Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr11
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: 61124829
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1263459 characters in sequence are not A, C, G, or T
File 119 of 205
Found at i:35795897 original size:41 final size:41
Alignment explanation
Indices: 35795820--35795897 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
35795810 TTAATAACTC
* * *
35795820 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
35795861 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
35795898 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:35801594 original size:12 final size:12
Alignment explanation
Indices: 35801579--35801609 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
35801569 TTCTTTTTGC
35801579 TTTTCAAAGGCT
1 TTTTCAAAGGCT
35801591 TTTTCAAAGGCT
1 TTTTCAAAGGCT
35801603 TTTTCAA
1 TTTTCAA
35801610 GTTCTCTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.26, C:0.16, G:0.13, T:0.45
Consensus pattern (12 bp):
TTTTCAAAGGCT
Found at i:35801686 original size:6 final size:6
Alignment explanation
Indices: 35801670--35801719 Score: 50
Period size: 6 Copynumber: 8.2 Consensus size: 6
35801660 TTTCTTTTTA
*
35801670 TTTCAT TTTCTT TTTCTT CTCTTGCTT TTTCTT TTTC-T TTTC-T TTTCTT
1 TTTCTT TTTCTT TTTCTT -T-TT-CTT TTTCTT TTTCTT TTTCTT TTTCTT
35801719 T
1 T
35801720 GTTTTCTCTT
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
5 10 0.26
6 20 0.51
7 3 0.08
8 3 0.08
9 3 0.08
ACGTcount: A:0.02, C:0.20, G:0.02, T:0.76
Consensus pattern (6 bp):
TTTCTT
Found at i:35801702 original size:37 final size:37
Alignment explanation
Indices: 35801659--35801729 Score: 101
Period size: 37 Copynumber: 1.9 Consensus size: 37
35801649 CTTGCCTCTC
35801659 TTTTCTTTTT-ATTTCATTTTCTTT-TTCTTCTCTTGCT
1 TTTTCTTTTTCATTTC-TTTTCTTTGTT-TTCTCTTGCT
*
35801696 TTTTCTTTTTCTTTTCTTTTCTTTGTTTTCTCTT
1 TTTTCTTTTTCATTTCTTTTCTTTGTTTTCTCTT
35801730 TACAAGAATG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
37 25 0.81
38 6 0.19
ACGTcount: A:0.03, C:0.18, G:0.03, T:0.76
Consensus pattern (37 bp):
TTTTCTTTTTCATTTCTTTTCTTTGTTTTCTCTTGCT
Found at i:35801730 original size:16 final size:16
Alignment explanation
Indices: 35801655--35801715 Score: 63
Period size: 16 Copynumber: 3.8 Consensus size: 16
35801645 GCCTCTTGCC
*
35801655 TCTCTTTTCTTTTTAT
1 TCTCTTTTCTTTTTCT
35801671 T-TCATTTTCTTTTTCT
1 TCTC-TTTTCTTTTTCT
*
35801687 TCTC-TTGCTTTTTCTT
1 TCTCTTTTCTTTTTC-T
*
35801703 TTTCTTTTCTTTT
1 TCTCTTTTCTTTT
35801716 CTTTGTTTTC
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
15 11 0.30
16 17 0.46
17 9 0.24
ACGTcount: A:0.03, C:0.20, G:0.02, T:0.75
Consensus pattern (16 bp):
TCTCTTTTCTTTTTCT
Found at i:35802683 original size:14 final size:13
Alignment explanation
Indices: 35802671--35802709 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
35802661 TTTTTTTTTC
35802671 TTTTTTCG-ATTT
1 TTTTTTCGAATTT
*
35802683 TTTTTTTGAATTT
1 TTTTTTCGAATTT
35802696 TTTTTTCTGAATTT
1 TTTTTTC-GAATTT
35802710 CTTCTCCTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
12 7 0.30
13 10 0.43
14 6 0.26
ACGTcount: A:0.13, C:0.05, G:0.08, T:0.74
Consensus pattern (13 bp):
TTTTTTCGAATTT
Found at i:35804508 original size:90 final size:90
Alignment explanation
Indices: 35804209--35804498 Score: 580
Period size: 90 Copynumber: 3.2 Consensus size: 90
35804199 TGATGGGCTC
35804209 GAATCAAGAAAATCAAGATTCACTTTCTTGTTTTCAAGAAAATCAAGAAACCGAATCTTGGCCCA
1 GAATCAAGAAAATCAAGATTCACTTTCTTGTTTTCAAGAAAATCAAGAAACCGAATCTTGGCCCA
35804274 ATTATGCTGTTCGAAGAGATTTCAA
66 ATTATGCTGTTCGAAGAGATTTCAA
35804299 GAATCAAGAAAATCAAGATTCACTTTCTTGTTTTCAAGAAAATCAAGAAACCGAATCTTGGCCCA
1 GAATCAAGAAAATCAAGATTCACTTTCTTGTTTTCAAGAAAATCAAGAAACCGAATCTTGGCCCA
35804364 ATTATGCTGTTCGAAGAGATTTCAA
66 ATTATGCTGTTCGAAGAGATTTCAA
35804389 GAATCAAGAAAATCAAGATTCACTTTCTTGTTTTCAAGAAAATCAAGAAACCGAATCTTGGCCCA
1 GAATCAAGAAAATCAAGATTCACTTTCTTGTTTTCAAGAAAATCAAGAAACCGAATCTTGGCCCA
35804454 ATTATGCTGTTCGAAGAGATTTCAA
66 ATTATGCTGTTCGAAGAGATTTCAA
35804479 GAATCAAGAAAATCAAGATT
1 GAATCAAGAAAATCAAGATT
35804499 TCAAATCTTG
Statistics
Matches: 200, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
90 200 1.00
ACGTcount: A:0.39, C:0.17, G:0.16, T:0.28
Consensus pattern (90 bp):
GAATCAAGAAAATCAAGATTCACTTTCTTGTTTTCAAGAAAATCAAGAAACCGAATCTTGGCCCA
ATTATGCTGTTCGAAGAGATTTCAA
Found at i:35807327 original size:13 final size:13
Alignment explanation
Indices: 35807309--35807333 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
35807299 TGGTCATCAT
35807309 GGTGTGAACACAA
1 GGTGTGAACACAA
35807322 GGTGTGAACACA
1 GGTGTGAACACA
35807334 TGATCAATAC
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:0.36, C:0.16, G:0.32, T:0.16
Consensus pattern (13 bp):
GGTGTGAACACAA
Found at i:35808860 original size:18 final size:18
Alignment explanation
Indices: 35808809--35808872 Score: 55
Period size: 18 Copynumber: 3.7 Consensus size: 18
35808799 ACAAAGAAAT
35808809 GAAAGAAAAAGAGGAA-GA
1 GAAAGAAAAAGA-GAATGA
* *
35808827 G-AGGAAACA-A-AATGA
1 GAAAGAAAAAGAGAATGA
**
35808842 GATTGAAAAAGAGAATGA
1 GAAAGAAAAAGAGAATGA
35808860 GAAAGAAAAAGAG
1 GAAAGAAAAAGAG
35808873 TTTGATCAAA
Statistics
Matches: 35, Mismatches: 7, Indels: 8
0.70 0.14 0.16
Matches are distributed among these distances:
14 2 0.06
15 3 0.09
16 6 0.17
17 7 0.20
18 17 0.49
ACGTcount: A:0.62, C:0.02, G:0.30, T:0.06
Consensus pattern (18 bp):
GAAAGAAAAAGAGAATGA
Found at i:35810364 original size:17 final size:17
Alignment explanation
Indices: 35810344--35810385 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
35810334 TCCACTGATT
* **
35810344 CATGCATCTTAGGTGTC
1 CATGCACCTTAGCCGTC
35810361 CATGCACCTTAGCCGTC
1 CATGCACCTTAGCCGTC
35810378 CATGCACC
1 CATGCACC
35810386 CTCCAAAAGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.19, C:0.36, G:0.19, T:0.26
Consensus pattern (17 bp):
CATGCACCTTAGCCGTC
Found at i:35813943 original size:23 final size:22
Alignment explanation
Indices: 35813892--35813943 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
35813882 CCTCGTCTTT
*
35813892 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTCTTTCTTTTTCTAAC
35813914 -TCATTTTCTCTTCTTTCTTC-AAC
1 TTC-TTTTCT-TTCTTT-TTCTAAC
35813937 TTCTTTT
1 TTCTTTT
35813944 TCAATTTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 2 0.08
22 5 0.20
23 13 0.52
24 5 0.20
ACGTcount: A:0.10, C:0.23, G:0.02, T:0.65
Consensus pattern (22 bp):
TTCTTTTCTTTCTTTTTCTAAC
Found at i:35817764 original size:23 final size:22
Alignment explanation
Indices: 35817713--35817764 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
35817703 CCTCGTCTTT
*
35817713 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTCTTTCTTTTTCTAAC
35817735 -TCATTTTCTATTCTTTCTTC-AAC
1 TTC-TTTTCT-TTCTTT-TTCTAAC
35817758 TTCTTTT
1 TTCTTTT
35817765 TCAAATTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 2 0.08
22 5 0.20
23 13 0.52
24 5 0.20
ACGTcount: A:0.12, C:0.21, G:0.02, T:0.65
Consensus pattern (22 bp):
TTCTTTTCTTTCTTTTTCTAAC
Found at i:35817779 original size:18 final size:18
Alignment explanation
Indices: 35817758--35817796 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
35817748 TTTCTTCAAC
*
35817758 TTCTTTTTCAAATTTCTT
1 TTCTGTTTCAAATTTCTT
*
35817776 TTCTGTTTCACATTTCTT
1 TTCTGTTTCAAATTTCTT
35817794 TTC
1 TTC
35817797 ACTCTCAATC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.13, C:0.21, G:0.03, T:0.64
Consensus pattern (18 bp):
TTCTGTTTCAAATTTCTT
Found at i:35829236 original size:45 final size:44
Alignment explanation
Indices: 35829148--35829240 Score: 152
Period size: 45 Copynumber: 2.1 Consensus size: 44
35829138 ATTACAACAT
35829148 CATTCCATTCAACCAAACACAAGAATACTATTACAGTTCTATTC
1 CATTCCATTCAACCAAACACAAGAATACTATTACAGTTCTATTC
*
35829192 CATTCCATTCAACCAAACA-ATTGAATTACTATTACAGTTCTATTC
1 CATTCCATTCAACCAAACACA-AGAA-TACTATTACAGTTCTATTC
35829237 CATT
1 CATT
35829241 ACACCTCTAT
Statistics
Matches: 46, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
43 1 0.02
44 22 0.48
45 23 0.50
ACGTcount: A:0.37, C:0.26, G:0.04, T:0.33
Consensus pattern (44 bp):
CATTCCATTCAACCAAACACAAGAATACTATTACAGTTCTATTC
Found at i:35829243 original size:16 final size:16
Alignment explanation
Indices: 35829222--35829293 Score: 99
Period size: 16 Copynumber: 4.5 Consensus size: 16
35829212 TTGAATTACT
*
35829222 ATTACAGTTCTATTCC
1 ATTACAGCTCTATTCC
* *
35829238 ATTACACCTCTATTTC
1 ATTACAGCTCTATTCC
*
35829254 ATTACAGCTCTATTCA
1 ATTACAGCTCTATTCC
*
35829270 ATTACAGTTCTATTCC
1 ATTACAGCTCTATTCC
35829286 ATTACAGC
1 ATTACAGC
35829294 GAACCAAACG
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 47 1.00
ACGTcount: A:0.28, C:0.26, G:0.06, T:0.40
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:35842582 original size:17 final size:17
Alignment explanation
Indices: 35842560--35842593 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
35842550 AAAAAATAAA
*
35842560 ACTTTACAAATTGGGCC
1 ACTTTAAAAATTGGGCC
*
35842577 ACTTTAAAAATTTGGCC
1 ACTTTAAAAATTGGGCC
35842594 TGATTTTCAA
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:0.32, C:0.21, G:0.15, T:0.32
Consensus pattern (17 bp):
ACTTTAAAAATTGGGCC
Found at i:35846035 original size:16 final size:15
Alignment explanation
Indices: 35845986--35846027 Score: 66
Period size: 15 Copynumber: 2.7 Consensus size: 15
35845976 TAACAATCCA
*
35845986 AGTTCAAGAAAACCTG
1 AGTTCAA-AAAACCCG
35846002 AGTTCAAAAAACCCG
1 AGTTCAAAAAACCCG
35846017 AGTTCAAAAAA
1 AGTTCAAAAAA
35846028 GTCCGAGTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
15 18 0.72
16 7 0.28
ACGTcount: A:0.50, C:0.19, G:0.14, T:0.17
Consensus pattern (15 bp):
AGTTCAAAAAACCCG
Found at i:35850626 original size:25 final size:24
Alignment explanation
Indices: 35850583--35850632 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 24
35850573 TGAGCATTCT
**
35850583 GATATTGGCTTTCTTGAGCTACCC
1 GATATTGGCTTTCACGAGCTACCC
*
35850607 GATATATGGCTTTCACGAGCTTCCC
1 GATAT-TGGCTTTCACGAGCTACCC
35850632 G
1 G
35850633 TTAATAGCTC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
24 5 0.23
25 17 0.77
ACGTcount: A:0.18, C:0.26, G:0.22, T:0.34
Consensus pattern (24 bp):
GATATTGGCTTTCACGAGCTACCC
Found at i:35850831 original size:25 final size:25
Alignment explanation
Indices: 35850768--35850824 Score: 80
Period size: 25 Copynumber: 2.3 Consensus size: 25
35850758 TACCCGATAT
35850768 TGGCTCACATGAGCTTCCTGTTACA
1 TGGCTCACATGAGCTTCCTGTTACA
* *
35850793 TGACTCACATGAGCTTTCC-GTTATA
1 TGGCTCACATGAGC-TTCCTGTTACA
35850818 TGGCTCA
1 TGGCTCA
35850825 AAAGAGCGGA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 24 0.86
26 4 0.14
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.33
Consensus pattern (25 bp):
TGGCTCACATGAGCTTCCTGTTACA
