Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D08
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: 65987480
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 223646 characters in sequence are not A, C, G, or T
File 11 of 211
Found at i:3813519 original size:16 final size:16
Alignment explanation
Indices: 3813498--3813528 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
3813488 AAATATACTA
3813498 TTTTAAGTTTTTTATG
1 TTTTAAGTTTTTTATG
3813514 TTTTAAGTTTTTTAT
1 TTTTAAGTTTTTTAT
3813529 CTTTAAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.19, C:0.00, G:0.10, T:0.71
Consensus pattern (16 bp):
TTTTAAGTTTTTTATG
Found at i:3813768 original size:16 final size:16
Alignment explanation
Indices: 3813747--3813788 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
3813737 AATAATTTGA
*
3813747 TAATTTTACTAACAAT
1 TAATTTTAATAACAAT
3813763 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
*
3813779 TAGTTTTAAT
1 TAATTTTAAT
3813789 TTTATCAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:3820711 original size:13 final size:13
Alignment explanation
Indices: 3820695--3820724 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
3820685 TGTCGTATTT
3820695 AAATTCATACATG
1 AAATTCATACATG
*
3820708 AAATTCATATATG
1 AAATTCATACATG
3820721 AAAT
1 AAAT
3820725 GGTGTAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.50, C:0.10, G:0.07, T:0.33
Consensus pattern (13 bp):
AAATTCATACATG
Found at i:3821006 original size:23 final size:25
Alignment explanation
Indices: 3820943--3821019 Score: 77
Period size: 26 Copynumber: 3.0 Consensus size: 25
3820933 AACGTGGCAT
3820943 TTTATATTTTTAAAAATTATTAAAAA
1 TTTATATTTTTAAAAATTA-TAAAAA
* * * *
3820969 TTTA-CTTATAAAAAAATA-AAAAA
1 TTTATATTTTTAAAAATTATAAAAA
3820992 TTTATATTTTTAAAAAAATTATAAAAA
1 TTTATATTTTT--AAAAATTATAAAAA
3821019 T
1 T
3821020 AAAAAAATGA
Statistics
Matches: 39, Mismatches: 8, Indels: 7
0.72 0.15 0.13
Matches are distributed among these distances:
23 9 0.23
24 3 0.08
25 10 0.26
26 11 0.28
27 6 0.15
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (25 bp):
TTTATATTTTTAAAAATTATAAAAA
Found at i:3821039 original size:17 final size:17
Alignment explanation
Indices: 3820985--3821041 Score: 60
Period size: 17 Copynumber: 3.4 Consensus size: 17
3820975 TATAAAAAAA
* *
3820985 TAAAAAATTTATATTTT
1 TAAAAAAATTATAATTT
***
3821002 TAAAAAAATTATAAAAA
1 TAAAAAAATTATAATTT
*
3821019 TAAAAAAATGATAATTT
1 TAAAAAAATTATAATTT
3821036 TAAAAA
1 TAAAAA
3821042 CTTATTAAAA
Statistics
Matches: 31, Mismatches: 9, Indels: 0
0.77 0.22 0.00
Matches are distributed among these distances:
17 31 1.00
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (17 bp):
TAAAAAAATTATAATTT
Found at i:3836697 original size:20 final size:20
Alignment explanation
Indices: 3836659--3836698 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
3836649 AATATTTTTT
* *
3836659 AGTAAATCATTTTATAGAAA
1 AGTAAAACATTTTACAGAAA
*
3836679 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
3836699 TCATTTTACG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.50, C:0.10, G:0.10, T:0.30
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:3836705 original size:14 final size:14
Alignment explanation
Indices: 3836682--3836721 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
3836672 ATAGAAAAGT
*
3836682 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
3836696 AAATCATTTTACGG
1 AAAACATTTTACAG
3836710 AAAACATTTTAC
1 AAAACATTTTAC
3836722 TGGCAATCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:3841914 original size:126 final size:126
Alignment explanation
Indices: 3841778--3842025 Score: 442
Period size: 126 Copynumber: 2.0 Consensus size: 126
3841768 TAACAATTTA
3841778 ATAATATAATCATAAATAAATAGTATTTTTATTTATTTTAAAGTTTCTTCACTTTAAAGGTCTAA
1 ATAATATAATCATAAATAAATAGTATTTTTATTTATTTTAAAGTTTCTTCACTTTAAAGGTCTAA
*
3841843 TTCCAGATTCAGTATCTATATTCTTTGAATTTCTAAAATTTAATTCTTTTATTTTTTAATT
66 TTCCAGATTCAGTATCTATACTCTTTGAATTTCTAAAATTTAATTCTTTTATTTTTTAATT
* * * *
3841904 ATAATATAATCATCAATAAATAGTATTTTTATTTATTTTAAAGTTTCTTCTCTTTAAAGTTTTAA
1 ATAATATAATCATAAATAAATAGTATTTTTATTTATTTTAAAGTTTCTTCACTTTAAAGGTCTAA
*
3841969 TTCCAGATTCAGTATCTATACTCTTTGAATTTTTAAAATTTAATTCTTTTATTTTTT
66 TTCCAGATTCAGTATCTATACTCTTTGAATTTCTAAAATTTAATTCTTTTATTTTTT
3842026 TTAATTTCAA
Statistics
Matches: 116, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
126 116 1.00
ACGTcount: A:0.33, C:0.10, G:0.05, T:0.52
Consensus pattern (126 bp):
ATAATATAATCATAAATAAATAGTATTTTTATTTATTTTAAAGTTTCTTCACTTTAAAGGTCTAA
TTCCAGATTCAGTATCTATACTCTTTGAATTTCTAAAATTTAATTCTTTTATTTTTTAATT
Found at i:3847524 original size:36 final size:36
Alignment explanation
Indices: 3847477--3847549 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
3847467 TGCTTACTTG
3847477 TTATGATATATTTAAACATAGTCTATTTTATAATAT
1 TTATGATATATTTAAACATAGTCTATTTTATAATAT
3847513 TTATGATATATTTAAACATAGTCTATTTTATAATAT
1 TTATGATATATTTAAACATAGTCTATTTTATAATAT
3847549 T
1 T
3847550 GGTTGGCTTC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.38, C:0.05, G:0.05, T:0.51
Consensus pattern (36 bp):
TTATGATATATTTAAACATAGTCTATTTTATAATAT
Found at i:3854201 original size:3 final size:3
Alignment explanation
Indices: 3854193--3854232 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
3854183 AGTAAAATTT
3854193 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
3854233 ATCTACTATA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:3861376 original size:30 final size:31
Alignment explanation
Indices: 3861328--3861408 Score: 80
Period size: 30 Copynumber: 2.7 Consensus size: 31
3861318 AATTTTCAAA
*
3861328 ATATAATAA-TAACTTTAAATATATATAAAT
1 ATATAATAATTAACATTAAATATATATAAAT
* *
3861358 ATATAATAATTAA-ATTAAATTTTATATTAAT
1 ATATAATAATTAACATTAAA-TATATATAAAT
* *
3861389 AGAT-AT-ATTAATATTAAATA
1 ATATAATAATTAACATTAAATA
3861409 AAAAATAATT
Statistics
Matches: 43, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
29 6 0.14
30 22 0.51
31 15 0.35
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.43
Consensus pattern (31 bp):
ATATAATAATTAACATTAAATATATATAAAT
Found at i:3862984 original size:42 final size:42
Alignment explanation
Indices: 3862925--3863007 Score: 157
Period size: 42 Copynumber: 2.0 Consensus size: 42
3862915 AATTTCAAAG
*
3862925 GGATAAGAACAGGAGTTCAAATGTTTGAATTTCAAACGTTTT
1 GGATAAGAACAAGAGTTCAAATGTTTGAATTTCAAACGTTTT
3862967 GGATAAGAACAAGAGTTCAAATGTTTGAATTTCAAACGTTT
1 GGATAAGAACAAGAGTTCAAATGTTTGAATTTCAAACGTTT
3863008 CACACATATT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.37, C:0.10, G:0.20, T:0.33
Consensus pattern (42 bp):
GGATAAGAACAAGAGTTCAAATGTTTGAATTTCAAACGTTTT
Found at i:3873928 original size:30 final size:30
Alignment explanation
Indices: 3873864--3873952 Score: 116
Period size: 25 Copynumber: 3.1 Consensus size: 30
3873854 TCTATATTTA
3873864 TGGAAAGTCAAAGATATGGGTATC-AA-A-
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
3873891 T--AAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
* *
3873919 TGGAAAGTCAAAGATATGAGTATCGAGATAT
1 TGGAAAGTCAAAGATATGGGTATC-AAATAT
3873950 TGG
1 TGG
3873953 CATAAGAAAT
Statistics
Matches: 54, Mismatches: 2, Indels: 8
0.84 0.03 0.12
Matches are distributed among these distances:
25 21 0.39
26 2 0.04
27 2 0.04
28 1 0.02
30 20 0.37
31 8 0.15
ACGTcount: A:0.43, C:0.07, G:0.25, T:0.26
Consensus pattern (30 bp):
TGGAAAGTCAAAGATATGGGTATCAAATAT
Found at i:3893720 original size:42 final size:42
Alignment explanation
Indices: 3893668--3893791 Score: 198
Period size: 42 Copynumber: 3.0 Consensus size: 42
3893658 TTTATTTTTT
*
3893668 ATTTTTTTAATTTTAAAATACTTTTAAAATACTTTTTTTAAA
1 ATTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTAAA
3893710 ATTTTTTTAATTTTAAAATATTTTTAAAATAC-TTTTTT-AA
1 ATTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTAAA
* *
3893750 TTTTTTTTAAATTTTAAAATATTTTTAAAATAATTTTTTTAA
1 ATTTTTTT-AATTTTAAAATATTTTTAAAATACTTTTTTTAA
3893792 TTTTTAAAAT
Statistics
Matches: 76, Mismatches: 3, Indels: 5
0.90 0.04 0.06
Matches are distributed among these distances:
40 9 0.12
41 29 0.38
42 37 0.49
43 1 0.01
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (42 bp):
ATTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTAAA
Found at i:3893734 original size:30 final size:30
Alignment explanation
Indices: 3893689--3893753 Score: 89
Period size: 30 Copynumber: 2.1 Consensus size: 30
3893679 TTTAAAATAC
3893689 TTTTAAAATACTTTTTTTAAAAT-TTTTTTAA
1 TTTTAAAATAC--TTTTTAAAATATTTTTTAA
3893720 TTTTAAAATA-TTTTTAAAATACTTTTTTAA
1 TTTTAAAATACTTTTTAAAATA-TTTTTTAA
3893750 TTTT
1 TTTT
3893754 TTTTAAATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
28 10 0.31
30 12 0.38
31 10 0.31
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (30 bp):
TTTTAAAATACTTTTTAAAATATTTTTTAA
Found at i:3893746 original size:41 final size:40
Alignment explanation
Indices: 3893668--3893796 Score: 195
Period size: 41 Copynumber: 3.1 Consensus size: 40
3893658 TTTATTTTTT
*
3893668 ATTTTTTTAATTTTAAAATACTTTTAAAATACTTTTTTTAAA
1 ATTTTTTTAATTTTAAAATATTTTTAAAATAC-TTTTTT-AA
3893710 ATTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTAA
1 ATTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTAA
* * *
3893750 TTTTTTTTAAATTTTAAAATATTTTTAAAATAATTTTTTTA
1 ATTTTTTT-AATTTTAAAATATTTTTAAAATACTTTTTTAA
3893791 ATTTTT
1 ATTTTT
3893797 AAAATAAATT
Statistics
Matches: 81, Mismatches: 5, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
40 9 0.11
41 41 0.51
42 31 0.38
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.61
Consensus pattern (40 bp):
ATTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTAA
Found at i:3893781 original size:11 final size:11
Alignment explanation
Indices: 3893678--3893787 Score: 67
Period size: 11 Copynumber: 10.4 Consensus size: 11
3893668 ATTTTTTTAA
*
3893678 TTTTAAAATAC
1 TTTTAAAATAT
3893689 TTTTAAAATACTTT
1 TTTTAAAATA---T
3893703 TTTTAAAAT-T
1 TTTTAAAATAT
*
3893713 TTTT----TAA
1 TTTTAAAATAT
3893720 TTTTAAAATAT
1 TTTTAAAATAT
3893731 TTTTAAAATACT
1 TTTTAAAATA-T
*
3893743 TTTT-TAAT-T
