Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
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: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 240 of 320
Found at i:78928938 original size:5 final size:6
Alignment explanation
Indices: 78928925--78928971 Score: 67
Period size: 6 Copynumber: 7.5 Consensus size: 6
78928915 ATAATTTAAT
*
78928925 AAATAA AAATAA AAATCTAA AACTAA AAATAA AAATAA AAATAA AAA
1 AAATAA AAATAA AAA--TAA AAATAA AAATAA AAATAA AAATAA AAA
78928972 ACATATAATT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
6 32 0.86
8 5 0.14
ACGTcount: A:0.79, C:0.04, G:0.00, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:78928972 original size:20 final size:20
Alignment explanation
Indices: 78928925--78928965 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
78928915 ATAATTTAAT
**
78928925 AAATAAAAATAAAAATCTAA
1 AAATAAAAATAAAAATAAAA
*
78928945 AACTAAAAATAAAAATAAAA
1 AAATAAAAATAAAAATAAAA
78928965 A
1 A
78928966 TAAAAAACAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.78, C:0.05, G:0.00, T:0.17
Consensus pattern (20 bp):
AAATAAAAATAAAAATAAAA
Found at i:78929020 original size:9 final size:9
Alignment explanation
Indices: 78928991--78929040 Score: 66
Period size: 9 Copynumber: 5.6 Consensus size: 9
78928981 TTTATACAAA
78928991 TAATTCGGT
1 TAATTCGGT
*
78929000 TAATTTGAG-
1 TAATTCG-GT
*
78929009 TAATTCGGG
1 TAATTCGGT
78929018 TAATTCGGT
1 TAATTCGGT
78929027 TAATTCGGT
1 TAATTCGGT
78929036 TAATT
1 TAATT
78929041 TTATACTTAT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
8 1 0.03
9 34 0.94
10 1 0.03
ACGTcount: A:0.26, C:0.08, G:0.22, T:0.44
Consensus pattern (9 bp):
TAATTCGGT
Found at i:78932110 original size:19 final size:19
Alignment explanation
Indices: 78932086--78932122 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
78932076 TGTAGCTCAC
78932086 ATGGCCCAGCCCATGTGGA
1 ATGGCCCAGCCCATGTGGA
*
78932105 ATGGCCTAGCCCATGTGG
1 ATGGCCCAGCCCATGTGG
78932123 CTGTTGAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.19, C:0.30, G:0.32, T:0.19
Consensus pattern (19 bp):
ATGGCCCAGCCCATGTGGA
Found at i:78932519 original size:12 final size:12
Alignment explanation
Indices: 78932502--78932526 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
78932492 TCGTACGCTA
78932502 AGATTTGTGTTG
1 AGATTTGTGTTG
78932514 AGATTTGTGTTG
1 AGATTTGTGTTG
78932526 A
1 A
78932527 TACCGTAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.20, C:0.00, G:0.32, T:0.48
Consensus pattern (12 bp):
AGATTTGTGTTG
Found at i:78937059 original size:21 final size:21
Alignment explanation
Indices: 78937033--78937073 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
78937023 ATCTGATCAA
* *
78937033 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
78937054 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
78937074 TCGCTTGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:78943364 original size:12 final size:12
Alignment explanation
Indices: 78943342--78943370 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
78943332 GCCCTGAATC
78943342 ATCTT-TGCCAT
1 ATCTTATGCCAT
78943353 ATCTTATGCCAT
1 ATCTTATGCCAT
78943365 ATCTTA
1 ATCTTA
78943371 ATAAGGGTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 5 0.29
12 12 0.71
ACGTcount: A:0.24, C:0.24, G:0.07, T:0.45
Consensus pattern (12 bp):
ATCTTATGCCAT
Found at i:78945630 original size:6 final size:6
Alignment explanation
Indices: 78945621--78945648 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
78945611 AGACAGAAGA
78945621 GGAGAT GGAGAT GGAGAT GGAGAT GGAG
1 GGAGAT GGAGAT GGAGAT GGAGAT GGAG
78945649 GAGATCTGGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.54, T:0.14
Consensus pattern (6 bp):
GGAGAT
Found at i:78950157 original size:24 final size:24
Alignment explanation
Indices: 78950120--78950166 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
78950110 TATATATACC
78950120 AATTCAATCAATA-TAAATTCAATA
1 AATTCAATCAATATTAAA-TCAATA
78950144 AATTC-ATCACATATTAAATCAAT
1 AATTCAATCA-ATATTAAATCAAT
78950167 CCATTTCAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 4 0.19
24 13 0.62
25 4 0.19
ACGTcount: A:0.51, C:0.15, G:0.00, T:0.34
Consensus pattern (24 bp):
AATTCAATCAATATTAAATCAATA
Found at i:78951016 original size:18 final size:19
Alignment explanation
Indices: 78950970--78951017 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
78950960 TAAGTATACA
* *
78950970 TATATTATTATATACATATG
1 TATATTATT-TGTACACATG
78950990 TATATTATTTGTACACATG
1 TATATTATTTGTACACATG
78951009 TA-ATTATTT
1 TATATTATTT
78951018 TTACCATACA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
18 7 0.27
19 10 0.38
20 9 0.35
ACGTcount: A:0.35, C:0.06, G:0.06, T:0.52
Consensus pattern (19 bp):
TATATTATTTGTACACATG
Found at i:78951111 original size:18 final size:19
Alignment explanation
Indices: 78951074--78951111 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
78951064 TTACTTTTTC
*
78951074 TTTAATCTATAATTCAATT
1 TTTAATCTATAATGCAATT
*
78951093 TTTACTCTAT-ATGCAATT
1 TTTAATCTATAATGCAATT
78951111 T
1 T
78951112 AATCCTTTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.32, C:0.13, G:0.03, T:0.53
Consensus pattern (19 bp):
TTTAATCTATAATGCAATT
Found at i:78951166 original size:20 final size:21
Alignment explanation
Indices: 78951121--78951169 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
78951111 TAATCCTTTC
* * *
78951121 ACCTAATTACTCTTAATTCAA
1 ACCTAATTACACTTAACTAAA
78951142 A-CTAATT-CACTTAACTAAA
1 ACCTAATTACACTTAACTAAA
78951161 ACCTAATTA
1 ACCTAATTA
78951170 ACCACACAGC
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
19 10 0.43
20 12 0.52
21 1 0.04
ACGTcount: A:0.43, C:0.22, G:0.00, T:0.35
Consensus pattern (21 bp):
ACCTAATTACACTTAACTAAA
Found at i:78953428 original size:67 final size:64
Alignment explanation
Indices: 78953320--78953473 Score: 184
Period size: 67 Copynumber: 2.4 Consensus size: 64
78953310 AACACGCAGT
* * * ** * *
78953320 ACCACCCATGTGACCTAGCCA-ATTTATGTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACCTG
1 ACCACCCATGCGACCTAGCTACATATATCCCGTAGCTCTCTTGTCTACATGGTGT-ATTCA--TA
78953384 GA
63 GA
* *
78953386 ACCACGCATGCGACCTAGCTACATATATCCCGTAGCTCTCTTGTCTACATGGTGTATTCATAGT
1 ACCACCCATGCGACCTAGCTACATATATCCCGTAGCTCTCTTGTCTACATGGTGTATTCATAGA
*
78953450 ATCACCCATGCGACCTAGCTACAT
1 ACCACCCATGCGACCTAGCTACAT
78953474 CATAATGTCT
Statistics
Matches: 76, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
64 24 0.32
66 22 0.29
67 30 0.39
ACGTcount: A:0.23, C:0.31, G:0.17, T:0.30
Consensus pattern (64 bp):
ACCACCCATGCGACCTAGCTACATATATCCCGTAGCTCTCTTGTCTACATGGTGTATTCATAGA
Found at i:78960863 original size:37 final size:35
Alignment explanation
Indices: 78960806--78960876 Score: 90
Period size: 37 Copynumber: 2.0 Consensus size: 35
78960796 TCACTTCAGT
*
78960806 ATTAAATTAATAAAATACTATTAAGATAAGTATTAA
1 ATTAAATTAATAAAATACTATTAAAATAA-TATTAA
*
78960842 ATTAAATTTAATATTAA-ACTATTAAAATAATATTA
1 ATTAAA-TTAATA-AAATACTATTAAAATAATATTA
78960877 TTTTGGAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
36 11 0.35
37 18 0.58
38 2 0.06
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.39
Consensus pattern (35 bp):
ATTAAATTAATAAAATACTATTAAAATAATATTAA
Found at i:78962526 original size:28 final size:27
Alignment explanation
Indices: 78962433--78962548 Score: 112
Period size: 27 Copynumber: 4.3 Consensus size: 27
78962423 AACCAAATTG
*
78962433 TATATGAATA-ATTTTAAAGAAAATATA
1 TATAT-AATAGATTTAAAAGAAAATATA
* *
78962460 TATATAATA-AGTTTAGAAGAAAATATT
1 TATATAATAGA-TTTAAAAGAAAATATA
* *
78962487 TACATAACAGATTTAAAAAGAAAATATA
1 TATATAATAGATTT-AAAAGAAAATATA
*
78962515 TAT-TAAATAGATTTAAAAGAAACTATA
1 TATAT-AATAGATTTAAAAGAAAATATA
*
78962542 TAAATAA
1 TATATAA
78962549 AATAACATAG
Statistics
Matches: 73, Mismatches: 11, Indels: 10
0.78 0.12 0.11
Matches are distributed among these distances:
26 5 0.07
27 45 0.62
28 23 0.32
ACGTcount: A:0.57, C:0.03, G:0.08, T:0.33
Consensus pattern (27 bp):
TATATAATAGATTTAAAAGAAAATATA
Found at i:78962552 original size:29 final size:28
Alignment explanation
Indices: 78962495--78962552 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 28
78962485 TTTACATAAC
* *
78962495 AGATTTAAAAAGAAAATATATATTAAAT
1 AGATTTAAAAAGAAAATATAAATAAAAT
78962523 AGATTT-AAAAGAAACTATATAAATAAAAT
1 AGATTTAAAAAGAAA--ATATAAATAAAAT
78962552 A
1 A
78962553 ACATAGAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
27 8 0.31
28 6 0.23
29 12 0.46
ACGTcount: A:0.62, C:0.02, G:0.07, T:0.29
Consensus pattern (28 bp):
AGATTTAAAAAGAAAATATAAATAAAAT
Found at i:78967783 original size:25 final size:26
Alignment explanation
Indices: 78967751--78967805 Score: 71
Period size: 24 Copynumber: 2.2 Consensus size: 26
78967741 TTATTAAATT
*
78967751 ATATATTTTAATTATAA-TATATTTA
1 ATATATTTTAATAATAATTATATTTA
*
78967776 ATATA-TTTAATAATAATTATGTTTA
1 ATATATTTTAATAATAATTATATTTA
78967801 A-ATAT
1 ATATAT
78967806 GATTAAATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
24 13 0.50
25 13 0.50
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (26 bp):
ATATATTTTAATAATAATTATATTTA
Found at i:78967992 original size:44 final size:45
Alignment explanation
Indices: 78967943--78968037 Score: 138
Period size: 45 Copynumber: 2.1 Consensus size: 45
78967933 TTACACCTCT
* *
78967943 ATTACATTCAACCAAACA-CAGTTTTACTATTACGCCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
** *
78967987 ATTACATTCAACCAAACAGTTGATTTGCTATTACACCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
78968032 ATTACA
1 ATTACA
78968038 CCTCTAATCC
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.33, C:0.27, G:0.05, T:0.35
Consensus pattern (45 bp):
ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
Found at i:78968037 original size:16 final size:16
