AGAAAAATTAG
Found at i:90293636 original size:21 final size:23
Alignment explanation
Indices: 90293595--90293639 Score: 67
Period size: 21 Copynumber: 2.0 Consensus size: 23
90293585 AAAAAAACTT
90293595 AGAAAAATGTAGAGAAAAATTAA
1 AGAAAAATGTAGAGAAAAATTAA
*
90293618 AGAAAACT-TAGAG-AAAATTAA
1 AGAAAAATGTAGAGAAAAATTAA
90293639 A
1 A
90293640 CCTAAAACTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 9 0.43
22 5 0.24
23 7 0.33
ACGTcount: A:0.64, C:0.02, G:0.16, T:0.18
Consensus pattern (23 bp):
AGAAAAATGTAGAGAAAAATTAA
Found at i:90295992 original size:42 final size:43
Alignment explanation
Indices: 90295940--90296047 Score: 121
Period size: 42 Copynumber: 2.5 Consensus size: 43
90295930 TACCTGATCA
**
90295940 GAATACGACACATAAAGTGCCTAAAACGACACACGAGGTGCTT
1 GAATACGACACATAAAGTGCCTAAAACGACACAAAAGGTGCTT
* * * *
90295983 G-ATACGACACA-AGAGGTGCTTGATACGACACAAAAGGTGCTT
1 GAATACGACACATA-AAGTGCCTAAAACGACACAAAAGGTGCTT
*
90296025 GAAATACGATACATAAAGTGCCT
1 G-AATACGACACATAAAGTGCCT
90296048 GATCAGTAAA
Statistics
Matches: 52, Mismatches: 9, Indels: 7
0.76 0.13 0.10
Matches are distributed among these distances:
41 1 0.02
42 34 0.65
43 1 0.02
44 15 0.29
45 1 0.02
ACGTcount: A:0.39, C:0.20, G:0.22, T:0.19
Consensus pattern (43 bp):
GAATACGACACATAAAGTGCCTAAAACGACACAAAAGGTGCTT
Found at i:90296045 original size:23 final size:21
Alignment explanation
Indices: 90295942--90296026 Score: 100
Period size: 21 Copynumber: 4.0 Consensus size: 21
90295932 CCTGATCAGA
* *
90295942 ATACGACACATAAA-GTGCCTA
1 ATACGACACA-AAAGGTGCTTG
* **
90295963 AAACGACACACGAGGTGCTTG
1 ATACGACACAAAAGGTGCTTG
*
90295984 ATACGACACAAGAGGTGCTTG
1 ATACGACACAAAAGGTGCTTG
90296005 ATACGACACAAAAGGTGCTTG
1 ATACGACACAAAAGGTGCTTG
90296026 A
1 A
90296027 AATACGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
20 1 0.02
21 54 0.98
ACGTcount: A:0.38, C:0.21, G:0.24, T:0.18
Consensus pattern (21 bp):
ATACGACACAAAAGGTGCTTG
Found at i:90297572 original size:18 final size:17
Alignment explanation
Indices: 90297549--90297599 Score: 50
Period size: 18 Copynumber: 2.9 Consensus size: 17
90297539 ATGCTCTCTG
90297549 TTTCTTTGTTTCTTTATT
1 TTTCTTTGTTTCTTTA-T
*
90297567 TTTCTTT-TATGCTTTAT
1 TTTCTTTGT-TTCTTTAT
* *
90297584 TTACTTTGTTTATTTA
1 TTTCTTTGTTTCTTTA
90297600 ATTAACATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
17 13 0.48
18 14 0.52
ACGTcount: A:0.12, C:0.10, G:0.06, T:0.73
Consensus pattern (17 bp):
TTTCTTTGTTTCTTTAT
Found at i:90297814 original size:23 final size:23
Alignment explanation
Indices: 90297782--90297841 Score: 70
Period size: 23 Copynumber: 2.6 Consensus size: 23
90297772 GTAAATTAGT
*
90297782 TATTTTTATTACAAGTGTA-C-A
1 TATTTTTATTACAAATGTACCAA
*
90297803 TATCTATTTATTATAAATGTACCAA
1 TAT-T-TTTATTACAAATGTACCAA
90297828 TATTTTTATTACAA
1 TATTTTTATTACAA
90297842 TTGTCATTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
21 3 0.09
22 1 0.03
23 22 0.69
24 2 0.06
25 4 0.12
ACGTcount: A:0.37, C:0.10, G:0.05, T:0.48
Consensus pattern (23 bp):
TATTTTTATTACAAATGTACCAA
Found at i:90297934 original size:3 final size:3
Alignment explanation
Indices: 90297926--90297971 Score: 58
Period size: 3 Copynumber: 15.3 Consensus size: 3
90297916 AATATGAACC
* *
90297926 ATA ATA ATA ATA ATA ATA TTA AT- TTA ATA ATTA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA
90297971 A
1 A
90297972 AATCTTAGAA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
2 1 0.03
3 33 0.89
4 3 0.08
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (3 bp):
ATA
Found at i:90297943 original size:24 final size:24
Alignment explanation
Indices: 90297915--90297967 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
90297905 ATCTTTAACT
90297915 TAATATGAACCATAATAA-TAATAA
1 TAATATGAA-CATAATAATTAATAA
* **
90297939 TAATATTAATTTAATAATTAATAA
1 TAATATGAACATAATAATTAATAA
90297963 TAATA
1 TAATA
90297968 ATAAAATCTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 6 0.24
24 19 0.76
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.38
Consensus pattern (24 bp):
TAATATGAACATAATAATTAATAA
Found at i:90297948 original size:30 final size:30
Alignment explanation
Indices: 90297914--90297971 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
90297904 TATCTTTAAC
*
90297914 TTAATATGAACCA-TAATAATAATAATAATA
1 TTAAT-TGAACAATTAATAATAATAATAATA
* *
90297944 TTAATTTAATAATTAATAATAATAATAA
1 TTAATTGAACAATTAATAATAATAATAA
90297972 AATCTTAGAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 4 0.17
30 20 0.83
ACGTcount: A:0.57, C:0.03, G:0.02, T:0.38
Consensus pattern (30 bp):
TTAATTGAACAATTAATAATAATAATAATA
Found at i:90303679 original size:2 final size:2
Alignment explanation
Indices: 90303664--90303698 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
90303654 CTAATTTATG
90303664 AT AT AT -T AT A- AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
90303699 ATAACATGGT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 2 0.06
2 29 0.94
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:90304096 original size:17 final size:17
Alignment explanation
Indices: 90304074--90304107 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
90304064 TATTAATTAT
90304074 AAATAAATTTTATTTAA
1 AAATAAATTTTATTTAA
* *
90304091 AAATAATTTTTGTTTAA
1 AAATAAATTTTATTTAA
90304108 TTTTATATTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (17 bp):
AAATAAATTTTATTTAA
Found at i:90304593 original size:19 final size:18
Alignment explanation
Indices: 90304549--90304607 Score: 55
Period size: 20 Copynumber: 3.0 Consensus size: 18
90304539 ATTACTAATT
90304549 TAAAATTTTATAAAAATAAA
1 TAAAATTTT-T-AAAATAAA
*
90304569 TGAAAATTTTTAGAATAAGA
1 T-AAAATTTTTAAAATAA-A
*
90304589 TAAAATATTTAAAAATAAA
1 TAAAAT-TTTTAAAATAAA
90304608 AAATAAAATG
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
19 12 0.36
20 13 0.39
21 8 0.24
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (18 bp):
TAAAATTTTTAAAATAAA
Found at i:90306049 original size:40 final size:40
Alignment explanation
Indices: 90305984--90306092 Score: 109
Period size: 40 Copynumber: 2.8 Consensus size: 40
90305974 TTCATTAATT
* * * *
90305984 TTTTAAA-TTTTAAAAA-GTT-ATAAATATTTTTTTATAC
1 TTTTAAATTTTTAAAAATTTTAAAAAATAATTTTATATAC
* *
90306021 TTTTAAATATTTT-TAAATTTTAAAAAATAATTTTATATAT
1 TTTTAAAT-TTTTAAAAATTTTAAAAAATAATTTTATATAC
* *
90306061 TTTTGAATTTTTAAAAATTTTAAAAATTAATT
1 TTTTAAATTTTTAAAAATTTTAAAAAATAATT
90306093 AAATGTTTAT
Statistics
Matches: 58, Mismatches: 9, Indels: 7
0.78 0.12 0.09
Matches are distributed among these distances:
37 7 0.12
38 3 0.05
39 10 0.17
40 38 0.66
ACGTcount: A:0.43, C:0.01, G:0.02, T:0.54
Consensus pattern (40 bp):
TTTTAAATTTTTAAAAATTTTAAAAAATAATTTTATATAC
Found at i:90306055 original size:30 final size:30
Alignment explanation
Indices: 90306021--90306078 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
90306011 TTTTTTATAC
90306021 TTTTAAATATTTTTAAATTTTAAAAAATAA
1 TTTTAAATATTTTTAAATTTTAAAAAATAA
* * *
90306051 TTTTATATATTTTTGAATTTTTAAAAAT
1 TTTTAAATATTTTTAAATTTTAAAAAAT
90306079 TTTAAAAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (30 bp):
TTTTAAATATTTTTAAATTTTAAAAAATAA
Found at i:90312337 original size:42 final size:42
Alignment explanation
Indices: 90312278--90312371 Score: 170
Period size: 42 Copynumber: 2.2 Consensus size: 42
90312268 TTCTTAAAGG
*
90312278 TCACACGGCCAAGGCACACGTCCGTGTGCTAGGCCGTGCCCT
1 TCACACGGCTAAGGCACACGTCCGTGTGCTAGGCCGTGCCCT
*
90312320 TCACACGGCTAAGGCACACGTCCGTGTGCTAGGCTGTGCCCT
1 TCACACGGCTAAGGCACACGTCCGTGTGCTAGGCCGTGCCCT
90312362 TCACACGGCT
1 TCACACGGCT
90312372 GAAAGACACG
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 50 1.00
ACGTcount: A:0.17, C:0.36, G:0.28, T:0.19
Consensus pattern (42 bp):
TCACACGGCTAAGGCACACGTCCGTGTGCTAGGCCGTGCCCT
Found at i:90320928 original size:48 final size:46
Alignment explanation
Indices: 90320738--90320955 Score: 155
Period size: 46 Copynumber: 4.7 Consensus size: 46
90320728 GGGATAGGAT
* * *
90320738 GCCGATGCCATGTCCCGGACATGGTCTTACACTAGCT-T--AACTCGTA
1 GCCGATG-CATGTCCCGAACAT-GTCTTACACTAGCTCTCGTA-TCGTG
* * * * * *
90320784 GCCGATGCATGTCTC-AGACATGTCTTACGCTGGCT-TACATCTCGAG
1 GCCGATGCATGTCCCGA-ACATGTCTTACACTAGCTCT-CGTATCGTG
* * * *
90320830 GCTGATGCATGTCCCAAACATGTCTTACACTAGCTCTCGTCTCACT-
1 GCCGATGCATGTCCCGAACATGTCTTACACTAGCTCTCGTATC-GTG
*
90320876 GCCGATGCCATGTCCCGAACATGGTCTTACACTGGCTCTCGTAAT-GTG
1 GCCGATG-CATGTCCCGAACAT-GTCTTACACTAGCTCTCGT-ATCGTG
**
90320924 GCCGATGCATGTCTAG-ACATGTCTTACACTAG
1 GCCGATGCATGTCCCGAACATGTCTTACACTAG
90320956 GTTACAATAG
Statistics
Matches: 138, Mismatches: 23, Indels: 23
0.75 0.12 0.12
Matches are distributed among these distances:
44 13 0.09
45 22 0.16
46 54 0.39
47 23 0.17
48 25 0.18
49 1 0.01
ACGTcount: A:0.21, C:0.29, G:0.22, T:0.28
Consensus pattern (46 bp):
GCCGATGCATGTCCCGAACATGTCTTACACTAGCTCTCGTATCGTG
Found at i:90320935 original size:47 final size:45
Alignment explanation
Indices: 90320833--90320955 Score: 133
Period size: 48 Copynumber: 2.7 Consensus size: 45
90320823 TCTCGAGGCT
* *
90320833 GATGCATGTCCCAAACATGTCTTACACTAGCTCTCGTCTCACTGCC
1 GATGCATGTCCCGAACATGTCTTACACTAGCTCTCGTAT-ACTGCC
* *
90320879 GATGCCATGTCCCGAACATGGTCTTACACTGGCTCTCGTA-ATGTGGCC
1 GATG-CATGTCCCGAACAT-GTCTTACACTAGCTCTCGTATA-CT-GCC
**
90320927 GATGCATGTCTAG-ACATGTCTTACACTAG
1 GATGCATGTCCCGAACATGTCTTACACTAG
90320956 GTTACAATAG
Statistics
Matches: 66, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
45 11 0.17
46 9 0.14
47 21 0.32
48 25 0.38
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.28
Consensus pattern (45 bp):
GATGCATGTCCCGAACATGTCTTACACTAGCTCTCGTATACTGCC
Found at i:90326116 original size:22 final size:23
Alignment explanation
Indices: 90326091--90326152 Score: 60