1 TTTTAAAATAT
**
3893752 TTTTTTAA-A-
1 TTTTAAAATAT
3893761 TTTTAAAATAT
1 TTTTAAAATAT
3893772 TTTTAAAATAAT
1 TTTTAAAAT-AT
3893784 TTTT
1 TTTT
3893788 TTAATTTTTA
Statistics
Matches: 79, Mismatches: 6, Indels: 27
0.71 0.05 0.24
Matches are distributed among these distances:
6 1 0.01
7 4 0.05
9 11 0.14
10 9 0.11
11 34 0.43
12 11 0.14
14 9 0.11
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:3893787 original size:12 final size:12
Alignment explanation
Indices: 3893761--3893809 Score: 52
Period size: 11 Copynumber: 4.3 Consensus size: 12
3893751 TTTTTTTAAA
3893761 TTTTAAAAT-AT
1 TTTTAAAATAAT
3893772 TTTTAAAATAAT
1 TTTTAAAATAAT
*
3893784 TTTT---TTAAT
1 TTTTAAAATAAT
3893793 TTTTAAAATAAAT
1 TTTTAAAAT-AAT
3893806 TTTT
1 TTTT
3893810 GGTATTTATT
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
9 8 0.26
11 9 0.29
12 7 0.23
13 7 0.23
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (12 bp):
TTTTAAAATAAT
Found at i:3893794 original size:21 final size:21
Alignment explanation
Indices: 3893770--3893809 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
3893760 ATTTTAAAAT
*
3893770 ATTTTTAAAATAATTTTTTTA
1 ATTTTTAAAATAAATTTTTTA
3893791 ATTTTTAAAATAAATTTTT
1 ATTTTTAAAATAAATTTTT
3893810 GGTATTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
ATTTTTAAAATAAATTTTTTA
Found at i:3893797 original size:32 final size:30
Alignment explanation
Indices: 3893729--3893802 Score: 96
Period size: 32 Copynumber: 2.4 Consensus size: 30
3893719 ATTTTAAAAT
*
3893729 ATTTTTAAAATACTTTTTTAATTTTTTTTA
1 ATTTTTAAAATACTTTTTAAATTTTTTTTA
*
3893759 AATTTTAAAATA-TTTTTAAAATAATTTTTTTA
1 ATTTTTAAAATACTTTTT-AAAT--TTTTTTTA
3893791 ATTTTTAAAATA
1 ATTTTTAAAATA
3893803 AATTTTTGGT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
29 5 0.13
30 14 0.37
32 19 0.50
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.59
Consensus pattern (30 bp):
ATTTTTAAAATACTTTTTAAATTTTTTTTA
Found at i:3893816 original size:22 final size:20
Alignment explanation
Indices: 3893769--3893816 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 20
3893759 AATTTTAAAA
*
3893769 TATTTTTAAAATAATTTTTT
1 TATTTTTAAAATAATTTTTG
3893789 TAATTTTTAAAATAAATTTTTGG
1 T-ATTTTTAAAAT-AATTTTT-G
3893812 TATTT
1 TATTT
3893817 ATTTAAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
20 1 0.04
21 11 0.46
22 11 0.46
23 1 0.04
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.60
Consensus pattern (20 bp):
TATTTTTAAAATAATTTTTG
Found at i:3899689 original size:19 final size:19
Alignment explanation
Indices: 3899657--3899693 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
3899647 AATTATTTAA
*
3899657 TTTAAGTTTGATTTTGATG
1 TTTAAGTTTAATTTTGATG
*
3899676 TTTAATTTTAATTTTGAT
1 TTTAAGTTTAATTTTGAT
3899694 TATTTGTATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.24, C:0.00, G:0.14, T:0.62
Consensus pattern (19 bp):
TTTAAGTTTAATTTTGATG
Found at i:3907024 original size:10 final size:10
Alignment explanation
Indices: 3907006--3907057 Score: 52
Period size: 10 Copynumber: 5.2 Consensus size: 10
3906996 AAGCCGTGTC
*
3907006 GGGTTGGGTT
1 GGGTCGGGTT
*
3907016 GGGTCGGGTC
1 GGGTCGGGTT
*
3907026 GGGTCGGGTC
1 GGGTCGGGTT
3907036 GGGTCGGGTCT
1 GGGTCGGGT-T
*
3907047 -GGTCTGGTT
1 GGGTCGGGTT
3907056 GG
1 GG
3907058 AGTTGGGTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
9 1 0.03
10 35 0.97
ACGTcount: A:0.00, C:0.13, G:0.58, T:0.29
Consensus pattern (10 bp):
GGGTCGGGTT
Found at i:3907045 original size:15 final size:15
Alignment explanation
Indices: 3907003--3907050 Score: 69
Period size: 15 Copynumber: 3.2 Consensus size: 15
3906993 TTCAAGCCGT
* *
3907003 GTCGGGTTGGGTTGG
1 GTCGGGTCGGGTCGG
3907018 GTCGGGTCGGGTCGG
1 GTCGGGTCGGGTCGG
*
3907033 GTCGGGTCGGGTCTG
1 GTCGGGTCGGGTCGG
3907048 GTC
1 GTC
3907051 TGGTTGGAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 30 1.00
ACGTcount: A:0.00, C:0.17, G:0.56, T:0.27
Consensus pattern (15 bp):
GTCGGGTCGGGTCGG
Found at i:3909696 original size:10 final size:10
Alignment explanation
Indices: 3909678--3909717 Score: 53
Period size: 10 Copynumber: 4.0 Consensus size: 10
3909668 TGGACATAAT
3909678 CATATATATA
1 CATATATATA
*
3909688 CATACATATA
1 CATATATATA
3909698 CATATATATA
1 CATATATATA
* *
3909708 TATGTATATA
1 CATATATATA
3909718 TTAGTTTGGT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
10 26 1.00
ACGTcount: A:0.47, C:0.10, G:0.03, T:0.40
Consensus pattern (10 bp):
CATATATATA
Found at i:3910181 original size:78 final size:79
Alignment explanation
Indices: 3910051--3910210 Score: 277
Period size: 78 Copynumber: 2.0 Consensus size: 79
3910041 CGCGTCCACG
* *
3910051 TTAGCGCAATGTCAGGGGATGTGGCAGGAAAACGCGTCCCTAAGGAAGCGTTTTGCCTACTTGGA
1 TTAGCGCAATGTCAGGGGACGTGGCAGGAAAACGCGTCCCTAAGGAAGCGTTTTGCCTACGTGGA
3910116 CAAAAATCGCTCCA
66 CAAAAATCGCTCCA
* *
3910130 TTAGCGCGATGTCA-GGGACGTGGCAGGAAAACGCGTTCCTAAGGAAGCGTTTTGCCTACGTGGA
1 TTAGCGCAATGTCAGGGGACGTGGCAGGAAAACGCGTCCCTAAGGAAGCGTTTTGCCTACGTGGA
3910194 CAAAAATCGCTCCA
66 CAAAAATCGCTCCA
3910208 TTA
1 TTA
3910211 AGGACGCGTT
Statistics
Matches: 77, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
78 64 0.83
79 13 0.17
ACGTcount: A:0.28, C:0.23, G:0.28, T:0.22
Consensus pattern (79 bp):
TTAGCGCAATGTCAGGGGACGTGGCAGGAAAACGCGTCCCTAAGGAAGCGTTTTGCCTACGTGGA
CAAAAATCGCTCCA
Found at i:3911003 original size:125 final size:126
Alignment explanation
Indices: 3910780--3911068 Score: 418
Period size: 125 Copynumber: 2.3 Consensus size: 126
3910770 AAAGAAGCTC
* * * * ** * *
3910780 CCACGTGGACGTGCTTTTACTACAGTGGCTCCTAAGAAAATAATTTTGAGTAGACATTTCTGAGC
1 CCACGTGGACGCGCTTTTGCTACAGTAGCTCCTAAAAAAATAATTTCAAATAGACATTTCAGAGC
*
3910845 AAACAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAGAAGTACT-AAAAAAGATT
66 AAACAGTGTCAAAAACGCTTTAAGAAGGATGCTTTGTCAGCAGAAGTACTGAAAAAAGATT
* * **
3910905 TCACGTGGACGCGTTTTTGCTACAGTAGCTCCTAAAAAAATAATTTCAAATAGATGTTTCAGAGC
1 CCACGTGGACGCGCTTTTGCTACAGTAGCTCCTAAAAAAATAATTTCAAATAGACATTTCAGAGC
* * *
3910970 AAACAGTGTCAAAAATGCTTTAAGAAGGATGCTTTGTCAGCAGAAGTACTGAAAGAAGCTT
66 AAACAGTGTCAAAAACGCTTTAAGAAGGATGCTTTGTCAGCAGAAGTACTGAAAAAAGATT
*
3911031 CCACATGGACGCGCTTTTGCTACAGTAGCTCCTAAAAA
1 CCACGTGGACGCGCTTTTGCTACAGTAGCTCCTAAAAA
3911069 CAGCTCCCAC
Statistics
Matches: 144, Mismatches: 19, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
125 101 0.70
126 43 0.30
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.27
Consensus pattern (126 bp):
CCACGTGGACGCGCTTTTGCTACAGTAGCTCCTAAAAAAATAATTTCAAATAGACATTTCAGAGC
AAACAGTGTCAAAAACGCTTTAAGAAGGATGCTTTGTCAGCAGAAGTACTGAAAAAAGATT
Found at i:3914708 original size:18 final size:18
Alignment explanation
Indices: 3914682--3914724 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
3914672 GACTAGAAAA
* * *
3914682 AGGAAACATATAAGGGTT
1 AGGATACATAAAAGGGCT
3914700 AGGATACATAAAAGGGCT
1 AGGATACATAAAAGGGCT
3914718 AGGATAC
1 AGGATAC
3914725 GCACCTGGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.44, C:0.09, G:0.28, T:0.19
Consensus pattern (18 bp):
AGGATACATAAAAGGGCT
Found at i:3917221 original size:21 final size:21
Alignment explanation
Indices: 3917196--3917236 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
3917186 AGTTCGTTTG
*
3917196 TTTTTATTTTTATGATTTTAGT
1 TTTTTATTTTT-TAATTTTAGT
3917218 TTTTTATTTTTTAATTTTA
1 TTTTTATTTTTTAATTTTA
3917237 AAATTGATAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.20, C:0.00, G:0.05, T:0.76
Consensus pattern (21 bp):
TTTTTATTTTTTAATTTTAGT
Found at i:3920211 original size:6 final size:6
Alignment explanation
Indices: 3920202--3920234 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
3920192 TTGTTTTTCC
3920202 TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TCT
1 TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TCT
3920235 ATCAAATCAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (6 bp):
TCTTTT
Found at i:3922413 original size:8 final size:8
Alignment explanation
Indices: 3922400--3922429 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
3922390 TGTGTTAAGA
3922400 CTAAAATT
1 CTAAAATT
3922408 CTAAAATT
1 CTAAAATT
3922416 CTAAAATT
1 CTAAAATT
*
3922424 CCAAAA
1 CTAAAA
3922430 CTATAGTGGC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.53, C:0.17, G:0.00, T:0.30
Consensus pattern (8 bp):
CTAAAATT
Found at i:3923107 original size:15 final size:14
Alignment explanation
Indices: 3923087--3923116 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
3923077 ATCCGGCCCA
3923087 AAATAAAATAATAAT
1 AAATAAAATAA-AAT
3923102 AAATAAAATAAAAT
1 AAATAAAATAAAAT
3923116 A
1 A
3923117 TTAAAGTTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (14 bp):
AAATAAAATAAAAT
Found at i:3923666 original size:22 final size:21
Alignment explanation
Indices: 3923619--3923678 Score: 70
Period size: 20 Copynumber: 2.9 Consensus size: 21
3923609 ATTATGGTTA
*
3923619 TTATTTTATTTTTCATTATTT
1 TTATTTTATTTTTAATTATTT
3923640 TTATTTTAATTTTTAA-T-TTT
1 TTATTTT-ATTTTTAATTATTT
*
3923660 TTATATTATTATTTAATTA
1 TTATTTTATT-TTTAATTA
3923679 GAATTAGAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
19 3 0.09
20 14 0.42
21 9 0.27
22 7 0.21
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.72
Consensus pattern (21 bp):
TTATTTTATTTTTAATTATTT
Found at i:3923666 original size:28 final size:27
Alignment explanation
Indices: 3923622--3923677 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 27
3923612 ATGGTTATTA
*
3923622 TTTTATTTTTCATTATTTTTATTTTAAT
1 TTTTATTTTTCATTATTATTA-TTTAAT
*
3923650 TTTTAATTTTTTA-TATTATTATTTAAT
1 TTTT-ATTTTTCATTATTATTATTTAAT
3923677 T
1 T
3923678 AGAATTAGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 7 0.28
28 11 0.44
29 7 0.28
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.73
Consensus pattern (27 bp):
TTTTATTTTTCATTATTATTATTTAAT
Found at i:3924511 original size:19 final size:19
Alignment explanation
Indices: 3924484--3924522 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
3924474 TCCCATTTTC
* *
3924484 ATTTTAAAATAAAAAGTCG
1 ATTTCAAAAAAAAAAGTCG
*
3924503 ATTTCAAAAAAAAAATTCG
1 ATTTCAAAAAAAAAAGTCG
3924522 A
1 A