Alignment explanation
Indices: 78968018--78968085 Score: 118
Period size: 16 Copynumber: 4.2 Consensus size: 16
78968008 GATTTGCTAT
* *
78968018 TACACCTCTATTCCAT
1 TACACCTCTAATCCAA
78968034 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
78968050 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
78968066 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
78968082 TACA
1 TACA
78968086 GCGAACCAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.35, C:0.37, G:0.00, T:0.28
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:78972028 original size:24 final size:24
Alignment explanation
Indices: 78971899--78972058 Score: 108
Period size: 24 Copynumber: 6.7 Consensus size: 24
78971889 CAACCAATTT
* ** *
78971899 CGCACACATAGTGCTAAACAAATT
1 CGCACACATAGTGCCATTCAAATC
* * *
78971923 CACACACATAGTGCCATGCTACA-C
1 CGCACACATAGTGCCATTC-AAATC
* *
78971947 CGCACACATAGTGCC-TTGAAGATT
1 CGCACACATAGTGCCATTCAA-ATC
* * ** * * *
78971971 CACTCATGTATTGACATCCAAATC
1 CGCACACATAGTGCCATTCAAATC
* * *
78971995 AGCACACATAGTGCCATTCAACTT
1 CGCACACATAGTGCCATTCAAATC
78972019 CGCACACATAGTGCCATTCAAATC
1 CGCACACATAGTGCCATTCAAATC
*
78972043 CGCACACTTAGTGCCA
1 CGCACACATAGTGCCA
78972059 ATGTTGACCT
Statistics
Matches: 98, Mismatches: 34, Indels: 8
0.70 0.24 0.06
Matches are distributed among these distances:
22 1 0.01
23 2 0.02
24 90 0.92
25 5 0.05
ACGTcount: A:0.33, C:0.31, G:0.14, T:0.23
Consensus pattern (24 bp):
CGCACACATAGTGCCATTCAAATC
Found at i:78976474 original size:14 final size:15
Alignment explanation
Indices: 78976441--78976472 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
78976431 TATGCATGCA
*
78976441 AAATATAAAAGACAT
1 AAATAAAAAAGACAT
78976456 AAATAAAAAAGACAT
1 AAATAAAAAAGACAT
78976471 AA
1 AA
78976473 TAGTGAAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.72, C:0.06, G:0.06, T:0.16
Consensus pattern (15 bp):
AAATAAAAAAGACAT
Found at i:78979134 original size:35 final size:34
Alignment explanation
Indices: 78979099--78979165 Score: 91
Period size: 34 Copynumber: 2.0 Consensus size: 34
78979089 AACTTATACA
* *
78979099 AATTT-TAAGTATTTTTTCTTTTTTCAAAATTTAC
1 AATTTCTAAATATTTTTT-GTTTTTCAAAATTTAC
*
78979133 AATTTCTAAATATTTTTTGTTTTTCAAATTTTA
1 AATTTCTAAATATTTTTTGTTTTTCAAAATTTA
78979166 AATATTAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
34 18 0.62
35 11 0.38
ACGTcount: A:0.30, C:0.07, G:0.03, T:0.60
Consensus pattern (34 bp):
AATTTCTAAATATTTTTTGTTTTTCAAAATTTAC
Found at i:78979137 original size:34 final size:32
Alignment explanation
Indices: 78979098--78979173 Score: 89
Period size: 34 Copynumber: 2.3 Consensus size: 32
78979088 TAACTTATAC
* *
78979098 AAATTTTAAGTATTTTTTCTTTTTTCAAAATTT
1 AAATTTTAAATATTTTTT-GTTTTTCAAAATTT
*
78979131 ACAATTTCTAAATATTTTTTGTTTTTCAAATTTT
1 A-AATTT-TAAATATTTTTTGTTTTTCAAAATTT
*
78979165 AAATATTAA
1 AAATTTTAA
78979174 TACAATTTTG
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
32 3 0.08
33 5 0.14
34 18 0.49
35 11 0.30
ACGTcount: A:0.34, C:0.07, G:0.03, T:0.57
Consensus pattern (32 bp):
AAATTTTAAATATTTTTTGTTTTTCAAAATTT
Found at i:78979180 original size:18 final size:18
Alignment explanation
Indices: 78979158--78979202 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
78979148 TTTGTTTTTC
78979158 AAATTTTAAATAT-TAAT
1 AAATTTTAAATATATAAT
* *
78979175 ACAATTTTGATTATATAAT
1 A-AATTTTAAATATATAAT
78979194 AAATTTTAA
1 AAATTTTAA
78979203 TGAAAAAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
17 1 0.04
18 17 0.74
19 5 0.22
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (18 bp):
AAATTTTAAATATATAAT
Found at i:78981058 original size:19 final size:19
Alignment explanation
Indices: 78981034--78981078 Score: 81
Period size: 19 Copynumber: 2.4 Consensus size: 19
78981024 AATTTGAAAG
*
78981034 AACGATTTGACCGTCAGAA
1 AACGATTTGACCATCAGAA
78981053 AACGATTTGACCATCAGAA
1 AACGATTTGACCATCAGAA
78981072 AACGATT
1 AACGATT
78981079 ATACTCCCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.40, C:0.20, G:0.18, T:0.22
Consensus pattern (19 bp):
AACGATTTGACCATCAGAA
Found at i:78983589 original size:21 final size:21
Alignment explanation
Indices: 78983565--78983632 Score: 68
Period size: 21 Copynumber: 3.2 Consensus size: 21
78983555 TTGAGCTTTT
78983565 GTTTAACCTTTATGGGTTTCC
1 GTTTAACCTTTATGGGTTTCC
*
78983586 GTTT-ACCTCTTATGAGCTTT-C
1 GTTTAACCT-TTATG-GGTTTCC
* * *
78983607 GTTCAACCCTTATGGGTTTCT
1 GTTTAACCTTTATGGGTTTCC
78983628 GTTTA
1 GTTTA
78983633 GCACTTATGT
Statistics
Matches: 37, Mismatches: 6, Indels: 8
0.73 0.12 0.16
Matches are distributed among these distances:
20 8 0.22
21 22 0.59
22 7 0.19
ACGTcount: A:0.15, C:0.21, G:0.18, T:0.47
Consensus pattern (21 bp):
GTTTAACCTTTATGGGTTTCC
Found at i:78983632 original size:42 final size:42
Alignment explanation
Indices: 78983498--78983646 Score: 156
Period size: 42 Copynumber: 3.5 Consensus size: 42
78983488 TTTCACGAGC
* * * * *
78983498 TTCTGTTTAACTCATATGAG-TTTCCGTTCAACCGTAATAGGT
1 TTCTGTTTAGCTCTTATGAGCTTT-CGTTCAACCCTTATGGGT
* * * * *
78983540 TTCTGTTCAGCTCTTTTGAGCTTTTGTTTAACCTTTATGGGT
1 TTCTGTTTAGCTCTTATGAGCTTTCGTTCAACCCTTATGGGT
* *
78983582 TTCCGTTTACCTCTTATGAGCTTTCGTTCAACCCTTATGGGT
1 TTCTGTTTAGCTCTTATGAGCTTTCGTTCAACCCTTATGGGT
* *
78983624 TTCTGTTTAGCACTTATGTGCTT
1 TTCTGTTTAGCTCTTATGAGCTT
78983647 CTATTTAGCC
Statistics
Matches: 86, Mismatches: 20, Indels: 2
0.80 0.19 0.02
Matches are distributed among these distances:
42 83 0.97
43 3 0.03
ACGTcount: A:0.16, C:0.20, G:0.17, T:0.46
Consensus pattern (42 bp):
TTCTGTTTAGCTCTTATGAGCTTTCGTTCAACCCTTATGGGT
Found at i:78983639 original size:21 final size:21
Alignment explanation
Indices: 78983574--78983655 Score: 58
Period size: 21 Copynumber: 3.9 Consensus size: 21
78983564 TGTTTAACCT
* * *
78983574 TTATGGGTTTCCGTTTACCTC
1 TTATGGGTTTCTGTTTAGCAC
* * * *
78983595 TTATGAGCTTTC-GTTCAACCC
1 TTATG-GGTTTCTGTTTAGCAC
78983616 TTATGGGTTTCTGTTTAGCAC
1 TTATGGGTTTCTGTTTAGCAC
* * *
78983637 TTATGTGCTTCTATTTAGC
1 TTATGGGTTTCTGTTTAGC
78983656 CTTCGGGCTT
Statistics
Matches: 48, Mismatches: 11, Indels: 4
0.76 0.17 0.06
Matches are distributed among these distances:
20 5 0.10
21 38 0.79
22 5 0.10
ACGTcount: A:0.15, C:0.21, G:0.18, T:0.46
Consensus pattern (21 bp):
TTATGGGTTTCTGTTTAGCAC
Found at i:78986721 original size:35 final size:35
Alignment explanation
Indices: 78986682--78986751 Score: 122
Period size: 35 Copynumber: 2.0 Consensus size: 35
78986672 GGAGTAAAAA
*
78986682 ATATGTTGCACTCTTTTCCTTTAACCAAGGTTTTT
1 ATATGTTGCACTCTTTTCCTTTAACCAAGATTTTT
*
78986717 ATATGTTGCACTCTTTTCCTTTAGCCAAGATTTTT
1 ATATGTTGCACTCTTTTCCTTTAACCAAGATTTTT
78986752 TCCCATTGGG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.20, C:0.20, G:0.11, T:0.49
Consensus pattern (35 bp):
ATATGTTGCACTCTTTTCCTTTAACCAAGATTTTT
Found at i:78987260 original size:19 final size:19
Alignment explanation
Indices: 78987236--78987315 Score: 119
Period size: 19 Copynumber: 4.3 Consensus size: 19
78987226 CCCAAACAAG
78987236 CCCAATAACTAAACCTAGA
1 CCCAATAACTAAACCTAGA
78987255 CCCAATAACTAAACCTAGA
1 CCCAATAACTAAACCTAGA
* *
78987274 CCC-A-AATTCAAACCTAAA
1 CCCAATAACT-AAACCTAGA
78987292 CCCAATAACTAAACCTAGA
1 CCCAATAACTAAACCTAGA
78987311 CCCAA
1 CCCAA
78987316 ATTACAAGCC
Statistics
Matches: 54, Mismatches: 4, Indels: 6
0.84 0.06 0.09
Matches are distributed among these distances:
17 3 0.06
18 12 0.22
19 36 0.67
20 3 0.06
ACGTcount: A:0.47, C:0.34, G:0.04, T:0.15
Consensus pattern (19 bp):
CCCAATAACTAAACCTAGA
Found at i:78987287 original size:37 final size:37
Alignment explanation
Indices: 78987246--78987318 Score: 137
Period size: 37 Copynumber: 2.0 Consensus size: 37
78987236 CCCAATAACT
*
78987246 AAACCTAGACCCAATAACTAAACCTAGACCCAAATTC
1 AAACCTAAACCCAATAACTAAACCTAGACCCAAATTC
78987283 AAACCTAAACCCAATAACTAAACCTAGACCCAAATT
1 AAACCTAAACCCAATAACTAAACCTAGACCCAAATT
78987319 ACAAGCCCGA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.48, C:0.32, G:0.04, T:0.16
Consensus pattern (37 bp):
AAACCTAAACCCAATAACTAAACCTAGACCCAAATTC
Found at i:78993207 original size:21 final size:21
Alignment explanation
Indices: 78993181--78993224 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
78993171 TGGCTTCACT
78993181 CCGACACATGTACCAATGAAG
1 CCGACACATGTACCAATGAAG
78993202 CCGACACATGTACCAATGAAG
1 CCGACACATGTACCAATGAAG
78993223 CC
1 CC
78993225 TGAGATTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.36, C:0.32, G:0.18, T:0.14
Consensus pattern (21 bp):
CCGACACATGTACCAATGAAG
Found at i:79003541 original size:15 final size:16
Alignment explanation
Indices: 79003521--79003551 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
79003511 TTAAAAACAG
79003521 ATCTAAATTT-TTTTT
1 ATCTAAATTTATTTTT
79003536 ATCTAAATTTATTTTT
1 ATCTAAATTTATTTTT
79003552 CAAATACAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (16 bp):
ATCTAAATTTATTTTT
Found at i:79004776 original size:28 final size:27
Alignment explanation
Indices: 79004745--79004801 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
79004735 TAGTAAATTT
79004745 AAAATCTAATTTTATATTTATATTTTAA
1 AAAATCTAATTTT-TATTTATATTTTAA
* * * *
79004773 AAAATTTAGTTTTTTTTTATTTTTTAA
1 AAAATCTAATTTTTATTTATATTTTAA
79004800 AA
1 AA
79004802 TTTAAAATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
27 14 0.56
28 11 0.44
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.58
Consensus pattern (27 bp):
AAAATCTAATTTTTATTTATATTTTAA
Found at i:79007000 original size:55 final size:55
Alignment explanation
Indices: 79006934--79007048 Score: 230
Period size: 55 Copynumber: 2.1 Consensus size: 55
79006924 AGGAGCAAAT
79006934 AATATCATGAACTCAAAATCCAACCCTTTGGAATCAATTAAAATATAATTAATTC
1 AATATCATGAACTCAAAATCCAACCCTTTGGAATCAATTAAAATATAATTAATTC