Period size: 22 Copynumber: 2.9 Consensus size: 23
90326081 TCAAAAGCCT
*
90326091 GTGTGAGGAAG-GGCACACGGCC
1 GTGTGAGGAAGAGGCACACGCCC
*
90326113 GTGT--GGCAGAGGCACACGCCC
1 GTGTGAGGAAGAGGCACACGCCC
* *
90326134 ATGTGAAG-AGAGGCACACG
1 GTGTGAGGAAGAGGCACACG
90326153 GCCAAGTGAC
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
20 4 0.12
21 13 0.39
22 15 0.45
23 1 0.03
ACGTcount: A:0.26, C:0.24, G:0.40, T:0.10
Consensus pattern (23 bp):
GTGTGAGGAAGAGGCACACGCCC
Found at i:90326127 original size:21 final size:21
Alignment explanation
Indices: 90326102--90326182 Score: 67
Period size: 21 Copynumber: 3.8 Consensus size: 21
90326092 TGTGAGGAAG
* *
90326102 GGCACACGGCCGTGTGGCAGA
1 GGCACACGCCCATGTGGCAGA
90326123 GGCACACGCCCATGTGAAG-AGA
1 GGCACACGCCCATGTG--GCAGA
* * *
90326145 GGCACACGGCCAAGTGACTA-A
1 GGCACACGCCCATGTGGC-AGA
*
90326166 GGCACACGCCCGTGTGG
1 GGCACACGCCCATGTGG
90326183 ACCAAGGACA
Statistics
Matches: 47, Mismatches: 9, Indels: 8
0.73 0.14 0.12
Matches are distributed among these distances:
21 28 0.60
22 18 0.38
23 1 0.02
ACGTcount: A:0.25, C:0.30, G:0.36, T:0.10
Consensus pattern (21 bp):
GGCACACGCCCATGTGGCAGA
Found at i:90326161 original size:22 final size:22
Alignment explanation
Indices: 90326120--90326176 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 22
90326110 GCCGTGTGGC
*
90326120 AGAGGCACACGCCCATGTGAAG
1 AGAGGCACACGCCCAAGTGAAG
* **
90326142 AGAGGCACACGGCCAAGTGACT
1 AGAGGCACACGCCCAAGTGAAG
90326164 A-AGGCACACGCCC
1 AGAGGCACACGCCC
90326177 GTGTGGACCA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
21 11 0.37
22 19 0.63
ACGTcount: A:0.32, C:0.32, G:0.30, T:0.07
Consensus pattern (22 bp):
AGAGGCACACGCCCAAGTGAAG
Found at i:90328749 original size:181 final size:180
Alignment explanation
Indices: 90328413--90328883 Score: 470
Period size: 181 Copynumber: 2.6 Consensus size: 180
90328403 AAATCTGAAT
* * * * * * * *
90328413 GGTGGCTCTATGTCTTACTGTTTTAACTTTTTTACAAGAGCGTCTGTCTGTGTTTTACCCGAACA
1 GGTGGCTCTAAGCCTTACCGTTTTAACCTTTTTACAAGGGTGTC-GACTGTGTTTTACCCAAACA
* * * * * *
90328478 TTATGTATAGCAATATCTCCAAAACGAAAAAGGAGGAAGTGGGGGAGGGTGATTGTAGGTGAGAC
65 TTATGTCTAGCAATATCTCCAAAATGGAAAA-GAGGAAGT-GGGCAGGATGATTATAGGTGAGAC
* * * * *
90328543 ATTCGACTGCTTATCAACGATG-T-TT-GTTATGTGATTTGTATTATCTGA-GC
128 ATTCAACTCCTCATCAACAATGTTGTTAGTTATGTGATTTGTATCATCT-ACGC
*
90328593 GGTGGCTC-AATGCCTTACCGTTTT-ACCTTTTTTTTTTGCAAGGGTGTCGACTGTTGTTTTA-C
1 GGTGGCTCTAA-GCCTTACCGTTTTAACC-----TTTTTACAAGGGTGTCGACTG-TGTTTTACC
* * *
90328655 CAAACATTTTGTCTAGCAATATCTCCCAAATGGAAAAGAGGAAGTGGGCAGGATGATTATAGTTG
59 CAAACATTATGTCTAGCAATATCTCCAAAATGGAAAAGAGGAAGTGGGCAGGATGATTATAGGTG
* ** * *
90328720 AGACATTCAATTCCTCATTGATAATGTTTGTTAGTTATGTGATTTGTATCATCTACGT
124 AGACATTCAACTCCTCATCAACAATG-TTGTTAGTTATGTGATTTGTATCATCTACGC
* * * * *
90328778 GGTGGCTCTAAGTCTTACTGTTTTAACCTTTTTACTAGGGTGTCGACTGTGTTTTACCCTAATAT
1 GGTGGCTCTAAGCCTTACCGTTTTAACCTTTTTACAAGGGTGTCGACTGTGTTTTACCCAAACAT
* *
90328843 TATGTCTAGCAATATCTCTAAATTGGAAAAGAGGAAGTGGG
66 TATGTCTAGCAATATCTCCAAAATGGAAAAGAGGAAGTGGG
90328884 TGGGGGTGGT
Statistics
Matches: 238, Mismatches: 38, Indels: 29
0.78 0.12 0.10
Matches are distributed among these distances:
179 3 0.01
180 26 0.11
181 96 0.40
182 8 0.03
183 37 0.16
184 23 0.10
185 40 0.17
186 5 0.02
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.37
Consensus pattern (180 bp):
GGTGGCTCTAAGCCTTACCGTTTTAACCTTTTTACAAGGGTGTCGACTGTGTTTTACCCAAACAT
TATGTCTAGCAATATCTCCAAAATGGAAAAGAGGAAGTGGGCAGGATGATTATAGGTGAGACATT
CAACTCCTCATCAACAATGTTGTTAGTTATGTGATTTGTATCATCTACGC
Found at i:90332990 original size:41 final size:41
Alignment explanation
Indices: 90332933--90333016 Score: 168
Period size: 41 Copynumber: 2.0 Consensus size: 41
90332923 TCCTAATACT
90332933 AAATTTTATGCATGATATGTCATGACATTTATTCAACATTC
1 AAATTTTATGCATGATATGTCATGACATTTATTCAACATTC
90332974 AAATTTTATGCATGATATGTCATGACATTTATTCAACATTC
1 AAATTTTATGCATGATATGTCATGACATTTATTCAACATTC
90333015 AA
1 AA
90333017 CTTACTCCTT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.36, C:0.14, G:0.10, T:0.40
Consensus pattern (41 bp):
AAATTTTATGCATGATATGTCATGACATTTATTCAACATTC
Found at i:90338299 original size:10 final size:10
Alignment explanation
Indices: 90338284--90338335 Score: 59
Period size: 10 Copynumber: 5.1 Consensus size: 10
90338274 TAAATTTAGG
90338284 ATTTATTTTT
1 ATTTATTTTT
*
90338294 ATTTATCTTT
1 ATTTATTTTT
*
90338304 ATTTATCTTT
1 ATTTATTTTT
* *
90338314 AATTATTTGT
1 ATTTATTTTT
90338324 ATTTATCTTTT
1 ATTTAT-TTTT
90338335 A
1 A
90338336 GAATTTAATT
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
10 31 0.89
11 4 0.11
ACGTcount: A:0.23, C:0.06, G:0.02, T:0.69
Consensus pattern (10 bp):
ATTTATTTTT
Found at i:90338341 original size:20 final size:20
Alignment explanation
Indices: 90338303--90338341 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
90338293 TATTTATCTT
**
90338303 TATTTATCTTTAATTATTTG
1 TATTTATCTTTAAGAATTTG
*
90338323 TATTTATCTTTTAGAATTT
1 TATTTATCTTTAAGAATTT
90338342 AATTAGGAAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.26, C:0.05, G:0.05, T:0.64
Consensus pattern (20 bp):
TATTTATCTTTAAGAATTTG
Found at i:90342152 original size:47 final size:48
Alignment explanation
Indices: 90342039--90342308 Score: 221
Period size: 46 Copynumber: 5.8 Consensus size: 48
90342029 GTAACCCGCC
* * *
90342039 CATAAGCGAACTCGGACTCAACTCGACGAGCTCGG--G-C--TTCGCAT
1 CATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCAGTT-ACAT
* *
90342083 CCATGAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 -CATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCC-AGTTACAT
* * * *
90342133 -TTCA-CGAACTCGGACTCAACTCAACGAGTTCGGA---CATTTGCAT
1 CATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCAGTTACAT
* * *
90342176 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G-C-GTTCGCAT
1 -CATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCAGTT-ACAT
*
90342222 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 -CATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCC-AGTTACAT
* * *
90342272 -TTCA-CGAACTCGGACTCAACTCAACGAGTTTGGATGC
1 CATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGC
90342309 TCAACCATCC
Statistics
Matches: 188, Mismatches: 21, Indels: 30
0.79 0.09 0.13
Matches are distributed among these distances:
43 6 0.03
44 1 0.01
45 35 0.19
46 67 0.36
47 61 0.32
48 6 0.03
49 1 0.01
50 6 0.03
51 5 0.03
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (48 bp):
CATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCAGTTACAT
Found at i:90342205 original size:46 final size:46
Alignment explanation
Indices: 90342038--90342258 Score: 245
Period size: 46 Copynumber: 4.8 Consensus size: 46
90342028 TGTAACCCGC
* * * *
90342038 CCATAAGCGAACTCGGACTCAACTCGACGAGCTCGGGC-TTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
90342083 CCATGAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* * * *
90342133 --TTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* * *
90342176 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
90342222 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
90342259 TGCCTAGTTA
Statistics
Matches: 147, Mismatches: 19, Indels: 19
0.79 0.10 0.10
Matches are distributed among these distances:
42 2 0.01
43 4 0.03
44 1 0.01
45 34 0.23
46 69 0.47
47 29 0.20
48 3 0.02
50 3 0.02
51 2 0.01
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:90342240 original size:92 final size:93
Alignment explanation
Indices: 90342038--90342258 Score: 274
Period size: 92 Copynumber: 2.4 Consensus size: 93
90342028 TGTAACCCGC
* * * *
90342038 CCATAAGCGAACTCGGACTCAACTCGACGAGCTCGGGCTTCGCATCCATGAGTGAACTCGGACTC
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACTTCGCATCCATAAGTGAACTCGGACTC
*
90342103 AACTCAACGAGTTCGGATGCCTAGTTACAT
66 AACTCAACGAGCTCGGA-GCC-AGTTACAT
* * *
90342133 --TTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGAC-TTCGCATCCATAAGTGAACTCGGACT
*
90342195 CAACTCAACGAGCTCGG-G-C-GTTCGCAT
65 CAACTCAACGAGCTCGGAGCCAGTT-ACAT
*
90342222 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
90342259 TGCCTAGTTA
Statistics
Matches: 109, Mismatches: 12, Indels: 13
0.81 0.09 0.10
Matches are distributed among these distances:
88 3 0.03
89 3 0.03
90 1 0.01
91 3 0.03
92 57 0.52
93 42 0.39
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACTTCGCATCCATAAGTGAACTCGGACTC
AACTCAACGAGCTCGGAGCCAGTTACAT
Found at i:90342287 original size:139 final size:138
Alignment explanation
Indices: 90342038--90342301 Score: 492
Period size: 139 Copynumber: 1.9 Consensus size: 138
90342028 TGTAACCCGC
* *
90342038 CCATAAGCGAACTCGGACTCAACTCGACGAGCTCGGGCTTCGCATCCATGAGTGAACTCGGACTC
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCTTCGCATCCATAAGTGAACTCGGACTC
90342103 AACTCAACGAGTTCGGATGCCTAGTTACATTTCACGAACTCGGACTCAACTCAACGAGTTCGGAC
66 AACTCAACGAGTTCGGATGCCTAGTTACATTTCACGAACTCGGACTCAACTCAACGAGTTCGGAC
90342168 ATTTGCAT
131 ATTTGCAT
*
90342176 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGC-TTCGCATCCATAAGTGAACTCGGACT
90342241 CAACTCAACGAGTTCGGATGCCTAGTTACATTTCACGAACTCGGACTCAACTCAACGAGTT
65 CAACTCAACGAGTTCGGATGCCTAGTTACATTTCACGAACTCGGACTCAACTCAACGAGTT
90342302 TGGATGCTCA
Statistics
Matches: 122, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
138 36 0.30
139 86 0.70
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (138 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCTTCGCATCCATAAGTGAACTCGGACTC
AACTCAACGAGTTCGGATGCCTAGTTACATTTCACGAACTCGGACTCAACTCAACGAGTTCGGAC
ATTTGCAT
Found at i:90342813 original size:47 final size:47
Alignment explanation
Indices: 90342749--90342859 Score: 154
Period size: 47 Copynumber: 2.4 Consensus size: 47
