Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D02
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: 70731513
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1900000 characters in sequence are not A, C, G, or T
File 51 of 222
Found at i:15145413 original size:18 final size:18
Alignment explanation
Indices: 15145390--15145425 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
15145380 TTCTAATTAA
15145390 AACCCCTATCGTTGGATT
1 AACCCCTATCGTTGGATT
15145408 AACCCCTATCGTTGGATT
1 AACCCCTATCGTTGGATT
15145426 CTCTTATTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.22, C:0.28, G:0.17, T:0.33
Consensus pattern (18 bp):
AACCCCTATCGTTGGATT
Found at i:15147875 original size:5 final size:6
Alignment explanation
Indices: 15147861--15147930 Score: 50
Period size: 6 Copynumber: 10.5 Consensus size: 6
15147851 GAAGTCTAAG
*
15147861 AAAATA AAAATAA AACAACTA AAAACA AAAATA AAAATTTTAA AAAATA
1 AAAATA AAAAT-A AA-AA-TA AAAATA AAAATA AAAA---T-A AAAATA
* *
15147910 AAAATA AAACTA AAAAGA AAA
1 AAAATA AAAATA AAAATA AAA
15147931 GAAATAAAAT
Statistics
Matches: 52, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
6 34 0.65
7 6 0.12
8 5 0.10
9 2 0.04
10 5 0.10
ACGTcount: A:0.77, C:0.06, G:0.01, T:0.16
Consensus pattern (6 bp):
AAAATA
Found at i:15157310 original size:37 final size:37
Alignment explanation
Indices: 15157260--15157338 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
15157250 TTATTACGAA
* * *
15157260 GTCTTACCCGGACATAATCTTCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCTCACACGAAGTCATCGG
*
15157297 GTCTTACCCGGACAAAATCCTCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCTCACACGAAGTCATCGG
15157334 GTCTT
1 GTCTT
15157339 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCTCACACGAAGTCATCGG
Found at i:15157453 original size:49 final size:49
Alignment explanation
Indices: 15157379--15157768 Score: 630
Period size: 49 Copynumber: 8.1 Consensus size: 49
15157369 CCCTTCGGGA
* * * * *
15157379 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
15157426 CCTGTCACATATATATACACTTCCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
15157475 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
15157522 CTTATCACATATATGTACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
15157571 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
15157620 CCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
15157669 CTTATCGCATATATATACACTTTCACATTCATCACATCGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
15157718 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
15157765 CTTA
1 CTTA
15157769 CTATCATTTC
Statistics
Matches: 320, Mismatches: 19, Indels: 8
0.92 0.05 0.02
Matches are distributed among these distances:
47 96 0.30
48 1 0.00
49 223 0.70
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.32
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:15157543 original size:96 final size:96
Alignment explanation
Indices: 15157379--15157768 Score: 613
Period size: 96 Copynumber: 4.0 Consensus size: 96
15157369 CCCTTCGGGA
* * * * * * *
15157379 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
*
15157444 ACTTCCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
* *
15157475 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATGTAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
15157540 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
15157571 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATAT
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATAT
15157636 ACACTTTCACATTCATCACATCGGCCATTAGGC
64 ACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
15157669 CTTATCGCATATATATACACTTTCACATTCATCACATCGGCCATTCGGCCTTATCAC--ATATAT
1 CTTAT--CACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATAT
15157732 ACACTTTCACATTCATCACATCGGCCATTAGGC
64 ACACTTTCACATTCATCACATCGGCCATTAGGC
15157765 CTTA
1 CTTA
15157769 CTATCATTTC
Statistics
Matches: 275, Mismatches: 15, Indels: 8
0.92 0.05 0.03
Matches are distributed among these distances:
96 137 0.50
98 136 0.49
100 2 0.01
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.32
Consensus pattern (96 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:15162916 original size:28 final size:28
Alignment explanation
Indices: 15162881--15162948 Score: 100
Period size: 28 Copynumber: 2.4 Consensus size: 28
15162871 TTTCCTCTCT
15162881 TTTCTTTTCTTTTTCGATTTCAATCTTA
1 TTTCTTTTCTTTTTCGATTTCAATCTTA
* **
15162909 TTTCTTTTCTTTTTTGATTTTGATCTTA
1 TTTCTTTTCTTTTTCGATTTCAATCTTA
*
15162937 TTTCTTTCCTTT
1 TTTCTTTTCTTT
15162949 GATTTTTGGT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.10, C:0.16, G:0.04, T:0.69
Consensus pattern (28 bp):
TTTCTTTTCTTTTTCGATTTCAATCTTA
Found at i:15172408 original size:16 final size:17
Alignment explanation
Indices: 15172376--15172410 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
15172366 TAGAATTGGG
*
15172376 TTGAAAAAATTATTTAA
1 TTGAAAAAATTAATTAA
15172393 TTGAAAAAA-TAATTAA
1 TTGAAAAAATTAATTAA
15172409 TT
1 TT
15172411 TAAATTAATT
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:0.54, C:0.00, G:0.06, T:0.40
Consensus pattern (17 bp):
TTGAAAAAATTAATTAA
Found at i:15175309 original size:17 final size:17
Alignment explanation
Indices: 15175287--15175322 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
15175277 CTTCTATAGT
15175287 ATGTAGCATCATTCACA
1 ATGTAGCATCATTCACA
15175304 ATGTAGCATCATTCACA
1 ATGTAGCATCATTCACA
15175321 AT
1 AT
15175323 AGTGGAATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.36, C:0.22, G:0.11, T:0.31
Consensus pattern (17 bp):
ATGTAGCATCATTCACA
Found at i:15182097 original size:19 final size:20
Alignment explanation
Indices: 15182063--15182100 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
15182053 TTATTCCAAG
*
15182063 GAATTGTCTTAGAAAATGAT
1 GAATTGTCTAAGAAAATGAT
15182083 GAATTGT-TAAGAAAATGA
1 GAATTGTCTAAGAAAATGA
15182101 GCTTGGTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.45, C:0.03, G:0.21, T:0.32
Consensus pattern (20 bp):
GAATTGTCTAAGAAAATGAT
Found at i:15183043 original size:16 final size:16
Alignment explanation
Indices: 15183022--15183090 Score: 129
Period size: 16 Copynumber: 4.2 Consensus size: 16
15183012 TTTGGTTCGC
15183022 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
15183038 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
15183054 TGTATTGGGATTAGAGG
1 TGTATT-GGATTAGAGG
15183071 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
15183087 TGTA
1 TGTA
15183091 ATAGCTAATC
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
16 36 0.69
17 16 0.31
ACGTcount: A:0.25, C:0.00, G:0.38, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:15183068 original size:33 final size:32
Alignment explanation
Indices: 15183022--15183090 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 32
15183012 TTTGGTTCGC
15183022 TGTATTGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATTGGATTAGAGGTGTATTGGATTAGAGG
15183054 TGTATTGGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATT-GGATTAGAGGTGTATTGGATTAGAGG
15183087 TGTA
1 TGTA
15183091 ATAGCTAATC
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 6 0.17
33 30 0.83
ACGTcount: A:0.25, C:0.00, G:0.38, T:0.38
Consensus pattern (32 bp):
TGTATTGGATTAGAGGTGTATTGGATTAGAGG
Found at i:15183155 original size:44 final size:45
Alignment explanation
Indices: 15183071--15183161 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
15183061 GGATTAGAGG
* * *
15183071 TGTATTGGATTAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
***
15183116 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
15183160 TG
1 TG
15183162 GAATAGAGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.27, C:0.07, G:0.29, T:0.37
Consensus pattern (45 bp):
TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
Found at i:15183347 original size:18 final size:19
Alignment explanation
Indices: 15183326--15183362 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
15183316 TTATTATTAA
15183326 ATAT-ATTT-TAATTAAAAT
1 ATATAATTTATAA-TAAAAT
15183344 ATATAATTTATAATAAAAT
1 ATATAATTTATAATAAAAT
15183363 TCTTAATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 4 0.24
19 10 0.59
20 3 0.18
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
ATATAATTTATAATAAAAT
Found at i:15183421 original size:61 final size:58
Alignment explanation
Indices: 15183356--15183543 Score: 143
Period size: 61 Copynumber: 3.1 Consensus size: 58
15183346 ATAATTTATA
*
15183356 ATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACT
1 ATAAAATTCTTAATAATAAATATTCTTATATGAATTT--T-AAATCATAATATATGATACT
* * ** * * *
15183417 ATAAAATATAATTTGAAATAATTAATATT-AAATAT--ATTTT-AATTAAAATATATGAT-TT
1 ATAAAAT-T--CTT--AATAATAAATATTCTTATATGAATTTTAAATCATAATATATGATACT
* *
15183475 AATAAAATTCTTAATATTAAATATTCTTATATGAATTTTTTAAAATCATAATATATAATACT
1 -ATAAAATTCTTAATAATAAATATTCTTATATGAA--TTTT-AAATCATAATATATGATACT
15183537 ATAAAAT
1 ATAAAAT
15183544 ATAATTTAAC
Statistics
Matches: 97, Mismatches: 16, Indels: 28
0.69 0.11 0.20
Matches are distributed among these distances:
54 11 0.11
55 4 0.04
56 2 0.02
57 1 0.01
58 2 0.02
59 25 0.26
61 28 0.29
62 2 0.02
63 4 0.04
64 2 0.02
65 4 0.04
66 12 0.12
ACGTcount: A:0.48, C:0.06, G:0.03, T:0.43
Consensus pattern (58 bp):
ATAAAATTCTTAATAATAAATATTCTTATATGAATTTTAAATCATAATATATGATACT
Found at i:15183470 original size:59 final size:58
Alignment explanation
Indices: 15183404--15183589 Score: 166
Period size: 59 Copynumber: 3.1 Consensus size: 58
15183394 CTCAAATCAT
* *
15183404 AATATATGATACTATAAAATATAATTTGAAATAATTAATATTAAATATATTTTAATTAA
1 AATATATGATACTATAAAATATAATTT-AAATAATTATTATTAAATATATTTTAATAAA
* * * *
15183463 AATATATGAT-TTAATAAAATTCTTAATATTAAAT-ATTCTTATATGAAT-T-TTTTAA-AATCA
1 AATATATGATACT-ATAAAA-T-ATAAT-TTAAATAATTATTAT-TAAATATATTTTAATAA--A
* **
15183523 TAATATATAATACTATAAAATATAATTTAACATAATTATTATTAAATATAAGTTAATAAA
1 -AATATATGATACTATAAAATATAATTTAA-ATAATTATTATTAAATATATTTTAATAAA
15183583 AATATAT
1 AATATAT
15183590 AATTTATCAT
Statistics
Matches: 100, Mismatches: 13, Indels: 28
0.71 0.09 0.20
Matches are distributed among these distances:
58 6 0.06
59 39 0.39
60 19 0.19
61 31 0.31
62 5 0.05
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.43
Consensus pattern (58 bp):
AATATATGATACTATAAAATATAATTTAAATAATTATTATTAAATATATTTTAATAAA
Found at i:15183527 original size:120 final size:120
Alignment explanation
Indices: 15183306--15183595 Score: 447
Period size: 120 Copynumber: 2.4 Consensus size: 120
15183296 TTAATCATAT
15183306 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTATAATAAAATTCTTAATA
1 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAA-TT-TAATAAAATTCTTAATA
* * *
15183371 ATCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAA
64 ATAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
* * *
15183428 TTTGAA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTAATAT
1 TTT-AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAA
**
15183492 TAAATATTCTTATATGAATTTTTTAAAATCATAATATATAATACTATAAAATATAA
65 TAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
** *
15183548 TTTAACATAATTATTATTAAATATAAGTTAATAAAAATATATAATTTA
1 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTA
15183596 TCATCATACT
Statistics
Matches: 153, Mismatches: 13, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