79006989 AATATCATGAACTCAAAATCCAACCCTTTGGAATCAATTAAAATATAATTAATTC
1 AATATCATGAACTCAAAATCCAACCCTTTGGAATCAATTAAAATATAATTAATTC
79007044 AATAT
1 AATAT
79007049 TATCTTATTT
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 60 1.00
ACGTcount: A:0.46, C:0.17, G:0.05, T:0.31
Consensus pattern (55 bp):
AATATCATGAACTCAAAATCCAACCCTTTGGAATCAATTAAAATATAATTAATTC
Found at i:79007091 original size:27 final size:27
Alignment explanation
Indices: 79007035--79007089 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 27
79007025 ATTAAAATAT
*
79007035 AATTAATTCAATATTATCTTATTTATA
1 AATTAATTCAATATTATATTATTTATA
79007062 AATTAATTCAAT-TTATAATT-TTTATA
1 AATTAATTCAATATTAT-ATTATTTATA
79007088 AA
1 AA
79007090 ATATGATACT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
26 12 0.46
27 14 0.54
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (27 bp):
AATTAATTCAATATTATATTATTTATA
Found at i:79007305 original size:61 final size:61
Alignment explanation
Indices: 79007179--79007305 Score: 137
Period size: 61 Copynumber: 2.1 Consensus size: 61
79007169 TATAATTAAT
* * ** * * *
79007179 TTTTAGAATTAGAAATAAATTGATAAATTTTGTAAATTTTTAGGGCTAAATTTATTGATTT
1 TTTTAGAATTAGAAATAAAATAATAAATTTTGTAAACATTGAGGGCTAAATTTATTGAATA
* * * * * *
79007240 TTTTAGAATTTGAATTAAAATAATAAATTTTGTAAACATTGAGGGTTTATTTTTTTGAATA
1 TTTTAGAATTAGAAATAAAATAATAAATTTTGTAAACATTGAGGGCTAAATTTATTGAATA
79007301 TTTTA
1 TTTTA
79007306 TATTTAAGAT
Statistics
Matches: 53, Mismatches: 13, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
61 53 1.00
ACGTcount: A:0.37, C:0.02, G:0.13, T:0.49
Consensus pattern (61 bp):
TTTTAGAATTAGAAATAAAATAATAAATTTTGTAAACATTGAGGGCTAAATTTATTGAATA
Found at i:79010887 original size:40 final size:40
Alignment explanation
Indices: 79010843--79010960 Score: 131
Period size: 40 Copynumber: 3.1 Consensus size: 40
79010833 GGGTTAGCCG
79010843 ACAATATTGAATGTGAGCCCAGCTCTAGCTGGATAAACCA
1 ACAATATTGAATGTGAGCCCAGCTCTAGCTGGATAAACCA
* * * *
79010883 ACAATGTT---TGT--GCCCAGCTCTAGTCAGG-TATACCG
1 ACAATATTGAATGTGAGCCCAGCTCTAG-CTGGATAAACCA
* *
79010918 ACAATATTGAATGTGAGTCCAGCTCTAGTTGGATAAACCA
1 ACAATATTGAATGTGAGCCCAGCTCTAGCTGGATAAACCA
79010958 ACA
1 ACA
79010961 GTGTTTGAGC
Statistics
Matches: 61, Mismatches: 10, Indels: 14
0.72 0.12 0.16
Matches are distributed among these distances:
35 24 0.39
36 3 0.05
37 3 0.05
38 3 0.05
39 2 0.03
40 26 0.43
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.25
Consensus pattern (40 bp):
ACAATATTGAATGTGAGCCCAGCTCTAGCTGGATAAACCA
Found at i:79010898 original size:35 final size:35
Alignment explanation
Indices: 79010859--79010974 Score: 99
Period size: 35 Copynumber: 3.2 Consensus size: 35
79010849 TTGAATGTGA
79010859 GCCCAGCTCTAGCTGGATAAACCAACAATGTTTGT
1 GCCCAGCTCTAGCTGGATAAACCAACAATGTTTGT
* * * *
79010894 GCCCAGCTCTAGTCAGG-TATACCGACAATATTGAATGT
1 GCCCAGCTCTAG-CTGGATAAACCAACAATGTT---TGT
* * * *
79010932 GAGTCCAGCTCTAGTTGGATAAACCAACAGTGTTTGA
1 --GCCCAGCTCTAGCTGGATAAACCAACAATGTTTGT
79010969 GCCCAG
1 GCCCAG
79010975 TGCTAGTTGG
Statistics
Matches: 61, Mismatches: 13, Indels: 14
0.69 0.15 0.16
Matches are distributed among these distances:
35 29 0.48
36 3 0.05
37 2 0.03
38 3 0.05
39 2 0.03
40 22 0.36
ACGTcount: A:0.28, C:0.24, G:0.22, T:0.25
Consensus pattern (35 bp):
GCCCAGCTCTAGCTGGATAAACCAACAATGTTTGT
Found at i:79010940 original size:75 final size:75
Alignment explanation
Indices: 79010813--79010974 Score: 238
Period size: 75 Copynumber: 2.2 Consensus size: 75
79010803 CCGTAGAAGA
* *
79010813 GTTTGTGCCCAACGTTAGTCGGGTTAGCCGACAATATTGAATGTGAGCCCAGCTCTAGCTGGATA
1 GTTTGTGCCCAGCGTTAGTCAGGTTAGCCGACAATATTGAATGTGAGCCCAGCTCTAGCTGGATA
79010878 AACCAACAAT
66 AACCAACAAT
* *
79010888 GTTTGTGCCCAGC-TCTAGTCAGGTATA-CCGACAATATTGAATGTGAGTCCAGCTCTAGTTGGA
1 GTTTGTGCCCAGCGT-TAGTCAGGT-TAGCCGACAATATTGAATGTGAGCCCAGCTCTAGCTGGA
*
79010951 TAAACCAACAGT
64 TAAACCAACAAT
*
79010963 GTTTGAGCCCAG
1 GTTTGTGCCCAG
79010975 TGCTAGTTGG
Statistics
Matches: 79, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
74 1 0.01
75 76 0.96
76 2 0.03
ACGTcount: A:0.27, C:0.22, G:0.24, T:0.27
Consensus pattern (75 bp):
GTTTGTGCCCAGCGTTAGTCAGGTTAGCCGACAATATTGAATGTGAGCCCAGCTCTAGCTGGATA
AACCAACAAT
Found at i:79013339 original size:36 final size:35
Alignment explanation
Indices: 79013253--79013339 Score: 88
Period size: 36 Copynumber: 2.4 Consensus size: 35
79013243 AAATTCACAT
*
79013253 TTCAATTCAATTTCACTTTTTCACTTTTAATAACAA
1 TTCAATTCAA-TTCACTTTTCCACTTTTAATAACAA
*
79013289 TTCAATTCAAAATTCACTTTTCCA-TTTTCAAGTCAA-TA
1 TTCAATTC--AATTCACTTTTCCACTTTT-AA-T-AACAA
79013327 TTCAATTCAATTC
1 TTCAATTCAATTC
79013340 CACACATATA
Statistics
Matches: 44, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
36 17 0.39
37 13 0.30
38 12 0.27
39 2 0.05
ACGTcount: A:0.33, C:0.21, G:0.01, T:0.45
Consensus pattern (35 bp):
TTCAATTCAATTCACTTTTCCACTTTTAATAACAA
Found at i:79013649 original size:17 final size:18
Alignment explanation
Indices: 79013617--79013650 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
79013607 AATTTCTTTT
79013617 CAATTTATACCCTAATTC
1 CAATTTATACCCTAATTC
*
79013635 CAATTTA-ATCCTAATT
1 CAATTTATACCCTAATT
79013651 AACTCATTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.35, C:0.24, G:0.00, T:0.41
Consensus pattern (18 bp):
CAATTTATACCCTAATTC
Found at i:79014115 original size:11 final size:12
Alignment explanation
Indices: 79014093--79014121 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
79014083 TCTCCTTCAT
79014093 TTCTTTCATTTA
1 TTCTTTCATTTA
79014105 TTCTTTC-TTTA
1 TTCTTTCATTTA
79014116 TTCTTT
1 TTCTTT
79014122 TATGTTTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 10 0.59
12 7 0.41
ACGTcount: A:0.10, C:0.17, G:0.00, T:0.72
Consensus pattern (12 bp):
TTCTTTCATTTA
Found at i:79020095 original size:39 final size:39
Alignment explanation
Indices: 79020047--79020231 Score: 307
Period size: 39 Copynumber: 4.7 Consensus size: 39
79020037 TGTATGAGAT
*
79020047 TTATATCCGGGCTAAGTTGCGAAGGCATTCGTGCTGATA
1 TTATATCCGGGCTAAGTTCCGAAGGCATTCGTGCTGATA
* * *
79020086 TTATATCCGGGTTAAGTTCCGAATGCATTCGTGCTGGTA
1 TTATATCCGGGCTAAGTTCCGAAGGCATTCGTGCTGATA
*
79020125 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGATA
1 TTATATCCGGGCTAAGTTCCGAAGGCATTCGTGCTGATA
* *
79020164 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGATG
1 TTATATCCGGGCTAAGTTCCGAAGGCATTCGTGCTGATA
79020203 TTATATCCGGGCTAAGTTCCGAAGGCATT
1 TTATATCCGGGCTAAGTTCCGAAGGCATT
79020232 TGGGTTGGAA
Statistics
Matches: 136, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 136 1.00
ACGTcount: A:0.22, C:0.21, G:0.26, T:0.31
Consensus pattern (39 bp):
TTATATCCGGGCTAAGTTCCGAAGGCATTCGTGCTGATA
Found at i:79024219 original size:4 final size:4
Alignment explanation
Indices: 79024210--79024261 Score: 104
Period size: 4 Copynumber: 13.0 Consensus size: 4
79024200 TTGATCAAGA
79024210 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
79024258 GTAT
1 GTAT
79024262 AAGCTCTTAC
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 48 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
GTAT
Found at i:79025601 original size:6 final size:6
Alignment explanation
Indices: 79025590--79025618 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
79025580 TATAAAAACA
79025590 ATTTTG ATTTTG ATTTTG ATTTTG ATTTT
1 ATTTTG ATTTTG ATTTTG ATTTTG ATTTT
79025619 TTATTCTTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.17, C:0.00, G:0.14, T:0.69
Consensus pattern (6 bp):
ATTTTG
Found at i:79029411 original size:7 final size:7
Alignment explanation
Indices: 79029399--79029429 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
79029389 TTGGTGCTTT
79029399 TTTTTTC
1 TTTTTTC
79029406 TTTTTTC
1 TTTTTTC
79029413 TTTTTTC
1 TTTTTTC
79029420 TTTTTT-
1 TTTTTTC
79029426 TTTT
1 TTTT
79029430 GTATTTTCCA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 4 0.17
7 20 0.83
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (7 bp):
TTTTTTC
Found at i:79037819 original size:11 final size:11
Alignment explanation
Indices: 79037803--79037831 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
79037793 TCAAATGAAT
79037803 TTTTATATATA
1 TTTTATATATA
79037814 TTTTATATATA
1 TTTTATATATA
79037825 TTTTATA
1 TTTTATA
79037832 ATTGTTTCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (11 bp):
TTTTATATATA
Found at i:79038398 original size:39 final size:38
Alignment explanation
Indices: 79038319--79038426 Score: 137
Period size: 38 Copynumber: 2.8 Consensus size: 38
79038309 AAAAATTATA
* * *
79038319 TTTAATACTACAAAAAAGTTATTATATTTATTTGTATT
1 TTTAATACAATAAAAAATTTATTATATTTATTTGTATT
79038357 TTTAATACAATAAAAAATTTATTATATTTATTTGGGT-TT
1 TTTAATACAATAAAAAATTTATTATATTTATTT--GTATT
* * *
79038396 TTTAATATAATAAAATATTTAGTATATTTAT
1 TTTAATACAATAAAAAATTTATTATATTTAT
79038427 GGTAATTTTT
Statistics
Matches: 62, Mismatches: 6, Indels: 3
0.87 0.08 0.04
Matches are distributed among these distances:
38 30 0.48
39 30 0.48
40 2 0.03
ACGTcount: A:0.41, C:0.03, G:0.06, T:0.51
Consensus pattern (38 bp):
TTTAATACAATAAAAAATTTATTATATTTATTTGTATT
Found at i:79038436 original size:39 final size:39
Alignment explanation
Indices: 79038330--79038445 Score: 112
Period size: 39 Copynumber: 3.0 Consensus size: 39
79038320 TTAATACTAC
* * * * *
79038330 AAAAAAGTTATTATATTTATTTG-TATTTTTAATACAAT
1 AAAAAATTTAGTATATTTATTGGATTTTTTTAATATAAT
* *
79038368 AAAAAATTTATTATATTTATTTGG-GTTTTTTAATATAAT
1 AAAAAATTTAGTATATTTA-TTGGATTTTTTTAATATAAT
*
79038407 AAAATATTTAGTATATTTA-TGGTAATTTTTTTAATATAA
1 AAAAAATTTAGTATATTTATTGG--ATTTTTTTAATATAA
79038446 ATACTTTTTA
Statistics
Matches: 66, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
37 3 0.05
38 18 0.27
39 32 0.48
40 13 0.20
ACGTcount: A:0.41, C:0.01, G:0.07, T:0.52
