Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D07
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: 58101237
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1550000 characters in sequence are not A, C, G, or T
File 11 of 199
Found at i:3601973 original size:31 final size:31
Alignment explanation
Indices: 3601929--3601987 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
3601919 TGATAAAATT
* *
3601929 AATCTTATTTTATTAA-ATTAATTATTTCTTA
1 AATCTAATCTTATTAATATT-ATTATTTCTTA
3601960 AATCTAATCTTATTAATATTATTATTTC
1 AATCTAATCTTATTAATATTATTATTTC
3601988 ATTTTGTATC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
31 22 0.88
32 3 0.12
ACGTcount: A:0.36, C:0.08, G:0.00, T:0.56
Consensus pattern (31 bp):
AATCTAATCTTATTAATATTATTATTTCTTA
Found at i:3602625 original size:29 final size:28
Alignment explanation
Indices: 3602589--3602657 Score: 77
Period size: 29 Copynumber: 2.5 Consensus size: 28
3602579 GTAAGTACTT
3602589 AATTTTTTAAAAAATTAAAAATTATAAA
1 AATTTTTTAAAAAATTAAAAATTATAAA
** * *
3602617 AATTGTTTTGTAAAATTAAAATTTATTAA
1 AATT-TTTTAAAAAATTAAAAATTATAAA
*
3602646 AA-TTATTAAAAA
1 AATTTTTTAAAAA
3602658 GTATAAGGAA
Statistics
Matches: 33, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
27 6 0.18
28 5 0.15
29 22 0.67
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (28 bp):
AATTTTTTAAAAAATTAAAAATTATAAA
Found at i:3606320 original size:26 final size:25
Alignment explanation
Indices: 3606291--3606342 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
3606281 AGTAACTCTC
3606291 TTTTATAAGCAAATATAAAATATTAA
1 TTTTATAA-CAAATATAAAATATTAA
* * *
3606317 TTTTATAACTATTATAAAATTTTAA
1 TTTTATAACAAATATAAAATATTAA
3606342 T
1 T
3606343 AATTTATTTG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 15 0.65
26 8 0.35
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (25 bp):
TTTTATAACAAATATAAAATATTAA
Found at i:3607870 original size:30 final size:29
Alignment explanation
Indices: 3607829--3607885 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 29
3607819 ATAAAATTAT
*
3607829 ATATGAATTTTAATTTTATGTAATTTTAA
1 ATATGAATTTTAATTTGATGTAATTTTAA
*
3607858 ATATGAAATTTTAATTTGATTTAATTTT
1 ATATG-AATTTTAATTTGATGTAATTTT
3607886 TTTAAATTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 5 0.20
30 20 0.80
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.56
Consensus pattern (29 bp):
ATATGAATTTTAATTTGATGTAATTTTAA
Found at i:3612779 original size:16 final size:16
Alignment explanation
Indices: 3612758--3612797 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
3612748 TTCATATTTT
3612758 AAATAAAAA-TATAAAA
1 AAATAAAAATTAT-AAA
*
3612774 AAATAAAAATTATGAA
1 AAATAAAAATTATAAA
3612790 AAATAAAA
1 AAATAAAA
3612798 CACTCTTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 19 0.86
17 3 0.14
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.20
Consensus pattern (16 bp):
AAATAAAAATTATAAA
Found at i:3613257 original size:16 final size:16
Alignment explanation
Indices: 3613233--3613267 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
3613223 AATACGAATT
*
3613233 TAAGAATTTTATTTGA
1 TAAGAATTTGATTTGA
*
3613249 TAAGCATTTGATTTGA
1 TAAGAATTTGATTTGA
3613265 TAA
1 TAA
3613268 CAAATTTAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.37, C:0.03, G:0.14, T:0.46
Consensus pattern (16 bp):
TAAGAATTTGATTTGA
Found at i:3615977 original size:12 final size:12
Alignment explanation
Indices: 3615960--3615985 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
3615950 CTTGTAACCC
3615960 TGTTTGAGTTCA
1 TGTTTGAGTTCA
3615972 TGTTTGAGTTCA
1 TGTTTGAGTTCA
3615984 TG
1 TG
3615986 CCTCACACGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.15, C:0.08, G:0.27, T:0.50
Consensus pattern (12 bp):
TGTTTGAGTTCA
Found at i:3617127 original size:15 final size:15
Alignment explanation
Indices: 3617107--3617144 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
3617097 ACCTCCTCCT
3617107 ACCGCAGCTGCTGCC
1 ACCGCAGCTGCTGCC
3617122 ACCGCAGCTGCTGCC
1 ACCGCAGCTGCTGCC
*
3617137 GCCGCAGC
1 ACCGCAGC
3617145 CGCGTCGTCG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.13, C:0.47, G:0.29, T:0.11
Consensus pattern (15 bp):
ACCGCAGCTGCTGCC
Found at i:3617926 original size:3 final size:3
Alignment explanation
Indices: 3617918--3617954 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
3617908 GGGGACCATC
3617918 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
3617955 GGGTTGAGTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:3621746 original size:3 final size:3
Alignment explanation
Indices: 3621738--3621766 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
3621728 AGTTTCATCC
3621738 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
3621767 GTGTTCATGA
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):
ATA
Found at i:3633317 original size:36 final size:36
Alignment explanation
Indices: 3633277--3633351 Score: 150
Period size: 36 Copynumber: 2.1 Consensus size: 36
3633267 ACATGACTAT
3633277 CAAATGAATATATACTTTTAATTTCTAATGTCACAC
1 CAAATGAATATATACTTTTAATTTCTAATGTCACAC
3633313 CAAATGAATATATACTTTTAATTTCTAATGTCACAC
1 CAAATGAATATATACTTTTAATTTCTAATGTCACAC
3633349 CAA
1 CAA
3633352 TGAGTTTGAG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.40, C:0.17, G:0.05, T:0.37
Consensus pattern (36 bp):
CAAATGAATATATACTTTTAATTTCTAATGTCACAC
Found at i:3638038 original size:25 final size:26
Alignment explanation
Indices: 3637990--3638038 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
3637980 GGTTTTAATG
* *
3637990 AAAAAAAATAATTAAAATATAAAAGT
1 AAAAAAAATAAATAAAATAGAAAAGT
*
3638016 AAAAAAATTAAATAAAA-AGAAAA
1 AAAAAAAATAAATAAAATAGAAAA
3638039 TTTCAGTCAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 5 0.25
26 15 0.75
ACGTcount: A:0.78, C:0.00, G:0.04, T:0.18
Consensus pattern (26 bp):
AAAAAAAATAAATAAAATAGAAAAGT
Found at i:3647651 original size:19 final size:18
Alignment explanation
Indices: 3647607--3647652 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 18
3647597 ACCAAACATT
3647607 TATTTTGATTTTTTATACA
1 TATTTT-ATTTTTTATACA
3647626 T-TTTTATTTTATTATGA-A
1 TATTTTATTTT-TTAT-ACA
3647644 TATTTTATT
1 TATTTTATT
3647653 ATCTCCATCA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
17 5 0.21
18 10 0.42
19 9 0.38
ACGTcount: A:0.26, C:0.02, G:0.04, T:0.67
Consensus pattern (18 bp):
TATTTTATTTTTTATACA
Found at i:3648630 original size:17 final size:17
Alignment explanation
Indices: 3648610--3648643 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
3648600 TTCTTTATTT
3648610 ATTTA-AAATTATTAAAA
1 ATTTATAAA-TATTAAAA
3648627 ATTTATAAATATTAAAA
1 ATTTATAAATATTAAAA
3648644 TAGAGACCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 13 0.81
18 3 0.19
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
ATTTATAAATATTAAAA
Found at i:3662462 original size:12 final size:13
Alignment explanation
Indices: 3662447--3662475 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
3662437 AATTTGTTTT
3662447 ATATAAAAAA-TA
1 ATATAAAAAATTA
3662459 ATATAAAAAATTA
1 ATATAAAAAATTA
3662472 ATAT
1 ATAT
3662476 GAGCGGATCA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
ATATAAAAAATTA
Found at i:3684059 original size:18 final size:17
Alignment explanation
Indices: 3684036--3684080 Score: 51
Period size: 18 Copynumber: 2.8 Consensus size: 17
3684026 ATTTAAATTG
3684036 CGGTCGCGGTCGCGTTTT
1 CGGTCGCGGTCGCG-TTT
*
3684054 CGGTCGC-GCCGCGTTT
1 CGGTCGCGGTCGCGTTT
3684070 --GTCGCGGTCGC
1 CGGTCGCGGTCGC
3684081 AGACATAACG
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
14 5 0.21
15 4 0.17
16 3 0.12
17 5 0.21
18 7 0.29
ACGTcount: A:0.00, C:0.33, G:0.40, T:0.27
Consensus pattern (17 bp):
CGGTCGCGGTCGCGTTT
Found at i:3685560 original size:109 final size:102
Alignment explanation
Indices: 3685295--3685573 Score: 316
Period size: 109 Copynumber: 2.6 Consensus size: 102
3685285 AAATACGGAT
3685295 ATACGAAAAAAAAAATTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACAAAG
1 ATACG-AAAAAAAAATTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACAAAG
3685360 AAAAAAAAATTTTAATTTTTTTTCGTGTCAGAATCAGATAAAAAA
65 ----AAAAA--TT-ATTTTTTTTCGTGTCAGAATCAGATAAAAAA
* *
3685405 ATACGAAAAAAAAA-TTTTGGGTGCTGGCCTGTTAATGGCCGGCACCCAGTCCACAGTACAAAG-
1 ATACGAAAAAAAAATTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACAAAGA
3685468 AAAA-T-TTTTTTTTCGTGTCAGAATCAGAT-AAAAA
66 AAAATTATTTTTTTTCGTGTCAGAATCAGATAAAAAA
*
3685502 ATACGAAAAAAAATAAAAAAAAATTTTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTATA
1 ATACG---------AAAAAAAAA--TTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACA
*
3685567 CAATACA
55 CAGTACA
3685574 CAGCCTGCCA
Statistics
Matches: 151, Mismatches: 6, Indels: 25
0.83 0.03 0.14
Matches are distributed among these distances:
97 10 0.07
98 24 0.16
100 1 0.01
103 4 0.03
106 9 0.06
108 47 0.31
109 51 0.34
110 5 0.03
ACGTcount: A:0.39, C:0.17, G:0.18, T:0.26
Consensus pattern (102 bp):
ATACGAAAAAAAAATTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACAAAGA
AAAATTATTTTTTTTCGTGTCAGAATCAGATAAAAAA
Found at i:3686019 original size:120 final size:114
Alignment explanation
Indices: 3685584--3686063 Score: 596
Period size: 117 Copynumber: 4.2 Consensus size: 114
3685574 CAGCCTGCCA
* * *
