Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 172 of 410
Found at i:52765385 original size:20 final size:20
Alignment explanation
Indices: 52765360--52765397 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
52765350 GTTTATTCGC
*
52765360 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
52765380 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
52765398 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:52767055 original size:28 final size:28
Alignment explanation
Indices: 52767023--52767091 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
52767013 GCGTAGATCA
52767023 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
52767051 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
52767079 CGATA-TACCCCTA
1 CGAAATTACCCCTA
52767092 GGGTTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:52773391 original size:20 final size:20
Alignment explanation
Indices: 52773366--52773403 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
52773356 GTTTATTCGC
*
52773366 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
52773386 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
52773404 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:52775076 original size:27 final size:27
Alignment explanation
Indices: 52775030--52775096 Score: 109
Period size: 27 Copynumber: 2.5 Consensus size: 27
52775020 GCGTAGATCA
52775030 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTA-CCCTAAAGAGCAAAATTAC
52775058 CGAAATTACCCTAAAGAGCAAAATTAC
1 CGAAATTACCCTAAAGAGCAAAATTAC
*
52775085 CGATA-TACCCTA
1 CGAAATTACCCTA
52775097 GGGTTTTAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
26 7 0.18
27 23 0.61
28 8 0.21
ACGTcount: A:0.45, C:0.25, G:0.10, T:0.19
Consensus pattern (27 bp):
CGAAATTACCCTAAAGAGCAAAATTAC
Found at i:52776930 original size:28 final size:28
Alignment explanation
Indices: 52776861--52776961 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
52776851 GACAAGATTG
* * * *
52776861 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
52776891 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
52776919 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
52776948 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
52776962 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:52778452 original size:29 final size:29
Alignment explanation
Indices: 52778338--52778440 Score: 152
Period size: 29 Copynumber: 3.5 Consensus size: 29
52778328 GACAAGATTG
* * * *
52778338 GCACTAAGTGTGCGGGTTTAAAAATTGTATA
1 GCACTAAGTGTGCGAG-CTGAAAA-TATATA
52778369 GCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATATATA
52778398 GCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATATATA
52778427 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
52778441 GATTCACTAT
Statistics
Matches: 68, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
29 48 0.71
30 5 0.07
31 15 0.22
ACGTcount: A:0.34, C:0.14, G:0.26, T:0.26
Consensus pattern (29 bp):
GCACTAAGTGTGCGAGCTGAAAATATATA
Found at i:52784672 original size:18 final size:19
Alignment explanation
Indices: 52784651--52784686 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
52784641 AATAAAGAAA
*
52784651 GGAATTAAA-AAGAAAAGG
1 GGAATAAAATAAGAAAAGG
52784669 GGAATAAAATAAGAAAAG
1 GGAATAAAATAAGAAAAG
52784687 AAAAAGGGGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.64, C:0.00, G:0.25, T:0.11
Consensus pattern (19 bp):
GGAATAAAATAAGAAAAGG
Found at i:52786023 original size:29 final size:30
Alignment explanation
Indices: 52785954--52786086 Score: 207
Period size: 29 Copynumber: 4.5 Consensus size: 30
52785944 GACAAGATTG
* * * *
52785954 GCACTAAGTGTGCGGGTTTAAAAATTGTATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
52785985 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
52786014 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
52786044 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
52786073 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
52786087 GATTCACTAT
Statistics
Matches: 97, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
29 48 0.49
30 34 0.35
31 15 0.15
ACGTcount: A:0.35, C:0.14, G:0.26, T:0.26
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:52786047 original size:59 final size:60
Alignment explanation
Indices: 52785954--52786086 Score: 223
Period size: 59 Copynumber: 2.2 Consensus size: 60
52785944 GACAAGATTG
* * *
52785954 GCACTAAGTGTGCGGGTTTAAAAATTGTATAGCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGTCTAAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATA
*
52786014 GCACTAAGTGTGCGAG-CTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGTCTAAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATA
52786073 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
52786087 GATTCACTAT
Statistics
Matches: 69, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
59 54 0.78
60 15 0.22
ACGTcount: A:0.35, C:0.14, G:0.26, T:0.26
Consensus pattern (60 bp):
GCACTAAGTGTGCGAGTCTAAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATA
Found at i:52791069 original size:20 final size:20
Alignment explanation
Indices: 52791046--52791083 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
52791036 CACATCCAAA
*
52791046 TACAAAATTTTAAAAATCTT
1 TACAAAATATTAAAAATCTT
*
52791066 TACAAAATATTGAAAATC
1 TACAAAATATTAAAAATC
52791084 GCGAATAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.11, G:0.03, T:0.34
Consensus pattern (20 bp):
TACAAAATATTAAAAATCTT
Found at i:52792861 original size:93 final size:93
Alignment explanation