Consensus pattern (39 bp):
AAAAAATTTAGTATATTTATTGGATTTTTTTAATATAAT
Found at i:79039191 original size:29 final size:29
Alignment explanation
Indices: 79039158--79039215 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
79039148 ATGAAGTTAA
79039158 AAGCTTGTAGCCCTAAGAATGACATCTCC
1 AAGCTTGTAGCCCTAAGAATGACATCTCC
79039187 AAGCTTGTAGCCCTAAGAATGACATCTCC
1 AAGCTTGTAGCCCTAAGAATGACATCTCC
79039216 CTAATTATCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.24
Consensus pattern (29 bp):
AAGCTTGTAGCCCTAAGAATGACATCTCC
Found at i:79042301 original size:12 final size:12
Alignment explanation
Indices: 79042284--79042313 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
79042274 TGTGAAAAAT
79042284 AAAATAAAATAA
1 AAAATAAAATAA
79042296 AAAATAAAATAA
1 AAAATAAAATAA
*
79042308 ATAATA
1 AAAATA
79042314 CACAAATTTT
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:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (12 bp):
AAAATAAAATAA
Found at i:79048354 original size:46 final size:46
Alignment explanation
Indices: 79048304--79048514 Score: 302
Period size: 46 Copynumber: 4.6 Consensus size: 46
79048294 CCATAGTGTT
* * *
79048304 TTTCAACTATGGTCTTACTCATTTTC-TGTCATGTTGCC-ATGGTATC
1 TTTCAACCATGGTCTTACACA-TTTCATATCATGTTGCCAAT-GTATC
* ** * *
79048350 TTTCAACCACGGTCTTATTCATTTCATGTCACGTTGCC-ATGGTATC
1 TTTCAACCATGGTCTTACACATTTCATATCATGTTGCCAAT-GTATC
79048396 TTTCAACCATGGTCTTACACATTTCATATCATGTTGCCAATGTATC
1 TTTCAACCATGGTCTTACACATTTCATATCATGTTGCCAATGTATC
79048442 TTTCAACCATGGTCTTACACATTTCATATCATGTTGCCAATGTATC
1 TTTCAACCATGGTCTTACACATTTCATATCATGTTGCCAATGTATC
79048488 TTTCAACCATGGTCTTACACATTTCAT
1 TTTCAACCATGGTCTTACACATTTCAT
79048515 TTCAGAAAGC
Statistics
Matches: 154, Mismatches: 9, Indels: 4
0.92 0.05 0.02
Matches are distributed among these distances:
45 4 0.03
46 148 0.96
47 2 0.01
ACGTcount: A:0.23, C:0.24, G:0.12, T:0.41
Consensus pattern (46 bp):
TTTCAACCATGGTCTTACACATTTCATATCATGTTGCCAATGTATC
Found at i:79048445 original size:25 final size:25
Alignment explanation
Indices: 79048417--79048492 Score: 65
Period size: 25 Copynumber: 3.2 Consensus size: 25
79048407 GTCTTACACA
79048417 TTTCATATCATGTTGCCAATGTATC
1 TTTCATATCATGTTGCCAATGTATC
* * *
79048442 TTTCA-ACCATG--GTC--T-TACAC
1 TTTCATATCATGTTGCCAATGTA-TC
79048462 ATTTCATATCATGTTGCCAATGTATC
1 -TTTCATATCATGTTGCCAATGTATC
79048488 TTTCA
1 TTTCA
79048493 ACCATGGTCT
Statistics
Matches: 37, Mismatches: 6, Indels: 16
0.63 0.10 0.27
Matches are distributed among these distances:
19 2 0.05
20 2 0.05
21 5 0.14
22 7 0.19
24 7 0.19
25 10 0.27
26 2 0.05
27 2 0.05
ACGTcount: A:0.25, C:0.22, G:0.11, T:0.42
Consensus pattern (25 bp):
TTTCATATCATGTTGCCAATGTATC
Found at i:79049025 original size:18 final size:18
Alignment explanation
Indices: 79049002--79049036 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
79048992 CCCAATCTTG
79049002 ATTCAAATTAATAATTTC
1 ATTCAAATTAATAATTTC
* *
79049020 ATTCAATTTATTAATTT
1 ATTCAAATTAATAATTT
79049037 AATCAATAAA
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:0.40, C:0.09, G:0.00, T:0.51
Consensus pattern (18 bp):
ATTCAAATTAATAATTTC
Found at i:79054754 original size:31 final size:31
Alignment explanation
Indices: 79054692--79054756 Score: 94
Period size: 31 Copynumber: 2.1 Consensus size: 31
79054682 CATCCCAATT
* *
79054692 ACTTAAATAAAAACTTTTGAATAGTTGAGTG
1 ACTTAAATAAAAACTTTAGAATAATTGAGTG
* *
79054723 ACTTAAATAAAAACTTTAGCATAATTTAGTG
1 ACTTAAATAAAAACTTTAGAATAATTGAGTG
79054754 ACT
1 ACT
79054757 ATTTTATAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.43, C:0.09, G:0.12, T:0.35
Consensus pattern (31 bp):
ACTTAAATAAAAACTTTAGAATAATTGAGTG
Found at i:79055492 original size:13 final size:12
Alignment explanation
Indices: 79055476--79055533 Score: 59
Period size: 12 Copynumber: 4.9 Consensus size: 12
79055466 ATAATCATTA
79055476 AATATTTTTAATT
1 AATA-TTTTAATT
**
79055489 AATATTTTAAAA
1 AATATTTTAATT
79055501 AATATTTT--TT
1 AATATTTTAATT
79055511 AAT-TTTTAATT
1 AATATTTTAATT
79055522 AATAATTTTAAT
1 AAT-ATTTTAAT
79055534 ACATTTATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
9 4 0.11
10 3 0.08
11 5 0.14
12 14 0.38
13 11 0.30
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (12 bp):
AATATTTTAATT
Found at i:79055525 original size:21 final size:22
Alignment explanation
Indices: 79055487--79055534 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 22
79055477 ATATTTTTAA
*
79055487 TTAATATTTTAAAAAATATTTT
1 TTAATATTTTAAAAAATAATTT
**
79055509 TTAAT-TTTTAATTAATAA-TT
1 TTAATATTTTAAAAAATAATTT
79055529 TTAATA
1 TTAATA
79055535 CATTTATAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
20 7 0.32
21 10 0.45
22 5 0.23
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (22 bp):
TTAATATTTTAAAAAATAATTT
Found at i:79058524 original size:266 final size:266
Alignment explanation
Indices: 79058050--79058585 Score: 1027
Period size: 266 Copynumber: 2.0 Consensus size: 266
79058040 TGTACATGAC
*
79058050 TTTTGCTTGATAAATACAGCAAGTGATGCATAACATCTAATGTGCCAGTTTGCTCATTGCAACTC
1 TTTTGCTTGATAAATACAGCAAGTGATGCATAACATCTAATGTGCCAGTGTGCTCATTGCAACTC
79058115 TGACTTTGAGTGTTGGTCCTTAACATGTGTTTATCCCATTTTATCATGTCAATGAATTTCTGAAG
66 TGACTTTGAGTGTTGGTCCTTAACATGTGTTTATCCCATTTTATCATGTCAATGAATTTCTGAAG
*
79058180 ATTTTAGAGTTTTAAATGAAGATTTACTATTGAGTATTATTCTGAAGACTTGAAACCTTTTACAT
131 ATTTTAGAGTTTTAAATGAAGATTTACTAGTGAGTATTATTCTGAAGACTTGAAACCTTTTACAT
79058245 GGTTTTCAATTGACTTTTAAGTTTGACATGCACATAGAAAATTTTCTGTGAATAACATTGAACTT
196 GGTTTTCAATTGACTTTTAAGTTTGACATGCACATAGAAAATTTTCTGTGAATAACATTGAACTT
79058310 CACATA
261 CACATA
* *
79058316 TTTTGCTTGATAAATGCAGCCAGTGATGCATAACATCTAATGTGCCAGTGTGCTCATTGCAACTC
1 TTTTGCTTGATAAATACAGCAAGTGATGCATAACATCTAATGTGCCAGTGTGCTCATTGCAACTC
*
79058381 TGATTTTGAGTGTTGGTCCTTAACATGTGTTTATCCCATTTTATCATGTCAATGAATTTCTGAAG
66 TGACTTTGAGTGTTGGTCCTTAACATGTGTTTATCCCATTTTATCATGTCAATGAATTTCTGAAG
79058446 ATTTTAGAGTTTTAAATGAAGATTTACTAGTGAGTATTATTCTGAAGACTTGAAACCTTTTACAT
131 ATTTTAGAGTTTTAAATGAAGATTTACTAGTGAGTATTATTCTGAAGACTTGAAACCTTTTACAT
79058511 GGTTTTCAATTGACTTTTAAGTTTGACATGCACATAGAAAATTTTCTGTGAATAACATTGAACTT
196 GGTTTTCAATTGACTTTTAAGTTTGACATGCACATAGAAAATTTTCTGTGAATAACATTGAACTT
79058576 CACATA
261 CACATA
79058582 TTTT
1 TTTT
79058586 CCTTCTAGAA
Statistics
Matches: 265, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
266 265 1.00
ACGTcount: A:0.29, C:0.15, G:0.16, T:0.40
Consensus pattern (266 bp):
TTTTGCTTGATAAATACAGCAAGTGATGCATAACATCTAATGTGCCAGTGTGCTCATTGCAACTC
TGACTTTGAGTGTTGGTCCTTAACATGTGTTTATCCCATTTTATCATGTCAATGAATTTCTGAAG
ATTTTAGAGTTTTAAATGAAGATTTACTAGTGAGTATTATTCTGAAGACTTGAAACCTTTTACAT
GGTTTTCAATTGACTTTTAAGTTTGACATGCACATAGAAAATTTTCTGTGAATAACATTGAACTT
CACATA
Found at i:79067357 original size:51 final size:51
Alignment explanation
Indices: 79067293--79067392 Score: 173
Period size: 51 Copynumber: 2.0 Consensus size: 51
79067283 TGGAAACATG
*
79067293 ATCTTAAAAGATATGATTTTATAATCTTAGAGATCTTAGATATGATATGGA
1 ATCTTAAAAGATATGATATTATAATCTTAGAGATCTTAGATATGATATGGA
* *
79067344 ATCTTATAAGATATTATATTATAATCTTAGAGATCTTAGATATGATATG
1 ATCTTAAAAGATATGATATTATAATCTTAGAGATCTTAGATATGATATG
79067393 ATATTATATT
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 46 1.00
ACGTcount: A:0.39, C:0.06, G:0.14, T:0.41
Consensus pattern (51 bp):
ATCTTAAAAGATATGATATTATAATCTTAGAGATCTTAGATATGATATGGA
Found at i:79067399 original size:39 final size:39
Alignment explanation
Indices: 79067353--79067475 Score: 147
Period size: 39 Copynumber: 3.0 Consensus size: 39
79067343 AATCTTATAA
79067353 GATATTATATTATAATCTTAGAGATCTTAGATATGATAT
1 GATATTATATTATAATCTTAGAGATCTTAGATATGATAT
* * * *
79067392 GATATTATATTATAATCTTAGAGATATGATATGAAATCTTATAA
1 GATATTATATTATAATCTTAGAGATCT--TA-G--ATATGATAT
* *
79067436 GATATTATTTTATATTCTTAGAGATCTTAGATATGATAT
1 GATATTATATTATAATCTTAGAGATCTTAGATATGATAT
79067475 G
1 G
79067476 TAATCTTAGA
Statistics
Matches: 69, Mismatches: 10, Indels: 10
0.78 0.11 0.11
Matches are distributed among these distances:
39 33 0.48
41 3 0.04
42 3 0.04
44 30 0.43
ACGTcount: A:0.38, C:0.05, G:0.13, T:0.44
Consensus pattern (39 bp):
GATATTATATTATAATCTTAGAGATCTTAGATATGATAT
Found at i:79067508 original size:51 final size:52
Alignment explanation
Indices: 79067376--79067511 Score: 165
Period size: 51 Copynumber: 2.7 Consensus size: 52
79067366 AATCTTAGAG
*
79067376 ATCTTAGATATGATATGATATTATATTA-T--A-ATCTTAGAGATATGATATGAA
1 ATCTTAGA-A-GATATGATTTTATATTATTAGAGATCTTA-AGATATGATATGAA
* * * *
79067427 ATCTTATAAGATATTATTTTATATTCTTAGAGATCTT-AGATATGATATGTA
1 ATCTTAGAAGATATGATTTTATATTATTAGAGATCTTAAGATATGATATGAA
79067478 ATCTTAGAAGATATGATTTTATATTATTAGAGAT
1 ATCTTAGAAGATATGATTTTATATTATTAGAGAT
79067512 TTGATTTGTA
Statistics
Matches: 73, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
49 14 0.19
50 2 0.03
51 51 0.70
52 1 0.01
53 5 0.07
ACGTcount: A:0.38, C:0.04, G:0.13, T:0.44
Consensus pattern (52 bp):
ATCTTAGAAGATATGATTTTATATTATTAGAGATCTTAAGATATGATATGAA
Found at i:79070332 original size:51 final size:51
Alignment explanation
Indices: 79070268--79070367 Score: 146
Period size: 51 Copynumber: 2.0 Consensus size: 51
79070258 TGGAAACATG
* * *
79070268 ATCTTAAAAGATATGATTTTATAATCTTAGAGATCTTAGATATGATATGGA
1 ATCTTAAAAGATATGATATTATAATCTTAAAGATATTAGATATGATATGGA
* * *
79070319 ATCTTATAAGATATTATATTATTATCTTAAAGATATTAGATATGATATG
1 ATCTTAAAAGATATGATATTATAATCTTAAAGATATTAGATATGATATG
79070368 ATATTATATT
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
51 43 1.00
ACGTcount: A:0.40, C:0.05, G:0.13, T:0.42
Consensus pattern (51 bp):
ATCTTAAAAGATATGATATTATAATCTTAAAGATATTAGATATGATATGGA
Found at i:79070371 original size:39 final size:37
Alignment explanation
Indices: 79070328--79070400 Score: 110
Period size: 39 Copynumber: 1.9 Consensus size: 37