Found at i:35852852 original size:25 final size:25
Alignment explanation
Indices: 35852824--35852911 Score: 74
Period size: 25 Copynumber: 3.6 Consensus size: 25
35852814 CAGCTCTTAT
*
35852824 GAGCGTCCCGATATATGGCTCACAC
1 GAGCTTCCCGATATATGGCTCACAC
* * *
35852849 GAGCTTCCTGAT-TAATTGCTCTC-C
1 GAGCTTCCCGATAT-ATGGCTCACAC
* *
35852873 GGAGCTACCCGATAT-TGGCTCACAT
1 -GAGCTTCCCGATATATGGCTCACAC
*
35852898 GAGCTTCCCAATAT
1 GAGCTTCCCGATAT
35852912 GAATTGACAT
Statistics
Matches: 48, Mismatches: 11, Indels: 9
0.71 0.16 0.13
Matches are distributed among these distances:
24 20 0.42
25 27 0.56
26 1 0.02
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (25 bp):
GAGCTTCCCGATATATGGCTCACAC
Found at i:35853945 original size:12 final size:12
Alignment explanation
Indices: 35853936--35853968 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
35853926 TAGCACACAA
35853936 GCTGGGACACGG
1 GCTGGGACACGG
*
35853948 GTTGGGACACGG
1 GCTGGGACACGG
35853960 GCTGGGACA
1 GCTGGGACA
35853969 TGGTCGTGTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.18, C:0.21, G:0.48, T:0.12
Consensus pattern (12 bp):
GCTGGGACACGG
Found at i:35859551 original size:42 final size:42
Alignment explanation
Indices: 35859492--35859574 Score: 130
Period size: 42 Copynumber: 2.0 Consensus size: 42
35859482 GACCAGAGGC
*
35859492 ATGGGCGTGTGCCCAGGCCGTGTAAGCCACACAGCCAAGGAT
1 ATGGGCGTGTGCCCAGGCCGTGTAAGCCACACAGACAAGGAT
* * *
35859534 ATGGGTGTGTGCCCAGGCCGTGTGAGCCACACGGACAAGGA
1 ATGGGCGTGTGCCCAGGCCGTGTAAGCCACACAGACAAGGA
35859575 CATCGCCATG
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.23, C:0.27, G:0.36, T:0.14
Consensus pattern (42 bp):
ATGGGCGTGTGCCCAGGCCGTGTAAGCCACACAGACAAGGAT
Found at i:35860224 original size:17 final size:17
Alignment explanation
Indices: 35860184--35860227 Score: 79
Period size: 17 Copynumber: 2.6 Consensus size: 17
35860174 GGTTTAGCCT
*
35860184 ACACCCATGTGTTCCAC
1 ACACCCGTGTGTTCCAC
35860201 ACACCCGTGTGTTCCAC
1 ACACCCGTGTGTTCCAC
35860218 ACACCCGTGT
1 ACACCCGTGT
35860228 CACCTACCCA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.20, C:0.41, G:0.16, T:0.23
Consensus pattern (17 bp):
ACACCCGTGTGTTCCAC
Found at i:35860781 original size:19 final size:18
Alignment explanation
Indices: 35860754--35860815 Score: 56
Period size: 19 Copynumber: 3.2 Consensus size: 18
35860744 ACGAAGAATG
35860754 GAAAGTAAAACGAAAATAAA
1 GAAA-TAAAA-GAAAATAAA
35860774 GAAAT-AAAGAAAGAATAAA
1 GAAATAAAAG-AA-AATAAA
35860793 GAAAT-AAAGTAAAAATAAA
1 GAAATAAAAG--AAAATAAA
35860812 GAAA
1 GAAA
35860816 GAATGGAGGA
Statistics
Matches: 39, Mismatches: 0, Indels: 7
0.85 0.00 0.15
Matches are distributed among these distances:
17 1 0.03
18 5 0.13
19 26 0.67
20 7 0.18
ACGTcount: A:0.73, C:0.02, G:0.15, T:0.11
Consensus pattern (18 bp):
GAAATAAAAGAAAATAAA
Found at i:35860790 original size:11 final size:11
Alignment explanation
Indices: 35860771--35860819 Score: 52
Period size: 11 Copynumber: 4.6 Consensus size: 11
35860761 AAACGAAAAT
35860771 AAAGAAATAAAG
1 AAAG-AATAAAG
35860783 AAAGAATAAAG
1 AAAGAATAAAG
35860794 --A-AATAAAG
1 AAAGAATAAAG
35860802 TAAA-AATAAAG
1 -AAAGAATAAAG
35860813 AAAGAAT
1 AAAGAAT
35860820 GGAGGAATGG
Statistics
Matches: 33, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
8 7 0.21
9 1 0.03
10 3 0.09
11 18 0.55
12 4 0.12
ACGTcount: A:0.73, C:0.00, G:0.14, T:0.12
Consensus pattern (11 bp):
AAAGAATAAAG
Found at i:35862348 original size:80 final size:80
Alignment explanation
Indices: 35862215--35862376 Score: 218
Period size: 80 Copynumber: 2.0 Consensus size: 80
35862205 TTTTGTTTCC
* * * *
35862215 CTCAAATTACATTTTAATTACTTTTGTTTGAAATGTTACGTTTTAGCCACTTACGTTAACATGTT
1 CTCAAATTACATTTTAATCACTTATGTTTGAAATGTTACATTTTAGCCACTTACATTAACATGTT
35862280 ATAAT-ATTTTAGTCA
66 AT-ATCATTTTAGTCA
* * ** *
35862295 CTCAAATTATATTTTAGTCACTTATGTTTGAAATGTTACATTTTAGTTACTTACATTAATATGTT
1 CTCAAATTACATTTTAATCACTTATGTTTGAAATGTTACATTTTAGCCACTTACATTAACATGTT
*
35862360 GTATCATTTTAGTCA
66 ATATCATTTTAGTCA
35862375 CT
1 CT
35862377 ATGCTGTTAA
Statistics
Matches: 71, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
79 2 0.03
80 69 0.97
ACGTcount: A:0.30, C:0.13, G:0.10, T:0.48
Consensus pattern (80 bp):
CTCAAATTACATTTTAATCACTTATGTTTGAAATGTTACATTTTAGCCACTTACATTAACATGTT
ATATCATTTTAGTCA
Found at i:35862971 original size:14 final size:14
Alignment explanation
Indices: 35862931--35862973 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
35862921 AATAGTAAAC
35862931 AAAA-TTATTATAA
1 AAAATTTATTATAA
**
35862944 AAAATTTAAAATAA
1 AAAATTTATTATAA
*
35862958 AAAATTTCTTATAA
1 AAAATTTATTATAA
35862972 AA
1 AA
35862974 TTAAGGGGGA
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
13 4 0.17
14 20 0.83
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (14 bp):
AAAATTTATTATAA
Found at i:35871170 original size:20 final size:20
Alignment explanation
Indices: 35871128--35871168 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
35871118 TACAACACAA
*
35871128 TTCAATTTCATATTGAATAT
1 TTCAATTTCATATTCAATAT
*
35871148 TTCAATTT-TTATTCAATAT
1 TTCAATTTCATATTCAATAT
35871167 TT
1 TT
35871169 TCCTAAATTC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.32, C:0.10, G:0.02, T:0.56
Consensus pattern (20 bp):
TTCAATTTCATATTCAATAT
Found at i:35871351 original size:19 final size:19
Alignment explanation
Indices: 35871339--35871381 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
35871329 AATTTACAAT
35871339 AATTTCTAAAATTTCTAAA
1 AATTTCTAAAATTTCTAAA
*
35871358 AATTTTTAAAATTTCT-AA
1 AATTTCTAAAATTTCTAAA
35871376 AATTTC
1 AATTTC
35871382 GACATGGCTC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 7 0.32
19 15 0.68
ACGTcount: A:0.44, C:0.09, G:0.00, T:0.47
Consensus pattern (19 bp):
AATTTCTAAAATTTCTAAA
Found at i:35871353 original size:9 final size:9
Alignment explanation
Indices: 35871339--35871381 Score: 68
Period size: 9 Copynumber: 4.7 Consensus size: 9
35871329 AATTTACAAT
35871339 AATTTCTAA
1 AATTTCTAA
35871348 AATTTCTAAA
1 AATTTCT-AA
*
35871358 AATTTTTAA
1 AATTTCTAA
35871367 AATTTCTAA
1 AATTTCTAA
35871376 AATTTC
1 AATTTC
35871382 GACATGGCTC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
9 23 0.74
10 8 0.26
ACGTcount: A:0.44, C:0.09, G:0.00, T:0.47
Consensus pattern (9 bp):
AATTTCTAA
Found at i:35871358 original size:28 final size:28
Alignment explanation
Indices: 35871327--35871381 Score: 83
Period size: 28 Copynumber: 1.9 Consensus size: 28
35871317 CCTATTAATC
35871327 AAAATTTACAATAATTTCTAAAATTTCTA
1 AAAATTTACAA-AATTTCTAAAATTTCTA
**
35871356 AAAATTTTTAAAATTTCTAAAATTTC
1 AAAATTTACAAAATTTCTAAAATTTC
35871382 GACATGGCTC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 15 0.62
29 9 0.38
ACGTcount: A:0.47, C:0.09, G:0.00, T:0.44
Consensus pattern (28 bp):
AAAATTTACAAAATTTCTAAAATTTCTA
Found at i:35871964 original size:76 final size:76
Alignment explanation
Indices: 35871838--35871981 Score: 200
Period size: 76 Copynumber: 1.9 Consensus size: 76
35871828 ATATATTTAA
* *
35871838 TAAATATTTAAGAGTCCAATTTACGGGAATAGAGTCTCAGGAATGTACTTTCCAACACCCCTGAC
1 TAAATATTTAAGAGTCCAATTTACGGGAACAGAGTCTCAGGAATGCACTTTCCAACACCCCTGAC
35871903 TATTGGGTTGT
66 TATTGGGTTGT
* * * * **
35871914 TAAATATTTACGAGTCTAATTTACGGGGACGGAGTCTC-GAGAATGCACTTTCTGACACCCCTGA
1 TAAATATTTAAGAGTCCAATTTACGGGAACAGAGTCTCAG-GAATGCACTTTCCAACACCCCTGA
35871978 CTAT
65 CTAT
35871982 CGAGTCGTTA
Statistics
Matches: 59, Mismatches: 8, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
75 1 0.02
76 58 0.98
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (76 bp):
TAAATATTTAAGAGTCCAATTTACGGGAACAGAGTCTCAGGAATGCACTTTCCAACACCCCTGAC
TATTGGGTTGT
Found at i:35879257 original size:24 final size:26
Alignment explanation
Indices: 35879223--35879274 Score: 81
Period size: 25 Copynumber: 2.1 Consensus size: 26
35879213 GATTTCAGTC
35879223 AAAAACTCTAAA-TTTAAAAATATTA
1 AAAAACTCTAAATTTTAAAAATATTA
*
35879248 AAAAAC-CTAAATTTTAAAAATTTTA
1 AAAAACTCTAAATTTTAAAAATATTA
35879273 AA
1 AA
35879275 CCTAGAAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 5 0.20
25 20 0.80
ACGTcount: A:0.60, C:0.08, G:0.00, T:0.33
Consensus pattern (26 bp):
AAAAACTCTAAATTTTAAAAATATTA
Found at i:35884232 original size:24 final size:24
Alignment explanation
Indices: 35884217--35884268 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
35884207 AATCAAAGTC
35884217 AAATATATTATACTAATAAATGCT
1 AAATATATTATACTAATAAATGCT
* *
35884241 AAATATATTATACTCATAAATACT
1 AAATATATTATACTAATAAATGCT
35884265 AAAT
1 AAAT
35884269 CTTCTAGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.52, C:0.10, G:0.02, T:0.37
Consensus pattern (24 bp):
AAATATATTATACTAATAAATGCT
Found at i:35884949 original size:17 final size:18
Alignment explanation
Indices: 35884927--35884967 Score: 66
Period size: 19 Copynumber: 2.3 Consensus size: 18
35884917 TTATTAATTG
35884927 ATATT-TTTAAATAGTAT
1 ATATTCTTTAAATAGTAT
35884944 ATATTTCTTTAAATAGTAT
1 ATA-TTCTTTAAATAGTAT
35884963 ATATT
1 ATATT
35884968 AATTCTGTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 3 0.14
18 4 0.18
19 15 0.68
ACGTcount: A:0.39, C:0.02, G:0.05, T:0.54
Consensus pattern (18 bp):
ATATTCTTTAAATAGTAT
Found at i:35885111 original size:29 final size:29
Alignment explanation
Indices: 35885069--35885125 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
35885059 ATTTGAACCA
**
35885069 CAAATAAAGTTTCATGTGTACAATTGCAC
1 CAAATAAAGTTTCATGTACACAATTGCAC
35885098 CAAATTAAAG-TTCATGTACACAATTGCA
1 CAAA-TAAAGTTTCATGTACACAATTGCA
35885126 TACTAAATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 20 0.80
30 5 0.20
ACGTcount: A:0.40, C:0.18, G:0.12, T:0.30
Consensus pattern (29 bp):
CAAATAAAGTTTCATGTACACAATTGCAC
Found at i:35888582 original size:37 final size:37
Alignment explanation
Indices: 35888520--35888674 Score: 177
Period size: 37 Copynumber: 4.0 Consensus size: 37
35888510 ACGTATGATC
*
35888520 ACTTATCAC-TTGTCCCTTGATCAGATAAGTGTAGCA
1 ACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCA
* *
35888556 ACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGCC
1 ACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCA
*
35888593 ACCTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTA
1 ACTTATCACTTTGTCTCTTGATCAGATAA--GT-G-T--AGC-A
*
35888637 TCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGC
1 --ACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
35888675 CGAAGCTATC
Statistics
Matches: 101, Mismatches: 8, Indels: 16
0.81 0.06 0.13
Matches are distributed among these distances:
36 9 0.09
37 51 0.50
39 2 0.02
40 4 0.04
41 1 0.01
42 1 0.01
43 3 0.03
44 2 0.02
46 28 0.28
ACGTcount: A:0.27, C:0.21, G:0.15, T:0.37
Consensus pattern (37 bp):
ACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCA
Found at i:35888663 original size:46 final size:46
Alignment explanation