3685584 AAAATTTTTTTTTTA-TTTTTTTCGT-ATTTTTTATCTGATTCTGACATGAAAAAAAATAATTTT
1 AAAATTTTTTTTTAATTTTTTTTCGTAATATTTTATCTGATTCTGACACG-AAAAAAATAATTTT
*
3685647 TTTTTCTTTGTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCAA
65 TTTTTCTTTGTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCACC-C
*
3685698 AAAATTTTTTTTTCTAATTTTTTTTCGT-ATTTTTTATCTGATTCTGACACGAAAAAAAATTAAA
1 AAAA-TTTTTTTT-TAATTTTTTTTCGTAATATTTTATCTGATTCTGACACG-AAAAAAA-T-AA
* * * * *
3685762 ATTTTTTTTCTTTGTACTATGTACTAGGTGCCGGCCATTGACAGGCTAGCATCC
61 TTTTTTTTTCTTTGTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCC
* *
3685816 --AA---------AATTTTTTTTCGT-ATTTTTTTTCTGATTCTGACACGAAAAAAATAATTTTT
1 AAAATTTTTTTTTAATTTTTTTTCGTAATATTTTATCTGATTCTGACACGAAAAAAATAATTTTT
*
3685869 TTTTCTTTGTACTGTGTACTGGGTGTCGGCCATTGACAGGCCAGCACCC
66 TTTTCTTTGTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCC
*
3685918 AAAAATTTTTTTTTTAATTTTTTTTCGTAATATTTTATCTGATTTTGACACGAAAAAAAATTAAA
1 -AAAA-TTTTTTTTTAATTTTTTTTCGTAATATTTTATCTGATTCTGACACG-AAAAAAA-T--A
3685983 ATTTTTTTTTCTTTGTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCC
60 ATTTTTTTTTCTTTGTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCC
*
3686038 AAAATTTTTTTTT-GTTTTTTTTCGTA
1 AAAATTTTTTTTTAATTTTTTTTCGTA
3686064 TATCCATATT
Statistics
Matches: 323, Mismatches: 20, Indels: 43
0.84 0.05 0.11
Matches are distributed among these distances:
102 50 0.15
103 1 0.00
104 7 0.02
105 37 0.11
114 4 0.01
115 21 0.07
116 24 0.07
117 59 0.18
118 11 0.03
119 54 0.17
120 55 0.17
ACGTcount: A:0.26, C:0.15, G:0.14, T:0.45
Consensus pattern (114 bp):
AAAATTTTTTTTTAATTTTTTTTCGTAATATTTTATCTGATTCTGACACGAAAAAAATAATTTTT
TTTTCTTTGTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCC
Found at i:3686059 original size:221 final size:222
Alignment explanation
Indices: 3685599--3686059 Score: 784
Period size: 221 Copynumber: 2.1 Consensus size: 222
3685589 TTTTTTTTTA
* *
3685599 TTTTTTTCGTATTTTTTATCTGATTCTGACATGAAAAAAAATAATTTTTTTTTCTTTGTACTGTG
1 TTTTTTTCGTATTTTTTTTCTGATTCTGACACGAAAAAAAATAATTTTTTTTTCTTTGTACTGTG
*
3685664 TACTGGGTGCCGGCCATTGACAGGCCAGCACCAAAAAATTTTTTTTTCTAATTTTTTTTCGTATT
66 TACTGGGTGCCGGCCATTGACAGGCCAGCACCAAAAAATTTTTTTTTCTAATTTTTTTTCGTATA
3685729 TTTTATCTGATTCTGACACGAAAAAAAATTAAAATTTTTTTTCTTTGTACTATGTACTAGGTGCC
131 TTTTATCTGATTCTGACACGAAAAAAAATTAAAATTTTTTTTCTTTGTACTATGTACTAGGTGCC
* *
3685794 GGCCATTGACAGGCTAGCATCCAAAAT
196 GGCCATTGACAGGCCAGCACCCAAAAT
3685821 TTTTTTTCGTATTTTTTTTCTGATTCTGACACG-AAAAAAATAATTTTTTTTTCTTTGTACTGTG
1 TTTTTTTCGTATTTTTTTTCTGATTCTGACACGAAAAAAAATAATTTTTTTTTCTTTGTACTGTG
* *
3685885 TACTGGGTGTCGGCCATTGACAGGCCAGCACCCAAAAATTTTTTTTT-TAATTTTTTTTCGTAAT
66 TACTGGGTGCCGGCCATTGACAGGCCAGCACCAAAAAATTTTTTTTTCTAATTTTTTTTCGT-AT
* * *
3685949 ATTTTATCTGATTTTGACACGAAAAAAAATTAAAATTTTTTTTTCTTTGTACTGTGTACTGGGTG
130 ATTTTATCTGATTCTGACACGAAAAAAAATTAAAA-TTTTTTTTCTTTGTACTATGTACTAGGTG
3686014 CCGGCCATTGACAGGCCAGCACCCAAAAT
194 CCGGCCATTGACAGGCCAGCACCCAAAAT
*
3686043 TTTTTTTTGT-TTTTTTT
1 TTTTTTTCGTATTTTTTT
3686060 CGTATATCCA
Statistics
Matches: 226, Mismatches: 11, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
220 14 0.06
221 118 0.52
222 94 0.42
ACGTcount: A:0.25, C:0.15, G:0.15, T:0.45
Consensus pattern (222 bp):
TTTTTTTCGTATTTTTTTTCTGATTCTGACACGAAAAAAAATAATTTTTTTTTCTTTGTACTGTG
TACTGGGTGCCGGCCATTGACAGGCCAGCACCAAAAAATTTTTTTTTCTAATTTTTTTTCGTATA
TTTTATCTGATTCTGACACGAAAAAAAATTAAAATTTTTTTTCTTTGTACTATGTACTAGGTGCC
GGCCATTGACAGGCCAGCACCCAAAAT
Found at i:3686097 original size:120 final size:120
Alignment explanation
Indices: 3685847--3686063 Score: 340
Period size: 120 Copynumber: 1.9 Consensus size: 120
3685837 TTTCTGATTC
*
3685847 TGACACG-AAAAAAA-T--AATTTTTTTTTCTTTGTACTGTGTACTGGGTGTCGGCCATTGACAG
1 TGACACGAAAAAAAATTAAAATTTTTTTTTCTTTGTACTGTGTACTGGGTGCCGGCCATTGACAG
* * *
3685908 GCCAGCACCCAAAAATTTTTTTTTTAATTTTTTTTCGTAATATTTTATCTGATTT
66 GCCAGCACCCAAAAATTTTTTTTTTAATTTTTTTTCGTAATATATTATCTAATAT
3685963 TGACACGAAAAAAAATTAAAATTTTTTTTTCTTTGTACTGTGTACTGGGTGCCGGCCATTGACAG
1 TGACACGAAAAAAAATTAAAATTTTTTTTTCTTTGTACTGTGTACTGGGTGCCGGCCATTGACAG
*
3686028 GCCAGCACCC-AAAA-TTTTTTTTT-GTTTTTTTTCGTA
66 GCCAGCACCCAAAAATTTTTTTTTTAATTTTTTTTCGTA
3686064 TATCCATATT
Statistics
Matches: 95, Mismatches: 2, Indels: 7
0.91 0.02 0.07
Matches are distributed among these distances:
116 7 0.07
117 19 0.20
118 10 0.11
119 4 0.04
120 55 0.58
ACGTcount: A:0.26, C:0.16, G:0.16, T:0.43
Consensus pattern (120 bp):
TGACACGAAAAAAAATTAAAATTTTTTTTTCTTTGTACTGTGTACTGGGTGCCGGCCATTGACAG
GCCAGCACCCAAAAATTTTTTTTTTAATTTTTTTTCGTAATATATTATCTAATAT
Found at i:3687068 original size:16 final size:18
Alignment explanation
Indices: 3687047--3687084 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
3687037 TTCTATAAAA
3687047 ATTTTACT-TT-TATTTT
1 ATTTTACTATTGTATTTT
3687063 ATTTTACTATTGTATTTT
1 ATTTTACTATTGTATTTT
3687081 ATTT
1 ATTT
3687085 AAATAAAGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 8 0.40
17 2 0.10
18 10 0.50
ACGTcount: A:0.21, C:0.05, G:0.03, T:0.71
Consensus pattern (18 bp):
ATTTTACTATTGTATTTT
Found at i:3689165 original size:29 final size:30
Alignment explanation
Indices: 3689141--3689197 Score: 80
Period size: 31 Copynumber: 1.9 Consensus size: 30
3689131 TCATGTGTAT
* *
3689141 AATTGTAC-TAAATCAAAGTTCATGTAGCA
1 AATTGCACATAAACCAAAGTTCATGTAGCA
3689170 AATTGCACATTAAACCAAAGTTCATGTA
1 AATTGCACA-TAAACCAAAGTTCATGTA
3689198 CATATTTGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 7 0.29
31 17 0.71
ACGTcount: A:0.42, C:0.16, G:0.12, T:0.30
Consensus pattern (30 bp):
AATTGCACATAAACCAAAGTTCATGTAGCA
Found at i:3703482 original size:16 final size:17
Alignment explanation
Indices: 3703455--3703491 Score: 67
Period size: 16 Copynumber: 2.2 Consensus size: 17
3703445 AATTAAGTCA
3703455 ATAATAATATAACATTT
1 ATAATAATATAACATTT
3703472 ATAAT-ATATAACATTT
1 ATAATAATATAACATTT
3703488 ATAA
1 ATAA
3703492 GTAAGGTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 15 0.75
17 5 0.25
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (17 bp):
ATAATAATATAACATTT
Found at i:3704255 original size:117 final size:118
Alignment explanation
Indices: 3704029--3704264 Score: 318
Period size: 117 Copynumber: 2.0 Consensus size: 118
3704019 ATGCCATTAT
* *
3704029 TGTGTAATTACATGCAATTAAATCCAAATCCAATTACTTGGTGGCTTTCCGAATACTATTGAATT
1 TGTGTAATTACATGCAATTAAATCCAAATCCAATTACTTGGTGACTTTCCAAATACTATTGAATT
* * *
3704094 CAAGAAAAAAGTAATTTAATATCATGTTCATTTTTATAACGGCATAATGATAA
66 CAAGAAAAAAGTAATTTAATATCATGTTCATTCTCATAAAGGCATAATGATAA
* * *
3704147 TGTGTAATTACATGCAATTACA-CCAAATCGAATTA-TTAGGTGACTTTCTAAATA-TATTGAAT
1 TGTGTAATTACATGCAATTAAATCCAAATCCAATTACTT-GGTGACTTTCCAAATACTATTGAAT
** *
3704209 TCAAGAAAAAAAAGTAATTT-ATATCATGTTTGTTCTCGTAAAGGCATAATGATAA
65 TCAAG--AAAAAAGTAATTTAATATCATGTTCATTCTCATAAAGGCATAATGATAA
3704264 T
1 T
3704265 TTTAACCTTC
Statistics
Matches: 104, Mismatches: 11, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
116 15 0.14
117 55 0.53
118 34 0.33
ACGTcount: A:0.39, C:0.12, G:0.13, T:0.36
Consensus pattern (118 bp):
TGTGTAATTACATGCAATTAAATCCAAATCCAATTACTTGGTGACTTTCCAAATACTATTGAATT
CAAGAAAAAAGTAATTTAATATCATGTTCATTCTCATAAAGGCATAATGATAA
Found at i:3704535 original size:13 final size:14
Alignment explanation
Indices: 3704517--3704545 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
3704507 AAATAAAATT
3704517 AAAGTT-ATAAAAA
1 AAAGTTCATAAAAA
3704530 AAAGTTCATAAAAA
1 AAAGTTCATAAAAA
3704544 AA
1 AA
3704546 TTCAAAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.40
14 9 0.60
ACGTcount: A:0.69, C:0.03, G:0.07, T:0.21
Consensus pattern (14 bp):
AAAGTTCATAAAAA
Found at i:3708567 original size:26 final size:26
Alignment explanation
Indices: 3708536--3708593 Score: 64
Period size: 25 Copynumber: 2.2 Consensus size: 26
3708526 ATAATTACTC
* *
3708536 TATTTTACATCAATAAAATTAACACAA
1 TATTTT-CATCAAAAAAACTAACACAA
* *
3708563 -ATTTTCTTTAAAAAAACTAACACAA
1 TATTTTCATCAAAAAAACTAACACAA
3708588 TATTTT
1 TATTTT
3708594 TTATGTCGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
25 16 0.62
26 10 0.38
ACGTcount: A:0.48, C:0.14, G:0.00, T:0.38
Consensus pattern (26 bp):
TATTTTCATCAAAAAAACTAACACAA
Found at i:3708878 original size:23 final size:23
Alignment explanation
Indices: 3708842--3708896 Score: 58
Period size: 23 Copynumber: 2.3 Consensus size: 23
3708832 TTTTATATAT
*
3708842 ATATTATAAATAAATATAATAA-A
1 ATATTATAAATAAA-AAAATAACA
* *
3708865 ATATTATTACTAAAAAAATAACA
1 ATATTATAAATAAAAAAATAACA
3708888 ATAATTATA
1 AT-ATTATA
3708897 TTTTTTTATT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
22 6 0.23
23 15 0.58
24 5 0.19
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.35
Consensus pattern (23 bp):
ATATTATAAATAAAAAAATAACA
Found at i:3710644 original size:3 final size:3
Alignment explanation
Indices: 3710636--3710688 Score: 52
Period size: 3 Copynumber: 17.7 Consensus size: 3
3710626 CCACTCATCT
* * * * * *
3710636 TAA TAA TAA TAA TAA AAA TAA TAA TAA TAC TAT TAC TAA TAC TAA TAT
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
3710684 TAA TA
1 TAA TA
3710689 CTTACCTCAC
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:3711456 original size:19 final size:19
Alignment explanation
Indices: 3711411--3711450 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