79070318 AATCTTATAA
*
79070328 GATATTATATTATTATCTTAAAGATATTAGATATGATAT
1 GATATTATATTATAATCTTAAAGATA-T-GATATGATAT
*
79070367 GATATTATATTATAATCTTAGAGATATGATATGA
1 GATATTATATTATAATCTTAAAGATATGATATGA
79070401 CATCTTATAA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
37 7 0.22
38 1 0.03
39 24 0.75
ACGTcount: A:0.41, C:0.03, G:0.12, T:0.44
Consensus pattern (37 bp):
GATATTATATTATAATCTTAAAGATATGATATGATAT
Found at i:79070424 original size:44 final size:43
Alignment explanation
Indices: 79070305--79070435 Score: 153
Period size: 44 Copynumber: 3.1 Consensus size: 43
79070295 TAGAGATCTT
* *
79070305 AGATATGATATGGAATCTTATAAGATATTATATTATTATCTTAA
1 AGATATGATAT-GAATCTTATAAGATATTATATTATAATCTTAG
* * *
79070349 AGATAT--TA-G-ATATGATATGATATTATATTATAATCTTAG
1 AGATATGATATGAATCTTATAAGATATTATATTATAATCTTAG
* *
79070388 AGATATGATATGACATCTTATAAGATATTATTTTATATTCTTAG
1 AGATATGATATGA-ATCTTATAAGATATTATATTATAATCTTAG
79070432 AGAT
1 AGAT
79070436 CTTAGATATG
Statistics
Matches: 72, Mismatches: 10, Indels: 10
0.78 0.11 0.11
Matches are distributed among these distances:
39 31 0.43
40 1 0.01
41 2 0.03
42 3 0.04
44 35 0.49
ACGTcount: A:0.40, C:0.05, G:0.12, T:0.44
Consensus pattern (43 bp):
AGATATGATATGAATCTTATAAGATATTATATTATAATCTTAG
Found at i:79070435 original size:22 final size:21
Alignment explanation
Indices: 79070327--79070435 Score: 66
Period size: 22 Copynumber: 5.2 Consensus size: 21
79070317 GAATCTTATA
*
79070327 AGATATTATATTATTATCTTAA
1 AGATATTATATTA-TATCTTAG
*
79070349 AGATATTAGA-TATGA---TA-
1 AGATATTATATTAT-ATCTTAG
*
79070366 TGATATTATATTATAATCTTAG
1 AGATATTATATTAT-ATCTTAG
* * * *
79070388 AGATATGATATGACATCTTATA
1 AGATATTATATTATATCTTA-G
*
79070410 AGATATTATTTTATATTCTTAG
1 AGATATTATATTATA-TCTTAG
79070432 AGAT
1 AGAT
79070436 CTTAGATATG
Statistics
Matches: 65, Mismatches: 14, Indels: 16
0.68 0.15 0.17
Matches are distributed among these distances:
17 8 0.12
18 6 0.09
20 1 0.02
21 11 0.17
22 34 0.52
23 5 0.08
ACGTcount: A:0.39, C:0.05, G:0.11, T:0.45
Consensus pattern (21 bp):
AGATATTATATTATATCTTAG
Found at i:79070450 original size:51 final size:51
Alignment explanation
Indices: 79070388--79070486 Score: 155
Period size: 51 Copynumber: 1.9 Consensus size: 51
79070378 ATAATCTTAG
* * *
79070388 AGATATGATATG-ACATCTTATAAGATATTATTTTATATTCTTAGAGATCTT
1 AGATATGATATGTA-ATCTTAGAAGATATAATTTTATATTATTAGAGATCTT
79070439 AGATATGATATGTAATCTTAGAAGATATAATTTTATATTATTAGAGAT
1 AGATATGATATGTAATCTTAGAAGATATAATTTTATATTATTAGAGAT
79070487 TTAATTTGTA
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
51 43 0.98
52 1 0.02
ACGTcount: A:0.38, C:0.05, G:0.13, T:0.43
Consensus pattern (51 bp):
AGATATGATATGTAATCTTAGAAGATATAATTTTATATTATTAGAGATCTT
Found at i:79074274 original size:41 final size:40
Alignment explanation
Indices: 79074199--79074533 Score: 225
Period size: 41 Copynumber: 8.1 Consensus size: 40
79074189 GCAAAAATTA
79074199 TAAAACACAGAGCAATAGCGGCGTTTTACC-AAAAACGCCGC
1 TAAAA-ACAGAGCAATAGCGGCGTTTT-CCTAAAAACGCCGC
*
79074240 TAAAAACAGAGCAATAACGGCGTTTTCCTAAAAAACGCCGC
1 TAAAAACAGAGCAATAGCGGCGTTTTCCT-AAAAACGCCGC
* **
79074281 TAAAAACAGAGCATTAGCGGCGCTTTTGGT-AAAACGCCGC
1 TAAAAACAGAGCAATAGCGGCG-TTTTCCTAAAAACGCCGC
* * * **
79074321 TAAAGACCAGAGCATTAGCGGCGCTTCTGGT-AAAACGCCGC
1 TAAA-AACAGAGCAATAGCGGCG-TTTTCCTAAAAACGCCGC
* * * **
79074362 TAAAGACCAGAGCATTAGCGGCGCTTCTGGT-AAAACGCCGC
1 TAAA-AACAGAGCAATAGCGGCG-TTTTCCTAAAAACGCCGC
* * **
79074403 TAAAGATCAGAGCATTAGCGGCGCTTTTGGT-AAAACGCCGC
1 TAAA-AACAGAGCAATAGCGGCG-TTTTCCTAAAAACGCCGC
* * **
79074444 TAAAGACCAGAGCATTAGCGGCGGCGCTTTTGGT-AAAACGCCGC
1 TAAA-AACAGAGCAATA---GCGGCG-TTTTCCTAAAAACGCCGC
* * * **
79074488 TAAAGACCAGAGCATTAGCGACGCTTTTGGT-AAAACGCCGC
1 TAAA-AACAGAGCAATAGCGGCG-TTTTCCTAAAAACGCCGC
79074529 TAAAA
1 TAAAA
79074534 GTCATATAAC
Statistics
Matches: 276, Mismatches: 11, Indels: 15
0.91 0.04 0.05
Matches are distributed among these distances:
39 2 0.01
40 35 0.13
41 193 0.70
42 5 0.02
44 41 0.15
ACGTcount: A:0.33, C:0.24, G:0.24, T:0.18
Consensus pattern (40 bp):
TAAAAACAGAGCAATAGCGGCGTTTTCCTAAAAACGCCGC
Found at i:79074513 original size:85 final size:82
Alignment explanation
Indices: 79074230--79074532 Score: 450
Period size: 82 Copynumber: 3.7 Consensus size: 82
79074220 CGTTTTACCA
* * * ** *
79074230 AAAACGCCGCTAAA-AACAGAGCAATAACGGCG-TTTTCCTAAAAAACGCCGCTAAA-AACAGAG
1 AAAACGCCGCTAAAGACCAGAGCATTAGCGGCGCTTTTGGT--AAAACGCCGCTAAAGACCAGAG
79074292 CATTAGCGGCGCTTTTGGT
64 CATTAGCGGCGCTTTTGGT
*
79074311 AAAACGCCGCTAAAGACCAGAGCATTAGCGGCGCTTCTGGTAAAACGCCGCTAAAGACCAGAGCA
1 AAAACGCCGCTAAAGACCAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAGACCAGAGCA
*
79074376 TTAGCGGCGCTTCTGGT
66 TTAGCGGCGCTTTTGGT
*
79074393 AAAACGCCGCTAAAGATCAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAGACCAGAGCA
1 AAAACGCCGCTAAAGACCAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAGACCAGAGCA
79074458 TTAGCGGCGGCGCTTTTGGT
66 TTA---GCGGCGCTTTTGGT
*
79074478 AAAACGCCGCTAAAGACCAGAGCATTAGCGACGCTTTTGGTAAAACGCCGCTAAA
1 AAAACGCCGCTAAAGACCAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAA
79074533 AGTCATATAA
Statistics
Matches: 203, Mismatches: 13, Indels: 8
0.91 0.06 0.04
Matches are distributed among these distances:
81 28 0.14
82 105 0.52
83 4 0.02
85 66 0.33
ACGTcount: A:0.32, C:0.25, G:0.25, T:0.18
Consensus pattern (82 bp):
AAAACGCCGCTAAAGACCAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAGACCAGAGCA
TTAGCGGCGCTTTTGGT
Found at i:79074712 original size:14 final size:14
Alignment explanation
Indices: 79074690--79074734 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
79074680 TTAATTATCA
*
79074690 TTATAGTTTAAGGT
1 TTATGGTTTAAGGT
*
79074704 TTATGGTTTAAGAT
1 TTATGGTTTAAGGT
* *
79074718 ATATGGTTTAGGGT
1 TTATGGTTTAAGGT
79074732 TTA
1 TTA
79074735 AAGTTTAAAA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.27, C:0.00, G:0.24, T:0.49
Consensus pattern (14 bp):
TTATGGTTTAAGGT
Found at i:79074920 original size:7 final size:7
Alignment explanation
Indices: 79074787--79074921 Score: 71
Period size: 7 Copynumber: 19.0 Consensus size: 7
79074777 ATGAATTATA
79074787 GGTTTAG
1 GGTTTAG
* *
79074794 GGATTAT
1 GGTTTAG
*
79074801 GGTTTAA
1 GGTTTAG
79074808 GGTTTAAG
1 GGTTT-AG
79074816 GG-TTAG
1 GGTTTAG
79074822 GG-TT-G
1 GGTTTAG
*
79074827 GAGTTTAA
1 G-GTTTAG
*
79074835 GGTGTAAG
1 GGT-TTAG
*
79074843 GGTTTGG
1 GGTTTAG
*
79074850 GGTTTGG
1 GGTTTAG
*
79074857 GGTTAAG
1 GGTTTAG
*
79074864 GGTTAAG
1 GGTTTAG
79074871 GGTTTAG
1 GGTTTAG
*
79074878 GGTTTAA
1 GGTTTAG
*
79074885 TGTTTATG
1 GGTTTA-G
*
79074893 GG-ATAG
1 GGTTTAG
*
79074899 GGGTTATG
1 GGTTTA-G
79074907 AGGTTTAG
1 -GGTTTAG
79074915 GGTTTAG
1 GGTTTAG
79074922 ATTAATTAGT
Statistics
Matches: 99, Mismatches: 20, Indels: 18
0.72 0.15 0.13
Matches are distributed among these distances:
5 2 0.02
6 10 0.10
7 70 0.71
8 12 0.12
9 5 0.05
ACGTcount: A:0.20, C:0.00, G:0.41, T:0.39
Consensus pattern (7 bp):
GGTTTAG
Found at i:79077318 original size:90 final size:90
Alignment explanation
Indices: 79077130--79077473 Score: 316
Period size: 90 Copynumber: 3.9 Consensus size: 90
79077120 AATTTGATTG
* *
79077130 TGATAATGGTGGC-AATGTGTTCATTGTTTAAAAGTATGATTGTGATTAGTTATATTGTTTAAAA
1 TGATAATGGTAGCAAAT-TGTGCATTGTTTAAAAGTATGATTGTGATTAGTTATATTGTTTAAAA
* ** * ** * **
79077194 ATGTGATTT-AGACTCAAATTTGATTG
65 GTACGATTTGGGA-TTGAATTCGATCA
* * * * *
79077220 TGACAATGGTAGTAAATTGTTCAGTGTTTAAAAGTGTGATTGTGATTAGTTATATTGTTTAAAAG
1 TGATAATGGTAGCAAATTGTGCATTGTTTAAAAGTATGATTGTGATTAGTTATATTGTTTAAAAG
79077285 TACGATTTGGGATTGAATTCGATCA
66 TACGATTTGGGATTGAATTCGATCA
* * * * * *
79077310 TGATAATGGTAGCGAATTGTGCATTATTTAAAGGTATGGA-TGCGAATAG-T-GATTG-------
1 TGATAATGGTAGCAAATTGTGCATTGTTTAAAAGTAT-GATTGTGATTAGTTATATTGTTTAAAA
79077365 GTACGATTTGGGATTGAATTCGATCA
65 GTACGATTTGGGATTGAATTCGATCA
* * * * * *
79077391 CGATAATGGTAGCAAATTATGCATTGTTTGAAGGCATGGTTGTGATTAGTTATATTGTTTAAAAG
1 TGATAATGGTAGCAAATTGTGCATTGTTTAAAAGTATGATTGTGATTAGTTATATTGTTTAAAAG
*
79077456 TAAGATTTGGGATTGAAT
66 TACGATTTGGGATTGAAT
79077474 GTAGCTGTCT
Statistics
Matches: 205, Mismatches: 36, Indels: 26
0.77 0.13 0.10
Matches are distributed among these distances:
80 1 0.00
81 64 0.31
82 1 0.00
83 4 0.02
88 4 0.02
89 1 0.00
90 123 0.60
91 7 0.03
ACGTcount: A:0.31, C:0.06, G:0.24, T:0.39
Consensus pattern (90 bp):
TGATAATGGTAGCAAATTGTGCATTGTTTAAAAGTATGATTGTGATTAGTTATATTGTTTAAAAG
TACGATTTGGGATTGAATTCGATCA
Found at i:79079152 original size:25 final size:25
Alignment explanation
Indices: 79079118--79079168 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
79079108 AGGGGATAAG
79079118 TTAGTACACTTTTTCGCTTAAATGC
1 TTAGTACACTTTTTCGCTTAAATGC
79079143 TTAGTACACTTTTTCGCTTAAATGC
1 TTAGTACACTTTTTCGCTTAAATGC
79079168 T
1 T
79079169 CTTTTTCTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.24, C:0.20, G:0.12, T:0.45
Consensus pattern (25 bp):
TTAGTACACTTTTTCGCTTAAATGC
Found at i:79080818 original size:16 final size:16
Alignment explanation
Indices: 79080792--79080824 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
79080782 TTTTCAGGAC
79080792 TTTTTTATAATATTTTA
1 TTTTTTATAAT-TTTTA
79080809 TTTTTT-TAATTTTTA
1 TTTTTTATAATTTTTA
79080824 T
1 T
79080825 GACCTTTAGC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.38
16 4 0.25
17 6 0.38
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (16 bp):
TTTTTTATAATTTTTA
Found at i:79082746 original size:14 final size:14
Alignment explanation
Indices: 79082727--79082766 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
79082717 TTGATTGGCA
79082727 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
79082741 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
79082755 GGAAAATGTTTT
1 GTAAAATGTTTT