90342739 GACATTGAGT
*
90342749 CGATG-AGACACTATGTGT-CGACTACTGTTAAAGTTCCGGATTTGTTC
1 CGATGAAG-CACTATGTGTACGA-TAATGTTAAAGTTCCGGATTTGTTC
* * *
90342796 CGATGAAGTACTTTGTGTACTATAATGTTAAAGTTCCGGATTTGTTC
1 CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTGTTC
90342843 CGATGAAGCACTATGTG
1 CGATGAAGCACTATGTG
90342860 CTTATCCCGG
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
47 52 0.93
48 4 0.07
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.35
Consensus pattern (47 bp):
CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTGTTC
Found at i:90350028 original size:47 final size:47
Alignment explanation
Indices: 90349964--90350074 Score: 145
Period size: 47 Copynumber: 2.4 Consensus size: 47
90349954 GACATTGAGT
* *
90349964 CGATG-AGACACTATGTGT-CGACTACTGTTAAAGTTCCGGATTTGTTT
1 CGATGAAG-CACTATGTGTACGA-TAATGTTAAAGTTCCGGATTTGTTC
* * *
90350011 CGATGAAGTACTTTGTGTACTATAATGTTAAAGTTCCGGATTTGTTC
1 CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTGTTC
90350058 CGATGAAGCACTATGTG
1 CGATGAAGCACTATGTG
90350075 CTTATCCCAG
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
47 51 0.93
48 4 0.07
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.36
Consensus pattern (47 bp):
CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTGTTC
Found at i:90354255 original size:40 final size:38
Alignment explanation
Indices: 90354143--90354255 Score: 92
Period size: 40 Copynumber: 2.9 Consensus size: 38
90354133 CACTAATGAA
*
90354143 TGTGAGCCTAGCTCTAGTTGGATAAACCAAC--AA-TAT
1 TGTGAGCCCAG-TCTAGTTGGATAAACCAACGTAATTAT
* * * *
90354179 T-TGCA-CCCAGTGCTAGTCGGATTAACTAATGATAATTAT
1 TGTG-AGCCCAGT-CTAGTTGGATAAACCAACG-TAATTAT
90354218 TGTGAGCCCAGATCTAGTTGGATAAACCAACGGTAATT
1 TGTGAGCCCAG-TCTAGTTGGATAAACCAAC-GTAATT
90354256 GTGTCCAGCG
Statistics
Matches: 58, Mismatches: 9, Indels: 16
0.70 0.11 0.19
Matches are distributed among these distances:
34 1 0.02
35 20 0.34
36 2 0.03
38 2 0.03
39 5 0.09
40 26 0.45
41 2 0.03
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.29
Consensus pattern (38 bp):
TGTGAGCCCAGTCTAGTTGGATAAACCAACGTAATTAT
Found at i:90356069 original size:21 final size:21
Alignment explanation
Indices: 90356028--90356070 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
90356018 TGACTTAAAG
**
90356028 ATTATATTAATTTTTTAAATT
1 ATTATATTAATTGATTAAATT
90356049 ATTAT-TTAATTGATTATAATT
1 ATTATATTAATTGATTA-AATT
90356070 A
1 A
90356071 AATAATTGAG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (21 bp):
ATTATATTAATTGATTAAATT
Found at i:90358319 original size:18 final size:19
Alignment explanation
Indices: 90358293--90358330 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
90358283 AAGCTATAAA
90358293 TATTAAGAA-ATTTGCTTC
1 TATTAAGAAGATTTGCTTC
* *
90358311 TATTTAGAAGATTTTCTTC
1 TATTAAGAAGATTTGCTTC
90358330 T
1 T
90358331 CTCATTCAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.29, C:0.11, G:0.11, T:0.50
Consensus pattern (19 bp):
TATTAAGAAGATTTGCTTC
Found at i:90365089 original size:10 final size:10
Alignment explanation
Indices: 90365074--90365125 Score: 59
Period size: 10 Copynumber: 5.1 Consensus size: 10
90365064 TAAATTTAGG
90365074 ATTTATTTTT
1 ATTTATTTTT
*
90365084 ATTTATCTTT
1 ATTTATTTTT
*
90365094 ATTTATCTTT
1 ATTTATTTTT
* *
90365104 AATTATTTGT
1 ATTTATTTTT
90365114 ATTTATCTTTT
1 ATTTAT-TTTT
90365125 A
1 A
90365126 GAATTTAATT
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
10 31 0.89
11 4 0.11
ACGTcount: A:0.23, C:0.06, G:0.02, T:0.69
Consensus pattern (10 bp):
ATTTATTTTT
Found at i:90365131 original size:20 final size:20
Alignment explanation
Indices: 90365093--90365131 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
90365083 TATTTATCTT
**
90365093 TATTTATCTTTAATTATTTG
1 TATTTATCTTTAAGAATTTG
*
90365113 TATTTATCTTTTAGAATTT
1 TATTTATCTTTAAGAATTT
90365132 AATTAGGAAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.26, C:0.05, G:0.05, T:0.64
Consensus pattern (20 bp):
TATTTATCTTTAAGAATTTG
Found at i:90368911 original size:46 final size:46
Alignment explanation
Indices: 90368835--90369055 Score: 261
Period size: 46 Copynumber: 4.8 Consensus size: 46
90368825 TGTAACCCGC
* * *
90368835 CCATAAGCGAACTCGGACTCAACTCGACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
* *
90368881 CCATGAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCAT
* * * * * *
90368931 --TTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
*
90368974 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
90369020 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
90369056 ATGCCTAGTT
Statistics
Matches: 147, Mismatches: 19, Indels: 18
0.80 0.10 0.10
Matches are distributed among these distances:
42 2 0.01
43 3 0.02
44 1 0.01
45 2 0.01
46 101 0.69
47 28 0.19
48 3 0.02
49 1 0.01
50 3 0.02
51 3 0.02
ACGTcount: A:0.27, C:0.29, G:0.23, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
Found at i:90368951 original size:47 final size:48
Alignment explanation
Indices: 90368836--90369106 Score: 230
Period size: 46 Copynumber: 5.8 Consensus size: 48
90368826 GTAACCCGCC
* * *
90368836 CATAAGCGAACTCGGACTCAACTCGACGAGCTCGG--G-C-GTTCGCAT
1 CATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCAGTT-ACAT
* *
90368881 CCATGAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 -CATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCC-AGTTACAT
* * * *
90368931 -TTCA-CGAACTCGGACTCAACTCAACGAGTTCGGA---CATTTGCAT
1 CATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCAGTTACAT
* * *
90368974 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G-C-GTTCGCAT
1 -CATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCAGTT-ACAT
*
90369020 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 -CATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCC-AGTTACAT
* * *
90369070 -TTCA-CGAACTCGGACTCAACTCAACGAGTTTGGATGC
1 CATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGC
90369107 TCAACCATCC
Statistics
Matches: 189, Mismatches: 21, Indels: 29
0.79 0.09 0.12
Matches are distributed among these distances:
43 6 0.03
44 1 0.01
45 4 0.02
46 98 0.52
47 60 0.32
48 6 0.03
49 2 0.01
50 6 0.03
51 6 0.03
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (48 bp):
CATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCAGTTACAT
Found at i:90369085 original size:139 final size:139
Alignment explanation
Indices: 90368835--90369099 Score: 503
Period size: 139 Copynumber: 1.9 Consensus size: 139
90368825 TGTAACCCGC
* *
90368835 CCATAAGCGAACTCGGACTCAACTCGACGAGCTCGGGCGTTCGCATCCATGAGTGAACTCGGACT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACT
90368900 CAACTCAACGAGTTCGGATGCCTAGTTACATTTCACGAACTCGGACTCAACTCAACGAGTTCGGA
66 CAACTCAACGAGTTCGGATGCCTAGTTACATTTCACGAACTCGGACTCAACTCAACGAGTTCGGA
90368965 CATTTGCAT
131 CATTTGCAT
*
90368974 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACT
90369039 CAACTCAACGAGTTCGGATGCCTAGTTACATTTCACGAACTCGGACTCAACTCAACGAGTT
66 CAACTCAACGAGTTCGGATGCCTAGTTACATTTCACGAACTCGGACTCAACTCAACGAGTT
90369100 TGGATGCTCA
Statistics
Matches: 123, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
139 123 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (139 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACT
CAACTCAACGAGTTCGGATGCCTAGTTACATTTCACGAACTCGGACTCAACTCAACGAGTTCGGA
CATTTGCAT
Found at i:90372970 original size:18 final size:18
Alignment explanation
Indices: 90372949--90372990 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
90372939 TATTCTTAAG
90372949 TAAAAATAAATAAAT-AAA
1 TAAAAATAAA-AAATGAAA
*
90372967 TAAAATTAAAAAATGAAA
1 TAAAAATAAAAAATGAAA
*
90372985 GAAAAA
1 TAAAAA
90372991 AAAGATATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
17 4 0.20
18 16 0.80
ACGTcount: A:0.76, C:0.00, G:0.05, T:0.19
Consensus pattern (18 bp):
TAAAAATAAAAAATGAAA
Found at i:90373566 original size:34 final size:34
Alignment explanation
Indices: 90373528--90373595 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
90373518 TATAGCACAA
90373528 GACTCTATTTAATGTTTAATTATATTAGGATAAT
1 GACTCTATTTAATGTTTAATTATATTAGGATAAT
90373562 GACTCTATTTAATGTTTAATTATATTAGGATAAT
1 GACTCTATTTAATGTTTAATTATATTAGGATAAT
90373596 TATTAAGGAT
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:0.35, C:0.06, G:0.12, T:0.47
Consensus pattern (34 bp):
GACTCTATTTAATGTTTAATTATATTAGGATAAT
Found at i:90373644 original size:10 final size:10
Alignment explanation
Indices: 90373629--90373688 Score: 86
Period size: 10 Copynumber: 6.0 Consensus size: 10
90373619 TAAATTTAGG
*
90373629 ATTTATTTTT
1 ATTTATCTTT
90373639 ATTTATCTTT
1 ATTTATCTTT
90373649 ATTTATCTTT
1 ATTTATCTTT
*
90373659 AATTATCTTT
1 ATTTATCTTT
90373669 ATTTAT-TTGT
1 ATTTATCTT-T
90373679 ATTTATCTTT
1 ATTTATCTTT
90373689 TAGAATTTAA
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
9 2 0.04
10 41 0.91
11 2 0.04
ACGTcount: A:0.22, C:0.07, G:0.02, T:0.70
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:90374429 original size:18 final size:17
Alignment explanation
Indices: 90374406--90374446 Score: 57
Period size: 18 Copynumber: 2.4 Consensus size: 17
90374396 TAATTTTTGA
90374406 AATTTCAATTTAACTTTT
1 AATTTCAATTTAA-TTTT
*
90374424 AATTTCAATTTTATTTT
1 AATTTCAATTTAATTTT
90374441 -ATTTCA
1 AATTTCA
90374447 CTCCAGATCA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 6 0.27
17 4 0.18
18 12 0.55
ACGTcount: A:0.32, C:0.10, G:0.00, T:0.59
Consensus pattern (17 bp):
AATTTCAATTTAATTTT
Found at i:90376367 original size:46 final size:46
Alignment explanation
Indices: 90376252--90376422 Score: 236
Period size: 46 Copynumber: 3.6 Consensus size: 46
90376242 TTTGACATGA
* * * *
90376252 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTCATTTTC-TGTCCCGT