3924523 CAAACAACAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.56, C:0.08, G:0.08, T:0.28
Consensus pattern (19 bp):
ATTTCAAAAAAAAAAGTCG
Found at i:3927305 original size:29 final size:28
Alignment explanation
Indices: 3927273--3927334 Score: 70
Period size: 29 Copynumber: 2.2 Consensus size: 28
3927263 AAAAATCTAT
*
3927273 TTTTTTCAAAATTTACCGAAATTAGCCGA
1 TTTTTTCAAAATTTACCGAAATGAGCC-A
* ** *
3927302 TTTTTTGATTATTTACCGGAATGAGCCA
1 TTTTTTCAAAATTTACCGAAATGAGCCA
3927330 TTTTT
1 TTTTT
3927335 CGCGAAATCG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
28 6 0.21
29 22 0.79
ACGTcount: A:0.27, C:0.15, G:0.13, T:0.45
Consensus pattern (28 bp):
TTTTTTCAAAATTTACCGAAATGAGCCA
Found at i:3933484 original size:20 final size:22
Alignment explanation
Indices: 3933440--3933489 Score: 61
Period size: 20 Copynumber: 2.4 Consensus size: 22
3933430 TTTTGACATA
*
3933440 TTTGGTACTAATGTATCAATCC
1 TTTGGTACTAATGTATCAATAC
*
3933462 TTTGGTAC-AA-GTATCGATAC
1 TTTGGTACTAATGTATCAATAC
3933482 TTT-GTACT
1 TTTGGTACT
3933490 TTCCCTCAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
19 4 0.16
20 11 0.44
21 2 0.08
22 8 0.32
ACGTcount: A:0.26, C:0.16, G:0.16, T:0.42
Consensus pattern (22 bp):
TTTGGTACTAATGTATCAATAC
Found at i:3934620 original size:26 final size:27
Alignment explanation
Indices: 3934591--3934663 Score: 82
Period size: 26 Copynumber: 2.9 Consensus size: 27
3934581 CATACATACG
3934591 TTTTATAATACATATACATTTT-TTTA
1 TTTTATAATACATATACATTTTCTTTA
*
3934617 TTTTATAATTC--ATACATTTTCTTTA
1 TTTTATAATACATATACATTTTCTTTA
* * *
3934642 TATTAT-ATACATACAGATTTTC
1 TTTTATAATACATATACATTTTC
3934664 ACACACATAT
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
24 12 0.31
25 9 0.23
26 18 0.46
ACGTcount: A:0.33, C:0.11, G:0.01, T:0.55
Consensus pattern (27 bp):
TTTTATAATACATATACATTTTCTTTA
Found at i:3934636 original size:24 final size:24
Alignment explanation
Indices: 3934604--3934656 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
3934594 TATAATACAT
* *
3934604 ATACATTTT-TTTATTTTATAATTC
1 ATACATTTTCTTTATATTAT-ATAC
3934628 ATACATTTTCTTTATATTATATAC
1 ATACATTTTCTTTATATTATATAC
3934652 ATACA
1 ATACA
3934657 GATTTTCACA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
24 17 0.65
25 9 0.35
ACGTcount: A:0.34, C:0.11, G:0.00, T:0.55
Consensus pattern (24 bp):
ATACATTTTCTTTATATTATATAC
Found at i:3934712 original size:13 final size:13
Alignment explanation
Indices: 3934694--3934718 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3934684 TCTCATAGTT
3934694 TATTTATATATTA
1 TATTTATATATTA
3934707 TATTTATATATT
1 TATTTATATATT
3934719 TTGTTCTTTT
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:0.00, G:0.00, T:0.64
Consensus pattern (13 bp):
TATTTATATATTA
Found at i:3939384 original size:15 final size:14
Alignment explanation
Indices: 3939364--3939394 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
3939354 GTAAAACCAT
3939364 CCTTAAAATCATAAA
1 CCTTAAAATCA-AAA
3939379 CCTTAAAATCAAAA
1 CCTTAAAATCAAAA
3939393 CC
1 CC
3939395 AGCAACTATC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.31
15 11 0.69
ACGTcount: A:0.52, C:0.26, G:0.00, T:0.23
Consensus pattern (14 bp):
CCTTAAAATCAAAA
Found at i:3945648 original size:15 final size:17
Alignment explanation
Indices: 3945612--3945646 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
3945602 AATATGTTCC
*
3945612 AAATTACATATATATAA
1 AAATAACATATATATAA
3945629 AAATAACATA-ATATAA
1 AAATAACATATATATAA
3945645 AA
1 AA
3945647 TATTGTAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.66, C:0.06, G:0.00, T:0.29
Consensus pattern (17 bp):
AAATAACATATATATAA
Found at i:3945926 original size:19 final size:19
Alignment explanation
Indices: 3945891--3945929 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
3945881 TTTTTAAATG
*
3945891 AATTTAAATTTTGATATAA
1 AATTTAAATTATGATATAA
3945910 AATTTAAAATTAT-ATATAA
1 AATTT-AAATTATGATATAA
3945929 A
1 A
3945930 CTTTGATGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.44
Consensus pattern (19 bp):
AATTTAAATTATGATATAA
Found at i:3946638 original size:15 final size:15
Alignment explanation
Indices: 3946618--3946648 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
3946608 TTAATTTCGA
3946618 TTAATTTGATTAATT
1 TTAATTTGATTAATT
*
3946633 TTAATTTGGTTAATT
1 TTAATTTGATTAATT
3946648 T
1 T
3946649 GGTTAAATGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.10, T:0.61
Consensus pattern (15 bp):
TTAATTTGATTAATT
Found at i:3949957 original size:16 final size:16
Alignment explanation
Indices: 3949936--3950003 Score: 118
Period size: 16 Copynumber: 4.2 Consensus size: 16
3949926 TTTGGTTCGC
*
3949936 TGTATTAGATTAGAGG
1 TGTATTGGATTAGAGG
*
3949952 TGTATTGGATTAGAGT
1 TGTATTGGATTAGAGG
3949968 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
3949984 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
3950000 TGTA
1 TGTA
3950004 ATAGCAAATC
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 49 1.00
ACGTcount: A:0.26, C:0.00, G:0.34, T:0.40
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:3950217 original size:16 final size:16
Alignment explanation
Indices: 3950180--3950220 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
3950170 TTAATCATAT
*
3950180 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
3950196 TT-AAATATATTATAA
1 TTAAAATATATTATAA
3950211 TTAAAATATA
1 TTAAAATATA
3950221 GAATTTAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
14 3 0.14
15 10 0.45
16 9 0.41
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:3950323 original size:120 final size:121
Alignment explanation
Indices: 3950183--3950475 Score: 484
Period size: 120 Copynumber: 2.4 Consensus size: 121
3950173 ATCATATTTA
3950183 AACATAATTATTATTAAATATATTATAATTAAAATATAGAATTTAATAAAATTCTTAATAATCAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATAGAATTTAATAAAATTCTTAATAATCAA
* *
3950248 TATTCTTATATGAATTTACTCAAATAATAATATATGATACTATAAAATATAAATT-
66 TATTCTTATATGAATTTACTCAAATAATAATATAAGATACTATAAAAGATAAATTG
* *
3950303 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATAGAATTTAATAAAATTCTTAATAATCAA
* *
3950368 TATTCTTATATGAATTTACTCAAATCATAATATAAGATACTATAAAAGATAATTTG
66 TATTCTTATATGAATTTACTCAAATAATAATATAAGATACTATAAAAGATAAATTG
* *
3950424 AA-ATAATTAATATTAAATATATTTTAATTAAAATATATG-ATTTAATAAAATT
1 AACATAATTATTATTAAATATATTATAATTAAAATATA-GAATTTAATAAAATT
3950476 TAAAATAATT
Statistics
Matches: 162, Mismatches: 9, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
120 160 0.99
121 2 0.01
ACGTcount: A:0.51, C:0.05, G:0.03, T:0.42
Consensus pattern (121 bp):
AACATAATTATTATTAAATATATTATAATTAAAATATAGAATTTAATAAAATTCTTAATAATCAA
TATTCTTATATGAATTTACTCAAATAATAATATAAGATACTATAAAAGATAAATTG
Found at i:3950348 original size:14 final size:15
Alignment explanation
Indices: 3950299--3950350 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
3950289 ATAAAATATA
3950299 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
3950314 TATTAAATATATTAT
1 AATTAAATATATTAT
3950329 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
3950342 AATTTAATA
1 AATTAAATA
3950351 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:3953303 original size:15 final size:15
Alignment explanation
Indices: 3953283--3953312 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
3953273 GGAGGGTAAA
3953283 ACAGAGAGCAAATCG
1 ACAGAGAGCAAATCG
3953298 ACAGAGAGCAAATCG
1 ACAGAGAGCAAATCG
3953313 GCCGAAAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.20, G:0.27, T:0.07
Consensus pattern (15 bp):
ACAGAGAGCAAATCG
Found at i:3959097 original size:111 final size:108
Alignment explanation
Indices: 3958831--3959111 Score: 349
Period size: 111 Copynumber: 2.6 Consensus size: 108
3958821 GGTTTCGACA
* * * * * ** *
3958831 CAGCACATTAGGGTACGTTTTCTCGAATTTCGAAATGCGAATTATTGCCTTATTTTG-AA-TTTT
1 CAGCACATTAAGGCACGTTTTCTCGAATTTCCAAACGCAAAACATTGCCTTACTTTGAAATTTTT
*
3958894 TTTAAAAGGATATTTGACTATTTGGTCGAATGAGAAAAAAATC
66 TTTAAAAGGATATTTGACTATTTGGTCGAATGAGAAAAAAACC
* * *
3958937 GA-AAC-CT-A-GCACGTTTTCTCGAATTTCCAAACGCAAAACATTGCCTTACTTTGAAATTTTT
1 CAGCACATTAAGGCACGTTTTCTCGAATTTCCAAACGCAAAACATTGCCTTACTTTGAAATTTTT
* *
3958998 TTTAAAAGGATATTTGGCTATTTGGTCGAATGAGAAAATCGAGACC
66 TTTAAAAGGATATTTGACTATTTGGTCGAATGAGAAAA---AAACC
* *
3959044 CAGCACATTAAGGCACGTTTTCTAGAATTTCCAAACGCAAAACATTGCCTTACTTTGAAATTTCT
1 CAGCACATTAAGGCACGTTTTCTCGAATTTCCAAACGCAAAACATTGCCTTACTTTGAAATTTTT
3959109 TTT
66 TTT
3959112 GACGTATAGT
Statistics
Matches: 147, Mismatches: 19, Indels: 13
0.82 0.11 0.07
Matches are distributed among these distances:
102 38 0.26
103 2 0.01
104 42 0.29
105 2 0.01
106 1 0.01
107 4 0.03
108 2 0.01
109 1 0.01
110 1 0.01
111 54 0.37
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.35
Consensus pattern (108 bp):
CAGCACATTAAGGCACGTTTTCTCGAATTTCCAAACGCAAAACATTGCCTTACTTTGAAATTTTT
TTTAAAAGGATATTTGACTATTTGGTCGAATGAGAAAAAAACC
Found at i:3959311 original size:21 final size:20
Alignment explanation
Indices: 3959287--3959330 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 20
3959277 AAAAATATAA
3959287 ATAAAGAAAGTGAATAAGAT-T
1 ATAAAGAAAGT-AA-AAGATAT
*
3959308 ATAAAGAGAGTAAAAGATAT
1 ATAAAGAAAGTAAAAGATAT
3959328 ATA
1 ATA
3959331 TATATAAGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 5 0.24
20 6 0.29
21 10 0.48
ACGTcount: A:0.59, C:0.00, G:0.18, T:0.23
Consensus pattern (20 bp):
ATAAAGAAAGTAAAAGATAT
Found at i:3959622 original size:23 final size:23
Alignment explanation
Indices: 3959592--3959645 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
3959582 TATCAATACG
3959592 TATATATTAAAAAAAATAATG-TA
1 TATATATTAAAAAAAAT-ATGCTA
* *
3959615 TATATATTATAAAATATATGCCTA
1 TATATATTAAAAAAAATATG-CTA
3959639 TATATAT
1 TATATAT
3959646 GAATAATAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
22 3 0.11
23 15 0.56
24 9 0.33
ACGTcount: A:0.52, C:0.04, G:0.04, T:0.41
Consensus pattern (23 bp):
TATATATTAAAAAAAATATGCTA
Found at i:3959699 original size:6 final size:6
Alignment explanation
Indices: 3959685--3959735 Score: 50
Period size: 6 Copynumber: 8.3 Consensus size: 6
3959675 TAAATAAGTA