119 2 0.01
120 108 0.71
121 2 0.01
122 39 0.25
123 2 0.01
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.44
Consensus pattern (120 bp):
TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
Found at i:15195925 original size:14 final size:15
Alignment explanation
Indices: 15195899--15195927 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
15195889 TGTTATAGAA
15195899 TAAATAGACAAAGAG
1 TAAATAGACAAAGAG
15195914 TAAATA-ACAAAGAG
1 TAAATAGACAAAGAG
15195928 AATGGGAGAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.62, C:0.07, G:0.17, T:0.14
Consensus pattern (15 bp):
TAAATAGACAAAGAG
Found at i:15226766 original size:38 final size:38
Alignment explanation
Indices: 15226719--15226844 Score: 148
Period size: 38 Copynumber: 3.3 Consensus size: 38
15226709 ACAAGGTTGT
* *
15226719 ATCTTGTTATATTACTCGAGAATCTGCAACTAGACTAG
1 ATCTCGTTATATTACACGAGAATCTGCAACTAGACTAG
* * *
15226757 ATCTCGTTATATTACCCGAGAATCTACAA-TAAGGCTAG
1 ATCTCGTTATATTACACGAGAATCTGCAACT-AGACTAG
* *
15226795 ATCTCGTTATATTACACGAGAATCTGTAAC-AAATGCTAG
1 ATCTCGTTATATTACACGAGAATCTGCAACTAGA--CTAG
15226834 ATCTCGTTATA
1 ATCTCGTTATA
15226845 ATCTATAATA
Statistics
Matches: 75, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
37 2 0.03
38 58 0.77
39 15 0.20
ACGTcount: A:0.33, C:0.19, G:0.15, T:0.33
Consensus pattern (38 bp):
ATCTCGTTATATTACACGAGAATCTGCAACTAGACTAG
Found at i:15226815 original size:76 final size:76
Alignment explanation
Indices: 15226688--15226844 Score: 194
Period size: 76 Copynumber: 2.1 Consensus size: 76
15226678 ACCTATGTCA
* * * * *
15226688 TATATTACTCGAGAATTCACAACAAGGTTGTATCTTGTTATATTACTCGAGAATCTGCAAC-TAG
1 TATATTACCCGAGAATTCACAACAAGGTAGTATCTCGTTATATTACACGAGAATCTGCAACAAAG
15226752 ACTAGATCTCGT
66 -CTAGATCTCGT
* *
15226764 TATATTACCCGAGAA-TCTACAATAAGGCTAG-ATCTCGTTATATTACACGAGAATCTGTAACAA
1 TATATTACCCGAGAATTC-ACAACAAGG-TAGTATCTCGTTATATTACACGAGAATCTGCAACAA
15226827 ATGCTAGATCTCGT
64 A-GCTAGATCTCGT
15226841 TATA
1 TATA
15226845 ATCTATAATA
Statistics
Matches: 70, Mismatches: 7, Indels: 7
0.83 0.08 0.08
Matches are distributed among these distances:
75 2 0.03
76 49 0.70
77 18 0.26
78 1 0.01
ACGTcount: A:0.34, C:0.18, G:0.15, T:0.32
Consensus pattern (76 bp):
TATATTACCCGAGAATTCACAACAAGGTAGTATCTCGTTATATTACACGAGAATCTGCAACAAAG
CTAGATCTCGT
Found at i:15228476 original size:45 final size:45
Alignment explanation
Indices: 15228404--15228664 Score: 351
Period size: 45 Copynumber: 5.8 Consensus size: 45
15228394 GTCTGATTCA
* * * *
15228404 TGATTCCATAGCGTCCTTCAACTATGGTCTTACTCGTTAGAATCG
1 TGATGCCATAACGTCTTTCAACTATGGTCTTACTCGTTAAAATCG
* * * *
15228449 TGATGCCATGACGTCTTTCAGCTATGGTCTTACTCATTAAAATCA
1 TGATGCCATAACGTCTTTCAACTATGGTCTTACTCGTTAAAATCG
* *
15228494 TGATGTCATAACGTCTTTCAAATATGGTCTTACTCGTTAAAATCG
1 TGATGCCATAACGTCTTTCAACTATGGTCTTACTCGTTAAAATCG
* * *
15228539 TGATGCCATAACGTCTTTCAGCTGTGGTCTTACTCGTTAAAATTG
1 TGATGCCATAACGTCTTTCAACTATGGTCTTACTCGTTAAAATCG
* * *
15228584 GGATGCCATAACATCTTTCAACTATGGTCTTACTCTTTAAAATCG
1 TGATGCCATAACGTCTTTCAACTATGGTCTTACTCGTTAAAATCG
* * *
15228629 TGATGCCATAACGTCTATCAGCTGTGGTCTTACTCG
1 TGATGCCATAACGTCTTTCAACTATGGTCTTACTCG
15228665 CAATGGTATT
Statistics
Matches: 185, Mismatches: 31, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 185 1.00
ACGTcount: A:0.25, C:0.22, G:0.17, T:0.36
Consensus pattern (45 bp):
TGATGCCATAACGTCTTTCAACTATGGTCTTACTCGTTAAAATCG
Found at i:15228602 original size:135 final size:141
Alignment explanation
Indices: 15228401--15228795 Score: 417
Period size: 135 Copynumber: 2.7 Consensus size: 141
15228391 TTTGTCTGAT
* * * * * * * * *
15228401 TCATGATTCCATAGCGTCCTTCAACTATGGTCTTACTCGTTAGAATCGTGATGCCATGACGTCTT
1 TCATGATGCCATAACGTCTTTCAGCTGTGGTCTTACTCGTTAAAATTGTGATGCCATAACATCTT
* *
15228466 TCAGCTATGGTCTTACTCATTAAAATCATGATGTCATAACG-T-CT-T-TC-AAAT-ATGGTCTT
66 TCAGCTATGGTCTTACTCATTAAAATCATGATGCCATAACGTTACTGTGTCTAAATCATGGTATT
15228525 ACTCGTTAAAA
131 ACTCGTTAAAA
* *
15228536 TCGTGATGCCATAACGTCTTTCAGCTGTGGTCTTACTCGTTAAAATTGGGATGCCATAACATCTT
1 TCATGATGCCATAACGTCTTTCAGCTGTGGTCTTACTCGTTAAAATTGTGATGCCATAACATCTT
* * * * *
15228601 TCAACTATGGTCTTACTCTTTAAAATCGTGATGCCATAACGTCTATCAGCTGTGGTCTTACTCGC
66 TCAGCTATGGTCTTACTCATTAAAATCATGATGCCATAACG--T-T-A-CTGT-GTCTAAAT--C
15228666 AATGGTATTACTCGTTAAAA
123 -ATGGTATTACTCGTTAAAA
* *
15228686 TCATGATGCCATAACATCTTTCAGCTATGCTATGGTCTTACTCGTTAAAACTGTGATGCCATAAC
1 TCATGATGCCATAACGTCTTTCAGC--TG---TGGTCTTACTCGTTAAAATTGTGATGCCATAAC
*
15228751 CTCTTTCAGCTATGGTCTTACT-AGTTAAAATCATGATGCCATAAC
61 ATCTTTCAGCTATGGTCTTACTCA-TTAAAATCATGATGCCATAAC
15228796 ATTTTTTAGC
Statistics
Matches: 213, Mismatches: 26, Indels: 22
0.82 0.10 0.08
Matches are distributed among these distances:
135 91 0.43
139 1 0.00
142 2 0.01
143 1 0.00
145 2 0.01
146 2 0.01
150 41 0.19
152 2 0.01
155 71 0.33
ACGTcount: A:0.27, C:0.22, G:0.16, T:0.35
Consensus pattern (141 bp):
TCATGATGCCATAACGTCTTTCAGCTGTGGTCTTACTCGTTAAAATTGTGATGCCATAACATCTT
TCAGCTATGGTCTTACTCATTAAAATCATGATGCCATAACGTTACTGTGTCTAAATCATGGTATT
ACTCGTTAAAA
Found at i:15228743 original size:50 final size:49
Alignment explanation
Indices: 15228667--15228809 Score: 179
Period size: 50 Copynumber: 3.0 Consensus size: 49
15228657 CTTACTCGCA
*
15228667 ATGGTATTACTCGTTAAAATCATGATGCCATAACATCTTTCAGCTATGCT
1 ATGGTCTTACTCGTTAAAATCATGATGCCATAACATCTTT-AGCTATGCT
* *
15228717 ATGGTCTTACTCGTTAAAA-CTGTGATGCCATAACCTCTTT--C-A-GCT
1 ATGGTCTTACTCGTTAAAATC-ATGATGCCATAACATCTTTAGCTATGCT
* *
15228762 ATGGTCTTACTAGTTAAAATCATGATGCCATAACATTTTTTAGCTATG
1 ATGGTCTTACTCGTTAAAATCATGATGCCATAACA-TCTTTAGCTATG
15228810 GTCTTATTCA
Statistics
Matches: 79, Mismatches: 7, Indels: 14
0.79 0.07 0.14
Matches are distributed among these distances:
45 33 0.42
46 6 0.08
47 1 0.01
48 1 0.01
49 2 0.03
50 36 0.46
ACGTcount: A:0.29, C:0.20, G:0.15, T:0.37
Consensus pattern (49 bp):
ATGGTCTTACTCGTTAAAATCATGATGCCATAACATCTTTAGCTATGCT
Found at i:15228760 original size:110 final size:105
Alignment explanation
Indices: 15228563--15228772 Score: 287
Period size: 110 Copynumber: 2.0 Consensus size: 105
15228553 CTTTCAGCTG
* ** *
15228563 TGGTCTTACTCGTTAAAATTGGGATGCCATAACATCTTTCAACTATGGTCTTACTCTTTAAAATC
1 TGGTATTACTCGTTAAAATCAGGATGCCATAACATCTTTCAACTATGGTCTTACTCGTTAAAATC
* *
15228628 GTGATGCCATAACGTCTATCAGCTGTGGTCTTACTCGCAA
66 GTGATGCCATAACCTCTATCAGCTATGGTCTTACTCGCAA
*
15228668 TGGTATTACTCGTTAAAATCATGATGCCATAACATCTTTCAGCTATGCTATGGTCTTACTCGTTA
1 TGGTATTACTCGTTAAAATCAGGATGCCATAACATCTTTCA---A--CTATGGTCTTACTCGTTA
*
15228733 AAA-CTGTGATGCCATAACCTCTTTCAGCTATGGTCTTACT
61 AAATC-GTGATGCCATAACCTCTATCAGCTATGGTCTTACT
15228773 AGTTAAAATC
Statistics
Matches: 91, Mismatches: 8, Indels: 7
0.86 0.08 0.07
Matches are distributed among these distances:
105 37 0.41
108 1 0.01
109 1 0.01
110 52 0.57
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.36
Consensus pattern (105 bp):
TGGTATTACTCGTTAAAATCAGGATGCCATAACATCTTTCAACTATGGTCTTACTCGTTAAAATC
GTGATGCCATAACCTCTATCAGCTATGGTCTTACTCGCAA
Found at i:15228764 original size:155 final size:150
Alignment explanation
Indices: 15228517--15228795 Score: 423
Period size: 155 Copynumber: 1.8 Consensus size: 150
15228507 TCTTTCAAAT
* * * *
15228517 ATGGTCTTACTCGTTAAAATCGTGATGCCATAACGTCTTTCAGCTGTGGTCTTACTCGTTAAAAT
1 ATGGTATTACTCGTTAAAATCATGATGCCATAACATCTTTCAGCTGTGGTCTTACTCGTTAAAAC
** *
15228582 TGGGATGCCATAACATCTTTCAACTATGGTCTTACTCTTTAAAATCGTGATGCCATAACGTCTAT
66 TGGGATGCCATAACATCTTTCAACTATGGTCTTACTAGTTAAAATCATGATGCCATAACGTCTAT
15228647 CAGCTGTGGTCTTACTCGCA
131 CAGCTGTGGTCTTACTCGCA
15228667 ATGGTATTACTCGTTAAAATCATGATGCCATAACATCTTTCAGCTATGCTATGGTCTTACTCGTT
1 ATGGTATTACTCGTTAAAATCATGATGCCATAACATCTTTCAGC--TG---TGGTCTTACTCGTT
* * *
15228732 AAAACTGTGATGCCATAACCTCTTTCAGCTATGGTCTTACTAGTTAAAATCATGATGCCATAAC
61 AAAACTGGGATGCCATAACATCTTTCAACTATGGTCTTACTAGTTAAAATCATGATGCCATAAC
15228796 ATTTTTTAGC
Statistics
Matches: 114, Mismatches: 10, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
150 41 0.36
152 2 0.02
155 71 0.62
ACGTcount: A:0.27, C:0.22, G:0.16, T:0.35
Consensus pattern (150 bp):
ATGGTATTACTCGTTAAAATCATGATGCCATAACATCTTTCAGCTGTGGTCTTACTCGTTAAAAC
TGGGATGCCATAACATCTTTCAACTATGGTCTTACTAGTTAAAATCATGATGCCATAACGTCTAT
CAGCTGTGGTCTTACTCGCA
Found at i:15228778 original size:45 final size:45
Alignment explanation
Indices: 15228667--15228815 Score: 174
Period size: 45 Copynumber: 3.2 Consensus size: 45
15228657 CTTACTCGCA
* *
15228667 ATGGTATTACTCGTTAAAATCATGATGCCATAACATCTTTCAGCTATGCT
1 ATGGTCTTACTAGTTAAAATCATGATGCCATAACATCTTT---C-A-GCT
* * *
15228717 ATGGTCTTACTCGTTAAAA-CTGTGATGCCATAACCTCTTTCAGCT
1 ATGGTCTTACTAGTTAAAATC-ATGATGCCATAACATCTTTCAGCT
* *
15228762 ATGGTCTTACTAGTTAAAATCATGATGCCATAACATTTTTTAGCT
1 ATGGTCTTACTAGTTAAAATCATGATGCCATAACATCTTTCAGCT
15228807 ATGGTCTTA
1 ATGGTCTTA
15228816 TTCAGTTCTG
Statistics
Matches: 89, Mismatches: 8, Indels: 9
0.84 0.08 0.08
Matches are distributed among these distances:
45 50 0.56
46 2 0.02
47 1 0.01
49 1 0.01
50 35 0.39
ACGTcount: A:0.28, C:0.19, G:0.15, T:0.38
Consensus pattern (45 bp):
ATGGTCTTACTAGTTAAAATCATGATGCCATAACATCTTTCAGCT
Found at i:15228859 original size:200 final size:195
Alignment explanation
Indices: 15228472--15228860 Score: 449
Period size: 200 Copynumber: 2.0 Consensus size: 195
15228462 TCTTTCAGCT
* * *
15228472 ATGGTCTTACTCATTAAAATCATGATGTCATAACGTCTTTCAAATATGGTCTTACTCGTTAAAAT
1 ATGGTATTACTCATTAAAATCATGATGCCATAACATCTTTCAAATATGGTCTTACTCGTTAAAAT
* * * **
15228537 CGTGATGCCATAACGTCTTTCAGCTGTGGTCTTACTCGTTAAAATTGGGATGCCATAACATCTTT
66 CGTGATGCCATAACCTCTTTCAGCTATGGTCTTACTAGTTAAAATCAGGATGCCATAACATCTTT
* * * * * *
15228602 CAACTATGGTCTTACTCTTTAAAATCGTGATGCCATAACGTCTATCAGCTGTGGTCTTACTCGCA
131 CAACTATGGTCTTACTCGTTAAAATCATAATGCCACAACGTCTATCAACTATGGTCTTACTCGCA
* *
15228667 ATGGTATTACTCGTTAAAATCATGATGCCATAACATCTTTCAGCTATGCTATGGTCTTACTCGTT
1 ATGGTATTACTCATTAAAATCATGATGCCATAACATCTTTCA---A--ATATGGTCTTACTCGTT
*
15228732 AAAA-CTGTGATGCCATAACCTCTTTCAGCTATGGTCTTACTAGTTAAAATCATGATGCCATAAC
61 AAAATC-GTGATGCCATAACCTCTTTCAGCTATGGTCTTACTAGTTAAAATCAGGATGCCATAAC
* * * * **** ** *
15228796 ATTTTTTAGCTATGGTCTTATTCAGTTCTGGT-ATAATGCCACAGTGTCTTTCAACTATGGTCTT
125 ATCTTTCAACTATGGTCTTACTC-GTTAAAATCATAATGCCACAACGTCTATCAACTATGGTCTT
15228860 A
189 A
15228861 TTCGTTTCTT
Statistics
Matches: 159, Mismatches: 28, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
195 38 0.24
198 1 0.01
199 1 0.01
200 116 0.73
201 3 0.02
ACGTcount: A:0.27, C:0.20, G:0.16, T:0.37
Consensus pattern (195 bp):
ATGGTATTACTCATTAAAATCATGATGCCATAACATCTTTCAAATATGGTCTTACTCGTTAAAAT
CGTGATGCCATAACCTCTTTCAGCTATGGTCTTACTAGTTAAAATCAGGATGCCATAACATCTTT
CAACTATGGTCTTACTCGTTAAAATCATAATGCCACAACGTCTATCAACTATGGTCTTACTCGCA
Found at i:15229464 original size:17 final size:17
Alignment explanation
Indices: 15229442--15229478 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
15229432 TCAAGTCCTT
15229442 ACATTTTTA-TCACTTTA
1 ACATTTTTAGTC-CTTTA
15229459 ACA-TTTTAGTCCTTTA
1 ACATTTTTAGTCCTTTA
15229475 ACAT
1 ACAT
15229479 AAAATTAACA
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
16 13 0.72
17 5 0.28
ACGTcount: A:0.30, C:0.19, G:0.03, T:0.49
Consensus pattern (17 bp):
ACATTTTTAGTCCTTTA
Found at i:15232153 original size:26 final size:27
Alignment explanation
Indices: 15232035--15232211 Score: 184
Period size: 27 Copynumber: 6.6 Consensus size: 27