1 TGCCATGGTATCTTTCAACCATGGTC-T--T-ATTC-TTTTCATGTCACGT
*
90376302 TACCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
90376348 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
*
90376394 TTCCATGGTATCTTTCAACCATGGTCTTA
1 TGCCATGGTATCTTTCAACCATGGTCTTA
90376423 CACATTTCAT
Statistics
Matches: 113, Mismatches: 7, Indels: 6
0.90 0.06 0.05
Matches are distributed among these distances:
45 5 0.04
46 84 0.74
47 1 0.01
49 1 0.01
50 22 0.19
ACGTcount: A:0.18, C:0.25, G:0.14, T:0.43
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
Found at i:90378598 original size:2 final size:2
Alignment explanation
Indices: 90378591--90378626 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
90378581 TGTTTTACTT
90378591 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
90378627 ACAATAATAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:90389031 original size:47 final size:47
Alignment explanation
Indices: 90388967--90389077 Score: 154
Period size: 47 Copynumber: 2.4 Consensus size: 47
90388957 GACATTGAGT
*
90388967 CGATG-AGACACTATGTGT-CGACTACTGTTAAAGTTCCGGATTTGTTC
1 CGATGAAG-CACTATGTGTACGA-TAATGTTAAAGTTCCGGATTTGTTC
* * *
90389014 CGATGAAGTACTTTGTGTACTATAATGTTAAAGTTCCGGATTTGTTC
1 CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTGTTC
90389061 CGATGAAGCACTATGTG
1 CGATGAAGCACTATGTG
90389078 CTTATCCCGA
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
47 52 0.93
48 4 0.07
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.35
Consensus pattern (47 bp):
CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTGTTC
Found at i:90393256 original size:40 final size:38
Alignment explanation
Indices: 90393144--90393256 Score: 92
Period size: 40 Copynumber: 2.9 Consensus size: 38
90393134 CACTAATGAA
*
90393144 TGTGAGCCTAGCTCTAGTTGGATAAACCAAC--AA-TAT
1 TGTGAGCCCAG-TCTAGTTGGATAAACCAACGTAATTAT
* * * *
90393180 T-TGCA-CCCAGTGCTAGTCGGATTAACTAATGATAATTAT
1 TGTG-AGCCCAGT-CTAGTTGGATAAACCAACG-TAATTAT
90393219 TGTGAGCCCAGATCTAGTTGGATAAACCAACGGTAATT
1 TGTGAGCCCAG-TCTAGTTGGATAAACCAAC-GTAATT
90393257 GTGTCCAGCG
Statistics
Matches: 58, Mismatches: 9, Indels: 16
0.70 0.11 0.19
Matches are distributed among these distances:
34 1 0.02
35 20 0.34
36 2 0.03
38 2 0.03
39 5 0.09
40 26 0.45
41 2 0.03
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.29
Consensus pattern (38 bp):
TGTGAGCCCAGTCTAGTTGGATAAACCAACGTAATTAT
Found at i:90395070 original size:21 final size:21
Alignment explanation
Indices: 90395029--90395071 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
90395019 TGACTTAAAG
**
90395029 ATTATATTAATTTTTTAAATT
1 ATTATATTAATTGATTAAATT
90395050 ATTAT-TTAATTGATTATAATT
1 ATTATATTAATTGATTA-AATT
90395071 A
1 A
90395072 AATAATTGAG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (21 bp):
ATTATATTAATTGATTAAATT
Found at i:90397321 original size:18 final size:19
Alignment explanation
Indices: 90397295--90397332 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
90397285 AAGCTATAAA
90397295 TATTAAGAA-ATTTGCTTC
1 TATTAAGAAGATTTGCTTC
* *
90397313 TATTTAGAAGATTTTCTTC
1 TATTAAGAAGATTTGCTTC
90397332 T
1 T
90397333 CTCATTCAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.29, C:0.11, G:0.11, T:0.50
Consensus pattern (19 bp):
TATTAAGAAGATTTGCTTC
Found at i:90418837 original size:2 final size:2
Alignment explanation
Indices: 90418830--90418854 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
90418820 ACGAAAAGTG
90418830 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
90418855 TGCAATGATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:90425690 original size:33 final size:33
Alignment explanation
Indices: 90425648--90425711 Score: 110
Period size: 33 Copynumber: 1.9 Consensus size: 33
90425638 ATGGGATTGG
* *
90425648 CCCTACTACTTTATACTACTATTTAATTAAGGA
1 CCCTACTACTCTATACTACTACTTAATTAAGGA
90425681 CCCTACTACTCTATACTACTACTTAATTAAG
1 CCCTACTACTCTATACTACTACTTAATTAAG
90425712 TTAGAGAGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.33, C:0.25, G:0.05, T:0.38
Consensus pattern (33 bp):
CCCTACTACTCTATACTACTACTTAATTAAGGA
Found at i:90427615 original size:25 final size:24
Alignment explanation
Indices: 90427553--90427619 Score: 66
Period size: 24 Copynumber: 2.8 Consensus size: 24
90427543 GAACACACCA
* *
90427553 CAGCTCATATGAGCTTACCGATTT
1 CAGCTCGTATGAGCATACCGATTT
*
90427577 CAGCTTGTGA-GAGCATACCGA-TT
1 CAGCTCGT-ATGAGCATACCGATTT
90427600 CATAGCTCGTATGAGCATAC
1 C--AGCTCGTATGAGCATAC
90427620 ATGTACAGGA
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
23 3 0.09
24 17 0.49
25 15 0.43
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (24 bp):
CAGCTCGTATGAGCATACCGATTT
Found at i:90434532 original size:7 final size:7
Alignment explanation
Indices: 90434520--90434544 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
90434510 GAACTTTTTG
90434520 TTTTAAT
1 TTTTAAT
90434527 TTTTAAT
1 TTTTAAT
90434534 TTTTAAT
1 TTTTAAT
90434541 TTTT
1 TTTT
90434545 GGGTTTGGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (7 bp):
TTTTAAT
Found at i:90435341 original size:24 final size:24
Alignment explanation
Indices: 90435313--90435362 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
90435303 TGTTTTAAAA
*
90435313 GATAATTTCATTATAGGTTAAAGT
1 GATAATTTCATTATAGATTAAAGT
90435337 GATAATTTCATTATAGATTAAAGT
1 GATAATTTCATTATAGATTAAAGT
90435361 GA
1 GA
90435363 ATGGAAGCTG
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:0.40, C:0.04, G:0.16, T:0.40
Consensus pattern (24 bp):
GATAATTTCATTATAGATTAAAGT
Found at i:90436344 original size:25 final size:27
Alignment explanation
Indices: 90436307--90436359 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
90436297 TCAAACATGC
90436307 ATTTAGGTCAATTTA-ACCCTAGGGGT
1 ATTTAGGTCAATTTATACCCTAGGGGT
* *
90436333 ATTTTGGT-AATTTATATCCTAGGGGT
1 ATTTAGGTCAATTTATACCCTAGGGGT
90436359 A
1 A
90436360 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 6 0.25
26 18 0.75
ACGTcount: A:0.26, C:0.11, G:0.23, T:0.40
Consensus pattern (27 bp):
ATTTAGGTCAATTTATACCCTAGGGGT
Found at i:90437876 original size:26 final size:26
Alignment explanation
Indices: 90437845--90437952 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
90437835 TGAAATGCCC
*
90437845 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
90437871 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
90437897 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
90437923 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
90437949 ATCA
1 ATCA
90437953 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:90442860 original size:31 final size:32
Alignment explanation
Indices: 90442816--90442877 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 32
90442806 GTTGGATATG
90442816 CATATATGAAATGAAA-ATG-ATGAGAATTTAT
1 CATATATGAAATGAAATATGCATG-GAATTTAT
90442847 CATATGATG-AATGAAATATGCATGGAATTTA
1 CATAT-ATGAAATGAAATATGCATGGAATTTA
90442878 CTTCTTAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
31 12 0.43
32 13 0.46
33 3 0.11
ACGTcount: A:0.45, C:0.05, G:0.18, T:0.32
Consensus pattern (32 bp):
CATATATGAAATGAAATATGCATGGAATTTAT
Found at i:90444082 original size:54 final size:54
Alignment explanation
Indices: 90443967--90444089 Score: 140
Period size: 54 Copynumber: 2.3 Consensus size: 54
90443957 ATTTCAAGTT
* *
90443967 AGTGAGTTACACGGTCTAGCACACAGCCTGCGACACGACCATGTGTCACAAGTC
1 AGTGAGTTACACGGTCTAGCACACAGCCTGCGACACGACCATGTGACACAACTC
* * * ** * **
90444021 AGAGAGTTACATGGTCTGGCACATTGCCTGCGACAC-AGCTATGTGACTTAACTC
1 AGTGAGTTACACGGTCTAGCACACAGCCTGCGACACGA-CCATGTGACACAACTC
90444075 AGTGAGTTACACGGT
1 AGTGAGTTACACGGT
90444090 TTAAGACAGG
Statistics
Matches: 56, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
53 1 0.02
54 55 0.98
ACGTcount: A:0.27, C:0.25, G:0.25, T:0.23
Consensus pattern (54 bp):
AGTGAGTTACACGGTCTAGCACACAGCCTGCGACACGACCATGTGACACAACTC
Found at i:90445187 original size:6 final size:6
Alignment explanation
Indices: 90445176--90445209 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
90445166 AAGTGACTTT
90445176 TTATAA TTATAA TTATAA TTATAA TTATAA TTAT
1 TTATAA TTATAA TTATAA TTATAA TTATAA TTAT
90445210 TATGTTTTAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (6 bp):
TTATAA
Found at i:90452148 original size:22 final size:22
Alignment explanation
Indices: 90452120--90452167 Score: 96
Period size: 22 Copynumber: 2.2 Consensus size: 22
90452110 AAACATGCTC
90452120 AAACCAATTTGGCCAATTGCCT
1 AAACCAATTTGGCCAATTGCCT
90452142 AAACCAATTTGGCCAATTGCCT
1 AAACCAATTTGGCCAATTGCCT
90452164 AAAC
1 AAAC
90452168 ACATATCCTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.35, C:0.27, G:0.12, T:0.25
Consensus pattern (22 bp):
AAACCAATTTGGCCAATTGCCT
Found at i:90461441 original size:31 final size:32
Alignment explanation
Indices: 90461406--90461482 Score: 88
Period size: 31 Copynumber: 2.5 Consensus size: 32
90461396 ATGATGCTAG
* *
90461406 AGATATTTTAATATTTTA-TAATTA-TTTAATT
1 AGATATTTTATTATTTTATTAA-TACTTTAATA
**
90461437 AGATA-AATATTATTTTATTAATACTTTAATA
1 AGATATTTTATTATTTTATTAATACTTTAATA
90461468 AGATATTTTATTATT
1 AGATATTTTATTATT
90461483 ATTTTATTAG
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
30 11 0.30
31 19 0.51
32 7 0.19
ACGTcount: A:0.40, C:0.01, G:0.04, T:0.55
Consensus pattern (32 bp):
AGATATTTTATTATTTTATTAATACTTTAATA
Found at i:90463736 original size:46 final size:46
Alignment explanation
Indices: 90463669--90463969 Score: 413
Period size: 46 Copynumber: 6.7 Consensus size: 46
90463659 TGGCAACCTG
*
90463669 TGTGCAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
90463715 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACC-----TG---
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