* * *
3959685 AATAAT AATATT AATATT AATGATGT AATA-T AATAGT AATAAT AATATT
1 AATATT AATATT AATATT AAT-AT-T AATATT AATATT AATATT AATATT
3959734 AA
1 AA
3959736 AATAATTAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
5 5 0.13
6 27 0.69
7 3 0.08
8 4 0.10
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.39
Consensus pattern (6 bp):
AATATT
Found at i:3960326 original size:24 final size:24
Alignment explanation
Indices: 3960294--3960341 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
3960284 ATTGAATTAT
3960294 TTCAAAAAAATTTAAAAA-TAAAAA
1 TTCAAAAAAA-TTAAAAATTAAAAA
*
3960318 TTCATAAAAATTAAAAATTAAAAA
1 TTCAAAAAAATTAAAAATTAAAAA
3960342 AAAAACATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 7 0.32
24 15 0.68
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.27
Consensus pattern (24 bp):
TTCAAAAAAATTAAAAATTAAAAA
Found at i:3961199 original size:14 final size:14
Alignment explanation
Indices: 3961180--3961212 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
3961170 AAGTGCAGAA
*
3961180 TTCTCTTTGAGTTT
1 TTCTCTTTAAGTTT
3961194 TTCTCTTTAAGTTT
1 TTCTCTTTAAGTTT
3961208 TTCTC
1 TTCTC
3961213 CAAGAATTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.09, C:0.18, G:0.09, T:0.64
Consensus pattern (14 bp):
TTCTCTTTAAGTTT
Found at i:3968023 original size:3 final size:3
Alignment explanation
Indices: 3968015--3968080 Score: 65
Period size: 3 Copynumber: 23.7 Consensus size: 3
3968005 TTTTATATAT
3968015 ATA ATA AT- ATA AT- ATA ATA ATA AT- ATA ATTA AT- ATA AT- ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA
3968056 ATA ATA AT- ATA ATTA AT- ATA ATA AT
1 ATA ATA ATA ATA A-TA ATA ATA ATA AT
3968081 TATTTATTAA
Statistics
Matches: 54, Mismatches: 0, Indels: 18
0.75 0.00 0.25
Matches are distributed among these distances:
2 14 0.26
3 34 0.63
4 6 0.11
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (3 bp):
ATA
Found at i:3968026 original size:5 final size:5
Alignment explanation
Indices: 3968018--3968078 Score: 90
Period size: 5 Copynumber: 12.2 Consensus size: 5
3968008 TATATATATA
3968018 ATAAT ATAAT ATAAT AATAAT ATAAT -TAAT ATAAT ATAAT AATAAT ATAAT
1 ATAAT ATAAT ATAAT -ATAAT ATAAT ATAAT ATAAT ATAAT -ATAAT ATAAT
3968069 -TAAT ATAAT A
1 ATAAT ATAAT A
3968079 ATTATTTATT
Statistics
Matches: 52, Mismatches: 0, Indels: 8
0.87 0.00 0.13
Matches are distributed among these distances:
4 8 0.15
5 34 0.65
6 10 0.19
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
ATAAT
Found at i:3968122 original size:25 final size:26
Alignment explanation
Indices: 3968011--3968078 Score: 113
Period size: 25 Copynumber: 2.7 Consensus size: 26
3968001 TTTGTTTTAT
*
3968011 ATATATAATAATATAATATAATAATA
1 ATATATATTAATATAATATAATAATA
3968037 ATATA-ATTAATATAATATAATAATA
1 ATATATATTAATATAATATAATAATA
3968062 ATATA-ATTAATATAATA
1 ATATATATTAATATAATA
3968079 ATTATTTATT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
25 36 0.88
26 5 0.12
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (26 bp):
ATATATATTAATATAATATAATAATA
Found at i:3970704 original size:30 final size:29
Alignment explanation
Indices: 3970636--3970708 Score: 83
Period size: 29 Copynumber: 2.5 Consensus size: 29
3970626 GGCTCAGGTT
* * *
3970636 ACATTTTAGCCACTTATGTTTGAAATGTT
1 ACATTTTAGTCACTTATGTTTCAAATGTA
* **
3970665 ACGTTTTAGTCACTTATGTTATCACGTGTA
1 ACATTTTAGTCACTTATGTT-TCAAATGTA
3970695 ACATTTTAGTCACT
1 ACATTTTAGTCACT
3970709 GAGCCGTTAG
Statistics
Matches: 36, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
29 18 0.50
30 18 0.50
ACGTcount: A:0.26, C:0.16, G:0.14, T:0.44
Consensus pattern (29 bp):
ACATTTTAGTCACTTATGTTTCAAATGTA
Found at i:3971730 original size:89 final size:88
Alignment explanation
Indices: 3971608--3971832 Score: 328
Period size: 89 Copynumber: 2.6 Consensus size: 88
3971598 GGTTTAAGCT
* * * *
3971608 TCAAAAAG-CCCTCAAA-TTTAAAAAAAAAGCAATTAAGTTCTTGCTTTTTTTTTTACTCATTTG
1 TCAAAAAGACCCTCAAACTTTAAAAAAAAAGCAATTAAGCTCATGCTTTTTTTTGTACTCAATTG
3971671 GGTACTTAAACTTTCAAAATGCA
66 GGTACTTAAACTTTCAAAATGCA
* ** * *
3971694 TCAAAAATACCCTCAAACCTTTTCAAAAAAAGCAATTAAGCTCCTACTTTTTTTTGTACTCAATT
1 TCAAAAAGACCCTCAAA-CTTTAAAAAAAAAGCAATTAAGCTCATGCTTTTTTTTGTACTCAATT
*
3971759 GGGTACTTGAACTTTCAAAATGCA
65 GGGTACTTAAACTTTCAAAATGCA
*
3971783 TCAAAAAGACCCTCAAACTTTAAAAAAAAATCAATTAAGCTCATGCTTTT
1 TCAAAAAGACCCTCAAACTTTAAAAAAAAAGCAATTAAGCTCATGCTTTT
3971833 ATTAAAAATT
Statistics
Matches: 121, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
86 7 0.06
87 8 0.07
88 28 0.23
89 78 0.64
ACGTcount: A:0.39, C:0.19, G:0.08, T:0.34
Consensus pattern (88 bp):
TCAAAAAGACCCTCAAACTTTAAAAAAAAAGCAATTAAGCTCATGCTTTTTTTTGTACTCAATTG
GGTACTTAAACTTTCAAAATGCA
Found at i:3972161 original size:19 final size:19
Alignment explanation
Indices: 3972137--3972192 Score: 62
Period size: 19 Copynumber: 3.0 Consensus size: 19
3972127 GTCGTTAATT
3972137 TTTTATGATTTTTATAAAA
1 TTTTATGATTTTTATAAAA
* *
3972156 TTTTAT-AATTTTAT-AAT
1 TTTTATGATTTTTATAAAA
*
3972173 TTGTTACGATTTTTATAAAA
1 TT-TTATGATTTTTATAAAA
3972193 AAAATTCTAA
Statistics
Matches: 29, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
17 4 0.14
18 10 0.34
19 13 0.45
20 2 0.07
ACGTcount: A:0.36, C:0.02, G:0.05, T:0.57
Consensus pattern (19 bp):
TTTTATGATTTTTATAAAA
Found at i:3972257 original size:18 final size:19
Alignment explanation
Indices: 3972212--3972260 Score: 73
Period size: 19 Copynumber: 2.6 Consensus size: 19
3972202 ATTTTTCTAT
3972212 ATTTTTATTAAAATTTAATA
1 ATTTTTA-TAAAATTTAATA
*
3972232 ATTTTTATAAAATTTATTA
1 ATTTTTATAAAATTTAATA
3972251 A-TTTTATAAA
1 ATTTTTATAAA
3972261 TTATTTTCTA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
18 9 0.32
19 12 0.43
20 7 0.25
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
ATTTTTATAAAATTTAATA
Found at i:3972276 original size:69 final size:67
Alignment explanation
Indices: 3972132--3972260 Score: 165
Period size: 69 Copynumber: 1.9 Consensus size: 67
3972122 CAGGGGTCGT
* *
3972132 TAATTTTTTATGATTTTTATAAAATTTTATAATTTTATAATTTGTTACGATTTTTATAAAAAAAA
1 TAATTTTTTATGATTTTTATAAAATTTAATAATTTTATAATTTATTAC-ATTTTTATAAAAAAAA
3972197 TTC
65 TTC
3972200 TAATTTTTCTAT-ATTTTTATTAAAATTTAATAATTTTTATAAAATTTATTA-A-TTTTATAAA
1 TAATTTTT-TATGATTTTTA-TAAAATTTAATAA-TTTTAT--AATTTATTACATTTTTATAAA
3972261 TTATTTTCTA
Statistics
Matches: 54, Mismatches: 2, Indels: 9
0.83 0.03 0.14
Matches are distributed among these distances:
68 15 0.28
69 24 0.44
70 7 0.13
72 8 0.15
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (67 bp):
TAATTTTTTATGATTTTTATAAAATTTAATAATTTTATAATTTATTACATTTTTATAAAAAAAAT
TC
Found at i:3975579 original size:14 final size:14
Alignment explanation
Indices: 3975560--3975588 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
3975550 TGTGATTCTC
3975560 AGATTTTTTTTAAA
1 AGATTTTTTTTAAA
3975574 AGATTTTTTTTAAA
1 AGATTTTTTTTAAA
3975588 A
1 A
3975589 TTTGAAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (14 bp):
AGATTTTTTTTAAA
Found at i:3982803 original size:12 final size:12
Alignment explanation
Indices: 3982786--3982815 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
3982776 AATTGTTTTT
*
3982786 ATTTAATATTAA
1 ATTTAATATAAA
3982798 ATTTAATATAAA
1 ATTTAATATAAA
3982810 ATTTAA
1 ATTTAA
3982816 ATTTATTGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (12 bp):
ATTTAATATAAA
Found at i:3983567 original size:19 final size:17
Alignment explanation
Indices: 3983539--3983595 Score: 55
Period size: 18 Copynumber: 3.2 Consensus size: 17
3983529 TTTAGATTTT
3983539 TTTTTAATTTTTCT-ATA
1 TTTTTAATTTTT-TAATA
3983556 TTCTTTAGATTTTTTAATA
1 TT-TTTA-ATTTTTTAATA
*
3983575 TTTTTAAATTTTATAA-A
1 TTTTT-AATTTTTTAATA
3983592 TTTT
1 TTTT
3983596 AAAAATATAA
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
17 7 0.20
18 16 0.46
19 12 0.34
ACGTcount: A:0.28, C:0.04, G:0.02, T:0.67
Consensus pattern (17 bp):
TTTTTAATTTTTTAATA
Found at i:3983594 original size:27 final size:27
Alignment explanation
Indices: 3983538--3983595 Score: 66
Period size: 27 Copynumber: 2.1 Consensus size: 27
3983528 TTTTAGATTT
* *
3983538 TTTTTTAATTTTTCTATATTCTTTAGA
1 TTTTTTAATTTTTCTAAATTCTTTAAA
3983565 TTTTTTAATATTTT-TAAATT-TTATAAA
1 TTTTTTAAT-TTTTCTAAATTCTT-TAAA
3983592 TTTT
1 TTTT
3983596 AAAAATATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
26 2 0.07
27 21 0.78
28 4 0.15
ACGTcount: A:0.28, C:0.03, G:0.02, T:0.67
Consensus pattern (27 bp):
TTTTTTAATTTTTCTAAATTCTTTAAA
Found at i:3983624 original size:18 final size:19
Alignment explanation
Indices: 3983601--3983636 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
3983591 ATTTTAAAAA
3983601 TATAAAT-TTTGGAATTTT
1 TATAAATATTTGGAATTTT
*
3983619 TATAAATATTTTGAATTT
1 TATAAATATTTGGAATTT
3983637 ATTTTGTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (19 bp):
TATAAATATTTGGAATTTT
Found at i:3988131 original size:30 final size:29
Alignment explanation
Indices: 3988092--3988178 Score: 72
Period size: 29 Copynumber: 3.0 Consensus size: 29
3988082 GTTGGACCTG
3988092 AAATT-TAAAATATAAAAAGTAAAAAACT
1 AAATTCTAAAATATAAAAAGTAAAAAACT
* **
3988120 AAATTCCTAAAA-ATGAAAATGT-AAAGCCT
1 AAATT-CTAAAATAT-AAAAAGTAAAAAACT
* * *
3988149 AAATTCTAAATTTATGAAAAGTAGAAAACT
1 AAATTCTAAA-ATATAAAAAGTAAAAAACT
3988179 TTATGACATA
Statistics
Matches: 44, Mismatches: 9, Indels: 10
0.70 0.14 0.16
Matches are distributed among these distances:
28 10 0.23
29 17 0.39
30 17 0.39
ACGTcount: A:0.57, C:0.08, G:0.08, T:0.26
Consensus pattern (29 bp):
AAATTCTAAAATATAAAAAGTAAAAAACT
Found at i:3988848 original size:22 final size:21
Alignment explanation
Indices: 3988806--3988848 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
3988796 TAAACACTAA
*
3988806 AAGTTTAACATTATTACCTTT
1 AAGTTTAACATTATTAACTTT
3988827 AAGTATTAA-ATTATATAACTTT
1 AAGT-TTAACATTAT-TAACTTT
3988849 TGTTAACCTC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.40, C:0.09, G:0.05, T:0.47
Consensus pattern (21 bp):
AAGTTTAACATTATTAACTTT
Found at i:3997082 original size:19 final size:19
Alignment explanation
Indices: 3997042--3997083 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
