Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D10
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: 67973905
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 207 of 228
Found at i:60473673 original size:50 final size:50
Alignment explanation
Indices: 60473615--60473714 Score: 200
Period size: 50 Copynumber: 2.0 Consensus size: 50
60473605 AACTAAACAA
60473615 CCGGATATTCATACCACAAAAATTGAATTGAGAACGATCAGAAGTCTACC
1 CCGGATATTCATACCACAAAAATTGAATTGAGAACGATCAGAAGTCTACC
60473665 CCGGATATTCATACCACAAAAATTGAATTGAGAACGATCAGAAGTCTACC
1 CCGGATATTCATACCACAAAAATTGAATTGAGAACGATCAGAAGTCTACC
60473715 GAGATTGAAG
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.40, C:0.22, G:0.16, T:0.22
Consensus pattern (50 bp):
CCGGATATTCATACCACAAAAATTGAATTGAGAACGATCAGAAGTCTACC
Found at i:60477448 original size:13 final size:13
Alignment explanation
Indices: 60477430--60477466 Score: 51
Period size: 11 Copynumber: 3.0 Consensus size: 13
60477420 AATGGCATAT
60477430 TATTCAAGCTCAA
1 TATTCAAGCTCAA
*
60477443 TATTCAAG-T-AT
1 TATTCAAGCTCAA
60477454 TATTCAAGCTCAA
1 TATTCAAGCTCAA
60477467 GAGGAAACTA
Statistics
Matches: 20, Mismatches: 2, Indels: 4
0.77 0.08 0.15
Matches are distributed among these distances:
11 9 0.45
12 2 0.10
13 9 0.45
ACGTcount: A:0.38, C:0.19, G:0.08, T:0.35
Consensus pattern (13 bp):
TATTCAAGCTCAA
Found at i:60478646 original size:3 final size:3
Alignment explanation
Indices: 60478638--60478666 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
60478628 CCTATTTTTG
60478638 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
60478667 TATTCAACTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:60481137 original size:3 final size:3
Alignment explanation
Indices: 60481129--60481161 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
60481119 ATTCCCACTC
60481129 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
60481162 CTTACCTCAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:60481886 original size:15 final size:15
Alignment explanation
Indices: 60481858--60481899 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
60481848 GTTTCGTCTC
* *
60481858 TTCTATTCTGTTTCTT
1 TTCT-TTCTTTTTCTA
60481874 TTCTTTCTTTTTCTA
1 TTCTTTCTTTTTCTA
60481889 TTCTTTCTTTT
1 TTCTTTCTTTT
60481900 GTTTTATGTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
15 20 0.83
16 4 0.17
ACGTcount: A:0.05, C:0.19, G:0.02, T:0.74
Consensus pattern (15 bp):
TTCTTTCTTTTTCTA
Found at i:60481921 original size:5 final size:5
Alignment explanation
Indices: 60481908--60481954 Score: 62
Period size: 5 Copynumber: 9.4 Consensus size: 5
60481898 TTGTTTTATG
60481908 TATATA TATAA TATAA TATAA TAT-A T-TAA TAATAA TATAA TATAA TA
1 TATA-A TATAA TATAA TATAA TATAA TATAA T-ATAA TATAA TATAA TA
60481955 ATATTTTTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
3 1 0.03
4 4 0.11
5 25 0.66
6 8 0.21
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (5 bp):
TATAA
Found at i:60481933 original size:19 final size:19
Alignment explanation
Indices: 60481909--60481958 Score: 77
Period size: 19 Copynumber: 2.7 Consensus size: 19
60481899 TGTTTTATGT
60481909 ATATATATAATATAATATA
1 ATATATATAATATAATATA
60481928 ATATAT-TAATAATAATATA
1 ATATATATAAT-ATAATATA
60481947 ATATA-ATAATAT
1 ATATATATAATAT
60481959 TTTTTTAACA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
18 6 0.21
19 23 0.79
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
ATATATATAATATAATATA
Found at i:60484238 original size:13 final size:13
Alignment explanation
Indices: 60484220--60484269 Score: 77
Period size: 13 Copynumber: 4.0 Consensus size: 13
60484210 AATGACATAT
60484220 TATTCAAGCTCAA
1 TATTCAAGCTCAA
*
60484233 TATTCAAG-T-AT
1 TATTCAAGCTCAA
60484244 TATTCAAGCTCAA
1 TATTCAAGCTCAA
60484257 TATTCAAGCTCAA
1 TATTCAAGCTCAA
60484270 GAGGAAACTA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
11 9 0.27
12 2 0.06
13 22 0.67
ACGTcount: A:0.38, C:0.20, G:0.08, T:0.34
Consensus pattern (13 bp):
TATTCAAGCTCAA
Found at i:60484249 original size:24 final size:24
Alignment explanation
Indices: 60484217--60484264 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
60484207 TTCAATGACA
60484217 TATTATTCAAGCTCAATATTCAAG
1 TATTATTCAAGCTCAATATTCAAG
60484241 TATTATTCAAGCTCAATATTCAAG
1 TATTATTCAAGCTCAATATTCAAG
60484265 CTCAAGAGGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.17, G:0.08, T:0.38
Consensus pattern (24 bp):
TATTATTCAAGCTCAATATTCAAG
Found at i:60485445 original size:3 final size:3
Alignment explanation
Indices: 60485437--60485469 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
60485427 TCCTATTTTT
60485437 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
60485470 TATTCAACTC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:60494459 original size:24 final size:26
Alignment explanation
Indices: 60494419--60494473 Score: 80
Period size: 24 Copynumber: 2.2 Consensus size: 26
60494409 TTTTATAAAT
60494419 TTTTATATATATATTATAT-TTTTAGA
1 TTTTATATATATATTATATATTTT-GA
60494445 TTTTATATAT-T-TTATATATTTTGA
1 TTTTATATATATATTATATATTTTGA
60494469 TTTTA
1 TTTTA
60494474 AAATGATAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
24 13 0.46
25 5 0.18
26 10 0.36
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (26 bp):
TTTTATATATATATTATATATTTTGA
Found at i:60497081 original size:56 final size:56
Alignment explanation
Indices: 60496995--60497106 Score: 215
Period size: 56 Copynumber: 2.0 Consensus size: 56
60496985 TTACGATGTA
60496995 GGAGAGGCTATTTATATTAAATATGTTTTTGTTATCTTATAGTAAAGTCCCAAACT
1 GGAGAGGCTATTTATATTAAATATGTTTTTGTTATCTTATAGTAAAGTCCCAAACT
*
60497051 GGAGAGGCTATTTATATTAACTATGTTTTTGTTATCTTATAGTAAAGTCCCAAACT
1 GGAGAGGCTATTTATATTAAATATGTTTTTGTTATCTTATAGTAAAGTCCCAAACT
60497107 TTGAGGGGGA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 55 1.00
ACGTcount: A:0.31, C:0.12, G:0.16, T:0.41
Consensus pattern (56 bp):
GGAGAGGCTATTTATATTAAATATGTTTTTGTTATCTTATAGTAAAGTCCCAAACT
Found at i:60500277 original size:15 final size:15
Alignment explanation
Indices: 60500257--60500286 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
60500247 TAATCCTTAA
*
60500257 TAATTATCTTAATAT
1 TAATTATCCTAATAT
60500272 TAATTATCCTAATAT
1 TAATTATCCTAATAT
60500287 GATTAAAATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (15 bp):
TAATTATCCTAATAT
Found at i:60503772 original size:18 final size:18
Alignment explanation
Indices: 60503749--60503785 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
60503739 TACCTAGCTT
*
60503749 TCAATATCGATACCAAAA
1 TCAATATCGAGACCAAAA
60503767 TCAATATCGAGACCAAAA
1 TCAATATCGAGACCAAAA
60503785 T
1 T
60503786 TGTAACACCC
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:0.49, C:0.22, G:0.08, T:0.22
Consensus pattern (18 bp):
TCAATATCGAGACCAAAA
Found at i:60513252 original size:16 final size:16
Alignment explanation
Indices: 60513231--60513264 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
60513221 CAGAAAACTA
60513231 AAAGTCTTCCAGTTTC
1 AAAGTCTTCCAGTTTC
*
60513247 AAAGTCTTCTAGTTTC
1 AAAGTCTTCCAGTTTC
60513263 AA
1 AA
60513265 CGTCCAAGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.29, C:0.21, G:0.12, T:0.38
Consensus pattern (16 bp):
AAAGTCTTCCAGTTTC
Found at i:60518107 original size:18 final size:18
Alignment explanation
Indices: 60518084--60518118 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
60518074 CCCAGCTTTT
60518084 AATATCGATACCAAAATC
1 AATATCGATACCAAAATC
60518102 AATATCGATACCAAAAT
1 AATATCGATACCAAAAT
60518119 TGCTTTTTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.20, G:0.06, T:0.23
Consensus pattern (18 bp):
AATATCGATACCAAAATC
Found at i:60524911 original size:24 final size:23
Alignment explanation
Indices: 60524846--60524893 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
60524836 AATTAGTACC
60524846 TGATAGAATAACATTATGACACG
1 TGATAGAATAACATTATGACACG
60524869 TGATAGAATAACATTATGACACG
1 TGATAGAATAACATTATGACACG
60524892 TG
1 TG
60524894 GCATAAATGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.42, C:0.12, G:0.19, T:0.27
Consensus pattern (23 bp):
TGATAGAATAACATTATGACACG
Found at i:60531070 original size:24 final size:26
Alignment explanation
Indices: 60531042--60531090 Score: 75
Period size: 24 Copynumber: 2.0 Consensus size: 26
60531032 TATATATAAA
60531042 ATTTTAATA-AATAAA-TAAAAATAT
1 ATTTTAATATAATAAATTAAAAATAT
*
60531066 ATTTTTATATAATAAATTAAAAATA
1 ATTTTAATATAATAAATTAAAAATA
60531091 ATATGAATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 8 0.36
25 6 0.27
26 8 0.36
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (26 bp):
ATTTTAATATAATAAATTAAAAATAT
Found at i:60531100 original size:25 final size:25
Alignment explanation
Indices: 60531047--60531100 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 25
60531037 ATAAAATTTT
* *
60531047 AATA-AATAAATAAAAATATATTTT
1 AATATAATAAATAAAAATATATATG
*
60531071 TATATAATAAATTAAAAATA-ATATG
1 AATATAATAAA-TAAAAATATATATG
60531096 AATAT
1 AATAT
60531101 TTTTTTAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
24 3 0.12
25 13 0.54
26 8 0.33
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (25 bp):
AATATAATAAATAAAAATATATATG
Found at i:60533458 original size:26 final size:27
Alignment explanation
Indices: 60533429--60533497 Score: 88
Period size: 26 Copynumber: 2.6 Consensus size: 27
60533419 TACAATGGAC
60533429 TTAAAATTTAAAAAATGTATAAA-AAT
1 TTAAAATTTAAAAAATGTATAAACAAT
* *
60533455 TTAAAAATAAAAAAATGTATAAACTAAT
1 TTAAAATTTAAAAAATGTATAAAC-AAT
*
60533483 TT-AACTTTAAAAAAT
1 TTAAAATTTAAAAAAT
60533498 ATCAAAATCT
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
26 21 0.58
27 10 0.28
28 5 0.14
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.33
Consensus pattern (27 bp):
TTAAAATTTAAAAAATGTATAAACAAT
Found at i:60534355 original size:116 final size:114
Alignment explanation
Indices: 60534205--60534815 Score: 871
Period size: 116 Copynumber: 5.5 Consensus size: 114
60534195 ACGAAAATTT
* *
60534205 TTTTTTTTTAAATTTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAAGTTTTTTAAA
1 TTTTTTTTAAAATTTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAAATTTTTTAAA
60534270 TTTTTTTCGTATATTTATATCTGACTCTGACACGAAAAAAAAAGAAAACTA
66 TTTTTTTCGTATATTTATATCTGACTCTGACACG-AAAAAAAAGAAAA-TA
* * * **
60534321 TTTTTTTTTAAATTTGTACTAGGTGCCGGCCATTGACAGGCCAGCACCAAAAAAAAAATTTTAAA
1 TTTTTTTTAAAATTTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAAATTTTTTAAA
* *
60534386 TTTTTTTCGTATATTTATATCTAACTTTGACACG--AAAAAA-AAAA-A
66 TTTTTTTCGTATATTTATATCTGACTCTGACACGAAAAAAAAGAAAATA
*
60534431 -----TTTAAAATTTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAAAATTTTTAAA
1 TTTTTTTTAAAATTTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAAATTTTTTAAA
60534491 TTTTTTTCGTATATTTATATCTGACTCTGACACGAAAAAAAAGAAAA-A
66 TTTTTTTCGTATATTTATATCTGACTCTGACACGAAAAAAAAGAAAATA
*