79082767 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:79082775 original size:20 final size:20
Alignment explanation
Indices: 79082750--79082789 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
79082740 CGTAAAATGA
*
79082750 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
79082770 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
79082790 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:79082779 original size:34 final size:35
Alignment explanation
Indices: 79082735--79082801 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
79082725 CAGTAAAATG
*
79082735 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
*
79082769 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTT
79082802 CTAGTGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.31, C:0.09, G:0.13, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:79082913 original size:20 final size:20
Alignment explanation
Indices: 79082888--79082926 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
79082878 GTTTTTACAT
79082888 ATATTAATAAATTTATATAC
1 ATATTAATAAATTTATATAC
*
79082908 ATATTAATAAATTTTTATA
1 ATATTAATAAATTTATATA
79082927 TTTTAAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (20 bp):
ATATTAATAAATTTATATAC
Found at i:79082986 original size:15 final size:15
Alignment explanation
Indices: 79082957--79083009 Score: 52
Period size: 17 Copynumber: 3.2 Consensus size: 15
79082947 TATTGCAATG
*
79082957 ATTTATTTATAAATAA
1 ATTT-TTTATTAATAA
79082973 ATTTTTTATTAATAAA
1 ATTTTTTATTAAT-AA
79082989 AGTTTTTTATCTAATTAA
1 A-TTTTTTAT-TAA-TAA
79083007 ATT
1 ATT
79083010 CCAAATGTTC
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
15 8 0.25
16 7 0.22
17 10 0.31
18 6 0.19
19 1 0.03
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (15 bp):
ATTTTTTATTAATAA
Found at i:79086389 original size:25 final size:25
Alignment explanation
Indices: 79086341--79086390 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
79086331 AGAAGAGAAG
*
79086341 ATGAAGAACAGAAGAAGAAAAAGGA
1 ATGAAAAACAGAAGAAGAAAAAGGA
* *
79086366 ATGAAAAACGGAAGAAGAAGAAGGA
1 ATGAAAAACAGAAGAAGAAAAAGGA
79086391 GCCTTACCTG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.62, C:0.04, G:0.30, T:0.04
Consensus pattern (25 bp):
ATGAAAAACAGAAGAAGAAAAAGGA
Found at i:79086473 original size:18 final size:18
Alignment explanation
Indices: 79086450--79086487 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
79086440 TTTGCAATCC
79086450 AAGGGGAAAGGAAAAGGG
1 AAGGGGAAAGGAAAAGGG
* *
79086468 AAGGGGAAGGGAAAGGGG
1 AAGGGGAAAGGAAAAGGG
79086486 AA
1 AA
79086488 AGGGTAGAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.47, C:0.00, G:0.53, T:0.00
Consensus pattern (18 bp):
AAGGGGAAAGGAAAAGGG
Found at i:79086961 original size:37 final size:37
Alignment explanation
Indices: 79086916--79086993 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
79086906 GTCTTCATGA
*
79086916 TTTA-AACTTACCTTCTTCTTTACGAGTAAAATTTAC
1 TTTACAACTTACCTTCTTATTTACGAGTAAAATTTAC
* * *
79086952 TTTACAACTTACGTTCTTATTTATGAGTACAATTTAC
1 TTTACAACTTACCTTCTTATTTACGAGTAAAATTTAC
79086989 TTTAC
1 TTTAC
79086994 CACTACACTC
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
36 4 0.11
37 33 0.89
ACGTcount: A:0.29, C:0.18, G:0.06, T:0.46
Consensus pattern (37 bp):
TTTACAACTTACCTTCTTATTTACGAGTAAAATTTAC
Found at i:79087010 original size:37 final size:37
Alignment explanation
Indices: 79086934--79087012 Score: 88
Period size: 37 Copynumber: 2.1 Consensus size: 37
79086924 TACCTTCTTC
* ** *
79086934 TTTACGAGTAAAATTTACTTTACAACTTACGTTCTTA
1 TTTATGAGTAAAATTTACTTTACAACTTACACTCATA
* *
79086971 TTTATGAGTACAATTTACTTTACCAC-TACACTCAATA
1 TTTATGAGTAAAATTTACTTTACAACTTACACTC-ATA
79087008 TTTAT
1 TTTAT
79087013 TGATATGTTT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
36 5 0.14
37 30 0.86
ACGTcount: A:0.33, C:0.18, G:0.06, T:0.43
Consensus pattern (37 bp):
TTTATGAGTAAAATTTACTTTACAACTTACACTCATA
Found at i:79090886 original size:68 final size:68
Alignment explanation
Indices: 79090759--79090892 Score: 171
Period size: 68 Copynumber: 2.0 Consensus size: 68
79090749 TATTGAAGTA
* * * ** * * *
79090759 AATTAGTGCCAACACACATCATAACAGGTATTATATCAATGATTTTAACTCAGACAATTTTTAAA
1 AATTACTGCCAACACACAGCACAACACCTATTATATCAATGATTTCAACTCAAACAATTTCTAAA
79090824 AAT
66 AAT
*
79090827 AATTACTGCCAACACACAGCACAACACCTATTATATCAATGA-TTCAAGCTCAAATAATTTCTAA
1 AATTACTGCCAACACACAGCACAACACCTATTATATCAATGATTTCAA-CTCAAACAATTTCTAA
79090891 AA
65 AA
79090893 GAAAATAACC
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
67 4 0.07
68 52 0.93
ACGTcount: A:0.43, C:0.20, G:0.07, T:0.29
Consensus pattern (68 bp):
AATTACTGCCAACACACAGCACAACACCTATTATATCAATGATTTCAACTCAAACAATTTCTAAA
AAT
Found at i:79091772 original size:24 final size:25
Alignment explanation
Indices: 79091739--79091787 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 25
79091729 AAATTCAAAA
*
79091739 TATTTATAAAAATTTTA-AAATTTT
1 TATTTATAAAAAATTTATAAATTTT
*
79091763 TATTTTTAAAAAATTTATAAATTTT
1 TATTTATAAAAAATTTATAAATTTT
79091788 AAAAAAATCT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 15 0.68
25 7 0.32
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (25 bp):
TATTTATAAAAAATTTATAAATTTT
Found at i:79091777 original size:17 final size:18
Alignment explanation
Indices: 79091708--79091793 Score: 61
Period size: 18 Copynumber: 4.7 Consensus size: 18
79091698 AATAAATTTC
*
79091708 AAATTTTGAAAATAATTTTT
1 AAATTTT-AAAA-AATTTAT
* * *
79091728 AAAATTCAAAATATTTAT
1 AAATTTTAAAAAATTTAT
79091746 AAAAATTTT--AAAATTT-T
1 --AAATTTTAAAAAATTTAT
* *
79091763 TATTTTTAAAAAATTTAT
1 AAATTTTAAAAAATTTAT
79091781 AAATTTTAAAAAA
1 AAATTTTAAAAAA
79091794 ATCTAAAAAA
Statistics
Matches: 50, Mismatches: 11, Indels: 12
0.68 0.15 0.16
Matches are distributed among these distances:
15 5 0.10
17 8 0.16
18 23 0.46
19 4 0.08
20 10 0.20
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.45
Consensus pattern (18 bp):
AAATTTTAAAAAATTTAT
Found at i:79097235 original size:25 final size:25
Alignment explanation
Indices: 79097200--79097249 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
79097190 CCTTTCCATC
*
79097200 ATTCTTGGGGGTATTTATAGGCAGG
1 ATTCTTAGGGGTATTTATAGGCAGG
79097225 ATTCTTAGGGGTATTTATAGGCAGG
1 ATTCTTAGGGGTATTTATAGGCAGG
79097250 GTTCCGTCTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.22, C:0.08, G:0.34, T:0.36
Consensus pattern (25 bp):
ATTCTTAGGGGTATTTATAGGCAGG
Found at i:79098091 original size:22 final size:20
Alignment explanation
Indices: 79098064--79098103 Score: 62
Period size: 22 Copynumber: 1.9 Consensus size: 20
79098054 GTACCTATTT
79098064 TTTTGATGAATTTTTAGGAATA
1 TTTTGATG-ATTTTT-GGAATA
79098086 TTTTGATGATTTTTGGAA
1 TTTTGATGATTTTTGGAA
79098104 GAGATTGCCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 4 0.22
21 6 0.33
22 8 0.44
ACGTcount: A:0.28, C:0.00, G:0.20, T:0.53
Consensus pattern (20 bp):
TTTTGATGATTTTTGGAATA
Found at i:79101910 original size:24 final size:24
Alignment explanation
Indices: 79101883--79101930 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
79101873 TATTCAATCG
79101883 AACTTCAATATATTTTTGTATTAA
1 AACTTCAATATATTTTTGTATTAA
79101907 AACTTCAATATATTTTTGTATTAA
1 AACTTCAATATATTTTTGTATTAA
79101931 CTCCATAAAT
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:0.08, G:0.04, T:0.50
Consensus pattern (24 bp):
AACTTCAATATATTTTTGTATTAA
Found at i:79101942 original size:23 final size:23
Alignment explanation
Indices: 79101883--79101943 Score: 61
Period size: 24 Copynumber: 2.6 Consensus size: 23
79101873 TATTCAATCG
* *
79101883 AACTTCAATATATTTTTGTATTAA
1 AACTCCAAAATATTTTTGTATT-A
* *
79101907 AACTTCAATATATTTTTGTATT-
1 AACTCCAAAATATTTTTGTATTA
79101929 AACTCCATAAATATT
1 AACTCCA-AAATATT
79101944 CCTATTTTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
22 6 0.18
23 6 0.18
24 22 0.65
ACGTcount: A:0.38, C:0.11, G:0.03, T:0.48
Consensus pattern (23 bp):
AACTCCAAAATATTTTTGTATTA
Found at i:79103741 original size:22 final size:21
Alignment explanation
Indices: 79103700--79103747 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
79103690 TTATTTCATT
*
79103700 TAATTTTAAAAAATTATAAAA
1 TAATTTTAAAAAAATATAAAA
*
79103721 TAATTATTAAAAAAA-ATTAAA
1 TAATT-TTAAAAAAATATAAAA
79103742 -AATTTT
1 TAATTTT
79103748 CATTTAAATC
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
19 2 0.08
20 4 0.17
21 10 0.42
22 8 0.33
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
TAATTTTAAAAAAATATAAAA
Found at i:79104881 original size:29 final size:30
Alignment explanation
Indices: 79104848--79104911 Score: 85
Period size: 30 Copynumber: 2.2 Consensus size: 30
79104838 TTAAAAAATT
* *
79104848 ATTAATCGACCCA-TGACCGAATTAATTCG
1 ATTAATCGACCCATTAACCGAATTAAGTCG
* *
79104877 ATTAATCGACCGATTAACCGAATTCAGTCG
1 ATTAATCGACCCATTAACCGAATTAAGTCG
79104907 ATTAA
1 ATTAA
79104912 CCGAATTAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
29 12 0.40
30 18 0.60
ACGTcount: A:0.36, C:0.22, G:0.14, T:0.28
Consensus pattern (30 bp):
ATTAATCGACCCATTAACCGAATTAAGTCG
Found at i:79104925 original size:18 final size:18
Alignment explanation
Indices: 79104887--79104927 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
79104877 ATTAATCGAC
*
79104887 CGATTAACCGAATTCAGT
1 CGATTAACCGAATTAAGT
*
79104905 CGATTAACCGAATTAATT
1 CGATTAACCGAATTAAGT
79104923 CGATT
1 CGATT
79104928 TTACCTGAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.34, C:0.20, G:0.15, T:0.32
Consensus pattern (18 bp):
CGATTAACCGAATTAAGT
Found at i:79109048 original size:28 final size:27
Alignment explanation
Indices: 79109017--79109083 Score: 71
Period size: 28 Copynumber: 2.4 Consensus size: 27
79109007 TATATATATA
* *
79109017 TATTTTATTTTTAATCATATTTACATTT