Indices: 52792749--52792920 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
52792739 CGCCCATAAG
* *
52792749 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
52792814 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
52792842 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
52792907 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
52792921 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:52792917 original size:46 final size:46
Alignment explanation
Indices: 52792742--52792917 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
52792732 TGTAACCCGC
* * *
52792742 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
52792788 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
52792838 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
52792881 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
52792918 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:52799767 original size:93 final size:93
Alignment explanation
Indices: 52799655--52799826 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
52799645 CGCCCATAAG
* *
52799655 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
52799720 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
52799748 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
52799813 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
52799827 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:52799823 original size:46 final size:46
Alignment explanation
Indices: 52799648--52799823 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
52799638 TGTAACCCGC
* * *
52799648 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
52799694 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
52799744 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
52799787 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
52799824 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:52812065 original size:101 final size:101
Alignment explanation
Indices: 52811890--52812098 Score: 278
Period size: 101 Copynumber: 2.1 Consensus size: 101
52811880 GAAATGAAAA
* * *
52811890 ACCATGGTTGGACCATGGCAGTGTTTATATGTAAGACCATAGCCAGGCTATGTCATTCTGATGAT
1 ACCATGGTTGGACCATGACAGTGTTTATATGTAAGACCACAGCCAGGCTATGTCATTCTAATGAT
* *
52811955 AAGATCATAACTGGGTTATGGCACTACAG-ACGTAAG
66 AAGACCATAACTAGGTTATGGCACTA-AGAACGTAAG
* * ** *
52811991 ACCATGGTTGGACCTTGACAGTGTTTATATGTAATACCACAGCTGGGCTATAG-CATTTTAATGA
1 ACCATGGTTGGACCATGACAGTGTTTATATGTAAGACCACAGCCAGGCTAT-GTCATTCTAATGA
* *
52812055 TAAGACCATAACTAGGTTATGGCACTATGAATGTAAG
65 TAAGACCATAACTAGGTTATGGCACTAAGAACGTAAG
52812092 ACCATGG
1 ACCATGG
52812099 CAGGGTCATG
Statistics
Matches: 94, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
100 1 0.01
101 92 0.98
102 1 0.01
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.29
Consensus pattern (101 bp):
ACCATGGTTGGACCATGACAGTGTTTATATGTAAGACCACAGCCAGGCTATGTCATTCTAATGAT
AAGACCATAACTAGGTTATGGCACTAAGAACGTAAG
Found at i:52816956 original size:42 final size:42
Alignment explanation
Indices: 52816824--52816968 Score: 152
Period size: 42 Copynumber: 3.4 Consensus size: 42
52816814 TGTGATTTCG
*
52816824 TGTAAGACCACGTCTGGGAC-GCTGGCATCGATTTGAGATTTACA
1 TGTAAGACCACGTCTGGGACAG-TGGCATCGATTT-TGA-TTACA
* * * * * *
52816868 TGTAAGACCATGTTTGGGACATTGGCATCG-TATATGATTTCG
1 TGTAAGACCACGTCTGGGACAGTGGCATCGAT-TTTGATTACA
*
52816910 TGTAAGACC-CTGTCTGGGACAGTGGCATCGATTTTGATAACA
1 TGTAAGACCAC-GTCTGGGACAGTGGCATCGATTTTGATTACA
52816952 TGTAAGACCACGTCTGG
1 TGTAAGACCACGTCTGG
52816969 AATGTTGGCA
Statistics
Matches: 82, Mismatches: 14, Indels: 12
0.76 0.13 0.11
Matches are distributed among these distances:
42 50 0.61
43 5 0.06
44 27 0.33
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.30
Consensus pattern (42 bp):
TGTAAGACCACGTCTGGGACAGTGGCATCGATTTTGATTACA
Found at i:52817637 original size:22 final size:21
Alignment explanation
Indices: 52817609--52817661 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 21
52817599 GATGTCCATC
* *
52817609 TTGGTATGATTTGGTAGTTAAA
1 TTGGTATGATTTGATA-TGAAA
*
52817631 TTGGTATGCTTTGATATGAAA
1 TTGGTATGATTTGATATGAAA
52817652 TTGAGTATGA
1 TTG-GTATGA
52817662 AATTGATTGA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
21 7 0.27
22 19 0.73
ACGTcount: A:0.28, C:0.02, G:0.26, T:0.43
Consensus pattern (21 bp):
TTGGTATGATTTGATATGAAA
Found at i:52818929 original size:43 final size:43
Alignment explanation
Indices: 52818882--52819037 Score: 162
Period size: 43 Copynumber: 3.7 Consensus size: 43
52818872 TGTGATTTCA
52818882 TGTAAGACCACG-TTGGGACATTGGCATCGATTTGAGATTTACG
1 TGTAAGACCACGTTTGGGACATTGGCATCGATTTG-GATTTACG
* ** *
52818925 TGTAAGACCATGTTTGGGACATCAGCATCCTATTT-GATTT-CG
1 TGTAAGACCACGTTTGGGACATTGGCAT-CGATTTGGATTTACG
* *
52818967 TGTAAGACC-C-TCTCTGGGACAGTGGCATCGATATTGGA-TTACA
1 TGTAAGACCACGT-T-TGGGACATTGGCATCGAT-TTGGATTTACG
*
52819010 TGTAAGACCACGTTTGGGACGTTGGCAT
1 TGTAAGACCACGTTTGGGACATTGGCAT
52819038 TGTACAAGTT
Statistics
Matches: 92, Mismatches: 12, Indels: 18
0.75 0.10 0.15
Matches are distributed among these distances:
40 1 0.01
41 4 0.04
42 26 0.28
43 40 0.43
44 15 0.16
45 6 0.07
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.31
Consensus pattern (43 bp):
TGTAAGACCACGTTTGGGACATTGGCATCGATTTGGATTTACG
Found at i:52819017 original size:85 final size:85
Alignment explanation
Indices: 52818874--52819029 Score: 219
Period size: 85 Copynumber: 1.8 Consensus size: 85
52818864 TTCTGATATG
* * * *
52818874 TGATTTCATGTAAGACCACGTTGGGACATTGGCATCGATTTGAGATTTACGTGTAAGACCATGTT
1 TGATTTCATGTAAGACCACCTTGGGACAGTGGCATCGATTTGAGATTTACATGTAAGACCACGTT
52818939 TGGGACATCAGCATCCTATT