60534539 TATTTTTTTAAAATTTGTATTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAAATTTTTTAA
1 T-TTTTTTTAAAATTTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAAATTTTTTAA
60534604 ATTTTTTTCGTATATTTATATCTGACTCTGACACGAAAAAAAAAAGAAAA-A
65 ATTTTTTTCGTATATTTATATCTGACTCTGACACG--AAAAAAAAGAAAATA
* * * * *
60534655 TATTTTTTAAAATTTGTATTGGGTGCCAGCCATTGACAGGCCAGCACCCAAAAAATTTTTTTTTA
1 TTTTTTTTAAAATTTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAA-ATTTTTTAA
*
60534720 A-TTTTTTCGTATATTTATATCTGACTCTGACACGAAAAAAAAGTAAAT-
65 ATTTTTTTCGTATATTTATATCTGACTCTGACACGAAAAAAAAGAAAATA
* *
60534768 TTTTTTTT--TA-CTGT--TGGGTGCCGGCCATTGACAGGCCAGCACCCAAAA
1 TTTTTTTTAAAATTTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAA
60534816 TTTTTTTTCC
Statistics
Matches: 458, Mismatches: 24, Indels: 34
0.89 0.05 0.07
Matches are distributed among these distances:
105 88 0.19
107 6 0.01
108 38 0.08
110 4 0.01
111 1 0.00
112 4 0.01
113 25 0.05
114 92 0.20
115 85 0.19
116 115 0.25
ACGTcount: A:0.35, C:0.16, G:0.14, T:0.35
Consensus pattern (114 bp):
TTTTTTTTAAAATTTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAAATTTTTTAAA
TTTTTTTCGTATATTTATATCTGACTCTGACACGAAAAAAAAGAAAATA
Found at i:60534831 original size:115 final size:111
Alignment explanation
Indices: 60534224--60534823 Score: 631
Period size: 115 Copynumber: 5.4 Consensus size: 111
60534214 AAATTTGTAC
* * *
60534224 TGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAA-GTTTTTTAAATTTTTTTCGTATATTTAT
1 TGGGTGCCAGCCATTGACAGGCCAGCACCCAAAAAATTTTTTTTTAA-TTTTTTCGTATATTTAT
* * *
60534288 ATCTGACTCTGACACGAAAAAAAAAGAAAACTATTTTTTTTTAAATTTGTAC
65 ATCTGACTCTGACACGAAAAAAAAAGAAAA--A-TATTTTTT--ATTTCTAT
* * **** *
60534340 TAGGTGCCGGCCATTGACAGGCCAGCA-CCAAAAAAAAAATTTTAAATTTTTTTCGTATATTTAT
1 TGGGTGCCAGCCATTGACAGGCCAGCACCCAAAAAATTTTTTTTTAA-TTTTTTCGTATATTTAT
* * *** * *
60534404 ATCTAACTTTGACACG----AAAAA-AAAAA-ATTTAAAATTTGTAC
65 ATCTGACTCTGACACGAAAAAAAAAGAAAAATATTTTTTATTTCTAT
* ** *
60534445 TGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAA-AATTTTTAAATTTTTTTCGTATATTTAT
1 TGGGTGCCAGCCATTGACAGGCCAGCACCCAAAAAATTTTTTTTTAA-TTTTTTCGTATATTTAT
*
60534509 ATCTGACTCTGACACG-AAAAAAAAGAAAAATATTTTTTTAAAATTTGTAT
65 ATCTGACTCTGACACGAAAAAAAAAGAAAAATA-TTTTTT---ATTTCTAT
* * *
60534559 TGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAA-ATTTTTTAAATTTTTTTCGTATATTTAT
1 TGGGTGCCAGCCATTGACAGGCCAGCACCCAAAAAATTTTTTTTTAA-TTTTTTCGTATATTTAT
*
60534623 ATCTGACTCTGACACGAAAAAAAAAAGAAAAATATTTTTTAAAATTTGTAT
65 ATCTGACTCTGACACG-AAAAAAAAAGAAAAATATTTTTT---ATTTCTAT
60534674 TGGGTGCCAGCCATTGACAGGCCAGCACCCAAAAAATTTTTTTTTAATTTTTTCGTATATTTATA
1 TGGGTGCCAGCCATTGACAGGCCAGCACCCAAAAAATTTTTTTTTAATTTTTTCGTATATTTATA
* *
60534739 TCTGACTCTGACACG-AAAAAAAAG-TAAAT-TTTTTT-TTTACTGT
66 TCTGACTCTGACACGAAAAAAAAAGAAAAATATTTTTTATTT-CTAT
*
60534782 TGGGTGCCGGCCATTGACAGGCCAGCACCC--AAAATTTTTTTT
1 TGGGTGCCAGCCATTGACAGGCCAGCACCCAAAAAATTTTTTTT
60534824 CCTTTTTTGT
Statistics
Matches: 443, Mismatches: 26, Indels: 40
0.87 0.05 0.08
Matches are distributed among these distances:
105 75 0.17
106 20 0.05
107 6 0.01
108 36 0.08
109 6 0.01
110 1 0.00
111 13 0.03
112 9 0.02
113 9 0.02
114 86 0.19
115 93 0.21
116 89 0.20
ACGTcount: A:0.35, C:0.16, G:0.14, T:0.34
Consensus pattern (111 bp):
TGGGTGCCAGCCATTGACAGGCCAGCACCCAAAAAATTTTTTTTTAATTTTTTCGTATATTTATA
TCTGACTCTGACACGAAAAAAAAAGAAAAATATTTTTTATTTCTAT
Found at i:60534840 original size:115 final size:108
Alignment explanation
Indices: 60534217--60534823 Score: 654
Period size: 114 Copynumber: 5.5 Consensus size: 108
60534207 TTTTTTTAAA
* ***
60534217 TTTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAAGTTTTTTAAATTTTTTTCGTAT
1 TTTGTATTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAA-TTTTTTTTTTTTTTTTCGTAT
*
60534282 ATTTATATCTGACTCTGACACGAAAAAAAAAGAAAACTATTTTTTTTT
65 ATTTATATCTGACTCTGACACG-AAAAAAAAGAAAA--A-TATTTTTT
* * * ** ***
60534330 AAATTTGTACTAGGTGCCGGCCATTGACAGGCCAGCACCAAAAAAAAAATTTTAAATTTTTTTCG
1 ---TTTGTATTGGGTGCCGGCCATTGACAGGCCAGCACC-CAAAAAATTTTTTTTTTTTTTTTCG
* * ****
60534395 TATATTTATATCTAACTTTGACACG--AAAAAA-AAAAAT-TTAAAA
62 TATATTTATATCTGACTCTGACACGAAAAAAAAGAAAAATATTTTTT
* * ***
60534438 TTTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAAAATTTTTAAATTTTTTTCGTAT
1 TTTGTATTGGGTGCCGGCCATTGACAGGCCAGCACCC-AAAAAATTTTTTTTTTTTTTTTCGTAT
60534503 ATTTATATCTGACTCTGACACGAAAAAAAAGAAAAATATTTTTTT
65 ATTTATATCTGACTCTGACACGAAAAAAAAGAAAAATA-TTTTTT
***
60534548 AAAATTTGTATTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAAATTTTTTAAATTTTTTTC
1 ----TTTGTATTGGGTGCCGGCCATTGACAGGCCAGCACCC-AAAAAATTTTTTTTTTTTTTTTC
60534613 GTATATTTATATCTGACTCTGACACGAAAAAAAAAAGAAAAATATTTTTT
61 GTATATTTATATCTGACTCTGACACG--AAAAAAAAGAAAAATATTTTTT
* *
60534663 AAAATTTGTATTGGGTGCCAGCCATTGACAGGCCAGCACCCAAAAAATTTTTTTTTAATTTTTTC
1 ----TTTGTATTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAATTTTTTTTT-TTTTTTTC
*
60534728 GTATATTTATATCTGACTCTGACACGAAAAAAAAG-TAAAT-TTTTTT
61 GTATATTTATATCTGACTCTGACACGAAAAAAAAGAAAAATATTTTTT
* *
60534774 TTTACTGTTGGGTGCCGGCCATTGACAGGCCAGCACCC--AAAATTTTTTTT
1 TTT-GTATTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAATTTTTTTT
60534824 CCTTTTTTGT
Statistics
Matches: 446, Mismatches: 30, Indels: 40
0.86 0.06 0.08
Matches are distributed among these distances:
105 81 0.18
106 12 0.03
107 9 0.02
108 39 0.09
109 1 0.00
110 3 0.01
111 6 0.01
112 8 0.02
113 15 0.03
114 97 0.22
115 79 0.18
116 90 0.20
117 6 0.01
ACGTcount: A:0.35, C:0.16, G:0.14, T:0.35
Consensus pattern (108 bp):
TTTGTATTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAATTTTTTTTTTTTTTTTCGTATA
TTTATATCTGACTCTGACACGAAAAAAAAGAAAAATATTTTTT
Found at i:60535032 original size:19 final size:18
Alignment explanation
Indices: 60535000--60535047 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
60534990 GTTATTTTAG
*
60535000 TAATTA-TTTT-TAAATT
1 TAATTATTTTTATAAATA
60535016 TAGATTATTTTTATAAATA
1 TA-ATTATTTTTATAAATA
60535035 TAATTTATTTTTA
1 TAA-TTATTTTTA
60535048 GATTAATTTG
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
16 2 0.07
17 4 0.15
18 5 0.19
19 16 0.59
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (18 bp):
TAATTATTTTTATAAATA
Found at i:60535502 original size:23 final size:22
Alignment explanation
Indices: 60535458--60535502 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
60535448 TTTTTTTACT
* **
60535458 ATTTTTAAATATTTTATTTTTA
1 ATTTTTAAATATTTAAAGTTTA
60535480 ATTTTATAAATATTTAAAGTTTA
1 ATTTT-TAAATATTTAAAGTTTA
60535503 TATATAATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (22 bp):
ATTTTTAAATATTTAAAGTTTA
Found at i:60536973 original size:76 final size:76
Alignment explanation
Indices: 60536846--60536990 Score: 195
Period size: 76 Copynumber: 1.9 Consensus size: 76
60536836 GTAACGACCC
* * *
60536846 GATAGTCAGGGGTGTCGAAAAGTGCATTCCTGAGATTTCGTTCCCGTAAATCAGACTCGTAAATA
1 GATAGTCAGGGGTATCGAAAAGTGCATTCCTGAGATCTCATTCCCGTAAATCAGACTCGTAAATA
60536911 TTTAACAACTA
66 TTTAACAACTA
* * * *
60536922 GATAGTCAGGGGTATCGGAAAGTGTATT-CTCGAGA-CTCTATTCTCGTAAATCGGACTCGTAAA
1 GATAGTCAGGGGTATCGAAAAGTGCATTCCT-GAGATCTC-ATTCCCGTAAATCAGACTCGTAAA
60536985 TATTTA
64 TATTTA
60536991 TTAAAAATAT
Statistics
Matches: 60, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
75 4 0.07
76 56 0.93
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.30
Consensus pattern (76 bp):
GATAGTCAGGGGTATCGAAAAGTGCATTCCTGAGATCTCATTCCCGTAAATCAGACTCGTAAATA
TTTAACAACTA
Found at i:60537754 original size:19 final size:20
Alignment explanation
Indices: 60537727--60537764 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
60537717 TTTAGGCAAC
*
60537727 TATTGAATA-AAAATTGAAA
1 TATTCAATATAAAATTGAAA
*
60537746 TATTCAATATGAAATTGAA
1 TATTCAATATAAAATTGAA
60537765 TTGTGTTGTA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 8 0.50
20 8 0.50
ACGTcount: A:0.53, C:0.03, G:0.11, T:0.34
Consensus pattern (20 bp):
TATTCAATATAAAATTGAAA
Found at i:60538002 original size:5 final size:5
Alignment explanation
Indices: 60537974--60538020 Score: 60
Period size: 5 Copynumber: 9.4 Consensus size: 5
60537964 CACTTTGATT
* *
60537974 ATTGA ATTGA TTTAA AGTTG- ATTGA ATTGA ATTGA ATTGA ATTGA AT
1 ATTGA ATTGA ATTGA A-TTGA ATTGA ATTGA ATTGA ATTGA ATTGA AT
60538021 ATGTGTTAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
4 3 0.08
5 31 0.86
6 2 0.06
ACGTcount: A:0.38, C:0.00, G:0.19, T:0.43
Consensus pattern (5 bp):
ATTGA
Found at i:60540785 original size:19 final size:17
Alignment explanation
Indices: 60540752--60540786 Score: 52
Period size: 19 Copynumber: 1.9 Consensus size: 17
60540742 CTTTATTTTA
60540752 TTTAAGAATAAATTAAG
1 TTTAAGAATAAATTAAG
60540769 TTTATAGAATGAAATTAA
1 TTTA-AGAAT-AAATTAA
60540787 ATCATTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 5 0.31
19 7 0.44
ACGTcount: A:0.51, C:0.00, G:0.11, T:0.37
Consensus pattern (17 bp):
TTTAAGAATAAATTAAG
Found at i:60553516 original size:11 final size:11
Alignment explanation
Indices: 60553500--60553525 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
60553490 TAAGCATATA
60553500 TATTTTTAATT
1 TATTTTTAATT
60553511 TATTTTTAATT
1 TATTTTTAATT
60553522 TATT
1 TATT
60553526 AGGAAATATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (11 bp):
TATTTTTAATT
Found at i:60597488 original size:31 final size:31
Alignment explanation
Indices: 60597450--60597508 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
60597440 AAAAAAACTT
60597450 ACTTAAAT-AAAAGCTTTTGAATAATTTAATG
1 ACTTAAATGAAAA-CTTTTGAATAATTTAATG
* *
60597481 ACTTAAATGAAAATTTTTGAATAGTTTA
1 ACTTAAATGAAAACTTTTGAATAATTTA
60597509 GTGATCAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
31 21 0.84
32 4 0.16
ACGTcount: A:0.44, C:0.05, G:0.10, T:0.41
Consensus pattern (31 bp):
ACTTAAATGAAAACTTTTGAATAATTTAATG
Found at i:60597623 original size:18 final size:18
Alignment explanation
Indices: 60597596--60597631 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
60597586 AATATTTGTA
60597596 TTTTTTGTT-AATTTAAT
1 TTTTTTGTTAAATTTAAT
60597613 TTTTTTAGTTAAATTTAAT
1 TTTTTT-GTTAAATTTAAT
60597632 CGTTTACCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.35
18 3 0.18
19 8 0.47
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.67
Consensus pattern (18 bp):
TTTTTTGTTAAATTTAAT
Found at i:60603488 original size:27 final size:27
Alignment explanation
Indices: 60603453--60603507 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 27
60603443 AAACTGTTGG
*
60603453 TTTCATTTTTTCTCTTATTTTCAATTTT
1 TTTCATTTTATCTCTTATTTT-AATTTT
*
60603481 TTTC-TTTTATCTCTTCTTTTAATTTT
1 TTTCATTTTATCTCTTATTTTAATTTT
60603507 T
1 T
60603508 AATTATTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 7 0.28
27 14 0.56
28 4 0.16
ACGTcount: A:0.13, C:0.15, G:0.00, T:0.73
Consensus pattern (27 bp):
TTTCATTTTATCTCTTATTTTAATTTT
Found at i:60603742 original size:17 final size:17
Alignment explanation