3711401 TTTGTTTTGT
*
3711411 TTTTATTT-CTTTACTTTC
1 TTTTATTTACTTTACTTTA
3711429 TTTTATTTACTTTACTTTA
1 TTTTATTTACTTTACTTTA
3711448 TTT
1 TTT
3711451 CTTTTATTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 8 0.40
19 12 0.60
ACGTcount: A:0.15, C:0.12, G:0.00, T:0.72
Consensus pattern (19 bp):
TTTTATTTACTTTACTTTA
Found at i:3711608 original size:5 final size:5
Alignment explanation
Indices: 3711600--3711661 Score: 56
Period size: 5 Copynumber: 12.2 Consensus size: 5
3711590 TATTTAATTT
* *
3711600 ATATA ATATA ATACA ATATA ATATA TTATATT ATATA ATA-A A-ATA ATATA
1 ATATA ATATA ATATA ATATA ATATA --ATATA ATATA ATATA ATATA ATATA
*
3711650 TATATA ACATA A
1 -ATATA ATATA A
3711662 AAATCTAAGA
Statistics
Matches: 47, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
3 1 0.02
4 4 0.09
5 33 0.70
6 5 0.11
7 4 0.09
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (5 bp):
ATATA
Found at i:3711629 original size:27 final size:25
Alignment explanation
Indices: 3711598--3711661 Score: 85
Period size: 27 Copynumber: 2.5 Consensus size: 25
3711588 TCTATTTAAT
3711598 TTATATAATATAATACAATATAATATA
1 TTATATAATATAATA-AA-ATAATATA
*
3711625 TTATATTATATAATAAAATAATATA
1 TTATATAATATAATAAAATAATATA
*
3711650 -TATATAACATAA
1 TTATATAATATAA
3711662 AAATCTAAGA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
24 10 0.29
25 8 0.24
26 2 0.06
27 14 0.41
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (25 bp):
TTATATAATATAATAAAATAATATA
Found at i:3716233 original size:42 final size:43
Alignment explanation
Indices: 3716133--3716242 Score: 141
Period size: 42 Copynumber: 2.6 Consensus size: 43
3716123 CAATGTCAAC
* *** *
3716133 GTCCCAGACATGGTCTTACATGTAATCAAATAACGATGTCACT
1 GTCCCAGACATGGTCTTACACGTAATCAAATAACGACACCAAT
* * *
3716176 GTCCCAGACAGGGTCTTACACGTAATCATAT-ATGACACCAAT
1 GTCCCAGACATGGTCTTACACGTAATCAAATAACGACACCAAT
3716218 GTCCCAGACATGGTCTTACACGTAA
1 GTCCCAGACATGGTCTTACACGTAA
3716243 ATCTTAAACC
Statistics
Matches: 58, Mismatches: 9, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
42 30 0.52
43 28 0.48
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.25
Consensus pattern (43 bp):
GTCCCAGACATGGTCTTACACGTAATCAAATAACGACACCAAT
Found at i:3720920 original size:29 final size:29
Alignment explanation
Indices: 3720888--3720944 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
3720878 TTTTTTTTAC
3720888 TTTAGTATAGGTTTTACTTACTACTTTTT
1 TTTAGTATAGGTTTTACTTACTACTTTTT
*
3720917 TTTAGTATAGGTTTTTCTTACTACTTTT
1 TTTAGTATAGGTTTTACTTACTACTTTT
3720945 ACCCAAATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.19, C:0.11, G:0.11, T:0.60
Consensus pattern (29 bp):
TTTAGTATAGGTTTTACTTACTACTTTTT
Found at i:3722335 original size:18 final size:17
Alignment explanation
Indices: 3722273--3722337 Score: 62
Period size: 18 Copynumber: 3.7 Consensus size: 17
3722263 TTCTAATTTA
3722273 AAAAAATATAAATTA-T
1 AAAAAATATAAATTATT
3722289 AAAAACATA-AAGATTATT
1 AAAAA-ATATAA-ATTATT
**
3722307 AGAAATTTATAAATTATT
1 A-AAAAATATAAATTATT
3722325 ATAAAAATATAAA
1 A-AAAAATATAAA
3722338 AAATAAATAA
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
16 7 0.18
17 7 0.18
18 20 0.51
19 5 0.13
ACGTcount: A:0.63, C:0.02, G:0.03, T:0.32
Consensus pattern (17 bp):
AAAAAATATAAATTATT
Found at i:3722924 original size:14 final size:14
Alignment explanation
Indices: 3722905--3722954 Score: 59
Period size: 14 Copynumber: 3.6 Consensus size: 14
3722895 TTTTCTACAA
3722905 ATTTTAATATTTTT
1 ATTTTAATATTTTT
* *
3722919 ATTTTATAAACTTTT
1 ATTTTA-ATATTTTT
3722934 A--TTAATATTTTT
1 ATTTTAATATTTTT
3722946 ATTTTAATA
1 ATTTTAATA
3722955 ATATTCTATA
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
12 7 0.24
13 3 0.10
14 12 0.41
15 7 0.24
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (14 bp):
ATTTTAATATTTTT
Found at i:3723013 original size:20 final size:20
Alignment explanation
Indices: 3722988--3723043 Score: 69
Period size: 21 Copynumber: 2.8 Consensus size: 20
3722978 TTTTTTTTTG
*
3722988 AATTTTTAATAATTTCTCAA
1 AATTTTTAATAATTTATCAA
*
3723008 AATTTTATAATAATTTATCAT
1 AATTTT-TAATAATTTATCAA
*
3723029 AATTTATAAT-ATTTA
1 AATTTTTAATAATTTA
3723044 ATGATGTTTC
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 5 0.16
20 10 0.31
21 17 0.53
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (20 bp):
AATTTTTAATAATTTATCAA
Found at i:3723020 original size:21 final size:21
Alignment explanation
Indices: 3722988--3723043 Score: 73
Period size: 20 Copynumber: 2.8 Consensus size: 21
3722978 TTTTTTTTTG
*
3722988 AATTTT-TAATAATTTCTCAA
1 AATTTTATAATAATTTATCAA
*
3723008 AATTTTATAATAATTTATCAT
1 AATTTTATAATAATTTATCAA
3723029 AA-TTTATAAT-ATTTA
1 AATTTTATAATAATTTA
3723044 ATGATGTTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
19 5 0.15
20 14 0.42
21 14 0.42
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (21 bp):
AATTTTATAATAATTTATCAA
Found at i:3727804 original size:20 final size:19
Alignment explanation
Indices: 3727743--3727823 Score: 74
Period size: 20 Copynumber: 4.2 Consensus size: 19
3727733 AATATATTTA
3727743 TTTTTTAATTTTAAAATA-
1 TTTTTTAATTTTAAAATAT
** ***
3727761 TTTTTTACATACTATTTTAAT
1 TTTTTTA-ATTTTAAAAT-AT
3727782 TTTTTTAATTTTAAAATACT
1 TTTTTTAATTTTAAAATA-T
*
3727802 TTTTTTAATTTTGAAATAT
1 TTTTTTAATTTTAAAATAT
3727821 TTT
1 TTT
3727824 AAAATTATTT
Statistics
Matches: 48, Mismatches: 11, Indels: 7
0.73 0.17 0.11
Matches are distributed among these distances:
18 7 0.15
19 10 0.21
20 24 0.50
21 7 0.15
ACGTcount: A:0.32, C:0.04, G:0.01, T:0.63
Consensus pattern (19 bp):
TTTTTTAATTTTAAAATAT
Found at i:3727834 original size:11 final size:11
Alignment explanation
Indices: 3727809--3727868 Score: 61
Period size: 11 Copynumber: 5.6 Consensus size: 11
3727799 ACTTTTTTTA
*
3727809 ATTTTGAAA-T
1 ATTTTAAAATT
3727819 ATTTTAAAATT
1 ATTTTAAAATT
*
3727830 ATTTTAAAAAT
1 ATTTTAAAATT
*
3727841 A-TTTAAATTT
1 ATTTTAAAATT
*
3727851 TTTTTAAAATT
1 ATTTTAAAATT
*
3727862 TTTTTAA
1 ATTTTAA
3727869 TTTTTAAAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
10 15 0.36
11 27 0.64
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.57
Consensus pattern (11 bp):
ATTTTAAAATT
Found at i:3727845 original size:21 final size:22
Alignment explanation
Indices: 3727815--3727868 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
3727805 TTTAATTTTG
3727815 AAATATTTTAAAATTATTTTAA
1 AAATATTTTAAAATTATTTTAA
* *
3727837 AAATA-TTTAAATTTTTTTTAA
1 AAATATTTTAAAATTATTTTAA
* *
3727858 AATTTTTTTAA
1 AAATATTTTAA
3727869 TTTTTAAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 17 0.63
22 10 0.37
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (22 bp):
AAATATTTTAAAATTATTTTAA
Found at i:3728860 original size:40 final size:39
Alignment explanation
Indices: 3728808--3728898 Score: 137
Period size: 40 Copynumber: 2.3 Consensus size: 39
3728798 CCTTTAGACA
* *
3728808 TTAAATTCTAATTTAACCTTTTCTTTAAAATCATAAATT
1 TTAAAATCTAATTTAACCTTTTCTTTAAAATCATAAATC
*
3728847 TTAAAATCTTAATTTAACCTTTTCTTTAAAATTATAAATC
1 TTAAAATC-TAATTTAACCTTTTCTTTAAAATCATAAATC
3728887 TTAAAATTCTAA
1 TTAAAA-TCTAA
3728899 CTCACTAAAT
Statistics
Matches: 47, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
39 7 0.15
40 38 0.81
41 2 0.04
ACGTcount: A:0.41, C:0.12, G:0.00, T:0.47
Consensus pattern (39 bp):
TTAAAATCTAATTTAACCTTTTCTTTAAAATCATAAATC
Found at i:3737152 original size:30 final size:30
Alignment explanation
Indices: 3737116--3737193 Score: 138
Period size: 30 Copynumber: 2.6 Consensus size: 30
3737106 ATTTTATTGC
*
3737116 TAATTTTTTTATTATTTTAAAGAGATTTGT
1 TAATTTTGTTATTATTTTAAAGAGATTTGT
*
3737146 TAATTTTGTTATTATTTTAGAGAGATTTGT
1 TAATTTTGTTATTATTTTAAAGAGATTTGT
3737176 TAATTTTGTTATTATTTT
1 TAATTTTGTTATTATTTT
3737194 TTATTGCTAA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 46 1.00
ACGTcount: A:0.27, C:0.00, G:0.12, T:0.62
Consensus pattern (30 bp):
TAATTTTGTTATTATTTTAAAGAGATTTGT
Found at i:3765986 original size:31 final size:31
Alignment explanation
Indices: 3765951--3766009 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
3765941 TTGGAGTAAA
*
3765951 TAGGGATAGTTTAGGTATTAAAAGTTAAGAG
1 TAGGGATAATTTAGGTATTAAAAGTTAAGAG
*
3765982 TAGGGGTAATTTAGGTATTAAAAGTTAA
1 TAGGGATAATTTAGGTATTAAAAGTTAA
3766010 TGGCAATTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.39, C:0.00, G:0.27, T:0.34
Consensus pattern (31 bp):
TAGGGATAATTTAGGTATTAAAAGTTAAGAG
Found at i:3767441 original size:14 final size:14
Alignment explanation
Indices: 3767422--3767461 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
3767412 TTGATTGCCA
3767422 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
3767436 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
3767450 GGAAAATGTTTT
1 GTAAAATGTTTT
3767462 ACTTTTCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.42
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:3767470 original size:20 final size:20
Alignment explanation
Indices: 3767445--3767484 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
3767435 CGTAAAATGA
*
3767445 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
3767465 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
3767485 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:3768687 original size:6 final size:6