Indices: 35888596--35888814 Score: 267
Period size: 52 Copynumber: 4.5 Consensus size: 46
35888586 TGTAGCCACC
* **
35888596 TATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACT
1 TATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
* *
35888642 TATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
*
35888688 TCTCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
1 TATCAC---T---TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
*
35888740 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACT
1 TATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
35888792 TATCACTTTGTCACTTGATCAGA
1 TATCACTTTGTCACTTGATCAGA
35888815 AGTACTCAAA
Statistics
Matches: 158, Mismatches: 8, Indels: 14
0.88 0.04 0.08
Matches are distributed among these distances:
46 64 0.41
49 1 0.01
50 1 0.01
51 3 0.02
52 89 0.56
ACGTcount: A:0.27, C:0.22, G:0.15, T:0.36
Consensus pattern (46 bp):
TATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
Found at i:35888711 original size:52 final size:52
Alignment explanation
Indices: 35888635--35888808 Score: 276
Period size: 52 Copynumber: 3.3 Consensus size: 52
35888625 TAGCTAAAGC
* * *
35888635 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
*
35888688 TCTCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
* *
35888740 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
35888792 TATCACTTTGTCACTTG
1 TATCACTTT-TCACTTG
35888809 ATCAGAAGTA
Statistics
Matches: 112, Mismatches: 8, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
52 95 0.85
53 17 0.15
ACGTcount: A:0.26, C:0.24, G:0.14, T:0.36
Consensus pattern (52 bp):
TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
Found at i:35894140 original size:14 final size:14
Alignment explanation
Indices: 35894121--35894159 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 14
35894111 TTTCTCATAT
35894121 ATTATTTATTTTAA
1 ATTATTTATTTTAA
35894135 ATTATTT-TTTT--
1 ATTATTTATTTTAA
35894146 ATTATTTATTTTAA
1 ATTATTTATTTTAA
35894160 GTTTTCCACA
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
11 7 0.32
12 4 0.18
13 4 0.18
14 7 0.32
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (14 bp):
ATTATTTATTTTAA
Found at i:35894276 original size:26 final size:26
Alignment explanation
Indices: 35894093--35894490 Score: 226
Period size: 26 Copynumber: 15.1 Consensus size: 26
35894083 TGTTATTTAT
35894093 TTATTTATTTTAAACCTT-TTTCTCATATA
1 TTATTTATTTTAAA--TTGTTT-T-ATATA
* *
35894122 TTATTTATTTTAAATTATTTT-TTTA
1 TTATTTATTTTAAATTGTTTTATATA
* ** *
35894147 TTATTTATTTTAAGTT-TTCCACATA
1 TTATTTATTTTAAATTGTTTTATATA
* * * * * *
35894172 TAATGTATTTTAAACTATTTCAAACTA
1 TTATTTATTTTAAATTGTTTTATA-TA
**
35894199 TTATCCATTTTAAATT-TTTTATATA
1 TTATTTATTTTAAATTGTTTTATATA
* **
35894224 TTATTTATTTTTAAACTGTCATATATA
1 TTATTTA-TTTTAAATTGTTTTATATA
*
35894251 TTATTTATTTTGAATTGTTTTTTATATA
1 TTATTTATTTTAAATTG--TTTTATATA
* *
35894279 TATCATTTATTTTTTAAAAAACT-TTTTAGTACA
1 T-T-ATTTA--TTTT---AAATTGTTTTA-TATA
* *
35894312 TTATTTATTTTAAACTTCTTTTTACATA
1 TTATTTATTTTAAA-TT-GTTTTATATA
*
35894340 TTATTTATTTTAAA--CTTTT-TATA
1 TTATTTATTTTAAATTGTTTTATATA
* *
35894363 -TA-TTATTTTAAATTGTCTTATATG
1 TTATTTATTTTAAATTGTTTTATATA
* * *
35894387 TTATTTATTTTAAATTGCTTTGTCTA
1 TTATTTATTTTAAATTGTTTTATATA
* *
35894413 TTATTTATTTTAATTTGTTTTACATA
1 TTATTTATTTTAAATTGTTTTATATA
* *
35894439 TTAGTTACTTTAAATTG-TTT-TATA
1 TTATTTATTTTAAATTGTTTTATATA
* * * *
35894463 CTATTTACTTCAAATTGTTCTATATA
1 TTATTTATTTTAAATTGTTTTATATA
35894489 TT
1 TT
35894491 TTTTGTTTCG
Statistics
Matches: 286, Mismatches: 57, Indels: 55
0.72 0.14 0.14
Matches are distributed among these distances:
21 10 0.03
22 2 0.01
23 6 0.02
24 26 0.09
25 46 0.16
26 86 0.30
27 32 0.11
28 27 0.09
29 24 0.08
30 5 0.02
31 5 0.02
32 10 0.03
33 4 0.01
35 3 0.01
ACGTcount: A:0.30, C:0.08, G:0.04, T:0.59
Consensus pattern (26 bp):
TTATTTATTTTAAATTGTTTTATATA
Found at i:35894370 original size:21 final size:22
Alignment explanation
Indices: 35894344--35894392 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
35894334 TACATATTAT
35894344 TTATTTTAAACTT-T-TTATATA
1 TTATTTTAAA-TTGTCTTATATA
*
35894365 TTATTTTAAATTGTCTTATATG
1 TTATTTTAAATTGTCTTATATA
35894387 TTATTT
1 TTATTT
35894393 ATTTTAAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
20 2 0.08
21 11 0.44
22 12 0.48
ACGTcount: A:0.29, C:0.04, G:0.04, T:0.63
Consensus pattern (22 bp):
TTATTTTAAATTGTCTTATATA
Found at i:35894477 original size:24 final size:23
Alignment explanation
Indices: 35894443--35894491 Score: 71
Period size: 24 Copynumber: 2.1 Consensus size: 23
35894433 TACATATTAG
* *
35894443 TTACTTTAAATTGTTTTATACTAT
1 TTACTTCAAATTGTTCTATA-TAT
35894467 TTACTTCAAATTGTTCTATATAT
1 TTACTTCAAATTGTTCTATATAT
35894490 TT
1 TT
35894492 TTTGTTTCGT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 5 0.22
24 18 0.78
ACGTcount: A:0.29, C:0.10, G:0.04, T:0.57
Consensus pattern (23 bp):
TTACTTCAAATTGTTCTATATAT
Found at i:35904356 original size:19 final size:20
Alignment explanation
Indices: 35904314--35904349 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 20
35904304 GTTTTCAAAT
35904314 AATT-ATAAAAATATATTAA
1 AATTAATAAAAATATATTAA
35904333 AATTAATAAAAA-ATATT
1 AATTAATAAAAATATATT
35904350 CGAATTACTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 9 0.56
20 7 0.44
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (20 bp):
AATTAATAAAAATATATTAA
Found at i:35904362 original size:21 final size:21
Alignment explanation
Indices: 35904317--35904363 Score: 53
Period size: 19 Copynumber: 2.3 Consensus size: 21
35904307 TTCAAATAAT
35904317 TATAAAAATATATTAAAATTA
1 TATAAAAATATATTAAAATTA
**
35904338 -ATAAAAA-ATATTCGAATTA
1 TATAAAAATATATTAAAATTA
35904357 CTATAAA
1 -TATAAA
35904364 TATAAACAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 10 0.45
20 7 0.32
21 5 0.23
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.34
Consensus pattern (21 bp):
TATAAAAATATATTAAAATTA
Found at i:35904702 original size:8 final size:8
Alignment explanation
Indices: 35904684--35904717 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
35904674 TTAAGTTTAA
*
35904684 TTTTAAAT
1 TTTTATAT
35904692 TTTT-TAT
1 TTTTATAT
35904699 TTTTATAT
1 TTTTATAT
35904707 TTTTATAT
1 TTTTATAT
35904715 TTT
1 TTT
35904718 CTTATAATTC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
7 6 0.25
8 18 0.75
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TTTTATAT
Found at i:35904702 original size:15 final size:15
Alignment explanation
Indices: 35904679--35904717 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
35904669 TTAAATTAAG
*
35904679 TTTAATTTTAAATTT
1 TTTATTTTTAAATTT
*
35904694 TTTATTTTTATATTT
1 TTTATTTTTAAATTT
35904709 TTATATTTT
1 TT-TATTTT
35904718 CTTATAATTC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 15 0.71
16 6 0.29
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (15 bp):
TTTATTTTTAAATTT
Found at i:35906029 original size:27 final size:22
Alignment explanation
Indices: 35905975--35906025 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
35905965 CCATACAACC
35905975 ATACTTTAACTTCAGGATTCCT
1 ATACTTTAACTTCAGGATTCCT
35905997 ATACTTTAACTTCAGGATTCCT
1 ATACTTTAACTTCAGGATTCCT
35906019 ATCACTT
1 AT-ACTT
35906026 ACTTAAACTT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 24 0.86
23 4 0.14
ACGTcount: A:0.27, C:0.24, G:0.08, T:0.41
Consensus pattern (22 bp):
ATACTTTAACTTCAGGATTCCT
Found at i:35906035 original size:27 final size:24
Alignment explanation
Indices: 35905980--35906031 Score: 72
Period size: 22 Copynumber: 2.2 Consensus size: 24
35905970 CAACCATACT
35905980 TTAACTTCAGGATTCCTATACT--
1 TTAACTTCAGGATTCCTATACTAC
35906002 TTAACTTCAGGATTCCTATCACTTAC
1 TTAACTTCAGGATTCCTAT-AC-TAC
35906028 TTAA
1 TTAA
35906032 ACTTGTTAGG
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
22 19 0.73
23 2 0.08
24 1 0.04
26 4 0.15
ACGTcount: A:0.29, C:0.23, G:0.08, T:0.40
Consensus pattern (24 bp):
TTAACTTCAGGATTCCTATACTAC
Found at i:35915048 original size:15 final size:14
Alignment explanation
Indices: 35915028--35915062 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
35915018 GGAAATTTTA
35915028 AAAAAAATAATATGT
1 AAAAAAATAAT-TGT
*
35915043 AAAAAAATAATTTT
1 AAAAAAATAATTGT
35915057 AAAAAA
1 AAAAAA
35915063 TGGGATGAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.42
15 11 0.58
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (14 bp):
AAAAAAATAATTGT
Found at i:35916214 original size:55 final size:55
Alignment explanation
Indices: 35916148--35916261 Score: 219
Period size: 55 Copynumber: 2.1 Consensus size: 55
35916138 TATGCTTTAT
*
35916148 ATTATTAAAATATGAAAAATCGTTTAATTATAATATAAGGAAAGTGCCATGTGCC
1 ATTATTAAAATATGAAAAATCGTTTAAGTATAATATAAGGAAAGTGCCATGTGCC
35916203 ATTATTAAAATATGAAAAATCGTTTAAGTATAATATAAGGAAAGTGCCATGTGCC
1 ATTATTAAAATATGAAAAATCGTTTAAGTATAATATAAGGAAAGTGCCATGTGCC
35916258 ATTA
1 ATTA
35916262 AAAAAGAATG
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 58 1.00
ACGTcount: A:0.44, C:0.09, G:0.15, T:0.32
Consensus pattern (55 bp):
ATTATTAAAATATGAAAAATCGTTTAAGTATAATATAAGGAAAGTGCCATGTGCC
Found at i:35917967 original size:44 final size:43
Alignment explanation
Indices: 35917917--35918009 Score: 114
Period size: 43 Copynumber: 2.1 Consensus size: 43
35917907 ATGTTGTGGA
* * * *
35917917 GTTTGTAGCTAGAAGCGTCGCAAAAGATCATGTTCTGTAGCAGC
1 GTTTGTAG-TAAAAGCGCCACAAAAGATCATGTTCTATAGCAGC
* * *
35917961 GTTTGTAGTAAAAGCGCCACTAAAGATCATGTTCTATAGCGGT
1 GTTTGTAGTAAAAGCGCCACAAAAGATCATGTTCTATAGCAGC
35918004 GTTTGT
1 GTTTGT
35918010 GGGAAAACAC
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
43 34 0.81
44 8 0.19
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.31
Consensus pattern (43 bp):
GTTTGTAGTAAAAGCGCCACAAAAGATCATGTTCTATAGCAGC
Found at i:35922329 original size:40 final size:42
Alignment explanation
Indices: 35922248--35922369 Score: 122
Period size: 41 Copynumber: 2.9 Consensus size: 42
35922238 ATATTCGCGA
* * * * *
35922248 CATTTATGAGAAAAACATCGCTATTTTTTTTAACCTTTTGCAG
1 CATTTATGCGAAAAATACCACTA-TTGTTTTAACCTTTTGCAG
* *
35922291 TATTTATGC-AAAAATGCCACTATTGTTTT-ACCTTTTGCAG
1 CATTTATGCGAAAAATACCACTATTGTTTTAACCTTTTGCAG
* *
35922331 CGTTTATGCGAAAAATACCGCTATTGTTATTATACCTTT
1 CATTTATGCGAAAAATACCACTATTGTT-TTA-ACCTTT
35922370 AGCGGCGTTT
Statistics
Matches: 64, Mismatches: 11, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
40 18 0.28
41 22 0.34
42 11 0.17
43 7 0.11
44 6 0.09
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (42 bp):
CATTTATGCGAAAAATACCACTATTGTTTTAACCTTTTGCAG
Found at i:35922380 original size:44 final size:40
Alignment explanation
Indices: 35922275--35922380 Score: 104
Period size: 40 Copynumber: 2.5 Consensus size: 40
35922265 TCGCTATTTT
* ** *