Indices: 60603720--60603754 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
60603710 GGTGTCTAAA
60603720 AACTATATTTTTAAGTT
1 AACTATATTTTTAAGTT
*
60603737 AACTATGTTTTTAAGTT
1 AACTATATTTTTAAGTT
60603754 A
1 A
60603755 TTCCATGCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.34, C:0.06, G:0.09, T:0.51
Consensus pattern (17 bp):
AACTATATTTTTAAGTT
Found at i:60604968 original size:31 final size:31
Alignment explanation
Indices: 60604933--60604997 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 31
60604923 CTTTCAGAGC
60604933 TTTCATTCAAGTCATTGAACTATTTAAAAAT
1 TTTCATTCAAGTCATTGAACTATTTAAAAAT
* * * * *
60604964 TTTCATTTAGGTTATTGAACTATTTGAAAGT
1 TTTCATTCAAGTCATTGAACTATTTAAAAAT
60604995 TTT
1 TTT
60604998 TATTTGAGTC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.32, C:0.09, G:0.11, T:0.48
Consensus pattern (31 bp):
TTTCATTCAAGTCATTGAACTATTTAAAAAT
Found at i:60611393 original size:31 final size:31
Alignment explanation
Indices: 60611344--60611485 Score: 122
Period size: 31 Copynumber: 4.6 Consensus size: 31
60611334 AATGATCACC
* *
60611344 GAACTCTTCGAAAGTTTTCATTTAAGTCATT
1 GAACTATTCAAAAGTTTTCATTTAAGTCATT
* *
60611375 GAACTATTCAAAAATTTTCATTTAGGTCATT
1 GAACTATTCAAAAGTTTTCATTTAAGTCATT
* * ** * * ***
60611406 AAACTCTTTGAAAGTTTTTATTTAAATTGCT
1 GAACTATTCAAAAGTTTTCATTTAAGTCATT
* * * * *
60611437 AAATTATTCAAAAGTTCTCATTTAGGTTATT
1 GAACTATTCAAAAGTTTTCATTTAAGTCATT
60611468 GAACTATTCAAAAGTTTT
1 GAACTATTCAAAAGTTTT
60611486 TATGTAAATC
Statistics
Matches: 83, Mismatches: 28, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
31 83 1.00
ACGTcount: A:0.34, C:0.12, G:0.11, T:0.44
Consensus pattern (31 bp):
GAACTATTCAAAAGTTTTCATTTAAGTCATT
Found at i:60617306 original size:29 final size:30
Alignment explanation
Indices: 60617268--60617352 Score: 82
Period size: 29 Copynumber: 2.8 Consensus size: 30
60617258 CACTTTCTCT
60617268 GTAATGTTATATTTCTGTGACTACATTCTTA
1 GTAA-GTTATATTTCTGTGACTACATTCTTA
*** * * *
60617299 GTAA-TTATATTTCAAAGAATCACTTTCTTT
1 GTAAGTTATATTTCTGTGACT-ACATTCTTA
60617329 GTAATGTTATATTTCTGTGACTAC
1 GTAA-GTTATATTTCTGTGACTAC
60617353 GACCACTCGA
Statistics
Matches: 41, Mismatches: 10, Indels: 6
0.72 0.18 0.11
Matches are distributed among these distances:
29 12 0.29
30 11 0.27
31 6 0.15
32 12 0.29
ACGTcount: A:0.28, C:0.13, G:0.12, T:0.47
Consensus pattern (30 bp):
GTAAGTTATATTTCTGTGACTACATTCTTA
Found at i:60627863 original size:125 final size:124
Alignment explanation
Indices: 60627635--60627911 Score: 448
Period size: 125 Copynumber: 2.2 Consensus size: 124
60627625 TTCCTCTCAA
* * *
60627635 TTTCCAGGACCTACTGTA-ACAAAAGCGCGTCCAAGAGGGCGCGATTTCACAAGTTCTTCTCAAA
1 TTTCCAGGACCTACTGTAGA-AAAAGCGCGTCCAAGAGGCCGCGATTTCACAAATTCTTATCAAA
* *
60627699 TAGCATCCTGCTAGAAGCGATTTTATACTATTTGTTCAGAAACGTCAACTCGAAATTATT
65 CAGCATCCTGCTAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATT
*
60627759 TCTTCCAGGACCTACTGTAGAAAAAGCGCGTCCACGAGGCCGCGATTTCACAAATTCTTATCAAA
1 T-TTCCAGGACCTACTGTAGAAAAAGCGCGTCCAAGAGGCCGCGATTTCACAAATTCTTATCAAA
60627824 CAGCATCCTGCTAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATT
65 CAGCATCCTGCTAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATT
* * *
60627884 TTTTCAGGACCTACTATAGCAAAAGCGC
1 TTTCCAGGACCTACTGTAGAAAAAGCGC
60627912 ATAAACATAG
Statistics
Matches: 142, Mismatches: 9, Indels: 4
0.92 0.06 0.03
Matches are distributed among these distances:
124 25 0.18
125 116 0.82
126 1 0.01
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.28
Consensus pattern (124 bp):
TTTCCAGGACCTACTGTAGAAAAAGCGCGTCCAAGAGGCCGCGATTTCACAAATTCTTATCAAAC
AGCATCCTGCTAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATT
Found at i:60628612 original size:21 final size:19
Alignment explanation
Indices: 60628573--60628648 Score: 68
Period size: 20 Copynumber: 3.8 Consensus size: 19
60628563 AAAAATAATA
60628573 TAAAAAT-ATTCAAAAAATTT
1 TAAAAATAATTC--AAAATTT
60628593 TAATAAAATAATTCAAAA-TT
1 T-A-AAAATAATTCAAAATTT
60628613 TAAAAA-AATTCTAAAAATTT
1 TAAAAATAATTC--AAAATTT
60628633 TAAAAATAATATCAAA
1 TAAAAATAAT-TCAAA
60628649 TACTCATCAA
Statistics
Matches: 48, Mismatches: 0, Indels: 16
0.75 0.00 0.25
Matches are distributed among these distances:
17 5 0.10
18 4 0.08
19 5 0.10
20 15 0.31
21 8 0.17
22 7 0.15
23 4 0.08
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (19 bp):
TAAAAATAATTCAAAATTT
Found at i:60628617 original size:40 final size:39
Alignment explanation
Indices: 60628573--60628648 Score: 109
Period size: 40 Copynumber: 1.9 Consensus size: 39
60628563 AAAAATAATA
*
60628573 TAAAAATATTCAAAAAATTTTAATAAAATAAT-TCAAAATT
1 TAAAAAAATTCAAAAAATTTT-A-AAAATAATATCAAAATT
*
60628613 TAAAAAAATTCTAAAAATTTTAAAAATAATATCAAA
1 TAAAAAAATTCAAAAAATTTTAAAAATAATATCAAA
60628649 TACTCATCAA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
38 8 0.24
39 6 0.18
40 19 0.58
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (39 bp):
TAAAAAAATTCAAAAAATTTTAAAAATAATATCAAAATT
Found at i:60633867 original size:175 final size:172
Alignment explanation
Indices: 60633544--60634104 Score: 522
Period size: 173 Copynumber: 3.2 Consensus size: 172
60633534 TCAAACTAAG
* ** * *
60633544 AACTTAAATGATTTA-TTTTTAATACCCCGTTACAATACTTC--AAACACTTCTTTAACTTCAAT
1 AACTTGAATGATTTACTTTTTAATACCCTATTACAACACTTCAAAAACACTTCTTCAACTTCAA-
* ** * * * * * ** * * * ** *
60633606 GAAA-TAAAAAAATAAGCTTTCCAAACGAGGATAATGCACTTCAAAATACTTGAAATCATATCAT
65 CAAAGTGCAAGAATAAACTTTCCGAACAAAGATAACACACTTCAACACAC-TCAAATCA-GCCCT
* *
60633670 CTTACATTAATAAGAAATTCATGCCAATCAAGTTAAGACTCAATC
128 CCTACATTAGTAAGAAATTCATGCCAATCAAGTTAAGACTCAATC
* * * * *
60633715 AATTTGAATGGTTTACTTTTTTAATACCTTGTTACAATAC-TCAAAAAGCACTTCTTCAACTTCA
1 AACTTGAATGATTTAC-TTTTTAATACCCTATTACAACACTTCAAAAA-CACTTCTTCAACTTCA
* * * *
60633779 ACAAAGTGCACGAATAAACTTTCCGAACAAGGATAATACACTTCAACACA-TCAAATTCATCTCC
64 ACAAAGTGCAAGAATAAACTTTCCGAACAAAGATAACACACTTCAACACACTCAAA-TCAGC-CC
* * *
60633843 TCCTACATTAGTAAGAATATTCATGTCAATTAAGTTAAGACTTAATC
127 TCCTACATTAGTAAGAA-ATTCATGCCAATCAAGTTAAGACTCAATC
* * * * **
60633890 AACTTAAATGATTTACTTTTTAATACCCTATTACAACACTTCAACAATACTTTTTCAACTTCAGT
1 AACTTGAATGATTTACTTTTTAATACCCTATTACAACACTTCAAAAACACTTCTTCAACTTCAAC
* * * *
60633955 GAAGTGCAAGAATAAATTTTCCGAACAAAGATAACACACTTCAACATACTCAAATGAGCCCTCCT
66 AAAGTGCAAGAATAAACTTTCCGAACAAAGATAACACACTTCAACACACTCAAATCAGCCCTCCT
* * * * * * * *
60634020 ATATTAGTAAGAACGTCCATACCAATCAAGTTAAAATTGAATT
131 ACATTAGTAAGAA-ATTCATGCCAATCAAGTTAAGACTCAATC
60634063 AACTTGAATGATTTACTTTTTAATACCCTATTACAACACTTC
1 AACTTGAATGATTTACTTTTTAATACCCTATTACAACACTTC
60634105 GAATTAACTT
Statistics
Matches: 322, Mismatches: 57, Indels: 20
0.81 0.14 0.05
Matches are distributed among these distances:
171 12 0.04
172 2 0.01
173 104 0.32
174 104 0.32
175 100 0.31
ACGTcount: A:0.39, C:0.20, G:0.08, T:0.32
Consensus pattern (172 bp):
AACTTGAATGATTTACTTTTTAATACCCTATTACAACACTTCAAAAACACTTCTTCAACTTCAAC
AAAGTGCAAGAATAAACTTTCCGAACAAAGATAACACACTTCAACACACTCAAATCAGCCCTCCT
ACATTAGTAAGAAATTCATGCCAATCAAGTTAAGACTCAATC
Found at i:60633978 original size:174 final size:171
Alignment explanation
Indices: 60633544--60634104 Score: 558
Period size: 174 Copynumber: 3.2 Consensus size: 171
60633534 TCAAACTAAG
** *
60633544 AACTTAAATGATTTA-TTTTTAATACCCCGTTACAATACTTC-AAACACTTCTTT-AACTTCAAT
1 AACTTAAATGATTTACTTTTTAATACCCTATTACAACACTTCAAAACACTT-TTTCAACTTCAAT
* ** * * * * * * * * * *
60633606 GAAATAAAAAAATAAGCTTTCCAAACGAGGATAATGCACTTCAAAATACTTGAAATCATATCATC
65 GAAGTGCAAGAATAAACTTTCCGAACAAGGATAATACACTTC--AACACATCAAATCATCTCCTC
* * *
60633671 TTACATTAATAAGAAATTCATGCCAATCAAGTTAAGACTCAATC
128 CTACATTAGTAAGAAATTCATGCCAATCAAGTTAAGACTTAATC
* * * * * * *
60633715 AATTTGAATGGTTTACTTTTTTAATACCTTGTTACAATAC-TCAAAAAGCACTTCTTCAACTTCA
1 AACTTAAATGATTTAC-TTTTTAATACCCTATTACAACACTTC-AAAA-CACTTTTTCAACTTCA
** *
60633779 ACAAAGTGCACGAATAAACTTTCCGAACAAGGATAATACACTTCAACACATCAAATTCATCTCCT
63 ATGAAGTGCAAGAATAAACTTTCCGAACAAGGATAATACACTTCAACACATCAAA-TCATCTCCT
* *
60633844 CCTACATTAGTAAGAATATTCATGTCAATTAAGTTAAGACTTAATC
127 CCTACATTAGTAAGAA-ATTCATGCCAATCAAGTTAAGACTTAATC
* *
60633890 AACTTAAATGATTTACTTTTTAATACCCTATTACAACACTTCAACAATACTTTTTCAACTTCAGT
1 AACTTAAATGATTTACTTTTTAATACCCTATTACAACACTTCAA-AACACTTTTTCAACTTCAAT
* * * * * *
60633955 GAAGTGCAAGAATAAATTTTCCGAACAAAGATAACACACTTCAACATACTCAAATGAGC-CCTCC
65 GAAGTGCAAGAATAAACTTTCCGAACAAGGATAATACACTTCAACACA-TCAAATCATCTCCTCC
* * * * * *
60634019 TATATTAGTAAGAACGTCCATACCAATCAAGTTAA-AATTGAATT
129 TACATTAGTAAGAA-ATTCATGCCAATCAAGTTAAGACTT-AATC
*
60634063 AACTTGAATGATTTACTTTTTAATACCCTATTACAACACTTC
1 AACTTAAATGATTTACTTTTTAATACCCTATTACAACACTTC
60634105 GAATTAACTT
Statistics
Matches: 323, Mismatches: 55, Indels: 22
0.81 0.14 0.05
Matches are distributed among these distances:
171 12 0.04
172 5 0.02
173 106 0.33
174 107 0.33
175 93 0.29
ACGTcount: A:0.39, C:0.20, G:0.08, T:0.32
Consensus pattern (171 bp):
AACTTAAATGATTTACTTTTTAATACCCTATTACAACACTTCAAAACACTTTTTCAACTTCAATG
AAGTGCAAGAATAAACTTTCCGAACAAGGATAATACACTTCAACACATCAAATCATCTCCTCCTA
CATTAGTAAGAAATTCATGCCAATCAAGTTAAGACTTAATC
Found at i:60637151 original size:30 final size:30
Alignment explanation
Indices: 60637108--60637166 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
60637098 AAAGTTATAT
*
60637108 TTTAAAATCTATAATAATAATAATTTTTTAA
1 TTTAAAATCTATAAAAATAAT-ATTTTTTAA
* *
60637139 TTTAATAT-TATAAAAATTATATTTTTTA
1 TTTAAAATCTATAAAAATAATATTTTTTA
60637167 TTATCGTACA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 8 0.32
30 10 0.40
31 7 0.28
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.53
Consensus pattern (30 bp):
TTTAAAATCTATAAAAATAATATTTTTTAA
Found at i:60661088 original size:94 final size:94
Alignment explanation
Indices: 60660922--60661161 Score: 259
Period size: 94 Copynumber: 2.6 Consensus size: 94
60660912 AAGCTTGGGT
* *
60660922 GGTGTATGTTTTATAACTTTGTAAAATTTAGTTAAGTG-CTTTAAGAGGCTAGAAGCAATTATTC
1 GGTGTATGCTTTATAACTTTGTAAAATTTAGATAAGTGTC-TTAAGAGGCTAGAAGCAATTATTC
* * *
60660986 TATGAAACTTAGTGAGCAATTTCCTTTTAG-
65 TATGAAACTTAGCGACCAATTTCC-TGTAGA
* * * * * ** * *
60661016 GGTGTTTGCTTTATAACTTTATAAAATTTAGCTAAGTGTCTTATGAGGTTAGAAGTGATTCTTTT
1 GGTGTATGCTTTATAACTTTGTAAAATTTAGATAAGTGTCTTAAGAGGCTAGAAGCAATTATTCT
* *
60661081 ATTAAACTTAGCGACCAATTTCCTGTCGA
66 ATGAAACTTAGCGACCAATTTCCTGTAGA
* * * * *
60661110 GGTGTCTACTTTAAAACTTTGTAAAATGTAGATAAGTGTCTTAAAAGGCTAG
1 GGTGTATGCTTTATAACTTTGTAAAATTTAGATAAGTGTCTTAAGAGGCTAG
60661162 CAACTTTTCT
Statistics
Matches: 120, Mismatches: 24, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
93 3 0.03
94 116 0.97
95 1 0.01
ACGTcount: A:0.30, C:0.11, G:0.19, T:0.40
Consensus pattern (94 bp):
GGTGTATGCTTTATAACTTTGTAAAATTTAGATAAGTGTCTTAAGAGGCTAGAAGCAATTATTCT
ATGAAACTTAGCGACCAATTTCCTGTAGA
Found at i:60663878 original size:9 final size:9
Alignment explanation
Indices: 60663864--60663894 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