66 TGGGACATCAGCATCCTATT
*
52818959 TGATTTCGTGTAAGACC-CTCTCTGGGACAGTGGCATCGATATTG-GA-TTACATGTAAGACCAC
1 TGATTTCATGTAAGACCAC-CT-TGGGACAGTGGCATCGAT-TTGAGATTTACATGTAAGACCAC
52819021 GTTTGGGAC
63 GTTTGGGAC
52819030 GTTGGCATTG
Statistics
Matches: 63, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
84 1 0.02
85 40 0.63
86 19 0.30
87 3 0.05
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (85 bp):
TGATTTCATGTAAGACCACCTTGGGACAGTGGCATCGATTTGAGATTTACATGTAAGACCACGTT
TGGGACATCAGCATCCTATT
Found at i:52834243 original size:30 final size:29
Alignment explanation
Indices: 52834149--52834250 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 29
52834139 TATAGTGAAT
* * *
52834149 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
52834178 TCGCACACTTAGTGCTATAGAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
52834206 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
52834236 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
52834251 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 23 0.38
29 18 0.30
30 20 0.33
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Found at i:52842133 original size:30 final size:29
Alignment explanation
Indices: 52842039--52842140 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 29
52842029 TATAGTGAAT
* * *
52842039 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
52842068 TCGCACACTTAGTGCTATAGAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
52842096 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
52842126 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
52842141 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 23 0.38
29 18 0.30
30 20 0.33
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Found at i:52847535 original size:28 final size:28
Alignment explanation
Indices: 52847503--52847637 Score: 189
Period size: 28 Copynumber: 4.8 Consensus size: 28
52847493 GAATCATTTG
*
52847503 ATATTTCGCACACTCAGTGCCATTCTCA
1 ATATTTCGCACACTAAGTGCCATTCTCA
*
52847531 ATATTTCGCACACTAAGTGTCATTCTCA
1 ATATTTCGCACACTAAGTGCCATTCTCA
* * * *
52847559 ATATTTTGTATACTAAGTGTCATTCTCA
1 ATATTTCGCACACTAAGTGCCATTCTCA
* *
52847587 ATATTTCACATACTAAGTGCCATTCTCA
1 ATATTTCGCACACTAAGTGCCATTCTCA
*
52847615 ATATTTCGCACACAAAGTGCCAT
1 ATATTTCGCACACTAAGTGCCAT
52847638 ATTTGATGTC
Statistics
Matches: 95, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 95 1.00
ACGTcount: A:0.30, C:0.24, G:0.10, T:0.36
Consensus pattern (28 bp):
ATATTTCGCACACTAAGTGCCATTCTCA
Found at i:52847658 original size:84 final size:84
Alignment explanation
Indices: 52847503--52847661 Score: 194
Period size: 84 Copynumber: 1.9 Consensus size: 84
52847493 GAATCATTTG
* * * * ** *
52847503 ATATTTCGCACACTCAGTGCCATTCTCAATATTTCGCACACTAAGTGTCATTCTCAATATTTTGT
1 ATATTTCACACACTAAGTGCCATTCTCAATATTTCGCACACAAAGTGCCATTCTCAATATCCTGC
*
52847568 ATACTAAGTGTCATTCTCA
66 ACACTAAGTGTCATTCTCA
* ** *
52847587 ATATTTCACATACTAAGTGCCATTCTCAATATTTCGCACACAAAGTGCCATAT-TTGATGTCCTG
1 ATATTTCACACACTAAGTGCCATTCTCAATATTTCGCACACAAAGTGCCAT-TCTCAATATCCTG
52847651 CACACTAAGTG
65 CACACTAAGTG
52847662 CTGTAGACAG
Statistics
Matches: 62, Mismatches: 12, Indels: 2
0.82 0.16 0.03
Matches are distributed among these distances:
84 61 0.98
85 1 0.02
ACGTcount: A:0.29, C:0.24, G:0.12, T:0.35
Consensus pattern (84 bp):
ATATTTCACACACTAAGTGCCATTCTCAATATTTCGCACACAAAGTGCCATTCTCAATATCCTGC
ACACTAAGTGTCATTCTCA
Found at i:52850761 original size:44 final size:42
Alignment explanation
Indices: 52850711--52850867 Score: 158
Period size: 44 Copynumber: 3.7 Consensus size: 42
52850701 TGTGATTTTG
52850711 TGTAAGACCACGTCTGGGACATTGGCATCGATTTGAGAGTTAC
1 TGTAAGACCACGTCTGGGACATTGGCATCGATTTGAGA-TTAC
* * * **
52850754 TTGTAAGACCATGTCCGCGACATTGGCATCGTATTTGATTTTA-
1 -TGTAAGACCACGTCTGGGACATTGGCATCG-ATTTGAGATTAC
* * *
52850797 TGTAAGACC-CTCTCTGGGATAATGGCATCGATATTG-GATTAC
1 TGTAAGACCAC-GTCTGGGACATTGGCATCGAT-TTGAGATTAC
*
52850839 ATGTAAGACCACGTCTGGGACGTTGGCAT
1 -TGTAAGACCACGTCTGGGACATTGGCAT
52850868 TGTCTGAGTT
Statistics
Matches: 90, Mismatches: 17, Indels: 13
0.75 0.14 0.11
Matches are distributed among these distances:
41 5 0.06
42 26 0.29
43 22 0.24
44 31 0.34
45 6 0.07
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (42 bp):
TGTAAGACCACGTCTGGGACATTGGCATCGATTTGAGATTAC
Found at i:52850847 original size:43 final size:43
Alignment explanation
Indices: 52850711--52850867 Score: 151
Period size: 43 Copynumber: 3.7 Consensus size: 43
52850701 TGTGATTTTG
*
52850711 TGTAAGACCA-CGTCTGGGACATTGGCATCGAT-TTGAGAGTTACT
1 TGTAAGACCATC-TCTGGGACATTGGCATCGATATTG-GA-TTACA
* * * * **
52850755 TGTAAGACCATGTCCGCGACATTGGCATCG-TATTTGATTTTA
1 TGTAAGACCATCTCTGGGACATTGGCATCGATATTGGATTACA
* * *
52850797 TGTAAGACCCTCTCTGGGATAATGGCATCGATATTGGATTACA
1 TGTAAGACCATCTCTGGGACATTGGCATCGATATTGGATTACA
*
52850840 TGTAAGACCA-CGTCTGGGACGTTGGCAT
1 TGTAAGACCATC-TCTGGGACATTGGCAT
52850868 TGTCTGAGTT
Statistics
Matches: 89, Mismatches: 20, Indels: 9
0.75 0.17 0.08
Matches are distributed among these distances:
42 27 0.30
43 34 0.38
44 28 0.31
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (43 bp):
TGTAAGACCATCTCTGGGACATTGGCATCGATATTGGATTACA
Found at i:52853614 original size:31 final size:31
Alignment explanation
Indices: 52853567--52853659 Score: 143
Period size: 31 Copynumber: 3.0 Consensus size: 31
52853557 TTAGTCTTAA
*
52853567 CATAT-ACTGGGTCGAAGCCTTTCCATAAAT
1 CATATCACTGGGCCGAAGCCTTTCCATAAAT
*
52853597 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTCCATAAAT
*
52853628 CATATCACTGGGCCGAAGCCTTTACTATAAAT
1 CATATCACTGGGCCGAAGCCTTT-CCATAAAT