35922275 TTTTAACCTTTTGCAGTATTTATGCAAAAATGCCACTATTG
1 TTTT-ACCTTTAGCAGCGTTTATGCAAAAATACCACTATTG
* *
35922316 TTTTACCTTTTGCAGCGTTTATGCGAAAAATACCGCTATTG
1 TTTTACCTTTAGCAGCGTTTATGC-AAAAATACCACTATTG
*
35922357 TTATTATACCTTTAGCGGCGTTTA
1 -T-TT-TACCTTTAGCAGCGTTTA
35922381 GGGAAAGCGC
Statistics
Matches: 55, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
40 18 0.33
41 18 0.33
42 1 0.02
43 2 0.04
44 16 0.29
ACGTcount: A:0.25, C:0.18, G:0.15, T:0.42
Consensus pattern (40 bp):
TTTTACCTTTAGCAGCGTTTATGCAAAAATACCACTATTG
Found at i:35925816 original size:18 final size:18
Alignment explanation
Indices: 35925790--35925840 Score: 59
Period size: 18 Copynumber: 2.9 Consensus size: 18
35925780 TAAAAGTAAC
35925790 TAAAAATAAAAACAAAAA
1 TAAAAATAAAAACAAAAA
* *
35925808 TAAACATAAAAAGAAAAA
1 TAAAAATAAAAACAAAAA
* *
35925826 GAAAAA-GAAAACAAA
1 TAAAAATAAAAACAAA
35925841 TAAACTCAAT
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
17 7 0.26
18 20 0.74
ACGTcount: A:0.80, C:0.06, G:0.06, T:0.08
Consensus pattern (18 bp):
TAAAAATAAAAACAAAAA
Found at i:35927299 original size:35 final size:35
Alignment explanation
Indices: 35927237--35927313 Score: 86
Period size: 35 Copynumber: 2.2 Consensus size: 35
35927227 CGCCGAAAAT
* *
35927237 AATAAGAAATAATAAGCAAATTAAATAA-AATAAGA
1 AATAAAAAATAATAAGCAAATGAAATAATAATAA-A
* *
35927272 AATAAAAAATGATAAGCAAA-GAGAATAATAATAAT
1 AATAAAAAATAATAAGCAAATGA-AATAATAATAAA
35927307 AATAAAA
1 AATAAAA
35927314 GAAGTAAAGA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
34 1 0.03
35 30 0.83
36 5 0.14
ACGTcount: A:0.69, C:0.03, G:0.09, T:0.19
Consensus pattern (35 bp):
AATAAAAAATAATAAGCAAATGAAATAATAATAAA
Found at i:35933809 original size:22 final size:25
Alignment explanation
Indices: 35933783--35933836 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 25
35933773 TTATAAATTC
35933783 AATTTAAAAG-ATA-TAAT-ACAAT
1 AATTTAAAAGCATATTAATAACAAT
*
35933805 AATTT-CAAGCATATTTAATAACAAT
1 AATTTAAAAGCATA-TTAATAACAAT
35933830 AATTTAA
1 AATTTAA
35933837 TTATAAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
21 3 0.12
22 8 0.32
24 4 0.16
25 10 0.40
ACGTcount: A:0.54, C:0.07, G:0.04, T:0.35
Consensus pattern (25 bp):
AATTTAAAAGCATATTAATAACAAT
Found at i:35934527 original size:31 final size:31
Alignment explanation
Indices: 35934492--35934559 Score: 136
Period size: 31 Copynumber: 2.2 Consensus size: 31
35934482 TTACTTTGAA
35934492 AAAATGTATAATATGAAATAGAAAACAATTT
1 AAAATGTATAATATGAAATAGAAAACAATTT
35934523 AAAATGTATAATATGAAATAGAAAACAATTT
1 AAAATGTATAATATGAAATAGAAAACAATTT
35934554 AAAATG
1 AAAATG
35934560 AAAAAAAATC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.59, C:0.03, G:0.10, T:0.28
Consensus pattern (31 bp):
AAAATGTATAATATGAAATAGAAAACAATTT
Found at i:35940789 original size:4 final size:4
Alignment explanation
Indices: 35940780--35940804 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
35940770 TATTATTAAA
35940780 TTAT TTAT TTAT TTAT TTAT TTAT T
1 TTAT TTAT TTAT TTAT TTAT TTAT T
35940805 ATCATTGGTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTAT
Found at i:35940983 original size:28 final size:25
Alignment explanation
Indices: 35940892--35940980 Score: 101
Period size: 24 Copynumber: 3.5 Consensus size: 25
35940882 TTATATTTCC
35940892 TTATTTATTTATTTTATTATT-ATT
1 TTATTTATTTATTTTATTATTCATT
**
35940916 TTATTTATTTA-TTTATCTAAACATT
1 TTATTTATTTATTTTAT-TATTCATT
*
35940941 TTAAATATATTTATTTTATTATGTCATT
1 TT--ATTTATTTATTTTATTAT-TCATT
35940969 TTATTTATTTAT
1 TTATTTATTTAT
35940981 ATTCTTTCAT
Statistics
Matches: 53, Mismatches: 6, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
23 5 0.09
24 13 0.25
25 5 0.09
26 9 0.17
27 10 0.19
28 11 0.21
ACGTcount: A:0.29, C:0.03, G:0.01, T:0.66
Consensus pattern (25 bp):
TTATTTATTTATTTTATTATTCATT
Found at i:35941022 original size:3 final size:3
Alignment explanation
Indices: 35941014--35941074 Score: 50
Period size: 3 Copynumber: 20.3 Consensus size: 3
35941004 TTTATATTTC
* * * * * *
35941014 TAT TAT TAT TAT TAT TAT TAT TAT CAT CAT CAT CAT CAT TAT TAT TAA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
35941062 TAC TAA TAT TAT T
1 TAT TAT TAT TAT T
35941075 CTTAAATTGT
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.36, C:0.10, G:0.00, T:0.54
Consensus pattern (3 bp):
TAT
Found at i:35946129 original size:6 final size:6
Alignment explanation
Indices: 35946095--35946137 Score: 52
Period size: 6 Copynumber: 7.2 Consensus size: 6
35946085 AGATTCAATC
* *
35946095 GAAAAA GAAGAA GAATAA GAGAAAA -AAAAA GAAAAA GAAAAA G
1 GAAAAA GAAAAA GAAAAA GA-AAAA GAAAAA GAAAAA GAAAAA G
35946138 GAGAGTCCAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
5 4 0.12
6 25 0.78
7 3 0.09
ACGTcount: A:0.77, C:0.00, G:0.21, T:0.02
Consensus pattern (6 bp):
GAAAAA
Found at i:35947146 original size:44 final size:45
Alignment explanation
Indices: 35947035--35947242 Score: 190
Period size: 45 Copynumber: 4.7 Consensus size: 45
35947025 TCATGGCGAA
* * * ***
35947035 TCTTATCTCCCTAAAGTTGTAGTGGAACAGATT-AAGGCCACTAA-
1 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGGTTGAAGATTAC-AAG
* * * *
35947079 TCTTACCCCGCCTGAAGTTGCAGTGGGGCAGGTTGAA-ATTACAAG
1 TCTTATCTC-CCTAAAGTTGCAGTGGAGCAGGTTGAAGATTACAAG
* * ** * * *
35947124 TCTTATCTCCTTAAAGTTGCAGTGGAACAGACTAAAGATAACAAA
1 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGGTTGAAGATTACAAG
* *
35947169 CCTTATCTCCCTAAAGTTGCAGTGGAGTAGGTTGAAGA-TACAAG
1 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGGTTGAAGATTACAAG
*
35947213 TCTTATCTCCCTAAAGTTGCAGCGGAGCAG
1 TCTTATCTCCCTAAAGTTGCAGTGGAGCAG
35947243 ACTGAAAACA
Statistics
Matches: 127, Mismatches: 33, Indels: 8
0.76 0.20 0.05
Matches are distributed among these distances:
44 60 0.47
45 65 0.51
46 2 0.02
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (45 bp):
TCTTATCTCCCTAAAGTTGCAGTGGAGCAGGTTGAAGATTACAAG
Found at i:35947151 original size:89 final size:89
Alignment explanation
Indices: 35947035--35947245 Score: 255
Period size: 89 Copynumber: 2.4 Consensus size: 89
35947025 TCATGGCGAA
* * * * * * *
35947035 TCTTATCTCCCTAAAGTTGTAGTGGAACAGA-TTAAGGCCACTAATCTTACCCCGCCTGAAGTTG
1 TCTTATCTCCCTAAAGTTGCAGTGGAACAGACTAAAGACAACAAACCTTACCCC-CCTAAAGTTG
*
35947099 CAGTGGGGCAGGTTGAA-ATTACAAG
65 CAGTGGAGCAGGTTGAAGA-TACAAG
* * * *
35947124 TCTTATCTCCTTAAAGTTGCAGTGGAACAGACTAAAGATAACAAACCTTATCTCCCTAAAGTTGC
1 TCTTATCTCCCTAAAGTTGCAGTGGAACAGACTAAAGACAACAAACCTTACCCCCCTAAAGTTGC
*
35947189 AGTGGAGTAGGTTGAAGATACAAG
66 AGTGGAGCAGGTTGAAGATACAAG
* *
35947213 TCTTATCTCCCTAAAGTTGCAGCGGAGCAGACT
1 TCTTATCTCCCTAAAGTTGCAGTGGAACAGACT
35947246 GAAAACAGTG
Statistics
Matches: 104, Mismatches: 16, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
89 89 0.86
90 15 0.14
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (89 bp):
TCTTATCTCCCTAAAGTTGCAGTGGAACAGACTAAAGACAACAAACCTTACCCCCCTAAAGTTGC
AGTGGAGCAGGTTGAAGATACAAG
Found at i:35947300 original size:89 final size:89
Alignment explanation
Indices: 35947035--35947300 Score: 205
Period size: 89 Copynumber: 3.0 Consensus size: 89
35947025 TCATGGCGAA
* * * * * * * * * *
35947035 TCTTATCTCCCTAAAGTTGTAGTGGAACAGA-TTAAGGCCACTAATCTTACCCCGCCTGAAGTTG
1 TCTTATCTCCCTAAAGTTGCAGCGGAACAGACTAAAGACAACAAACCTTATCTC-CCTAAAGTTG
** * *
35947099 CAGTGGGGCAGGTTGAAA-TTACAAG
65 CAGTGGAACAGATT-AAAGATACAAG
* * *
35947124 TCTTATCTCCTTAAAGTTGCAGTGGAACAGACTAAAGATAACAAACCTTATCTCCCTAAAGTTGC
1 TCTTATCTCCCTAAAGTTGCAGCGGAACAGACTAAAGACAACAAACCTTATCTCCCTAAAGTTGC
** * *
35947189 AGTGGAGTAGGTTGAAGATACAAG
66 AGTGGAACAGATTAAAGATACAAG
* *** * * ***
35947213 TCTTATCTCCCTAAAGTTGCAGCGGAGCAGACTGAAA-ACAGTGAATCTTATTTCCCTGGCGTTG
1 TCTTATCTCCCTAAAGTTGCAGCGGAACAGACT-AAAGACAACAAACCTTATCTCCCTAAAGTTG
*
35947277 CAGTGGAACAGATTAAAGCTACAA
65 CAGTGGAACAGATTAAAGATACAA
35947301 ATTATGGCAA
Statistics
Matches: 142, Mismatches: 32, Indels: 6
0.79 0.18 0.03
Matches are distributed among these distances:
88 2 0.01
89 123 0.87
90 17 0.12
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (89 bp):
TCTTATCTCCCTAAAGTTGCAGCGGAACAGACTAAAGACAACAAACCTTATCTCCCTAAAGTTGC
AGTGGAACAGATTAAAGATACAAG
Found at i:35947428 original size:143 final size:143
Alignment explanation
Indices: 35947165--35947758 Score: 768
Period size: 143 Copynumber: 4.2 Consensus size: 143
35947155 CTAAAGATAA
* * * * * ** * *
35947165 CAAACCTTATCTCCCTAAAGTTGCAGTGGAGTAGGTTGAAGATACAAGTCTTATCTCCCTAAAGT
1 CAAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTAAAGT
* * *
35947230 TGCAGCGGAGCAGACTGAAA-ACAGTGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAA
66 TGCAGCAGAGCAAACT-AAAGACAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAA
35947294 GCTACAAATTATGG
130 GCTACAAATTATGG
* * *
35947308 CAAATCTTATCTTCCTGAAGTTGTAGTGGAGCAGATTGAAGCCACCAGTCTTATCTCCCTGAAGT
1 CAAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTAAAGT
* * *
35947373 TGCAGCAGAGCAGACTAAAGACAACGAATCTTATTTCCCTGGCGTTGTAGTGGAACAGATTAAAG
66 TGCAGCAGAGCAAACTAAAGACAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAG
35947438 CTACAAATTATGG
131 CTACAAATTATGG
** *
35947451 CGGATCTTATCTTCCTAAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTAAAGT
1 CAAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTAAAGT
* * * * *
35947516 TGCAGCGGAGCAAACTGAAGACAGCGAACCTTATTTCCCTGGTGTTGCAGTGGAATAGATTAAAG
66 TGCAGCAGAGCAAACTAAAGACAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAG
35947581 CTACAAATTATGG
131 CTACAAATTATGG
* * * *
35947594 -AATATCTTATCTTCCTGAAGTTCCAGTGGAGTAGATTGAAGCCACCAACCTTATCTCCCTGAAG
1 CAA-ATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTAAAG
* * ** * * *
35947658 TTGCAGCAGAGCAAACTAAAGATAGCGAGTCTTATTTCCCTGAAGTTGTAGTGGAACAGATTGAC
65 TTGCAGCAGAGCAAACTAAAGACAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAA
*
35947723 GCTATAAA-T-T-G
130 GCTACAAATTATGG
*
35947734 CAGATCTTATC-TCTCTGAAGTTGCA
1 CAAATCTTATCTTC-CTGAAGTTGCA
35947759 ATAGAGCATA
Statistics
Matches: 398, Mismatches: 49, Indels: 11
0.87 0.11 0.02
Matches are distributed among these distances:
139 2 0.01
140 19 0.05
141 2 0.01
142 4 0.01
143 371 0.93
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (143 bp):
CAAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTAAAGT
TGCAGCAGAGCAAACTAAAGACAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAG
CTACAAATTATGG
Found at i:35947551 original size:286 final size:286
Alignment explanation
Indices: 35947170--35947758 Score: 871
Period size: 286 Copynumber: 2.1 Consensus size: 286
35947160 GATAACAAAC
* * * *
35947170 CTTATCTCCCTAAAGTTGCAGTGGAGTAGGTTGAAGATACAAGTCTTATCTCCCTAAAGTTGCAG
1 CTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGACACAAGCCTTATCTCCCTAAAGTTGCAG
* * *
35947235 CGGAGCAGACTGAAAACAGTGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTACA
66 CGGAGCAAACTGAAAACAGCGAACCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTACA
** **
35947300 AATTATGGCAA-ATCTTATCTTCCTGAAGTTGTAGTGGAGCAGATTGAAGCCACCAGTCTTATCT
131 AATTATGG-AATATCTTATCTTCCTGAAGTTCCAGTGGAGCAGATTGAAGCCACCAACCTTATCT
* **
35947364 CCCTGAAGTTGCAGCAGAGCAGACTAAAGACAACGAATCTTATTTCCCTGGCGTTGTAGTGGAAC
195 CCCTGAAGTTGCAGCAGAGCAAACTAAAGACAACGAATCTTATTTCCCTGAAGTTGTAGTGGAAC
35947429 AGATTAAAGCTACAAATTATGGCGGAT
260 AGATTAAAGCTACAAATTATGGCGGAT
* * *
35947456 CTTATCTTCCTAAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTAAAGTTGCAG
1 CTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGACACAAGCCTTATCTCCCTAAAGTTGCAG
* * *
35947521 CGGAGCAAACTGAAGACAGCGAACCTTATTTCCCTGGTGTTGCAGTGGAATAGATTAAAGCTACA
66 CGGAGCAAACTGAAAACAGCGAACCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTACA
*
35947586 AATTATGGAATATCTTATCTTCCTGAAGTTCCAGTGGAGTAGATTGAAGCCACCAACCTTATCTC
131 AATTATGGAATATCTTATCTTCCTGAAGTTCCAGTGGAGCAGATTGAAGCCACCAACCTTATCTC
* * *
35947651 CCTGAAGTTGCAGCAGAGCAAACTAAAGATAGCGAGTCTTATTTCCCTGAAGTTGTAGTGGAACA
196 CCTGAAGTTGCAGCAGAGCAAACTAAAGACAACGAATCTTATTTCCCTGAAGTTGTAGTGGAACA
* * * *
35947716 GATTGACGCTATAAA-T-T-GCAGAT
261 GATTAAAGCTACAAATTATGGCGGAT
* *
35947739 CTTATCTCTCTGAAGTTGCA
1 CTTATCTCCCTAAAGTTGCA
35947759 ATAGAGCATA
Statistics
Matches: 271, Mismatches: 31, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
283 22 0.08
284 1 0.00
285 3 0.01
286 245 0.90
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (286 bp):
CTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGACACAAGCCTTATCTCCCTAAAGTTGCAG
CGGAGCAAACTGAAAACAGCGAACCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTACA
AATTATGGAATATCTTATCTTCCTGAAGTTCCAGTGGAGCAGATTGAAGCCACCAACCTTATCTC
CCTGAAGTTGCAGCAGAGCAAACTAAAGACAACGAATCTTATTTCCCTGAAGTTGTAGTGGAACA
GATTAAAGCTACAAATTATGGCGGAT
Found at i:35947876 original size:45 final size:45
Alignment explanation
Indices: 35947820--35948027 Score: 215
Period size: 45 Copynumber: 4.7 Consensus size: 45
35947810 TCGAAGTTAT
*
35947820 AAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGACAGC
1 AAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGACAGC
* * *
35947865 TAGTCTTATCTCCCTCAAGTTGCAGTGGAGCAGACTGAAGATAGC
1 AAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGACAGC
* * * * *
35947910 AAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTGAAGCCA-C
1 AAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGACAGC
* * * * * *
35947954 AAATCTAATCTCCCTGAA-TATGTAGTGGAGCAGATTGTAGA-TGC
1 AAGTCTTATCTCCCTGAAGT-TGCAGTGGAGCAGACTGAAGACAGC
* * * *
35947998 GAGTCTAATCTCCCTGAAGTTACAGAGGAG
1 AAGTCTTATCTCCCTGAAGTTGCAGTGGAG
35948028 TAGATCCAAA
Statistics
Matches: 136, Mismatches: 24, Indels: 7
0.81 0.14 0.04
Matches are distributed among these distances:
43 1 0.01
44 58 0.43
45 77 0.57
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (45 bp):
AAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGACAGC
Found at i:35949658 original size:3 final size:3
Alignment explanation
Indices: 35949650--35949684 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
35949640 TAAACTTTAG
*
35949650 ATT ATT ATT ATT ATT ATT ATT GTT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
35949685 CATCATCATC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:35951561 original size:20 final size:22
Alignment explanation
Indices: 35951538--35951577 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
35951528 GGTGAGAACT
35951538 AAAA-GTTTAGGGAA-AAAATA
1 AAAATGTTTAGGGAATAAAATA
*
35951558 AAAATTTTTAGGGAATAAAA
1 AAAATGTTTAGGGAATAAAA
35951578 GTTTGAGGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 9 0.53
22 4 0.24
ACGTcount: A:0.57, C:0.00, G:0.17, T:0.25
Consensus pattern (22 bp):
AAAATGTTTAGGGAATAAAATA
Found at i:35952042 original size:9 final size:9
Alignment explanation
Indices: 35952025--35952055 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
35952015 TCGAGTTGAT
35952025 TCGAATAAC
1 TCGAATAAC
*
35952034 TCGATTAAC
1 TCGAATAAC
35952043 TCGAATAAC
1 TCGAATAAC
35952052 TCGA
1 TCGA
35952056 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:35952905 original size:32 final size:29
Alignment explanation
Indices: 35952869--35952931 Score: 81
Period size: 32 Copynumber: 2.1 Consensus size: 29
35952859 TAAAAAATAT
35952869 ATATTTTTAATAATTTTTATAGTTTTTAAAAA
1 ATATTTTTAATAATTTTT-TA--TTTTAAAAA
* *
35952901 ATATTTTTTATAGTTTTTTATTTTAAAAA
1 ATATTTTTAATAATTTTTTATTTTAAAAA
35952930 AT
1 AT
35952932 TAATTAATTG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 11 0.38
31 2 0.07
32 16 0.55
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (29 bp):
ATATTTTTAATAATTTTTTATTTTAAAAA
Found at i:35953341 original size:24 final size:23
Alignment explanation
Indices: 35953297--35953354 Score: 80
Period size: 24 Copynumber: 2.4 Consensus size: 23
35953287 TTAAAATATA
*
35953297 ATTAAATGAAAATTTTATATTAAT
1 ATTAAAT-AAAATATTATATTAAT
*
35953321 ATTAAATAAAATAATTGTATTAAT
1 ATTAAATAAAAT-ATTATATTAAT
35953345 ATTAAATAAA
1 ATTAAATAAA
35953355 TAAATAAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
23 5 0.16
24 26 0.84
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.41
Consensus pattern (23 bp):
ATTAAATAAAATATTATATTAAT
Found at i:35956940 original size:6 final size:6
Alignment explanation
Indices: 35956929--35956953 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
35956919 AGTTTTCTTC
35956929 AAAATG AAAATG AAAATG AAAATG A
1 AAAATG AAAATG AAAATG AAAATG A
35956954 CCTAGAATTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.68, C:0.00, G:0.16, T:0.16
Consensus pattern (6 bp):
AAAATG
Found at i:35959451 original size:92 final size:92
Alignment explanation
Indices: 35959294--35959473 Score: 263
Period size: 92 Copynumber: 2.0 Consensus size: 92
35959284 AGAAAGCAGG
* * *
35959294 GAGAAAAGATAGAGGGAATTGAGAATAGGAGAGAATAAAGAAGAAAGTTGTATTAAGAAAAATTG
1 GAGAAAAGATAGAAGGAATTGAGAAGAGGAGAGAATAAAGAAGAAAGTTGTATTAACAAAAATTG
* *
35959359 ATAGTTGTTTCCTCTCTCAACAGTAGA
66 ATAATTGTTTCCCCTCTCAACAGTAGA
* * * *
35959386 GAGAAAAGATATAAGGAATTGAGAAGAGGAGAGAATAATGAAGGAAA-TTGTATTAACCACAATT
1 GAGAAAAGATAGAAGGAATTGAGAAGAGGAGAGAATAAAGAA-GAAAGTTGTATTAACAAAAATT
35959450 GATAATTGTTTCCCCTCTCAACAG
65 GATAATTGTTTCCCCTCTCAACAG
35959474 CAGGTTAAAA
Statistics
Matches: 78, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
92 74 0.95
93 4 0.05
ACGTcount: A:0.44, C:0.09, G:0.23, T:0.24
Consensus pattern (92 bp):
GAGAAAAGATAGAAGGAATTGAGAAGAGGAGAGAATAAAGAAGAAAGTTGTATTAACAAAAATTG
ATAATTGTTTCCCCTCTCAACAGTAGA
Found at i:35961514 original size:21 final size:21
Alignment explanation
Indices: 35961490--35961539 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
35961480 TTTGGAATAG
35961490 GTTAAAAAGAATCTCTGGTAA
1 GTTAAAAAGAATCTCTGGTAA
35961511 GTTAAAAAGAATCTCTGGTAA
1 GTTAAAAAGAATCTCTGGTAA
*
35961532 GTCAAAAA
1 GTTAAAAA
35961540 AACATGGTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.46, C:0.10, G:0.18, T:0.26
Consensus pattern (21 bp):
GTTAAAAAGAATCTCTGGTAA
Found at i:35962090 original size:22 final size:21
Alignment explanation
Indices: 35962065--35962110 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 21
35962055 ACTTTTTAAG
35962065 TTTT-TTATTTGTCCTTTATTTA
1 TTTTATTATTTGT--TTTATTTA
35962087 TTTTACTTATTTGTTTTATTTA
1 TTTTA-TTATTTGTTTTATTTA
35962109 TT
1 TT
35962111 GGTTTTATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 14 0.64
24 8 0.36
ACGTcount: A:0.15, C:0.07, G:0.04, T:0.74
Consensus pattern (21 bp):
TTTTATTATTTGTTTTATTTA
Found at i:35965560 original size:29 final size:30
Alignment explanation
Indices: 35965527--35965628 Score: 127
Period size: 30 Copynumber: 3.4 Consensus size: 30
35965517 CCTATGGCCA
*
35965527 GGTGATATGAACTTGAATCGCCCATGT-TG
1 GGTGATATGAACTCGAATCGCCCATGTCTG
* * **
35965556 GGTGATATGAACTCAAATCGCCAATGTCCA
1 GGTGATATGAACTCGAATCGCCCATGTCTG
*
35965586 GGTGATATGAACTCGTA-CTGCCCATGTCTG
1 GGTGATATGAACTCGAATC-GCCCATGTCTG
35965616 GGTGATATGAACT
1 GGTGATATGAACT
35965629 GCTCTGCGAC
Statistics
Matches: 61, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
29 25 0.41
30 36 0.59
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.28
Consensus pattern (30 bp):
GGTGATATGAACTCGAATCGCCCATGTCTG
Found at i:35965587 original size:59 final size:60
Alignment explanation
Indices: 35965493--35965628 Score: 186
Period size: 59 Copynumber: 2.3 Consensus size: 60
35965483 CGGTTGTTGC
* * * *
35965493 TCTGGGTGAAATAAACTCAAACCGCCTATGGCCAGGTGATATGAACTTGAA-TCGCCCATG
1 TCTGGGTGATATGAACTCAAACCGCCAATGGCCAGGTGATATGAACTCGAACT-GCCCATG
* * *
35965553 T-TGGGTGATATGAACTCAAATCGCCAATGTCCAGGTGATATGAACTCGTACTGCCCATG
1 TCTGGGTGATATGAACTCAAACCGCCAATGGCCAGGTGATATGAACTCGAACTGCCCATG
35965612 TCTGGGTGATATGAACT
1 TCTGGGTGATATGAACT
35965629 GCTCTGCGAC
Statistics
Matches: 67, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
59 50 0.75
60 17 0.25
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.26
Consensus pattern (60 bp):
TCTGGGTGATATGAACTCAAACCGCCAATGGCCAGGTGATATGAACTCGAACTGCCCATG
Found at i:35965613 original size:30 final size:30
Alignment explanation
Indices: 35965497--35965628 Score: 115
Period size: 30 Copynumber: 4.4 Consensus size: 30
35965487 TGTTGCTCTG
* * * * * *
35965497 GGTGAAATAAACTCAAACCGCCTATGGCCA
1 GGTGATATGAACTCGAATCGCCCATGTCCA
* **
35965527 GGTGATATGAACTTGAATCGCCCATGT-TG
1 GGTGATATGAACTCGAATCGCCCATGTCCA
* *
35965556 GGTGATATGAACTCAAATCGCCAATGTCCA
1 GGTGATATGAACTCGAATCGCCCATGTCCA
* **
35965586 GGTGATATGAACTCGTA-CTGCCCATGTCTG
1 GGTGATATGAACTCGAATC-GCCCATGTCCA
35965616 GGTGATATGAACT
1 GGTGATATGAACT
35965629 GCTCTGCGAC
Statistics
Matches: 81, Mismatches: 19, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
29 25 0.31
30 56 0.69
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (30 bp):
GGTGATATGAACTCGAATCGCCCATGTCCA
Found at i:35968266 original size:21 final size:22
Alignment explanation
Indices: 35968240--35968294 Score: 78
Period size: 21 Copynumber: 2.6 Consensus size: 22
35968230 TGACTAGTTA
35968240 TAATATATATTTTTTA-TTTTC
1 TAATATATATTTTTTACTTTTC
* *
35968261 TAATATA-AATTTTTACTTTTT
1 TAATATATATTTTTTACTTTTC
35968282 TAATATATATTTT
1 TAATATATATTTT
35968295 AAAAAGCCAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
20 7 0.24
21 18 0.62
22 4 0.14
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.64
Consensus pattern (22 bp):
TAATATATATTTTTTACTTTTC
Found at i:35968488 original size:21 final size:20
Alignment explanation
Indices: 35968464--35968507 Score: 61
Period size: 22 Copynumber: 2.1 Consensus size: 20
35968454 TAAAATTAAA
*
35968464 TAAATATATATTTAAAAATTT
1 TAAATATACATTT-AAAATTT
35968485 TAAAATATACATTTAAAATTT
1 T-AAATATACATTTAAAATTT
35968506 TA
1 TA
35968508 TAAAAAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 1 0.05
21 9 0.43
22 11 0.52