60663854 GTTAAACAAA
60663864 TCGAGTTAT
1 TCGAGTTAT
*
60663873 TCGAGTTAA
1 TCGAGTTAT
60663882 TCGAGTTAT
1 TCGAGTTAT
60663891 TCGA
1 TCGA
60663895 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:60664058 original size:30 final size:30
Alignment explanation
Indices: 60664019--60664078 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
60664009 CTCTCAAACT
*
60664019 TTTTTACTTTTCCCTCA-AAACTTTTACTCC
1 TTTTCACTTTTCCC-CAGAAACTTTTACTCC
60664049 TTTTCACTTTTCCCCAGAAACTTTTACTCC
1 TTTTCACTTTTCCCCAGAAACTTTTACTCC
60664079 CCTACCCTCC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 2 0.07
30 26 0.93
ACGTcount: A:0.20, C:0.32, G:0.02, T:0.47
Consensus pattern (30 bp):
TTTTCACTTTTCCCCAGAAACTTTTACTCC
Found at i:60671889 original size:18 final size:18
Alignment explanation
Indices: 60671868--60671907 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
60671858 CCTAAAAACT
60671868 AAAAAAAAAACCCAAAAG
1 AAAAAAAAAACCCAAAAG
* * *
60671886 AAAAAAAGAATCGAAAAG
1 AAAAAAAAAACCCAAAAG
60671904 AAAA
1 AAAA
60671908 TCAAGGTAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.78, C:0.10, G:0.10, T:0.03
Consensus pattern (18 bp):
AAAAAAAAAACCCAAAAG
Found at i:60674453 original size:20 final size:21
Alignment explanation
Indices: 60674428--60674479 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 21
60674418 TTATGCAAAA
*
60674428 AAAAAAACTAAA-TAAAACCC
1 AAAAAAACTAAATTAAAACAC
**
60674448 AAAAAAA-TAAATTAAATTAC
1 AAAAAAACTAAATTAAAACAC
60674468 AAAAAAACTAAA
1 AAAAAAACTAAA
60674480 CATATGTCTA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 4 0.15
20 19 0.70
21 4 0.15
ACGTcount: A:0.73, C:0.12, G:0.00, T:0.15
Consensus pattern (21 bp):
AAAAAAACTAAATTAAAACAC
Found at i:60675336 original size:43 final size:43
Alignment explanation
Indices: 60675271--60675355 Score: 127
Period size: 43 Copynumber: 2.0 Consensus size: 43
60675261 CCACTCATCC
60675271 CAACCCCCACCACCGCCACCTTCCCTCTCACTCCTCACCGTCT
1 CAACCCCCACCACCGCCACCTTCCCTCTCACTCCTCACCGTCT
* * *
60675314 CAACCCCCACCATCGTTC-CCTTCCCTTTCACTCCTCACCGTC
1 CAACCCCCACCACCG-CCACCTTCCCTCTCACTCCTCACCGTC
60675356 GATCTCACCA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
43 37 0.97
44 1 0.03
ACGTcount: A:0.15, C:0.58, G:0.05, T:0.22
Consensus pattern (43 bp):
CAACCCCCACCACCGCCACCTTCCCTCTCACTCCTCACCGTCT
Found at i:60675374 original size:43 final size:43
Alignment explanation
Indices: 60675289--60675375 Score: 104
Period size: 43 Copynumber: 2.0 Consensus size: 43
60675279 ACCACCGCCA
* * *
60675289 CCTTCCCTCTCACTCCTCACCGTCTCAACCCCCACCATCGTTC
1 CCTTCCCTCTCACTCCTCACCGTCTCAACCACCACAAACGTTC
* * *
60675332 CCTTCCCTTTCACTCCTCACCGTC-GATCTCACCACAAACGTTC
1 CCTTCCCTCTCACTCCTCACCGTCTCAAC-CACCACAAACGTTC
60675375 C
1 C
60675376 AAAACCTTCT
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
42 2 0.05
43 35 0.95
ACGTcount: A:0.16, C:0.52, G:0.06, T:0.26
Consensus pattern (43 bp):
CCTTCCCTCTCACTCCTCACCGTCTCAACCACCACAAACGTTC
Found at i:60679240 original size:29 final size:29
Alignment explanation
Indices: 60679186--60679242 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
60679176 ATTAAAACAA
* *
60679186 AAAAAATTTTAAACATTAGTATCTAAAAT
1 AAAAAATTTTAAACATTAATAACTAAAAT
60679215 AAAAAATTTTAAA-ATTAAATAACTAAAA
1 AAAAAATTTTAAACATT-AATAACTAAAA
60679243 CAGAAATATG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 3 0.12
29 22 0.88
ACGTcount: A:0.61, C:0.05, G:0.02, T:0.32
Consensus pattern (29 bp):
AAAAAATTTTAAACATTAATAACTAAAAT
Found at i:60681252 original size:23 final size:22
Alignment explanation
Indices: 60681226--60681270 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
60681216 TATTGAATTT
*
60681226 TTTATTGAAGTTATATTATAAAA
1 TTTATTGAA-ATATATTATAAAA
*
60681249 TTTATTTAAATATATTATAAAA
1 TTTATTGAAATATATTATAAAA
60681271 ATTAATTATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 12 0.60
23 8 0.40
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (22 bp):
TTTATTGAAATATATTATAAAA
Found at i:60681265 original size:22 final size:24
Alignment explanation
Indices: 60681237--60681293 Score: 73
Period size: 23 Copynumber: 2.4 Consensus size: 24
60681227 TTATTGAAGT
*
60681237 TATATTATAAAATTTATT-TA-AA
1 TATATTATAAAATTAATTATATAA
60681259 TATATTATAAAAATTAATTATATAA
1 TATATTAT-AAAATTAATTATATAA
60681284 TATAATTATA
1 TAT-ATTATA
60681294 GTATTTGATT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
22 8 0.27
23 9 0.30
24 2 0.07
25 6 0.20
26 5 0.17
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (24 bp):
TATATTATAAAATTAATTATATAA
Found at i:60681697 original size:15 final size:15
Alignment explanation
Indices: 60681654--60681702 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
60681644 ATAACTTAAA
*
60681654 TTCAACATTTAA-TT
1 TTCAACACTTAATTT
*
60681668 TTCTAATACTT-ATTT
1 TTC-AACACTTAATTT
60681683 TTCAACACTTAATTT
1 TTCAACACTTAATTT
60681698 TTCAA
1 TTCAA
60681703 TTTATCAAAC
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
14 10 0.34
15 19 0.66
ACGTcount: A:0.33, C:0.16, G:0.00, T:0.51
Consensus pattern (15 bp):
TTCAACACTTAATTT
Found at i:60694420 original size:25 final size:27
Alignment explanation
Indices: 60694386--60694436 Score: 88
Period size: 25 Copynumber: 2.0 Consensus size: 27
60694376 AGAGAAAGAG
60694386 ATTAACATGGATTTTC-AC-AATATAT
1 ATTAACATGGATTTTCTACTAATATAT
60694411 ATTAACATGGATTTTCTACTAATATA
1 ATTAACATGGATTTTCTACTAATATA
60694437 ACTTCTACAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 16 0.67
26 2 0.08
27 6 0.25
ACGTcount: A:0.39, C:0.12, G:0.08, T:0.41
Consensus pattern (27 bp):
ATTAACATGGATTTTCTACTAATATAT
Found at i:60696188 original size:29 final size:30
Alignment explanation
Indices: 60696153--60696210 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 30
60696143 TTACTTTAAC
60696153 GTGTAATATTATAAAT-AAATTTTAATTTT
1 GTGTAATATTATAAATGAAATTTTAATTTT
* *
60696182 GTGTAATTTTATATATGAAATTTTAATTT
1 GTGTAATATTATAAATGAAATTTTAATTT
60696211 GATCCAATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 14 0.54
30 12 0.46
ACGTcount: A:0.38, C:0.00, G:0.09, T:0.53
Consensus pattern (30 bp):
GTGTAATATTATAAATGAAATTTTAATTTT
Found at i:60701527 original size:11 final size:10
Alignment explanation
Indices: 60701504--60701544 Score: 50
Period size: 9 Copynumber: 4.1 Consensus size: 10
60701494 AAGAGAATAT
60701504 TTTTAA-TTA
1 TTTTAATTTA
60701513 TTTTAATTGTA
1 TTTTAATT-TA
60701524 TTTT-ATTTA
1 TTTTAATTTA
60701533 TTTTAATGTTA
1 TTTTAAT-TTA
60701544 T
1 T
60701545 ATTATCTTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
9 12 0.43
10 6 0.21
11 10 0.36
ACGTcount: A:0.27, C:0.00, G:0.05, T:0.68
Consensus pattern (10 bp):
TTTTAATTTA
Found at i:60701549 original size:20 final size:21
Alignment explanation
Indices: 60701510--60701554 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
60701500 ATATTTTTAA
*
60701510 TTATTTTAATTGTATTTTAT-
1 TTATTTTAATTGTATATTATC
60701530 TTATTTTAA-TGTTATATTATC
1 TTATTTTAATTG-TATATTATC
60701551 TTAT
1 TTAT
60701555 AAAAACTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 2 0.09
20 16 0.73
21 4 0.18
ACGTcount: A:0.27, C:0.02, G:0.04, T:0.67
Consensus pattern (21 bp):
TTATTTTAATTGTATATTATC
Found at i:60702127 original size:3 final size:3
Alignment explanation
Indices: 60702119--60702204 Score: 172
Period size: 3 Copynumber: 28.7 Consensus size: 3
60702109 AATAATTTGA
60702119 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
60702167 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
60702205 TGAGTCAAAC
Statistics
Matches: 83, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 83 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:60708416 original size:6 final size:6
Alignment explanation
Indices: 60708405--60708457 Score: 52
Period size: 6 Copynumber: 8.8 Consensus size: 6
60708395 TGTTAAAAAT
* * * * * *
60708405 ATAATA ATAATA ATAGTA ATAATA TTAATA TTAATG ATAGTA ATAGTA
1 ATAATA ATAATA ATAATA ATAATA ATAATA ATAATA ATAATA ATAATA
60708453 ATAAT
1 ATAAT
60708458 GAAGTTCGAG
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
6 39 1.00
ACGTcount: A:0.55, C:0.00, G:0.08, T:0.38
Consensus pattern (6 bp):
ATAATA
Found at i:60708419 original size:9 final size:9
Alignment explanation
Indices: 60708405--60708457 Score: 52
Period size: 9 Copynumber: 5.9 Consensus size: 9
60708395 TGTTAAAAAT
60708405 ATAATAATA
1 ATAATAATA
*
60708414 ATAATAGTA
1 ATAATAATA
*
60708423 ATAATATTA
1 ATAATAATA
* *
60708432 ATATTAATG
1 ATAATAATA
*
60708441 ATAGTAATA
1 ATAATAATA
*
60708450 GTAATAAT
1 ATAATAAT
60708458 GAAGTTCGAG
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
9 35 1.00
ACGTcount: A:0.55, C:0.00, G:0.08, T:0.38
Consensus pattern (9 bp):
ATAATAATA
Found at i:60708426 original size:15 final size:15
Alignment explanation
Indices: 60708402--60708457 Score: 69
Period size: 15 Copynumber: 3.8 Consensus size: 15
60708392 AATTGTTAAA
60708402 AATA-TAATAATAAT
1 AATAGTAATAATAAT
*
60708416 AATAGTAATAATATT
1 AATAGTAATAATAAT
* * *
60708431 AATATTAATGATAGT
1 AATAGTAATAATAAT
60708446 AATAGTAATAAT
1 AATAGTAATAAT
60708458 GAAGTTCGAG
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
14 4 0.11
15 31 0.89
ACGTcount: A:0.55, C:0.00, G:0.07, T:0.38
Consensus pattern (15 bp):
AATAGTAATAATAAT
Found at i:60715842 original size:17 final size:18
Alignment explanation
Indices: 60715808--60715844 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
60715798 TTTTTAGAAT
*
60715808 TTAAAATTTCTAGAAAAA
1 TTAAAATTTATAGAAAAA
60715826 TTAAAATTTAT-GAAAAA
1 TTAAAATTTATAGAAAAA
60715843 TT
1 TT
60715845 TTCTAGAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.54, C:0.03, G:0.05, T:0.38
Consensus pattern (18 bp):
TTAAAATTTATAGAAAAA
Found at i:60715965 original size:40 final size:39
Alignment explanation
Indices: 60715915--60716017 Score: 104
Period size: 40 Copynumber: 2.6 Consensus size: 39
60715905 TTATACAAAA
60715915 TTTT-GAATTTTTATATATTATTTTGAAA-TTTATATTTAT
1 TTTTAGAATTTTTATATATTATTTTGAAACTTT-T-TTTAT
* *
60715954 ATTTTAG-ATTTTTATAAAAATTATTTTTAAACTTTTTTTAT
1 -TTTTAGAATTTTTAT--ATATTATTTTGAAACTTTTTTTAT
*
60715995 TTTTTGAATTATTTATATATTAT
1 TTTTAGAATT-TTTATATATTAT
60716018 ATATAATTAT
Statistics
Matches: 53, Mismatches: 4, Indels: 12
0.77 0.06 0.17
Matches are distributed among these distances:
40 23 0.43
41 9 0.17
42 18 0.34
43 3 0.06
ACGTcount: A:0.32, C:0.01, G:0.04, T:0.63
Consensus pattern (39 bp):
TTTTAGAATTTTTATATATTATTTTGAAACTTTTTTTAT
Found at i:60715969 original size:21 final size:19
Alignment explanation
Indices: 60715914--60715969 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 19
60715904 TTTATACAAA
60715914 ATTTTGAATTTTTATATATT
1 ATTTTG-ATTTTTATATATT
** *
60715934 ATTTTGAAATTTATATTTAT
1 ATTTTGATTTTTATATAT-T
60715954 ATTTTAGATTTTTATA
1 ATTTT-GATTTTTATA
60715970 AAAATTATTT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
19 9 0.31
20 12 0.41
21 8 0.28