15232025 ATTCATGGGT
**
15232035 AAATGACCAAAATACCCTC-AAAGGATA
1 AAATGACTGAAATACCCTCGAAAGG-TA
*
15232062 AAATGACTGAAATACCC-CTAAAGGGTA
1 AAATGACTGAAATACCCTCGAAA-GGTA
* * *
15232089 AAATGATTGAAATACCCCCGAAGGGTA
1 AAATGACTGAAATACCCTCGAAAGGTA
*
15232116 AAATGACAGAAATACCCTCGAAAGGT-
1 AAATGACTGAAATACCCTCGAAAGGTA
* * *
15232142 AAATAATTGAAATACCCTCG-GAGGATA
1 AAATGACTGAAATACCCTCGAAAGG-TA
* *
15232169 AAATAATTGAAATACCC-CGAAAGGTA
1 AAATGACTGAAATACCCTCGAAAGGTA
15232195 AAATGACTGAAATACCC
1 AAATGACTGAAATACCC
15232212 CTATAGGGTA
Statistics
Matches: 128, Mismatches: 16, Indels: 13
0.82 0.10 0.08
Matches are distributed among these distances:
25 3 0.02
26 38 0.30
27 82 0.64
28 5 0.04
ACGTcount: A:0.46, C:0.19, G:0.17, T:0.18
Consensus pattern (27 bp):
AAATGACTGAAATACCCTCGAAAGGTA
Found at i:15232158 original size:80 final size:80
Alignment explanation
Indices: 15232031--15232230 Score: 223
Period size: 80 Copynumber: 2.5 Consensus size: 80
15232021 TGCGATTCAT
* *
15232031 GGGT-AAATGACCA-AAATACCCTCAAAGGATAAAATGACTGAAATACCC-CTAAAGGGTAAAAT
1 GGGTAAAATGA-CAGAAATACCCTCAAAGGATAAAATAACTGAAATACCCTC-AAAGGATAAAAT
*
15232093 GATTGAAATACCCCCGAA
64 AATTGAAATA-CCCCGAA
* **
15232111 GGGTAAAATGACAGAAATACCCTCGAAAGG-T-AAATAATTGAAATACCCTCGGAGGATAAAATA
1 GGGTAAAATGACAGAAATACCCTC-AAAGGATAAAATAACTGAAATACCCTCAAAGGATAAAATA
15232174 ATTGAAATACCCCGAA
65 ATTGAAATACCCCGAA
* * * *
15232190 AGGTAAAATGACTGAAATACCC-CTATAGGGTAAAATAACTG
1 GGGTAAAATGACAGAAATACCCTC-AAAGGATAAAATAACTG
15232231 TTATACCCCT
Statistics
Matches: 103, Mismatches: 11, Indels: 12
0.82 0.09 0.10
Matches are distributed among these distances:
78 5 0.05
79 28 0.27
80 47 0.46
81 18 0.17
82 5 0.05
ACGTcount: A:0.45, C:0.17, G:0.18, T:0.19
Consensus pattern (80 bp):
GGGTAAAATGACAGAAATACCCTCAAAGGATAAAATAACTGAAATACCCTCAAAGGATAAAATAA
TTGAAATACCCCGAA
Found at i:15232181 original size:53 final size:53
Alignment explanation
Indices: 15232044--15232211 Score: 221
Period size: 53 Copynumber: 3.2 Consensus size: 53
15232034 TAAATGACCA
* *
15232044 AAATACCCTCAAAGGATAAAATGACTGAAATACCCCTAAAGGGTAAAATGATTG
1 AAATACCCTCGAAGGATAAAATGACTGAAATACCCCGAAA-GGTAAAATGATTG
* * * *
15232098 AAATACCCCCGAAGGGTAAAATGACAGAAATACCCTCGAAAGGT-AAATAATTG
1 AAATACCCTCGAAGGATAAAATGACTGAAATACCC-CGAAAGGTAAAATGATTG
* * * *
15232151 AAATACCCTCGGAGGATAAAATAATTGAAATACCCCGAAAGGTAAAATGACTG
1 AAATACCCTCGAAGGATAAAATGACTGAAATACCCCGAAAGGTAAAATGATTG
15232204 AAATACCC
1 AAATACCC
15232212 CTATAGGGTA
Statistics
Matches: 98, Mismatches: 14, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
52 8 0.08
53 52 0.53
54 34 0.35
55 4 0.04
ACGTcount: A:0.46, C:0.18, G:0.17, T:0.18
Consensus pattern (53 bp):
AAATACCCTCGAAGGATAAAATGACTGAAATACCCCGAAAGGTAAAATGATTG
Found at i:15232224 original size:53 final size:52
Alignment explanation
Indices: 15232044--15232239 Score: 196
Period size: 53 Copynumber: 3.7 Consensus size: 52
15232034 TAAATGACCA
* * * *
15232044 AAATACCCTCAAAGGATAAAATGACTGAAATACCCCTAAAGGGTAAAATGATTG
1 AAATACCC-CTAAGGGTAAAATAACTGAAATACCCCGAAA-GGTAAAATGATTG
* * * *
15232098 AAATACCCCCGAAGGGTAAAATGACAGAAATACCCTCGAAAGGT-AAATAATTG
1 AAATA-CCCCTAAGGGTAAAATAACTGAAATACCC-CGAAAGGTAAAATGATTG
** * * *
15232151 AAATACCCTCGGAGGATAAAATAATTGAAATACCCCGAAAGGTAAAATGACTG
1 AAATACCC-CTAAGGGTAAAATAACTGAAATACCCCGAAAGGTAAAATGATTG
**
15232204 AAATACCCCTATAGGGTAAAATAACTGTTATACCCC
1 AAATACCCCTA-AGGGTAAAATAACTGAAATACCCC
15232240 TAGAAGATGA
Statistics
Matches: 119, Mismatches: 18, Indels: 11
0.80 0.12 0.07
Matches are distributed among these distances:
52 12 0.10
53 69 0.58
54 31 0.26
55 7 0.06
ACGTcount: A:0.44, C:0.19, G:0.17, T:0.20
Consensus pattern (52 bp):
AAATACCCCTAAGGGTAAAATAACTGAAATACCCCGAAAGGTAAAATGATTG
Found at i:15232230 original size:27 final size:26
Alignment explanation
Indices: 15232031--15232241 Score: 165
Period size: 27 Copynumber: 8.0 Consensus size: 26
15232021 TGCGATTCAT
** *
15232031 GGGT-AAATGACCAAAATACCCTCAAA
1 GGGTAAAATGACTGAAATACCC-CTAA
*
15232057 GGATAAAATGACTGAAATACCCCTAAA
1 GGGTAAAATGACTGAAATACCCCT-AA
* *
15232084 GGGTAAAATGATTGAAATACCCCCGAA
1 GGGTAAAATGACTGAAATA-CCCCTAA
* *
15232111 GGGTAAAATGACAGAAATACCCTCGAA
1 GGGTAAAATGACTGAAATACCC-CTAA
* * * **
15232138 AGGT-AAATAATTGAAATACCCTCGGA
1 GGGTAAAATGACTGAAATACCC-CTAA
* * * *
15232164 GGATAAAATAATTGAAATACCCCGAA
1 GGGTAAAATGACTGAAATACCCCTAA
*
15232190 AGGTAAAATGACTGAAATACCCCTATA
1 GGGTAAAATGACTGAAATACCCCTA-A
* **
15232217 GGGTAAAATAACTGTTATACCCCTA
1 GGGTAAAATGACTGAAATACCCCTA
15232242 GAAGATGAAA
Statistics
Matches: 153, Mismatches: 26, Indels: 11
0.81 0.14 0.06
Matches are distributed among these distances:
26 50 0.33
27 99 0.65
28 4 0.03
ACGTcount: A:0.44, C:0.18, G:0.18, T:0.20
Consensus pattern (26 bp):
GGGTAAAATGACTGAAATACCCCTAA
Found at i:15232253 original size:80 final size:80
Alignment explanation
Indices: 15232035--15232254 Score: 202
Period size: 80 Copynumber: 2.7 Consensus size: 80
15232025 ATTCATGGGT
* * *
15232035 AAATGACCA-AAATACCCTC-AAAGGATAAAATGACTGAAATACCC-CTA-AAGGGTAAAATGAT
1 AAATGA-CAGAAATACCCTCGAAAGG-T-AAATAACTGAAATACCCTC-AGAA-GATAAAATAAT
*
15232096 TGAAATACCCCCGAAGGGTA
61 TGAAATACCCCCGAAAGGTA
* * *
15232116 AAATGACAGAAATACCCTCGAAAGGTAAATAATTGAAATACCCTCGGAGGATAAAATAATTGAAA
1 AAATGACAGAAATACCCTCGAAAGGTAAATAACTGAAATACCCTCAGAAGATAAAATAATTGAAA
15232181 TA-CCCCGAAAGGTA
66 TACCCCCGAAAGGTA
* * * ** *
15232195 AAATGACTGAAATACCC-CTATAGGGTAAAATAACTGTTATACCC-CTAGAAGATGAAATAA
1 AAATGACAGAAATACCCTCGA-AAGGT-AAATAACTGAAATACCCTC-AGAAGATAAAATAA
15232255 CTGTTATAGC
Statistics
Matches: 116, Mismatches: 16, Indels: 15
0.79 0.11 0.10
Matches are distributed among these distances:
78 2 0.02
79 32 0.28
80 58 0.50
81 19 0.16
82 5 0.04
ACGTcount: A:0.46, C:0.18, G:0.17, T:0.20
Consensus pattern (80 bp):
AAATGACAGAAATACCCTCGAAAGGTAAATAACTGAAATACCCTCAGAAGATAAAATAATTGAAA
TACCCCCGAAAGGTA
Found at i:15242719 original size:51 final size:51
Alignment explanation
Indices: 15242642--15242744 Score: 197
Period size: 51 Copynumber: 2.0 Consensus size: 51
15242632 TAGTACCAAT
15242642 TGAGATTAAAAGTATTTGTGCCAAGCGAGACTTGATTATAAAATATTTTCA
1 TGAGATTAAAAGTATTTGTGCCAAGCGAGACTTGATTATAAAATATTTTCA
*
15242693 TGAGATTAAAAGTATTTGTGCTAAGCGAGACTTGATTATAAAATATTTTCA
1 TGAGATTAAAAGTATTTGTGCCAAGCGAGACTTGATTATAAAATATTTTCA
15242744 T
1 T
15242745 ACTCAAGTAT
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.37, C:0.09, G:0.17, T:0.37
Consensus pattern (51 bp):
TGAGATTAAAAGTATTTGTGCCAAGCGAGACTTGATTATAAAATATTTTCA
Found at i:15249102 original size:20 final size:20
Alignment explanation
Indices: 15249077--15249117 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
15249067 AGGAAAACAT
15249077 ATATTAA-AATAAAAATAAAA
1 ATATTAATAA-AAAAATAAAA
*
15249097 ATATTAATAAAAAACTAAAA
1 ATATTAATAAAAAAATAAAA
15249117 A
1 A
15249118 AAATCATATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 17 0.89
21 2 0.11
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.24
Consensus pattern (20 bp):
ATATTAATAAAAAAATAAAA
Found at i:15249458 original size:21 final size:20
Alignment explanation
Indices: 15249430--15249469 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
15249420 TTGTTATCTT
15249430 AAATTTAA-ACTAAATAATAA
1 AAATTTAAGA-TAAATAATAA
15249450 AAATGTTAAGATAAATAATA
1 AAAT-TTAAGATAAATAATA
15249470 TATTTTATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.22
21 13 0.72
22 1 0.06
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.30
Consensus pattern (20 bp):
AAATTTAAGATAAATAATAA
Found at i:15250034 original size:18 final size:18
Alignment explanation
Indices: 15250007--15250042 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
15249997 TAATTAATAA
*
15250007 CTTATATTTTTATGATTT
1 CTTATATTTTTATAATTT
*
15250025 CTTATTTTTTTATAATTT
1 CTTATATTTTTATAATTT
15250043 TCTAAAATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.22, C:0.06, G:0.03, T:0.69
Consensus pattern (18 bp):
CTTATATTTTTATAATTT
Found at i:15250434 original size:17 final size:18
Alignment explanation
Indices: 15250401--15250437 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
15250391 AGCAAAAATT
15250401 TATTTTAAAAATAAAAAA
1 TATTTTAAAAATAAAAAA
*
15250419 TATTTTAAAATTAAAAAA
1 TATTTTAAAAATAAAAAA
15250437 T
1 T
15250438 TAAAAAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
TATTTTAAAAATAAAAAA
Found at i:15250819 original size:19 final size:20
Alignment explanation
Indices: 15250782--15250818 Score: 51
Period size: 18 Copynumber: 1.9 Consensus size: 20
15250772 TTATAGTATT
*
15250782 TATATATTTTTAAAATTTTC
1 TATATATTTCTAAAATTTTC
15250802 TATA-ATTTCT-AAATTTT
1 TATATATTTCTAAAATTTT
15250819 TATTTTATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
18 7 0.44
19 5 0.31
20 4 0.25
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.59
Consensus pattern (20 bp):
TATATATTTCTAAAATTTTC
Found at i:15251286 original size:34 final size:34
Alignment explanation
Indices: 15251237--15251346 Score: 148
Period size: 34 Copynumber: 3.2 Consensus size: 34
15251227 AATAAATCAA
* *
15251237 GGTTTAGAGTTTTTTAAAAAAATTAATTAAATTTG
1 GGTTTAGAG-GTTTTAAAAAAATTAATTAAATTAG
* * *
15251272 GTTTTAGGGGTTTTAAATAAATTAATTAAATTAG
1 GGTTTAGAGGTTTTAAAAAAATTAATTAAATTAG
* *
15251306 GGTTTAGAGTTTTTAAGAAAATTAATTAAATTAG
1 GGTTTAGAGGTTTTAAAAAAATTAATTAAATTAG
15251340 GGTTTAG
1 GGTTTAG
15251347 TTTTTTTAAA
Statistics
Matches: 65, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
34 58 0.89
35 7 0.11
ACGTcount: A:0.38, C:0.00, G:0.18, T:0.44
Consensus pattern (34 bp):
GGTTTAGAGGTTTTAAAAAAATTAATTAAATTAG
Found at i:15251353 original size:34 final size:33
Alignment explanation
Indices: 15251237--15251362 Score: 144
Period size: 34 Copynumber: 3.7 Consensus size: 33
15251227 AATAAATCAA
* *
15251237 GGTTTAGAGTTTTTTAAAAAAATTAATTAAATTTG
1 GGTTTAG-GGTTTTT-AAAAAATTAATTAAATTAG
* *
15251272 GTTTTAGGGGTTTTAAATAAATTAATTAAATTAG
1 GGTTTAGGGTTTTTAAA-AAATTAATTAAATTAG
*
15251306 GGTTTAGAGTTTTTAAGAAAATTAATTAAATTAG
1 GGTTTAGGGTTTTTAA-AAAATTAATTAAATTAG
**
15251340 GGTTTAGTTTTTTTAAAATAATT
1 GGTTTAGGGTTTTTAAAA-AATT
15251363 TTGTGTTTAG
Statistics
Matches: 79, Mismatches: 9, Indels: 7
0.83 0.09 0.07
Matches are distributed among these distances:
33 5 0.06
34 67 0.85
35 7 0.09
ACGTcount: A:0.38, C:0.00, G:0.16, T:0.46
Consensus pattern (33 bp):
GGTTTAGGGTTTTTAAAAAATTAATTAAATTAG
Found at i:15251820 original size:125 final size:125
Alignment explanation
Indices: 15251447--15251969 Score: 762
Period size: 126 Copynumber: 4.2 Consensus size: 125
15251437 GATTTTGTAT
* * * * *
15251447 TTTTTTCTACAGTAGTTTCAGAAAAAATAATTTTGAGAAGACAATTCTGAAAAGATAATGTCAAA
1 TTTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACAGTTCTGAAAAAATAGTGTCAAA
* *
15251512 AACGCTTCAAGTAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGC
66 AACGCTTCAAGCAGGATGCACTATCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGC
*
15251572 TCTTTTTCTATAGTAGTTCCTGAAAAAATAATTTTGAGAAGACAGTTCTGAAAAAATAGTGTCAA
1 T-TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACAGTTCTGAAAAAATAGTGTCAA
* * * * * * *
15251637 AAACGCTTCAAGTAAGATGTATTGTCAACAAAATTATTGAAAAAAGCTCCCACGTGGACGC
65 AAACGCTTCAAGCAGGATGCACTATCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGC
** *
15251698 TCTTTTTCTGTAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTG-AAAAATAGTGTCAA
1 T-TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACAGTTCTGAAAAAATAGTGTCAA