3997032 TTAAATCATG
* *
3997042 TTATTACCCTTAGTTTATA
1 TTATTACCCTAAGCTTATA
3997061 TTATTAACCCTAAGCTTA-A
1 TTATT-ACCCTAAGCTTATA
3997080 TTAT
1 TTAT
3997084 CAAGCCAAGC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 10 0.50
20 10 0.50
ACGTcount: A:0.31, C:0.17, G:0.05, T:0.48
Consensus pattern (19 bp):
TTATTACCCTAAGCTTATA
Found at i:3999825 original size:53 final size:53
Alignment explanation
Indices: 3999745--3999852 Score: 216
Period size: 53 Copynumber: 2.0 Consensus size: 53
3999735 ACCCATCCAG
3999745 CCTCTACATACCATCTTCGTCCAACCCTACACTCCATGTGGGGATATAATCAA
1 CCTCTACATACCATCTTCGTCCAACCCTACACTCCATGTGGGGATATAATCAA
3999798 CCTCTACATACCATCTTCGTCCAACCCTACACTCCATGTGGGGATATAATCAA
1 CCTCTACATACCATCTTCGTCCAACCCTACACTCCATGTGGGGATATAATCAA
3999851 CC
1 CC
3999853 CACCCATCCC
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 55 1.00
ACGTcount: A:0.28, C:0.35, G:0.11, T:0.26
Consensus pattern (53 bp):
CCTCTACATACCATCTTCGTCCAACCCTACACTCCATGTGGGGATATAATCAA
Found at i:4027037 original size:3 final size:3
Alignment explanation
Indices: 4027031--4027071 Score: 59
Period size: 3 Copynumber: 14.3 Consensus size: 3
4027021 GAGAGAAAGG
*
4027031 AGA AGA AG- AGA AGA AGA CGA AG- AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
4027072 AGAAAGAAAG
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
2 4 0.12
3 30 0.88
ACGTcount: A:0.63, C:0.02, G:0.34, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:4027078 original size:17 final size:17
Alignment explanation
Indices: 4027031--4027079 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
4027021 GAGAGAAAGG
4027031 AGAAG-AAGAGAAGAAGA
1 AGAAGAAAGA-AAGAAGA
*
4027048 CGAAGAGAAG-AAGAAGA
1 AGAAGA-AAGAAAGAAGA
4027065 AGAAGAAAGAAAGAA
1 AGAAGAAAGAAAGAA
4027080 AGAAAGAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
16 3 0.11
17 21 0.78
19 3 0.11
ACGTcount: A:0.65, C:0.02, G:0.33, T:0.00
Consensus pattern (17 bp):
AGAAGAAAGAAAGAAGA
Found at i:4027079 original size:14 final size:14
Alignment explanation
Indices: 4027031--4027067 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
4027021 GAGAGAAAGG
4027031 AGAAGAAGAGAAGA
1 AGAAGAAGAGAAGA
*
4027045 AGACGAAGAGAAGA
1 AGAAGAAGAGAAGA
4027059 AGAAGAAGA
1 AGAAGAAGA
4027068 AGAAAGAAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.62, C:0.03, G:0.35, T:0.00
Consensus pattern (14 bp):
AGAAGAAGAGAAGA
Found at i:4027243 original size:82 final size:84
Alignment explanation
Indices: 4027155--4027347 Score: 220
Period size: 82 Copynumber: 2.3 Consensus size: 84
4027145 AGATATTGCG
* * *
4027155 AATTTTTTGTTATTAATTA-T-TAATTA-TAAATTATTTATGTTTAGTGGTTATAG-TTTGGATT
1 AATTTTTTGTTATTAATTATTGTAATTATTAAATAATTAAT-TTT-GTAGTTATAGTTTTGGATT
4027216 AGTATTTTGTATGAATATTGT
64 AGTATTTTGTATGAATATTGT
* ** *
4027237 AATTTTTTG-TATGAA-TATTGTAATTATTTTATAATTAATTTTGTATTTATAGTTTTGGATTAG
1 AATTTTTTGTTATTAATTATTGTAATTATTAAATAATTAATTTTGTAGTTATAGTTTTGGATTAG
4027300 TATTTTGTATGAATATTGT
66 TATTTTGTATGAATATTGT
* * *
4027319 AATTATTTTATAATTAATT-TTGTATTTAT
1 AATT-TTTTGTTATTAATTATTGTAATTAT
4027348 AGTTTTGGAT
Statistics
Matches: 93, Mismatches: 11, Indels: 12
0.80 0.09 0.10
Matches are distributed among these distances:
80 2 0.02
81 14 0.15
82 51 0.55
83 12 0.13
84 13 0.14
85 1 0.01
ACGTcount: A:0.30, C:0.00, G:0.12, T:0.58
Consensus pattern (84 bp):
AATTTTTTGTTATTAATTATTGTAATTATTAAATAATTAATTTTGTAGTTATAGTTTTGGATTAG
TATTTTGTATGAATATTGT
Found at i:4027245 original size:21 final size:22
Alignment explanation
Indices: 4027218--4027266 Score: 91
Period size: 21 Copynumber: 2.3 Consensus size: 22
4027208 TTTGGATTAG
4027218 TATTTTGTATGAATATTGTAAT
1 TATTTTGTATGAATATTGTAAT
4027240 T-TTTTGTATGAATATTGTAAT
1 TATTTTGTATGAATATTGTAAT
4027261 TATTTT
1 TATTTT
4027267 ATAATTAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
21 21 0.81
22 5 0.19
ACGTcount: A:0.29, C:0.00, G:0.12, T:0.59
Consensus pattern (22 bp):
TATTTTGTATGAATATTGTAAT
Found at i:4027311 original size:61 final size:61
Alignment explanation
Indices: 4027241--4027382 Score: 284
Period size: 61 Copynumber: 2.3 Consensus size: 61
4027231 TATTGTAATT
4027241 TTTTGTATGAATATTGTAATTATTTTATAATTAATTTTGTATTTATAGTTTTGGATTAGTA
1 TTTTGTATGAATATTGTAATTATTTTATAATTAATTTTGTATTTATAGTTTTGGATTAGTA
4027302 TTTTGTATGAATATTGTAATTATTTTATAATTAATTTTGTATTTATAGTTTTGGATTAGTA
1 TTTTGTATGAATATTGTAATTATTTTATAATTAATTTTGTATTTATAGTTTTGGATTAGTA
4027363 TTTTGTATGAATATTGTAAT
1 TTTTGTATGAATATTGTAAT
4027383 ATTGTAATTT
Statistics
Matches: 81, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 81 1.00
ACGTcount: A:0.30, C:0.00, G:0.13, T:0.57
Consensus pattern (61 bp):
TTTTGTATGAATATTGTAATTATTTTATAATTAATTTTGTATTTATAGTTTTGGATTAGTA
Found at i:4027474 original size:60 final size:60
Alignment explanation
Indices: 4027408--4027527 Score: 179
Period size: 60 Copynumber: 2.0 Consensus size: 60
4027398 ATGAATATTG
* * * * *
4027408 TAATTATTTTATAA-TTAATTTGTTAGTAATTTAGGATTATGTTATAAATTTTTGTGTTTA
1 TAATTA-TTTAAAATTTAATTTATTAGTAATTTAGGATTAAGCTATAAATTGTTGTGTTTA
4027468 TAATTATTTAAAATTTAATTTATTAGTAATTTAGGATTAAGCTATAAATTGTTGTGTTTA
1 TAATTATTTAAAATTTAATTTATTAGTAATTTAGGATTAAGCTATAAATTGTTGTGTTTA
4027528 ATTTAGTATT
Statistics
Matches: 54, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
59 6 0.11
60 48 0.89
ACGTcount: A:0.34, C:0.01, G:0.12, T:0.53
Consensus pattern (60 bp):
TAATTATTTAAAATTTAATTTATTAGTAATTTAGGATTAAGCTATAAATTGTTGTGTTTA
Found at i:4031106 original size:27 final size:27
Alignment explanation
Indices: 4031060--4031139 Score: 90
Period size: 27 Copynumber: 3.0 Consensus size: 27
4031050 ATCAGGCCAT
*
4031060 TGGCGCCTCTCA-ACATGGCACCACTAA
1 TGGCGCCTCTCAGATA-GGCACCACTAA
* * *
4031087 TGGCGCCTCTCAGATAGGCACTACCAT
1 TGGCGCCTCTCAGATAGGCACCACTAA
* *
4031114 TGGCGCCTCTAAGATAGGCGCCACTA
1 TGGCGCCTCTCAGATAGGCACCACTA
4031140 CTTTGTATTA
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
27 42 0.95
28 2 0.05
ACGTcount: A:0.24, C:0.34, G:0.23, T:0.20
Consensus pattern (27 bp):
TGGCGCCTCTCAGATAGGCACCACTAA
Found at i:4032261 original size:21 final size:23
Alignment explanation
Indices: 4032205--4032261 Score: 55
Period size: 23 Copynumber: 2.5 Consensus size: 23
4032195 AAAAAATAAG
*
4032205 ATATATATTTATAGTTTGTTTAA
1 ATATATTTTTATAGTTTGTTTAA
* *
4032228 ATTTATTTGTT-TA-TTGTTTTTAA
1 ATATATTT-TTATAGTT-TGTTTAA
4032251 ATATATTTTTA
1 ATATATTTTTA
4032262 ATTTTTCATA
Statistics
Matches: 27, Mismatches: 4, Indels: 6
0.73 0.11 0.16
Matches are distributed among these distances:
22 4 0.15
23 21 0.78
24 2 0.07
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.63
Consensus pattern (23 bp):
ATATATTTTTATAGTTTGTTTAA
Found at i:4032390 original size:29 final size:30
Alignment explanation
Indices: 4032333--4032447 Score: 96
Period size: 31 Copynumber: 3.9 Consensus size: 30
4032323 ATAAATATTA
*
4032333 AAATTATAT--ATG-AACTTTGATTTAAGGTG
1 AAATTATATACATGAAACTTTAATTT--GGTG
* *
4032362 CAATTGTATACATG-AACTTTAATTTGGTG
1 AAATTATATACATGAAACTTTAATTTGGTG
* * *
4032391 AAATTATACACATGAAACTCTAATTGTGGTTT
1 AAATTATATACATGAAACTTTAATT-TGG-TG
*
4032423 AAA-TATATACTTGAAACTTTAATTT
1 AAATTATATACATGAAACTTTAATTT
4032448 TGATTTAATC
Statistics
Matches: 70, Mismatches: 11, Indels: 9
0.78 0.12 0.10
Matches are distributed among these distances:
29 22 0.31
30 10 0.14
31 34 0.49
32 4 0.06
ACGTcount: A:0.37, C:0.09, G:0.13, T:0.41
Consensus pattern (30 bp):
AAATTATATACATGAAACTTTAATTTGGTG
Found at i:4032638 original size:31 final size:29
Alignment explanation
Indices: 4032571--4032641 Score: 79
Period size: 29 Copynumber: 2.4 Consensus size: 29
4032561 AAATTAAAGT
4032571 TTCATGTATAAAATTACACAAAATCAAAA
1 TTCATGTATAAAATTACACAAAATCAAAA
* * * * *
4032600 TTTATGTATACAATTGCACATTAAATCATAG
1 TTCATGTATAAAATTACACA--AAATCAAAA
4032631 TTCATGTATAA
1 TTCATGTATAA
4032642 TTTTGGGATT
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
29 17 0.52
31 16 0.48
ACGTcount: A:0.45, C:0.13, G:0.07, T:0.35
Consensus pattern (29 bp):
TTCATGTATAAAATTACACAAAATCAAAA
Found at i:4044749 original size:41 final size:41
Alignment explanation
Indices: 4044678--4044942 Score: 350
Period size: 41 Copynumber: 6.5 Consensus size: 41
4044668 TGACCTTTCG
* * *
4044678 GGGCTTTAACGGCATTTTTAGAGAAGCGCCGCTAATGCTCC
1 GGGCTTTAGCGGCGTTTTTAGAGAAGCGCCGCTAATGCTCA
* * *
4044719 GGGCATTAGCGGCGTTTTTTGAGAAGCGCCGCTAATGCTCC
1 GGGCTTTAGCGGCGTTTTTAGAGAAGCGCCGCTAATGCTCA
* * * *
4044760 GGGCTTGAGTGGCGTTTTTTGAGAAGTGCCGCTAATGCTCA
1 GGGCTTTAGCGGCGTTTTTAGAGAAGCGCCGCTAATGCTCA
* * *
4044801 GGGCTTTAGTGGCGTTTTTGGAGAAGCGCCGCTAATGCTTA
1 GGGCTTTAGCGGCGTTTTTAGAGAAGCGCCGCTAATGCTCA
* * *
4044842 GGGCTTTAGCGGCGTTTTTGGAGAAGTGCCGCTAATGCACA
1 GGGCTTTAGCGGCGTTTTTAGAGAAGCGCCGCTAATGCTCA
* *
4044883 AGGCTTTAGCGGCGTTTTTAGAGAAACGCCGCTAATGCTCA
1 GGGCTTTAGCGGCGTTTTTAGAGAAGCGCCGCTAATGCTCA
* *
4044924 TGGCTTTAGCAGCGTTTTT
1 GGGCTTTAGCGGCGTTTTT
4044943 GAAAAAGCAC
Statistics
Matches: 200, Mismatches: 24, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 200 1.00
ACGTcount: A:0.19, C:0.20, G:0.31, T:0.30
Consensus pattern (41 bp):
GGGCTTTAGCGGCGTTTTTAGAGAAGCGCCGCTAATGCTCA
Found at i:4045382 original size:14 final size:15
Alignment explanation
Indices: 4045354--4045383 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
4045344 AAGGTTTATA
4045354 GATTATGGAATTAGG
1 GATTATGGAATTAGG
4045369 GATTATGG-ATTAGG
1 GATTATGGAATTAGG
4045383 G
1 G
4045384 GTTCTAGTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.30, C:0.00, G:0.37, T:0.33
Consensus pattern (15 bp):
GATTATGGAATTAGG
Found at i:4045627 original size:21 final size:21
Alignment explanation
Indices: 4045603--4045648 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
4045593 TAAATAAGGT
4045603 TTAGGGGTCAGTAGTTAGGGG
1 TTAGGGGTCAGTAGTTAGGGG
** *
4045624 TTAGGGGTTTGTGGTTAGGGG
1 TTAGGGGTCAGTAGTTAGGGG
4045645 TTAG
1 TTAG
4045649 AGCTTAGAGC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.15, C:0.02, G:0.48, T:0.35
Consensus pattern (21 bp):
TTAGGGGTCAGTAGTTAGGGG
Found at i:4048473 original size:27 final size:26
Alignment explanation