52853660 GGTATAGCCC
Statistics
Matches: 57, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
30 5 0.09
31 46 0.81
32 6 0.11
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTCCATAAAT
Found at i:52853890 original size:24 final size:25
Alignment explanation
Indices: 52853858--52853939 Score: 78
Period size: 25 Copynumber: 3.3 Consensus size: 25
52853848 TGGAGGCCTA
52853858 TCCTCTTTTAAT-AACTGGGGCAAA-
1 TCCT-TTTTAATAAACTGGGGCAAAG
*
52853882 TCCCTTTTTAATAAATTGGGGCAAAG
1 T-CCTTTTTAATAAACTGGGGCAAAG
*** *
52853908 TCCTTTTCGGTAAACTGGGGCATAG
1 TCCTTTTTAATAAACTGGGGCAAAG
*
52853933 CCCTTTT
1 TCCTTTT
52853940 AGCACTTCCT
Statistics
Matches: 48, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
24 8 0.17
25 39 0.81
26 1 0.02
ACGTcount: A:0.24, C:0.21, G:0.20, T:0.35
Consensus pattern (25 bp):
TCCTTTTTAATAAACTGGGGCAAAG
Found at i:52853912 original size:25 final size:23
Alignment explanation
Indices: 52853843--52853914 Score: 72
Period size: 25 Copynumber: 2.9 Consensus size: 23
52853833 GCTTTATCAT
**
52853843 ATAACTGGAGGCCTATCCTCTTTTA
1 ATAACTGG-GGCAAATCCT-TTTTA
52853868 ATAACTGGGGCAAATCCCTTTTTA
1 ATAACTGGGGCAAAT-CCTTTTTA
*
52853892 ATAAATTGGGGCAAAGTCCTTTT
1 AT-AACTGGGGCAAA-TCCTTTT
52853915 CGGTAAACTG
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
24 12 0.29
25 28 0.68
26 1 0.02
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.35
Consensus pattern (23 bp):
ATAACTGGGGCAAATCCTTTTTA
Found at i:52854884 original size:27 final size:27
Alignment explanation
Indices: 52854851--52855100 Score: 164
Period size: 27 Copynumber: 9.2 Consensus size: 27
52854841 TTGGTAAATC
52854851 TACAAACCAAGGGTATTTCAGTAATTT
1 TACAAACCAAGGGTATTTCAGTAATTT
** *
52854878 TGTAAACCAATGGTATTTCTA-TAATTTT
1 TACAAACCAAGGGTATTTC-AGTAA-TTT
* * *
52854906 TAGAAAGTCAAGGGTATTTCTGTAATTT
1 TACAAA-CCAAGGGTATTTCAGTAATTT
** * * **
52854934 TGTAAATCAGGGGTATTTTGGTAATTT
1 TACAAACCAAGGGTATTTCAGTAATTT
***
52854961 TACAAATTGAGGGTATTT-ATGTAATTT
1 TACAAACCAAGGGTATTTCA-GTAATTT
* * *
52854988 CACAAACCAATGGTATTTCGGTAATTT
1 TACAAACCAAGGGTATTTCAGTAATTT
* * **
52855015 TACAAACTAGGGGTATTTTGGTAATTT
1 TACAAACCAAGGGTATTTCAGTAATTT
* * ** *
52855042 TACAAACTAGGGGTATTTTGGTAATTC
1 TACAAACCAAGGGTATTTCAGTAATTT
** *
52855069 TATCCTA-CAGGGGTATTTCAGTAATTT
1 TA-CAAACCAAGGGTATTTCAGTAATTT
52855096 TACAA
1 TACAA
52855101 TCGAGGGTAA
Statistics
Matches: 177, Mismatches: 39, Indels: 15
0.77 0.17 0.06
Matches are distributed among these distances:
26 1 0.01
27 145 0.82
28 17 0.10
29 14 0.08
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.40
Consensus pattern (27 bp):
TACAAACCAAGGGTATTTCAGTAATTT
Found at i:52855056 original size:81 final size:81
Alignment explanation
Indices: 52854918--52855067 Score: 216
Period size: 81 Copynumber: 1.9 Consensus size: 81
52854908 GAAAGTCAAG
* ** *
52854918 GGTATTTCTGTAATTTTGTAAATCAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTAT-G
1 GGTATTTCGGTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAATAGAGGGTATTT-TGG
52854982 TAATTTCACAAACCAAT
65 TAATTTCACAAACCAAT
52854999 GGTATTTCGGTAATTTTACAAA-CTAGGGGTATTTTGGTAATTTTACAAACTAG-GGGTATTTTG
1 GGTATTTCGGTAATTTTACAAATC-AGGGGTATTTTGGTAATTTTACAAA-TAGAGGGTATTTTG
52855062 GTAATT
64 GTAATT
52855068 CTATCCTACA
Statistics
Matches: 62, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
80 2 0.03
81 58 0.94
82 2 0.03
ACGTcount: A:0.29, C:0.08, G:0.21, T:0.42
Consensus pattern (81 bp):
GGTATTTCGGTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAATAGAGGGTATTTTGGT
AATTTCACAAACCAAT
Found at i:52855084 original size:81 final size:81
Alignment explanation
Indices: 52854914--52855100 Score: 213
Period size: 81 Copynumber: 2.3 Consensus size: 81
52854904 TTTAGAAAGT
* ** *
52854914 CAAGGGTATTTCTGTAATTTTGTAAATCAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTT
1 CAAGGGTATTTCAGTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAATAGAGGGTATTT
52854979 ATGTAATTTCACAAAC
66 ATGTAATTTCACAAAC
* *
52854995 CAATGGTATTTCGGTAATTTTACAAA-CTAGGGGTATTTTGGTAATTTTACAAACTAG-GGGTAT
1 CAAGGGTATTTCAGTAATTTTACAAATC-AGGGGTATTTTGGTAATTTTACAAA-TAGAGGGTAT
**
52855058 TT-TGGTAA-TTCTATCCTA-
64 TTAT-GTAATTTC-A-CAAAC
*
52855076 CAGGGGTATTTCAGTAATTTTACAA
1 CAAGGGTATTTCAGTAATTTTACAA
52855101 TCGAGGGTAA
Statistics
Matches: 91, Mismatches: 10, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
80 5 0.05
81 82 0.90
82 4 0.04
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.40
Consensus pattern (81 bp):
CAAGGGTATTTCAGTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAATAGAGGGTATTT
ATGTAATTTCACAAAC
Found at i:52855209 original size:81 final size:81
Alignment explanation
Indices: 52855099--52855309 Score: 325
Period size: 81 Copynumber: 2.6 Consensus size: 81
52855089 GTAATTTTAC
* * * *
52855099 AATCGAGGGTAAAACGGTAATTTTGTAAATTGAGGGTAAAACGGTAATTTTGTAAA-CTGAGGGT
1 AATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGGTAATTATGTAAATC-GAGGGT
*
52855163 AAAATGGTAATTTTGTA
65 AAAATGGTAATTCTGTA
* *
52855180 AATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGATAATTATGTAAATCGAGGGTA
1 AATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGGTAATTATGTAAATCGAGGGTA
52855245 AAATGGTAATTCTGTA
66 AAATGGTAATTCTGTA
* *
52855261 AATCGAGAGTAAAACAGTAATTCTATAAATCGAGGGTAAAACGGTAATT
1 AATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGGTAATT
52855310 CTATCTTACA
Statistics
Matches: 118, Mismatches: 11, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
81 117 0.99
82 1 0.01
ACGTcount: A:0.40, C:0.07, G:0.24, T:0.29
Consensus pattern (81 bp):
AATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGGTAATTATGTAAATCGAGGGTA
AAATGGTAATTCTGTA
Found at i:52855313 original size:27 final size:27
Alignment explanation
Indices: 52855099--52855311 Score: 293
Period size: 27 Copynumber: 7.9 Consensus size: 27
52855089 GTAATTTTAC
*
52855099 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
52855126 AATTGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
52855153 AA-CTGAGGGTAAAATGGTAATTTTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* *
52855180 AATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
52855207 AATCGAGGGTAAAACGATAATTATGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
52855234 AATCGAGGGTAAAATGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* * *
52855261 AATCGAGAGTAAAACAGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
52855288 AATCGAGGGTAAAACGGTAATTCT
1 AATCGAGGGTAAAACGGTAATTCT
52855312 ATCTTACAAG
Statistics
Matches: 166, Mismatches: 18, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
27 165 0.99
28 1 0.01
ACGTcount: A:0.40, C:0.08, G:0.23, T:0.29
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTGTA
Found at i:52855335 original size:81 final size:81
Alignment explanation
Indices: 52855099--52855378 Score: 264
Period size: 81 Copynumber: 3.5 Consensus size: 81
52855089 GTAATTTTAC
* * * * * *
52855099 AATCGAGGGTAAAACGGTAATTTTGTAAATTGAGGGTAAAACGGTAATTT-TGTAAACTGAGGGT
1 AATCGAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAACGGTAATTTATCTAAAC-AAGGGT
*
52855163 AAAATGGTAATTTTGTA
65 AAAATAGTAATTTTGTA
** * * *
52855180 AATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGATAA-TTATGTAAATCGAGGGT
1 AATCGAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAACGGTAATTTATCTAAA-CAAGGGT
* *
52855244 AAAATGGTAATTCTGTA
65 AAAATAGTAATTTTGTA
* * *
52855261 AATCGAGAGTAAAACAGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTATCT-TACAAGAGT
1 AATCGAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAACGGTAATT-TATCTAAACAAGGGT
** **
52855325 -ATTTCAGTAATTTTACA
65 AAAAT-AGTAATTTTGTA
*** *
52855342 AATCGAGGGTATTTCAGTAATTTTATAAATCG-GGGTA
1 AATCGAGGGTAAAACAGTAATTCTATAAATCGAGGGTA
52855379 CTTTGGTAAT
Statistics
Matches: 169, Mismatches: 25, Indels: 11
0.82 0.12 0.05
Matches are distributed among these distances:
80 9 0.05
81 153 0.91
82 3 0.02
83 4 0.02
ACGTcount: A:0.39, C:0.08, G:0.22, T:0.31
Consensus pattern (81 bp):
AATCGAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAACGGTAATTTATCTAAACAAGGGTA
AAATAGTAATTTTGTA
Found at i:52855353 original size:27 final size:27
Alignment explanation
Indices: 52855323--52855417 Score: 131
Period size: 27 Copynumber: 3.6 Consensus size: 27
52855313 TCTTACAAGA
52855323 GTATTTCAGTAATTTTACAAATCGAGG
1 GTATTTCAGTAATTTTACAAATCGAGG
*
52855350 GTATTTCAGTAATTTTATAAATCG-GG
1 GTATTTCAGTAATTTTACAAATCGAGG
* *
52855376 GTACTTT-GGTAATTTTACAAGTCGAGG
1 GTA-TTTCAGTAATTTTACAAATCGAGG
*
52855403 GTATTTTAGTAATTT
1 GTATTTCAGTAATTT
52855418 GGTAAACTAA
Statistics
Matches: 60, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
26 22 0.37
27 38 0.63
ACGTcount: A:0.29, C:0.08, G:0.20, T:0.42
Consensus pattern (27 bp):
GTATTTCAGTAATTTTACAAATCGAGG
Found at i:52858457 original size:28 final size:29
Alignment explanation
Indices: 52858375--52858464 Score: 123
Period size: 29 Copynumber: 3.1 Consensus size: 29
52858365 CGAGCATGAC
*
52858375 TATAAATGTGAATTGGGCCT-GATGGGCCG
1 TATAAATGTG-ATTGGGCCTAGATGGGCCA
52858404 TATAAATGTGATTTGGGCC-AGATGGGCCA
1 TATAAATGTGA-TTGGGCCTAGATGGGCCA
*
52858433 TATAAATGTGATTGGGCCTAG-TGGGTCA
1 TATAAATGTGATTGGGCCTAGATGGGCCA
52858461 TATA
1 TATA
52858465 CAAGTATGTG
Statistics
Matches: 56, Mismatches: 2, Indels: 7
0.86 0.03 0.11
Matches are distributed among these distances:
28 18 0.32
29 38 0.68
ACGTcount: A:0.27, C:0.12, G:0.31, T:0.30
Consensus pattern (29 bp):
TATAAATGTGATTGGGCCTAGATGGGCCA
Found at i:52861134 original size:48 final size:48
Alignment explanation
Indices: 52861069--52861177 Score: 200
Period size: 48 Copynumber: 2.3 Consensus size: 48
52861059 AATGTGAAAT
*
52861069 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAA
1 ATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAA
52861117 ATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAA
1 ATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAA
*
52861165 ATATGTAGGAGAT
1 ATATGTATGAGAT
52861178 GTGTGTATAT
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
48 59 1.00
ACGTcount: A:0.35, C:0.06, G:0.28, T:0.31
Consensus pattern (48 bp):
ATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAA
Found at i:52861372 original size:37 final size:37
Alignment explanation
Indices: 52861318--52861420 Score: 161
Period size: 37 Copynumber: 2.8 Consensus size: 37
52861308 GGAAATATAT
52861318 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
52861355 TCCGGGTAAGACTCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* * *
52861392 CCCTGGTAAGACCCGATAACTACGTGTGG
1 TCCGGGTAAGACCCGATGACTACGTGTGG
52861421 GGACTATTCG
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 60 1.00
ACGTcount: A:0.23, C:0.20, G:0.31, T:0.25
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:52866032 original size:27 final size:29
Alignment explanation
Indices: 52865990--52866077 Score: 101
Period size: 28 Copynumber: 3.1 Consensus size: 29
52865980 CGAGCATGAC
* *
52865990 TATAAATGTGAATTGGGTCTGAT-GG-CA
1 TATAAATGTGAATTGGGCCTAATGGGCCA
**
52866017 TATAAATGTGGTTTGGGCCTAATGGGCCA
1 TATAAATGTGAATTGGGCCTAATGGGCCA
* *
52866046 TATAAATAT-AATTGGGCCTAGTGGGCCA
1 TATAAATGTGAATTGGGCCTAATGGGCCA
52866074 TATA
1 TATA
52866078 TAGGTATGTG
Statistics