* *
15251762 AAATGCTTCAAGCAGGATGCACTATCAGCAAAATTACTGAAAAAAGCTCCCACATGGACGC
65 AAACGCTTCAAGCAGGATGCACTATCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGC
* *
15251823 TTCTTTTCTACAGTAGTTCCTAAAAAAATAA-TTTAACGAAGACAGTTCTGAAAAAATAGTGTCA
1 TT-TTTTCTACAGTAGTTCCTGAAAAAATAATTTTGA-GAAGACAGTTCTGAAAAAATAGTGTCA
* * * *
15251887 AAAATGCTTCAAGCAGGATGCACTATCAGCAAAATTACTGAAAAAAGCTTCCACGTTGACAC
64 AAAACGCTTCAAGCAGGATGCACTATCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGC
15251949 TTTTTTCTACAGTAGTTCCTG
1 TTTTTTCTACAGTAGTTCCTG
15251970 CTTGGCCTTA
Statistics
Matches: 362, Mismatches: 32, Indels: 8
0.90 0.08 0.02
Matches are distributed among these distances:
124 5 0.01
125 123 0.34
126 234 0.65
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.28
Consensus pattern (125 bp):
TTTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACAGTTCTGAAAAAATAGTGTCAAA
AACGCTTCAAGCAGGATGCACTATCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGC
Found at i:15251898 original size:251 final size:251
Alignment explanation
Indices: 15251447--15251969 Score: 773
Period size: 251 Copynumber: 2.1 Consensus size: 251
15251437 GATTTTGTAT
* *
15251447 TTTTTTCTACAGTAGTTTCAGAAAAAATAATTTTGAGAAGACAATTCTGAAAAGATAATGTCAAA
1 TTTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACAATTCTGAAAAGATAATGTCAAA
* * *
15251512 AACGCTTCAAGTAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTCTTT
66 AACGCTTCAAGCAGGATGCACTATCAGCAAAATTACTGAAAAAAGCTCCCACATGGACGCTCTTT
* * *
15251577 TTCTATAGTAGTTCCTGAAAAAATAATTTTGAGAAGACAGTTCTGAAAAAATAGTGTCAAAAACG
131 TTCTACAGTAGTTCCTAAAAAAATAATTTTAAGAAGACAGTTCTGAAAAAATAGTGTCAAAAACG
* * * * * *
15251642 CTTCAAGTAAGATGTATTGTCAACAAAATTATTGAAAAAAGCTCCCACGTGGACGC
196 CTTCAAGCAAGATGCACTATCAACAAAATTACTGAAAAAAGCTCCCACGTGGACAC
** ** *
15251698 TCTTTTTCTGTAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAA-ATAGTGTCAA
1 T-TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACAATTCTGAAAAGATAATGTCAA
*
15251762 AAATGCTTCAAGCAGGATGCACTATCAGCAAAATTACTGAAAAAAGCTCCCACATGGACGCT-TC
65 AAACGCTTCAAGCAGGATGCACTATCAGCAAAATTACTGAAAAAAGCTCCCACATGGACGCTCT-
15251826 TTTTCTACAGTAGTTCCTAAAAAAATAA-TTTAACGAAGACAGTTCTGAAAAAATAGTGTCAAAA
129 TTTTCTACAGTAGTTCCTAAAAAAATAATTTTAA-GAAGACAGTTCTGAAAAAATAGTGTCAAAA
* * * * *
15251890 ATGCTTCAAGCAGGATGCACTATCAGCAAAATTACTGAAAAAAGCTTCCACGTTGACAC
193 ACGCTTCAAGCAAGATGCACTATCAACAAAATTACTGAAAAAAGCTCCCACGTGGACAC
15251949 TTTTTTCTACAGTAGTTCCTG
1 TTTTTTCTACAGTAGTTCCTG
15251970 CTTGGCCTTA
Statistics
Matches: 242, Mismatches: 27, Indels: 7
0.88 0.10 0.03
Matches are distributed among these distances:
250 23 0.10
251 173 0.71
252 46 0.19
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.28
Consensus pattern (251 bp):
TTTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACAATTCTGAAAAGATAATGTCAAA
AACGCTTCAAGCAGGATGCACTATCAGCAAAATTACTGAAAAAAGCTCCCACATGGACGCTCTTT
TTCTACAGTAGTTCCTAAAAAAATAATTTTAAGAAGACAGTTCTGAAAAAATAGTGTCAAAAACG
CTTCAAGCAAGATGCACTATCAACAAAATTACTGAAAAAAGCTCCCACGTGGACAC
Found at i:15254318 original size:13 final size:13
Alignment explanation
Indices: 15254300--15254332 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
15254290 TTCTTTATTA
15254300 CTTTTGAGAAGTG
1 CTTTTGAGAAGTG
15254313 CTTTTGAGAAGTG
1 CTTTTGAGAAGTG
15254326 CTTTTGA
1 CTTTTGA
15254333 AGAATAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.21, C:0.09, G:0.27, T:0.42
Consensus pattern (13 bp):
CTTTTGAGAAGTG
Found at i:15256467 original size:72 final size:72
Alignment explanation
Indices: 15256346--15256516 Score: 240
Period size: 72 Copynumber: 2.4 Consensus size: 72
15256336 AAAATAATAT
* ** *
15256346 ATAAACAACTATTGATAAAACTA-ATTTAGTATAAATAAGTAGAACATAAATTCAATATCCAAAG
1 ATAAACAACTATTAATAAAACTAGATTTAACATAAATAAGTAGAACATAAATTCAATATCCAAAA
15256410 ACCAAAC
66 ACCAAAC
* *
15256417 ATAAGCAACTATTAATAAAACTAGA-TTACACATAAATAAGTAGAATATAAATTCAATATCCAAA
1 ATAAACAACTATTAATAAAACTAGATTTA-ACATAAATAAGTAGAACATAAATTCAATATCCAAA
15256481 AACCAAAC
65 AACCAAAC
* *
15256489 ATAAATAACTATTAACAAAACTAG-TTTA
1 ATAAACAACTATTAATAAAACTAGATTTA
15256517 GCATTGTTGT
Statistics
Matches: 88, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
71 24 0.27
72 64 0.73
ACGTcount: A:0.54, C:0.14, G:0.06, T:0.26
Consensus pattern (72 bp):
ATAAACAACTATTAATAAAACTAGATTTAACATAAATAAGTAGAACATAAATTCAATATCCAAAA
ACCAAAC
Found at i:15256962 original size:18 final size:18
Alignment explanation
Indices: 15256941--15256988 Score: 78
Period size: 18 Copynumber: 2.7 Consensus size: 18
15256931 CCCATCAATT
*
15256941 TGAACATCATTTGAAATG
1 TGAACATCATTTAAAATG
*
15256959 TGAACATAATTTAAAATG
1 TGAACATCATTTAAAATG
15256977 TGAACATCATTT
1 TGAACATCATTT
15256989 CTTATATTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.42, C:0.10, G:0.12, T:0.35
Consensus pattern (18 bp):
TGAACATCATTTAAAATG
Found at i:15268249 original size:50 final size:50
Alignment explanation
Indices: 15268081--15268268 Score: 236
Period size: 51 Copynumber: 3.7 Consensus size: 50
15268071 TATCGATGAA
* * *
15268081 CACGTGTGTAGTACAATGTGAAGGCTACTACGTGTATCGATAAATA-ATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCG-TAAA-ACTTGGT
* * *
15268132 CACATGTGTAGTACTAAGTGAAGGCTACTATGTGTACCG-AAAAGCTTTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGTAAAA-C-TTGGT
* **
15268183 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTAAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGTAAAACTTGGT
*
15268233 CATGTGTGTAGTACTATGTGAAGGCTACTACGTGTA
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTA
15268269 TCGAATGATA
Statistics
Matches: 119, Mismatches: 14, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
48 1 0.01
49 3 0.03
50 37 0.31
51 74 0.62
52 4 0.03
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30
Consensus pattern (50 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGTAAAACTTGGT
Found at i:15271503 original size:12 final size:11
Alignment explanation
Indices: 15271488--15271517 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
15271478 AAAAAATAAA
15271488 AAAAAGTATTTT
1 AAAAA-TATTTT
15271500 AAAAATATTTT
1 AAAAATATTTT
15271511 AAAAATA
1 AAAAATA
15271518 AAAAAAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 13 0.72
12 5 0.28
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:15271539 original size:31 final size:32
Alignment explanation
Indices: 15271458--15271524 Score: 95
Period size: 29 Copynumber: 2.2 Consensus size: 32
15271448 AATAAACACC
* *
15271458 AAAAAATTATTTTAAAAATA---AAAAAATAA
1 AAAAAAGTATTTTAAAAATATTTTAAAAATAA
15271487 AAAAAAGTATTTTAAAAATATTTTAAAAATAA
1 AAAAAAGTATTTTAAAAATATTTTAAAAATAA
15271519 AAAAAA
1 AAAAAA
15271525 TTTTTATTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
29 19 0.58
32 14 0.42
ACGTcount: A:0.70, C:0.00, G:0.01, T:0.28
Consensus pattern (32 bp):
AAAAAAGTATTTTAAAAATATTTTAAAAATAA
Found at i:15272284 original size:55 final size:59
Alignment explanation
Indices: 15272173--15272283 Score: 140
Period size: 58 Copynumber: 1.9 Consensus size: 59
15272163 GAACTTCTAA
*
15272173 TTTATTAAATAGAACAAAATATAAAAATAATTTACTATTAAAATATTCAAAAAAAATTAT
1 TTTATTAAATAGAACAAAATATAAAAATAATTTACTATCAAAATATT-AAAAAAAATTAT
* * *
15272233 TTTATTAAAT-GAA-ACAATATAAAAATAGTTT-GTA-CAAATATATTAAAAAAA
1 TTTATTAAATAGAACAAAATATAAAAATAATTTACTATCAAA-ATATTAAAAAAA
15272284 TCAATGTATG
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
56 10 0.22
57 7 0.15
58 16 0.35
59 3 0.07
60 10 0.22
ACGTcount: A:0.58, C:0.05, G:0.04, T:0.34
Consensus pattern (59 bp):
TTTATTAAATAGAACAAAATATAAAAATAATTTACTATCAAAATATTAAAAAAAATTAT
Found at i:15303004 original size:22 final size:20
Alignment explanation
Indices: 15302965--15303016 Score: 61
Period size: 22 Copynumber: 2.5 Consensus size: 20
15302955 TGCAAAGTTG
15302965 ATAATAATTAATATATATT-
1 ATAATAATTAATATATATTA
15302984 ATAATAGATATAATTATATATTA
1 ATAATA-AT-TAA-TATATATTA
*
15303007 ATAATTATTA
1 ATAATAATTA
15303017 TCTTATTTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
19 6 0.21
20 2 0.07
21 5 0.18
22 10 0.36
23 5 0.18
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (20 bp):
ATAATAATTAATATATATTA
Found at i:15309566 original size:25 final size:25
Alignment explanation
Indices: 15309512--15309595 Score: 87
Period size: 25 Copynumber: 3.4 Consensus size: 25
15309502 GGTTACTGAT
* * **
15309512 TTCAGCTCGTATGAGCTTACCAATA
1 TTCAGCTCGCATAAGCTTACCGTTA
*
15309537 TTCAGCTCGCATTAGCTTACCGTTA
1 TTCAGCTCGCATAAGCTTACCGTTA
* * * *
15309562 ATCAGCTCGGAGAAGGTTACCGTTA
1 TTCAGCTCGCATAAGCTTACCGTTA
15309587 TTCAGCTCG
1 TTCAGCTCG
15309596 GAAGAGCTTA
Statistics
Matches: 49, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 49 1.00
ACGTcount: A:0.24, C:0.25, G:0.20, T:0.31
Consensus pattern (25 bp):
TTCAGCTCGCATAAGCTTACCGTTA
Found at i:15309596 original size:25 final size:25
Alignment explanation
Indices: 15309512--15309610 Score: 85
Period size: 25 Copynumber: 4.0 Consensus size: 25
15309502 GGTTACTGAT
* **
15309512 TTCAGCTCGTATG-AGCTTACCAATA
1 TTCAGCTCGGA-GAAGCTTACCGTTA
* **
15309537 TTCAGCTCGCATTAGCTTACCGTTA
1 TTCAGCTCGGAGAAGCTTACCGTTA
* *
15309562 ATCAGCTCGGAGAAGGTTACCGTTA
1 TTCAGCTCGGAGAAGCTTACCGTTA
*
15309587 TTCAGCTCGGA-AGAGCTTATCGTT
1 TTCAGCTCGGAGA-AGCTTACCGTT
15309611 TACTGCTCGT
Statistics
Matches: 60, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
24 1 0.02
25 59 0.98
ACGTcount: A:0.24, C:0.23, G:0.21, T:0.31
Consensus pattern (25 bp):
TTCAGCTCGGAGAAGCTTACCGTTA
Found at i:15315051 original size:22 final size:24
Alignment explanation
Indices: 15315009--15315053 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
15314999 TCACTTATCT
*
15315009 TTTCTTCCATTACATTCTCCAATA
1 TTTCTTCCAGTACATTCTCCAATA
15315033 TTTCTTCCAGT-C-TTCTCCAAT
1 TTTCTTCCAGTACATTCTCCAAT
15315054 GGCTTGGCTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 9 0.45
23 1 0.05
24 10 0.50
ACGTcount: A:0.20, C:0.31, G:0.02, T:0.47
Consensus pattern (24 bp):
TTTCTTCCAGTACATTCTCCAATA
Found at i:15316245 original size:24 final size:24
Alignment explanation
Indices: 15316183--15316247 Score: 85
Period size: 24 Copynumber: 2.7 Consensus size: 24
15316173 CCATTTTCTG
15316183 ATGCTGCTGAGGAGCCCACTCAAA
1 ATGCTGCTGAGGAGCCCACTCAAA
* * *
15316207 ATGCTACTGAGGAGCCTACTCAAC
1 ATGCTGCTGAGGAGCCCACTCAAA
* *
15316231 ATGCTGCTAAAGAGCCC
1 ATGCTGCTGAGGAGCCC
15316248 GAAAAGGTCA
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.29, C:0.29, G:0.23, T:0.18
Consensus pattern (24 bp):
ATGCTGCTGAGGAGCCCACTCAAA
Found at i:15320169 original size:28 final size:30
Alignment explanation
Indices: 15320129--15320198 Score: 108
Period size: 28 Copynumber: 2.4 Consensus size: 30
15320119 CTATCGAATT
*
15320129 ATGAAAAGGGATGGTGACGA-CATC-AACA
1 ATGAAAAGGGATGATGACGACCATCGAACA
*
15320157 ATGAAAAAGGATGATGACGACCATCGAACA
1 ATGAAAAGGGATGATGACGACCATCGAACA
15320187 ATGAAAAGGGAT
1 ATGAAAAGGGAT
15320199 AGCTTCGGGA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
28 18 0.49
29 4 0.11
30 15 0.41
ACGTcount: A:0.46, C:0.13, G:0.27, T:0.14
Consensus pattern (30 bp):
ATGAAAAGGGATGATGACGACCATCGAACA
Found at i:15320269 original size:70 final size:69
Alignment explanation
Indices: 15320136--15320276 Score: 178
Period size: 70 Copynumber: 2.0 Consensus size: 69
15320126 ATTATGAAAA
* * *
15320136 GGGATGGTGACGACATCAACAATGAAAAAGGATGATGACGACCATCGAACAATGAAAAGGGATAG