90463753 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
*
90463799 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAGA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
* *
90463845 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
* ** * *
90463891 AGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG-AAA
* * * *
90463937 TGAGTAAGACCATTGTTGAAAGACACTATGGCA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCA
90463970 TCACGTCAAA
Statistics
Matches: 232, Mismatches: 14, Indels: 18
0.88 0.05 0.07
Matches are distributed among these distances:
38 36 0.16
41 2 0.01
43 2 0.01
45 1 0.00
46 191 0.82
ACGTcount: A:0.38, C:0.16, G:0.25, T:0.22
Consensus pattern (46 bp):
TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
Found at i:90463762 original size:84 final size:84
Alignment explanation
Indices: 90463620--90463925 Score: 486
Period size: 84 Copynumber: 3.5 Consensus size: 84
90463610 AGTGTGCTCT
*
90463620 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGCAAGACCATGGT
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGT
90463685 TGAAAGATACCATGGCAAC
66 TGAAAGATACCATGGCAAC
90463704 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGT
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGT
90463769 TGAAAGATACCATGGCAAC
66 TGAAAGATACCATGGCAAC
90463788 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAGATGTGTAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC-----T--G-TGTGTAAG
90463853 ACCATGGTTGAAAGATACCATGGCAAC
58 ACCATGGTTGAAAGATACCATGGCAAC
* * * **
90463880 GTGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
90463926 ATGACAGAAA
Statistics
Matches: 208, Mismatches: 6, Indels: 8
0.94 0.03 0.04
Matches are distributed among these distances:
84 130 0.62
89 1 0.00
91 1 0.00
92 76 0.37
ACGTcount: A:0.36, C:0.16, G:0.25, T:0.23
Consensus pattern (84 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGT
TGAAAGATACCATGGCAAC
Found at i:90464275 original size:23 final size:25
Alignment explanation
Indices: 90464230--90464276 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
90464220 AATAAATATA
*
90464230 CATAAAATATATGGAAATGATGAAG
1 CATAAAATATATGGAAATAATGAAG
*
90464255 CATAAAATAT-T-GATATAATGAA
1 CATAAAATATATGGAAATAATGAA
90464277 ATGAATGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.45
24 1 0.05
25 10 0.50
ACGTcount: A:0.53, C:0.04, G:0.15, T:0.28
Consensus pattern (25 bp):
CATAAAATATATGGAAATAATGAAG
Found at i:90465688 original size:23 final size:24
Alignment explanation
Indices: 90465662--90465706 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
90465652 ATTTAATTCG
*
90465662 ATTAAATTAAAAAAAT-AAATTGA
1 ATTAAAATAAAAAAATCAAATTGA
*
90465685 ATTAAAATAATAAAATCAAATT
1 ATTAAAATAAAAAAATCAAATT
90465707 CTTTAATTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 14 0.74
24 5 0.26
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.31
Consensus pattern (24 bp):
ATTAAAATAAAAAAATCAAATTGA
Found at i:90466137 original size:13 final size:13
Alignment explanation
Indices: 90466119--90466145 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
90466109 ACCCCTTAAC
90466119 AATAGAAGATAGT
1 AATAGAAGATAGT
90466132 AATAGAAGATAGT
1 AATAGAAGATAGT
90466145 A
1 A
90466146 TCTCTTAAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.56, C:0.00, G:0.22, T:0.22
Consensus pattern (13 bp):
AATAGAAGATAGT
Found at i:90471229 original size:172 final size:171
Alignment explanation
Indices: 90470921--90471234 Score: 423
Period size: 172 Copynumber: 1.8 Consensus size: 171
90470911 AATAAAATAC
* * * * *
90470921 AACAACAAAATGTATAAATATAGTGTTTTAAAAAAAATTGTTATTTTCGAAAAGAAAAAAATCAC
1 AACAACAAAAGGGATAAATATAGTGTTTTAAAAAAAATTATGATTTTCAAAAAGAAAAAAATCAC
* * *
90470986 ATCTGCGACAACCGTTATGCATTACGTAACATCCACCGTATTCGCAACCGCAACACCACAACCCA
66 ATCTACGACAACCGTTATGCATTACGTAACATCCACAGTATTCGCAACCACAACACCACAACCCA
90471051 ATGTTGTTTGAATCTGACTAATTGATCGGGCCGGTTGAACT
131 ATGTTGTTTGAATCTGACTAATTGATCGGGCCGGTTGAACT
90471092 AACAACAAAAGGGATAAATATAGTGTTTTAAAAAAAAATTATGATTTTCAAAAAGAAAAAAATCA
1 AACAACAAAAGGGATAAATATAGTGTTTT-AAAAAAAATTATGATTTTCAAAAAGAAAAAAATCA
* ** * * * * * * * *
90471157 CGTCTACGACAACCGTTATGTGTTATGTAACGTCCATAGTA-TCTGTAACCATAATACCGCAATC
65 CATCTACGACAACCGTTATGCATTACGTAACATCCACAGTATTC-GCAACCACAACACCACAACC
*
90471221 CGATGTTGTTTGAA
129 CAATGTTGTTTGAA
90471235 CTGGACCTAT
Statistics
Matches: 121, Mismatches: 20, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
171 29 0.24
172 92 0.76
ACGTcount: A:0.40, C:0.18, G:0.15, T:0.28
Consensus pattern (171 bp):
AACAACAAAAGGGATAAATATAGTGTTTTAAAAAAAATTATGATTTTCAAAAAGAAAAAAATCAC
ATCTACGACAACCGTTATGCATTACGTAACATCCACAGTATTCGCAACCACAACACCACAACCCA
ATGTTGTTTGAATCTGACTAATTGATCGGGCCGGTTGAACT
Found at i:90471372 original size:32 final size:32
Alignment explanation
Indices: 90471317--90471392 Score: 91
Period size: 32 Copynumber: 2.4 Consensus size: 32
90471307 ATTAGACCAA
* * *
90471317 GAACCGACAATTGAACAAGCTAAAAACTGATT
1 GAACTGACGATTGAACAAGCTAAAAACCGATT
* *
90471349 GAATTGATGATTGAATCAA-CTAAAAACCGATT
1 GAACTGACGATTGAA-CAAGCTAAAAACCGATT
90471381 GAACTGACGATT
1 GAACTGACGATT
90471393 AAACCGAGTT
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
32 33 0.92
33 3 0.08
ACGTcount: A:0.43, C:0.16, G:0.17, T:0.24
Consensus pattern (32 bp):
GAACTGACGATTGAACAAGCTAAAAACCGATT
Found at i:90472559 original size:71 final size:73
Alignment explanation
Indices: 90472461--90472601 Score: 223
Period size: 71 Copynumber: 2.0 Consensus size: 73
90472451 AAACTTTTTA
*
90472461 ATAATTTAGTGATCAAATTGTAATTTTTTTT-GGTTAAGTGATTAA-GGTCTATTTGTTTGCCAG
1 ATAATTTAGTGATCAAATTGTAATTTTTTTTCGGTTAAGTGATTAAGGGTCCATTTGTTTGCCAG
90472524 GAAAATGT
66 GAAAATGT
* * * *
90472532 ATAATTTAGTGATCAAATTGTATTTTTTTTTCTGTTAAGTGATTAAGGGTCCGTTTGTTTGCTAG
1 ATAATTTAGTGATCAAATTGTAATTTTTTTTCGGTTAAGTGATTAAGGGTCCATTTGTTTGCCAG
90472597 GAAAA
66 GAAAA
90472602 CATTTTTCGG
Statistics
Matches: 63, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
71 30 0.48
72 13 0.21
73 20 0.32
ACGTcount: A:0.28, C:0.06, G:0.20, T:0.45
Consensus pattern (73 bp):
ATAATTTAGTGATCAAATTGTAATTTTTTTTCGGTTAAGTGATTAAGGGTCCATTTGTTTGCCAG
GAAAATGT
Found at i:90472877 original size:17 final size:17
Alignment explanation
Indices: 90472855--90472902 Score: 50
Period size: 17 Copynumber: 3.1 Consensus size: 17
90472845 CTATATTTCA
90472855 TGTTTGGATTTTGCATC
1 TGTTTGGATTTTGCATC
*
90472872 TGTTT-G--TTT-AATC
1 TGTTTGGATTTTGCATC
*
90472885 TATTTGGATTTTGCATC
1 TGTTTGGATTTTGCATC
90472902 T
1 T
90472903 TTCAACTGCT
Statistics
Matches: 24, Mismatches: 3, Indels: 8
0.69 0.09 0.23
Matches are distributed among these distances:
13 7 0.29
14 4 0.17
16 4 0.17
17 9 0.38
ACGTcount: A:0.15, C:0.10, G:0.19, T:0.56
Consensus pattern (17 bp):
TGTTTGGATTTTGCATC
Found at i:90474311 original size:13 final size:13
Alignment explanation
Indices: 90474293--90474317 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
90474283 ATTAAAACTT
90474293 AATTAATATAGTC
1 AATTAATATAGTC
90474306 AATTAATATAGT
1 AATTAATATAGT
90474318 TTTTGTTGAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.04, G:0.08, T:0.40
Consensus pattern (13 bp):
AATTAATATAGTC
Found at i:90476090 original size:32 final size:32
Alignment explanation
Indices: 90476041--90476124 Score: 107
Period size: 32 Copynumber: 2.6 Consensus size: 32
90476031 TTGAAATTTT
*
90476041 AGTTTGTTGGATTTTGAAATTATTATGTCTTGA
1 AGTTTGTTGGATATTGAAATTATTATGT-TTGA
* * *
90476074 A-TTTGTTAGATATTGAATTTATTATGTTTTA
1 AGTTTGTTGGATATTGAAATTATTATGTTTGA
*
90476105 AGCTTGTTGGATATTGAAAT
1 AGTTTGTTGGATATTGAAAT
90476125 GATTGACAAT
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
31 4 0.09
32 38 0.88
33 1 0.02
ACGTcount: A:0.27, C:0.02, G:0.19, T:0.51
Consensus pattern (32 bp):
AGTTTGTTGGATATTGAAATTATTATGTTTGA
Found at i:90477299 original size:20 final size:20
Alignment explanation
Indices: 90477274--90477317 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
90477264 CACATAATAG
90477274 TAAACAAATAAAGGAATAAA
1 TAAACAAATAAAGGAATAAA
* *
90477294 TAAACATATAAATGAATAAA
1 TAAACAAATAAAGGAATAAA
90477314 TAAA
1 TAAA
90477318 TCATATATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.68, C:0.05, G:0.07, T:0.20
Consensus pattern (20 bp):
TAAACAAATAAAGGAATAAA
Found at i:90478476 original size:16 final size:17
Alignment explanation
Indices: 90478452--90478492 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 17
90478442 AAGAAAAATG
*
90478452 AAGATAAAAATAAAG-A
1 AAGAAAAAAATAAAGCA
*
90478468 AAGAAAAAAATAGAGCA
1 AAGAAAAAAATAAAGCA
90478485 AAGAAAAA
1 AAGAAAAA
90478493 GAACCACCTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 13 0.59
17 9 0.41
ACGTcount: A:0.76, C:0.02, G:0.15, T:0.07
Consensus pattern (17 bp):
AAGAAAAAAATAAAGCA
Found at i:90479369 original size:97 final size:96
Alignment explanation
Indices: 90479262--90479548 Score: 324
Period size: 97 Copynumber: 3.0 Consensus size: 96
90479252 TAAGATCCGT
* * *
90479262 AACTTGTAGCTTCAATCTGCTCCACTGCAACTTCAAGGAAATAATATTTGCTATCTTCAGTCTGC
1 AACTTGTAGCTTCAATCTACTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGC
* *
90479327 TTCTACTGAAACTTTAGTGAGATAAGACTCGC
66 TTCTACTGAAACTTAAG-GAGATAAGACTCAC
* * * *
90479359 AACTTTTAGCTTCAATCTACTCCACTGCAACTTCAGGGAAAGAAGATCTGCTATCTTCAGTCTAC
1 AACTTGTAGCTTCAATCTACTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGC
* *
90479424 TCCTACTGCAACTTCAAGGAGATAAGACTCAC
66 TTCTACTGAAACTT-AAGGAGATAAGACTCAC
* * * * * * * * *
90479456 AGCCTGTAGCTTCAATCTACTCCACAGTAAATTTAGGGAAATGAGATTCGCTATCTTCAGTATGC
1 AACTTGTAGCTTCAATCTACTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGC
** * *
90479521 -TCCGCTGTAACTTCAGGGAGATAAGACT
66 TTCTACTGAAACTT-AAGGAGATAAGACT