Indices: 4048443--4048499 Score: 71
Period size: 27 Copynumber: 2.2 Consensus size: 26
4048433 AATTTCGAGG
*
4048443 TTTACAATTTT-TAATTTTTATTAATT
1 TTTAC-ATTTTCTAATGTTTATTAATT
*
4048469 ATTTACATTTTCTCATGTTTATTAATT
1 -TTTACATTTTCTAATGTTTATTAATT
4048496 TTTA
1 TTTA
4048500 TTATTATTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
26 9 0.33
27 18 0.67
ACGTcount: A:0.28, C:0.07, G:0.02, T:0.63
Consensus pattern (26 bp):
TTTACATTTTCTAATGTTTATTAATT
Found at i:4048663 original size:20 final size:19
Alignment explanation
Indices: 4048617--4048666 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 19
4048607 TAAAAAATAA
4048617 ATTAAAATATAATATTTATC
1 ATTAAAATA-AATATTTATC
* * *
4048637 ATAAAAATAAATATTATTTG
1 ATTAAAATAAATATT-TATC
4048657 ATTAAAATAA
1 ATTAAAATAA
4048667 TTTTTTTGCA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 6 0.24
20 19 0.76
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (19 bp):
ATTAAAATAAATATTTATC
Found at i:4060979 original size:31 final size:30
Alignment explanation
Indices: 4060941--4061023 Score: 78
Period size: 31 Copynumber: 2.7 Consensus size: 30
4060931 AAAAGTTTAG
4060941 GGTTTAATTAAATTTTTTAAAAAAATTGG-A
1 GGTTTAATTAAA-TTTTTAAAAAAATTGGTA
* * **
4060971 GGATTTAATGAGAATATTTAAAAATTTTGGTA
1 GG-TTTAATTA-AATTTTTAAAAAAATTGGTA
*
4061003 GGTTTAATTAAACCTTTTAAA
1 GGTTTAATTAAA-TTTTTAAA
4061024 GGCTTAATGA
Statistics
Matches: 42, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
30 4 0.10
31 33 0.79
32 5 0.12
ACGTcount: A:0.41, C:0.02, G:0.14, T:0.42
Consensus pattern (30 bp):
GGTTTAATTAAATTTTTAAAAAAATTGGTA
Found at i:4063689 original size:41 final size:41
Alignment explanation
Indices: 4063616--4063853 Score: 291
Period size: 41 Copynumber: 5.8 Consensus size: 41
4063606 CTTTCGGGGT
* * * *
4063616 TTTAGCGGCGTTTTTTGAGAAAGCACCACTAATGCTTAGGGC
1 TTTAGCGGCG-TTTTTGGGAAAGCGCCGCTAATGATTAGGGC
* *
4063658 TTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGATCAGGGA
1 TTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGATTAGGGC
* *
4063699 TTTAGCGGCGTTTTTTGGAAAGCGCCGCTAATGATCAGGGC
1 TTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGATTAGGGC
* * *
4063740 TTTAGCGGCATTTTT-GGAGAAGCGCAGCTAATGATTAGGTC
1 TTTAGCGGCGTTTTTGGGA-AAGCGCCGCTAATGATTAGGGC
*
4063781 TTTAGCGGCGTTTTTGGGAAAGCGCTGCTAATGATTAGGGC
1 TTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGATTAGGGC
* * * *
4063822 TTTATCAGCATTTTT-GAAGAAGCGCCGCTAAT
1 TTTAGCGGCGTTTTTGGGA-AAGCGCCGCTAAT
4063854 TCTCTATTTT
Statistics
Matches: 173, Mismatches: 20, Indels: 7
0.87 0.10 0.04
Matches are distributed among these distances:
40 5 0.03
41 155 0.90
42 13 0.08
ACGTcount: A:0.23, C:0.17, G:0.29, T:0.31
Consensus pattern (41 bp):
TTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGATTAGGGC
Found at i:4063754 original size:82 final size:82
Alignment explanation
Indices: 4063616--4063853 Score: 325
Period size: 82 Copynumber: 2.9 Consensus size: 82
4063606 CTTTCGGGGT
* * * *
4063616 TTTAGCGGCGTTTTTTGAGAAAGCACCACTAATGCTTAGGGCTTTAGCGGCGTTTTTGG-GAAAG
1 TTTAGCGGCGTTTTTTG-GAAAGCGCCGCTAATGATTAGGGCTTTAGCGGCATTTTTGGAG-AAG
4063680 CGCCGCTAATGATCAGGGA
64 CGCCGCTAATGATCAGGGA
*
4063699 TTTAGCGGCGTTTTTTGGAAAGCGCCGCTAATGATCAGGGCTTTAGCGGCATTTTTGGAGAAGCG
1 TTTAGCGGCGTTTTTTGGAAAGCGCCGCTAATGATTAGGGCTTTAGCGGCATTTTTGGAGAAGCG
* * **
4063764 CAGCTAATGATTAGGTC
66 CCGCTAATGATCAGGGA
* * * * *
4063781 TTTAGCGGCGTTTTTGGGAAAGCGCTGCTAATGATTAGGGCTTTATCAGCATTTTTGAAGAAGCG
1 TTTAGCGGCGTTTTTTGGAAAGCGCCGCTAATGATTAGGGCTTTAGCGGCATTTTTGGAGAAGCG
4063846 CCGCTAAT
66 CCGCTAAT
4063854 TCTCTATTTT
Statistics
Matches: 138, Mismatches: 16, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
82 120 0.87
83 18 0.13
ACGTcount: A:0.23, C:0.17, G:0.29, T:0.31
Consensus pattern (82 bp):
TTTAGCGGCGTTTTTTGGAAAGCGCCGCTAATGATTAGGGCTTTAGCGGCATTTTTGGAGAAGCG
CCGCTAATGATCAGGGA
Found at i:4063836 original size:123 final size:124
Alignment explanation
Indices: 4063616--4063853 Score: 329
Period size: 123 Copynumber: 1.9 Consensus size: 124
4063606 CTTTCGGGGT
* * *
4063616 TTTAGCGGCGTTTTTTGAGAAAGCACCACTAATGCTTAGGGCTTTAGCGGCGTTTTTGGGAAAGC
1 TTTAGCGGCATTTTTGGAGAAAGCACCACTAATGATTAGGGCTTTAGCGGCGTTTTTGGGAAAGC
* * *
4063681 GCCGCTAATGATCAGGGATTTAGCGGCGTTTTTTGGA-AAGCGCCGCTAATGATCAGGGC
66 GCCGCTAATGATCAGGGATTTAGCAGC-ATTTTTGAAGAAGCGCCGCTAATGATCAGGGC
* *
4063740 TTTAGCGGCATTTTTGGAG-AAGC-GCAGCTAATGATTAGGTCTTTAGCGGCGTTTTTGGGAAAG
1 TTTAGCGGCATTTTTGGAGAAAGCACCA-CTAATGATTAGGGCTTTAGCGGCGTTTTTGGGAAAG
* * * *
4063803 CGCTGCTAATGATTAGGGCTTTATCAGCATTTTTGAAGAAGCGCCGCTAAT
65 CGCCGCTAATGATCAGGGATTTAGCAGCATTTTTGAAGAAGCGCCGCTAAT
4063854 TCTCTATTTT
Statistics
Matches: 100, Mismatches: 12, Indels: 5
0.85 0.10 0.04
Matches are distributed among these distances:
122 9 0.09
123 74 0.74
124 17 0.17
ACGTcount: A:0.23, C:0.17, G:0.29, T:0.31
Consensus pattern (124 bp):
TTTAGCGGCATTTTTGGAGAAAGCACCACTAATGATTAGGGCTTTAGCGGCGTTTTTGGGAAAGC
GCCGCTAATGATCAGGGATTTAGCAGCATTTTTGAAGAAGCGCCGCTAATGATCAGGGC
Found at i:4068600 original size:22 final size:25
Alignment explanation
Indices: 4068550--4068607 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 25
4068540 TTGTAATGCT
4068550 TTTATAT-TTTAATAATTGAGTATTA
1 TTTATATATTTAAT-ATTGAGTATTA
4068575 -TTATATATTTAAT-TTGA-T-TTA
1 TTTATATATTTAATATTGAGTATTA
*
4068596 TTTATTTATTTA
1 TTTATATATTTA
4068608 TAAATAAATC
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
21 3 0.10
22 11 0.37
23 4 0.13
24 6 0.20
25 6 0.20
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (25 bp):
TTTATATATTTAATATTGAGTATTA
Found at i:4069893 original size:32 final size:33
Alignment explanation
Indices: 4069857--4069921 Score: 114
Period size: 32 Copynumber: 2.0 Consensus size: 33
4069847 CTGGAATTTG
*
4069857 TTTATTTGTAATTTGTTAT-TTTTCTGTGTTTT
1 TTTATTTGTAATTTGTTATGTTTTCTGGGTTTT
4069889 TTTATTTGTAATTTGTTATGTTTTCTGGGTTTT
1 TTTATTTGTAATTTGTTATGTTTTCTGGGTTTT
4069922 GCTTATAATG
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 19 0.61
33 12 0.39
ACGTcount: A:0.12, C:0.03, G:0.15, T:0.69
Consensus pattern (33 bp):
TTTATTTGTAATTTGTTATGTTTTCTGGGTTTT
Found at i:4078953 original size:43 final size:42
Alignment explanation
Indices: 4078893--4078973 Score: 144
Period size: 43 Copynumber: 1.9 Consensus size: 42
4078883 CTATTCATGC
4078893 ATGTGTGTAACTTTTCATATTCAAGTCTCTTCACTCTTTATA
1 ATGTGTGTAACTTTTCATATTCAAGTCTCTTCACTCTTTATA
*
4078935 ATGTGTGTTAACTTTTCATCTTCAAGTCTCTTCACTCTT
1 ATGTGTG-TAACTTTTCATATTCAAGTCTCTTCACTCTT
4078974 CATATTCAAG
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
42 7 0.19
43 30 0.81
ACGTcount: A:0.21, C:0.21, G:0.10, T:0.48
Consensus pattern (42 bp):
ATGTGTGTAACTTTTCATATTCAAGTCTCTTCACTCTTTATA
Found at i:4078975 original size:23 final size:23
Alignment explanation
Indices: 4078906--4078996 Score: 100
Period size: 23 Copynumber: 4.1 Consensus size: 23
4078896 TGTGTAACTT
4078906 TTCATATTCAAGTCTCTTCACTC
1 TTCATATTCAAGTCTCTTCACTC
* * * *
4078929 TT--TA-T-AATGTGTGTTAACTT
1 TTCATATTCAA-GTCTCTTCACTC
*
4078949 TTCATCTTCAAGTCTCTTCACTC
1 TTCATATTCAAGTCTCTTCACTC
4078972 TTCATATTCAAGTCTCTTCACTC
1 TTCATATTCAAGTCTCTTCACTC
4078995 TT
1 TT
4078997 TTAACTTTTC
Statistics
Matches: 53, Mismatches: 10, Indels: 10
0.73 0.14 0.14
Matches are distributed among these distances:
19 2 0.04
20 11 0.21
21 2 0.04
22 1 0.02
23 35 0.66
24 2 0.04
ACGTcount: A:0.21, C:0.25, G:0.07, T:0.47
Consensus pattern (23 bp):
TTCATATTCAAGTCTCTTCACTC
Found at i:4083820 original size:44 final size:44
Alignment explanation
Indices: 4083772--4084084 Score: 122
Period size: 44 Copynumber: 7.1 Consensus size: 44
4083762 ACTACTGTTT
* *
4083772 AGGGAGGCAAGATCTGAAATCTTCAATCTATTCCGCTGCTGCCC
1 AGGGAGGCAAGATCTGAAATCTTCAATCTATTCCACTGCTGCTC
* * * * * *
4083816 AGGGAAG-TAGAATTACTG---GCTTCAATGTACTCCACTG-TAACTTC
1 AGGGAGGCAAG-A-T-CTGAAATCTTCAATCTATTCCACTGCT-GC-TC
* * * ** * ** * *
4083860 AGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTT
1 AGGGAGGCAAGATCTGAAATCTTCAATCTATTCCACTGCTGCTC
* * *
4083904 AGGGAGGCAAGATTTGAAATCTTCAATCTATTCCGCTGCTGCCC
1 AGGGAGGCAAGATCTGAAATCTTCAATCTATTCCACTGCTGCTC
* * ** * **
4083948 AGGGAAG-TAGAAT-T-ACTTGCTTCAATGTACTT-CACTGCAACTTC
1 AGGGAGGCAAG-ATCTGAAAT-CTTCAATCTA-TTCCACTGCTGC-TC
* * * ** * ** * *
4083992 AGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTT
1 AGGGAGGCAAGATCTGAAATCTTCAATCTATTCCACTGCTGCTC
* *
4084036 AGGGAGGCAAGATCTGAAATCTTCAATCTATTCCGCTGCTGCCC
1 AGGGAGGCAAGATCTGAAATCTTCAATCTATTCCACTGCTGCTC
4084080 AGGGA
1 AGGGA
4084085 AGTAGAATTA
Statistics
Matches: 184, Mismatches: 67, Indels: 36
0.64 0.23 0.13
Matches are distributed among these distances:
42 5 0.03
43 37 0.20
44 105 0.57
45 31 0.17
46 6 0.03
ACGTcount: A:0.26, C:0.25, G:0.22, T:0.27
Consensus pattern (44 bp):
AGGGAGGCAAGATCTGAAATCTTCAATCTATTCCACTGCTGCTC
Found at i:4084237 original size:132 final size:132
Alignment explanation
Indices: 4083172--4084193 Score: 1419
Period size: 132 Copynumber: 7.7 Consensus size: 132
4083162 ATAGGGTAAT
* * * *
4083172 TGGCTTCAATATACTCCACTGCAACCTCAGGGAGGTAAAATCTGCCATCCTTGATCTGCTCCACT
1 TGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACT
* * * *
4083237 ACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATT
66 ACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATT
4083302 AC
131 AC
* * *
4083304 TGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATTTTTTATCTGTTCCACT
1 TGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACT
* * * *
4083369 ACTGCTTGGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTACTGTCCATGGAAGTAGAATT
66 ACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATT
4083434 AC
131 AC
* * *
4083436 TGGCTTCAATGTACTCCACTGTAACCAC-GAGGAGGTAAAATCCGCCATCTTTGATC-GTTCTAC
1 TGGCTTCAATGTACTCCACTGTAACCACAG-GGAGGTAAAATCTGCCATCTTTGATCTGCTCCAC
* * *
4083499 TACTGCTTAGCGAGACAATATATGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAAT
65 TACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAAT
*
4083564 TAT
130 TAC
* * * *
4083567 TGGCTTCAATGTACACCACTGTAACCACAGGGAGGTAAAATCTGCCGTCTTCGATCTACTTCGCT