Matches: 51, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
27 19 0.37
28 22 0.43
29 10 0.20
ACGTcount: A:0.30, C:0.11, G:0.27, T:0.32
Consensus pattern (29 bp):
TATAAATGTGAATTGGGCCTAATGGGCCA
Found at i:52873820 original size:26 final size:26
Alignment explanation
Indices: 52873791--52873868 Score: 93
Period size: 26 Copynumber: 3.0 Consensus size: 26
52873781 ACACCAATAT
*
52873791 CGCAGCAAAGCTGCCAGTATCAGTAA
1 CGCAGCAAAGCTGCCAGTAACAGTAA
52873817 CGCAGCAAAGCTGCCAGTAACAGTATA
1 CGCAGCAAAGCTGCCAGTAACAGTA-A
* ** **
52873844 TGTGGCAAAGCCACCAGTAACAGTA
1 CGCAGCAAAGCTGCCAGTAACAGTA
52873869 TATGTGGCAA
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
26 24 0.53
27 21 0.47
ACGTcount: A:0.36, C:0.26, G:0.23, T:0.15
Consensus pattern (26 bp):
CGCAGCAAAGCTGCCAGTAACAGTAA
Found at i:52873860 original size:27 final size:27
Alignment explanation
Indices: 52873821--52873889 Score: 111
Period size: 27 Copynumber: 2.6 Consensus size: 27
52873811 CAGTAACGCA
**
52873821 GCAAAGCTGCCAGTAACAGTATATGTG
1 GCAAAGCCACCAGTAACAGTATATGTG
52873848 GCAAAGCCACCAGTAACAGTATATGTG
1 GCAAAGCCACCAGTAACAGTATATGTG
*
52873875 GCAAAGCCACTAGTA
1 GCAAAGCCACCAGTA
52873890 TAGTACACTT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.19
Consensus pattern (27 bp):
GCAAAGCCACCAGTAACAGTATATGTG
Found at i:52878427 original size:40 final size:39
Alignment explanation
Indices: 52878391--52878496 Score: 151
Period size: 38 Copynumber: 2.7 Consensus size: 39
52878381 ATATCCGGAC
*
52878391 TAAGATCCGAAGGCGTTCGTGCGAGTTAATAAATCCGGGT
1 TAAG-TCCGAAGGCATTCGTGCGAGTTAATAAATCCGGGT
* * *
52878431 TAAG-CCGAAGGCATTTGTGCGAGTTACTAAACCCGGGT
1 TAAGTCCGAAGGCATTCGTGCGAGTTAATAAATCCGGGT
52878469 TAAGTCCCGAAGGCATTCGTGCGAGTTA
1 TAAGT-CCGAAGGCATTCGTGCGAGTTA
52878497 CTATAACCGG
Statistics
Matches: 59, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
38 34 0.58
40 25 0.42
ACGTcount: A:0.26, C:0.20, G:0.29, T:0.25
Consensus pattern (39 bp):
TAAGTCCGAAGGCATTCGTGCGAGTTAATAAATCCGGGT
Found at i:52878497 original size:40 final size:40
Alignment explanation
Indices: 52878397--52878534 Score: 174
Period size: 40 Copynumber: 3.5 Consensus size: 40
52878387 GGACTAAGAT
* * *
52878397 CCGAAGGCGTTCGTGCGAGTTAATAAATCCGGGTTAAG--
1 CCGAAGGCATTCGTGCGAGTTACTAAACCCGGGTTAAGTC
*
52878435 CCGAAGGCATTTGTGCGAGTTACTAAACCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAACCCGGGTTAAGTC
* *
52878475 CCGAAGGCATTCGTGCGAGTTACTATAACCGGGGTT-TGTC
1 CCGAAGGCATTCGTGCGAGTTACTA-AACCCGGGTTAAGTC
* *
52878515 CCGAAGGCATTTGAGCGAGT
1 CCGAAGGCATTCGTGCGAGT
52878535 CGTTATATCC
Statistics
Matches: 88, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
38 34 0.39
40 45 0.51
41 9 0.10
ACGTcount: A:0.24, C:0.21, G:0.30, T:0.25
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTACTAAACCCGGGTTAAGTC
Found at i:52886399 original size:40 final size:39
Alignment explanation
Indices: 52886363--52886469 Score: 151
Period size: 39 Copynumber: 2.7 Consensus size: 39
52886353 ATATCCGGAC
*
52886363 TAAGATCCGAAGGCGTTCGTGCGAGTTAATAAATCCGGGT
1 TAAG-TCCGAAGGCATTCGTGCGAGTTAATAAATCCGGGT
* * * *
52886403 TAAGCCCGAAGGCATTTGTGCGAGTTACTAAACCCGGGT
1 TAAGTCCGAAGGCATTCGTGCGAGTTAATAAATCCGGGT
52886442 TAAGTCCCGAAGGCATTCGTGCGAGTTA
1 TAAGT-CCGAAGGCATTCGTGCGAGTTA
52886470 CTATAACCGG
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
39 34 0.58
40 25 0.42
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.24
Consensus pattern (39 bp):
TAAGTCCGAAGGCATTCGTGCGAGTTAATAAATCCGGGT
Found at i:52886470 original size:40 final size:40
Alignment explanation
Indices: 52886369--52886498 Score: 183
Period size: 40 Copynumber: 3.3 Consensus size: 40
52886359 GGACTAAGAT
* * *
52886369 CCGAAGGCGTTCGTGCGAGTTAATAAATCCGGGTTAAG-C
1 CCGAAGGCATTCGTGCGAGTTACTAAACCCGGGTTAAGTC
*
52886408 CCGAAGGCATTTGTGCGAGTTACTAAACCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAACCCGGGTTAAGTC
* *
52886448 CCGAAGGCATTCGTGCGAGTTACTATAACCGGGGTT-TGTC
1 CCGAAGGCATTCGTGCGAGTTACTA-AACCCGGGTTAAGTC
52886488 CCGAAGGCATT
1 CCGAAGGCATT
52886499 TGAGCAGTCG
Statistics
Matches: 82, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
39 34 0.41
40 39 0.48
41 9 0.11
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTACTAAACCCGGGTTAAGTC
Found at i:52889102 original size:19 final size:19
Alignment explanation
Indices: 52889066--52889104 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
52889056 CCTAAAATTC
52889066 TCACTATTTTACACACTTA
1 TCACTATTTTACACACTTA
*
52889085 TCACTTATTTTGCA-ACTTA
1 TCAC-TATTTTACACACTTA
52889104 T
1 T
52889105 GCAAAATAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.28, C:0.23, G:0.03, T:0.46
Consensus pattern (19 bp):
TCACTATTTTACACACTTA
Found at i:52893338 original size:2 final size:2
Alignment explanation
Indices: 52893331--52893357 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
52893321 AATAATTATA
52893331 AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC A
52893358 GAGAGAGAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:52893362 original size:2 final size:2
Alignment explanation
Indices: 52893357--52893385 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
52893347 ACACACACAC
52893357 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
52893386 ATTATACAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:52899418 original size:13 final size:13
Alignment explanation
Indices: 52899400--52899428 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
52899390 CAGCTAACCT
52899400 ACATAATTAAATA
1 ACATAATTAAATA
52899413 ACATAATTAAATA
1 ACATAATTAAATA
52899426 ACA
1 ACA