Alignment explanation
Indices: 3768676--3768712 Score: 74
Period size: 6 Copynumber: 6.2 Consensus size: 6
3768666 TCACCCACAA
3768676 AAACAC AAACAC AAACAC AAACAC AAACAC AAACAC A
1 AAACAC AAACAC AAACAC AAACAC AAACAC AAACAC A
3768713 CAGAGATATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.68, C:0.32, G:0.00, T:0.00
Consensus pattern (6 bp):
AAACAC
Found at i:3769796 original size:36 final size:36
Alignment explanation
Indices: 3769741--3769812 Score: 117
Period size: 36 Copynumber: 2.0 Consensus size: 36
3769731 TCTGTCCATA
* * *
3769741 TGCGGTGTAACGGTTTTGATTCCTCCTAAAGGGAAT
1 TGCGGTGAAACGATCTTGATTCCTCCTAAAGGGAAT
3769777 TGCGGTGAAACGATCTTGATTCCTCCTAAAGGGAAT
1 TGCGGTGAAACGATCTTGATTCCTCCTAAAGGGAAT
3769813 CACATGATTT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (36 bp):
TGCGGTGAAACGATCTTGATTCCTCCTAAAGGGAAT
Found at i:3769843 original size:133 final size:133
Alignment explanation
Indices: 3769605--3769849 Score: 366
Period size: 133 Copynumber: 1.8 Consensus size: 133
3769595 TTGTGTATAT
* * *
3769605 ATATGTGGTGTAACGGTCTTGATTCCTGCTAAAGGGAAGTGCTGTATAACGATCTTGATTCCTCC
1 ATATGCGGTGTAACGGTCTTGATTCCTCCTAAAGGGAAGTGCGGTATAACGATCTTGATTCCTCC
* * * **
3769670 TAAGGGGGATCGCATGAGCTGCATTTAAGTGAGTGTCTATCTACACGCGTGCTAGTCTTTTTCTG
66 TAAAGGGAATCACATGAGCTGCATTTAAGTGAGCATCTATCTACACGCGTGCTAGTCTTTTTCTG
3769735 TCC
131 TCC
* *
3769738 ATATGCGGTGTAACGGTTTTGATTCCTCCTAAAGGGAATTGCGGTGA-AACGATCTTGATTCCTC
1 ATATGCGGTGTAACGGTCTTGATTCCTCCTAAAGGGAAGTGCGGT-ATAACGATCTTGATTCCTC
**
3769802 CTAAAGGGAATCACATGATTTGCATTTAAGTGAGCATCTATCTACACG
65 CTAAAGGGAATCACATGAGCTGCATTTAAGTGAGCATCTATCTACACG
3769850 TGCGTGAGAT
Statistics
Matches: 99, Mismatches: 12, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
133 98 0.99
134 1 0.01
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.33
Consensus pattern (133 bp):
ATATGCGGTGTAACGGTCTTGATTCCTCCTAAAGGGAAGTGCGGTATAACGATCTTGATTCCTCC
TAAAGGGAATCACATGAGCTGCATTTAAGTGAGCATCTATCTACACGCGTGCTAGTCTTTTTCTG
TCC
Found at i:3775378 original size:78 final size:78
Alignment explanation
Indices: 3775278--3775516 Score: 381
Period size: 78 Copynumber: 3.1 Consensus size: 78
3775268 GTAGATCAGT
* * *
3775278 TGATGGCGCTTCAAAAGTAGGCAACAAATCCAAAAATGAGGACACTGGTGATACTCCCAAGTCTA
1 TGATGTCGCTTCAAAAGTAGGCAACAAATCCAAAAATGAGGACACTGGTGACACACCCAAGTCTA
3775343 CCAAATCCAAGGA
66 CCAAATCCAAGGA
3775356 TGATGTCGCTTCGAAAA-TAGGCAACAAATCCAAAAATGAGGACACTGGTGACACACCCAAGTCT
1 TGATGTCGCTTC-AAAAGTAGGCAACAAATCCAAAAATGAGGACACTGGTGACACACCCAAGTCT
*
3775420 ACCAAATCCGAGGA
65 ACCAAATCCAAGGA
* * * *
3775434 GGATGTCACTTCAAAAGTAGGCAACAAATCCAAAAGTGGGGACACTGGTGACACACCCAAGTCTA
1 TGATGTCGCTTCAAAAGTAGGCAACAAATCCAAAAATGAGGACACTGGTGACACACCCAAGTCTA
*
3775499 CCAAATCCAAGAA
66 CCAAATCCAAGGA
3775512 TGATG
1 TGATG
3775517 ACAATGTTAA
Statistics
Matches: 148, Mismatches: 11, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
77 4 0.03
78 140 0.95
79 4 0.03
ACGTcount: A:0.38, C:0.23, G:0.21, T:0.17
Consensus pattern (78 bp):
TGATGTCGCTTCAAAAGTAGGCAACAAATCCAAAAATGAGGACACTGGTGACACACCCAAGTCTA
CCAAATCCAAGGA
Found at i:3775427 original size:42 final size:41
Alignment explanation
Indices: 3775302--3775428 Score: 97
Period size: 42 Copynumber: 3.2 Consensus size: 41
3775292 AAGTAGGCAA
*
3775302 CAAATCCAAAAATGAGGACACTGGTGATACTCCCAAGTCTAC
1 CAAATCCAAAAATGAGGACACTGGTGA-ACACCCAAGTCTAC
** * * * * *
3775344 CAAATCCAAGGATGATGTCGCT--TCGAA-A---ATAGGC-AA
1 CAAATCCAAAAATGAGGACACTGGT-GAACACCCA-AGTCTAC
3775380 CAAATCCAAAAATGAGGACACTGGTGACACACCCAAGTCTAC
1 CAAATCCAAAAATGAGGACACTGGTGA-ACACCCAAGTCTAC
3775422 CAAATCC
1 CAAATCC
3775429 GAGGAGGATG
Statistics
Matches: 60, Mismatches: 15, Indels: 20
0.63 0.16 0.21
Matches are distributed among these distances:
36 19 0.32
37 5 0.08
38 2 0.03
39 1 0.02
40 2 0.03
41 5 0.08
42 26 0.43
ACGTcount: A:0.39, C:0.26, G:0.17, T:0.17
Consensus pattern (41 bp):
CAAATCCAAAAATGAGGACACTGGTGAACACCCAAGTCTAC
Found at i:3779568 original size:26 final size:27
Alignment explanation
Indices: 3779539--3779595 Score: 62
Period size: 26 Copynumber: 2.1 Consensus size: 27
3779529 ATTGGTGGGA
3779539 GATTCAACGCTTTATG-TGTTATACTT
1 GATTCAACGCTTTATGATGTTATACTT
* * * *
3779565 GATTTAGCGTTTTATGCATGTTTTACTT
1 GATTCAACGCTTTATG-ATGTTATACTT
3779593 GAT
1 GAT
3779596 CCGACTCAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
26 13 0.52
28 12 0.48
ACGTcount: A:0.21, C:0.12, G:0.18, T:0.49
Consensus pattern (27 bp):
GATTCAACGCTTTATGATGTTATACTT
Found at i:3781258 original size:14 final size:14
Alignment explanation
Indices: 3781241--3781273 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
3781231 TTATTTTTAA
3781241 ATTATAAGTTTTTT
1 ATTATAAGTTTTTT
3781255 ATTATAAGTTTTTT
1 ATTATAAGTTTTTT
*
3781269 TTTAT
1 ATTAT
3781274 TTGTCCAACT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.27, C:0.00, G:0.06, T:0.67
Consensus pattern (14 bp):
ATTATAAGTTTTTT
Found at i:3781544 original size:68 final size:68
Alignment explanation
Indices: 3781469--3781604 Score: 229
Period size: 68 Copynumber: 2.0 Consensus size: 68
3781459 ACAAAATAAT
* * *
3781469 AATAATAA-AATAACATTAAGTTTGTTTTATTAATCAAATGTTAGATTTTGTTACAACAATTAAT
1 AATAATAATAA-AACATCAAGTTTATTTTACTAATCAAATGTTAGATTTTGTTACAACAATTAAT
3781533 ACAA
65 ACAA
3781537 AATAATAATAAAACATCAAGTTTATTTTACTAATCAAATGTTAGATTTTGTTACAACAATTAATA
1 AATAATAATAAAACATCAAGTTTATTTTACTAATCAAATGTTAGATTTTGTTACAACAATTAATA
3781602 CAA
66 CAA
3781605 TTAATTCAAT
Statistics
Matches: 64, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
68 62 0.97
69 2 0.03
ACGTcount: A:0.46, C:0.09, G:0.07, T:0.38
Consensus pattern (68 bp):
AATAATAATAAAACATCAAGTTTATTTTACTAATCAAATGTTAGATTTTGTTACAACAATTAATA
CAA
Found at i:3781606 original size:9 final size:9
Alignment explanation
Indices: 3781592--3781635 Score: 65
Period size: 9 Copynumber: 5.1 Consensus size: 9
3781582 TTTTGTTACA
3781592 ACAATTAAT
1 ACAATTAAT
3781601 ACAATTAAT
1 ACAATTAAT
*
3781610 TCAATT-A-
1 ACAATTAAT
3781617 ACAATTAAT
1 ACAATTAAT
3781626 ACAATTAAT
1 ACAATTAAT
3781635 A
1 A
3781636 ATTTGATAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
7 5 0.16
8 2 0.06
9 24 0.77
ACGTcount: A:0.55, C:0.11, G:0.00, T:0.34
Consensus pattern (9 bp):
ACAATTAAT
Found at i:3781622 original size:16 final size:16
Alignment explanation
Indices: 3781601--3781638 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
3781591 AACAATTAAT
*
3781601 ACAATTAATTCAATTA
1 ACAATTAATACAATTA
3781617 ACAATTAATACAATTA
1 ACAATTAATACAATTA
*
3781633 ATAATT
1 ACAATT
3781639 TGATAATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.53, C:0.11, G:0.00, T:0.37
Consensus pattern (16 bp):
ACAATTAATACAATTA
Found at i:3781663 original size:16 final size:16
Alignment explanation
Indices: 3781642--3781683 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
3781632 AATAATTTGA
*
3781642 TAATTTTACTAACAAT
1 TAATTTTAATAACAAT
3781658 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
*
3781674 TAGTTTTAAT
1 TAATTTTAAT
3781684 TTTATTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:3791543 original size:18 final size:18
Alignment explanation
Indices: 3791520--3791583 Score: 56
Period size: 18 Copynumber: 3.3 Consensus size: 18
3791510 AACCTTTATA
3791520 ATTTAACTTCCATTTTTC
1 ATTTAACTTCCATTTTTC
* ** *
3791538 ATTTAAATAAAACATTTTTATA
1 ATTTAACT--TCCA-TTTT-TC
3791560 ATTTAACTTCCATTTTTC
1 ATTTAACTTCCATTTTTC
3791578 ATTTAA
1 ATTTAA
3791584 ATAAAACATT
Statistics
Matches: 34, Mismatches: 8, Indels: 8
0.68 0.16 0.16
Matches are distributed among these distances:
18 14 0.41
19 4 0.12
20 4 0.12
21 4 0.12
22 8 0.24
ACGTcount: A:0.34, C:0.14, G:0.00, T:0.52
Consensus pattern (18 bp):
ATTTAACTTCCATTTTTC
Found at i:3791555 original size:20 final size:20
Alignment explanation
Indices: 3791530--3791593 Score: 60
Period size: 18 Copynumber: 3.2 Consensus size: 20
3791520 ATTTAACTTC
3791530 CATTTTTCATTTAAATAAAA
1 CATTTTTCATTTAAATAAAA
* * **
3791550 CATTTTTATAATTTAACT--TC
1 CA-TTTT-TCATTTAAATAAAA
3791570 CATTTTTCATTTAAATAAAA
1 CATTTTTCATTTAAATAAAA
3791590 CATT
1 CATT
3791594 AATAAAAATA
Statistics
Matches: 32, Mismatches: 8, Indels: 8
0.67 0.17 0.17
Matches are distributed among these distances:
18 8 0.25
19 4 0.12
20 8 0.25
21 4 0.12
22 8 0.25
ACGTcount: A:0.39, C:0.12, G:0.00, T:0.48
Consensus pattern (20 bp):
CATTTTTCATTTAAATAAAA
Found at i:3791560 original size:40 final size:40
Alignment explanation
Indices: 3791514--3791593 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
3791504 GGAAAAAACC
3791514 TTTATAATTTAACTTCCATTTTTCATTTAAATAAAACATT
1 TTTATAATTTAACTTCCATTTTTCATTTAAATAAAACATT
3791554 TTTATAATTTAACTTCCATTTTTCATTTAAATAAAACATT
1 TTTATAATTTAACTTCCATTTTTCATTTAAATAAAACATT
3791594 AATAAAAATA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.38, C:0.12, G:0.00, T:0.50
Consensus pattern (40 bp):
TTTATAATTTAACTTCCATTTTTCATTTAAATAAAACATT
Found at i:3791705 original size:28 final size:25
Alignment explanation
Indices: 3791673--3791730 Score: 71
Period size: 25 Copynumber: 2.2 Consensus size: 25
3791663 TATAGTTACA
*
3791673 ATAAAATTTTTAATTATTTATTAATTTC
1 ATAAAATTTTTAA--A-ATATTAATTTC
*
3791701 ATAAATTTTTTAAAATATTAATTTC
1 ATAAAATTTTTAAAATATTAATTTC
3791726 ATAAA
1 ATAAA