1 GGGATGGTGACGACATCAACAATGAAAAAGGATGATGACAACCATCAAACAATGAAAAAGGATAG
15320201 CTTC
66 CTTC
* * * *
15320205 GGGATGGTGATGACCATCAATAAT-AAAAAGGGAT-AGTGACAATCATCAAATAATGAAAAAGGA
1 GGGATGGTGACGA-CATCAACAATGAAAAA-GGATGA-TGACAACCATCAAACAATGAAAAAGGA
15320268 TAGCTTC
63 TAGCTTC
15320275 GG
1 GG
15320277 CTATTGAGCT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
69 18 0.29
70 44 0.71
ACGTcount: A:0.42, C:0.13, G:0.26, T:0.18
Consensus pattern (69 bp):
GGGATGGTGACGACATCAACAATGAAAAAGGATGATGACAACCATCAAACAATGAAAAAGGATAG
CTTC
Found at i:15320291 original size:30 final size:30
Alignment explanation
Indices: 15320257--15320323 Score: 98
Period size: 30 Copynumber: 2.2 Consensus size: 30
15320247 TCATCAAATA
*
15320257 ATGAAAAAGGATAGCTTCGGCTATTGAGCT
1 ATGAAAAAGGATAGCTTCGGCTATCGAGCT
* * *
15320287 ATGAATAGGGATAGCTTTGGCTATCGAGCT
1 ATGAAAAAGGATAGCTTCGGCTATCGAGCT
15320317 ATGAAAA
1 ATGAAAA
15320324 GGGTTGGGAC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.34, C:0.12, G:0.27, T:0.27
Consensus pattern (30 bp):
ATGAAAAAGGATAGCTTCGGCTATCGAGCT
Found at i:15334841 original size:30 final size:29
Alignment explanation
Indices: 15334805--15334928 Score: 115
Period size: 29 Copynumber: 4.2 Consensus size: 29
15334795 GTGTGCTAAA
* *
15334805 CGATGGTCGAAACCATCCATTTTCTTTAAT
1 CGATGGTCGAAACCATCCCTTTTC-ATAAT
** *
15334835 CGATGGTCGTCACCATCCCTTTTCATATT
1 CGATGGTCGAAACCATCCCTTTTCATAAT
* * *
15334864 CAATGGTCGAAGCCATCCCTTTTCATATT
1 CGATGGTCGAAACCATCCCTTTTCATAAT
* * *
15334893 CAATGGTCGACACCAT-CCTCTTTCTTTAAT
1 CGATGGTCGAAACCATCCCT-TTTC-ATAAT
15334923 CGATGG
1 CGATGG
15334929 GTGTCGATAC
Statistics
Matches: 78, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
28 3 0.04
29 46 0.59
30 29 0.37
ACGTcount: A:0.23, C:0.27, G:0.15, T:0.35
Consensus pattern (29 bp):
CGATGGTCGAAACCATCCCTTTTCATAAT
Found at i:15334916 original size:29 final size:29
Alignment explanation
Indices: 15334807--15334915 Score: 130
Period size: 29 Copynumber: 3.7 Consensus size: 29
15334797 GTGCTAAACG
* * * * *
15334807 ATGGTCGAAACCATCCATTTTCTTTAATCG
1 ATGGTCGACACCATCCCTTTTC-ATATTCA
*
15334837 ATGGTCGTCACCATCCCTTTTCATATTCA
1 ATGGTCGACACCATCCCTTTTCATATTCA
15334866 ATGGTCGA-AGCCATCCCTTTTCATATTCA
1 ATGGTCGACA-CCATCCCTTTTCATATTCA
15334895 ATGGTCGACACCATCCTCTTT
1 ATGGTCGACACCATCC-CTTT
15334916 CTTTAATCGA
Statistics
Matches: 69, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
28 1 0.01
29 44 0.64
30 24 0.35
ACGTcount: A:0.23, C:0.28, G:0.13, T:0.36
Consensus pattern (29 bp):
ATGGTCGACACCATCCCTTTTCATATTCA
Found at i:15340256 original size:51 final size:51
Alignment explanation
Indices: 15340083--15340417 Score: 349
Period size: 51 Copynumber: 6.6 Consensus size: 51
15340073 TTCGATACAT
* *
15340083 GTAGTAGCCTTCACATAGTACTACACACGTGATCAAG-GTTTACGGTTCAC
1 GTAGTAGCCTTCACATAGTACTACACACGTGACCAAGCTTTTACGGTTCAC
* *
15340133 GTAGTAGCCTTCATATAGTACTACACACGTGATCAAG-TTTTACGGTTCAC
1 GTAGTAGCCTTCACATAGTACTACACACGTGACCAAGCTTTTACGGTTCAC
* * * *
15340183 GTAGTAGCCTTCACAGAATACTACACACGTGACCAAAGCTTTTA-AGTACAC
1 GTAGTAGCCTTCACATAGTACTACACACGTGACC-AAGCTTTTACGGTTCAC
* * * * * * *
15340234 ATAGTACCCTTCACTTAGTACTACACATGTGACC-ATCATTTATCGATTCAC
1 GTAGTAGCCTTCACATAGTACTACACACGTGACCAAGCTTTTA-CGGTTCAC
* * * *
15340285 GTAGTAGCCTTCACACAGTACTACACATGTGACCAAAGCTTCT-CGGTACAC
1 GTAGTAGCCTTCACATAGTACTACACACGTGACC-AAGCTTTTACGGTTCAC
* * * * * * *
15340336 ATTGTAGCCTTCACTTAGTACTACACATGTGACC-ATCATTTATCGATTCAC
1 GTAGTAGCCTTCACATAGTACTACACACGTGACCAAGCTTTTA-CGGTTCAC
*
15340387 GTAGTAGCCTTCACACAGTACTACACACGTG
1 GTAGTAGCCTTCACATAGTACTACACACGTG
15340418 TTCATCGATA
Statistics
Matches: 235, Mismatches: 42, Indels: 15
0.80 0.14 0.05
Matches are distributed among these distances:
49 10 0.04
50 78 0.33
51 138 0.59
52 5 0.02
53 4 0.02
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.29
Consensus pattern (51 bp):
GTAGTAGCCTTCACATAGTACTACACACGTGACCAAGCTTTTACGGTTCAC
Found at i:15340307 original size:102 final size:102
Alignment explanation
Indices: 15340074--15340417 Score: 453
Period size: 102 Copynumber: 3.4 Consensus size: 102
15340064 CTTTTATCAT
* * * * * * *
15340074 TCGATACATGTAGTAGCCTTCACATAGTACTACACACGTGATC-AAG-GTTTACGGTTCACGTAG
1 TCGATTCACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTTTA-GGTACACATAG
* * ***
15340137 TAGCCTTCA-TATAGTACTACACACGTGATCAAGTTTTA
65 TAGCCTTCACT-TAGTACTACACATGTGACCATCATTTA
* * * *
15340175 -CGGTTCACGTAGTAGCCTTCACAGAATACTACACACGTGACCAAAGCTTTTAAGTACACATAGT
1 TCGATTCACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTTTAGGTACACATAGT
*
15340239 ACCCTTCACTTAGTACTACACATGTGACCATCATTTA
66 AGCCTTCACTTAGTACTACACATGTGACCATCATTTA
* * * *
15340276 TCGATTCACGTAGTAGCCTTCACACAGTACTACACATGTGACCAAAGCTTCTCGGTACACATTGT
1 TCGATTCACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTTTAGGTACACATAGT
15340341 AGCCTTCACTTAGTACTACACATGTGACCATCATTTA
66 AGCCTTCACTTAGTACTACACATGTGACCATCATTTA
15340378 TCGATTCACGTAGTAGCCTTCACACAGTACTACACACGTG
1 TCGATTCACGTAGTAGCCTTCACACAGTACTACACACGTG
15340418 TTCATCGATA
Statistics
Matches: 213, Mismatches: 26, Indels: 7
0.87 0.11 0.03
Matches are distributed among these distances:
100 36 0.17
101 41 0.19
102 136 0.64
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.29
Consensus pattern (102 bp):
TCGATTCACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTTTAGGTACACATAGT
AGCCTTCACTTAGTACTACACATGTGACCATCATTTA
Found at i:15343519 original size:41 final size:42
Alignment explanation
Indices: 15343440--15343520 Score: 103
Period size: 41 Copynumber: 2.0 Consensus size: 42
15343430 TGTTTTCTCG
**
15343440 ATGCCATAGTCCAACTATGGTCTTACACATATTTACATATCA
1 ATGCCATAGTCCAACTATGGTCTTACACATATGCACATATCA
* *
15343482 ATGCCATAG-CCCAGTATGGTCTTACACAGTA-GCACATAT
1 ATGCCATAGTCCAACTATGGTCTTACACA-TATGCACATAT
15343521 TACACTGATG
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
41 23 0.68
42 11 0.32
ACGTcount: A:0.32, C:0.25, G:0.14, T:0.30
Consensus pattern (42 bp):
ATGCCATAGTCCAACTATGGTCTTACACATATGCACATATCA
Found at i:15350703 original size:24 final size:24
Alignment explanation
Indices: 15350675--15350726 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
15350665 TTAGTAAGTC
* *
15350675 AAATAAATTATGCTAATAAATGCT
1 AAATAAATTATACTAATAAATACT
* *
15350699 AAATATATTATACTAATACATACT
1 AAATAAATTATACTAATAAATACT
15350723 AAAT
1 AAAT
15350727 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.52, C:0.10, G:0.04, T:0.35
Consensus pattern (24 bp):
AAATAAATTATACTAATAAATACT
Found at i:15364637 original size:50 final size:50
Alignment explanation
Indices: 15364513--15364855 Score: 413
Period size: 50 Copynumber: 6.9 Consensus size: 50
15364503 AATAATAACA
* * * ** * * *
15364513 TGCCAAAGCCATGTCCTAGACATGATCTTACATGGGATGTTTCCTGTAC--
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCT-CGG
* * * ** *
15364562 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * * *** *
15364612 TGCCCATGCCATGTCTCAGACATGGTCTTATGGGGGACCTCGCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
15364662 TGCCAACGCCATGTCCCAGACATGGTATTACATGAGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
15364712 TGCCAACGCCATGTCCCATACATGGTCTTAAATGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
15364762 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
15364812 TGCCAA-GCTATGTCCTAGACATGGTCTTACATGGGACCTCTCAT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT
15364856 AATTTAAATA
Statistics
Matches: 254, Mismatches: 38, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
48 1 0.00
49 73 0.29
50 180 0.71
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.27
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:15365373 original size:8 final size:8
Alignment explanation
Indices: 15365360--15365387 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
15365350 TTTCGTTTTA
15365360 TTCTACAT
1 TTCTACAT
15365368 TTCTACAT
1 TTCTACAT
15365376 TTCTACAT
1 TTCTACAT
15365384 TTCT
1 TTCT
15365388 CAACTCATGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.21, C:0.25, G:0.00, T:0.54
Consensus pattern (8 bp):
TTCTACAT
Found at i:15372915 original size:18 final size:17
Alignment explanation
Indices: 15372892--15372925 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
15372882 CAAGAAGTAG
15372892 TTTTCTAGTTGATCTAAA
1 TTTTCTAGTTGA-CTAAA
*
15372910 TTTTCTTGTTGACTAA
1 TTTTCTAGTTGACTAA
15372926 GAAATATAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.24, C:0.12, G:0.12, T:0.53
Consensus pattern (17 bp):
TTTTCTAGTTGACTAAA
Found at i:15375230 original size:15 final size:15
Alignment explanation
Indices: 15375210--15375240 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
15375200 GTACAGTGCA
*
15375210 TTTATTTATACTAAG
1 TTTATTTACACTAAG
15375225 TTTATTTACACTAAG
1 TTTATTTACACTAAG
15375240 T
1 T
15375241 GTATAAACAA
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:0.32, C:0.10, G:0.06, T:0.52
Consensus pattern (15 bp):
TTTATTTACACTAAG
Found at i:15377302 original size:14 final size:15
Alignment explanation
Indices: 15377275--15377310 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
15377265 CTACCATTTC
15377275 ACTATTTATGTTGTT
1 ACTATTTATGTTGTT
15377290 ACTATTT-TGTTGTT
1 ACTATTTATGTTGTT
*
15377304 ATTATTT
1 ACTATTT
15377311 GGATATAGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 13 0.65
15 7 0.35
ACGTcount: A:0.19, C:0.06, G:0.11, T:0.64
Consensus pattern (15 bp):
ACTATTTATGTTGTT
Found at i:15377434 original size:18 final size:19
Alignment explanation
Indices: 15377413--15377455 Score: 70
Period size: 18 Copynumber: 2.3 Consensus size: 19
15377403 GATACATATT
15377413 TTTTTAATTTATTTTCA-A
1 TTTTTAATTTATTTTCATA
*
15377431 TTTTTAATTTATTTTGATA
1 TTTTTAATTTATTTTCATA
15377450 TTTTTA
1 TTTTTA
15377456 GTATTTTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 16 0.70
19 7 0.30
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (19 bp):
TTTTTAATTTATTTTCATA
Found at i:15381634 original size:32 final size:32
Alignment explanation
Indices: 15381593--15381660 Score: 136
Period size: 32 Copynumber: 2.1 Consensus size: 32
15381583 TTTGATTCAA
15381593 TATCCATACCTACGTGAATAATTTAGAATTTC
1 TATCCATACCTACGTGAATAATTTAGAATTTC
15381625 TATCCATACCTACGTGAATAATTTAGAATTTC
1 TATCCATACCTACGTGAATAATTTAGAATTTC
15381657 TATC
1 TATC
15381661 TAGTAGTCTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.34, C:0.19, G:0.09, T:0.38
Consensus pattern (32 bp):
TATCCATACCTACGTGAATAATTTAGAATTTC
Found at i:15394769 original size:21 final size:21
Alignment explanation
Indices: 15394745--15394784 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
15394735 TTCCATTTCA
15394745 TTTTCTTACACATTTCATTCC
1 TTTTCTTACACATTTCATTCC
* *
15394766 TTTTCTTACCCGTTTCATT
1 TTTTCTTACACATTTCATT
15394785 TGCATGGTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.15, C:0.28, G:0.03, T:0.55
Consensus pattern (21 bp):
TTTTCTTACACATTTCATTCC
Found at i:15402401 original size:27 final size:27
Alignment explanation
Indices: 15401802--15402399 Score: 678
Period size: 27 Copynumber: 22.1 Consensus size: 27
15401792 AGTGGTCGAT
* *
15401802 AAATGATCGAAATACCCTCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
** * *
15401829 AAATGACCGAAATACCATCGTAGGATA
1 AAATGACCGAAATACCCCCATAGGGTA
** *
15401856 AAATGACCGAAATACCCCTGTAGCGTA
1 AAATGACCGAAATACCCCCATAGGGTA