90479549 GGTGGCTTCA
Statistics
Matches: 160, Mismatches: 29, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
96 23 0.14
97 135 0.84
98 2 0.01
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.30
Consensus pattern (96 bp):
AACTTGTAGCTTCAATCTACTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGC
TTCTACTGAAACTTAAGGAGATAAGACTCAC
Found at i:90479423 original size:45 final size:45
Alignment explanation
Indices: 90479365--90479581 Score: 145
Period size: 45 Copynumber: 4.7 Consensus size: 45
90479355 TCGCAACTTT
90479365 TAGCTTCAATCTACTCCACTGCAACTTCAGGGAAAGAAGATCTGC
1 TAGCTTCAATCTACTCCACTGCAACTTCAGGGAAAGAAGATCTGC
* * * *
90479410 TATCTTCAGTCTACTCCTACTGCAACTTCAAGGAGATAAGACTCACAGCCTG-
1 TAGCTTCAATCTACTCC-ACTGCAACTTC-AGG-GA-AAGA---AGA-TCTGC
* * * *
90479462 TAGCTTCAATCTACTCCACAGTAAATTTAGGGAAATG-AGAT-TCGC
1 TAGCTTCAATCTACTCCACTGCAACTTCAGGGAAA-GAAGATCT-GC
* * * * * * * * *
90479507 TATCTTCAGTATGCTCCGCTGTAACTTCAGGGAGATAAGA-CTGG
1 TAGCTTCAATCTACTCCACTGCAACTTCAGGGAAAGAAGATCTGC
* *
90479551 TGGCTTCAATCTGCTCCACTGCAACTTCAGG
1 TAGCTTCAATCTACTCCACTGCAACTTCAGG
90479582 AAGATAAGAT
Statistics
Matches: 130, Mismatches: 29, Indels: 27
0.70 0.16 0.15
Matches are distributed among these distances:
43 1 0.01
44 27 0.21
45 47 0.36
46 11 0.08
47 3 0.02
48 4 0.03
49 7 0.05
50 3 0.02
51 7 0.05
52 17 0.13
53 3 0.02
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (45 bp):
TAGCTTCAATCTACTCCACTGCAACTTCAGGGAAAGAAGATCTGC
Found at i:90479476 original size:52 final size:49
Alignment explanation
Indices: 90479331--90479480 Score: 130
Period size: 52 Copynumber: 3.0 Consensus size: 49
90479321 GTCTGCTTCT
* * * * *
90479331 ACTGAAACTTTAGTGAGATAAGACTCGCAACTTTTAGCTTCAATCTACTCC
1 ACTGCAACTTCAG-GAGATAAGACTCAC-ACCTGTAGCTTCAATCTACTCC
* * * *
90479382 ACTGCAACTTCAGG-GA-AAGA---AGATCTGCTATCTTCAGTCTACTCC
1 ACTGCAACTTCAGGAGATAAGACTCACACCTG-TAGCTTCAATCTACTCC
90479427 TACTGCAACTTCAAGGAGATAAGACTCACAGCCTGTAGCTTCAATCTACTCC
1 -ACTGCAACTTC-AGGAGATAAGACTCACA-CCTGTAGCTTCAATCTACTCC
90479479 AC
1 AC
90479481 AGTAAATTTA
Statistics
Matches: 77, Mismatches: 13, Indels: 18
0.71 0.12 0.17
Matches are distributed among these distances:
44 2 0.03
45 15 0.19
46 11 0.14
47 3 0.04
48 6 0.08
49 6 0.08
50 1 0.01
51 13 0.17
52 17 0.22
53 3 0.04
ACGTcount: A:0.31, C:0.27, G:0.15, T:0.27
Consensus pattern (49 bp):
ACTGCAACTTCAGGAGATAAGACTCACACCTGTAGCTTCAATCTACTCC
Found at i:90479765 original size:45 final size:44
Alignment explanation
Indices: 90479701--90479823 Score: 113
Period size: 44 Copynumber: 2.8 Consensus size: 44
90479691 TAGTGGCTTT
* * * * *
90479701 AATCTGCTTCACTGCAACTTCAAGAAGATAAGATCCGCCATCTTC
1 AATCTACTCCACTGTAACTTCAAGAAGATAAGAT-CGACAACTTC
* * * *
90479746 GATCTACTCCACTGTAACTTTAAGAAAATAAGATCTACAACTTC
1 AATCTACTCCACTGTAACTTCAAGAAGATAAGATCGACAACTTC
* * *
90479790 AATCTGCTCCACTGCT-ACTTCAGGAAGATGAGAT
1 AATCTACTCCACTG-TAACTTCAAGAAGATAAGAT
90479824 TTGTGGATTC
Statistics
Matches: 62, Mismatches: 15, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
44 33 0.53
45 29 0.47
ACGTcount: A:0.33, C:0.25, G:0.14, T:0.28
Consensus pattern (44 bp):
AATCTACTCCACTGTAACTTCAAGAAGATAAGATCGACAACTTC
Found at i:90480736 original size:1 final size:1
Alignment explanation
Indices: 90480730--90480811 Score: 74
Period size: 1 Copynumber: 82.0 Consensus size: 1
90480720 TGGCCTCTTC
* ** * * * * * *
90480730 TTTTTTTTTTCTTTTTTTTTTTCATTTTTGTTTTCTCTTTTTTTTTTTATTTTTTTTGTTTTTCT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
*
90480795 TTTTTTTTTTATTTTTT
1 TTTTTTTTTTTTTTTTT
90480812 AAGGTGAAAT
Statistics
Matches: 62, Mismatches: 19, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 62 1.00
ACGTcount: A:0.04, C:0.06, G:0.02, T:0.88
Consensus pattern (1 bp):
T
Found at i:90480745 original size:12 final size:12
Alignment explanation
Indices: 90480730--90480811 Score: 92
Period size: 12 Copynumber: 6.4 Consensus size: 12
90480720 TGGCCTCTTC
90480730 TTTTTTTTTTCT
1 TTTTTTTTTTCT
90480742 TTTTTTTTTTCAT
1 TTTTTTTTTTC-T
*
90480755 TTTTGTTTTCTCTT
1 TTTT-TTTTTTC-T
*
90480769 TTTTTTTTTATTT
1 TTTTTTTTT-TCT
90480782 TTTTTGTTTTTCT
1 TTTTT-TTTTTCT
*
90480795 TTTTTTTTTTAT
1 TTTTTTTTTTCT
90480807 TTTTT
1 TTTTT
90480812 AAGGTGAAAT
Statistics
Matches: 60, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
12 22 0.37
13 22 0.37
14 16 0.27
ACGTcount: A:0.04, C:0.06, G:0.02, T:0.88
Consensus pattern (12 bp):
TTTTTTTTTTCT
Found at i:90480747 original size:14 final size:14
Alignment explanation
Indices: 90480725--90480804 Score: 85
Period size: 14 Copynumber: 5.9 Consensus size: 14
90480715 CGCTTTGGCC
*
90480725 TCTTCTTTTTTTTT
1 TCTTTTTTTTTTTT
90480739 TC--TTTTTTTTTT
1 TCTTTTTTTTTTTT
* * *
90480751 TCATTTTTGTTTTC
1 TCTTTTTTTTTTTT
*
90480765 TCTTTTTTTTTTTA
1 TCTTTTTTTTTTTT
*
90480779 T-TTTTTTTGTTTT
1 TCTTTTTTTTTTTT
90480792 TCTTTTTTTTTTT
1 TCTTTTTTTTTTT
90480805 ATTTTTTAAG
Statistics
Matches: 54, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
12 11 0.20
13 11 0.20
14 32 0.59
ACGTcount: A:0.03, C:0.09, G:0.03, T:0.86
Consensus pattern (14 bp):
TCTTTTTTTTTTTT
Found at i:90480805 original size:27 final size:27
Alignment explanation
Indices: 90480730--90480811 Score: 118
Period size: 27 Copynumber: 3.1 Consensus size: 27
90480720 TGGCCTCTTC
90480730 TTTTT-TTTTTCTTTTTTTTTTTCA---
1 TTTTTGTTTTTCTTTTTTTTTTT-ATTT
90480754 TTTTTGTTTTCTCTTTTTTTTTTTATTT
1 TTTTTGTTTT-TCTTTTTTTTTTTATTT
90480782 TTTTTGTTTTTCTTTTTTTTTTTATTT
1 TTTTTGTTTTTCTTTTTTTTTTTATTT
90480809 TTT
1 TTT
90480812 AAGGTGAAAT
Statistics
Matches: 53, Mismatches: 0, Indels: 7
0.88 0.00 0.12
Matches are distributed among these distances:
24 5 0.09
25 5 0.09
26 13 0.25
27 20 0.38
28 10 0.19
ACGTcount: A:0.04, C:0.06, G:0.02, T:0.88
Consensus pattern (27 bp):
TTTTTGTTTTTCTTTTTTTTTTTATTT
Found at i:90481358 original size:4 final size:4
Alignment explanation
Indices: 90481349--90481379 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
90481339 TTATTATTAT
90481349 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
90481380 TTTTGCCTCC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:90486063 original size:17 final size:16
Alignment explanation
Indices: 90486041--90486108 Score: 55
Period size: 17 Copynumber: 3.9 Consensus size: 16
90486031 GTGCTAGAAT
90486041 AATAAATAAATAAACTA
1 AATAAATAAATAAAC-A
*
90486058 AATAAATAGATAACACGA
1 AATAAATAAATAA-AC-A
*
90486076 TATAAATAATATTAAACA
1 AATAAATAA-A-TAAACA
*
90486094 AATAGAATGAATAAA
1 AATA-AATAAATAAA
90486109 TATTACGTAA
Statistics
Matches: 41, Mismatches: 6, Indels: 8
0.75 0.11 0.15
Matches are distributed among these distances:
17 16 0.39
18 15 0.37
19 7 0.17
20 3 0.07
ACGTcount: A:0.65, C:0.06, G:0.06, T:0.24
Consensus pattern (16 bp):
AATAAATAAATAAACA
Found at i:90488790 original size:5 final size:5
Alignment explanation
Indices: 90488780--90488805 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
90488770 ATATATATAT
90488780 ATAAA ATAAA ATAAA ATAAA ATAAA A
1 ATAAA ATAAA ATAAA ATAAA ATAAA A
90488806 CCCAAAACTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
ATAAA
Found at i:90490921 original size:41 final size:43
Alignment explanation
Indices: 90490864--90490947 Score: 145
Period size: 41 Copynumber: 2.0 Consensus size: 43
90490854 GGGGGCACTT
*
90490864 GTCCTGCAATAATTCAAAA-TTTAACATG-ACAAACTATTAGC
1 GTCCTGAAATAATTCAAAATTTTAACATGAACAAACTATTAGC
90490905 GTCCTGAAATAATTCAAAATTTTAACATGAACAAACTATTAGC
1 GTCCTGAAATAATTCAAAATTTTAACATGAACAAACTATTAGC
90490948 TTTATGTCGT
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
41 18 0.45
42 9 0.22
43 13 0.32
ACGTcount: A:0.43, C:0.18, G:0.10, T:0.30
Consensus pattern (43 bp):
GTCCTGAAATAATTCAAAATTTTAACATGAACAAACTATTAGC
Found at i:90499704 original size:29 final size:29
Alignment explanation
Indices: 90499662--90499719 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
90499652 CAAACTCAAG
90499662 AATGCATCTCAACATATCCTTGAGTATCT
1 AATGCATCTCAACATATCCTTGAGTATCT
90499691 AATGCATCTCAACATATCCTTGAGTATCT
1 AATGCATCTCAACATATCCTTGAGTATCT
90499720 GAAAAATCCG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.31, C:0.24, G:0.10, T:0.34
Consensus pattern (29 bp):
AATGCATCTCAACATATCCTTGAGTATCT
Found at i:90509404 original size:39 final size:39
Alignment explanation
Indices: 90509358--90509435 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
90509348 CTTTAGCAAG
90509358 ACCGAATTATCGAACCCAAAGGAACTAAAATTACTAGTA
1 ACCGAATTATCGAACCCAAAGGAACTAAAATTACTAGTA
90509397 ACCGAATTATCGAACCCAAAGGAACTAAAATTACTAGTA
1 ACCGAATTATCGAACCCAAAGGAACTAAAATTACTAGTA
90509436 TCAACTTTCT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.46, C:0.21, G:0.13, T:0.21
Consensus pattern (39 bp):
ACCGAATTATCGAACCCAAAGGAACTAAAATTACTAGTA
Found at i:90515474 original size:43 final size:42
Alignment explanation
Indices: 90515427--90515521 Score: 111
Period size: 42 Copynumber: 2.2 Consensus size: 42
90515417 TCTCAGACGT
* *
90515427 GGTCTTACATGTAATCAAACATCGATGCC-ACTGTCCCAAATAG
1 GGTCTTACACGAAATCAAACA-CGATGCCGA-TGTCCCAAATAG
* * *
90515470 GGTCTTACACGAAATCAGATACGATGCCGATGTCCCAAATAT
1 GGTCTTACACGAAATCAAACACGATGCCGATGTCCCAAATAG
*
90515512 GGTTTTACAC
1 GGTCTTACAC
90515522 TTAAAACAGA
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
42 27 0.60
43 18 0.40
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.26
Consensus pattern (42 bp):
GGTCTTACACGAAATCAAACACGATGCCGATGTCCCAAATAG
Found at i:90518741 original size:3 final size:3
Alignment explanation
Indices: 90518733--90518772 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
90518723 TTCCTTTCAC
90518733 TAA TAA TAA T-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