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.62
Consensus pattern (19 bp):
ATTTTGATTTTTATATATT
Found at i:60716010 original size:42 final size:41
Alignment explanation
Indices: 60715914--60716011 Score: 105
Period size: 42 Copynumber: 2.4 Consensus size: 41
60715904 TTTATACAAA
*
60715914 ATTTTGAATTTTTAT-ATATTATTTTGAAATTTATATTTAT
1 ATTTTGAATTTTTATAAAATTATTTTGAAATTTATATTTAT
*
60715954 ATTTT-AGATTTTTATAAAAATTATTTTTAAACTTT-T-TTTAT
1 ATTTTGA-ATTTTTAT-AAAATTATTTTGAAA-TTTATATTTAT
*
60715995 TTTTTGAATTATTTATA
1 ATTTTGAATT-TTTATA
60716012 TATTATATAT
Statistics
Matches: 49, Mismatches: 3, Indels: 11
0.78 0.05 0.17
Matches are distributed among these distances:
39 1 0.02
40 13 0.27
41 13 0.27
42 19 0.39
43 3 0.06
ACGTcount: A:0.33, C:0.01, G:0.04, T:0.62
Consensus pattern (41 bp):
ATTTTGAATTTTTATAAAATTATTTTGAAATTTATATTTAT
Found at i:60722790 original size:42 final size:42
Alignment explanation
Indices: 60722717--60722802 Score: 102
Period size: 42 Copynumber: 2.0 Consensus size: 42
60722707 AAAGATTTTT
* * *
60722717 TGTCTCACATGGCCTAGTCACACGCCGATGTCATTGCTCGTG
1 TGTCTCACACGGCCTAGTCACACACCCATGTCATTGCTCGTG
* * *
60722759 TGTCTCACACGGCCTGAG-CACATACCCATGTCCTTGGTCGTG
1 TGTCTCACACGGCCT-AGTCACACACCCATGTCATTGCTCGTG
60722801 TG
1 TG
60722803 GTTTTAAAGC
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
42 35 0.95
43 2 0.05
ACGTcount: A:0.16, C:0.31, G:0.24, T:0.28
Consensus pattern (42 bp):
TGTCTCACACGGCCTAGTCACACACCCATGTCATTGCTCGTG
Found at i:60727996 original size:25 final size:26
Alignment explanation
Indices: 60727926--60728009 Score: 61
Period size: 25 Copynumber: 3.3 Consensus size: 26
60727916 ATATGTACAT
*
60727926 ATTATAAAA-ATGTATAAACATAT-A-A
1 ATTATAAAACATG-A-AAATATATAATA
*
60727951 ATTATAAAACGTGAAAATATA-AATA
1 ATTATAAAACATGAAAATATATAATA
* **
60727976 ATTATAAAATATGAATGTATATAAT-
1 ATTATAAAACATGAAAATATATAATA
60728001 ATATATAAA
1 AT-TATAAA
60728010 CTATATATAT
Statistics
Matches: 48, Mismatches: 6, Indels: 9
0.76 0.10 0.14
Matches are distributed among these distances:
24 7 0.15
25 30 0.62
26 11 0.23
ACGTcount: A:0.58, C:0.02, G:0.06, T:0.33
Consensus pattern (26 bp):
ATTATAAAACATGAAAATATATAATA
Found at i:60728145 original size:3 final size:3
Alignment explanation
Indices: 60728131--60728193 Score: 67
Period size: 3 Copynumber: 21.3 Consensus size: 3
60728121 ATATGTAAGT
* * *
60728131 ATA ATA AAA ATA ATA ATA ATA GTT ATA ATA ATA ATA ATA ATA ATA ACT-
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA
*
60728179 ATA TTA ATA A-A ATA A
1 ATA ATA ATA ATA ATA A
60728194 ACTAAAAACT
Statistics
Matches: 49, Mismatches: 8, Indels: 6
0.78 0.13 0.10
Matches are distributed among these distances:
2 3 0.06
3 45 0.92
4 1 0.02
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:60730304 original size:44 final size:44
Alignment explanation
Indices: 60729529--60730306 Score: 246
Period size: 44 Copynumber: 17.7 Consensus size: 44
60729519 GAATTACTGG
* * * * *
60729529 CTTCAATGTACTCCACTG-TAACCTCAGGGAGGTAAAATCTGTCAT
1 CTTCAATCTACTCCACTGAT-GCCT-AGGGAGATAAGATCTGTAAT
* *
60729574 CTTCGATCTACTCCACTAATGCCTAGGGAGATAAGATCTGTAAT
1 CTTCAATCTACTCCACTGATGCCTAGGGAGATAAGATCTGTAAT
* * * * *
60729618 CTTCAATCTATTCCACTGCTGCCCAGGGAGAT-AGA-AT-TACT
1 CTTCAATCTACTCCACTGATGCCTAGGGAGATAAGATCTGTAAT
* * * * **
60729659 GGCTTCAATGTACTCCACTG-TAACCTCAGGGAGGTAAAATCTGCCAT
1 --CTTCAATCTACTCCACTGAT-GCCT-AGGGAGATAAGATCTGTAAT
* *
60729706 CTTCGATCTACTCCACTAATGCCTAGGGAGATAAGATCTGTAAT
1 CTTCAATCTACTCCACTGATGCCTAGGGAGATAAGATCTGTAAT
* * * *
60729750 CTTCAATCTATTCCACTGCTG-CTCAGGGAGAT-AGA-AT-TACT
1 CTTCAATCTACTCCACTGATGCCT-AGGGAGATAAGATCTGTAAT
* * * * * * ****
60729791 GGCTTTAATGTACTCCACTG-TAACCACAGGGAGGTAAAATCCACCAT
1 --CTTCAATCTACTCCACTGAT-GCC-TAGGGAGATAAGATCTGTAAT
** * * * * * **
60729838 CTTTGATCTGCCCCA-TTACTGCTTAGGGAGACAAGATCTAAAAT
1 CTTCAATCTACTCCACTGA-TGCCTAGGGAGATAAGATCTGTAAT
* * * *
60729882 CTTCAATCTATTCCACTGCTGTCC-AGGGA-AGT-AGA-AT-TACTAG
1 CTTCAATCTACTCCACTGATG-CCTAGGGAGA-TAAGATCTGTA--AT
* * * * *
60729925 CTTCAATGTACTCCACTG-TAACCATAGGGAGGTAAAAT-T-CACCAT
1 CTTCAATCTACTCCACTGAT-GCC-TAGGGAGATAAGATCTGTA--AT
** * * * * *
60729970 CTTTGATCTGCCCCACT-ACTGCTTAGGGAGACAAGATCTGAAAT
1 CTTCAATCTACTCCACTGA-TGCCTAGGGAGATAAGATCTGTAAT
* * * * * *
60730014 CTTTAATCTATTCCACTGCTGCCCAGGGA-AGT-AGA-AT-TACT
1 CTTCAATCTACTCCACTGATGCCTAGGGAGA-TAAGATCTGTAAT
* * * * *
60730055 GGCTTCAATGTACTCCACTG-TAACCTCAGGGAGGTAAAATCTGTCAT
1 --CTTCAATCTACTCCACTGAT-GCCT-AGGGAGATAAGATCTGTAAT
* * *
60730102 CTTCGATCTACTCCACTAATGACTAGGGAGATAAGATCTGTAAT
1 CTTCAATCTACTCCACTGATGCCTAGGGAGATAAGATCTGTAAT
* * * * *
60730146 CTTCAATCTATTCCACTGCTGCCCAGGGAGAT-AGA-AT-TACT
1 CTTCAATCTACTCCACTGATGCCTAGGGAGATAAGATCTGTAAT
* * * * * * * **
60730187 GGCTTCAATGTACTCTACTG-TAACCACAGGAAGGTAAAATCTGCCAT
1 --CTTCAATCTACTCCACTGAT-GCC-TAGGGAGATAAGATCTGTAAT
* * *
60730234 CTTCGATCTACTCCACTAATGCCTAGGGAGATAAGATCAGTAAT
1 CTTCAATCTACTCCACTGATGCCTAGGGAGATAAGATCTGTAAT
* * *
60730278 CTTCAATCTATTCCACTGCTGTCTAGGGA
1 CTTCAATCTACTCCACTGATGCCTAGGGA
60730307 AGTAGAATTA
Statistics
Matches: 519, Mismatches: 160, Indels: 109
0.66 0.20 0.14
Matches are distributed among these distances:
41 12 0.02
42 12 0.02
43 103 0.20
44 266 0.51
45 111 0.21
46 10 0.02
47 5 0.01
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (44 bp):
CTTCAATCTACTCCACTGATGCCTAGGGAGATAAGATCTGTAAT
Found at i:60730668 original size:44 final size:44
Alignment explanation
Indices: 60730584--60730705 Score: 129
Period size: 44 Copynumber: 2.8 Consensus size: 44
60730574 AGAATTACGA
* * * *
60730584 CTTCAATGTACTCCACT-ATAACCTCAGGGAGGTAAAATCTGCCAT
1 CTTCAATCTACTCCACTAAT-GCCT-AGGGAGATAAAATCTGCAAT
* * *
60730629 CTTCGATCTACTCCACTAATGCCTAGGGAGATAAGATCTGTAAT
1 CTTCAATCTACTCCACTAATGCCTAGGGAGATAAAATCTGCAAT
* * *
60730673 CTTCAATCTATTCCACTACTGCCCAGGGAGATA
1 CTTCAATCTACTCCACTAATGCCTAGGGAGATA
60730706 GAATTACTGG
Statistics
Matches: 65, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
44 45 0.69
45 18 0.28
46 2 0.03
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (44 bp):
CTTCAATCTACTCCACTAATGCCTAGGGAGATAAAATCTGCAAT
Found at i:60731250 original size:132 final size:132
Alignment explanation
Indices: 60729509--60731219 Score: 2463
Period size: 132 Copynumber: 13.0 Consensus size: 132
60729499 CTACACTACT
* **
60729509 AGGGAAGTAAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGTCAT
1 AGGGAAGT-AGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTACCAT
* * * * * * *
60729574 CTTCGATCTACTCCACTAATGCCTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTG
65 CTTTGATCTGCCCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTG
60729639 CCC
130 CCC
* *
60729642 AGGG-AGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCAT
1 AGGGAAG-TAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTACCAT
* * * * * * *
60729706 CTTCGATCTACTCCACTAATGCCTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTG
65 CTTTGATCTGCCCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTG
*
60729771 CTC
130 CCC
* *
60729774 AGGG-AGATAGAATTACTGGCTTTAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCACCAT
1 AGGGAAG-TAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTACCAT
* *
60729838 CTTTGATCTGCCCCATTACTGCTTAGGGAGACAAGATCTAAAATCTTCAATCTATTCCACTGCTG
65 CTTTGATCTGCCCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTG
*
60729903 TCC
130 CCC
* *
60729906 AGGGAAGTAGAATTACTAGCTTCAATGTACTCCACTGTAACCATAGGGAGGTAAAAT-TCACCAT
1 AGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCT-ACCAT
*
60729970 CTTTGATCTGCCCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTTAATCTATTCCACTGCTG
65 CTTTGATCTGCCCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTG
60730035 CCC
130 CCC
* **
60730038 AGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGTCATC
1 AGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTACCATC
* * * * * *
60730103 TTCGATCTACTCCACTAATGAC-TAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTG
66 TTTGATCTGCCCCACTACTG-CTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTG
60730167 CCC
130 CCC
* * *
60730170 AGGG-AGATAGAATTACTGGCTTCAATGTACTCTACTGTAACCACAGGAAGGTAAAATCTGCCAT
1 AGGGAAG-TAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTACCAT
* * * * * * * *
60730234 CTTCGATCTACTCCACTAATGCCTAGGGAGATAAGATCAGTAATCTTCAATCTATTCCACTGCTG
65 CTTTGATCTGCCCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTG
* *
60730299 TCT
130 CCC
*
60730302 AGGGAAGTAGAATTACTAGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAAT-TCACCAT
1 AGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCT-ACCAT
* *
60730366 CTTTGATCTGCCCCACTATTGCTTAGGGAGACAAGATCTGAAATCTTTAATCTATTCCACTGCTG
65 CTTTGATCTGCCCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTG
60730431 CCC
130 CCC
* * *
60730434 AAGAAAGTAGAATTACTAGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAAT-TCACCAT
1 AGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCT-ACCAT
*
60730498 CTTTGATCTGCCCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTTAATCTATTCCACTGCTG
65 CTTTGATCTGCCCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTG
60730563 CCC
130 CCC
* * * * *
60730566 AGTGAAGTAGAATTAC-GACTTCAATGTACTCCACTATAACCTCAGGGAGGTAAAATCTGCCATC
1 AGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTACCATC
* * * * * * * *
60730630 TTCGATCTACTCCACTAATGCCTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTACTGC
66 TTTGATCTGCCCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGC
60730695 CC
131 CC
*
60730697 AGGG-AGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCACCAT
1 AGGGAAG-TAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTACCAT
* *
60730761 CTTTGATCTGCCCCATTACTGCCTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTG
65 CTTTGATCTGCCCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTG
*
60730826 TCC
130 CCC
* *
60730829 AGGGAAGTAGAATTACTAGCTTCAATGTACTCCACTGTAACCATAGGGAGGTAAAAT-TCACCAT
1 AGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCT-ACCAT
* *
60730893 CTTTAATCTGCCCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTTAATCTATTCCACTGCTG
65 CTTTGATCTGCCCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTG
60730958 CCC
130 CCC
60730961 AGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAAT-TCACCAT
1 AGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCT-ACCAT
60731025 CTTTGATCTGCCCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTG
65 CTTTGATCTGCCCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTG
60731090 CCC
130 CCC
* *
60731093 AGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGAAAAATCTGCCATC
1 AGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTACCATC
* * * * * * *
60731158 TTTGATCTGCTCCACTACCGCTTAGGGAGATAAGATCTGTAATATTCAATCTGTTCTACTGC
66 TTTGATCTGCCCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGC
60731220 AACTGAGGGA
Statistics
Matches: 1448, Mismatches: 115, Indels: 31