3791731 TGGTTGATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
25 15 0.54
26 1 0.04
28 12 0.43
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (25 bp):
ATAAAATTTTTAAAATATTAATTTC
Found at i:3797358 original size:4 final size:4
Alignment explanation
Indices: 3797349--3797377 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
3797339 TTGGTTTTTG
3797349 ATAC ATAC ATAC ATAC ATAC ATAC ATAC A
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC A
3797378 AACACACACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.52, C:0.24, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAC
Found at i:3805721 original size:14 final size:15
Alignment explanation
Indices: 3805686--3805722 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
3805676 CACTCTCCTC
*
3805686 TTTGCTCCTCTTCGT
1 TTTGCTTCTCTTCGT
3805701 TTT-CTTCTCTT-GT
1 TTTGCTTCTCTTCGT
3805714 TTTGCTTCT
1 TTTGCTTCT
3805723 TTGAGCGACG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
13 5 0.25
14 12 0.60
15 3 0.15
ACGTcount: A:0.00, C:0.27, G:0.11, T:0.62
Consensus pattern (15 bp):
TTTGCTTCTCTTCGT
Found at i:3806581 original size:13 final size:13
Alignment explanation
Indices: 3806563--3806587 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3806553 TGTTGAATAA
3806563 ATTAATTATTTTT
1 ATTAATTATTTTT
3806576 ATTAATTATTTT
1 ATTAATTATTTT
3806588 GAATTTTTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (13 bp):
ATTAATTATTTTT
Found at i:3810269 original size:4 final size:4
Alignment explanation
Indices: 3810260--3810291 Score: 64
Period size: 4 Copynumber: 8.0 Consensus size: 4
3810250 AAGTTTTATT
3810260 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
3810292 CTTAGTTTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (4 bp):
TTTA
Found at i:3812629 original size:18 final size:18
Alignment explanation
Indices: 3812606--3812694 Score: 56
Period size: 18 Copynumber: 4.8 Consensus size: 18
3812596 AACAAGTGAG
3812606 GAAAAAGAAAAAGAGAAT
1 GAAAAAGAAAAAGAGAAT
*
3812624 GAAAAAGAGCAAAAAGAGATT
1 G-AAAA-AG-AAAAAGAGAAT
* *
3812645 GAGAATGAAAAAGA-AATT
1 GAAAAAGAAAAAGAGAA-T
* *
3812663 GAAGAAAG-AAGAGAAAAT
1 GAA-AAAGAAAAAGAGAAT
**
3812681 GAATTAGAAAAAGA
1 GAAAAAGAAAAAGA
3812695 AACAAAAGAA
Statistics
Matches: 54, Mismatches: 10, Indels: 14
0.69 0.13 0.18
Matches are distributed among these distances:
17 3 0.06
18 25 0.46
19 10 0.19
20 5 0.09
21 11 0.20
ACGTcount: A:0.65, C:0.01, G:0.24, T:0.10
Consensus pattern (18 bp):
GAAAAAGAAAAAGAGAAT
Found at i:3812679 original size:23 final size:22
Alignment explanation
Indices: 3812653--3812705 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
3812643 TTGAGAATGA
*
3812653 AAAAGAAATT-GAAGAAAGAAGAG
1 AAAAGAAATTAGAA-AAAGAA-AC
3812676 AAAATG-AATTAGAAAAAGAAAC
1 AAAA-GAAATTAGAAAAAGAAAC
3812698 AAAAGAAA
1 AAAAGAAA
3812706 AAGACGTGGA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 1 0.04
22 7 0.27
23 14 0.54
24 4 0.15
ACGTcount: A:0.70, C:0.02, G:0.19, T:0.09
Consensus pattern (22 bp):
AAAAGAAATTAGAAAAAGAAAC
Found at i:3814073 original size:4 final size:4
Alignment explanation
Indices: 3814064--3814099 Score: 72
Period size: 4 Copynumber: 9.0 Consensus size: 4
3814054 TATTTTTATT
3814064 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
3814100 CTTAGTTTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 32 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (4 bp):
TTTA
Found at i:3822626 original size:133 final size:133
Alignment explanation
Indices: 3822388--3822655 Score: 500
Period size: 133 Copynumber: 2.0 Consensus size: 133
3822378 AGTTACGCAA
* *
3822388 TTCAAAAATTTCCTATATCTGTGAGGCCTTGTTCAAAGAGTAATATACTACCGATCAATTAGTAC
1 TTCAAAAATTTCCTATATCTATGAGGCCTTGTTCAAAGAGTAATATACTACCGATCAACTAGTAC
* *
3822453 AAAATGTTATAATATTTCTAAAACTCATCAAATCCGGTTTAACATTTAGTTGAATGGTGGATTGA
66 AAAATGTTATAATATTTCTAAAACTCATCAAAGCCCGTTTAACATTTAGTTGAATGGTGGATTGA
3822518 GTT
131 GTT
3822521 TTCAAAAATTTCCTATATCTATGAGGCCTTGTTCAAAGAGTAATATACTACCGATCAACTAGTAC
1 TTCAAAAATTTCCTATATCTATGAGGCCTTGTTCAAAGAGTAATATACTACCGATCAACTAGTAC
3822586 AAAATGTTATAATATTTCTAAAACTCATCAAAGCCCGTTTAACATTTAGTTGAATGGTGGATTGA
66 AAAATGTTATAATATTTCTAAAACTCATCAAAGCCCGTTTAACATTTAGTTGAATGGTGGATTGA
3822651 GTT
131 GTT
3822654 TT
1 TT
3822656 TAGTTTGATT
Statistics
Matches: 131, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
133 131 1.00
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.36
Consensus pattern (133 bp):
TTCAAAAATTTCCTATATCTATGAGGCCTTGTTCAAAGAGTAATATACTACCGATCAACTAGTAC
AAAATGTTATAATATTTCTAAAACTCATCAAAGCCCGTTTAACATTTAGTTGAATGGTGGATTGA
GTT
Found at i:3823610 original size:22 final size:23
Alignment explanation
Indices: 3823585--3823633 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 23
3823575 TCGTAATGAC
*
3823585 ATATGAAATTAACAATA-TAAAT
1 ATATCAAATTAACAATACTAAAT
*
3823607 ATATCAAATTAATAATACTAAAT
1 ATATCAAATTAACAATACTAAAT
3823630 ATAT
1 ATAT
3823634 TACATTGTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 15 0.62
23 9 0.38
ACGTcount: A:0.57, C:0.06, G:0.02, T:0.35
Consensus pattern (23 bp):
ATATCAAATTAACAATACTAAAT
Found at i:3828816 original size:39 final size:39
Alignment explanation
Indices: 3828773--3828853 Score: 162
Period size: 39 Copynumber: 2.1 Consensus size: 39
3828763 TTACAGTTGG
3828773 ATTCACTAGCACACTAAATACTGATTCATAATAATAATA
1 ATTCACTAGCACACTAAATACTGATTCATAATAATAATA
3828812 ATTCACTAGCACACTAAATACTGATTCATAATAATAATA
1 ATTCACTAGCACACTAAATACTGATTCATAATAATAATA
3828851 ATT
1 ATT
3828854 GTTACAATTA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 42 1.00
ACGTcount: A:0.46, C:0.17, G:0.05, T:0.32
Consensus pattern (39 bp):
ATTCACTAGCACACTAAATACTGATTCATAATAATAATA
Found at i:3834173 original size:17 final size:18
Alignment explanation
Indices: 3834151--3834191 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 18
3834141 TTTACTTATT
3834151 AAAAATGTAAAAAATA-A
1 AAAAATGTAAAAAATATA
3834168 AAAAA--TAAAAAATATA
1 AAAAATGTAAAAAATATA
3834184 AATAAATG
1 AA-AAATG
3834192 AATACTCATT
Statistics
Matches: 20, Mismatches: 0, Indels: 6
0.77 0.00 0.23
Matches are distributed among these distances:
15 9 0.45
16 3 0.15
17 8 0.40
ACGTcount: A:0.76, C:0.00, G:0.05, T:0.20
Consensus pattern (18 bp):
AAAAATGTAAAAAATATA
Found at i:3836989 original size:17 final size:17
Alignment explanation
Indices: 3836967--3837002 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
3836957 AAACAACTCT
3836967 AATTTAAGGCATCAATA
1 AATTTAAGGCATCAATA
*
3836984 AATTTAAGGCATCAGTA
1 AATTTAAGGCATCAATA
3837001 AA
1 AA
3837003 AAAGAAATAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.47, C:0.11, G:0.14, T:0.28
Consensus pattern (17 bp):
AATTTAAGGCATCAATA
Found at i:3839023 original size:5 final size:6
Alignment explanation
Indices: 3839006--3839030 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
3838996 AAAAAGGTGA
3839006 TATTTT TATTTT TATTTT TATTTT T
1 TATTTT TATTTT TATTTT TATTTT T
3839031 TTGAAATAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TATTTT
Found at i:3842046 original size:22 final size:22
Alignment explanation
Indices: 3842021--3842066 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
3842011 TATTGTCATC
* *
3842021 AACAATTTTGCACGTAAAGAAA
1 AACAATTTTACACGCAAAGAAA
*
3842043 AACAATTTTACATGCAAAGAAA
1 AACAATTTTACACGCAAAGAAA
3842065 AA
1 AA
3842067 TAAAAATAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.54, C:0.13, G:0.11, T:0.22
Consensus pattern (22 bp):
AACAATTTTACACGCAAAGAAA
Found at i:3842932 original size:28 final size:28
Alignment explanation
Indices: 3842889--3842966 Score: 79
Period size: 28 Copynumber: 2.8 Consensus size: 28
3842879 TCTAAAAAAA
* * *
3842889 ATAAAAATTTACTAAAACTA-TAAAAACTG
1 ATAAAAAATTA-TAAAAATATTAAAAA-TC
*
3842918 ATAAAAAATTATAAAAATATTAGAAATC
1 ATAAAAAATTATAAAAATATTAAAAATC
*
3842946 ATAAAAGATTATAAAAA-ATTA
1 ATAAAAAATTATAAAAATATTA
3842967 TAAAGAATTT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
27 4 0.09
28 24 0.56
29 15 0.35
ACGTcount: A:0.63, C:0.05, G:0.04, T:0.28
Consensus pattern (28 bp):
ATAAAAAATTATAAAAATATTAAAAATC
Found at i:3842961 original size:10 final size:10
Alignment explanation
Indices: 3842902--3842980 Score: 63
Period size: 10 Copynumber: 8.1 Consensus size: 10
3842892 AAAATTTACT
*
3842902 AAAACTATAA
1 AAAATTATAA
* *
3842912 AAACTGATAA
1 AAAATTATAA
3842922 AAAATTAT-A
1 AAAATTATAA
*
3842931 AAAA-TATTA
1 AAAATTATAA
* *
3842940 GAAATCATAA
1 AAAATTATAA
*
3842950 AAGATTATAA
1 AAAATTATAA
3842960 AAAATTATAA
1 AAAATTATAA
* *
3842970 AGAATTTTAA
1 AAAATTATAA
3842980 A
1 A
3842981 CAATAGTAAA
Statistics
Matches: 53, Mismatches: 14, Indels: 4
0.75 0.20 0.06
Matches are distributed among these distances:
8 3 0.06
9 9 0.17
10 41 0.77
ACGTcount: A:0.63, C:0.04, G:0.05, T:0.28
Consensus pattern (10 bp):
AAAATTATAA
Found at i:3842980 original size:20 final size:19
Alignment explanation
Indices: 3842919--3842994 Score: 66
Period size: 20 Copynumber: 3.9 Consensus size: 19
3842909 TAAAAACTGA
*
3842919 TAAAAAATTATAAAAATAT
1 TAAAAAATTATAAAAATTT
* * *
3842938 T-AGAAATCATAAAAGATTA
1 TAAAAAATTATAAAA-ATTT
3842957 TAAAAAATTATAAAGAATTT
1 TAAAAAATTATAAA-AATTT
*
3842977 TAAACAA-TAGTAAAAATT
1 TAAAAAATTA-TAAAAATT
3842995 GTTATATCTT
Statistics
Matches: 45, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