** **
15401883 AAATGACTAAAATACCCCTGTAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
*
15401910 AAATGACCGAAATA-CCCCATAAGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* *
15401936 AAATGACC-AAGATACCCCAATAGGGAA
1 AAATGACCGAA-ATACCCCCATAGGGTA
* * *
15401963 AAATGACCGAAATAGCCCCAGAGAGTA
1 AAATGACCGAAATACCCCCATAGGGTA
** *
15401990 AAATGACCGAAATACTGCCATAGGATA
1 AAATGACCGAAATACCCCCATAGGGTA
* *
15402017 AAAAGACTGAAATACCCCCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* * *
15402044 AAATAACCAAAATACCCCTATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
*
15402071 AAATGATCGAAATACCCCCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* * *
15402098 GAATGATCGAAATACCCCCATAGGGTT
1 AAATGACCGAAATACCCCCATAGGGTA
* *
15402125 AAATGATCGAAATACCCCTCATAAGGTA
1 AAATGACCGAAATACCCC-CATAGGGTA
**
15402153 AAATGACCGAAATACCCTAATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* *
15402180 GAATGATCGAAATACCCCCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
** *
15402207 AAATGACTAAAATACCCCCATAAGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* * *
15402234 GAATGACCAAAATACCCCCATAAGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
*
15402261 AAATGACCGAAATACCCCCATAAGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* **
15402288 AAATGACCGAAAGACCCCCATATAGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* * *
15402315 AAGTAACTGAAATACCCCCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* *
15402342 GAATGACCGAAATACCCCTATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* *
15402369 AAATAATCGAAATACCCCCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
15402396 AAAT
1 AAAT
15402400 AACTGTTATA
Statistics
Matches: 482, Mismatches: 85, Indels: 8
0.84 0.15 0.01
Matches are distributed among these distances:
25 2 0.00
26 20 0.04
27 435 0.90
28 25 0.05
ACGTcount: A:0.43, C:0.22, G:0.17, T:0.18
Consensus pattern (27 bp):
AAATGACCGAAATACCCCCATAGGGTA
Found at i:15405244 original size:19 final size:19
Alignment explanation
Indices: 15405220--15405256 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
15405210 CCCCTTCATC
15405220 TTCTT-AAACCTCTCTAAAT
1 TTCTTAAAACCTCT-TAAAT
15405239 TTCTTAAAACCTCTTAAA
1 TTCTTAAAACCTCTTAAA
15405257 CCTTAAAACT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.35, C:0.24, G:0.00, T:0.41
Consensus pattern (19 bp):
TTCTTAAAACCTCTTAAAT
Found at i:15406563 original size:12 final size:12
Alignment explanation
Indices: 15406548--15406577 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
15406538 ATTAGGAGAT
15406548 GGATAAGGATGA
1 GGATAAGGATGA
15406560 GGATAAGGATGA
1 GGATAAGGATGA
*
15406572 GTATAA
1 GGATAA
15406578 CTTAATTTTA
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:0.43, C:0.00, G:0.37, T:0.20
Consensus pattern (12 bp):
GGATAAGGATGA
Found at i:15424236 original size:16 final size:17
Alignment explanation
Indices: 15424215--15424247 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
15424205 TTGTTTTGTT
15424215 ATATGTTCTG-TATATG
1 ATATGTTCTGATATATG
*
15424231 ATATGTTTTGATATATG
1 ATATGTTCTGATATATG
15424248 CTAGAATATG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.27, C:0.03, G:0.18, T:0.52
Consensus pattern (17 bp):
ATATGTTCTGATATATG
Found at i:15446728 original size:31 final size:31
Alignment explanation
Indices: 15446665--15446728 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
15446655 TTTTTCAGAA
* *
15446665 TTTGAGCAAACTTTCCTTTGCTCTTTATTCT
1 TTTGAACAAACTTTCCTTTGCTCTTTAATCT
* *
15446696 TTTGAACAAACTTTCCTTTGTTTTTTAATCT
1 TTTGAACAAACTTTCCTTTGCTCTTTAATCT
15446727 TT
1 TT
15446729 CTTCTTTTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.19, C:0.19, G:0.08, T:0.55
Consensus pattern (31 bp):
TTTGAACAAACTTTCCTTTGCTCTTTAATCT
Found at i:15458302 original size:20 final size:21
Alignment explanation
Indices: 15458266--15458311 Score: 69
Period size: 20 Copynumber: 2.3 Consensus size: 21
15458256 ACCACCAGTA
15458266 CAATA-ATGCAGATAAACTAC
1 CAATATATGCAGATAAACTAC
*
15458286 CAATATATGCAGA-AAACTGC
1 CAATATATGCAGATAAACTAC
15458306 CAATAT
1 CAATAT
15458312 TGTGGAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 17 0.71
21 7 0.29
ACGTcount: A:0.48, C:0.20, G:0.11, T:0.22
Consensus pattern (21 bp):
CAATATATGCAGATAAACTAC
Found at i:15467475 original size:23 final size:23
Alignment explanation
Indices: 15467444--15467491 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
15467434 CATGTATATA
15467444 TATAAATATTATTATCAAGTCAT
1 TATAAATATTATTATCAAGTCAT
*
15467467 TATATATATTATTATCAAGTCAT
1 TATAAATATTATTATCAAGTCAT
15467490 TA
1 TA
15467492 AACTTATCTC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.42, C:0.08, G:0.04, T:0.46
Consensus pattern (23 bp):
TATAAATATTATTATCAAGTCAT
Found at i:15470127 original size:18 final size:17
Alignment explanation
Indices: 15470106--15470140 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
15470096 TCGGCTAGCA
15470106 TGAGAAATTGTGAAATTT
1 TGAGAAATT-TGAAATTT
15470124 TGAGAAATTTGAAATTT
1 TGAGAAATTTGAAATTT
15470141 CGGGTTTAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.40, C:0.00, G:0.20, T:0.40
Consensus pattern (17 bp):
TGAGAAATTTGAAATTT
Found at i:15477134 original size:37 final size:37
Alignment explanation
Indices: 15477072--15477212 Score: 153
Period size: 37 Copynumber: 3.8 Consensus size: 37
15477062 AATACAAAAT
*
15477072 AGTGGCATG-TATTAACATGCGATCAATAATTCAATAAC
1 AGTGGCATGCT-TT-ACATGCAATCAATAATTCAATAAC
* * * *
15477110 AGTGGCATGCTTTACATGTAATCAATAAAT-ACAGAAT
1 AGTGGCATGCTTTACATGCAATCAATAATTCA-ATAAC
* *
15477147 AGTGGCATG-TATTAACATGCGATCAGTAATTCAATAAC
1 AGTGGCATGCT-TT-ACATGCAATCAATAATTCAATAAC
15477185 AGTGGCATGCTTTACATGCAATCAATAA
1 AGTGGCATGCTTTACATGCAATCAATAA
15477213 ATACAAAATA
Statistics
Matches: 84, Mismatches: 13, Indels: 13
0.76 0.12 0.12
Matches are distributed among these distances:
36 2 0.02
37 41 0.49
38 38 0.45
39 3 0.04
ACGTcount: A:0.38, C:0.16, G:0.17, T:0.29
Consensus pattern (37 bp):
AGTGGCATGCTTTACATGCAATCAATAATTCAATAAC
Found at i:15477185 original size:75 final size:75
Alignment explanation
Indices: 15477062--15477224 Score: 299
Period size: 75 Copynumber: 2.2 Consensus size: 75
15477052 AGTTACGTAC
15477062 AATACAAAATAGTGGCATGTATTAACATGCGATCAATAATTCAATAACAGTGGCATGCTTTACAT
1 AATACAAAATAGTGGCATGTATTAACATGCGATCAATAATTCAATAACAGTGGCATGCTTTACAT
*
15477127 GTAATCAATA
66 GCAATCAATA
* *
15477137 AATACAGAATAGTGGCATGTATTAACATGCGATCAGTAATTCAATAACAGTGGCATGCTTTACAT
1 AATACAAAATAGTGGCATGTATTAACATGCGATCAATAATTCAATAACAGTGGCATGCTTTACAT
15477202 GCAATCAATA
66 GCAATCAATA
15477212 AATACAAAATAGT
1 AATACAAAATAGT
15477225 AAGCATGTTC
Statistics
Matches: 84, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
75 84 1.00
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.28
Consensus pattern (75 bp):
AATACAAAATAGTGGCATGTATTAACATGCGATCAATAATTCAATAACAGTGGCATGCTTTACAT
GCAATCAATA
Found at i:15478173 original size:14 final size:15
Alignment explanation
Indices: 15478138--15478179 Score: 50
Period size: 14 Copynumber: 2.7 Consensus size: 15
15478128 TAGAGAGGAA
15478138 GAAAAGAGAGAAAACGG
1 GAAAA-AGAGAAAAC-G
15478155 GAAAAAGAGAAAA-G
1 GAAAAAGAGAAAACG
*
15478169 GAAAATGAGAA
1 GAAAAAGAGAA
15478180 GGGTGGCAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
14 11 0.46
16 8 0.33
17 5 0.21
ACGTcount: A:0.64, C:0.02, G:0.31, T:0.02
Consensus pattern (15 bp):
GAAAAAGAGAAAACG
Found at i:15480036 original size:20 final size:20
Alignment explanation
Indices: 15480013--15480076 Score: 65
Period size: 20 Copynumber: 3.2 Consensus size: 20
15480003 TTACACAATT
*
15480013 GTGCATCTGTTTGCACTTCA
1 GTGCATCTGATTGCACTTCA
* *
15480033 GTGCGTCTGATTGCACTTCG
1 GTGCATCTGATTGCACTTCA
** * *
15480053 GTGCCCCTGATAGCACTACA
1 GTGCATCTGATTGCACTTCA
15480073 GTGC
1 GTGC
15480077 TCCCTAGTGT
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.16, C:0.28, G:0.25, T:0.31
Consensus pattern (20 bp):
GTGCATCTGATTGCACTTCA
Found at i:15481962 original size:14 final size:14
Alignment explanation
Indices: 15481939--15481973 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
15481929 CGCCTCCCTT
15481939 GAGTACTATCCTCG
1 GAGTACTATCCTCG
*
15481953 GAGTATTATCCTCG
1 GAGTACTATCCTCG
15481967 GAGTACT
1 GAGTACT
15481974 CACCTACTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.31
Consensus pattern (14 bp):
GAGTACTATCCTCG
Found at i:15483059 original size:12 final size:12
Alignment explanation
Indices: 15483042--15483073 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
15483032 TGTTTGATGA
15483042 TTAATGAATGTT
1 TTAATGAATGTT
*
15483054 TTAATGAATTTT
1 TTAATGAATGTT
15483066 TTAATGAA
1 TTAATGAA
15483074 AACTATTTGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.50
Consensus pattern (12 bp):
TTAATGAATGTT
Found at i:15483060 original size:19 final size:19
Alignment explanation
Indices: 15483023--15483060 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
15483013 ATAACATGTT
*
15483023 TTAACTGAATGTTTGATGA
1 TTAACTGAATGTTTAATGA
15483042 TTAA-TGAATGTTTTAATGA
1 TTAACTGAATG-TTTAATGA
15483061 ATTTTTTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.34, C:0.03, G:0.18, T:0.45
Consensus pattern (19 bp):
TTAACTGAATGTTTAATGA
Found at i:15485601 original size:14 final size:14
Alignment explanation
Indices: 15485582--15485608 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
15485572 AAAGCTTAAC
15485582 TTTTAAAAAATATT
1 TTTTAAAAAATATT
15485596 TTTTAAAAAATAT
1 TTTTAAAAAATAT
15485609 AAATTATTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
TTTTAAAAAATATT
Found at i:15485676 original size:18 final size:18
Alignment explanation
Indices: 15485599--15485679 Score: 53
Period size: 18 Copynumber: 4.4 Consensus size: 18
15485589 AAATATTTTT
* *
15485599 TAAAAAA-TATAAATTAT
1 TAAAAAATTAAAAATTAA
15485616 TAAAAAATTATTAAAA-TATA
1 TAAAAAATTA--AAAATTA-A
*
15485636 TAAAAATATCAAATAAATT--
1 TAAAAA-AT-TAA-AAATTAA
15485655 TAAAAAATTAAAAATTAA
1 TAAAAAATTAAAAATTAA
15485673 TAAAAAA
1 TAAAAAA
15485680 CTATTTAAAA
Statistics
Matches: 50, Mismatches: 4, Indels: 19
0.68 0.05 0.26
Matches are distributed among these distances:
16 5 0.10
17 9 0.18
18 11 0.22
19 8 0.16
20 10 0.20
21 5 0.10
22 2 0.04
ACGTcount: A:0.68, C:0.01, G:0.00, T:0.31
Consensus pattern (18 bp):
TAAAAAATTAAAAATTAA
Found at i:15486294 original size:10 final size:10
Alignment explanation
Indices: 15486281--15486349 Score: 66
Period size: 10 Copynumber: 6.5 Consensus size: 10
15486271 ATTAATTTTT
15486281 AATTTTTTAA
1 AATTTTTTAA
*
15486291 AATTTTTTGA
1 AATTTTTTAA
*
15486301 ACTTTATTTAA
1 AATTT-TTTAA
*
15486312 TATTTTTATAA
1 AATTTTT-TAA
15486323 AATTTAATTTAA
1 AATTT--TTTAA
*
15486335 AATTTTATAA
1 AATTTTTTAA
15486345 AATTT
1 AATTT
15486350 AAAAATAATT
Statistics
Matches: 48, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
10 24 0.50
11 14 0.29
12 8 0.17
13 2 0.04
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.57
Consensus pattern (10 bp):
AATTTTTTAA
Found at i:15486351 original size:22 final size:22
Alignment explanation
Indices: 15486286--15486351 Score: 80
Period size: 22 Copynumber: 3.0 Consensus size: 22
15486276 TTTTTAATTT
* * *
15486286 TTTAAAATTTTTTGAACTTT-A
1 TTTAAAATTTTATAAAATTTAA
*
15486307 TTTAATATTTTTATAAAATTTAA
1 TTTAA-AATTTTATAAAATTTAA
15486330 TTTAAAATTTTATAAAATTTAA
1 TTTAAAATTTTATAAAATTTAA
15486352 AAATAATTTT
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