0.91 0.07 0.02
Matches are distributed among these distances:
130 2 0.00
131 115 0.08
132 1317 0.91
133 14 0.01
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.28
Consensus pattern (132 bp):
AGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTACCATC
TTTGATCTGCCCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGC
CC
Found at i:60732572 original size:23 final size:23
Alignment explanation
Indices: 60732540--60732589 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
60732530 AGCCTCTCCA
*
60732540 TTTTAC-TTTTCTATTTTTCAT-T
1 TTTTACTTTTTC-ATTTCTCATCT
60732562 TTTTCACTTTTTCATTTCTCATCT
1 TTTT-ACTTTTTCATTTCTCATCT
60732586 TTTT
1 TTTT
60732590 TTTTCTTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
22 4 0.17
23 10 0.42
24 10 0.42
ACGTcount: A:0.12, C:0.18, G:0.00, T:0.70
Consensus pattern (23 bp):
TTTTACTTTTTCATTTCTCATCT
Found at i:60737898 original size:25 final size:26
Alignment explanation
Indices: 60737852--60737911 Score: 61
Period size: 25 Copynumber: 2.3 Consensus size: 26
60737842 TAAACATATG
*
60737852 AATTATAAAACGTGAAAATATA-AAT
1 AATTATAAAACATGAAAATATATAAT
* **
60737877 AATTATAAAATATGAATGTATATAAT
1 AATTATAAAACATGAAAATATATAAT
60737903 -ATATATAAA
1 AAT-TATAAA
60737912 CTATATATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
25 20 0.69
26 9 0.31
ACGTcount: A:0.58, C:0.02, G:0.07, T:0.33
Consensus pattern (26 bp):
AATTATAAAACATGAAAATATATAAT
Found at i:60738043 original size:9 final size:9
Alignment explanation
Indices: 60738029--60738080 Score: 61
Period size: 9 Copynumber: 5.8 Consensus size: 9
60738019 ATATGTAAGT
60738029 ATAATAAAA
1 ATAATAAAA
*
60738038 ATAATAATA
1 ATAATAAAA
*
60738047 ATAATAATA
1 ATAATAAAA
*
60738056 GTAATAATAA
1 ATAATAA-AA
60738066 A-AATAAAA
1 ATAATAAAA
60738074 ATAATAA
1 ATAATAA
60738081 CTATATTAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
8 3 0.08
9 33 0.89
10 1 0.03
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (9 bp):
ATAATAAAA
Found at i:60738046 original size:6 final size:6
Alignment explanation
Indices: 60738029--60738097 Score: 70
Period size: 6 Copynumber: 11.7 Consensus size: 6
60738019 ATATGTAAGT
* * * *
60738029 ATAATA AAAATA ATAATA ATAATA ATAGTA ATAATA AAAATA AAAATA
1 ATAATA ATAATA ATAATA ATAATA ATAATA ATAATA ATAATA ATAATA
*
60738077 ATAACT- ATATTA ATAA-A ATAA
1 ATAA-TA ATAATA ATAATA ATAA
60738098 ACTAAAAACT
Statistics
Matches: 53, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
5 6 0.11
6 46 0.87
7 1 0.02
ACGTcount: A:0.68, C:0.01, G:0.01, T:0.29
Consensus pattern (6 bp):
ATAATA
Found at i:60738091 original size:15 final size:14
Alignment explanation
Indices: 60738029--60738096 Score: 61
Period size: 15 Copynumber: 4.9 Consensus size: 14
60738019 ATATGTAAGT
*
60738029 ATAATAAAAATAATA
1 ATAATAATAAT-ATA
60738044 ATAATAATAATAGTA
1 ATAATAATAATA-TA
60738059 ATAATAA-AA-ATA
1 ATAATAATAATATA
*
60738071 AAAATAATAACTATA
1 ATAATAATAA-TATA
*
60738086 TTAATAA-AATA
1 ATAATAATAATA
60738097 AACTAAAAAC
Statistics
Matches: 45, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
12 8 0.18
13 5 0.11
14 5 0.11
15 27 0.60
ACGTcount: A:0.68, C:0.01, G:0.01, T:0.29
Consensus pattern (14 bp):
ATAATAATAATATA
Found at i:60738091 original size:30 final size:30
Alignment explanation
Indices: 60738029--60738105 Score: 95
Period size: 30 Copynumber: 2.5 Consensus size: 30
60738019 ATATGTAAGT
*
60738029 ATAATAAAAATAATAATAATAATAATAGTA
1 ATAATAAAAATAAAAATAATAATAATAGTA
*
60738059 ATAATAAAAATAAAAATAATAACT-ATATTA
1 ATAATAAAAATAAAAATAATAA-TAATAGTA
60738089 ATAA-AATAAACTAAAAA
1 ATAATAA-AAA-TAAAAA
60738106 CTTAAAATGA
Statistics
Matches: 42, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
29 2 0.05
30 33 0.79
31 7 0.17
ACGTcount: A:0.69, C:0.03, G:0.01, T:0.27
Consensus pattern (30 bp):
ATAATAAAAATAAAAATAATAATAATAGTA
Found at i:60742676 original size:95 final size:95
Alignment explanation
Indices: 60742566--60742748 Score: 312
Period size: 95 Copynumber: 1.9 Consensus size: 95
60742556 TTTACTTTTT
* * *
60742566 TTTTTATGTTTTGTGAATTTAAGTTTTAGTTTTTTTATTGATTAAGGGTTAATGTTTTTATTATT
1 TTTTTATGATCTGTGAATTTAAGTTTTAGTTTTTTTATTGATTAAGGGTTAATGTTTTTATTATG
60742631 ATCTTTATATTAATCTTTAATTTTAGTTTC
66 ATCTTTATATTAATCTTTAATTTTAGTTTC
* *
60742661 TTTTTATGATCTGTGAATTTAGGTTTTAGTTTTTTTATTGATTAATGGTTAATGTTTTTATTATG
1 TTTTTATGATCTGTGAATTTAAGTTTTAGTTTTTTTATTGATTAAGGGTTAATGTTTTTATTATG
*
60742726 ATCTTTATATTAATCTTTGATTT
66 ATCTTTATATTAATCTTTAATTT
60742749 AGAATTGATT
Statistics
Matches: 82, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
95 82 1.00
ACGTcount: A:0.23, C:0.03, G:0.13, T:0.61
Consensus pattern (95 bp):
TTTTTATGATCTGTGAATTTAAGTTTTAGTTTTTTTATTGATTAAGGGTTAATGTTTTTATTATG
ATCTTTATATTAATCTTTAATTTTAGTTTC
Found at i:60744388 original size:15 final size:15
Alignment explanation
Indices: 60744370--60744399 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
60744360 AATTATTAAT
*
60744370 ATATGATATGATATA
1 ATATGATATAATATA
60744385 ATATGATATAATATA
1 ATATGATATAATATA
60744400 GCGTTATATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (15 bp):
ATATGATATAATATA
Found at i:60744571 original size:25 final size:26
Alignment explanation
Indices: 60744524--60744572 Score: 66
Period size: 25 Copynumber: 1.9 Consensus size: 26
60744514 AATATATTAT
*
60744524 GTATTACTATTATAATATGTGATATA
1 GTATTACTATTAAAATATGTGATATA
60744550 GTATTAC-ATTAAAACTAT-TGATA
1 GTATTACTATTAAAA-TATGTGATA
60744573 CATATATAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 11 0.52
26 10 0.48
ACGTcount: A:0.41, C:0.06, G:0.10, T:0.43
Consensus pattern (26 bp):
GTATTACTATTAAAATATGTGATATA
Found at i:60746663 original size:25 final size:24
Alignment explanation
Indices: 60746616--60746675 Score: 75
Period size: 25 Copynumber: 2.4 Consensus size: 24
60746606 GATAAAAATT
* *
60746616 ATAAAATATAAAAATATATATGTAC
1 ATAAAAGA-AAAAATATATATGTAA
*
60746641 ATATAAGAAAAATATATATATGTAA
1 ATAAAAGAAAAA-ATATATATGTAA
60746666 ATAAAAGAAA
1 ATAAAAGAAA
60746676 TAAAAAAATA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
24 4 0.13
25 26 0.87
ACGTcount: A:0.63, C:0.02, G:0.07, T:0.28
Consensus pattern (24 bp):
ATAAAAGAAAAAATATATATGTAA
Found at i:60746686 original size:25 final size:25
Alignment explanation
Indices: 60746623--60746686 Score: 58
Period size: 25 Copynumber: 2.5 Consensus size: 25
60746613 ATTATAAAAT
* *
60746623 ATAAAAATATATATGTACATATAAGAA
1 ATAAAAA-A-ATATGTAAATAAAAGAA
* *
60746650 A-AATATATATATGTAAATAAAAGAA
1 ATAA-AAAAATATGTAAATAAAAGAA
60746675 ATAAAAAAATAT
1 ATAAAAAAATAT
60746687 AAAAAATATT
Statistics
Matches: 29, Mismatches: 6, Indels: 6
0.71 0.15 0.15
Matches are distributed among these distances:
25 22 0.76
26 4 0.14
27 3 0.10
ACGTcount: A:0.64, C:0.02, G:0.06, T:0.28
Consensus pattern (25 bp):
ATAAAAAAATATGTAAATAAAAGAA
Found at i:60746981 original size:20 final size:20
Alignment explanation
Indices: 60746939--60746981 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
60746929 ATAGTATTAA
* * *
60746939 TAATATTAAAATAATTAATT
1 TAATAATAAAATAACTAAAT
60746959 TAATAATAAAATAACTAAAT
1 TAATAATAAAATAACTAAAT
60746979 TAA
1 TAA
60746982 CAAATAGAGG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.37
Consensus pattern (20 bp):
TAATAATAAAATAACTAAAT
Found at i:60754541 original size:3 final size:3
Alignment explanation
Indices: 60754533--60754575 Score: 50
Period size: 3 Copynumber: 14.3 Consensus size: 3
60754523 TTTAGTTCTG
* * * *
60754533 TTA TTA TTA TTA TTA TCA TTA TCA TTA TCA TTA TCA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
60754576 ATTTCTATTT
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.33, C:0.09, G:0.00, T:0.58
Consensus pattern (3 bp):
TTA
Found at i:60754544 original size:6 final size:6
Alignment explanation
Indices: 60754533--60754572 Score: 62
Period size: 6 Copynumber: 6.7 Consensus size: 6
60754523 TTTAGTTCTG
* *
60754533 TTATTA TTATTA TTATCA TTATCA TTATCA TTATCA TTAT
1 TTATCA TTATCA TTATCA TTATCA TTATCA TTATCA TTAT
60754573 TATATTTCTA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.33, C:0.10, G:0.00, T:0.57
Consensus pattern (6 bp):
TTATCA
Found at i:60754817 original size:26 final size:27
Alignment explanation
Indices: 60754771--60754826 Score: 69
Period size: 26 Copynumber: 2.1 Consensus size: 27
60754761 TTATACATCT
*
60754771 ATACATTTTTATAATACATATATGTAC
1 ATACATTTTTATAATACATATATATAC
** *
60754798 ATACA-TTTTATAATTTATATTTATAC
1 ATACATTTTTATAATACATATATATAC
60754824 ATA
1 ATA
60754827 TATATTTGTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
26 20 0.80
27 5 0.20
ACGTcount: A:0.41, C:0.09, G:0.02, T:0.48
Consensus pattern (27 bp):
ATACATTTTTATAATACATATATATAC
Found at i:60758997 original size:6 final size:6
Alignment explanation
Indices: 60758982--60759036 Score: 51
Period size: 6 Copynumber: 8.8 Consensus size: 6
60758972 GAATGTCTGA
*
60758982 AAAAAGG AAAAAG -AAAAG -AAAAG AAAAGG AAAAAG AATGAAAAG AAAAAG
1 AAAAA-G AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG -A--AAAAG AAAAAG
60759032 AAAAA
1 AAAAA
60759037 TGAGAGACCA
Statistics
Matches: 42, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
5 10 0.24
6 20 0.48
7 6 0.14
8 1 0.02
9 5 0.12
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.02
Consensus pattern (6 bp):
AAAAAG
Found at i:60759008 original size:22 final size:21
Alignment explanation
Indices: 60758983--60759036 Score: 81
Period size: 21 Copynumber: 2.5 Consensus size: 21
60758973 AATGTCTGAA
60758983 AAAAGGAAAAAGAAAAGAAAAG
1 AAAAGGAAAAAG-AAAGAAAAG
*
60759005 AAAAGGAAAAAGAATGAAAAG
1 AAAAGGAAAAAGAAAGAAAAG
*
60759026 AAAAAGAAAAA
1 AAAAGGAAAAA
60759037 TGAGAGACCA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
21 18 0.60
22 12 0.40
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.02
Consensus pattern (21 bp):
AAAAGGAAAAAGAAAGAAAAG
Found at i:60759028 original size:15 final size:15
Alignment explanation
Indices: 60758990--60759034 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 15
60758980 GAAAAAAGGA
60758990 AAAAG-AAAAGAAAAG
1 AAAAGAAAAAG-AAAG
*
60759005 AAAAGGAAAAAGAATG
1 AAAA-GAAAAAGAAAG
60759021 AAAAGAAAAAGAAA
1 AAAAGAAAAAGAAA
60759035 AATGAGAGAC
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
15 13 0.50
16 8 0.31
17 5 0.19
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.02
Consensus pattern (15 bp):
AAAAGAAAAAGAAAG
Found at i:60759925 original size:24 final size:24
Alignment explanation
Indices: 60759893--60759950 Score: 98
Period size: 24 Copynumber: 2.4 Consensus size: 24
60759883 ATGTCCCAAA
60759893 ATTACAGTGGACTGAACCTTGAAG
1 ATTACAGTGGACTGAACCTTGAAG
* *
60759917 ATTACAGTGGATTGAACTTTGAAG
1 ATTACAGTGGACTGAACCTTGAAG
60759941 ATTACAGTGG
1 ATTACAGTGG
60759951 GGGCAATCCG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.29
Consensus pattern (24 bp):
ATTACAGTGGACTGAACCTTGAAG
Found at i:60760445 original size:44 final size:44