18 11 0.24
19 10 0.22
20 23 0.51
21 1 0.02
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.30
Consensus pattern (19 bp):
TAAAAAATTATAAAAATTT
Found at i:3843322 original size:20 final size:20
Alignment explanation
Indices: 3843285--3843340 Score: 62
Period size: 20 Copynumber: 2.8 Consensus size: 20
3843275 AGATAAATAT
3843285 TTATCTTGAGATAA-TAAAAAA
1 TTAT-TTGA-ATAATTAAAAAA
3843306 -TATTTTGAATAATTAAAAAA
1 TTA-TTTGAATAATTAAAAAA
*
3843326 TTATTTAAATAATTA
1 TTATTTGAATAATTA
3843341 TTTAATTGAA
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
19 4 0.13
20 24 0.77
21 3 0.10
ACGTcount: A:0.52, C:0.02, G:0.05, T:0.41
Consensus pattern (20 bp):
TTATTTGAATAATTAAAAAA
Found at i:3843644 original size:36 final size:35
Alignment explanation
Indices: 3843604--3843684 Score: 94
Period size: 37 Copynumber: 2.3 Consensus size: 35
3843594 TTTTTTTTGT
3843604 AATTTTATAGTTTTAT-ATTTTTTTCTATTTTTAATA
1 AATTTTATA-TTTTATAATTTTTTTCTATTTTTAA-A
*
3843640 AATTTGTCAT-TTTTATAATTTTTTTTTATTTTTAAA
1 AATTT-T-ATATTTTATAATTTTTTTCTATTTTTAAA
*
3843676 AATTCTATA
1 AATTTTATA
3843685 AAGTTTTTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
34 2 0.05
35 1 0.03
36 16 0.41
37 18 0.46
38 2 0.05
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.64
Consensus pattern (35 bp):
AATTTTATATTTTATAATTTTTTTCTATTTTTAAA
Found at i:3844766 original size:303 final size:303
Alignment explanation
Indices: 3844216--3844781 Score: 828
Period size: 303 Copynumber: 1.9 Consensus size: 303
3844206 GTTACATGCA
* * *
3844216 ATTACTAGTCTTATACTATTCATGCAATTGTAGATTTATTCCATATTCTCCAATTGGATCATTCT
1 ATTACTAGTCTTACACTATTCATACAATTGTAGATTTACTCCATATTCTCCAATTGGATCATTCT
* * * * * * *
3844281 AAATCTTTGTACTTTTTGGATTTTGAAATTTCAGTATTAACGTAAAATGACTTTTGTTAATCCAT
66 AAATCTCTATACTTTTCGAATTTTAAAATTTCAATATTAACGTAAAATAACTTTTGTTAATCCAT
* * *
3844346 TAATTGGATTTTAGTGAGTAATATATGAAAAATAATAATCTAACATGACATTACACATATAATAA
131 TAACTGAATTTTAATGAGTAATATATGAAAAATAATAATCTAACATGACATTACACATATAATAA
* * * * * * **
3844411 AATGTTTGTCGCATTAGATTTTAGAAATGGTAAAATTTTACTTAACGGTTTTAACAATTTATTAT
196 AATATATGACACATTAAATTTTAAAAATAATAAAATTTTACTTAACGGTTTTAACAATTTATTAT
3844476 TTGACGAATATTGAAAATTTAAAAAAAAAACTAAAAATGACCC
261 TTGACGAATATTGAAAATTTAAAAAAAAAACTAAAAATGACCC
* * * * *
3844519 ATTACTAGTCTTGCACTATTCATACAGTTGTAGATTTACTCTATATTCTCTATTTGGATCATTCT
1 ATTACTAGTCTTACACTATTCATACAATTGTAGATTTACTCCATATTCTCCAATTGGATCATTCT
* *
3844584 AAATCTCTATACTTTTCGAATTTTAAAATTTCAATCTTAACGTAAAATAATTTTTGTTAATCCAT
66 AAATCTCTATACTTTTCGAATTTTAAAATTTCAATATTAACGTAAAATAACTTTTGTTAATCCAT
* *
3844649 TAACTGAATTTTAATGAGTAATATGTAGAAAAA-AATAATCTAACATGACATTACATATATAATA
131 TAACTGAATTTTAATGAGTAATATAT-GAAAAATAATAATCTAACATGACATTACACATATAATA
* *
3844713 AAATATATGACACATTAAATTTTAAAAATAATAAATTTTTACTTAATGGTTTTAACAATTTATTA
195 AAATATATGACACATTAAATTTTAAAAATAATAAAATTTTACTTAACGGTTTTAACAATTTATTA
3844778 TTTG
260 TTTG
3844782 GTGAGAATTA
Statistics
Matches: 230, Mismatches: 32, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
303 224 0.97
304 6 0.03
ACGTcount: A:0.38, C:0.11, G:0.10, T:0.41
Consensus pattern (303 bp):
ATTACTAGTCTTACACTATTCATACAATTGTAGATTTACTCCATATTCTCCAATTGGATCATTCT
AAATCTCTATACTTTTCGAATTTTAAAATTTCAATATTAACGTAAAATAACTTTTGTTAATCCAT
TAACTGAATTTTAATGAGTAATATATGAAAAATAATAATCTAACATGACATTACACATATAATAA
AATATATGACACATTAAATTTTAAAAATAATAAAATTTTACTTAACGGTTTTAACAATTTATTAT
TTGACGAATATTGAAAATTTAAAAAAAAAACTAAAAATGACCC
Found at i:3848773 original size:49 final size:48
Alignment explanation
Indices: 3848704--3848806 Score: 124
Period size: 46 Copynumber: 2.1 Consensus size: 48
3848694 ATATTTTAAA
3848704 ATTATTTTATGGTACAAATAAATTATAAAAATAAAC-TTAAATT-AAAATAT
1 ATTATTTTATGGTACAAATAAA--A-AAAAA-AAACATTAAATTCAAAATAT
* *
3848754 ATTATTTT-TTGTACAAATAAAAAATAAAAACATTAAATTCAAAATAT
1 ATTATTTTATGGTACAAATAAAAAAAAAAAACATTAAATTCAAAATAT
3848801 A-TATTT
1 ATTATTT
3848807 AAATTGATTT
Statistics
Matches: 49, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
45 4 0.08
46 16 0.33
47 9 0.18
49 12 0.24
50 8 0.16
ACGTcount: A:0.53, C:0.05, G:0.03, T:0.39
Consensus pattern (48 bp):
ATTATTTTATGGTACAAATAAAAAAAAAAAACATTAAATTCAAAATAT
Found at i:3855110 original size:44 final size:42
Alignment explanation
Indices: 3855028--3855110 Score: 96
Period size: 42 Copynumber: 1.9 Consensus size: 42
3855018 GCATTATGAG
* * **
3855028 TATAATATATAGTTTTTTATATTATTTATATTTTATAAAGGT
1 TATAATATATAGTTTATTATATTATTTATAATAAATAAAGGT
3855070 TATAATATATA-TTATATTATAATGTATTTATAATAAATAAA
1 TATAATATATAGTT-TATTAT-AT-TATTTATAATAAATAAA
3855111 AAAACAAACA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
41 2 0.06
42 16 0.47
43 2 0.06
44 14 0.41
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (42 bp):
TATAATATATAGTTTATTATATTATTTATAATAAATAAAGGT
Found at i:3856992 original size:42 final size:42
Alignment explanation
Indices: 3856902--3856994 Score: 150
Period size: 42 Copynumber: 2.2 Consensus size: 42
3856892 GCTTAGCGCT
* * *
3856902 TAGCAGACTTAATGCCGGTGAAACAATTTTAGACTTTATGTC
1 TAGCAGGCTTAATGCCGGTGAAACAATTTCAGACTATATGTC
3856944 TAGCAGGCTTAATGCCGGTGAAACAATTTCAGACTATATGTC
1 TAGCAGGCTTAATGCCGGTGAAACAATTTCAGACTATATGTC
*
3856986 TCGCAGGCT
1 TAGCAGGCT
3856995 AAGTGCCAAT
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.30
Consensus pattern (42 bp):
TAGCAGGCTTAATGCCGGTGAAACAATTTCAGACTATATGTC
Found at i:3859595 original size:21 final size:21
Alignment explanation
Indices: 3859569--3859621 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
3859559 AACTGAGGCG
*
3859569 GTGAGATTAGTTACAGTAGCA
1 GTGAGATTAGATACAGTAGCA
* * *
3859590 GTGAGATTGGATACTGTAGCG
1 GTGAGATTAGATACAGTAGCA
3859611 GTGAGATTAGA
1 GTGAGATTAGA
3859622 AACAATGGTG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.30, C:0.08, G:0.34, T:0.28
Consensus pattern (21 bp):
GTGAGATTAGATACAGTAGCA
Found at i:3861551 original size:146 final size:146
Alignment explanation
Indices: 3861287--3861576 Score: 553
Period size: 146 Copynumber: 2.0 Consensus size: 146
3861277 TGACCTGCAT
*
3861287 AATTTGAATCCATACGCAGTTGCATAGTGAAATAAGTTTCATGGTGTACCAATACACTGCTCAAC
1 AATTTAAATCCATACGCAGTTGCATAGTGAAATAAGTTTCATGGTGTACCAATACACTGCTCAAC
* *
3861352 ACATATTCTTCCTCTTCATGATAATTGTTGTGCTCAACTTGGGTAACAATTGTGGCTATTCTTTG
66 ACATATTCTTCATCTTCATGATAATTGTTGTGCTCAACTTGGGTAACAATTGTGGCTATTCTTCG
3861417 TTGAGCTTCTTCACCC
131 TTGAGCTTCTTCACCC
3861433 AATTTAAATCCATACGCAGTTGCATAGTGAAATAAGTTTCATGGTGTACCAATACACTGCTCAAC
1 AATTTAAATCCATACGCAGTTGCATAGTGAAATAAGTTTCATGGTGTACCAATACACTGCTCAAC
3861498 ACATATTCTTCATCTTCATGATAATTGTTGTGCTCAACTTGGGTAACAATTGTGGCTATTCTTCG
66 ACATATTCTTCATCTTCATGATAATTGTTGTGCTCAACTTGGGTAACAATTGTGGCTATTCTTCG
3861563 TTGAGCTTCTTCAC
131 TTGAGCTTCTTCAC
3861577 TTAATTCAGG
Statistics
Matches: 141, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
146 141 1.00
ACGTcount: A:0.27, C:0.21, G:0.16, T:0.36
Consensus pattern (146 bp):
AATTTAAATCCATACGCAGTTGCATAGTGAAATAAGTTTCATGGTGTACCAATACACTGCTCAAC
ACATATTCTTCATCTTCATGATAATTGTTGTGCTCAACTTGGGTAACAATTGTGGCTATTCTTCG
TTGAGCTTCTTCACCC
Found at i:3863913 original size:27 final size:27
Alignment explanation
Indices: 3863872--3863924 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
3863862 AACTGAGAAG
3863872 TGAATAGAAAACACAGAATATCTTATT
1 TGAATAGAAAACACAGAATATCTTATT
* * *
3863899 TGAATAGAAAGCACATAATATGTTAT
1 TGAATAGAAAACACAGAATATCTTAT
3863925 AGTTTCAGTC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.47, C:0.09, G:0.13, T:0.30
Consensus pattern (27 bp):
TGAATAGAAAACACAGAATATCTTATT
Found at i:3868033 original size:22 final size:20
Alignment explanation
Indices: 3867998--3868041 Score: 61
Period size: 22 Copynumber: 2.1 Consensus size: 20
3867988 TTTTAAAATC
3867998 TATAAAATAAAATAATTAAT
1 TATAAAATAAAATAATTAAT
*
3868018 TATAAATATAAAAATATTTAAT
1 TATAAA-AT-AAAATAATTAAT
3868040 TA
1 TA
3868042 AAAGTTAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 6 0.29
21 2 0.10
22 13 0.62
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (20 bp):
TATAAAATAAAATAATTAAT
Found at i:3868050 original size:21 final size:22
Alignment explanation
Indices: 3867998--3868058 Score: 67
Period size: 21 Copynumber: 2.9 Consensus size: 22
3867988 TTTTAAAATC
*
3867998 TATAAA-AT-AAAATAATTAAT
1 TATAAATATAAAAATATTTAAT
3868018 TATAAATATAAAAATATTTAAT
1 TATAAATATAAAAATATTTAAT
*
3868040 TA-AAAGT-TAAAATTATTTA
1 TATAAA-TATAAAAATATTTA
3868059 TGAGAAAACA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
20 6 0.17
21 16 0.44
22 14 0.39
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (22 bp):
TATAAATATAAAAATATTTAAT
Found at i:3868205 original size:29 final size:27
Alignment explanation
Indices: 3868167--3868225 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
3868157 TGGTATTAAT
3868167 AATTTCAAGATGTAATTGAAATATTTGAA
1 AATTTCAAGAT-TAATTGAAA-ATTTGAA
* * *
3868196 AATTTTAAGATTAATTTATAATTTGAA
1 AATTTCAAGATTAATTGAAAATTTGAA
3868223 AAT
1 AAT
3868226 ATTTTATTAC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
27 10 0.37
28 7 0.26
29 10 0.37
ACGTcount: A:0.46, C:0.02, G:0.10, T:0.42
Consensus pattern (27 bp):
AATTTCAAGATTAATTGAAAATTTGAA
Found at i:3872019 original size:4 final size:4
Alignment explanation
Indices: 3872010--3872050 Score: 82
Period size: 4 Copynumber: 10.2 Consensus size: 4