21 5 0.13
22 27 0.71
23 6 0.16
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (22 bp):
TTTAAAATTTTATAAAATTTAA
Found at i:15486362 original size:22 final size:22
Alignment explanation
Indices: 15486313--15486362 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
15486303 TTTATTTAAT
*
15486313 ATTTTTATAAAATTTAATTTAAA
1 ATTTTTATAAAATTTAA-TAAAA
15486336 A-TTTTATAAAATTTAA-AAATA
1 ATTTTTATAAAATTTAATAAA-A
15486357 ATTTTT
1 ATTTTT
15486363 TTTTTAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
20 2 0.08
21 2 0.08
22 19 0.79
23 1 0.04
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
ATTTTTATAAAATTTAATAAAA
Found at i:15489066 original size:44 final size:44
Alignment explanation
Indices: 15488978--15489068 Score: 137
Period size: 44 Copynumber: 2.1 Consensus size: 44
15488968 GTAGGTCAAG
* *
15488978 TAATATTAAAATAATCTACACTAATCAGAGTTTAACTGGGAAAC
1 TAATATTAAAATAACCTACACTAATCAGAGTTTAACTGAGAAAC
* * *
15489022 TAATATTAAAATAACCTACACTAATTAGAGTTTAAGTGATAAAC
1 TAATATTAAAATAACCTACACTAATCAGAGTTTAACTGAGAAAC
15489066 TAA
1 TAA
15489069 AAATTGAGTT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.47, C:0.12, G:0.10, T:0.31
Consensus pattern (44 bp):
TAATATTAAAATAACCTACACTAATCAGAGTTTAACTGAGAAAC
Found at i:15489501 original size:19 final size:21
Alignment explanation
Indices: 15489468--15489506 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
15489458 TCTATTTACG
*
15489468 AAAAACCTTAGTTTT-TAGAA
1 AAAAACCGTAGTTTTGTAGAA
15489488 AAAAACCGTA-TTTTGTAGA
1 AAAAACCGTAGTTTTGTAGA
15489507 GTTGCAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.44, C:0.10, G:0.13, T:0.33
Consensus pattern (21 bp):
AAAAACCGTAGTTTTGTAGAA
Found at i:15496336 original size:18 final size:19
Alignment explanation
Indices: 15496298--15496336 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
15496288 ATCGTTTCTA
*
15496298 TTTACAAAAAACCTTAGTT
1 TTTACAAAAAACCGTAGTT
*
15496317 TTTAGAAAAAACCGTA-TT
1 TTTACAAAAAACCGTAGTT
15496335 TT
1 TT
15496337 GTGGAGTTGC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.41, C:0.13, G:0.08, T:0.38
Consensus pattern (19 bp):
TTTACAAAAAACCGTAGTT
Found at i:15500236 original size:44 final size:44
Alignment explanation
Indices: 15500167--15500257 Score: 128
Period size: 44 Copynumber: 2.1 Consensus size: 44
15500157 GTAGGTCAAA
* * *
15500167 TAATATTAAAATAACCTACATTAATCAGATTTTATGTGGGAAAC
1 TAATATTAAAATAACCTACACTAATCAGAGTTTAAGTGGGAAAC
* * *
15500211 TAATATTAATATAACCTATACTAATCAGAGTTTAAGTGGTAAAC
1 TAATATTAAAATAACCTACACTAATCAGAGTTTAAGTGGGAAAC
15500255 TAA
1 TAA
15500258 AACAGAATTT
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.44, C:0.11, G:0.11, T:0.34
Consensus pattern (44 bp):
TAATATTAAAATAACCTACACTAATCAGAGTTTAAGTGGGAAAC
Found at i:15517864 original size:98 final size:98
Alignment explanation
Indices: 15517690--15517886 Score: 349
Period size: 98 Copynumber: 2.0 Consensus size: 98
15517680 GTACAATAAA
*
15517690 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATT
1 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
*
15517755 CCTCTAGAATCCCAAACTCGGAACATTTCCTTT
66 CCTCTAAAATCCCAAACTCGGAACATTTCCTTT
*
15517788 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
1 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
* *
15517853 CCTTTAAAATCCCAAACTCGGAATATTTCCTTT
66 CCTCTAAAATCCCAAACTCGGAACATTTCCTTT
15517886 A
1 A
15517887 TTATTTTTAA
Statistics
Matches: 94, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
98 94 1.00
ACGTcount: A:0.37, C:0.26, G:0.10, T:0.27
Consensus pattern (98 bp):
ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
CCTCTAAAATCCCAAACTCGGAACATTTCCTTT
Found at i:15519210 original size:19 final size:19
Alignment explanation
Indices: 15519186--15519298 Score: 163
Period size: 19 Copynumber: 5.8 Consensus size: 19
15519176 AATCATATAT
15519186 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
** *
15519205 TCTAAGATTATATATCATC
1 TCTAAGATTGCATATCATA
15519224 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
15519243 TCTAAGATTGCATATATCATA
1 TCTAAGATTGC--ATATCATA
**
15519264 TCTTGGATTGCATATCATA
1 TCTAAGATTGCATATCATA
15519283 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
15519299 CTCAAAATTT
Statistics
Matches: 82, Mismatches: 10, Indels: 4
0.85 0.10 0.04
Matches are distributed among these distances:
19 65 0.79
21 17 0.21
ACGTcount: A:0.35, C:0.16, G:0.11, T:0.39
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:15519273 original size:40 final size:40
Alignment explanation
Indices: 15519186--15519297 Score: 183
Period size: 40 Copynumber: 2.9 Consensus size: 40
15519176 AATCATATAT
*
15519186 TCTAAGATTGCATATCATATCTAAGATT--ATATATCATC
1 TCTAAGATTGCATATCATATCTAAGATTGCATATATCATA
15519224 TCTAAGATTGCATATCATATCTAAGATTGCATATATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGCATATATCATA
**
15519264 TCTTGGATTGCATATCATATCTAAGATTGCATAT
1 TCTAAGATTGCATATCATATCTAAGATTGCATAT
15519298 CCTCAAAATT
Statistics
Matches: 69, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
38 28 0.41
40 41 0.59
ACGTcount: A:0.35, C:0.15, G:0.11, T:0.39
Consensus pattern (40 bp):
TCTAAGATTGCATATCATATCTAAGATTGCATATATCATA
Found at i:15528359 original size:17 final size:16
Alignment explanation
Indices: 15528337--15528375 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
15528327 AAAACACGCT
15528337 TTCTCTTTGCTCTCTCA
1 TTCTCTTTGCTCT-TCA
* *
15528354 TTCTCTTTGTTCTTTA
1 TTCTCTTTGCTCTTCA
15528370 TTCTCT
1 TTCTCT
15528376 GTCTTTTGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 8 0.40
17 12 0.60
ACGTcount: A:0.05, C:0.28, G:0.05, T:0.62
Consensus pattern (16 bp):
TTCTCTTTGCTCTTCA
Found at i:15532610 original size:39 final size:38
Alignment explanation
Indices: 15532553--15532671 Score: 139
Period size: 39 Copynumber: 3.1 Consensus size: 38
15532543 GGCTGAGGCC
** * * *
15532553 GCCTTTCGTAGGAGTGCCTTGGGTCACAGCAGGCAGTAG
1 GCCTTTCACAGGAATGCCTTGGGTCATAGCAAGCAGT-G
*
15532592 GCCTTTCACAGGAATGCCTTGGGTCATAGCATGCAGTGG
1 GCCTTTCACAGGAATGCCTTGGGTCATAGCAAGCAGT-G
* * *
15532631 GCATTTCACAAGACTGCCTTGGGTCATAGCAAGCAGTG
1 GCCTTTCACAGGAATGCCTTGGGTCATAGCAAGCAGTG
15532669 GCC
1 GCC
15532672 GAAACACAAA
Statistics
Matches: 69, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
38 3 0.04
39 66 0.96
ACGTcount: A:0.21, C:0.24, G:0.31, T:0.24
Consensus pattern (38 bp):
GCCTTTCACAGGAATGCCTTGGGTCATAGCAAGCAGTG
Found at i:15536090 original size:45 final size:45
Alignment explanation
Indices: 15536058--15536247 Score: 274
Period size: 45 Copynumber: 4.2 Consensus size: 45
15536048 CCAGACCAGA
15536058 AACGAGTAAGACCATGACTGAAAGATGTTATGGCATCACGATTCT
1 AACGAGTAAGACCATGACTGAAAGATGTTATGGCATCACGATTCT
* * * *
15536103 ATCGAGTAAGACCATGACTGAAATACT-TTATGGCATTACGATTTT
1 AACGAGTAAGACCATGACTGAAAGA-TGTTATGGCATCACGATTCT
* *
15536148 AACGAGTAAGACCATGACTGAAAGACGTTATGGCATCATGATTCT
1 AACGAGTAAGACCATGACTGAAAGATGTTATGGCATCACGATTCT
* * *
15536193 ATCGAGTAAGACCATGACTGAAAAATGTTATGGCATCACAATTCT
1 AACGAGTAAGACCATGACTGAAAGATGTTATGGCATCACGATTCT
*
15536238 ATCGAGTAAG
1 AACGAGTAAG
15536248 CTGAAAGACA
Statistics
Matches: 128, Mismatches: 15, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
45 127 0.99
46 1 0.01
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.27
Consensus pattern (45 bp):
AACGAGTAAGACCATGACTGAAAGATGTTATGGCATCACGATTCT
Found at i:15543266 original size:19 final size:19
Alignment explanation
Indices: 15543242--15543280 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
15543232 GAACCTTTAA
15543242 CAGTTTTACGAATTCACCC
1 CAGTTTTACGAATTCACCC
15543261 CAGTTTTACGAATTCACCC
1 CAGTTTTACGAATTCACCC
15543280 C
1 C
15543281 CGGGCTAGCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.26, C:0.33, G:0.10, T:0.31
Consensus pattern (19 bp):
CAGTTTTACGAATTCACCC
Found at i:15546147 original size:41 final size:41
Alignment explanation
Indices: 15546086--15546369 Score: 345
Period size: 41 Copynumber: 6.9 Consensus size: 41
15546076 TTCTTACCTT
* * * * * *
15546086 TCGGGGCTTTAGCAGTGTTTTCGAAAAAGCACTGCTAATGC
1 TCGGGGTTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
* *
15546127 TCGGGGCTTTAGCGGCGTTTTTGAAAATGCGCCGCTAATGC
1 TCGGGGTTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
* *
15546168 TCGGGGGTTTTAGTGTCGTTTTTGAAAAAGCGCCGCTAATGC
1 TC-GGGGTTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
* *
15546210 TCGGTGTTTTAGCGGCGTTTTTTAAAAAGCGCCGCTAATGC
1 TCGGGGTTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
** * * *
15546251 TCGGGGTTTTAGCGGTATTTTTTAAAAAGCACCGCTAGTGC
1 TCGGGGTTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
* * *
15546292 T-TGGGTTTTAGCAGCGTTTTTTAAAAAGCGCCGCTAATGC
1 TCGGGGTTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
* * *
15546332 TAGGGGCTTTCGCGGCGTTTTTGAAAAAGCGCCGCTAA
1 TCGGGGTTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAA
15546370 AAACTTTTTA
Statistics
Matches: 211, Mismatches: 30, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
40 34 0.16
41 140 0.66
42 37 0.18
ACGTcount: A:0.21, C:0.19, G:0.29, T:0.32
Consensus pattern (41 bp):
TCGGGGTTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
Found at i:15546329 original size:81 final size:81
Alignment explanation
Indices: 15546086--15546369 Score: 354
Period size: 83 Copynumber: 3.5 Consensus size: 81
15546076 TTCTTACCTT
* * * * *
15546086 TCGGGGCTTTAGCAGTGTTTTCGAAAAAGCACTGCTAATGCTCGGGGCTTTAGCGGCGTTTTTGA
1 TCGGGGCTTTAGCGGTGTTTTTGAAAAAGCACCGCTAATGCTC-GGGTTTTAGCGGCGTTTTTTA
*
15546151 AAATGCGCCGCTAATGC
65 AAAAGCGCCGCTAATGC
* * *
15546168 TCGGGGGTTTTAG-TGTCGTTTTTGAAAAAGCGCCGCTAATGCTCGGTGTTTTAGCGGCGTTTTT
1 TC-GGGGCTTTAGCGGT-GTTTTTGAAAAAGCACCGCTAATGCTCGG-GTTTTAGCGGCGTTTTT
15546232 TAAAAAGCGCCGCTAATGC
63 TAAAAAGCGCCGCTAATGC
* * * * * *
15546251 TCGGGGTTTTAGCGGTATTTTTTAAAAAGCACCGCTAGTGCTTGGGTTTTAGCAGCGTTTTTTAA
1 TCGGGGCTTTAGCGGTGTTTTTGAAAAAGCACCGCTAATGCTCGGGTTTTAGCGGCGTTTTTTAA
15546316 AAAGCGCCGCTAATGC
66 AAAGCGCCGCTAATGC
* * * *
15546332 TAGGGGCTTTCGCGGCGTTTTTGAAAAAGCGCCGCTAA
1 TCGGGGCTTTAGCGGTGTTTTTGAAAAAGCACCGCTAA
15546370 AAACTTTTTA
Statistics
Matches: 175, Mismatches: 23, Indels: 9
0.85 0.11 0.04
Matches are distributed among these distances:
81 65 0.37
82 40 0.23
83 70 0.40
ACGTcount: A:0.21, C:0.19, G:0.29, T:0.32
Consensus pattern (81 bp):
TCGGGGCTTTAGCGGTGTTTTTGAAAAAGCACCGCTAATGCTCGGGTTTTAGCGGCGTTTTTTAA
AAAGCGCCGCTAATGC
Found at i:15546747 original size:14 final size:14
Alignment explanation
Indices: 15546728--15546783 Score: 55
Period size: 14 Copynumber: 4.1 Consensus size: 14
15546718 GTTTAGGGAG
15546728 TATGGATTTAGGGT
1 TATGGATTTAGGGT
15546742 TATGGA-TTAGGGAT
1 TATGGATTTAGGG-T
15546756 TATGG-TTTAAGGGT
1 TATGGATTT-AGGGT
* *
15546770 T-GGGATTTAAGGT
1 TATGGATTTAGGGT
15546783 T
1 T
15546784 TAGGGGTTAG
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
13 13 0.36
14 19 0.53
15 4 0.11
ACGTcount: A:0.23, C:0.00, G:0.36, T:0.41
Consensus pattern (14 bp):
TATGGATTTAGGGT
Found at i:15546785 original size:21 final size:21
Alignment explanation
Indices: 15546712--15546800 Score: 67
Period size: 21 Copynumber: 4.2 Consensus size: 21
15546702 GAGTTACTAT
15546712 TTTAAGGTTTAGGGAGTAT-GGA
1 TTTAAGGTTTAGGG-GT-TGGGA
* * *
15546734 TTT-AGGGTTATGGATTAGGGA
1 TTTAAGGTTTAGGGGTT-GGGA
* *
15546755 -TTATGGTTTAAGGGTTGGGA
1 TTTAAGGTTTAGGGGTTGGGA
*
15546775 TTTAAGGTTTAGGGGTTAGGA