Alignment explanation
Indices: 60760266--60760700 Score: 146
Period size: 44 Copynumber: 10.0 Consensus size: 44
60760256 ATGGATTTAA
* * * *
60760266 GAAGATTTTAGATCTTATCTTCCTAAGCAGTAGTGAAGCAGATC
1 GAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATT
* * *
60760310 GAAGATAG-CGAGTCTTATCTTCCC-GAG-A-TAGTAGGAAGCAGATT
1 GAAGATTGTAGA-TCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGATT
* ***** * * * * *
60760354 TAAGCCACCAG-TCCTATCTCCTTGAGCAGCAGTGGAGTA-AGTT
1 GAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGA-TT
*
60760397 GAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
1 GAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATT
* ** * ** *
60760441 GAAGA-CGGCGAATCTTATTTTTCTGAG-A-TAGTAGGAAGCAGATT
1 GAAGATTGTAG-ATCTTATCTCCCTAAGCAGTAGT-GG-AGCAGATT
* ** * * * * * * *
60760485 TAAG-CCGCAAATCCTATC-CCCTTAAGCAGCAGTAGAGTAGGTT
1 GAAGATTGTAGATCTTATCTCCC-TAAGCAGTAGTGGAGCAGATT
*
60760528 GAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
1 GAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATT
** ** * *
60760572 GAA-AACGGCGAATCTTATCT-TCT-CG-AGATAGTAGGAAGCAGATT
1 GAAGATTGTAG-ATCTTATCTCCCTAAGCAG-TAGT-GG-AGCAGATT
* ***** * * * * *
60760616 TAAGCCACCAG-TCCTATCTCCCTGAGCAGCAGTGGAGTAGGTT
1 GAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATT
*
60760659 AAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGA
1 GAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGA
60760701 CAGAAGAAAT
Statistics
Matches: 271, Mismatches: 91, Indels: 58
0.65 0.22 0.14
Matches are distributed among these distances:
41 2 0.01
42 18 0.07
43 71 0.26
44 159 0.59
45 19 0.07
46 2 0.01
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.26
Consensus pattern (44 bp):
GAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATT
Found at i:60760500 original size:131 final size:131
Alignment explanation
Indices: 60760266--60760700 Score: 674
Period size: 131 Copynumber: 3.3 Consensus size: 131
60760256 ATGGATTTAA
* * * ** * *
60760266 GAAGATTTTAGATCTTATCTTCCTAAGCAGTAGTGAAGCAGATCGAAGATAGCGAGTCTTATCTT
1 GAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATTTT
* * *
60760331 CCCGAGATAGTAGGAAGCAGATTTAAGCCACCAGTCCTATCTCCTTGAGCAGCAGTGGAGTAAGT
66 TCTGAGATAGTAGGAAGCAGATTTAAGCCACCAGTCCTATCTCCTTGAGCAGCAGTGGAGTAGGT
60760396 T
131 T
60760397 GAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATTTT
1 GAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATTTT
* * * * * *
60760462 TCTGAGATAGTAGGAAGCAGATTTAAGCCGCAAATCCTATCCCCTTAAGCAGCAGTAGAGTAGGT
66 TCTGAGATAGTAGGAAGCAGATTTAAGCCACCAGTCCTATCTCCTTGAGCAGCAGTGGAGTAGGT
60760527 T
131 T
* *
60760528 GAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAAACGGCGAATCTTA-TCT
1 GAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATTTT
*
60760592 TCTCGAGATAGTAGGAAGCAGATTTAAGCCACCAGTCCTATCTCCCTGAGCAGCAGTGGAGTAGG
66 TCT-GAGATAGTAGGAAGCAGATTTAAGCCACCAGTCCTATCTCCTTGAGCAGCAGTGGAGTAGG
60760657 TT
130 TT
*
60760659 AAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGA
1 GAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGA
60760701 CAGAAGAAAT
Statistics
Matches: 277, Mismatches: 26, Indels: 2
0.91 0.09 0.01
Matches are distributed among these distances:
130 5 0.02
131 272 0.98
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.26
Consensus pattern (131 bp):
GAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATTTT
TCTGAGATAGTAGGAAGCAGATTTAAGCCACCAGTCCTATCTCCTTGAGCAGCAGTGGAGTAGGT
T
Found at i:60760765 original size:131 final size:131
Alignment explanation
Indices: 60760267--60760787 Score: 547
Period size: 131 Copynumber: 4.0 Consensus size: 131
60760257 TGGATTTAAG
* * * * * *
60760267 AAGATTTTAGATCTTATCTTCCTAAGCAGTAGTGAAGCAGATCGAAGATAGCGAGTCTTATCTTC
1 AAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGAAAGCGAATCCTATCTTC
* * * * * *
60760332 CCGAGATAGTAGGAAGCAGATTTAAGCCACCAG-TCCTATCTCCTTGAGCAGCAGTGGAGTAAGT
66 CTGAGATAGTAGGAAGCAGATTAAAACCA-CAGATCCTATCTCCCTGAGCAGCAGTAGAGTAGGT
*
60760396 TG
130 TA
** * * *
60760398 AAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATTTTT
1 AAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGAAAGCGAATCCTATCTTC
* * * * *
60760463 CTGAGATAGTAGGAAGCAGATTTAAGCCGCAAATCCTATC-CCCTTAAGCAGCAGTAGAGTAGGT
66 CTGAGATAGTAGGAAGCAGATTAAAACCACAGATCCTATCTCCC-TGAGCAGCAGTAGAGTAGGT
*
60760527 TG
130 TA
* *
60760529 AAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAA-AACGGCGAATCTTATCTT
1 AAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGAA-AGCGAATCCTATCTT
* * *
60760593 -CTCGAGATAGTAGGAAGCAGATTTAAGCCACCAG-TCCTATCTCCCTGAGCAGCAGTGGAGTAG
65 CCT-GAGATAGTAGGAAGCAGATTAAAACCA-CAGATCCTATCTCCCTGAGCAGCAGTAGAGTAG
60760656 GTTA
128 GTTA
* *
60760660 AAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGA-CAGAAGAAATC-AATCCGATCTT
1 AAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC-GAAGAAAGCGAATCCTATCTT
* * * * * **
60760723 CCTGAAGTTGCAGT-GG-AGCGGATTAAAACCATAGATCTTATCTCTCTGAAGTTGCAGTAGAGT
65 CCTG-AGAT--AGTAGGAAGCAGATTAAAACCACAGATCCTATCTCCCTG-AGCAGCAGTAGAGT
60760786 AG
126 AG
60760788 ATCGCATCAA
Statistics
Matches: 340, Mismatches: 36, Indels: 27
0.84 0.09 0.07
Matches are distributed among these distances:
130 20 0.06
131 295 0.87
132 22 0.06
133 3 0.01
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (131 bp):
AAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGAAAGCGAATCCTATCTTC
CTGAGATAGTAGGAAGCAGATTAAAACCACAGATCCTATCTCCCTGAGCAGCAGTAGAGTAGGTT
A
Found at i:60760772 original size:44 final size:43
Alignment explanation
Indices: 60760724--60760918 Score: 164
Period size: 44 Copynumber: 4.5 Consensus size: 43
60760714 TCCGATCTTC
*
60760724 CTGAAGTTGCAGTGGAGCGGATTAAAACCATAGATCTTATCTCT
1 CTGAAGTTGCAGTGGAGCAGATTAAAACCA-AGATCTTATCTCT
* * *** * * *
60760768 CTGAAGTTGCAGTAGAGTAGA-TCGCATCAAG-CCTTATCTCC
1 CTGAAGTTGCAGTGGAGCAGATTAAAACCAAGATCTTATCTCT
* * * * * *
60760809 CTAAAGTTACAGTGGAAAGAACATAAGAAACC-A-ATCCTATCTCT
1 CTGAAGTTGCAGTGG--AGCAGATTA-AAACCAAGATCTTATCTCT
*
60760853 CTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCT
1 CTGAAGTTGCAGTGGAGCAGATTAAAACCA-AGATCTTATCTCT
*
60760897 CTGAAGTTGCAGTAGAGCAGAT
1 CTGAAGTTGCAGTGGAGCAGAT
60760919 CGCGTCCAAT
Statistics
Matches: 112, Mismatches: 31, Indels: 16
0.70 0.19 0.10
Matches are distributed among these distances:
41 25 0.22
42 7 0.06
43 9 0.08
44 69 0.62
45 2 0.02
ACGTcount: A:0.32, C:0.20, G:0.22, T:0.26
Consensus pattern (43 bp):
CTGAAGTTGCAGTGGAGCAGATTAAAACCAAGATCTTATCTCT
Found at i:60760989 original size:85 final size:85
Alignment explanation
Indices: 60760839--60760996 Score: 208
Period size: 85 Copynumber: 1.9 Consensus size: 85
60760829 ACATAAGAAA
* * * * * * * *
60760839 CCAATCCTATCTCTCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGT
1 CCAATCCTATCTCTCTGAAGATGCAGTGGAGCAGACTAAAACCACAAATCTCATCCCCCTAAAGT
*
60760904 TGCAGTAGAGCAGATCGCGT
66 TACAGTAGAGCAGATCGCGT
* * *
60760924 CCAATCCTATCTCTCTGAAGATGTAGTGGAGTAGACTAAAACCACAAATCTCGTCCCCCTAAAGT
1 CCAATCCTATCTCTCTGAAGATGCAGTGGAGCAGACTAAAACCACAAATCTCATCCCCCTAAAGT
60760989 TACAGTAG
66 TACAGTAG
60760997 GGTAGATTGA
Statistics
Matches: 61, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
85 61 1.00
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.26
Consensus pattern (85 bp):
CCAATCCTATCTCTCTGAAGATGCAGTGGAGCAGACTAAAACCACAAATCTCATCCCCCTAAAGT
TACAGTAGAGCAGATCGCGT
Found at i:60762692 original size:26 final size:27
Alignment explanation
Indices: 60762646--60762701 Score: 69
Period size: 26 Copynumber: 2.1 Consensus size: 27
60762636 TTATACATCT
*
60762646 ATACATTTTTATAATACATATATGTAC
1 ATACATTTTTATAATACATATATATAC
** *
60762673 ATACA-TTTTATAATTTATATTTATAC
1 ATACATTTTTATAATACATATATATAC
60762699 ATA
1 ATA
60762702 TATATTTGTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
26 20 0.80
27 5 0.20
ACGTcount: A:0.41, C:0.09, G:0.02, T:0.48
Consensus pattern (27 bp):
ATACATTTTTATAATACATATATATAC
Found at i:60765513 original size:5 final size:5
Alignment explanation
Indices: 60765503--60765536 Score: 61
Period size: 5 Copynumber: 7.0 Consensus size: 5
60765493 GTGAAACAAT
60765503 ATAAA ATAAA ATAAA ATAAA ATAAA AT-AA ATAAA
1 ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA
60765537 GCACTTATGT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.14
5 24 0.86
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
ATAAA
Found at i:60766013 original size:20 final size:20
Alignment explanation
Indices: 60765976--60766013 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
60765966 ATGCATGTAA
*
60765976 ATATATAGAAAAATATATTT
1 ATATATAGAAAAAAATATTT
60765996 ATATATA-AAAGAAAATAT
1 ATATATAGAAA-AAAATAT
60766014 ACGTGTATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (20 bp):
ATATATAGAAAAAAATATTT
Found at i:60778011 original size:4 final size:5
Alignment explanation
Indices: 60777984--60778012 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
60777974 GTGAAACAAT
60777984 ATAAA ATAAA ATAAA ATAAA AT-AA ATAAA
1 ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA
60778013 GCACTTATGT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
4 4 0.17
5 19 0.83
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
ATAAA
Found at i:60778469 original size:21 final size:21
Alignment explanation
Indices: 60778439--60778486 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
60778429 ATGCATGTAA
* *
60778439 ATATATAGA-AAATATA-TTT
1 ATATATAAAGAAATATACTGT
60778458 ATATATAAAGAAATATACTGT
1 ATATATAAAGAAATATACTGT
60778479 ATATATAA
1 ATATATAA
60778487 GAGCAACTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 8 0.32
20 7 0.28
21 10 0.40
ACGTcount: A:0.54, C:0.02, G:0.06, T:0.38
Consensus pattern (21 bp):
ATATATAAAGAAATATACTGT
Found at i:60780122 original size:87 final size:87
Alignment explanation
Indices: 60780077--60780322 Score: 280
Period size: 87 Copynumber: 2.8 Consensus size: 87
60780067 TTCAACTTGG
*
60780077 GCCACTGCAACTTCAGGGGGATAAGATAGTGTCTTCGATCTGCTCCGCTGTAATCTCAGGGAGAT
1 GCCACTGCAACTTCAGGGAGATAAGATAGTGTCTTCGATCTGCTCCGCTGTAATCTCAGGGAGAT
* *
60780142 AAGATCTCTTATTTTAATCCGC
66 AAGATCTCATATTTCAATCCGC
* * *
60780164 TCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTCGATCTGCTCCGCTGTAATCTCAGGGAGAT
1 GCCACTGCAACTTCAGGGAGATAAGATAGTGTCTTCGATCTGCTCCGCTGTAATCTCAGGGAGAT
** *
60780229 AAGATCTC-TGGCTTCAATCTGC
66 AAGATCTCAT-ATTTCAATCCGC
* * * * * * * *
60780251 TCCACTGTAACCTCAGGGAGATAAGAT-CTGAAATTCTTTGGTCTGTTCCACTGTAATCTCAGGG
1 GCCACTGCAACTTCAGGGAGATAAGATAGTG----TCTTCGATCTGCTCCGCTGTAATCTCAGGG
60780315 AGATAAGA
62 AGATAAGA
60780323 CCTGATGTGA
Statistics
Matches: 139, Mismatches: 15, Indels: 7
0.86 0.09 0.04
Matches are distributed among these distances:
86 3 0.02
87 102 0.73
90 34 0.24
ACGTcount: A:0.25, C:0.22, G:0.23, T:0.30
Consensus pattern (87 bp):
GCCACTGCAACTTCAGGGAGATAAGATAGTGTCTTCGATCTGCTCCGCTGTAATCTCAGGGAGAT
AAGATCTCATATTTCAATCCGC