1 TATTTTATTTTTAAT-ATAATCACATTT
* *
79109045 TATTTTCAATTTTAATATAATCACTTTT
1 TATTTT-ATTTTTAATATAATCACATTT
*
79109073 TATTATATTTT
1 TATTTTATTTT
79109084 CAATTTGTGT
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
27 4 0.12
28 20 0.62
29 8 0.25
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.63
Consensus pattern (27 bp):
TATTTTATTTTTAATATAATCACATTT
Found at i:79111634 original size:32 final size:32
Alignment explanation
Indices: 79111596--79111658 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
79111586 CTATTCCTAT
79111596 GGGGGGTCCCTTGGCTCGCTATTAGGGATGTG
1 GGGGGGTCCCTTGGCTCGCTATTAGGGATGTG
79111628 GGGGGGTCCCTTGGCTCGCTATTAGGGATGT
1 GGGGGGTCCCTTGGCTCGCTATTAGGGATGT
79111659 TAATGTCATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.10, C:0.19, G:0.43, T:0.29
Consensus pattern (32 bp):
GGGGGGTCCCTTGGCTCGCTATTAGGGATGTG
Found at i:79113855 original size:5 final size:6
Alignment explanation
Indices: 79113836--79113879 Score: 54
Period size: 6 Copynumber: 7.5 Consensus size: 6
79113826 TTATTTTCAC
* * *
79113836 TTTGTT TTTGTT TTTG-T TTTGTT TTTATT TTTATT TTTATT TTT
1 TTTGTT TTTGTT TTTGTT TTTGTT TTTGTT TTTGTT TTTGTT TTT
79113880 CATGTTCTAA
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
5 5 0.14
6 31 0.86
ACGTcount: A:0.07, C:0.00, G:0.09, T:0.84
Consensus pattern (6 bp):
TTTGTT
Found at i:79113878 original size:17 final size:17
Alignment explanation
Indices: 79113825--79113872 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
79113815 TTTGAGTCCA
* *
79113825 TTTATTTTCACTTTGTT
1 TTTATTTTTATTTTGTT
* *
79113842 TTTGTTTTTGTTTTGTT
1 TTTATTTTTATTTTGTT
79113859 TTTATTTTTATTTT
1 TTTATTTTTATTTT
79113873 TATTTTTCAT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.08, C:0.04, G:0.08, T:0.79
Consensus pattern (17 bp):
TTTATTTTTATTTTGTT
Found at i:79117645 original size:39 final size:39
Alignment explanation
Indices: 79117565--79117798 Score: 233
Period size: 39 Copynumber: 6.0 Consensus size: 39
79117555 AAATCCAATC
* * *
79117565 ACCACCACAAAGCATACGGGACTTTAAGCCCGGATATAAT
1 ACCAGCACAAAGCCTGCGGGACTTT-AGCCCGGATATAAT
* * *
79117605 ACAAGTACAAAGCCTGCGGGACTTTAGCCCGAATATAAT
1 ACCAGCACAAAGCCTGCGGGACTTTAGCCCGGATATAAT
**
79117644 ACCAGCACAAAGCCTGCGGGACTTTAGCCCGGATATAGC
1 ACCAGCACAAAGCCTGCGGGACTTTAGCCCGGATATAAT
* * *
79117683 ACCAGCACGAATGCCTTCGGGAC-TTAGCCCGGATATAAC
1 ACCAGCAC-AAAGCCTGCGGGACTTTAGCCCGGATATAAT
* * *
79117722 ACCAGCACGAATGCCTTC-GGAC-TTAGCCCGGATATAAC
1 ACCAGCAC-AAAGCCTGCGGGACTTTAGCCCGGATATAAT
* * ** *
79117760 ACCAGCACGAATGCCTTCAAGAC-TTAGCTCGGATATAAT
1 ACCAGCAC-AAAGCCTGCGGGACTTTAGCCCGGATATAAT
79117799 TCTCCATTAT
Statistics
Matches: 175, Mismatches: 17, Indels: 5
0.89 0.09 0.03
Matches are distributed among these distances:
38 38 0.22
39 105 0.60
40 32 0.18
ACGTcount: A:0.32, C:0.28, G:0.21, T:0.19
Consensus pattern (39 bp):
ACCAGCACAAAGCCTGCGGGACTTTAGCCCGGATATAAT
Found at i:79117720 original size:78 final size:78
Alignment explanation
Indices: 79117565--79117798 Score: 276
Period size: 77 Copynumber: 3.0 Consensus size: 78
79117555 AAATCCAATC
* * * * * * *
79117565 ACCACCACAAAGCATACGGGACTTTAAGCCCGGATATAATACAAGTAC-AAAGCCTGCGGGACTT
1 ACCAGCACAAAGCCTACGGGACTTT-AGCCCGGATATAACACCAGCACGAATGCCTTCGGGAC-T
*
79117629 TAGCCCGAATATAAT
64 TAGCCCGGATATAAT
* *
79117644 ACCAGCACAAAGCCTGCGGGACTTTAGCCCGGATATAGCACCAGCACGAATGCCTTCGGGACTTA
1 ACCAGCACAAAGCCTACGGGACTTTAGCCCGGATATAACACCAGCACGAATGCCTTCGGGACTTA
*
79117709 GCCCGGATATAAC
66 GCCCGGATATAAT
* * **
79117722 ACCAGCACGAATGCCTTC-GGAC-TTAGCCCGGATATAACACCAGCACGAATGCCTTCAAGACTT
1 ACCAGCAC-AAAGCCTACGGGACTTTAGCCCGGATATAACACCAGCACGAATGCCTTCGGGACTT
*
79117785 AGCTCGGATATAAT
65 AGCCCGGATATAAT
79117799 TCTCCATTAT
Statistics
Matches: 135, Mismatches: 18, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
77 50 0.37
78 44 0.33
79 41 0.30
ACGTcount: A:0.32, C:0.28, G:0.21, T:0.19
Consensus pattern (78 bp):
ACCAGCACAAAGCCTACGGGACTTTAGCCCGGATATAACACCAGCACGAATGCCTTCGGGACTTA
GCCCGGATATAAT
Found at i:79118327 original size:110 final size:110
Alignment explanation
Indices: 79118132--79118351 Score: 386
Period size: 110 Copynumber: 2.0 Consensus size: 110
79118122 TGTGGATAGG
** **
79118132 CTACTCGATTGCTTTCTCATTTCGTCTATCTGATTTAGTTCCTCTTTGCTCTTGAGCTTTAAATT
1 CTACTCGATTGCTTTCTCATTTCCCCTATCTGATTTAGTTCCTCTTTGCTCCCGAGCTTTAAATT
*
79118197 TAAACAAATGAATTTGTTTAATTACTTACTCAACTTTAATTCTAT
66 TAAACAAATGAATTTATTTAATTACTTACTCAACTTTAATTCTAT
*
79118242 CTACTCGATTGCTTTCTCCTTTCCCCTATCTGATTTAGTTCCTCTTTGCTCCCGAGCTTTAAATT
1 CTACTCGATTGCTTTCTCATTTCCCCTATCTGATTTAGTTCCTCTTTGCTCCCGAGCTTTAAATT
79118307 TAAACAAATGAATTTATTTAATTACTTACTCAACTTTAATTCTAT
66 TAAACAAATGAATTTATTTAATTACTTACTCAACTTTAATTCTAT
79118352 AATAGTCGCA
Statistics
Matches: 104, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
110 104 1.00
ACGTcount: A:0.25, C:0.21, G:0.08, T:0.46
Consensus pattern (110 bp):
CTACTCGATTGCTTTCTCATTTCCCCTATCTGATTTAGTTCCTCTTTGCTCCCGAGCTTTAAATT
TAAACAAATGAATTTATTTAATTACTTACTCAACTTTAATTCTAT
Found at i:79124467 original size:39 final size:40
Alignment explanation
Indices: 79124279--79124496 Score: 275
Period size: 39 Copynumber: 5.5 Consensus size: 40
79124269 ACAAAGCATG
* * * * *
79124279 CGGGACTTTAAGCTCGGATATAATACCAGTAC-AAAGCCTG
1 CGGGACTTT-AGCCCGGATATAACACCAGCACGAATGCCTT
* * * *
79124319 CGGGACTTTAGCCCGAATATAATACCAGCAC-AAAGCCTG
1 CGGGACTTTAGCCCGGATATAACACCAGCACGAATGCCTT
*
79124358 CGGGACTTTAGCCCGGATATAGCACCAGCACGAATGCCTT
1 CGGGACTTTAGCCCGGATATAACACCAGCACGAATGCCTT
79124398 CGGGAC-TTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTTAGCCCGGATATAACACCAGCACGAATGCCTT
79124437 CGGGAC-TTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTTAGCCCGGATATAACACCAGCACGAATGCCTT
** *
79124476 CAAGAC-TTAGCTCGGATATAA
1 CGGGACTTTAGCCCGGATATAA
79124497 TTCTCCATTA
Statistics
Matches: 165, Mismatches: 12, Indels: 3
0.92 0.07 0.02
Matches are distributed among these distances:
39 144 0.87
40 21 0.13
ACGTcount: A:0.30, C:0.28, G:0.22, T:0.20
Consensus pattern (40 bp):
CGGGACTTTAGCCCGGATATAACACCAGCACGAATGCCTT
Found at i:79127574 original size:46 final size:46
Alignment explanation
Indices: 79127507--79127681 Score: 180
Period size: 46 Copynumber: 3.8 Consensus size: 46
79127497 TGTAACCCGC
*
79127507 CCATAAGTGAACTCGGACTCAACTCAACGTGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
*
79127553 CCATAAGTGAACTCGGACTCAACT-ACACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCA-ACGAGCTCGG--G-C--GTTCGCAT
* * * ** *
79127603 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
*
79127646 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
79127682 ATGCTCAACC
Statistics
Matches: 106, Mismatches: 12, Indels: 22
0.76 0.09 0.16
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 3 0.03
46 60 0.57
47 24 0.23
48 4 0.04
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
Found at i:79127627 original size:93 final size:93
Alignment explanation
Indices: 79127515--79127685 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
79127505 GCCCATAAGT
* ** *
79127515 GAACTCGGACTCAACTCAACGTGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACT-AC
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCA-
79127579 ACGAGCTCGGATGCCTAGTTACATCTCAC
65 ACGAGCTCGGATGCCTAGTTACATCTCAC
*
79127608 GAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
79127673 CGAGTTCGGATGC
66 CGAGCTCGGATGC
79127686 TCAACCATCC
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
93 70 0.99
94 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCAC
Found at i:79145249 original size:22 final size:22
Alignment explanation
Indices: 79145192--79145249 Score: 52
Period size: 22 Copynumber: 2.7 Consensus size: 22
79145182 TCAAATCAAT
79145192 ATTTCT-T-GAATTTTAACAAA
1 ATTTCTCTCGAATTTTAACAAA
* *
79145212 ATTT-TCAAC-AATTTTTAAGAAA
1 ATTTCTC-TCGAA-TTTTAACAAA
79145234 ATTTCTCTCGAATTTT
1 ATTTCTCTCGAATTTT
79145250 TTGAACCAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 10
0.69 0.07 0.24
Matches are distributed among these distances:
19 1 0.03
20 4 0.14
21 2 0.07
22 18 0.62
23 4 0.14
ACGTcount: A:0.36, C:0.12, G:0.05, T:0.47
Consensus pattern (22 bp):
ATTTCTCTCGAATTTTAACAAA
Found at i:79146071 original size:28 final size:29
Alignment explanation
Indices: 79146040--79146100 Score: 70
Period size: 28 Copynumber: 2.1 Consensus size: 29
79146030 CTCTACGTAA
* *
79146040 TTTTATATATTTTTAAAATACTT-TATAT
1 TTTTATATACTTTTAAAATAATTATATAT
* * *
79146068 TTTTATGTCCTTTTATAATAATTATATAT
1 TTTTATATACTTTTAAAATAATTATATAT
79146097 TTTT
1 TTTT
79146101 TAAAGTTCTT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
28 18 0.67
29 9 0.33
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.62
Consensus pattern (29 bp):
TTTTATATACTTTTAAAATAATTATATAT
Found at i:79147711 original size:17 final size:17
Alignment explanation
Indices: 79147686--79147718 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
79147676 AATATAAAAT
79147686 GTATACAAATTATTATAA
1 GTATACAAATT-TTATAA
79147704 GTAT-CAAATTTTATA
1 GTATACAAATTTTATA
79147719 TTAATATAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 6 0.40
18 4 0.27
ACGTcount: A:0.45, C:0.06, G:0.06, T:0.42
Consensus pattern (17 bp):
GTATACAAATTTTATAA
Found at i:79148052 original size:18 final size:18
Alignment explanation
Indices: 79148015--79148066 Score: 72
Period size: 18 Copynumber: 3.0 Consensus size: 18
79148005 AATCAATCTC
*
79148015 TATATACAT-TAT-CATG
1 TATATACATATATACATA
79148031 TATATACATATATACATA
1 TATATACATATATACATA
*
79148049 TATATATATATATACATA
1 TATATACATATATACATA
79148067 CTTGAAAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.28
17 3 0.09
18 20 0.62
ACGTcount: A:0.46, C:0.10, G:0.02, T:0.42
Consensus pattern (18 bp):
TATATACATATATACATA