1 TTTAAGGTTTAGGGGTTGGGA
15546796 GTTTA
1 -TTTA
15546801 GAGGATAGAT
Statistics
Matches: 52, Mismatches: 10, Indels: 10
0.72 0.14 0.14
Matches are distributed among these distances:
19 1 0.02
20 7 0.13
21 37 0.71
22 7 0.13
ACGTcount: A:0.24, C:0.00, G:0.37, T:0.39
Consensus pattern (21 bp):
TTTAAGGTTTAGGGGTTGGGA
Found at i:15547262 original size:21 final size:22
Alignment explanation
Indices: 15547224--15547276 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 22
15547214 GGATTTTTGG
* *
15547224 TTTAGAGTTTAAGGTTT-AGGT
1 TTTAGGGTTTAAGATTTAAGGT
*
15547245 TTTAGGGTTTAATATTTAAGGT
1 TTTAGGGTTTAAGATTTAAGGT
*
15547267 TTTGGGGTTT
1 TTTAGGGTTT
15547277 TAGGGTTAGG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
21 14 0.52
22 13 0.48
ACGTcount: A:0.21, C:0.00, G:0.28, T:0.51
Consensus pattern (22 bp):
TTTAGGGTTTAAGATTTAAGGT
Found at i:15548129 original size:73 final size:73
Alignment explanation
Indices: 15547995--15548146 Score: 166
Period size: 73 Copynumber: 2.1 Consensus size: 73
15547985 TTCTTTTCTT
* *
15547995 TTAGTGGCGCTTTACATAAACGCTACAAAAATGTATTAGGAGTTAAGGAAACTACGTCG-TTT-T
1 TTAGTGGCGCTTTACATAAACGCCACAAAAATGTATTAGGAGTTAAGGAAACTACGCCGTTTTGT
15548058 CTATTGTTA
66 CTA-TGTTA
* * * * * ** *
15548067 TTAGTGGCGCTTTCCTTAAAACGCCGCAAAAATGTTTTAGGATTTATTGAAACGT-TGCCGTTTT
1 TTAGTGGCGCTTTACAT-AAACGCCACAAAAATGTATTAGGAGTTAAGGAAAC-TACGCCGTTTT
15548131 GTCTATGTTA
64 GTCTATGTTA
15548141 TTAGTG
1 TTAGTG
15548147 CCGTTTTTTT
Statistics
Matches: 66, Mismatches: 10, Indels: 6
0.80 0.12 0.07
Matches are distributed among these distances:
72 15 0.23
73 32 0.48
74 15 0.23
75 4 0.06
ACGTcount: A:0.28, C:0.14, G:0.20, T:0.38
Consensus pattern (73 bp):
TTAGTGGCGCTTTACATAAACGCCACAAAAATGTATTAGGAGTTAAGGAAACTACGCCGTTTTGT
CTATGTTA
Found at i:15548774 original size:105 final size:105
Alignment explanation
Indices: 15548648--15548857 Score: 375
Period size: 105 Copynumber: 2.0 Consensus size: 105
15548638 TTTATTCTTA
*
15548648 ACTCATTTGCAGAGGAGAAATTTCCTAAACCCACCAATGTTATTCATGTTCTATTCTGTAAATAT
1 ACTCATTTACAGAGGAGAAATTTCCTAAACCCACCAATGTTATTCATGTTCTATTCTGTAAATAT
15548713 TCTGTAACTATTTAAGGATTCTGCCTCTTTTTACCTTTGT
66 TCTGTAACTATTTAAGGATTCTGCCTCTTTTTACCTTTGT
* *
15548753 ACTCATTTATAGAGGAGAAATTTCCTAAACCCACCAATGTTATTCATGTTTTATTCTGTAAATAT
1 ACTCATTTACAGAGGAGAAATTTCCTAAACCCACCAATGTTATTCATGTTCTATTCTGTAAATAT
* *
15548818 TCTGTAACTATTTAGGGATTCTGCCTCTTTTTACTTTTGT
66 TCTGTAACTATTTAAGGATTCTGCCTCTTTTTACCTTTGT
15548858 GTAAAGGTAT
Statistics
Matches: 100, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
105 100 1.00
ACGTcount: A:0.27, C:0.19, G:0.12, T:0.42
Consensus pattern (105 bp):
ACTCATTTACAGAGGAGAAATTTCCTAAACCCACCAATGTTATTCATGTTCTATTCTGTAAATAT
TCTGTAACTATTTAAGGATTCTGCCTCTTTTTACCTTTGT
Found at i:15550375 original size:30 final size:31
Alignment explanation
Indices: 15550323--15550382 Score: 113
Period size: 31 Copynumber: 2.0 Consensus size: 31
15550313 TTAATTTATT
15550323 TTAAAGTTCAAATTTACATAACTTACATAAA
1 TTAAAGTTCAAATTTACATAACTTACATAAA
15550354 TTAAAGTTCAAATTT-CATAACTTACATAA
1 TTAAAGTTCAAATTTACATAACTTACATAA
15550383 TTTACATAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 14 0.48
31 15 0.52
ACGTcount: A:0.47, C:0.13, G:0.03, T:0.37
Consensus pattern (31 bp):
TTAAAGTTCAAATTTACATAACTTACATAAA
Found at i:15550485 original size:266 final size:268
Alignment explanation
Indices: 15550175--15550661 Score: 845
Period size: 266 Copynumber: 1.8 Consensus size: 268
15550165 TTTTTTAAAT
*
15550175 TTTATGCTATTTTAATTACTAAAAACATTTTTGTTTTGTTTTCTTTTAGTTTTAATTTACCTAAT
1 TTTATGCTATTTTAATCACTAAAAACATTTTTGTTTTGTTTTCTTTTAGTTTTAATTTACCTAAT
* *
15550240 TAAATAAATTGTATTCAAAGTTATATTTTAAATAGTTTATTTAATTTGAATGATGGAAAAAATTT
66 TAAATAAAATGTATTCAAAGTTATATTTTAAATAGTTTATTTAATTTGAATGAGGGAAAAAATTT
15550305 TCAAACTTTTAATTTATTTTAAAGTTCAA-ATTTACATAACTTACATAAATTAAAGTTCAAATTT
131 TCAAACTTTTAATTTATTTTAAAGTT-AATATTTACATAACTTACATAAATTAAAGTTCAAATTT
*
15550369 CATAACTTACATAATTTACATAACTTATATAATTTCAGAATGTTTTCATTCTTCTTTTATCTTTT
195 CATAACTTACATAAATTACATAACTTATATAATTTCAGAATGTTTTCATTCTTCTTTTATCTTTT
15550434 TTTACTTAA
260 TTTACTTAA
* * * *
15550443 TTTATGCTATTTTAATCA-TGAAAATA-TTTTGTTTTGTTTTCTTTTATTTTTAATTTACCTAGT
1 TTTATGCTATTTTAATCACTAAAAACATTTTTGTTTTGTTTTCTTTTAGTTTTAATTTACCTAAT
* *
15550506 TAAATAAAATGTATTCAAAGTTATATTTTAAATATTTTATTTAATTTGAATGAGGGAAAAATTTT
66 TAAATAAAATGTATTCAAAGTTATATTTTAAATAGTTTATTTAATTTGAATGAGGGAAAAAATTT
15550571 TCAAACTTTTAATTTATTTTAAAGTTAATATTTACATAACTTACATAAATTAAAGTTCAAATTTC
131 TCAAACTTTTAATTTATTTTAAAGTTAATATTTACATAACTTACATAAATTAAAGTTCAAATTTC
*
15550636 ATAACTTGCATAAATTACATAACTTA
196 ATAACTTACATAAATTACATAACTTA
15550662 CTTAATACAA
Statistics
Matches: 207, Mismatches: 11, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
265 2 0.01
266 182 0.88
267 6 0.03
268 17 0.08
ACGTcount: A:0.36, C:0.09, G:0.06, T:0.49
Consensus pattern (268 bp):
TTTATGCTATTTTAATCACTAAAAACATTTTTGTTTTGTTTTCTTTTAGTTTTAATTTACCTAAT
TAAATAAAATGTATTCAAAGTTATATTTTAAATAGTTTATTTAATTTGAATGAGGGAAAAAATTT
TCAAACTTTTAATTTATTTTAAAGTTAATATTTACATAACTTACATAAATTAAAGTTCAAATTTC
ATAACTTACATAAATTACATAACTTATATAATTTCAGAATGTTTTCATTCTTCTTTTATCTTTTT
TTACTTAA
Found at i:15550641 original size:30 final size:30
Alignment explanation
Indices: 15550589--15550738 Score: 99
Period size: 30 Copynumber: 4.8 Consensus size: 30
15550579 TTAATTTATT
15550589 TTAAAGTT-AATATTTACATAACTTACATAAA
1 TTAAAGTTCAA-ATTT-CATAACTTACATAAA
*
15550620 TTAAAGTTCAAATTTCATAACTTGCATAAA
1 TTAAAGTTCAAATTTCATAACTTACATAAA
* * * * *
15550650 TTACATAACTTACTTAA-TACAAAACTTAGATAATA
1 TT--A-AAGTT-C-AAATTTCATAACTTACATAA-A
* * *
15550685 TT-AAGATCAAATTTCATAACTTGCATAAT
1 TTAAAGTTCAAATTTCATAACTTACATAAA
* * *
15550714 TTTAAGATCAGATTTCATAACTTAC
1 TTAAAGTTCAAATTTCATAACTTAC
15550739 GTAATTTATA
Statistics
Matches: 93, Mismatches: 17, Indels: 19
0.72 0.13 0.15
Matches are distributed among these distances:
29 4 0.04
30 49 0.53
31 15 0.16
32 3 0.03
33 4 0.04
34 13 0.14
35 5 0.05
ACGTcount: A:0.44, C:0.13, G:0.05, T:0.37
Consensus pattern (30 bp):
TTAAAGTTCAAATTTCATAACTTACATAAA
Found at i:15551574 original size:43 final size:43
Alignment explanation
Indices: 15551421--15551574 Score: 191
Period size: 43 Copynumber: 3.6 Consensus size: 43
15551411 CAAAATTATT
* * * *
15551421 AAAGTCGTGTTCTTTAGCGGCGTTTGTGGGAGAAGCGCCGCTA
1 AAAGTCATGATCTATAGCGGCGTTTGTGGGAGAAGCGCTGCTA
* * * *
15551464 AAAGTCATAATCTATAGCAGCGTTTGTAGGAAAAGCGCTGCTA
1 AAAGTCATGATCTATAGCGGCGTTTGTGGGAGAAGCGCTGCTA
*
15551507 AAAGTCATGATCTATAGCGACGTTTGTGGGAGAAGCGCTGCTA
1 AAAGTCATGATCTATAGCGGCGTTTGTGGGAGAAGCGCTGCTA
* * * *
15551550 AAGGTCATGACCTTTAGTGGCGTTT
1 AAAGTCATGATCTATAGCGGCGTTT
15551575 CTTTCTAAAA
Statistics
Matches: 93, Mismatches: 18, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 93 1.00
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.28
Consensus pattern (43 bp):
AAAGTCATGATCTATAGCGGCGTTTGTGGGAGAAGCGCTGCTA
Found at i:15553511 original size:43 final size:42
Alignment explanation
Indices: 15553429--15553513 Score: 100
Period size: 43 Copynumber: 2.0 Consensus size: 42
15553419 TAGCAGCTTT
*
15553429 CTTTTTCACAAACGCCGCTAAAGAACATGATCTTTAGCGGCG
1 CTTTTTCACAAACGCCGCTAAAGAACATGATCTTCAGCGGCG
** * *
15553471 CTTTTATCACAAACGTTGCTAAAAGTAC-TGTTCTTCAGCGGCG
1 CTTTT-TCACAAACGCCGCT-AAAGAACATGATCTTCAGCGGCG
15553514 TTTATAAAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
42 5 0.14
43 25 0.69
44 6 0.17
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (42 bp):
CTTTTTCACAAACGCCGCTAAAGAACATGATCTTCAGCGGCG
Found at i:15557696 original size:16 final size:16
Alignment explanation
Indices: 15557675--15557707 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
15557665 TTCGCTGTAT
*
15557675 TGGAATAGAGGCGTAA
1 TGGAATAGAGCCGTAA
15557691 TGGAATAGAGCCGTAA
1 TGGAATAGAGCCGTAA
15557707 T
1 T
15557708 AGCAAATCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.36, C:0.09, G:0.33, T:0.21
Consensus pattern (16 bp):
TGGAATAGAGCCGTAA
Found at i:15557956 original size:18 final size:17
Alignment explanation
Indices: 15557935--15557969 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
15557925 TTATTATTAA
*
15557935 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
15557953 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
15557970 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:15558054 original size:120 final size:120
Alignment explanation
Indices: 15557915--15558528 Score: 985
Period size: 120 Copynumber: 5.1 Consensus size: 120
15557905 ATAATCATAT
* *
15557915 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
1 TTTAAAATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATATT
* * *
15557980 CAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAA
66 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
* * * *
15558035 TTTAACATAATTATTATTAAATACATTTTAATTAAAATATATGATTTAATAAAATTCTTAATAAT
1 TTTAAAATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATATT
* * * *
15558100 CAATATTCTTATATGAATTTACTAAAATTATAATATATGATATTATAAAATATAA
66 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
* *
15558155 TTTGAAATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTAATATT
1 TTTAAAATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATATT
* *
15558220 AAATATTCTTATATGAATTTACTAAAATTATAATATATAATAGTATAAAATATAA
66 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
* * * *
15558275 TTTAAAATAATAATTATTAAATATAATTTAATAAAAAAACTATAATTTAATAAAATTCTTAATAT
1 TTTAAAATAATTATTATTAAATATATTTTAATTAAAATA-TATAATTTAATAAAATTCTTAATAT
15558340 TAAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
65 T-AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
* * *
15558397 TCTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
1 TTTAAAATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATATT
15558462 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
66 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
*
15558517 TCTAAAATAATT
1 TTTAAAATAATT
15558529 GATTTTGTGG
Statistics
Matches: 469, Mismatches: 23, Indels: 4
0.95 0.05 0.01
Matches are distributed among these distances:
120 329 0.70
121 51 0.11
122 89 0.19
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (120 bp):
TTTAAAATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATATT
AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
Found at i:15558153 original size:22 final size:24
Alignment explanation
Indices: 15558109--15558155 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
15558099 TCAATATTCT
15558109 TATATGAATTTACTAAAATTATAA
1 TATATGAATTTACTAAAATTATAA
15558133 TATATG-ATATTA-TAAAA-TATAA
1 TATATGAAT-TTACTAAAATTATAA
15558155 T
1 T
15558156 TTGAAATAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 6 0.27
23 7 0.32
24 9 0.41
ACGTcount: A:0.51, C:0.02, G:0.04, T:0.43
Consensus pattern (24 bp):
TATATGAATTTACTAAAATTATAA
Found at i:15558196 original size:18 final size:17
Alignment explanation
Indices: 15558173--15558209 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
15558163 AATTATTATT
15558173 AAATATAT--TTTAATTA
1 AAATATATGATTTAA-TA
15558189 AAATATATGATTTAATA
1 AAATATATGATTTAATA
15558206 AAAT
1 AAAT
15558210 TCTTAATATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.42
17 6 0.32
18 5 0.26
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (17 bp):
AAATATATGATTTAATA
Done.