3872000 AAAAGAAGGT
3872010 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC A
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC A
3872051 GAGGGAGAGG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 37 1.00
ACGTcount: A:0.51, C:0.24, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAC
Found at i:3872919 original size:15 final size:15
Alignment explanation
Indices: 3872899--3872946 Score: 51
Period size: 18 Copynumber: 2.9 Consensus size: 15
3872889 GTGAATTGGA
3872899 AATAAAAATATATTT
1 AATAAAAATATATTT
*
3872914 AATAAAAACTAATTTATT
1 AATAAAAA-T-ATAT-TT
3872932 AATAAAATATATATT
1 AATAAAA-ATATATT
3872947 AAAATGATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 7
0.75 0.06 0.19
Matches are distributed among these distances:
15 8 0.30
16 2 0.07
17 6 0.22
18 10 0.37
19 1 0.04
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (15 bp):
AATAAAAATATATTT
Found at i:3872947 original size:15 final size:16
Alignment explanation
Indices: 3872899--3872948 Score: 59
Period size: 15 Copynumber: 3.1 Consensus size: 16
3872889 GTGAATTGGA
3872899 AATAAAAATATAT-TT
1 AATAAAAATATATATT
*
3872914 AATAAAAACTAATTTATT
1 AATAAAAA-T-ATATATT
3872932 AAT-AAAATATATATT
1 AATAAAAATATATATT
3872947 AA
1 AA
3872949 AATGATTTGA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
15 16 0.53
16 2 0.07
17 7 0.23
18 5 0.17
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (16 bp):
AATAAAAATATATATT
Found at i:3873472 original size:116 final size:117
Alignment explanation
Indices: 3873261--3873510 Score: 349
Period size: 116 Copynumber: 2.1 Consensus size: 117
3873251 CATCCAAACC
* * ** * *
3873261 AACCTTGAGTCCGAAATTGAGAACTAGTAAGATGCATTCCTTCAACTGTTGCTCTTCTAAACAGT
1 AACCCTGAGTCCAAAATTGAGAACTAGTAAGACACATTCCCTCAACTGATGCTCTTCTAAACAGT
* * * *
3873326 TTCACTAGTGAAAATGCGGTGAGATAGAGAATATATTGTATTGATGGCCTTA
66 CTCACTAGTGAAAATGCGGTGAGATAGAGAATAAATTGTACTGATGCCCTTA
* * * *
3873378 AATCCTGAGTCCAAAATTGAGAACTGGTGAGACACGTTCCCTCAACTGATGCTCTTC-AAACAGT
1 AACCCTGAGTCCAAAATTGAGAACTAGTAAGACACATTCCCTCAACTGATGCTCTTCTAAACAGT
* *
3873442 CTCACTAGTGAAAATGCGGTGAGATGGAGAATAAATTGTACTGATGCCCTTT
66 CTCACTAGTGAAAATGCGGTGAGATAGAGAATAAATTGTACTGATGCCCTTA
3873494 AACCCTGAGTCCAAAAT
1 AACCCTGAGTCCAAAAT
3873511 AAAAGTCAAC
Statistics
Matches: 116, Mismatches: 17, Indels: 1
0.87 0.13 0.01
Matches are distributed among these distances:
116 69 0.59
117 47 0.41
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.28
Consensus pattern (117 bp):
AACCCTGAGTCCAAAATTGAGAACTAGTAAGACACATTCCCTCAACTGATGCTCTTCTAAACAGT
CTCACTAGTGAAAATGCGGTGAGATAGAGAATAAATTGTACTGATGCCCTTA
Found at i:3883234 original size:36 final size:39
Alignment explanation
Indices: 3883154--3883235 Score: 91
Period size: 36 Copynumber: 2.2 Consensus size: 39
3883144 TTTTTTATAA
*
3883154 ATTTT-TAAAAATTATTAGAATTTATATATTATTTATATG
1 ATTTTATAAAAATTATTAGAA-TTATATATTATTGATATG
* * *
3883193 TTTTTATAAAAATT-TTA-AA-TATATTTTATTGATTTG
1 ATTTTATAAAAATTATTAGAATTATATATTATTGATATG
3883229 ATTTTAT
1 ATTTTAT
3883236 TAGATTTTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
36 20 0.54
38 2 0.05
39 7 0.19
40 8 0.22
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (39 bp):
ATTTTATAAAAATTATTAGAATTATATATTATTGATATG
Found at i:3883255 original size:9 final size:9
Alignment explanation
Indices: 3883241--3883401 Score: 84
Period size: 9 Copynumber: 17.8 Consensus size: 9
3883231 TTTATTAGAT
3883241 TTTTTATAA
1 TTTTTATAA
3883250 TTTTTATAAA
1 TTTTTAT-AA
*
3883260 TTTTTAAATA
1 TTTTTATA-A
3883270 TATTTTATTAA
1 T-TTTTA-TAA
*
3883281 -TTTTATTA
1 TTTTTATAA
3883289 TTTTT-TAA
1 TTTTTATAA
*
3883297 --TATAT-A
1 TTTTTATAA
* *
3883303 TTTTTAGAT
1 TTTTTATAA
3883312 TTTTTATAA
1 TTTTTATAA
**
3883321 TACTTATAA
1 TTTTTATAA
* *
3883330 GTTATTATTA
1 -TTTTTATAA
*
3883340 TTGTTATAA
1 TTTTTATAA
3883349 TTTTTATAA
1 TTTTTATAA
*
3883358 GTTTATT-CAA
1 -TTT-TTATAA
*
3883368 TTTTAAT-A
1 TTTTTATAA
*
3883376 TATTTATAA
1 TTTTTATAA
3883385 TTTTTTATAA
1 -TTTTTATAA
3883395 TTTTTAT
1 TTTTTAT
3883402 GAGAAAATAT
Statistics
Matches: 113, Mismatches: 24, Indels: 30
0.68 0.14 0.18
Matches are distributed among these distances:
6 3 0.03
7 1 0.01
8 14 0.12
9 57 0.50
10 29 0.26
11 8 0.07
12 1 0.01
ACGTcount: A:0.34, C:0.01, G:0.02, T:0.63
Consensus pattern (9 bp):
TTTTTATAA
Found at i:3883255 original size:21 final size:22
Alignment explanation
Indices: 3883229--3883289 Score: 65
Period size: 21 Copynumber: 2.8 Consensus size: 22
3883219 TATTGATTTG
3883229 ATTTTATTAGATTTTTTATA-AT
1 ATTTTATTA-ATTTTTTATATAT
* *
3883251 -TTTTA-TAAATTTTTAAATAT
1 ATTTTATTAATTTTTTATATAT
3883271 ATTTTATTAATTTTATTAT
1 ATTTTATTAATTTT-TTAT
3883290 TTTTTAATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
19 8 0.26
20 4 0.13
21 10 0.32
22 6 0.19
23 3 0.10
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (22 bp):
ATTTTATTAATTTTTTATATAT
Found at i:3883265 original size:19 final size:19
Alignment explanation
Indices: 3883241--3883401 Score: 72
Period size: 19 Copynumber: 8.8 Consensus size: 19
3883231 TTTATTAGAT
3883241 TTTTTATAATTTTTATAAA
1 TTTTTATAATTTTTATAAA
* *
3883260 TTTTTAAATATATTTTATTAA
1 TTTTTATA-AT-TTTTATAAA
*
3883281 -TTTTATTATTTTT-T-AA
1 TTTTTATAATTTTTATAAA
* * *
3883297 --TATAT-ATTTTTA-GAT
1 TTTTTATAATTTTTATAAA
** *
3883312 TTTTTATAATACTTATAAG
1 TTTTTATAATTTTTATAAA
* * *
3883331 TTATTATTATTGTTAT-AA
1 TTTTTATAATTTTTATAAA
* *
3883349 TTTTTATAA-GTTTATTCAA
1 TTTTTATAATTTTTA-TAAA
* * *
3883368 TTTTAAT-ATATTTATAAT
1 TTTTTATAATTTTTATAAA
3883386 TTTTTATAATTTTTAT
1 TTTTTATAATTTTTAT
3883402 GAGAAAATAT
Statistics
Matches: 104, Mismatches: 26, Indels: 24
0.68 0.17 0.16
Matches are distributed among these distances:
14 6 0.06
15 5 0.05
16 2 0.02
17 8 0.08
18 27 0.26
19 41 0.39
20 7 0.07
21 8 0.08
ACGTcount: A:0.34, C:0.01, G:0.02, T:0.63
Consensus pattern (19 bp):
TTTTTATAATTTTTATAAA
Found at i:3883275 original size:67 final size:64
Alignment explanation
Indices: 3883165--3883291 Score: 141
Period size: 67 Copynumber: 1.9 Consensus size: 64
3883155 TTTTTAAAAA
**
3883165 TTATTAGAATTTATATATTATTTATATGTTTTTATAAAAATTTTAAATATATTTTATTGATTTGA
1 TTATTAGAATTTATATATTATTTATAAATTTTTATAAAAATTTT-AATA-ATTTTATT-ATTTGA
3883230 TT
63 TT
* * * *
3883232 TTATTAGATTTTTTATAATT-TTTATAAATTTTTA-AATATATTTTATTAATTTTATTATTT
1 TTATTAGAATTTATAT-ATTATTTATAAATTTTTATAA-AAATTTTAATAATTTTATTATTT
3883292 TTTAATATAT
Statistics
Matches: 52, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
64 4 0.08
65 8 0.15
66 5 0.10
67 32 0.62
68 3 0.06
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (64 bp):
TTATTAGAATTTATATATTATTTATAAATTTTTATAAAAATTTTAATAATTTTATTATTTGATT
Found at i:3883301 original size:29 final size:29
Alignment explanation
Indices: 3883259--3883318 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 29
3883249 ATTTTTATAA
3883259 ATTTTTAAATATAT-TTTATTA-ATTTTATT
1 ATTTTTAAATATATATTT-TTAGATTTT-TT
*
3883288 ATTTTTTAATATATATTTTTAGATTTTTT
1 ATTTTTAAATATATATTTTTAGATTTTTT
3883317 AT
1 AT
3883319 AATACTTATA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
29 20 0.71
30 8 0.29
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.67
Consensus pattern (29 bp):
ATTTTTAAATATATATTTTTAGATTTTTT
Found at i:3883304 original size:14 final size:14
Alignment explanation
Indices: 3883260--3883307 Score: 53
Period size: 14 Copynumber: 3.3 Consensus size: 14
3883250 TTTTTATAAA
3883260 TTTTTAA-ATATAT
1 TTTTTAATATATAT
*
3883273 TTTATTAATTTTATTAT
1 TTT-TTAA-TATA-TAT
3883290 TTTTTAATATATAT
1 TTTTTAATATATAT
3883304 TTTT
1 TTTT
3883308 AGATTTTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
13 3 0.10
14 11 0.38
15 3 0.10
16 6 0.21
17 6 0.21
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (14 bp):
TTTTTAATATATAT
Found at i:3894888 original size:14 final size:14
Alignment explanation
Indices: 3894881--3894919 Score: 69
Period size: 14 Copynumber: 2.8 Consensus size: 14
3894871 TTATTAAATT
3894881 ATTATTATTATTAA
1 ATTATTATTATTAA
*
3894895 ATTAGTATTATTAA
1 ATTATTATTATTAA
3894909 ATTATTATTAT
1 ATTATTATTAT
3894920 ATTTTAAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (14 bp):
ATTATTATTATTAA
Found at i:3894893 original size:17 final size:17
Alignment explanation
Indices: 3894871--3894919 Score: 68
Period size: 17 Copynumber: 3.1 Consensus size: 17
3894861 TAAAAAAATG
3894871 TTATTAAATTATTATTA
1 TTATTAAATTATTATTA
*
3894888 TTATT-AA--ATTAGTA
1 TTATTAAATTATTATTA
3894902 TTATTAAATTATTATTA
1 TTATTAAATTATTATTA
3894919 T
1 T
3894920 ATTTTAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
14 11 0.41
15 2 0.07
16 2 0.07
17 12 0.44
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (17 bp):
TTATTAAATTATTATTA
Found at i:3895055 original size:3 final size:3
Alignment explanation
Indices: 3895049--3895074 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
3895039 TATTAAAATA
3895049 TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
3895075 ACTAGGAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:3896253 original size:23 final size:23
Alignment explanation
Indices: 3896226--3896336 Score: 142
Period size: 23 Copynumber: 5.0 Consensus size: 23
3896216 GGCTTTGCCG
* *
3896226 ATCAGGCACTTTATGTGTCGTAT
1 ATCAGGCACCTCATGTGTCGTAT
3896249 ATCAGGCACCTCATGTGTCGTAT