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (20 bp):
TAAATATACATTTAAAATTT
Found at i:35968599 original size:18 final size:19
Alignment explanation
Indices: 35968571--35968617 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 19
35968561 TTTTATATTA
35968571 TTAAAAAATATTT-AAA-T
1 TTAAAAAATATTTAAAATT
35968588 TTAAAAATATATTTAAAATT
1 TTAAAAA-ATATTTAAAATT
35968608 TTAAAAAATA
1 TTAAAAAATA
35968618 ATATTATAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.26
18 6 0.22
19 6 0.22
20 8 0.30
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (19 bp):
TTAAAAAATATTTAAAATT
Found at i:35968755 original size:25 final size:26
Alignment explanation
Indices: 35968695--35968756 Score: 67
Period size: 25 Copynumber: 2.4 Consensus size: 26
35968685 TAAATAAAGG
35968695 AAAAATAAAAAACTTAAAAAGTAAATA
1 AAAAAT-AAAAACTTAAAAAGTAAATA
* *
35968722 AATAA-AAAAACTTAAAACG-AAA-A
1 AAAAATAAAAACTTAAAAAGTAAATA
35968745 AAAAATGAAAAA
1 AAAAAT-AAAAA
35968757 GGACAAAGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
23 5 0.17
24 3 0.10
25 18 0.60
27 4 0.13
ACGTcount: A:0.76, C:0.05, G:0.05, T:0.15
Consensus pattern (26 bp):
AAAAATAAAAACTTAAAAAGTAAATA
Found at i:35973889 original size:35 final size:34
Alignment explanation
Indices: 35973848--35973913 Score: 98
Period size: 35 Copynumber: 1.9 Consensus size: 34
35973838 ATGTATATAT
*
35973848 ATGTATATGTTATAATAATAAATAA-AATGAATCTA
1 ATGTATATATTATAAT-AT-AATAATAATGAATCTA
35973883 ATGTATATATTATAATATAATAATAATGAAT
1 ATGTATATATTATAATATAATAATAATGAAT
35973914 GAAATTAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
33 5 0.17
34 9 0.31
35 15 0.52
ACGTcount: A:0.52, C:0.02, G:0.08, T:0.39
Consensus pattern (34 bp):
ATGTATATATTATAATATAATAATAATGAATCTA
Found at i:35975145 original size:19 final size:20
Alignment explanation
Indices: 35975116--35975159 Score: 58
Period size: 19 Copynumber: 2.3 Consensus size: 20
35975106 CAAATATTAA
35975116 AAATG-AATATGAGA-TGA-G
1 AAATGAAATATGA-ATTGATG
35975134 AAATGAAATATGAATTGATG
1 AAATGAAATATGAATTGATG
35975154 AAATGA
1 AAATGA
35975160 GATGTGAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
18 6 0.26
19 10 0.43
20 7 0.30
ACGTcount: A:0.52, C:0.00, G:0.23, T:0.25
Consensus pattern (20 bp):
AAATGAAATATGAATTGATG
Found at i:35981071 original size:26 final size:28
Alignment explanation
Indices: 35981029--35981081 Score: 74
Period size: 26 Copynumber: 1.9 Consensus size: 28
35981019 CCAACATGGC
35981029 TCACAAAGGAGCACGCAT-GGAGTTTTA
1 TCACAAAGGAGCACGCATAGGAGTTTTA
*
35981056 TCACAAA-GAGCTCGCATAAGGAGTTT
1 TCACAAAGGAGCACGCAT-AGGAGTTT
35981082 ACTTATCACA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 9 0.39
27 7 0.30
28 7 0.30
ACGTcount: A:0.34, C:0.19, G:0.25, T:0.23
Consensus pattern (28 bp):
TCACAAAGGAGCACGCATAGGAGTTTTA
Found at i:35991578 original size:27 final size:27
Alignment explanation
Indices: 35991540--35991592 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
35991530 TTAAATGTGA
35991540 AAGGGGTTGCTAAGTGCTGATTCCCCC
1 AAGGGGTTGCTAAGTGCTGATTCCCCC
*
35991567 AAGGGGTTGCTAAGTGTTGATTCCCC
1 AAGGGGTTGCTAAGTGCTGATTCCCC
35991593 GATTCATTGG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.19, C:0.23, G:0.30, T:0.28
Consensus pattern (27 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCC
Found at i:35991616 original size:102 final size:102
Alignment explanation
Indices: 35991440--35991667 Score: 420
Period size: 102 Copynumber: 2.2 Consensus size: 102
35991430 GAATATAAAG
*
35991440 GGGGTTGCTAAGTGATGATTCCCCAAAGGGGTTGCTAAGTGCTGATTCCCCGACTCATTGGTGGT
1 GGGGTTGCTAAGTGCTGATTCCCCAAAGGGGTTGCTAAGTGCTGATTCCCCGACTCATTGGTGGT
35991505 TGCTAAGTGCTGATTCCACCGTATCTTAAATGTGAAA
66 TGCTAAGTGCTGATTCCACCGTATCTTAAATGTGAAA
* * *
35991542 GGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGTTGATTCCCCGATTCATTGGTGGT
1 GGGGTTGCTAAGTGCTGATTCCCCAAAGGGGTTGCTAAGTGCTGATTCCCCGACTCATTGGTGGT
35991607 TGCTAAGTGCTGATTCCACCGTATCTTAAATGTGAAA
66 TGCTAAGTGCTGATTCCACCGTATCTTAAATGTGAAA
35991644 GGGGTTGCTAAGTGCTGATTCCCC
1 GGGGTTGCTAAGTGCTGATTCCCC
35991668 GACTCATTGG
Statistics
Matches: 122, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
102 122 1.00
ACGTcount: A:0.21, C:0.20, G:0.28, T:0.31
Consensus pattern (102 bp):
GGGGTTGCTAAGTGCTGATTCCCCAAAGGGGTTGCTAAGTGCTGATTCCCCGACTCATTGGTGGT
TGCTAAGTGCTGATTCCACCGTATCTTAAATGTGAAA
Found at i:35991663 original size:42 final size:41
Alignment explanation
Indices: 35991604--35991738 Score: 160
Period size: 42 Copynumber: 3.4 Consensus size: 41
35991594 ATTCATTGGT
35991604 GGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTGAAAGG
1 GGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTG-AAGG
* *
35991646 GGTTGCTAAGTGCTGATTCC-CCG-A-C-T-CAT-TG--GT
1 GGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTGAAGG
*
35991679 GGTTGCTAAGTGCTGATTCTACCGTATCTTAAATGTGAAGGG
1 GGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTGAA-GG
*
35991721 GGTTGCTAAGTACTGATT
1 GGTTGCTAAGTGCTGATT
35991739 TCCCCGAGGG
Statistics
Matches: 78, Mismatches: 6, Indels: 18
0.76 0.06 0.18
Matches are distributed among these distances:
33 20 0.26
34 3 0.04
35 1 0.01
36 3 0.04
37 3 0.04
38 3 0.04
39 3 0.04
40 1 0.01
41 3 0.04
42 38 0.49
ACGTcount: A:0.22, C:0.17, G:0.27, T:0.33
Consensus pattern (41 bp):
GGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTGAAGG
Found at i:35991690 original size:75 final size:75
Alignment explanation
Indices: 35991567--35991745 Score: 304
Period size: 75 Copynumber: 2.4 Consensus size: 75
35991557 TGATTCCCCC
* *
35991567 AAGGGGTTGCTAAGTGTTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGACTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATC
35991632 TTAAATGTGA
66 TTAAATGTGA
*
35991642 AAGGGGTTGCTAAGTGCTGATTCCCCGACTCATTGGTGGTTGCTAAGTGCTGATTCTACCGTATC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGACTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATC
35991707 TTAAATGTGA
66 TTAAATGTGA
* *
35991717 AGGGGGTTGCTAAGTACTGATTTCCCCGA
1 AAGGGGTTGCTAAGTGCTGA-TTCCCCGA
35991746 GGGGTTGCTA
Statistics
Matches: 98, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
75 90 0.92
76 8 0.08
ACGTcount: A:0.21, C:0.18, G:0.27, T:0.33
Consensus pattern (75 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGACTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATC
TTAAATGTGA
Found at i:35991749 original size:102 final size:101
Alignment explanation
Indices: 35991643--35991846 Score: 336
Period size: 102 Copynumber: 2.0 Consensus size: 101
35991633 TAAATGTGAA
* * * *
35991643 AGGGGTTGCTAAGTGCTGATTCCCCGACTCATTGGTGGTTGCTAAGTGCTGATTCTACCGTATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAATGCTGATCCCACCGTATCT
*
35991708 TAAATGTGAAGGGGGTTGCTAAGTACTGATTTCCCCG
66 TAAATGTGAAAGGGGTTGCTAAGTACTGA-TTCCCCG
*
35991745 AGGGGTTGCTAAGTGCTGTTTCCCCGAATCATTGGTGGTTGCTAAATGCTGATCCCACCGTATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAATGCTGATCCCACCGTATCT
*
35991810 TAAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCCG
66 TAAATGTGAAAGGGGTTGCTAAGTACTGATTCCCCG
35991846 A
1 A
35991847 CTCATTGGTA
Statistics
Matches: 95, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
101 8 0.08
102 87 0.92
ACGTcount: A:0.21, C:0.20, G:0.28, T:0.31
Consensus pattern (101 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAATGCTGATCCCACCGTATCT
TAAATGTGAAAGGGGTTGCTAAGTACTGATTCCCCG
Found at i:35991756 original size:27 final size:26
Alignment explanation
Indices: 35991719--35991771 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 26
35991709 AAATGTGAAG
35991719 GGGGTTGCTAAGTACTGATTTCCCCGA
1 GGGGTTGCTAAGTACTG-TTTCCCCGA
*
35991746 GGGGTTGCTAAGTGCTGTTTCCCCGA
1 GGGGTTGCTAAGTACTGTTTCCCCGA
35991772 ATCATTGGTG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
26 9 0.36
27 16 0.64
ACGTcount: A:0.15, C:0.23, G:0.32, T:0.30
Consensus pattern (26 bp):
GGGGTTGCTAAGTACTGTTTCCCCGA
Found at i:35991770 original size:177 final size:177
Alignment explanation
Indices: 35991464--35991877 Score: 711
Period size: 177 Copynumber: 2.3 Consensus size: 177
35991454 ATGATTCCCC
35991464 AAAGGGGTTGCTAAGTGCTGATTCCCCGACTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTAT
1 AAAGGGGTTGCTAAGTGCTGATTCCCCGACTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTAT
* *
35991529 CTTAAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGTTGATTCCCCG
66 CTTAAATGTGAAAGGGGTTGCTAAGTACTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCG
* * *
35991594 ATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTG
131 AATCATTGGTGGTTGCTAAATGCTGATCCCACCGTATCTTAAATGTG
*
35991641 AAAGGGGTTGCTAAGTGCTGATTCCCCGACTCATTGGTGGTTGCTAAGTGCTGATTCTACCGTAT
1 AAAGGGGTTGCTAAGTGCTGATTCCCCGACTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTAT
* * * *
35991706 CTTAAATGTGAAGGGGGTTGCTAAGTACTGATTTCCCCGAGGGGTTGCTAAGTGCTGTTTCCCCG
66 CTTAAATGTGAAAGGGGTTGCTAAGTACTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCG
35991771 AATCATTGGTGGTTGCTAAATGCTGATCCCACCGTATCTTAAATGTG
131 AATCATTGGTGGTTGCTAAATGCTGATCCCACCGTATCTTAAATGTG
* * *
35991818 AAAGGGGTTGCTAAGTGCTGATTCCCCGACTCATTGGTAGTTGCTAAGTGTTGAATCCAC
1 AAAGGGGTTGCTAAGTGCTGATTCCCCGACTCATTGGTGGTTGCTAAGTGCTGATTCCAC
35991878 TGATAACGGA
Statistics
Matches: 223, Mismatches: 14, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
177 223 1.00
ACGTcount: A:0.21, C:0.20, G:0.27, T:0.32
Consensus pattern (177 bp):
AAAGGGGTTGCTAAGTGCTGATTCCCCGACTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTAT
CTTAAATGTGAAAGGGGTTGCTAAGTACTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCG
AATCATTGGTGGTTGCTAAATGCTGATCCCACCGTATCTTAAATGTG
Found at i:35994056 original size:25 final size:26
Alignment explanation
Indices: 35993996--35994060 Score: 87
Period size: 29 Copynumber: 2.4 Consensus size: 26
35993986 TAATTATATT
*
35993996 TTTATTTAATTTAATTTAAATAAAAA
1 TTTATTTAATTTAACTTAAATAAAAA
35994022 TTACTCATTTAATTTAACTTAAATAAAAA
1 TT--T-ATTTAATTTAACTTAAATAAAAA
35994051 -TTATTTAATT
1 TTTATTTAATT
35994061 ATATATTATC
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
25 8 0.23
26 3 0.09
28 2 0.06
29 22 0.63
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (26 bp):
TTTATTTAATTTAACTTAAATAAAAA
Found at i:36001967 original size:27 final size:27
Alignment explanation
Indices: 36001937--36002133 Score: 105
Period size: 27 Copynumber: 7.7 Consensus size: 27
36001927 AGATAAATTT
36001937 AAATGAAATGAGTAAAAATTTTCATTG
1 AAATGAAATGAGTAAAAATTTTCATTG
* *
36001964 AAATGAAATGAGAAAAAATTAAATTATATTTG
1 AAATGAAATGAGTAAAAATT---TT-CA-TTG
36001996 AAA-GAAA-GA-T--AAA---T--TT-
1 AAATGAAATGAGTAAAAATTTTCATTG
36002012 AAATGAAATGAGTAAAAATTTTCATTG
1 AAATGAAATGAGTAAAAATTTTCATTG
* *
36002039 AAATGAAATGAGAAAAAATTAAATTATATTTG
1 AAATGAAATGAGTAAAAATT---TT-CA-TTG
36002071 AAA-GAAA-GA-T--AAA---T--TT-