1 TGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTTGATCTGC-TC-C-
* * * *
4083632 ATCTA-TGC--AGGAAGGCAAGATCTAAAATCTTCAGTCTATTCCACTGCTGCCCAGGG-AGATA
63 A-CTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAG-TA
4083693 GAATTAC
126 GAATTAC
* * * *
4083700 TGGCTTCAATATACTCCACTGCAACCTCAAGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACT
1 TGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACT
* * *
4083765 ACTGTTTAGGGAGGCAAGATCTGAAATCTTCAATCTATTCCGCTGCTGCCCAGGGAAGTAGAATT
66 ACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATT
4083830 AC
131 AC
** * *
4083832 TGGCTTCAATGTACTCCACTGTAACTTCAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACT
1 TGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACT
* * *
4083897 ACTGCTTAGGGAGGCAAGATTTGAAATCTTCAATCTATTCCGCTGCTGCCCAGGGAAGTAGAATT
66 ACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATT
4083962 AC
131 AC
* * * ** * *
4083964 TTGCTTCAATGTACTTCACTGCAACTTCAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACT
1 TGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACT
* *
4084029 ACTGCTTAGGGAGGCAAGATCTGAAATCTTCAATCTATTCCGCTGCTGCCCAGGGAAGTAGAATT
66 ACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATT
4084094 AC
131 AC
* * *
4084096 TGGCTTCAATGTACTCCACTGTAACCACAAGGAGGTAAAAT-TCACCATCTTTGATCTGCTCTAC
1 TGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCT-GCCATCTTTGATCTGCTCCAC
*
4084160 TACTGCTTGGGGAGACAAGATCTGAAATCTTCAA
65 TACTGCTTAGGGAGACAAGATCTGAAATCTTCAA
4084194 GCTGCTCCAC
Statistics
Matches: 800, Mismatches: 77, Indels: 26
0.89 0.09 0.03
Matches are distributed among these distances:
129 3 0.00
130 3 0.00
131 118 0.15
132 565 0.71
133 104 0.13
135 4 0.00
136 3 0.00
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (132 bp):
TGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACT
ACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATT
AC
Found at i:4094326 original size:23 final size:23
Alignment explanation
Indices: 4094298--4094346 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
4094288 TGTGTAACTT
4094298 TTCATATTCAAGTCTCTTCACTC
1 TTCATATTCAAGTCTCTTCACTC
4094321 TTCATATTCAAGTCTCTTCACTC
1 TTCATATTCAAGTCTCTTCACTC
4094344 TTC
1 TTC
4094347 TAACTTTTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.20, C:0.31, G:0.04, T:0.45
Consensus pattern (23 bp):
TTCATATTCAAGTCTCTTCACTC
Found at i:4098146 original size:24 final size:23
Alignment explanation
Indices: 4098107--4098152 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
4098097 AGACTCATTG
*
4098107 GAAATTTTGTTATTTTTATTTTTA
1 GAAATTTAGTTA-TTTTATTTTTA
*
4098131 GAAATTTAGTTCTTTTATTTTT
1 GAAATTTAGTTATTTTATTTTT
4098153 TTTTCAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 10 0.50
24 10 0.50
ACGTcount: A:0.24, C:0.02, G:0.09, T:0.65
Consensus pattern (23 bp):
GAAATTTAGTTATTTTATTTTTA
Found at i:4098367 original size:22 final size:22
Alignment explanation
Indices: 4098341--4098410 Score: 62
Period size: 22 Copynumber: 3.5 Consensus size: 22
4098331 GTAATATTCT
4098341 TAAAATAATATTTATTATTTTA
1 TAAAATAATATTTATTATTTTA
* *
4098363 TAAAATAA-A---A-TACTCT-
1 TAAAATAATATTTATTATTTTA
* *
4098379 TAAAATAATATTTATTGTCTTA
1 TAAAATAATATTTATTATTTTA
4098401 TAAAATAATA
1 TAAAATAATA
4098411 AAATTTTGGT
Statistics
Matches: 36, Mismatches: 6, Indels: 12
0.67 0.11 0.22
Matches are distributed among these distances:
16 8 0.22
17 5 0.14
18 1 0.03
20 1 0.03
21 3 0.08
22 18 0.50
ACGTcount: A:0.50, C:0.04, G:0.01, T:0.44
Consensus pattern (22 bp):
TAAAATAATATTTATTATTTTA
Found at i:4098380 original size:38 final size:38
Alignment explanation
Indices: 4098333--4098408 Score: 125
Period size: 38 Copynumber: 2.0 Consensus size: 38
4098323 TTTTAATAGT
* *
4098333 AATATTCTTAAAATAATATTTATTATTTTATAAAATAA
1 AATACTCTTAAAATAATATTTATTATCTTATAAAATAA
*
4098371 AATACTCTTAAAATAATATTTATTGTCTTATAAAATAA
1 AATACTCTTAAAATAATATTTATTATCTTATAAAATAA
4098409 TAAAATTTTG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.49, C:0.05, G:0.01, T:0.45
Consensus pattern (38 bp):
AATACTCTTAAAATAATATTTATTATCTTATAAAATAA
Found at i:4100558 original size:27 final size:26
Alignment explanation
Indices: 4100520--4100576 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
4100510 AAATCCCAAA
* *
4100520 TTTTCTTTCTTTCCTTCCCT-TTTTCT
1 TTTTCTTTCTTT-CTCCCCTGTTTTCG
4100546 TTTTCTTTCCTTTCTCCCCTGTTTTCG
1 TTTTCTTT-CTTTCTCCCCTGTTTTCG
4100573 TTTT
1 TTTT
4100577 GCTATTATGT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
26 14 0.52
27 13 0.48
ACGTcount: A:0.00, C:0.30, G:0.04, T:0.67
Consensus pattern (26 bp):
TTTTCTTTCTTTCTCCCCTGTTTTCG
Found at i:4100642 original size:5 final size:5
Alignment explanation
Indices: 4100632--4100705 Score: 141
Period size: 5 Copynumber: 15.0 Consensus size: 5
4100622 TCTTTTTATT
4100632 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
4100682 ATATA ATATA ATATA ATAT- ATATA
1 ATATA ATATA ATATA ATATA ATATA
4100706 CTTAACTTTT
Statistics
Matches: 68, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
4 4 0.06
5 64 0.94
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
ATATA
Found at i:4109971 original size:31 final size:31
Alignment explanation
Indices: 4109929--4109989 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
4109919 ATTGAATGAA
* *
4109929 TTAAATAAAAATTTTCTAATAGTTTAATAAC
1 TTAAATAAAAATTTTCGAATAATTTAATAAC
* *
4109960 TTAAATGAAAATTTTCGGATAATTTAATAA
1 TTAAATAAAAATTTTCGAATAATTTAATAA
4109990 TCATTTTGTA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.48, C:0.05, G:0.07, T:0.41
Consensus pattern (31 bp):
TTAAATAAAAATTTTCGAATAATTTAATAAC
Found at i:4113553 original size:22 final size:22
Alignment explanation
Indices: 4113525--4113574 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
4113515 ACAAATCCTA
4113525 TCTCAATTTCCTTCC-AAAATCC
1 TCTCAATTTCCTTCCAAAAAT-C
4113547 TCTCAATTTCCTTCCAAAAATC
1 TCTCAATTTCCTTCCAAAAATC
4113569 TCTCAA
1 TCTCAA
4113575 ATCCATATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
22 22 0.81
23 5 0.19
ACGTcount: A:0.30, C:0.34, G:0.00, T:0.36
Consensus pattern (22 bp):
TCTCAATTTCCTTCCAAAAATC
Found at i:4115989 original size:30 final size:30
Alignment explanation
Indices: 4115955--4116799 Score: 1071
Period size: 30 Copynumber: 27.7 Consensus size: 30
4115945 ATAAAAATCT
*
4115955 TAATTTAATTAAAAACCCTAAACACTAACC
1 TAATTTAATTAAAAACCCTAAACCCTAACC
4115985 TAATTTAATTAAAAACCCTAAACCCTGACCCTAACC
1 TAATTTAATTAAAAACCCT-AA-----ACCCTAACC
*
4116021 TAATTTAATTAAAAACCCTAAACCCTAACT
1 TAATTTAATTAAAAACCCTAAACCCTAACC
*
4116051 TAATTTAATTAAAAACCCT-AACCCTAACT
1 TAATTTAATTAAAAACCCTAAACCCTAACC
4116080 TAATTTAATTAAAAACCCTAAACCCTAACCCTGACC
1 TAATTTAATTAAAAACCCTAAACCCT-A-----ACC
*
4116116 TAATTTAATTAAAAACCCCAAACCCTAACC
1 TAATTTAATTAAAAACCCTAAACCCTAACC
*
4116146 TAATTTAATTAAAAACCCT-AACCCTGACC
1 TAATTTAATTAAAAACCCTAAACCCTAACC
*
4116175 TAATTTAATTAAAAACCTTAAACCCTAACC
1 TAATTTAATTAAAAACCCTAAACCCTAACC
* *
4116205 TAATTTAATAAAAAACCCTAAACCCTGACC
1 TAATTTAATTAAAAACCCTAAACCCTAACC
4116235 TAATTTAATTAAAAACCCT-AACCCTAACC
1 TAATTTAATTAAAAACCCTAAACCCTAACC
4116264 TAATTTAATTAAAAACCCT-AACCCTAACC
1 TAATTTAATTAAAAACCCTAAACCCTAACC
4116293 TAATTTAATTAAAAACCCTAAACCCTAACC
1 TAATTTAATTAAAAACCCTAAACCCTAACC
4116323 TAATTTAATTAAAAACCCT-AACCCTAACC
1 TAATTTAATTAAAAACCCTAAACCCTAACC
4116352 TAATTTAATT---AA----AAACCCTAACC
1 TAATTTAATTAAAAACCCTAAACCCTAACC
4116375 TAATTTAATTAAAAACCCTAAACCCTAACC
1 TAATTTAATTAAAAACCCTAAACCCTAACC
4116405 TAATTTAATTAAAAACCCT-AACCCTAACC
1 TAATTTAATTAAAAACCCTAAACCCTAACC
*
4116434 TAATTTAATTAAAAACCCT-AACCCTAACT
1 TAATTTAATTAAAAACCCTAAACCCTAACC
*
4116463 TAATTTAATTAAAAACCCTAACCCTAACCCCAACC
1 TAATTTAATTAAAAACCCT-A----AACCCTAACC
4116498 TAATTTAATTAAAAACCCTAAACCCTAACC
1 TAATTTAATTAAAAACCCTAAACCCTAACC
*
4116528 TAATTTAATTAAAAACCCCAAACCCTAACC
1 TAATTTAATTAAAAACCCTAAACCCTAACC
*
4116558 TAATTTAATTAAAAACCCT-AACTCTAACC
1 TAATTTAATTAAAAACCCTAAACCCTAACC
4116587 TAATTTAATTAAAAACCCTAACCCTAACCCTAACCC
1 TAATTTAATTAAAAACCCT-A----AACCCTAA-CC
** * **
4116623 TAACCTAATTTAATTAAAAACCCTAACCCTAACC
1 TAATTTAA-TT-A--AAAACCCTAAACCCTAACC
4116657 TAATTTAATTAAAAACCCTAAACCCTAACCCTAACC
1 TAATTTAATTAAAAACCCT--A----AACCCTAACC
* * *
4116693 TAATTTAATTAAAAATCGTAAACCCTAACT
1 TAATTTAATTAAAAACCCTAAACCCTAACC
4116723 TAATTTAATTAAAAACCCT-AA--C-AACC
1 TAATTTAATTAAAAACCCTAAACCCTAACC
*
4116749 TAATTTAATTAAAAACCCTAAACCCTAACT
1 TAATTTAATTAAAAACCCTAAACCCTAACC
4116779 TAATTTAATTAAAAACCCTAA
1 TAATTTAATTAAAAACCCTAA
4116800 CCATTAACAA
Statistics
Matches: 727, Mismatches: 38, Indels: 100
0.84 0.04 0.12
Matches are distributed among these distances:
23 20 0.03
26 26 0.04
27 3 0.00
29 221 0.30
30 298 0.41
31 3 0.00
32 1 0.00
33 2 0.00
34 10 0.01
35 45 0.06
36 89 0.12
37 2 0.00
38 1 0.00
40 6 0.01
ACGTcount: A:0.45, C:0.27, G:0.01, T:0.27
Consensus pattern (30 bp):
TAATTTAATTAAAAACCCTAAACCCTAACC
Found at i:4116070 original size:23 final size:24
Alignment explanation
Indices: 4116040--4116100 Score: 70
Period size: 29 Copynumber: 2.4 Consensus size: 24
4116030 TAAAAACCCT
4116040 AAACCCTAACTTAATTTAATTAAAA
1 AAACCCTAACTTAATTTAATT-AAA
4116065 ACCCTAACCCTAACTTAATTTAATT-AA
1 A----AACCCTAACTTAATTTAATTAAA
4116092 AAACCCTAA
1 AAACCCTAA
4116101 ACCCTAACCC
Statistics
Matches: 32, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
23 8 0.25
25 1 0.03
27 3 0.09
29 20 0.62
ACGTcount: A:0.48, C:0.23, G:0.00, T:0.30
Consensus pattern (24 bp):
AAACCCTAACTTAATTTAATTAAA
Found at i:4116084 original size:59 final size:59
Alignment explanation
Indices: 4116004--4116801 Score: 1041
Period size: 59 Copynumber: 13.2 Consensus size: 59
4115994 TAAAAACCCT
* *
4116004 AAACCCTGACCCTAACCTAATTTAATTAAAAACCCTAAACCCTAACTTAATTTAATTAA
1 AAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTAACCTAATTTAATTAA
*
4116063 AAACCCTAACCCTAACTTAATTTAATTAAAAACCCTAAACCCTAACCCTGACCTAATTTAATTAA
1 AAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAAACCCT-A-----ACCTAATTTAATTAA
* *
4116128 AAACCCCAAACCCTAACCTAATTTAATTAAAAACCCT-AACCCTGACCTAATTTAATTAA
1 AAA-CCCTAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTAACCTAATTTAATTAA
* * *
4116187 AAACCTTAAACCCTAACCTAATTTAATAAAAAACCCTAAACCCTGACCTAATTTAATTAA
1 AAACCCT-AACCCTAACCTAATTTAATTAAAAACCCTAAACCCTAACCTAATTTAATTAA
4116247 AAACCCTAACCCTAACCTAATTTAATTAAAAACCCT-AACCCTAACCTAATTTAATTAA
1 AAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTAACCTAATTTAATTAA
4116305 AAACCCTAAACCCTAACCTAATTTAATTAAAAACCCT-AACCCTAACCTAATTTAATT--
1 AAACCCT-AACCCTAACCTAATTTAATTAAAAACCCTAAACCCTAACCTAATTTAATTAA
4116362 AAA----AACCCTAACCTAATTTAATTAAAAACCCTAAACCCTAACCTAATTTAATTAA
1 AAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTAACCTAATTTAATTAA
*
4116417 AAACCCTAACCCTAACCTAATTTAATTAAAAACCCT-AACCCTAACTTAATTTAATTAA
1 AAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTAACCTAATTTAATTAA
4116475 AAACCCTAACCCTAACCCCAACCTAATTTAATTAAAAACCCTAAACCCTAACCTAATTTAATTAA
1 AAACCCTAACCCT------AACCTAATTTAATTAAAAACCCTAAACCCTAACCTAATTTAATTAA
* *
4116540 AAACCCCAAACCCTAACCTAATTTAATTAAAAACCCT-AACTCTAACCTAATTTAATTAAAAACC
1 AAA-CCCTAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTAACCTAATTTAATT----A--
4116604 CTA
59 --A
4116607 ACCCTAACCCTAACCCTAACCTAATTTAATTAAAAACCCT-AACCCTAACCTAATTTAATTAAAA
1 A----AACCCTAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTAACCTAATTTAATT---A
4116671 A
59 A
* * *
4116672 CCCTAAACCCTAACCCTAACCTAATTTAATTAAAAATCGTAAACCCTAACTTAATTTAATTAA
1 ----AAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTAACCTAATTTAATTAA
*
4116735 AAACCCTAA--C-AACCTAATTTAATTAAAAACCCTAAACCCTAACTTAATTTAATTAA
1 AAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTAACCTAATTTAATTAA
4116791 AAACCCTAACC
1 AAACCCTAACC
4116802 ATTAACAAAA
Statistics
Matches: 672, Mismatches: 23, Indels: 89
0.86 0.03 0.11
Matches are distributed among these distances:
52 29 0.04
53 20 0.03
55 3 0.00
56 53 0.08
57 4 0.01
58 64 0.10
59 221 0.33
60 52 0.08
63 3 0.00
64 23 0.03
65 81 0.12
66 59 0.09
67 2 0.00
69 5 0.01
70 51 0.08
71 2 0.00
ACGTcount: A:0.45, C:0.27, G:0.01, T:0.27
Consensus pattern (59 bp):
AAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTAACCTAATTTAATTAA
Found at i:4116395 original size:18 final size:20
Alignment explanation
Indices: 4116349--4116391 Score: 59
Period size: 23 Copynumber: 2.0 Consensus size: 20
4116339 CCTAACCCTA
4116349 ACCTAATTTAATTAAAAACCC
1 ACCTAATTTAATTAAAAA-CC
4116370 TAACCTAATTTAATTAAAAACC
1 --ACCTAATTTAATTAAAAACC
4116392 CTAAACCCTA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 2 0.10
23 18 0.90
ACGTcount: A:0.49, C:0.21, G:0.00, T:0.30
Consensus pattern (20 bp):
ACCTAATTTAATTAAAAACC
Found at i:4116611 original size:6 final size:6
Alignment explanation
Indices: 4116600--4116627 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
4116590 TTTAATTAAA
4116600 AACCCT AACCCT AACCCT AACCCT AACC
1 AACCCT AACCCT AACCCT AACCCT AACC
4116628 TAATTTAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.36, C:0.50, G:0.00, T:0.14
Consensus pattern (6 bp):
AACCCT
Found at i:4116628 original size:41 final size:41
Alignment explanation
Indices: 4116571--4116656 Score: 163
Period size: 41 Copynumber: 2.1 Consensus size: 41
4116561 TTTAATTAAA
*
4116571 AACCCTAACTCTAACCTAATTTAATTAAAAACCCTAACCCT
1 AACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCT
4116612 AACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCT
1 AACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCT
4116653 AACC
1 AACC
4116657 TAATTTAATT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 44 1.00
ACGTcount: A:0.42, C:0.34, G:0.00, T:0.24
Consensus pattern (41 bp):
AACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCT
Found at i:4116719 original size:36 final size:36
Alignment explanation
Indices: 4116570--4116799 Score: 190
Period size: 36 Copynumber: 7.1 Consensus size: 36
4116560 ATTTAATTAA
*
4116570 AAACCCTAACTCTAACCTAATTTAATTAAAAACCCT
1 AAACCCTAACCCTAACCTAATTTAATTAAAAACCCT
** *
4116606 -AACCCTAACCCTAACCCTAACCTAATTTAATTAA----
1 AAACCCTAACCCTAA-CCTAATTTAA-TTAA-AAACCCT
4116640 AAACCCTAACCCTAACCTAATTTAATTAAAAACCCT
1 AAACCCTAACCCTAACCTAATTTAATTAAAAACCCT
* *
4116676 AAACCCTAACCCTAACCTAATTTAATTAAAAATCGT
1 AAACCCTAACCCTAACCTAATTTAATTAAAAACCCT
4116712 AAACCCTAA--CT----TAATTTAATT---AA----
1 AAACCCTAACCCTAACCTAATTTAATTAAAAACCCT
4116735 AAACCCTAA--C-AACCTAATTTAATTAAAAACCCT
1 AAACCCTAACCCTAACCTAATTTAATTAAAAACCCT
4116768 AAACCCTAA--CT----TAATTTAATTAAAAACCCT
1 AAACCCTAACCCTAACCTAATTTAATTAAAAACCCT
4116798 AA
1 AA
4116800 CCATTAACAA
Statistics
Matches: 165, Mismatches: 9, Indels: 46
0.75 0.04 0.21
Matches are distributed among these distances:
23 10 0.06
26 10 0.06
27 2 0.01
29 2 0.01
30 31 0.19
32 2 0.01
33 14 0.08
34 10 0.06
35 27 0.16
36 51 0.31
37 4 0.02
38 2 0.01
ACGTcount: A:0.46, C:0.27, G:0.00, T:0.27
Consensus pattern (36 bp):
AAACCCTAACCCTAACCTAATTTAATTAAAAACCCT
Found at i:4116771 original size:56 final size:56
Alignment explanation
Indices: 4116689--4116800 Score: 206
Period size: 56 Copynumber: 2.0 Consensus size: 56
4116679 CCCTAACCCT
* *
4116689 AACCTAATTTAATTAAAAATCGTAAACCCTAACTTAATTTAATTAAAAACCCTAAC
1 AACCTAATTTAATTAAAAACCCTAAACCCTAACTTAATTTAATTAAAAACCCTAAC
4116745 AACCTAATTTAATTAAAAACCCTAAACCCTAACTTAATTTAATTAAAAACCCTAAC
1 AACCTAATTTAATTAAAAACCCTAAACCCTAACTTAATTTAATTAAAAACCCTAAC
4116801 CATTAACAAA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
56 54 1.00
ACGTcount: A:0.48, C:0.21, G:0.01, T:0.29
Consensus pattern (56 bp):
AACCTAATTTAATTAAAAACCCTAAACCCTAACTTAATTTAATTAAAAACCCTAAC
Found at i:4120264 original size:124 final size:124
Alignment explanation
Indices: 4119907--4120316 Score: 662
Period size: 124 Copynumber: 3.2 Consensus size: 124
4119897 CACGAGGGCT
*
4119907 CGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCTTACATGACCAACTGTAGCGA
1 CGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCTTACATGACCAATTGTAGCGA
*
4119972 AATCGCGCCCACGAGGGCACGATTTCACGATTTCACAATTTCTTCTCAAATAGCATCCTGGTAGA
66 AATCGCGTCCACGA-GG---G----CACGATTTCACAATTTCTTCTCAAATAGCATCCTGGTAGA
4120037 AG
123 AG
*
4120039 CGATTTTATACTATTTGCTTAGAAACGTC-AAAAAAATTATTTCTTACATGACCAATTGTAGCGA
1 CGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCTTACATGACCAATTGTAGCGA
* *
4120103 AATCGCATCCACGAGGGCACAATTTCACAATTTCTTCTCAAATAGCATCCTGGTAGAAG
66 AATCGCGTCCACGAGGGCACGATTTCACAATTTCTTCTCAAATAGCATCCTGGTAGAAG
* *
4120162 TGATTTTATACTATTTGCTCAGAAATGTCAAAAAAAATTATTTCTTACATGACCAATTGTAGCGA
1 CGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCTTACATGACCAATTGTAGCGA
4120227 AATCGCGTCCACGAGGGCACGATTTCACAATTTCTTCTCAAATAGCATCCTGGTAGAAG
66 AATCGCGTCCACGAGGGCACGATTTCACAATTTCTTCTCAAATAGCATCCTGGTAGAAG
4120286 CGATTTTATACTATTTGAC-CAGAAACGTCAA
1 CGATTTTATACTATTTG-CTCAGAAACGTCAA
4120317 CTCAAAATAA
Statistics
Matches: 264, Mismatches: 12, Indels: 12
0.92 0.04 0.04
Matches are distributed among these distances:
123 67 0.25
124 119 0.45
125 1 0.00
127 1 0.00
130 2 0.01
131 46 0.17
132 28 0.11
ACGTcount: A:0.33, C:0.21, G:0.15, T:0.30
Consensus pattern (124 bp):
CGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCTTACATGACCAATTGTAGCGA
AATCGCGTCCACGAGGGCACGATTTCACAATTTCTTCTCAAATAGCATCCTGGTAGAAG
Found at i:4129970 original size:28 final size:28
Alignment explanation
Indices: 4129934--4130030 Score: 96
Period size: 28 Copynumber: 3.6 Consensus size: 28
4129924 GAAGTTCTTG
*
4129934 TTCAGAACCTAAAAATTTATATTAAAAA
1 TTCAAAACCTAAAAATTTATATTAAAAA
4129962 TTCAAAACCTAAAAA--T-TATT--AAA
1 TTCAAAACCTAAAAATTTATATTAAAAA
** **
4129985 CCCAATAATTTAAAAATTTATATTAAAAA
1 TTCAA-AACCTAAAAATTTATATTAAAAA
*
4130014 TTTAAAACCTAAAAATT
1 TTCAAAACCTAAAAATT
4130031 ATTAAACCCA
Statistics
Matches: 53, Mismatches: 10, Indels: 12
0.71 0.13 0.16
Matches are distributed among these distances:
23 6 0.11
24 8 0.15
25 4 0.08
26 2 0.04
27 4 0.08
28 24 0.45
29 5 0.09
ACGTcount: A:0.55, C:0.11, G:0.01, T:0.33
Consensus pattern (28 bp):
TTCAAAACCTAAAAATTTATATTAAAAA
Found at i:4130007 original size:52 final size:52
Alignment explanation
Indices: 4129943--4130056 Score: 201
Period size: 52 Copynumber: 2.2 Consensus size: 52
4129933 GTTCAGAACC
*
4129943 TAAAAATTTATATTAAAAATTCAAAACCTAAAAATTATTAAACCCAATAATT
1 TAAAAATTTATATTAAAAATTCAAAACCTAAAAATTATTAAACCCAAGAATT
*
4129995 TAAAAATTTATATTAAAAATTTAAAACCTAAAAATTATTAAACCCAAGAATT
1 TAAAAATTTATATTAAAAATTCAAAACCTAAAAATTATTAAACCCAAGAATT
*
4130047 TAAAGATTTA
1 TAAAAATTTA
4130057 GGCTTCTTAG
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 59 1.00
ACGTcount: A:0.55, C:0.10, G:0.02, T:0.33
Consensus pattern (52 bp):
TAAAAATTTATATTAAAAATTCAAAACCTAAAAATTATTAAACCCAAGAATT
Found at i:4131094 original size:13 final size:13
Alignment explanation
Indices: 4131075--4131107 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
4131065 GAGTGTTGTG
4131075 GAAAAGTGCTTTT
1 GAAAAGTGCTTTT
*
4131088 GAGAAGTGCTTTT
1 GAAAAGTGCTTTT
4131101 GAAAAGT
1 GAAAAGT
4131108 TTGGTTTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.33, C:0.06, G:0.27, T:0.33
Consensus pattern (13 bp):
GAAAAGTGCTTTT
Found at i:4132651 original size:19 final size:19
Alignment explanation
Indices: 4132627--4132680 Score: 99
Period size: 19 Copynumber: 2.8 Consensus size: 19
4132617 AATCTTTAAG
4132627 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
4132646 GATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATAT
4132665 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
4132681 AGATATGATT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.37, C:0.09, G:0.17, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:4132671 original size:38 final size:40
Alignment explanation
Indices: 4132627--4132703 Score: 113
Period size: 38 Copynumber: 1.9 Consensus size: 40
4132617 AATCTTTAAG
4132627 GATATGCAATCTT-AGATATGA-TATGTAATCTTAGATAT
1 GATATGCAATCTTAAGATATGATTATGTAATCTTAGATAT
*
4132665 GATATGCAATCTTAGAAGATATGATTTTGTAATCTTAGA
1 GATATGCAATCTT--AAGATATGATTATGTAATCTTAGA
4132704 GATTTAATTT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
38 13 0.38
41 8 0.24
42 13 0.38
ACGTcount: A:0.36, C:0.08, G:0.17, T:0.39
Consensus pattern (40 bp):
GATATGCAATCTTAAGATATGATTATGTAATCTTAGATAT
Done.