Found at i:79148062 original size:8 final size:8
Alignment explanation
Indices: 79148031--79148060 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
79148021 CATTATCATG
79148031 TATATACA
1 TATATACA
79148039 TATATACA
1 TATATACA
*
79148047 TATATATA
1 TATATACA
79148055 TATATA
1 TATATA
79148061 TACATACTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (8 bp):
TATATACA
Found at i:79150028 original size:22 final size:22
Alignment explanation
Indices: 79150003--79150048 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
79149993 ATTAATAATA
* *
79150003 AAACAAGAGTTGTACAATATCT
1 AAACAAAAGTTCTACAATATCT
79150025 AAACAAAAGTTCTACAATATCT
1 AAACAAAAGTTCTACAATATCT
79150047 AA
1 AA
79150049 CTAATAACAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.50, C:0.15, G:0.09, T:0.26
Consensus pattern (22 bp):
AAACAAAAGTTCTACAATATCT
Found at i:79153057 original size:51 final size:51
Alignment explanation
Indices: 79152993--79153218 Score: 269
Period size: 51 Copynumber: 4.7 Consensus size: 51
79152983 TGGAAACATG
*
79152993 ATCTTAAAAGATATGATTTTATAATCTTAGAGATCTTAGATATGATATGGA
1 ATCTTATAAGATATGATTTTATAATCTTAGAGATCTTAGATATGATATGGA
* *
79153044 ATCTTATAAGATATTATATTATAATCTTAGAGATCTTAGATATGATAT-G-
1 ATCTTATAAGATATGATTTTATAATCTTAGAGATCTTAGATATGATATGGA
*
79153093 A---TAT----TAT-A--TTATAATCTTAGAGATCTTAGATATGATATGAA
1 ATCTTATAAGATATGATTTTATAATCTTAGAGATCTTAGATATGATATGGA
* * * * *
79153134 ATCTTATAAGATATTATTTTATATTCTTAGAAATCTTAGATATGATACGTA
1 ATCTTATAAGATATGATTTTATAATCTTAGAGATCTTAGATATGATATGGA
* *
79153185 ATCTTAGAAGATATGATTTTATATTCTTAGAGAT
1 ATCTTATAAGATATGATTTTATAATCTTAGAGAT
79153219 TTGATTTGTA
Statistics
Matches: 152, Mismatches: 11, Indels: 24
0.81 0.06 0.13
Matches are distributed among these distances:
39 30 0.20
41 2 0.01
42 3 0.02
44 3 0.02
46 3 0.02
48 3 0.02
49 2 0.01
50 1 0.01
51 105 0.69
ACGTcount: A:0.38, C:0.06, G:0.13, T:0.42
Consensus pattern (51 bp):
ATCTTATAAGATATGATTTTATAATCTTAGAGATCTTAGATATGATATGGA
Found at i:79153099 original size:39 final size:39
Alignment explanation
Indices: 79153053--79153132 Score: 160
Period size: 39 Copynumber: 2.1 Consensus size: 39
79153043 AATCTTATAA
79153053 GATATTATATTATAATCTTAGAGATCTTAGATATGATAT
1 GATATTATATTATAATCTTAGAGATCTTAGATATGATAT
79153092 GATATTATATTATAATCTTAGAGATCTTAGATATGATAT
1 GATATTATATTATAATCTTAGAGATCTTAGATATGATAT
79153131 GA
1 GA
79153133 AATCTTATAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.39, C:0.05, G:0.14, T:0.42
Consensus pattern (39 bp):
GATATTATATTATAATCTTAGAGATCTTAGATATGATAT
Found at i:79153130 original size:29 final size:29
Alignment explanation
Indices: 79153001--79153091 Score: 88
Period size: 29 Copynumber: 3.4 Consensus size: 29
79152991 TGATCTTAAA
*
79153001 AGATATGATTTTATAATCTTAGAGATCTT
1 AGATATGATATTATAATCTTAGAGATCTT
** *
79153030 AGATATGATA-TGGAATCTT----A--TA
1 AGATATGATATTATAATCTTAGAGATCTT
*
79153052 AGATATTATATTATAATCTTAGAGATCTT
1 AGATATGATATTATAATCTTAGAGATCTT
79153081 AGATATGATAT
1 AGATATGATAT
79153092 GATATTATAT
Statistics
Matches: 46, Mismatches: 9, Indels: 14
0.67 0.13 0.20
Matches are distributed among these distances:
22 10 0.22
23 7 0.15
24 1 0.02
27 1 0.02
28 7 0.15
29 20 0.43
ACGTcount: A:0.38, C:0.05, G:0.14, T:0.42
Consensus pattern (29 bp):
AGATATGATATTATAATCTTAGAGATCTT
Found at i:79153148 original size:90 final size:90
Alignment explanation
Indices: 79153002--79153180 Score: 304
Period size: 90 Copynumber: 2.0 Consensus size: 90
79152992 GATCTTAAAA
* *
79153002 GATATGATTTTATAATCTTAGAGATCTTAGATATGATATGGAATCTTATAAGATATTATATTATA
1 GATATGATATTATAATCTTAGAGATCTTAGATATGATATGAAATCTTATAAGATATTATATTATA
*
79153067 ATCTTAGAGATCTTAGATATGATAT
66 ATCTTAGAAATCTTAGATATGATAT
* *
79153092 GATATTATATTATAATCTTAGAGATCTTAGATATGATATGAAATCTTATAAGATATTATTTTATA
1 GATATGATATTATAATCTTAGAGATCTTAGATATGATATGAAATCTTATAAGATATTATATTATA
*
79153157 TTCTTAGAAATCTTAGATATGATA
66 ATCTTAGAAATCTTAGATATGATA
79153181 CGTAATCTTA
Statistics
Matches: 83, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
90 83 1.00
ACGTcount: A:0.39, C:0.06, G:0.13, T:0.43
Consensus pattern (90 bp):
GATATGATATTATAATCTTAGAGATCTTAGATATGATATGAAATCTTATAAGATATTATATTATA
ATCTTAGAAATCTTAGATATGATAT
Found at i:79155045 original size:96 final size:96
Alignment explanation
Indices: 79154876--79155064 Score: 254
Period size: 96 Copynumber: 2.0 Consensus size: 96
79154866 GTCCGAGGAA
* * * * * *
79154876 GTCTGTTATCGATGGGAATGATCGAGCAGATACGGAGCCCAGGAAGCTTGGTTCGAGCAAGAGAA
1 GTCTGTCATCGAAGGGAACGATCGAGCAGACAAGGAGCCCAAGAAGCTTGGTTCGAGCAAGAGAA
*
79154941 AAGTCGAAGCCAAGAGGGC-AAAGAGGAGTTT
66 AAGCCGAAGCCAAGAGGGCTAAA-AGGAGTTT
* * * * *
79154972 GTCTGTCATCGAAGGGAACGATGGATCAGACAAGGAGCCCAAGAAGCTTGGTTTGAGCAAGGGTA
1 GTCTGTCATCGAAGGGAACGATCGAGCAGACAAGGAGCCCAAGAAGCTTGGTTCGAGCAAGAGAA
79155037 AAGCCGAAGCCAAGAGGGCTAAAAGGAG
66 AAGCCGAAGCCAAGAGGGCTAAAAGGAG
79155065 CAAAAAGAAG
Statistics
Matches: 80, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
96 77 0.96
97 3 0.04
ACGTcount: A:0.33, C:0.16, G:0.34, T:0.16
Consensus pattern (96 bp):
GTCTGTCATCGAAGGGAACGATCGAGCAGACAAGGAGCCCAAGAAGCTTGGTTCGAGCAAGAGAA
AAGCCGAAGCCAAGAGGGCTAAAAGGAGTTT
Found at i:79156038 original size:51 final size:51
Alignment explanation
Indices: 79155974--79156199 Score: 287
Period size: 51 Copynumber: 4.7 Consensus size: 51
79155964 TGGAAATATG
*
79155974 ATCTTAAAAGATATGATTTTATAATCTTAGAGATCTTAGATATGATATGGA
1 ATCTTATAAGATATGATTTTATAATCTTAGAGATCTTAGATATGATATGGA
* *
79156025 ATCTTATAAGATATTATATTATAATCTTAGAGATCTTAGATATGATAT-G-
1 ATCTTATAAGATATGATTTTATAATCTTAGAGATCTTAGATATGATATGGA
*
79156074 A---TAT----TAT-A--TTATAATCTTAGAGATCTTAGATATGATATGAA
1 ATCTTATAAGATATGATTTTATAATCTTAGAGATCTTAGATATGATATGGA
* * *
79156115 ATCTTATAAGATATTATTTTATATTCTTAGAGATCTTAGATATGATATGTA
1 ATCTTATAAGATATGATTTTATAATCTTAGAGATCTTAGATATGATATGGA
* *
79156166 ATCTTAGAAGATATGATTTTATATTCTTAGAGAT
1 ATCTTATAAGATATGATTTTATAATCTTAGAGAT
79156200 TTGATTTGTA
Statistics
Matches: 155, Mismatches: 8, Indels: 24
0.83 0.04 0.13
Matches are distributed among these distances:
39 30 0.19
41 2 0.01
42 3 0.02
44 3 0.02
46 3 0.02
48 3 0.02
49 2 0.01
50 1 0.01
51 108 0.70
ACGTcount: A:0.38, C:0.06, G:0.13, T:0.43
Consensus pattern (51 bp):
ATCTTATAAGATATGATTTTATAATCTTAGAGATCTTAGATATGATATGGA
Found at i:79156080 original size:39 final size:39
Alignment explanation
Indices: 79156034--79156113 Score: 160
Period size: 39 Copynumber: 2.1 Consensus size: 39
79156024 AATCTTATAA
79156034 GATATTATATTATAATCTTAGAGATCTTAGATATGATAT
1 GATATTATATTATAATCTTAGAGATCTTAGATATGATAT
79156073 GATATTATATTATAATCTTAGAGATCTTAGATATGATAT
1 GATATTATATTATAATCTTAGAGATCTTAGATATGATAT
79156112 GA
1 GA
79156114 AATCTTATAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.39, C:0.05, G:0.14, T:0.42
Consensus pattern (39 bp):
GATATTATATTATAATCTTAGAGATCTTAGATATGATAT
Found at i:79156111 original size:29 final size:29
Alignment explanation
Indices: 79155982--79156072 Score: 88
Period size: 29 Copynumber: 3.4 Consensus size: 29
79155972 TGATCTTAAA
*
79155982 AGATATGATTTTATAATCTTAGAGATCTT
1 AGATATGATATTATAATCTTAGAGATCTT
** *
79156011 AGATATGATA-TGGAATCTT----A--TA
1 AGATATGATATTATAATCTTAGAGATCTT
*
79156033 AGATATTATATTATAATCTTAGAGATCTT
1 AGATATGATATTATAATCTTAGAGATCTT
79156062 AGATATGATAT
1 AGATATGATAT
79156073 GATATTATAT
Statistics
Matches: 46, Mismatches: 9, Indels: 14
0.67 0.13 0.20
Matches are distributed among these distances:
22 10 0.22
23 7 0.15
24 1 0.02
27 1 0.02
28 7 0.15
29 20 0.43
ACGTcount: A:0.38, C:0.05, G:0.14, T:0.42
Consensus pattern (29 bp):
AGATATGATATTATAATCTTAGAGATCTT
Found at i:79156127 original size:90 final size:90
Alignment explanation
Indices: 79155983--79156163 Score: 317
Period size: 90 Copynumber: 2.0 Consensus size: 90
79155973 GATCTTAAAA
* *
79155983 GATATGATTTTATAATCTTAGAGATCTTAGATATGATATGGAATCTTATAAGATATTATATTATA
1 GATATGATATTATAATCTTAGAGATCTTAGATATGATATGAAATCTTATAAGATATTATATTATA
79156048 ATCTTAGAGATCTTAGATATGATAT
66 ATCTTAGAGATCTTAGATATGATAT
* *
79156073 GATATTATATTATAATCTTAGAGATCTTAGATATGATATGAAATCTTATAAGATATTATTTTATA
1 GATATGATATTATAATCTTAGAGATCTTAGATATGATATGAAATCTTATAAGATATTATATTATA
*
79156138 TTCTTAGAGATCTTAGATATGATAT
66 ATCTTAGAGATCTTAGATATGATAT
79156163 G
1 G
79156164 TAATCTTAGA
Statistics
Matches: 86, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
90 86 1.00
ACGTcount: A:0.38, C:0.06, G:0.14, T:0.43
Consensus pattern (90 bp):
GATATGATATTATAATCTTAGAGATCTTAGATATGATATGAAATCTTATAAGATATTATATTATA
ATCTTAGAGATCTTAGATATGATAT
Found at i:79156204 original size:22 final size:22
Alignment explanation
Indices: 79156130--79156206 Score: 64
Period size: 22 Copynumber: 3.2 Consensus size: 22
79156120 ATAAGATATT
79156130 ATTTTATATTCTTAGAGATCTTAG
1 ATTTTATATTCTTAGAGAT-TT-G
* * *
79156154 ATATGATATGTAATCTTAGAAGATATG
1 AT-T--T-TATATTCTTAG-AGATTTG
79156181 ATTTTATATTCTTAGAGATTTG
1 ATTTTATATTCTTAGAGATTTG
79156203 ATTT
1 ATTT
79156207 GTAGATACCC
Statistics
Matches: 42, Mismatches: 6, Indels: 12
0.70 0.10 0.20
Matches are distributed among these distances:
22 10 0.24
23 9 0.21
24 3 0.07
25 1 0.02
26 1 0.02
27 4 0.10
28 10 0.24
29 4 0.10
ACGTcount: A:0.32, C:0.05, G:0.14, T:0.48
Consensus pattern (22 bp):
ATTTTATATTCTTAGAGATTTG
Found at i:79157110 original size:16 final size:16
Alignment explanation
Indices: 79157070--79157113 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
79157060 TTTCAATTAA
79157070 AATTTTATTTTCTTAT
1 AATTTTATTTTCTTAT
* *
79157086 AAATATATTTT-TATAT
1 AATTTTATTTTCT-TAT
79157102 AATTTTATTTTC
1 AATTTTATTTTC
79157114 CACCCACGTC
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
15 1 0.05
16 21 0.95
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.64
Consensus pattern (16 bp):
AATTTTATTTTCTTAT
Done.