52899429 CACAACTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.62, C:0.10, G:0.00, T:0.28
Consensus pattern (13 bp):
ACATAATTAAATA
Found at i:52899688 original size:10 final size:10
Alignment explanation
Indices: 52899659--52899701 Score: 52
Period size: 10 Copynumber: 4.2 Consensus size: 10
52899649 GAATGAGTTG
52899659 AAACGAGCT-
1 AAACGAGCTC
52899668 AAATTCGAGCTC
1 AAA--CGAGCTC
*
52899680 AAACGAGCTA
1 AAACGAGCTC
52899690 AAACGAGCTC
1 AAACGAGCTC
52899700 AA
1 AA
52899702 GTGAGCTGAT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
9 3 0.10
10 17 0.59
11 6 0.21
12 3 0.10
ACGTcount: A:0.44, C:0.23, G:0.19, T:0.14
Consensus pattern (10 bp):
AAACGAGCTC
Found at i:52899708 original size:20 final size:21
Alignment explanation
Indices: 52899659--52899701 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
52899649 GAATGAGTTG
*
52899659 AAACGAGCTAAATTCGAGCTC
1 AAACGAGCTAAATACGAGCTC
52899680 AAACGAGCTAAA-ACGAGCTC
1 AAACGAGCTAAATACGAGCTC
52899700 AA
1 AA
52899702 GTGAGCTGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 9 0.43
21 12 0.57
ACGTcount: A:0.44, C:0.23, G:0.19, T:0.14
Consensus pattern (21 bp):
AAACGAGCTAAATACGAGCTC
Found at i:52900837 original size:21 final size:21
Alignment explanation
Indices: 52900790--52900841 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 21
52900780 CTCTTTTTCT
* **
52900790 TTTCTCTTTCAATTTCTTTTC
1 TTTCTTTTTCAATTTCTTGCC
* *
52900811 TCTCTTTTTCATTTTCTTGCC
1 TTTCTTTTTCAATTTCTTGCC
52900832 TTTCTTTTTC
1 TTTCTTTTTC
52900842 CACTCTCATT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.06, C:0.25, G:0.02, T:0.67
Consensus pattern (21 bp):
TTTCTTTTTCAATTTCTTGCC
Found at i:52903395 original size:40 final size:40
Alignment explanation
Indices: 52903350--52903516 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
52903340 CGGAATATAA
52903350 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
52903390 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
52903430 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
52903470 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
52903509 CCGGATAT
1 CCGGATAT
52903517 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:52903500 original size:80 final size:79
Alignment explanation
Indices: 52903350--52903516 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
52903340 CGGAATATAA
* *
52903350 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATG
1 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
52903415 CCTTCGGGCCTTAGC
66 CCTTCGGG-CTTAGC
* * ** *
52903430 CCGGATATAACCAC-TAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA
*
52903492 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
52903509 CCGGATAT
1 CCGGATAT
52903517 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 18 0.24
80 58 0.76
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (79 bp):
CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:52904366 original size:17 final size:19
Alignment explanation
Indices: 52904343--52904388 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
52904333 AAGAAGCATG
52904343 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
52904361 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
52904379 AATCATGCTC
1 AATCATGCTC
52904389 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:52907336 original size:13 final size:13
Alignment explanation
Indices: 52907318--52907346 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
52907308 CGGCTAACCT
52907318 ACATAATTAAATA
1 ACATAATTAAATA
52907331 ACATAATTAAATA
1 ACATAATTAAATA
52907344 ACA
1 ACA
52907347 CACAACTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.62, C:0.10, G:0.00, T:0.28
Consensus pattern (13 bp):
ACATAATTAAATA
Found at i:52908483 original size:46 final size:43
Alignment explanation
Indices: 52908351--52908483 Score: 142
Period size: 47 Copynumber: 2.9 Consensus size: 43
52908341 ACTCTTAGCT
52908351 GATGCATGTCCCAGACATGTCTTACACTAGAACTCGTC-TCAATGCC
1 GATGCATGTCCCAGACATGTCTTACACTAG--CTC-TCAT-AATGCC
* * *
52908397 GACGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAATGTGTCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCATAA--TG-CC
*
52908445 GATGCATGTCCCAGACATGTCTTACACTAGCTCACATAA
1 GATGCATGTCCCAGACATGTCTTACACTAGCTCTCATAA
52908484 GTGACCCAAA
Statistics
Matches: 74, Mismatches: 7, Indels: 12
0.80 0.08 0.13
Matches are distributed among these distances:
45 4 0.05
46 26 0.35
47 28 0.38
48 16 0.22
ACGTcount: A:0.26, C:0.30, G:0.17, T:0.26
Consensus pattern (43 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCTCTCATAATGCC
Found at i:52912709 original size:24 final size:25
Alignment explanation
Indices: 52912659--52912714 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 25
52912649 TACCCCCAAC
*
52912659 AAAATTTTGAAAACATTACCCTGGT
1 AAAATTTTGAAAACATTACCCTAGT
* * *
52912684 AAAATTTTGGAAA-TTTTCCCTAGT
1 AAAATTTTGAAAACATTACCCTAGT
52912708 AAAATTT
1 AAAATTT
52912715 CAAAAATATA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
24 15 0.56
25 12 0.44
ACGTcount: A:0.39, C:0.12, G:0.11, T:0.38
Consensus pattern (25 bp):
AAAATTTTGAAAACATTACCCTAGT
Found at i:52913470 original size:18 final size:18
Alignment explanation
Indices: 52913447--52913510 Score: 119
Period size: 18 Copynumber: 3.6 Consensus size: 18
52913437 TGTGTTACAT
52913447 ACATAATATATAAAAATA
1 ACATAATATATAAAAATA
52913465 ACATAATATATAAAAATA
1 ACATAATATATAAAAATA
*
52913483 ACATAATATATAAGAATA
1 ACATAATATATAAAAATA
52913501 ACATAATATA
1 ACATAATATA
52913511 AAATATTACA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
18 45 1.00