90518773 TCGAATGAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.06
3 34 0.94
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:90524229 original size:24 final size:20
Alignment explanation
Indices: 90524215--90524254 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
90524205 AAACTATTAG
90524215 AAATAACTTATAATAAAATATT
1 AAATAA-TTA-AATAAAATATT
90524237 AAATAATTAAATAAAATA
1 AAATAATTAAATAAAATA
90524255 ATTTATCATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 9 0.50
21 3 0.17
22 6 0.33
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.33
Consensus pattern (20 bp):
AAATAATTAAATAAAATATT
Found at i:90524678 original size:27 final size:29
Alignment explanation
Indices: 90524637--90524697 Score: 108
Period size: 28 Copynumber: 2.2 Consensus size: 29
90524627 AGCCCCCAAA
90524637 AAAAACCTAATCCAAAAAAAAAAAA-AAG
1 AAAAACCTAATCCAAAAAAAAAAAAGAAG
90524665 AAAAACCTAA-CCAAAAAAAAAAAAGAAG
1 AAAAACCTAATCCAAAAAAAAAAAAGAAG
90524693 AAAAA
1 AAAAA
90524698 AGAAAAACCT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
27 14 0.44
28 18 0.56
ACGTcount: A:0.77, C:0.13, G:0.05, T:0.05
Consensus pattern (29 bp):
AAAAACCTAATCCAAAAAAAAAAAAGAAG
Found at i:90524682 original size:19 final size:19
Alignment explanation
Indices: 90524658--90524723 Score: 75
Period size: 19 Copynumber: 3.6 Consensus size: 19
90524648 CCAAAAAAAA
90524658 AAAAAAGAAAAACCTAACC
1 AAAAAAGAAAAACCTAACC
** *
90524677 AAAAAA-AAAAA-AGAA-G
1 AAAAAAGAAAAACCTAACC
90524693 AAAAAAGAAAAACCTAACC
1 AAAAAAGAAAAACCTAACC
*
90524712 AAAAAATAAAAA
1 AAAAAAGAAAAA
90524724 TAAAAAACCT
Statistics
Matches: 37, Mismatches: 7, Indels: 6
0.74 0.14 0.12
Matches are distributed among these distances:
16 6 0.16
17 7 0.19
18 7 0.19
19 17 0.46
ACGTcount: A:0.77, C:0.12, G:0.06, T:0.05
Consensus pattern (19 bp):
AAAAAAGAAAAACCTAACC
Found at i:90524702 original size:35 final size:33
Alignment explanation
Indices: 90524650--90524730 Score: 126
Period size: 35 Copynumber: 2.4 Consensus size: 33
90524640 AACCTAATCC
90524650 AAAAAAAAAAAAAAGAAAAACCTAACCAAAAAA
1 AAAAAAAAAAAAAAGAAAAACCTAACCAAAAAA
90524683 AAAAAAGAAGAAAAAAGAAAAACCTAACCAAAAAA
1 AAAAAA-AA-AAAAAAGAAAAACCTAACCAAAAAA
* *
90524718 TAAAAATAAAAAA
1 AAAAAAAAAAAAA
90524731 CCTAGCCACC
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
33 11 0.25
34 3 0.07
35 30 0.68
ACGTcount: A:0.80, C:0.10, G:0.05, T:0.05
Consensus pattern (33 bp):
AAAAAAAAAAAAAAGAAAAACCTAACCAAAAAA
Found at i:90525272 original size:2 final size:2
Alignment explanation
Indices: 90525267--90525311 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
90525257 TAAATACTAT
*
90525267 TA TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
90525309 TA T
1 TA T
90525312 TTAAATACCA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:90529584 original size:9 final size:9
Alignment explanation
Indices: 90529567--90529605 Score: 53
Period size: 9 Copynumber: 4.3 Consensus size: 9
90529557 GACAGTCATG
*
90529567 AAAAGAAAA
1 AAAACAAAA
90529576 AAAACAAAA
1 AAAACAAAA
90529585 AAAACAAAA
1 AAAACAAAA
90529594 AGAAA-AAAA
1 A-AAACAAAA
90529603 AAA
1 AAA
90529606 GGACAAGAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
8 2 0.07
9 23 0.82
10 3 0.11
ACGTcount: A:0.90, C:0.05, G:0.05, T:0.00
Consensus pattern (9 bp):
AAAACAAAA
Found at i:90529587 original size:17 final size:16
Alignment explanation
Indices: 90529567--90529625 Score: 55
Period size: 17 Copynumber: 3.5 Consensus size: 16
90529557 GACAGTCATG
90529567 AAAAGAAAAAAAACAAAA
1 AAAAG-AAAAAAA-AAAA
*
90529585 AAAACAAAAAGAAAAAA
1 AAAAGAAAAA-AAAAAA
* * *
90529602 AAAAGGACAAGAAAAA
1 AAAAGAAAAAAAAAAA
90529618 AAAAGAAA
1 AAAAGAAA
90529626 TCAAATGCCA
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
16 11 0.33
17 16 0.48
18 6 0.18
ACGTcount: A:0.85, C:0.05, G:0.10, T:0.00
Consensus pattern (16 bp):
AAAAGAAAAAAAAAAA
Found at i:90532106 original size:76 final size:74
Alignment explanation
Indices: 90531966--90532667 Score: 478
Period size: 74 Copynumber: 9.4 Consensus size: 74
90531956 GTTTTTCAAA
* *
90531966 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATT
1 AAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGACACGCCGAGGTAATTTCAATT
90532031 TCTGTTGTC
66 TCTGTTGTC
* * *
90532040 AAAAAAATCAACTCGTATTGCGAGCGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGG--ACACGCCGAGGTAATTTCAA
* *
90532105 TTTCCGTTTTTC
64 TTTCTG-TTGTC
*** * * *
90532117 AATTTTTGTTTTTTAAAAA--AA-TCAACTCATATTGCGAGACGTGAGTTGAGCCTCGGGACACG
1 AA------------AAAAATCAACTC-A-T-ATTGCGAGAG--GCGAGTTGAGCCTCAGGACACG
* *
90532179 CTGAGGTAATTTCAATTTCTGTTTTC
49 CCGAGGTAATTTCAATTTCTGTTGTC
*** * * * *
90532205 --AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATT
1 AAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGACACGCCGAGGTAATTTCAATT
* *
90532268 TTTGTCTTTC
66 TCTGT-TGTC
* ** * * * *
90532278 -AAAAAATCAACTCATATTGCTAGAGTTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATT
1 AAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGACACGCCGAGGTAATTTCAATT
*
90532342 TTTG-TGT-
66 TCTGTTGTC
*** ** * * * *
90532349 TTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACATGCTGAGGTAATTTCAATT
1 AAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGACACGCCGAGGTAATTTCAATT
*
90532414 TCTGTT-TT
66 TCTGTTGTC
*** * * * *
90532422 AAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATT
1 AAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGACACGCCGAGGTAATTTCAATT
* *
90532487 TTTGTCT-TT
66 TCTGT-TGTC
*** * * * *
90532496 AAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATT
1 AAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGACACGCCGAGGTAATTTCAATT
*
90532561 TTTG-TGT-
66 TCTGTTGTC
*** ** * * **
90532568 TTTAATTTTAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGGTAATTTCAATT
1 AAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGACACGCCGAGGTAATTTCAATT
90532633 TCTGTTTGTC
66 TCTG-TTGTC
*
90532643 --AAGAATCAACTCATATTGCGAGAGG
1 AAAAAAATCAACTCATATTGCGAGAGG
90532668 TGGGTTGAAC
Statistics
Matches: 515, Mismatches: 80, Indels: 67
0.78 0.12 0.10
Matches are distributed among these distances:
72 156 0.30
73 85 0.17
74 181 0.35
75 1 0.00
76 26 0.05
77 8 0.02
86 2 0.00
87 2 0.00
88 6 0.01
89 33 0.06
91 15 0.03
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.33
Consensus pattern (74 bp):
AAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGACACGCCGAGGTAATTTCAATT
TCTGTTGTC
Found at i:90532234 original size:72 final size:73
Alignment explanation
Indices: 90532112--90532665 Score: 659
Period size: 72 Copynumber: 7.6 Consensus size: 73
90532102 CAATTTCCGT
* * **
90532112 TTTTCAATTTTTGTTTTTTAAAAAAATCAACTCATATTGCGAGACGTGAGTTGAGCCTCGGGACA
1 TTTTCAATTTTTG-TCTTT-CAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCGGGACA
90532177 CGCTGAGGTA
64 CGCTGAGGTA
* * ** *
90532187 ATTTCAATTTCTGT-TTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATG
1 TTTTCAATTTTTGTCTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCGGGACACG
90532251 CTGAGGTA
66 CTGAGGTA
* ** *
90532259 TTTTCAATTTTTGTCTTTCAAAAAATCAACTCATATTGCTAGAGTTGAGTTGAGCCTCGGGGCAC
1 TTTTCAATTTTTGTCTTTC-AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCGGGACAC
90532324 GCTGAGGTA
65 GCTGAGGTA
* * ** ** *
90532333 TTTTCAATTTTTGTGTTT-TAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACATG
1 TTTTCAATTTTTGTCTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCGGGACACG
90532397 CTGAGGTA
66 CTGAGGTA
* * * ** *
90532405 ATTTCAATTTCTGT-TTTAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACAT
1 TTTTCAATTTTTGTCTTT-CAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCGGGACAC
90532469 GCTGAGGTA
65 GCTGAGGTA
* *
90532478 TTTTCAATTTTTGTCTTTAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCGGGGCAC
1 TTTTCAATTTTTGTCTTT-CAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCGGGACAC
90532543 GCTGAGGTA
65 GCTGAGGTA
* * ** * ** *
90532552 TTTTCAATTTTTGTGTTT-TAATTTTAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
1 TTTTCAATTTTTGTCTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCGGGACACG
*
90532616 ATGAGGTA
66 CTGAGGTA
* * *
90532624 ATTTCAATTTCTGT-TTGTCAAGAATCAACTCATATTGCGAGA
1 TTTTCAATTTTTGTCTT-TCAAAAATCAACTCATATTGCGAGA
90532666 GGTGGGTTGA
Statistics
Matches: 415, Mismatches: 57, Indels: 16
0.85 0.12 0.03
Matches are distributed among these distances:
71 5 0.01
72 178 0.43
73 84 0.20
74 137 0.33
75 11 0.03
ACGTcount: A:0.29, C:0.16, G:0.21, T:0.35
Consensus pattern (73 bp):
TTTTCAATTTTTGTCTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCGGGACACG
CTGAGGTA
Found at i:90532396 original size:146 final size:144
Alignment explanation
Indices: 90532112--90532665 Score: 700
Period size: 146 Copynumber: 3.8 Consensus size: 144
90532102 CAATTTCCGT
*
90532112 TTTTCAATTTTTGTTTTTTAAAAAAATCAACTCATATTGCGAGACGTGAGTTGAGCCTCGGGACA
1 TTTTCAATTTTTG--TTTTAAAAAAATCAACTCATATTGCGAGA-GTGAGTTGAGCCTCAGGACA
*
90532177 CGCTGAGGTAATTTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCT
63 CGCTGAGGTAATTTCAATTTCTGTTTTAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCT
**
90532242 CAAGACATGCTGAGGTA
128 CGGGACATGCTGAGGTA
* * * *
90532259 TTTTCAATTTTTGTCTTTCAAAAAATCAACTCATATTGCTAGAGTTGAGTTGAGCCTCGGGGCAC
1 TTTTCAATTTTTGT-TTTAAAAAAATCAACTCATATTGCGAGAG-TGAGTTGAGCCTCAGGACAC
* * * ** **
90532324 GCTGAGGTATTTTCAATTTTTGTGTTT-TAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCT
64 GCTGAGGTAATTTCAATTTCTGT-TTTAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCT
90532388 CGGGACATGCTGAGGTA
128 CGGGACATGCTGAGGTA
* * * * *
90532405 ATTTCAATTTCTGTTTTAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATG
1 TTTTCAATTTTTGTTTTAAAAAAATCAACTCATATTGCGAG-AGTGAGTTGAGCCTCAGGACACG
* *