1 AAATGAAATGAGTAAAAATTTTCATTG
36002087 AAATGAAATGAGTAAAAATTTTCATTG
1 AAATGAAATGAGTAAAAATTTTCATTG
*
36002114 AAATGAAATGAGAAAAAATT
1 AAATGAAATGAGTAAAAATT
36002134 AAATTATATT
Statistics
Matches: 131, Mismatches: 7, Indels: 64
0.65 0.03 0.32
Matches are distributed among these distances:
16 6 0.05
17 12 0.09
18 4 0.03
19 2 0.02
21 8 0.06
24 2 0.02
26 4 0.03
27 63 0.48
30 8 0.06
31 10 0.08
32 12 0.09
ACGTcount: A:0.55, C:0.02, G:0.14, T:0.30
Consensus pattern (27 bp):
AAATGAAATGAGTAAAAATTTTCATTG
Found at i:36002016 original size:48 final size:48
Alignment explanation
Indices: 36001964--36002174 Score: 137
Period size: 48 Copynumber: 4.3 Consensus size: 48
36001954 ATTTTCATTG
36001964 AAATGAAATGAGAAAAAATTAAATTATATTTGAAAG-AAAGATAAATTT
1 AAATGAAATGAGAAAAAATTAAATT-TATTTGAAAGAAAAGATAAATTT
* * * *
36002012 AAATGAAATGAGTAAAAATT---TTCA-TTGAAATGAAATGAGAAAAAATT
1 AAATGAAATGAGAAAAAATTAAATTTATTTGAAA-GAAA--AGATAAATTT
* * ** * ** * ** *
36002059 AAATTATATTTGAAAGAAAGATAAATTTAAATGAAATGAGTAAAAATTTTCATTG
1 AAATGAAATGAGAAA-AAA-TTAAATTTATTTGAAA-GA--AAAGA--TAAATTT
36002114 AAATGAAATGAGAAAAAATTAAATTATATTTGAAAG-AAAGATAAATTT
1 AAATGAAATGAGAAAAAATTAAATT-TATTTGAAAGAAAAGATAAATTT
36002162 AAATGAAATGAGA
1 AAATGAAATGAGA
36002175 GGCACTTTTA
Statistics
Matches: 119, Mismatches: 29, Indels: 30
0.67 0.16 0.17
Matches are distributed among these distances:
43 6 0.05
44 2 0.02
45 4 0.03
47 18 0.15
48 39 0.33
49 1 0.01
50 4 0.03
52 3 0.03
53 17 0.14
54 10 0.08
55 15 0.13
ACGTcount: A:0.56, C:0.01, G:0.14, T:0.29
Consensus pattern (48 bp):
AAATGAAATGAGAAAAAATTAAATTTATTTGAAAGAAAAGATAAATTT
Found at i:36002206 original size:75 final size:75
Alignment explanation
Indices: 36001856--36002173 Score: 539
Period size: 75 Copynumber: 4.2 Consensus size: 75
36001846 AAAGGTTGAT
* * ** * * * *
36001856 AATTTAAATGAAATGAGAAAAAAATTTGTTTGAAATGAAATG-GTACAAAATTTAAATGAAAATT
1 AATTTAAATGAAATGAGTAAAAATTTTCATTGAAATGAAATGAG-A-AAAAATTAAATTATATTT
36001920 GAAAGAAAGATA
64 GAAAGAAAGATA
36001932 AATTTAAATGAAATGAGTAAAAATTTTCATTGAAATGAAATGAGAAAAAATTAAATTATATTTGA
1 AATTTAAATGAAATGAGTAAAAATTTTCATTGAAATGAAATGAGAAAAAATTAAATTATATTTGA
36001997 AAGAAAGATA
66 AAGAAAGATA
36002007 AATTTAAATGAAATGAGTAAAAATTTTCATTGAAATGAAATGAGAAAAAATTAAATTATATTTGA
1 AATTTAAATGAAATGAGTAAAAATTTTCATTGAAATGAAATGAGAAAAAATTAAATTATATTTGA
36002072 AAGAAAGATA
66 AAGAAAGATA
36002082 AATTTAAATGAAATGAGTAAAAATTTTCATTGAAATGAAATGAGAAAAAATTAAATTATATTTGA
1 AATTTAAATGAAATGAGTAAAAATTTTCATTGAAATGAAATGAGAAAAAATTAAATTATATTTGA
36002147 AAGAAAGATA
66 AAGAAAGATA
36002157 AATTTAAATGAAATGAG
1 AATTTAAATGAAATGAG
36002174 AGGCACTTTT
Statistics
Matches: 233, Mismatches: 8, Indels: 3
0.95 0.03 0.01
Matches are distributed among these distances:
75 193 0.83
76 39 0.17
77 1 0.00
ACGTcount: A:0.55, C:0.01, G:0.14, T:0.30
Consensus pattern (75 bp):
AATTTAAATGAAATGAGTAAAAATTTTCATTGAAATGAAATGAGAAAAAATTAAATTATATTTGA
AAGAAAGATA
Found at i:36002382 original size:19 final size:19
Alignment explanation
Indices: 36002343--36002383 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
36002333 TGAATTGAGA
*
36002343 AAAAAATAAATTTAAATTG
1 AAAAAATAAATTTAAAGTG
36002362 AAAAAATATAATTT-AAGTG
1 AAAAAATA-AATTTAAAGTG
36002381 AAA
1 AAA
36002384 TGGAATTGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 15 0.75
20 5 0.25
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.29
Consensus pattern (19 bp):
AAAAAATAAATTTAAAGTG
Found at i:36002402 original size:12 final size:12
Alignment explanation
Indices: 36002379--36002408 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
36002369 ATAATTTAAG
36002379 TGAAAT-GGAAT
1 TGAAATGGGAAT
36002390 TGAAATGGGAAT
1 TGAAATGGGAAT
36002402 TGAAATG
1 TGAAATG
36002409 AAATTGGAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 6 0.33
12 12 0.67
ACGTcount: A:0.43, C:0.00, G:0.30, T:0.27
Consensus pattern (12 bp):
TGAAATGGGAAT
Found at i:36002412 original size:5 final size:5
Alignment explanation
Indices: 36002379--36002457 Score: 50
Period size: 5 Copynumber: 14.6 Consensus size: 5
36002369 ATAATTTAAG
* * * *
36002379 TGAAA TGGAAT TGAAA TGGGAAT TGAAA TGAAA TTGGAA TGAAA TAAAA
1 TGAAA T-GAAA TGAAA T--GAAA TGAAA TGAAA -TGAAA TGAAA TGAAA
* *
36002428 TTAAAA TGAAA TGAAAA TGAAA AGAAA TGA
1 -TGAAA TGAAA TG-AAA TGAAA TGAAA TGA
36002458 CTAATCTGTA
Statistics
Matches: 58, Mismatches: 10, Indels: 12
0.73 0.12 0.15
Matches are distributed among these distances:
5 36 0.62
6 18 0.31
7 4 0.07
ACGTcount: A:0.56, C:0.00, G:0.22, T:0.23
Consensus pattern (5 bp):
TGAAA
Found at i:36002420 original size:11 final size:11
Alignment explanation
Indices: 36002379--36002455 Score: 66
Period size: 11 Copynumber: 7.0 Consensus size: 11
36002369 ATAATTTAAG
*
36002379 TGAAATGGAAT
1 TGAAATGAAAT
*
36002390 TGAAATGGGAAT
1 TGAAAT-GAAAT
36002402 TGAAATGAAAT
1 TGAAATGAAAT
*
36002413 TGGAATGAAA-
1 TGAAATGAAAT
* * *
36002423 TAAAATTAAAA
1 TGAAATGAAAT
*
36002434 TGAAATGAAAA
1 TGAAATGAAAT
*
36002445 TGAAAAGAAAT
1 TGAAATGAAAT
36002456 GACTAATCTG
Statistics
Matches: 55, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
10 7 0.13
11 37 0.67
12 11 0.20
ACGTcount: A:0.56, C:0.00, G:0.21, T:0.23
Consensus pattern (11 bp):
TGAAATGAAAT
Found at i:36002423 original size:16 final size:16
Alignment explanation
Indices: 36002379--36002457 Score: 68
Period size: 16 Copynumber: 4.8 Consensus size: 16
36002369 ATAATTTAAG
*
36002379 TGAAATGGAATTGAAAT
1 TGAAAT-GAAATGAAAT
* *
36002396 GGGAATTGAAATGAAAT
1 -TGAAATGAAATGAAAT
* *
36002413 TGGAATGAAATAAAAT
1 TGAAATGAAATGAAAT
* *
36002429 TAAAATGAAATGAAAA
1 TGAAATGAAATGAAAT
*
36002445 TGAAAAGAAATGA
1 TGAAATGAAATGA
36002458 CTAATCTGTA
Statistics
Matches: 48, Mismatches: 13, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
16 35 0.73
17 9 0.19
18 4 0.08
ACGTcount: A:0.56, C:0.00, G:0.22, T:0.23
Consensus pattern (16 bp):
TGAAATGAAATGAAAT
Found at i:36004445 original size:54 final size:53
Alignment explanation
Indices: 36004387--36004668 Score: 279
Period size: 53 Copynumber: 5.3 Consensus size: 53
36004377 CTCTGGTGCC
* ***** * *
36004387 GGCCATTGACAGGCCAGCACTAAATTTTTTTAATTTTTTTGGGTACTTGGTGGT
1 GGCCATTGACAGGCCAACACTAAAAAAAATTGATTTTTTT-TGTACTTGGTGGT
* * *
36004441 GGCCATTGATAGGCTAACAC-AAAAAAAAGTTGATTTTTTTTATACTTGGTGGT
1 GGCCATTGACAGGCCAACACTAAAAAAAA-TTGATTTTTTTTGTACTTGGTGGT
* *
36004494 GGCCATTGACAGGCTAACA-TAAAAAAAATTGATTTTTTTTTGTACTTGATGGT
1 GGCCATTGACAGGCCAACACTAAAAAAAATTGA-TTTTTTTTGTACTTGGTGGT
* * * *
36004547 GGCCATTGACAGGTCAGCA-TCAAAAAAATGTGATTTATTTTTGTACATGGTGGT
1 GGCCATTGACAGGCCAACACTAAAAAAAAT-TGATTT-TTTTTGTACTTGGTGGT
* **
36004601 AGATATTGACAGGCCAACA-TACAAAAAAAATTGA-TTTTTTT-TACTTGGTGGT
1 GGCCATTGACAGGCCAACACT--AAAAAAAATTGATTTTTTTTGTACTTGGTGGT
36004653 GGCCATTGACAGGCCA
1 GGCCATTGACAGGCCA
36004669 GCATCAATTT
Statistics
Matches: 191, Mismatches: 30, Indels: 16
0.81 0.13 0.07
Matches are distributed among these distances:
52 27 0.14
53 91 0.48
54 62 0.32
55 3 0.02
56 8 0.04
ACGTcount: A:0.30, C:0.13, G:0.22, T:0.35
Consensus pattern (53 bp):
GGCCATTGACAGGCCAACACTAAAAAAAATTGATTTTTTTTGTACTTGGTGGT
Found at i:36004493 original size:53 final size:52
Alignment explanation
Indices: 36004419--36004666 Score: 288
Period size: 53 Copynumber: 4.7 Consensus size: 52
36004409 AATTTTTTTA
* *
36004419 ATTTTTTTGGGTACTTGGTGGTGGCCATTGATAGGCTAACACAAAAAAAAGTTG
1 ATTTTTTT-TGTACTTGGTGGTGGCCATTGACAGGCTAACACAAAAAAAA-TTG
* *
36004473 ATTTTTTTTATACTTGGTGGTGGCCATTGACAGGCTAACATAAAAAAAATTG
1 ATTTTTTTTGTACTTGGTGGTGGCCATTGACAGGCTAACACAAAAAAAATTG
* *
36004525 ATTTTTTTTTGTACTTGATGGTGGCCATTGACAGG-TCAGCATC-AAAAAAATGTG
1 A-TTTTTTTTGTACTTGGTGGTGGCCATTGACAGGCT-AACA-CAAAAAAAAT-TG
* * ** *
36004579 ATTTATTTTTGTACATGGTGGTAGATATTGACAGGCCAACATACAAAAAAAATTG
1 ATTT-TTTTTGTACTTGGTGGTGGCCATTGACAGGCTAAC--ACAAAAAAAATTG
36004634 A-TTTTTTT-TACTTGGTGGTGGCCATTGACAGGC
1 ATTTTTTTTGTACTTGGTGGTGGCCATTGACAGGC
36004667 CAGCATCAAT
Statistics
Matches: 166, Mismatches: 19, Indels: 20
0.81 0.09 0.10
Matches are distributed among these distances:
52 26 0.16
53 87 0.52
54 40 0.24
55 4 0.02
56 9 0.05
ACGTcount: A:0.30, C:0.12, G:0.22, T:0.36
Consensus pattern (52 bp):
ATTTTTTTTGTACTTGGTGGTGGCCATTGACAGGCTAACACAAAAAAAATTG
Found at i:36004572 original size:106 final size:107
Alignment explanation
Indices: 36004419--36004675 Score: 319
Period size: 106 Copynumber: 2.4 Consensus size: 107
36004409 AATTTTTTTA
** * * *
36004419 ATTTTTTTGGGTACTTGGTGGTGGCCATTGATAGGCTAACA-CAAAAAAAAGTTGATTT-TTTTT
1 ATTTTTTTTTGTACTTGGTGGTGGCCATTGACAGGC-AGCATCAAAAAAATG-TGATTTATTTTT
* * * *
36004482 ATACTTGGTGGTGGCCATTGACAGGCTAACAT-AAAAAAAATTG
64 ATACATGGTGGTAGACATTGACAGGCCAACATAAAAAAAAATTG
* *
36004525 ATTTTTTTTTGTACTTGATGGTGGCCATTGACAGGTCAGCATCAAAAAAATGTGATTTATTTTTG
1 ATTTTTTTTTGTACTTGGTGGTGGCCATTGACAGG-CAGCATCAAAAAAATGTGATTTATTTTTA
*
36004590 TACATGGTGGTAGATATTGACAGGCCAACATACAAAAAAAATTG
65 TACATGGTGGTAGACATTGACAGGCCAACATA-AAAAAAAATTG
36004634 A--TTTTTTT-TACTTGGTGGTGGCCATTGACAGGCCAGCATCAA
1 ATTTTTTTTTGTACTTGGTGGTGGCCATTGACAGG-CAGCATCAA
36004676 TTTTTTTTAA
Statistics
Matches: 132, Mismatches: 14, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
106 72 0.55
107 48 0.36
109 12 0.09
ACGTcount: A:0.30, C:0.13, G:0.22, T:0.35
Consensus pattern (107 bp):
ATTTTTTTTTGTACTTGGTGGTGGCCATTGACAGGCAGCATCAAAAAAATGTGATTTATTTTTAT
ACATGGTGGTAGACATTGACAGGCCAACATAAAAAAAAATTG
Found at i:36014774 original size:20 final size:19
Alignment explanation
Indices: 36014751--36014957 Score: 78
Period size: 20 Copynumber: 10.4 Consensus size: 19
36014741 ATGCACATTA
36014751 GTGCCCCTGTTTGCACTTT
1 GTGCCCCTGTTTGCACTTT
* ***
36014770 GGTGCCCTTAAATGCACATTT
1 -GTGCCCCTGTTTGCAC-TTT
* ****
36014791 GTGCCACTGAACACACATTT
1 GTGCCCCTGTTTGCAC-TTT
*
36014811 GTGCCCCTGTTCGCACTTT
1 GTGCCCCTGTTTGCACTTT
* * *
36014830 GGTACCCCTGTATACACTTT
1 -GTGCCCCTGTTTGCACTTT
*
36014850 AGTGTCCCC-ATTTGCACGTTT
1 -GTG-CCCCTGTTTGCAC-TTT
* **
36014871 GTGCCCCTGTTCGCACTAC
1 GTGCCCCTGTTTGCACTTT
* * * * *
36014890 GATGCCCTTGTATACAATTCA
1 G-TGCCCCTGTTTGCACTT-T
36014911 GTGTCCCC-GTTTGCACGTTT
1 GTG-CCCCTGTTTGCAC-TTT
*
36014931 GTG-CCCTGTTCGCACTTT
1 GTGCCCCTGTTTGCACTTT
36014949 AGTGCCCCT
1 -GTGCCCCT
36014958 ATTCTGTATA
Statistics
Matches: 136, Mismatches: 39, Indels: 24
0.68 0.20 0.12
Matches are distributed among these distances:
18 6 0.04
19 19 0.14
20 95 0.70
21 16 0.12
ACGTcount: A:0.15, C:0.31, G:0.19, T:0.34
Consensus pattern (19 bp):
GTGCCCCTGTTTGCACTTT
Found at i:36014872 original size:60 final size:60
Alignment explanation
Indices: 36014808--36014957 Score: 212
Period size: 60 Copynumber: 2.5 Consensus size: 60
36014798 TGAACACACA
* * *
36014808 TTTGTGCCCCTGTTCGCACTTTGGTACCCCTGTATACACTTTAGTGTCCCCATTTGCACG
1 TTTGTGCCCCTGTTCGCACTTTGGTGCCCCTGTATACAATTCAGTGTCCCCATTTGCACG