1 ATCAGGCACCTCATGTGTCGTAT
*
3896272 ATCAGGCACCTCGTGTGTCG--T
1 ATCAGGCACCTCATGTGTCGTAT
*
3896293 ATCAGGCACCTCGTGTGTCGT-T
1 ATCAGGCACCTCATGTGTCGTAT
*
3896315 -TCAGGCA-CTTATGTGTCGTAT
1 ATCAGGCACCTCATGTGTCGTAT
3896336 A
1 A
3896337 CTGATCAGGT
Statistics
Matches: 80, Mismatches: 5, Indels: 7
0.87 0.05 0.08
Matches are distributed among these distances:
20 10 0.12
21 29 0.36
22 1 0.01
23 40 0.50
ACGTcount: A:0.19, C:0.23, G:0.24, T:0.33
Consensus pattern (23 bp):
ATCAGGCACCTCATGTGTCGTAT
Found at i:3896311 original size:44 final size:41
Alignment explanation
Indices: 3896227--3896335 Score: 128
Period size: 44 Copynumber: 2.5 Consensus size: 41
3896217 GCTTTGCCGA
*
3896227 TCAGGCACTTTATGTGTCGTATATCAGGCACCTCATGTGTCGTAT
1 TCAGGCAC-TCATGTGTCG--TATCAGGCACCTCATGTGTCGT-T
* *
3896272 ATCAGGCACCTCGTGTGTCGTATCAGGCACCTCGTGTGTCGTT
1 -TCAGGCA-CTCATGTGTCGTATCAGGCACCTCATGTGTCGTT
*
3896315 TCAGGCACTTATGTGTCGTAT
1 TCAGGCACTCATGTGTCGTAT
3896336 ACTGATCAGG
Statistics
Matches: 57, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
41 12 0.21
42 7 0.12
43 1 0.02
44 21 0.37
46 15 0.26
47 1 0.02
ACGTcount: A:0.17, C:0.24, G:0.25, T:0.34
Consensus pattern (41 bp):
TCAGGCACTCATGTGTCGTATCAGGCACCTCATGTGTCGTT
Found at i:3897015 original size:9 final size:9
Alignment explanation
Indices: 3897001--3897026 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
3896991 ATATGAAATT
3897001 AATTGGTTG
1 AATTGGTTG
3897010 AATTGGTTG
1 AATTGGTTG
3897019 AATTGGTT
1 AATTGGTT
3897027 ATGTTTGTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.23, C:0.00, G:0.31, T:0.46
Consensus pattern (9 bp):
AATTGGTTG
Found at i:3903150 original size:12 final size:12
Alignment explanation
Indices: 3903129--3903158 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
3903119 AAATAAACTC
*
3903129 AAATATTAATTA
1 AAATAATAATTA
3903141 AAATAATAATTA
1 AAATAATAATTA
3903153 AAATAA
1 AAATAA
3903159 ATTATAACTT
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:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
AAATAATAATTA
Found at i:3909615 original size:22 final size:22
Alignment explanation
Indices: 3909589--3909630 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
3909579 TGCCAATCGA
3909589 AAGAG-AGAAAGAAGAAGAAAAG
1 AAGAGAAG-AAGAAGAAGAAAAG
*
3909611 AAGAGAAGAAGAAGGAGAAA
1 AAGAGAAGAAGAAGAAGAAA
3909631 GAGAGGGCGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 16 0.89
23 2 0.11
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (22 bp):
AAGAGAAGAAGAAGAAGAAAAG
Found at i:3911397 original size:11 final size:11
Alignment explanation
Indices: 3911370--3911415 Score: 56
Period size: 11 Copynumber: 4.1 Consensus size: 11
3911360 ATTAATCCTT
*
3911370 TCTCAATTATTC
1 TCTCAATT-TCC
3911382 TCTCAATTTCC
1 TCTCAATTTCC
*
3911393 TCTCAATTTGC
1 TCTCAATTTCC
*
3911404 TATCAATTTCC
1 TCTCAATTTCC
3911415 T
1 T
3911416 TCCAAATTTC
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
11 22 0.73
12 8 0.27
ACGTcount: A:0.22, C:0.28, G:0.02, T:0.48
Consensus pattern (11 bp):
TCTCAATTTCC
Found at i:3911412 original size:22 final size:23
Alignment explanation
Indices: 3911370--3911415 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
3911360 ATTAATCCTT
* *
3911370 TCTCAATTATTCTCTCAATTTCC
1 TCTCAATTATGCTATCAATTTCC
3911393 TCTCAATT-TGCTATCAATTTCC
1 TCTCAATTATGCTATCAATTTCC
3911415 T
1 T
3911416 TCCAAATTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 13 0.62
23 8 0.38
ACGTcount: A:0.22, C:0.28, G:0.02, T:0.48
Consensus pattern (23 bp):
TCTCAATTATGCTATCAATTTCC
Found at i:3911431 original size:22 final size:21
Alignment explanation
Indices: 3911370--3911431 Score: 63
Period size: 22 Copynumber: 2.8 Consensus size: 21
3911360 ATTAATCCTT
3911370 TCTCAATTATTCTCTCAATTTCC
1 TCTCAA-T-TTCTCTCAATTTCC
*
3911393 TCTCAATTTGCTATCAATTTCC
1 TCTCAATTT-CTCTCAATTTCC
3911415 T-TCCAAATTTCTCTCAA
1 TCT-C-AATTTCTCTCAA
3911432 ATCCATATAT
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
21 3 0.09
22 20 0.59
23 11 0.32
ACGTcount: A:0.24, C:0.29, G:0.02, T:0.45
Consensus pattern (21 bp):
TCTCAATTTCTCTCAATTTCC
Found at i:3913066 original size:63 final size:63
Alignment explanation
Indices: 3912990--3913114 Score: 241
Period size: 63 Copynumber: 2.0 Consensus size: 63
3912980 TCGTTCTGGA
*
3912990 GTTAGCGTGCGTGCTGGAAGACATGCCATAGTTTAGGATCCATGACAAGCCGTATTTACTGTT
1 GTTAGCGTGCGTGCTAGAAGACATGCCATAGTTTAGGATCCATGACAAGCCGTATTTACTGTT
3913053 GTTAGCGTGCGTGCTAGAAGACATGCCATAGTTTAGGATCCATGACAAGCCGTATTTACTGT
1 GTTAGCGTGCGTGCTAGAAGACATGCCATAGTTTAGGATCCATGACAAGCCGTATTTACTGT
3913115 CGGCAAAGGA
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
63 61 1.00
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (63 bp):
GTTAGCGTGCGTGCTAGAAGACATGCCATAGTTTAGGATCCATGACAAGCCGTATTTACTGTT
Found at i:3913389 original size:18 final size:18
Alignment explanation
Indices: 3913348--3913382 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
3913338 GCCAGGTGCG
*
3913348 TATCCTAACCCTTTTATA
1 TATCCTAACCCTTATATA
3913366 TATCCTAACCCTTATAT
1 TATCCTAACCCTTATAT
3913383 GTTTCCTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.29, C:0.29, G:0.00, T:0.43
Consensus pattern (18 bp):
TATCCTAACCCTTATATA
Found at i:3913670 original size:21 final size:21
Alignment explanation
Indices: 3913644--3913692 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
3913634 TAGATACCCT
* *
3913644 ACCGGAAAAACCATAATCCCC
1 ACCGGAAAAACCACAACCCCC
*
3913665 ACCGGATAAACCACAACCCCC
1 ACCGGAAAAACCACAACCCCC
*
3913686 TCCGGAA
1 ACCGGAA
3913693 GCTGGACAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.39, C:0.41, G:0.12, T:0.08
Consensus pattern (21 bp):
ACCGGAAAAACCACAACCCCC
Found at i:3917610 original size:26 final size:27
Alignment explanation
Indices: 3917569--3917633 Score: 98
Period size: 28 Copynumber: 2.4 Consensus size: 27
3917559 TATAATAAAT
3917569 AAATA-TTTTTTATTC-TTTAATTTTA
1 AAATATTTTTTTATTCTTTTAATTTTA
*
3917594 AAATATTTTTTTATTCTTTTTATTTTTA
1 AAATATTTTTTTATTC-TTTTAATTTTA
3917622 AAATATTTTTTT
1 AAATATTTTTTT
3917634 TGGTGTTTAT
Statistics
Matches: 36, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
25 5 0.14
26 10 0.28
28 21 0.58
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (27 bp):
AAATATTTTTTTATTCTTTTAATTTTA
Found at i:3917642 original size:27 final size:28
Alignment explanation
Indices: 3917569--3917644 Score: 79
Period size: 28 Copynumber: 2.9 Consensus size: 28
3917559 TATAATAAAT
* *
3917569 AAATA-TTTTTTAT--TCTTTAATTTTA
1 AAATATTTTTTTATGCTGTTTATTTTTA
* *
3917594 AAATATTTTTTTATTCTTTTTATTTTTA
1 AAATATTTTTTTATGCTGTTTATTTTTA
*
3917622 AAATATTTTTTT-TGGTGTTTATT
1 AAATATTTTTTTATGCTGTTTATT
3917645 AAAAATGGGT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
25 5 0.12
26 8 0.19
27 8 0.19
28 22 0.51
ACGTcount: A:0.26, C:0.03, G:0.04, T:0.67
Consensus pattern (28 bp):
AAATATTTTTTTATGCTGTTTATTTTTA
Found at i:3917969 original size:40 final size:38
Alignment explanation
Indices: 3917902--3918015 Score: 110
Period size: 40 Copynumber: 2.9 Consensus size: 38
3917892 GCAATGAATC
* *
3917902 AGGCAAAACGCGTCCCTGAGGGA-GCGTTTTGCCTACGT
1 AGGCAAAACGC-TCCCTTAAGGACGCGTTTTGCCTACGT
3917940 -GGACATAAAGCGCTCCCTTAAGGACGCGTTTTATGTCC-ACGT
1 AGG-CA-AAA-CGCTCCCTTAAGGACGCG-TTT-TG-CCTACGT
*
3917982 AGGCAAAACGCTCCCTTATGGACGCGTTTT-CCTA
1 AGGCAAAACGCTCCCTTAAGGACGCGTTTTGCCTA
3918016 TCACGTACCC
Statistics
Matches: 64, Mismatches: 3, Indels: 19
0.74 0.03 0.22
Matches are distributed among these distances:
36 2 0.03
37 3 0.05
38 3 0.05
39 15 0.23
40 23 0.36
41 6 0.09
42 8 0.12
43 4 0.06
ACGTcount: A:0.23, C:0.27, G:0.25, T:0.25
Consensus pattern (38 bp):
AGGCAAAACGCTCCCTTAAGGACGCGTTTTGCCTACGT
Found at i:3919404 original size:14 final size:14
Alignment explanation
Indices: 3919385--3919419 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
3919375 ACATTTTTTT
*
3919385 TTCTAATGATACTA
1 TTCTAACGATACTA
3919399 TTCTAACGATACTA
1 TTCTAACGATACTA
3919413 TTCTAAC
1 TTCTAAC
3919420 ATGTAATTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.34, C:0.20, G:0.06, T:0.40
Consensus pattern (14 bp):
TTCTAACGATACTA
Found at i:3924446 original size:24 final size:24
Alignment explanation
Indices: 3924389--3924447 Score: 91
Period size: 24 Copynumber: 2.5 Consensus size: 24
3924379 GGTTTAATGC
* *
3924389 AAATGGAGATATTTTGGAGAGATG
1 AAATGGATATATTTTGGAAAGATG
*
3924413 AAATGAATATATTTTGGAAAGATG
1 AAATGGATATATTTTGGAAAGATG
3924437 AAATGGATATA
1 AAATGGATATA
3924448 AATGGAGAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.44, C:0.00, G:0.25, T:0.31
Consensus pattern (24 bp):
AAATGGATATATTTTGGAAAGATG
Found at i:3924539 original size:20 final size:19
Alignment explanation
Indices: 3924513--3924577 Score: 62
Period size: 20 Copynumber: 3.4 Consensus size: 19
3924503 AATATTTTTA
3924513 ATTATGTAGTGATTCAAAG
1 ATTATGTAGTGATTCAAAG
* ***
3924532 ACTTATGTAAT-ATTTTTA-
1 A-TTATGTAGTGATTCAAAG
3924550 ATTATGTAGTGATTCAAAG
1 ATTATGTAGTGATTCAAAG
3924569 ATTTATGTA
1 A-TTATGTA
3924578 ATGTTTTTAA
Statistics
Matches: 34, Mismatches: 8, Indels: 7
0.69 0.16 0.14
Matches are distributed among these distances:
17 8 0.24
18 5 0.15
19 6 0.18
20 15 0.44
ACGTcount: A:0.35, C:0.05, G:0.15, T:0.45
Consensus pattern (19 bp):
ATTATGTAGTGATTCAAAG
Done.