90532470 CTGAGGTATTTTCAATTTTTGTCTTTAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCT
65 CTGAGGTAATTTCAATTTCTGT-TTT-AAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCT
* *
90532535 CGGGGCACGCTGAGGTA
128 CGGGACATGCTGAGGTA
* ** *
90532552 TTTTCAATTTTTGTGTTT--TAATTTTAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
1 TTTTCAATTTTTGT-TTTAAAAAAATCAACTCATATTGCGAGA-GTGAGTTGAGCCTCAGGACAC
* * *
90532615 GATGAGGTAATTTCAATTTCTGTTTGTCAAGAATCAACTCATATTGCGAGA
64 GCTGAGGTAATTTCAATTTCTGTTT-TAAAAAATCAACTCATATTGCGAGA
90532666 GGTGGGTTGA
Statistics
Matches: 355, Mismatches: 43, Indels: 20
0.85 0.10 0.05
Matches are distributed among these distances:
145 94 0.26
146 183 0.52
147 75 0.21
148 3 0.01
ACGTcount: A:0.29, C:0.16, G:0.21, T:0.35
Consensus pattern (144 bp):
TTTTCAATTTTTGTTTTAAAAAAATCAACTCATATTGCGAGAGTGAGTTGAGCCTCAGGACACGC
TGAGGTAATTTCAATTTCTGTTTTAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCGG
GACATGCTGAGGTA
Found at i:90532516 original size:219 final size:218
Alignment explanation
Indices: 90532138--90532665 Score: 939
Period size: 219 Copynumber: 2.4 Consensus size: 218
90532128 TTTAAAAAAA
*
90532138 TCAACTCATATTGCGAGACGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTCTGTTT
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTCTGTTT
90532203 TCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATT
66 TCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATT
* * **
90532268 TTTGTCTTTCAAAAAATCAACTCATATTGCTAGAGTTGAGTTGAGCCTCGGGGCACGCTGAGGTA
131 TTTGTCTTTAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCGGGGCACGCTGAGGTA
90532333 TTTTCAATTTTTGTGTTTTAATT
196 TTTTCAATTTTTGTGTTTTAATT
*
90532356 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACATGCTGAGGTAATTTCAATTTCTGTTT
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTCTGTTT
*
90532421 TAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAAT
66 T-CAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAAT
90532486 TTTTGTCTTTAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCGGGGCACGCTGAGGT
130 TTTTGTCTTTAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCGGGGCACGCTGAGGT
90532551 ATTTTCAATTTTTGTGTTTTAATT
195 ATTTTCAATTTTTGTGTTTTAATT
* * *
90532575 TTAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGGTAATTTCAATTTCTGTTT
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTCTGTTT
*
90532640 GTCAAGAATCAACTCATATTGCGAGA
66 -TCAAAAATCAACTCATATTGCGAGA
90532666 GGTGGGTTGA
Statistics
Matches: 295, Mismatches: 13, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
218 64 0.22
219 230 0.78
220 1 0.00
ACGTcount: A:0.28, C:0.16, G:0.22, T:0.34
Consensus pattern (218 bp):
TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTCTGTTT
TCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATT
TTTGTCTTTAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCGGGGCACGCTGAGGTA
TTTTCAATTTTTGTGTTTTAATT
Found at i:90532859 original size:116 final size:117
Alignment explanation
Indices: 90532651--90532870 Score: 336
Period size: 116 Copynumber: 1.9 Consensus size: 117
90532641 TCAAGAATCA
*
90532651 ACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTTTCAAAATCAACTCATATTGC
1 ACTCATATTGCGAGAGGTGAGTTGAACCTTTTAATTTCTACTTTTTCAAAATCAACTCATATTGC
* *
90532716 GAGAAGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTTAGTTTTAAATTG
66 GAGAAGTGAGTCGAGCCTCAGGGCACGCTGAGGTATTTTTAGTTTTAAATTG
* **
90532768 ACTCATATTGCGAGAGGTGAGTT-AAGCCTTTTTATTT-TTGTTTTTCAAAATCAACTCATATTG
1 ACTCATATTGCGAGAGGTGAGTTGAA-CCTTTTAATTTCTACTTTTTCAAAATCAACTCATATTG
* * *
90532831 CTAGAGGTGAGTCGAGCCTCAGGTCACGCTGAGGTATTTT
65 CGAGAAGTGAGTCGAGCCTCAGGGCACGCTGAGGTATTTT
90532871 CAATTTTTGT
Statistics
Matches: 93, Mismatches: 9, Indels: 3
0.89 0.09 0.03
Matches are distributed among these distances:
116 61 0.66
117 32 0.34
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.36
Consensus pattern (117 bp):
ACTCATATTGCGAGAGGTGAGTTGAACCTTTTAATTTCTACTTTTTCAAAATCAACTCATATTGC
GAGAAGTGAGTCGAGCCTCAGGGCACGCTGAGGTATTTTTAGTTTTAAATTG
Found at i:90533038 original size:87 final size:87
Alignment explanation
Indices: 90532890--90533352 Score: 488
Period size: 87 Copynumber: 5.4 Consensus size: 87
90532880 TGTTTTAATT
90532890 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGAGTTACATATCGAGGTATTTTCAAAATCTGT
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGAGTTACATATCGAGGTATTTTCAAAATCTGT
90532955 TTTTCAAGTTAAGTTTCAAAAA
66 TTTTCAAGTTAAGTTTCAAAAA
*
90532977 TAAACTCATATTGCGAGAGGTGAGTTGAGCCTTGAGTTACATATCGAGGTATTTTCAAAATCTGT
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGAGTTACATATCGAGGTATTTTCAAAATCTGT
90533042 TTTTCAAGTTAAGTTTCAAAAA
66 TTTTCAAGTTAAGTTTCAAAAA
* * *** * **
90533064 TAAACTCATATTGCGAGAGGTGAGTTGAGCCTTG-GCT-CACGCGCTGAGCTATTTTCAATGTCT
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGAGTTACA-TATC-GAGGTATTTTCAAAATCT
* * * * *
90533127 ATTTTT-AATGTCT-ATTTTTAGAGAG
64 GTTTTTCAA-GT-TAAGTTTCA-AAAA
* ** * * * *
90533152 TCAATTCATATTGCGA-AAATGAGTTGA-ACTTCAGATCACACA-CTGAGGTA-TTT-----T-T
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGAG-TTACATATC-GAGGTATTTTCAAAATCT
* *
90533207 -TTTTTCAATTTATATTTTTCAAAAA
64 GTTTTTCAAGTTA-A-GTTTCAAAAA
* * * * *
90533232 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGAGTCACTTATTGAGGTATTTTCAAAATTTGC
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGAGTTACATATCGAGGTATTTTCAAAATCTGT
90533297 TTTTCAAGTTAAGTTTCAAAAA
66 TTTTCAAGTTAAGTTTCAAAAA
90533319 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTTG
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTTG
90533353 GCTCACGCGC
Statistics
Matches: 314, Mismatches: 39, Indels: 46
0.79 0.10 0.12
Matches are distributed among these distances:
78 1 0.00
79 6 0.02
80 21 0.07
81 26 0.08
82 8 0.03
85 2 0.01
86 11 0.04
87 208 0.66
88 19 0.06
89 12 0.04
ACGTcount: A:0.30, C:0.14, G:0.19, T:0.37
Consensus pattern (87 bp):
TCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGAGTTACATATCGAGGTATTTTCAAAATCTGT
TTTTCAAGTTAAGTTTCAAAAA
Found at i:90533145 original size:13 final size:13
Alignment explanation
Indices: 90533112--90533146 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
90533102 ACGCGCTGAG
*
90533112 CTATTTTCAATGT
1 CTATTTTTAATGT
90533125 CTATTTTTAATGT
1 CTATTTTTAATGT
90533138 CTATTTTTA
1 CTATTTTTA
90533147 GAGAGTCAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.23, C:0.11, G:0.06, T:0.60
Consensus pattern (13 bp):
CTATTTTTAATGT
Found at i:90534114 original size:27 final size:28
Alignment explanation
Indices: 90534073--90534169 Score: 108
Period size: 33 Copynumber: 3.3 Consensus size: 28
90534063 AGCCCCCAAA
90534073 AAAAACCTAATCCAAAAAA-AAAAAAAAG
1 AAAAACCTAA-CCAAAAAAGAAAAAAAAG
90534101 AAAAACCTAACCAAAAAAAAAAGAAGAAAAAAG
1 AAAAACCTAACC----AAAAAAGAA-AAAAAAG
* *
90534134 AAAAACCTAACCAAAAAATAAAAATAA-
1 AAAAACCTAACCAAAAAAGAAAAAAAAG
90534161 AAAAACCTA
1 AAAAACCTA
90534170 GCCACCTAAC
Statistics
Matches: 61, Mismatches: 2, Indels: 13
0.80 0.03 0.17
Matches are distributed among these distances:
27 11 0.18
28 15 0.25
29 8 0.13
31 6 0.10
32 2 0.03
33 19 0.31
ACGTcount: A:0.74, C:0.14, G:0.04, T:0.07
Consensus pattern (28 bp):
AAAAACCTAACCAAAAAAGAAAAAAAAG
Found at i:90534118 original size:19 final size:19
Alignment explanation
Indices: 90534094--90534157 Score: 66
Period size: 19 Copynumber: 3.6 Consensus size: 19
90534084 CCAAAAAAAA
90534094 AAAAAAGAAAAACCTAACC
1 AAAAAAGAAAAACCTAACC
* *
90534113 -AAAAA-AAAAA--GAA-G
1 AAAAAAGAAAAACCTAACC
90534127 AAAAAAGAAAAACCTAACC
1 AAAAAAGAAAAACCTAACC
*
90534146 AAAAAATAAAAA
1 AAAAAAGAAAAA
90534158 TAAAAAAACC
Statistics
Matches: 35, Mismatches: 5, Indels: 10
0.70 0.10 0.20
Matches are distributed among these distances:
15 7 0.20
16 5 0.14
17 5 0.14
18 7 0.20
19 11 0.31
ACGTcount: A:0.77, C:0.12, G:0.06, T:0.05
Consensus pattern (19 bp):
AAAAAAGAAAAACCTAACC
Found at i:90534136 original size:33 final size:31
Alignment explanation
Indices: 90534086--90534165 Score: 124
Period size: 33 Copynumber: 2.5 Consensus size: 31
90534076 AACCTAATCC
90534086 AAAAAAAAAAAAAAGAAAAACCTAACCAAAA
1 AAAAAAAAAAAAAAGAAAAACCTAACCAAAA
90534117 AAAAAAGAAGAAAAAAGAAAAACCTAACCAAAA
1 AAAAAA-AA-AAAAAAGAAAAACCTAACCAAAA
90534150 AATAAAAATAAAAAAA
1 AA-AAAAA-AAAAAAA
90534166 CCTAGCCACC
Statistics
Matches: 45, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
31 6 0.13
32 2 0.04
33 32 0.71
34 5 0.11
ACGTcount: A:0.80, C:0.10, G:0.05, T:0.05
Consensus pattern (31 bp):
AAAAAAAAAAAAAAGAAAAACCTAACCAAAA
Found at i:90534669 original size:24 final size:24
Alignment explanation
Indices: 90534632--90534691 Score: 70
Period size: 24 Copynumber: 2.5 Consensus size: 24
90534622 TTTTTAGGTA
90534632 TTTTATATATATTA-TGTATATATT
1 TTTTATATATATTAGT-TATATATT
90534656 TTTTA-ATATCATTAGTTATATATT
1 TTTTATATAT-ATTAGTTATATATT
* *
90534680 TCTTATGTATAT
1 TTTTATATATAT
90534692 ATTCTTAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
23 4 0.13
24 23 0.74
25 4 0.13
ACGTcount: A:0.32, C:0.03, G:0.05, T:0.60
Consensus pattern (24 bp):
TTTTATATATATTAGTTATATATT
Found at i:90534712 original size:2 final size:2
Alignment explanation
Indices: 90534707--90534739 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
90534697 TAAATACTAT
*
90534707 TA TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
90534740 TTTAAATACC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:90536366 original size:2 final size:2
Alignment explanation
Indices: 90536359--90536388 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
90536349 ACATACATAC
90536359 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
90536389 TAAGTTTTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Done.