** * * *
36014868 TTTGTGCCCCTGTTCGCACTACGATGCCCTTGTATACAATTCAGTGTCCCCGTTTGCACG
1 TTTGTGCCCCTGTTCGCACTTTGGTGCCCCTGTATACAATTCAGTGTCCCCATTTGCACG
*
36014928 TTTGTG-CCCTGTTCGCACTTTAGTGCCCCT
1 TTTGTGCCCCTGTTCGCACTTTGGTGCCCCT
36014958 ATTCTGTATA
Statistics
Matches: 77, Mismatches: 13, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
59 19 0.25
60 58 0.75
ACGTcount: A:0.13, C:0.32, G:0.19, T:0.36
Consensus pattern (60 bp):
TTTGTGCCCCTGTTCGCACTTTGGTGCCCCTGTATACAATTCAGTGTCCCCATTTGCACG
Found at i:36017047 original size:42 final size:43
Alignment explanation
Indices: 36016977--36017079 Score: 118
Period size: 42 Copynumber: 2.4 Consensus size: 43
36016967 TTGAGATTTG
*
36016977 CATGTAAGACCATGTCTGAGACATTGGCATC-ATATATGATTA
1 CATGTAAGACCATGTCTGAGACAGTGGCATCGATATATGATTA
* * * * * *
36017019 CATGTAAGACCCTGTTTGGGACAGTGGCATCGTTGTTTGATTA
1 CATGTAAGACCATGTCTGAGACAGTGGCATCGATATATGATTA
* *
36017062 CTTGTAAGACCACGTCTG
1 CATGTAAGACCATGTCTG
36017080 GGACGTTGGC
Statistics
Matches: 49, Mismatches: 11, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
42 27 0.55
43 22 0.45
ACGTcount: A:0.26, C:0.18, G:0.23, T:0.32
Consensus pattern (43 bp):
CATGTAAGACCATGTCTGAGACAGTGGCATCGATATATGATTA
Found at i:36017082 original size:43 final size:42
Alignment explanation
Indices: 36016977--36017091 Score: 117
Period size: 43 Copynumber: 2.7 Consensus size: 42
36016967 TTGAGATTTG
* * *
36016977 CATGTAAGACCATGTCTGAGACATTGGCATCATATATGATTA
1 CATGTAAGACCACGTCTGGGACAGTGGCATCATATATGATTA
* * * *
36017019 CATGTAAGACC-CTGTTTGGGACAGTGGCATCGTTGTTTGATTA
1 CATGTAAGACCAC-GTCTGGGACAGTGGCATC-ATATATGATTA
*
36017062 CTTGTAAGACCACGTCTGGGAC-GTTGGCAT
1 CATGTAAGACCACGTCTGGGACAG-TGGCAT
36017092 TGTACGAGCT
Statistics
Matches: 60, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
42 27 0.45
43 32 0.53
44 1 0.02
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.31
Consensus pattern (42 bp):
CATGTAAGACCACGTCTGGGACAGTGGCATCATATATGATTA
Found at i:36023107 original size:8 final size:8
Alignment explanation
Indices: 36023094--36023118 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
36023084 TTTTTAATGA
36023094 TATTTTAT
1 TATTTTAT
36023102 TATTTTAT
1 TATTTTAT
36023110 TATTTTAT
1 TATTTTAT
36023118 T
1 T
36023119 TAGCATATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TATTTTAT
Found at i:36030037 original size:44 final size:44
Alignment explanation
Indices: 36029966--36030107 Score: 214
Period size: 44 Copynumber: 3.2 Consensus size: 44
36029956 TATGTGATAT
* * *
36029966 CGTGTAAGACCACGTCTAGGACATTGGCATC-ATATTGAAATTTA
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCGA-ATTGAGATTTA
* *
36030010 CGTGTAAGATCACGTCTGGGACGTTGGCATCGAATTTAGATTTA
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCGAATTGAGATTTA
36030054 CGTGTAAGACCACGTCTGGGACGTTGGCATCGAATTGAGATTTA
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCGAATTGAGATTTA
*
36030098 TGTGTAAGAC
1 CGTGTAAGAC
36030108 TCTGTCTGGG
Statistics
Matches: 89, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
44 88 0.99
45 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (44 bp):
CGTGTAAGACCACGTCTGGGACGTTGGCATCGAATTGAGATTTA
Found at i:36032688 original size:102 final size:99
Alignment explanation
Indices: 36032420--36032706 Score: 319
Period size: 102 Copynumber: 2.8 Consensus size: 99
36032410 ACAACCAAGG
* * **
36032420 TGGTGGAGCCATTCTTTATGGCTCCACCAAAATAAAATATCA-TTTTTAAAATTTTTGGATTAAA
1 TGGTGGCGCCATTCTTTATGGCTCCACC-AAATAAAATATTATTTTTTAAAATTTTTAAATTAAA
36032484 AAACAACACATTTAAAAAAAATCCATACAGTACAC
65 AAACAACACATTTAAAAAAAATCCATACAGTACAC
* * * * *
36032519 TGGTGGCGTCATTCTTTATAGCTCCACCAAATAAAATATTATTTTTTTTAAATTTTAAAATAAAA
1 TGGTGGCGCCATTCTTTATGGCTCCACCAAATAAAATATTA-TTTTTTAAAATTTTTAAATTAAA
* * * * * *
36032584 AAATAATAGATTTAAAAATATAT-TATACATAGTATAC
65 AAACAACACATTTAAAAA-AAATCCATAC--AGTACAC
* * *
36032621 TGGTGGCGCCATTCTATATGGATCTACCAAATAAAATATTATTTTTTAAAATTTTTAAATTTGAA
1 TGGTGGCGCCATTCTTTATGGCTCCACCAAATAAAATATTATTTTTTAAAATTTTTAAA-TT-AA
36032686 AAAA-AACCACATTTAAAAAAA
64 AAAACAA-CACATTTAAAAAAA
36032707 CCTTAGTAAT
Statistics
Matches: 154, Mismatches: 26, Indels: 13
0.80 0.13 0.07
Matches are distributed among these distances:
98 12 0.08
99 25 0.16
100 36 0.23
101 19 0.12
102 46 0.30
103 16 0.10
ACGTcount: A:0.43, C:0.13, G:0.09, T:0.35
Consensus pattern (99 bp):
TGGTGGCGCCATTCTTTATGGCTCCACCAAATAAAATATTATTTTTTAAAATTTTTAAATTAAAA
AACAACACATTTAAAAAAAATCCATACAGTACAC
Found at i:36035547 original size:62 final size:62
Alignment explanation
Indices: 36035471--36035597 Score: 227
Period size: 62 Copynumber: 2.0 Consensus size: 62
36035461 TATTCTAAAT
*
36035471 TTTAATTACTATCTTATCTATGATGTTTCCTACAAAGTTCAAAATTATGGGGTATGGGTCGA
1 TTTAATTACTATCTTATCTATGATGTTTCCTACAAAGTTCAAAATTATGGAGTATGGGTCGA
* *
36035533 TTTAATTATTATCTTATCTATGATGTTTCCTACGAAGTTCAAAATTATGGAGTATGGGTCGA
1 TTTAATTACTATCTTATCTATGATGTTTCCTACAAAGTTCAAAATTATGGAGTATGGGTCGA
36035595 TTT
1 TTT
36035598 CACTTCACAA
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
62 62 1.00
ACGTcount: A:0.28, C:0.12, G:0.17, T:0.43
Consensus pattern (62 bp):
TTTAATTACTATCTTATCTATGATGTTTCCTACAAAGTTCAAAATTATGGAGTATGGGTCGA
Found at i:36036210 original size:12 final size:14
Alignment explanation
Indices: 36036176--36036212 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
36036166 CCTGCGGTAG
*
36036176 GGTTTTGGGTTATT
1 GGTTTAGGGTTATT
36036190 GGTTTAGGGTTA-T
1 GGTTTAGGGTTATT
36036203 GG-TTAGGGTT
1 GGTTTAGGGTT
36036213 TTAGTGTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 8 0.36
13 3 0.14
14 11 0.50
ACGTcount: A:0.11, C:0.00, G:0.41, T:0.49
Consensus pattern (14 bp):
GGTTTAGGGTTATT
Found at i:36036392 original size:47 final size:47
Alignment explanation
Indices: 36036341--36036492 Score: 116
Period size: 51 Copynumber: 3.2 Consensus size: 47
36036331 TATTTTTAAG
36036341 AAAAAATTAATTAAATTAGGGTTTAGGGTTACTTGAGTAATTTAATT
1 AAAAAATTAATTAAATTAGGGTTTAGGGTTACTTGAGTAATTTAATT
* * * * * * * **
36036388 AAAAAATTTTAAAATCAGATTAGGATTTAGAGTTA--AGGGT-TTTTAAGA
1 AAAAAA--TT--AATTAAATTAGGGTTTAGGGTTACTTGAGTAATTTAATT
*
36036436 AAAAAATCTAA-TAAACTAGGGTTT-GAGGTTACTTGAGTAATTTAATT
1 AAAAAAT-TAATTAAATTAGGGTTTAG-GGTTACTTGAGTAATTTAATT
*
36036483 AAAAATTTAA
1 AAAAAATTAA
36036493 AAATCAGATT
Statistics
Matches: 76, Mismatches: 20, Indels: 19
0.66 0.17 0.17
Matches are distributed among these distances:
43 1 0.01
44 13 0.17
45 2 0.03
46 7 0.09
47 18 0.24
48 11 0.14
49 5 0.07
51 19 0.25
ACGTcount: A:0.43, C:0.03, G:0.16, T:0.37
Consensus pattern (47 bp):
AAAAAATTAATTAAATTAGGGTTTAGGGTTACTTGAGTAATTTAATT
Found at i:36036471 original size:95 final size:94
Alignment explanation
Indices: 36036333--36036647 Score: 398
Period size: 94 Copynumber: 3.4 Consensus size: 94
36036323 GTGTTTATTA
36036333 TTTTTAAGAAAAAAT-TAATTAAATTAGGGTTT-AGGGTTACTTGAGTAATTTAATTAAAAAATT
1 TTTTTAAGAAAAAATCTAA-TAAATTAGGGTTTGAGGGTTACTTGAGTAATTTAATT-AAAAATT
36036396 TTAAAATCAGATTAGGATTTAGAGTTAAGGG
64 TTAAAATCAGATTAGGATTTAGAGTTAAGGG
*
36036427 TTTTTAAGAAAAAAATCTAATAAACTAGGGTTTGA-GGTTACTTGAGTAATTTAATTAAAAATTT
1 TTTTTAAG-AAAAAATCTAATAAATTAGGGTTTGAGGGTTACTTGAGTAATTTAATTAAAAATTT
*
36036491 AAAAATCAGATTAGGATTTAGAGTTAAGGG
65 TAAAATCAGATTAGGATTTAGAGTTAAGGG
* * * * * *
36036521 -TTTTCAGAAAAAATCAAATAAATTTGGG-TTCAGGGTTACTTGAGTAAATTAATTATAAA-TTT
1 TTTTTAAGAAAAAATCTAATAAATTAGGGTTTGAGGGTTACTTGAGTAATTTAATTAAAAATTTT
* * * *
36036583 ATAAT-AAATTA-G-TTTAGGGTTTAGGG
66 AAAATCAGATTAGGATTTAGAGTTAAGGG
* *
36036609 TTTTTAAGTAAAAACCTAAATAAATTAGGGTTTG-GGGTT
1 TTTTTAAGAAAAAATCT-AATAAATTAGGGTTTGAGGGTT
36036648 TACGGTTACT
Statistics
Matches: 194, Mismatches: 20, Indels: 18
0.84 0.09 0.08
Matches are distributed among these distances:
88 12 0.06
89 13 0.07
90 21 0.11
91 11 0.06
92 42 0.22
93 6 0.03
94 45 0.23
95 40 0.21
96 4 0.02
ACGTcount: A:0.40, C:0.04, G:0.18, T:0.37
Consensus pattern (94 bp):
TTTTTAAGAAAAAATCTAATAAATTAGGGTTTGAGGGTTACTTGAGTAATTTAATTAAAAATTTT
AAAATCAGATTAGGATTTAGAGTTAAGGG
Found at i:36036909 original size:126 final size:126
Alignment explanation
Indices: 36036684--36036969 Score: 475
Period size: 126 Copynumber: 2.3 Consensus size: 126
36036674 TAATTTAAAG
* * * *
36036684 AAGCTCCGACGTGGACGCGCTTTTACTACAGTGGCTCCTAAGAAAGTAATTTCGAGTAGACGTTT
1 AAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTAAGAAAATAATTTCGAGTAGACGTTT
*
36036749 CTGAGCAAACAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAGAAGTACTGAAAA
66 CTGAGCAAACAATGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAGAAGTACTGAAAA
* *
36036810 AAGCTCCCACGTGGACGCGCTTTTGTTACAGTAGCTCCTGAA-AAAATAATTTTGAGTAGACGTT
1 AAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCT-AAGAAAATAATTTCGAGTAGACGTT
36036874 TCTGAGCAAACAATGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAGAAGTACTGAAAA
65 TCTGAGCAAACAATGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAGAAGTACTGAAAA
* *
36036936 AAGCTTCCACGTGGACGTGCTTTTGCTACAGTAG
1 AAGCTCCCACGTGGACGCGCTTTTGCTACAGTAG
36036970 TTGAACGTTA
Statistics
Matches: 149, Mismatches: 10, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
126 147 0.99
127 2 0.01
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (126 bp):
AAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTAAGAAAATAATTTCGAGTAGACGTTT
CTGAGCAAACAATGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAGAAGTACTGAAAA
Found at i:36037140 original size:20 final size:18
Alignment explanation
Indices: 36037087--36037140 Score: 56
Period size: 17 Copynumber: 2.9 Consensus size: 18
36037077 AGTAAATTAC
* *
36037087 AATTACTTTATTCAAAA-
1 AATTTCTTTATTTAAAAG
*
36037104 TATTTCTTTATTTAAAAG
1 AATTTCTTTATTTAAAAG
36037122 AATTTCTATTATATTAAAA
1 AATTTCT-TTAT-TTAAAA
36037141 ATGTAAAAGT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
17 14 0.47
18 6 0.20
19 4 0.13
20 6 0.20
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (18 bp):
AATTTCTTTATTTAAAAG
Found at i:36039534 original size:11 final size:11
Alignment explanation
Indices: 36039520--36039631 Score: 94
Period size: 11 Copynumber: 10.6 Consensus size: 11
36039510 AAATAGGGAT
36039520 TTGAGA-GAAA
1 TTGAGAGGAAA
*
36039530 TTTGAAAGGAAA
1 -TTGAGAGGAAA
*
36039542 TTGAGAGCAAA
1 TTGAGAGGAAA
**
36039553 TTGAGATTAAA
1 TTGAGAGGAAA
*
36039564 -T-AG-GG-AT
1 TTGAGAGGAAA
36039571 TTGAGA-GAAA
1 TTGAGAGGAAA
* *
36039581 TTTGAAAGCAAA
1 -TTGAGAGGAAA
36039593 TTGAGAGGAAA
1 TTGAGAGGAAA
36039604 TTGAGAGGAAA
1 TTGAGAGGAAA
36039615 TTGAGAGGAAA
1 TTGAGAGGAAA
36039626 TT-AGAG
1 TTGAGAG
36039632 AAAGAATGAT
Statistics
Matches: 81, Mismatches: 13, Indels: 15
0.74 0.12 0.14
Matches are distributed among these distances:
7 1 0.01
8 1 0.01
9 5 0.06
10 6 0.07
11 61 0.75
12 7 0.09
ACGTcount: A:0.46, C:0.02, G:0.29, T:0.23
Consensus pattern (11 bp):
TTGAGAGGAAA
Done.