Found at i:60780315 original size:46 final size:45
Alignment explanation
Indices: 60780108--60780492 Score: 263
Period size: 44 Copynumber: 8.8 Consensus size: 45
60780098 TAAGATAGTG
* * *
60780108 TCTTCGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCT--CT
1 TCTTTGATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAT
* * * * *
60780151 TATTTTAATCCGCTCCACTGTAA-CTTCAGGGAGATAGGA--T-AGT
1 T-CTTTGATCTGCTCCACTGTAATC-TCAGGGAGATAAGATCTGAAT
* * *
60780194 GTCTTCGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCT--CT
1 -TCTTTGATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAT
* ** *
60780238 GGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAAT
1 -TCTTTGATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTG-AAT
* * *
60780285 TCTTTGGTCTGTTCCACTGTAATCTCAGGGAGATAAGACCTG-A-
1 TCTTTGATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAT
* * * *
60780328 --TGTGATCTTCTCTACTGTAA-CTTCAGAGAGATAAGATC-----
1 TCTTTGATCTGCTCCACTGTAATC-TCAGGGAGATAAGATCTGAAT
* * * * * *
60780366 -CTTTAATCCGCTCCATTGTAATCTCAAGGAGATAGGAT-T-ACT
1 TCTTTGATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAT
* *
60780408 ATCCTTGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAAT
1 -TCTTTGATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTG-AAT
* *
60780455 TCTTTGGTCTGTTCCACTGTAATCTCAGGGAGATAAGA
1 TCTTTGATCTGCTCCACTGTAATCTCAGGGAGATAAGA
60780493 CCTGTTAATA
Statistics
Matches: 266, Mismatches: 54, Indels: 41
0.74 0.15 0.11
Matches are distributed among these distances:
39 26 0.10
40 2 0.01
41 29 0.11
42 1 0.00
43 32 0.12
44 102 0.38
45 2 0.01
46 69 0.26
47 3 0.01
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.32
Consensus pattern (45 bp):
TCTTTGATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAT
Found at i:60792608 original size:4 final size:5
Alignment explanation
Indices: 60792586--60792618 Score: 52
Period size: 5 Copynumber: 7.0 Consensus size: 5
60792576 GTGAAACAAT
60792586 ATAAA ATAAA ATAAA AT-AA ATAAA AT-AA ATAAA
1 ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA
60792619 GCACTTATGT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
4 8 0.31
5 18 0.69
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
ATAAA
Found at i:60792608 original size:9 final size:9
Alignment explanation
Indices: 60792586--60792618 Score: 57
Period size: 9 Copynumber: 3.6 Consensus size: 9
60792576 GTGAAACAAT
60792586 ATAAAATAAA
1 ATAAAAT-AA
60792596 ATAAAATAA
1 ATAAAATAA
60792605 ATAAAATAA
1 ATAAAATAA
60792614 ATAAA
1 ATAAA
60792619 GCACTTATGT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 16 0.70
10 7 0.30
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (9 bp):
ATAAAATAA
Found at i:60793095 original size:20 final size:20
Alignment explanation
Indices: 60793058--60793095 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
60793048 ATGCATGTAA
*
60793058 ATATATAGAAAAATATATTT
1 ATATATAGAAAAAAATATTT
60793078 ATATATA-AAAGAAAATAT
1 ATATATAGAAA-AAAATAT
60793096 ACGTGTATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (20 bp):
ATATATAGAAAAAAATATTT
Found at i:60793135 original size:14 final size:14
Alignment explanation
Indices: 60793118--60793179 Score: 65
Period size: 14 Copynumber: 4.4 Consensus size: 14
60793108 AAGAGCAACT
*
60793118 ATAATAACATAATA
1 ATAATAATATAATA
* *
60793132 ATAATAATACAAAA
1 ATAATAATATAATA
60793146 ATAATAATATAAT-
1 ATAATAATATAATA
60793159 ATAGA-AATATAATA
1 ATA-ATAATATAATA
60793173 ATGAATA
1 AT-AATA
60793180 GATGAGTAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
13 11 0.28
14 26 0.67
15 2 0.05
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.29
Consensus pattern (14 bp):
ATAATAATATAATA
Found at i:60796689 original size:20 final size:21
Alignment explanation
Indices: 60796651--60796709 Score: 66
Period size: 20 Copynumber: 2.9 Consensus size: 21
60796641 ATGTAAGAAA
* * *
60796651 ATAAAAATATATAAAATTATC
1 ATAAACATAAATAATATTATC
60796672 A-AAACATAAATAATATTATC
1 ATAAACATAAATAATATTATC
* *
60796692 ATAAATATAAATATTATT
1 ATAAACATAAATAATATT
60796710 TAATTATCAT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
20 17 0.53
21 15 0.47
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (21 bp):
ATAAACATAAATAATATTATC
Found at i:60796706 original size:18 final size:19
Alignment explanation
Indices: 60796654--60796708 Score: 60
Period size: 18 Copynumber: 2.9 Consensus size: 19
60796644 TAAGAAAATA
*
60796654 AAAATATATAAA-ATTATC
1 AAAACATATAAATATTATC
*
60796672 AAAACATAAATAATATTATC
1 AAAACATATA-AATATTATC
*
60796692 ATAA-ATATAAATATTAT
1 AAAACATATAAATATTAT
60796709 TTAATTATCA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
18 16 0.52
19 6 0.19
20 9 0.29
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (19 bp):
AAAACATATAAATATTATC
Found at i:60796720 original size:26 final size:26
Alignment explanation
Indices: 60796686--60796737 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
60796676 CATAAATAAT
*
60796686 ATTATCATAAATATAAATATTATTTA
1 ATTATCATAAAGATAAATATTATTTA
60796712 ATTATCATAAAGATAAATATTATTTA
1 ATTATCATAAAGATAAATATTATTTA
60796738 TCTTAATATT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (26 bp):
ATTATCATAAAGATAAATATTATTTA
Found at i:60800019 original size:21 final size:21
Alignment explanation
Indices: 60799990--60800029 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
60799980 TGTAAAACAG
*
60799990 GGGTTACACGACCATGTGGAA
1 GGGTCACACGACCATGTGGAA
60800011 GGGTCACACGACCATGTGG
1 GGGTCACACGACCATGTGG
60800030 CTAGGTTGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.25, C:0.23, G:0.35, T:0.17
Consensus pattern (21 bp):
GGGTCACACGACCATGTGGAA
Found at i:60804276 original size:18 final size:18
Alignment explanation
Indices: 60804250--60804284 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
60804240 AAATATCTAT
* *
60804250 AAAATAATACATAAATGC
1 AAAACAATACAAAAATGC
60804268 AAAACAATACAAAAATG
1 AAAACAATACAAAAATG
60804285 TTCAAAATAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.66, C:0.11, G:0.06, T:0.17
Consensus pattern (18 bp):
AAAACAATACAAAAATGC
Found at i:60805746 original size:107 final size:107
Alignment explanation
Indices: 60805555--60805770 Score: 378
Period size: 107 Copynumber: 2.0 Consensus size: 107
60805545 CTTTGAAGTT
* *
60805555 TTAAGAGGATATTTGACTATTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTT
1 TTAAAAGGATATTTGACTATTTAGTCGAACGAGAAATAGAAACCCAGCACGTTAGGGCACGTTTT
60805620 CTCGAATTTCCAAACGCAAAATATTGCCTTATTTAAAAAATC
66 CTCGAATTTCCAAACGCAAAATATTGCCTTATTTAAAAAATC
* *
60805662 TTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAATAGAAACCCAGCACGTTAGGGCACGTTTT
1 TTAAAAGGATATTTGACTATTTAGTCGAACGAGAAATAGAAACCCAGCACGTTAGGGCACGTTTT
* *
60805727 CTCGAATTTCCAAATGCAAAATATTGCCTTATTTAGAAAATC
66 CTCGAATTTCCAAACGCAAAATATTGCCTTATTTAAAAAATC
60805769 TT
1 TT
60805771 TTCTTTTGAT
Statistics
Matches: 103, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
107 103 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.30
Consensus pattern (107 bp):
TTAAAAGGATATTTGACTATTTAGTCGAACGAGAAATAGAAACCCAGCACGTTAGGGCACGTTTT
CTCGAATTTCCAAACGCAAAATATTGCCTTATTTAAAAAATC
Found at i:60806359 original size:20 final size:20
Alignment explanation
Indices: 60806331--60806380 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
60806321 CACATATGTG
60806331 TATATATATAAGGTAT-ATAAA
1 TATATATATAA-GTATGA-AAA
60806352 TA-ATATATAAGTATGAAAA
1 TATATATATAAGTATGAAAA
60806371 TATATATATA
1 TATATATATA
60806381 CAAATAAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
19 9 0.33
20 16 0.59
21 2 0.07
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (20 bp):
TATATATATAAGTATGAAAA
Found at i:60806433 original size:26 final size:26
Alignment explanation
Indices: 60806398--60806451 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
60806388 ATTTAAAAAT
* * **
60806398 ATGTACGTATGTATATATATGACAAA
1 ATGTAAGTATGTACATATACAACAAA
60806424 ATGTAAGTATGTACATATACAACAAA
1 ATGTAAGTATGTACATATACAACAAA
60806450 AT
1 AT
60806452 TTGAAACTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.46, C:0.09, G:0.13, T:0.31
Consensus pattern (26 bp):
ATGTAAGTATGTACATATACAACAAA
Found at i:60807219 original size:15 final size:17
Alignment explanation
Indices: 60807199--60807239 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
60807189 TCCCCTCTTT
60807199 TCTTTTAT-TATT-TTC
1 TCTTTTATATATTATTC
*
60807214 TCTTTTTTATATTATTC
1 TCTTTTATATATTATTC
*
60807231 TCGTTTATA
1 TCTTTTATA
60807240 AAAAACAATT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
15 7 0.33
16 4 0.19
17 10 0.48
ACGTcount: A:0.17, C:0.12, G:0.02, T:0.68
Consensus pattern (17 bp):
TCTTTTATATATTATTC
Found at i:60807937 original size:14 final size:16
Alignment explanation
Indices: 60807907--60807938 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
60807897 AGGTCCTTAA
60807907 CAGAATCAGATATTAT
1 CAGAATCAGATATTAT
60807923 CAGAATC-GA-ATTAT
1 CAGAATCAGATATTAT
60807937 CA
1 CA
60807939 AAACATACAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.44
15 2 0.12
16 7 0.44
ACGTcount: A:0.44, C:0.16, G:0.12, T:0.28
Consensus pattern (16 bp):
CAGAATCAGATATTAT
Found at i:60822454 original size:20 final size:20
Alignment explanation
Indices: 60822412--60822451 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
60822402 CAGTCCCAAA
*
60822412 TAAAATAATTTCAAAACAAT
1 TAAAATAATTTCAAAAAAAT
*
60822432 TAAAGTAATTT-AAAAAAAT
1 TAAAATAATTTCAAAAAAAT
60822451 T
1 T
60822452 TAATGCCAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.60, C:0.05, G:0.03, T:0.33
Consensus pattern (20 bp):
TAAAATAATTTCAAAAAAAT
Found at i:60823317 original size:72 final size:72
Alignment explanation
Indices: 60823200--60823342 Score: 250
Period size: 72 Copynumber: 2.0 Consensus size: 72
60823190 TCTCGGATTT
*
60823200 AAAAAAGGGATCATACCCAGTAAGTTAGGACACGATCTTTTCTTAATTCCCGAGATCGTTTAAAA
1 AAAAAAGGGATCATACCCAGTAAGTTAGGACACGATCTCTTCTTAATTCCCGAGATCGTTTAAAA
60823265 CTTGAGG
66 CTTGAGG
* * *
60823272 AAAAAATGGATCATGCCCAGTAAGTTAGGACACGATCTCTTCTTAATTCCCGAGATTGTTTAAAA
1 AAAAAAGGGATCATACCCAGTAAGTTAGGACACGATCTCTTCTTAATTCCCGAGATCGTTTAAAA
60823337 CTTGAG
66 CTTGAG
60823343 TTTGAAAAGA
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
72 67 1.00
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.29
Consensus pattern (72 bp):
AAAAAAGGGATCATACCCAGTAAGTTAGGACACGATCTCTTCTTAATTCCCGAGATCGTTTAAAA
CTTGAGG
Found at i:60823890 original size:20 final size:18
Alignment explanation
Indices: 60823865--60823904 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
60823855 TGTGTACGTA
60823865 TATATATATTATAAAAAG
1 TATATATATTATAAAAAG
*
60823883 TATGTATATTATAAAAA-
1 TATATATATTATAAAAAG
60823900 TATAT
1 TATAT
60823905 GCATGTGTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 4 0.20
18 16 0.80
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (18 bp):
TATATATATTATAAAAAG
Done.