ACGTcount: A:0.64, C:0.06, G:0.02, T:0.28
Consensus pattern (18 bp):
ACATAATATATAAAAATA
Found at i:52926247 original size:39 final size:39
Alignment explanation
Indices: 52926193--52926312 Score: 186
Period size: 39 Copynumber: 3.1 Consensus size: 39
52926183 CCGGGTACCA
* *
52926193 TTCCAGCACGTAGCCTACGGACTTCAAGTCCGGATATAT
1 TTCCAGCACATAGCCTGCGGACTTCAAGTCCGGATATAT
*
52926232 TTCCAGCACATAGCCTGTGGACTTCAAGTCCGGATATAT
1 TTCCAGCACATAGCCTGCGGACTTCAAGTCCGGATATAT
* * *
52926271 TTCCAGCATATAGCCTGCGGACCTCATGTCCGGATATAT
1 TTCCAGCACATAGCCTGCGGACTTCAAGTCCGGATATAT
52926310 TTC
1 TTC
52926313 AAATACCATG
Statistics
Matches: 74, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 74 1.00
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (39 bp):
TTCCAGCACATAGCCTGCGGACTTCAAGTCCGGATATAT
Found at i:52926875 original size:2 final size:2
Alignment explanation
Indices: 52926864--52926904 Score: 57
Period size: 2 Copynumber: 21.0 Consensus size: 2
52926854 CGAATTTATC
* *
52926864 TA TA TA -A TA TA TA TA CA TA TA TA TA TA TA TA TA TA TG TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
52926905 ACCGAATGTC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.46
Consensus pattern (2 bp):
TA
Found at i:52927635 original size:21 final size:21
Alignment explanation
Indices: 52927610--52927650 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
52927600 CGGCAATTTC
52927610 AATTCATACAT-TTCAACCATG
1 AATTC-TACATATTCAACCATG
*
52927631 AATTCTACTTATTCAACCAT
1 AATTCTACATATTCAACCAT
52927651 CATTTAAGCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.37, C:0.24, G:0.02, T:0.37
Consensus pattern (21 bp):
AATTCTACATATTCAACCATG
Found at i:52929560 original size:21 final size:21
Alignment explanation
Indices: 52929534--52929587 Score: 99
Period size: 21 Copynumber: 2.6 Consensus size: 21
52929524 TGCAGTGCAC
52929534 ACACGCCCGTGTAGTCAAGAG
1 ACACGCCCGTGTAGTCAAGAG
*
52929555 ACACGCCCGTGTAGTCAAGGG
1 ACACGCCCGTGTAGTCAAGAG
52929576 ACACGCCCGTGT
1 ACACGCCCGTGT
52929588 GACTATAGGA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.24, C:0.31, G:0.30, T:0.15
Consensus pattern (21 bp):
ACACGCCCGTGTAGTCAAGAG
Found at i:52930709 original size:45 final size:45
Alignment explanation
Indices: 52930608--52930782 Score: 252
Period size: 45 Copynumber: 4.0 Consensus size: 45
52930598 CTAAATTCAT
* *
52930608 TCACCGGCATT-TCA-CCTGCTAGGCTC-AAAGCTCG-ATA-TCATT
1 TCACCGGCATTAT-AGCCTGCTAGGCTCAAAAGCCCGAATAGT-ATC
*
52930650 TCACCGGCATTATAGCCTGCTAGGCTCAAAAGCCTGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAAGCCCGAATAGTATC
*
52930695 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAAGCCCGAATAGTATC
*
52930740 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTA
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAAGCCCGAATAGTA
52930783 CTGTACGATA
Statistics
Matches: 123, Mismatches: 5, Indels: 7
0.91 0.04 0.05
Matches are distributed among these distances:
42 12 0.10
43 13 0.11
44 6 0.05
45 91 0.74
46 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.24
Consensus pattern (45 bp):
TCACCGGCATTATAGCCTGCTAGGCTCAAAAGCCCGAATAGTATC
Found at i:52933922 original size:40 final size:40
Alignment explanation
Indices: 52933878--52934068 Score: 276
Period size: 40 Copynumber: 4.8 Consensus size: 40
52933868 GGCTAAGCTT
* *
52933878 CGAAGGCATTTATGCTAG-TGATTATATCCGGGTTAAGACC
1 CGAAGGCATTTGTGCGAGTTG-TTATATCCGGGTTAAGACC
*
52933918 CGAAGGCATTTGTGCGAGTTGCTATATCCGGGTTAAGACC
1 CGAAGGCATTTGTGCGAGTTGTTATATCCGGGTTAAGACC
*
52933958 CGAAGGCATTTGTGCGAGTTGTTATATCCGGGCTAAGACC
1 CGAAGGCATTTGTGCGAGTTGTTATATCCGGGTTAAGACC
* *
52933998 CGAAGGCATTTGTGCGAGTTGCTATACCCGGGTTAAGACC
1 CGAAGGCATTTGTGCGAGTTGTTATATCCGGGTTAAGACC
* ** *
52934038 CGAAGGCAATTGTGCTTGTGGTTATATCCGG
1 CGAAGGCATTTGTGCGAGTTGTTATATCCGG
52934069 CTAAATTCCG
Statistics
Matches: 136, Mismatches: 14, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
40 134 0.99
41 2 0.01
ACGTcount: A:0.23, C:0.19, G:0.29, T:0.28
Consensus pattern (40 bp):
CGAAGGCATTTGTGCGAGTTGTTATATCCGGGTTAAGACC
Found at i:52933998 original size:80 final size:80
Alignment explanation
Indices: 52933861--52934072 Score: 304
Period size: 80 Copynumber: 2.7 Consensus size: 80
52933851 CAATTGAATG
* * * *
52933861 ATACCCGGGCTAAG-CTTCGAAGGCATTTATGCTAG-TGATTATATCCGGGTTAAGACCCGAAGG
1 ATACCCGGGTTAAGAC-CCGAAGGCATTTGTGCTAGTTG-TTATATCCGGGCTAAGACCCGAAGG
52933924 CATTTGTGCGAGTTGCT
64 CATTTGTGCGAGTTGCT
* *
52933941 ATATCCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGCA
1 ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTGTTATATCCGGGCTAAGACCCGAAGGCA
52934006 TTTGTGCGAGTTGCT
66 TTTGTGCGAGTTGCT
* * *
52934021 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATATCC-GGCTAA
1 ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTGTTATATCCGGGCTAA
52934073 ATTCCGAAGA
Statistics
Matches: 119, Mismatches: 11, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
79 6 0.05
80 110 0.92
81 3 0.03
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (80 bp):
ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTGTTATATCCGGGCTAAGACCCGAAGGCA
TTTGTGCGAGTTGCT
Found at i:52937826 original size:2 final size:2
Alignment explanation
Indices: 52937819--52937849 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
52937809 ATATAGCCGA
*
52937819 AT AT AT AT AT AT AT AT AT AT AT AT CT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
52937850 GCTCATCAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:52940557 original size:65 final size:65
Alignment explanation
Indices: 52940450--52940582 Score: 239
Period size: 65 Copynumber: 2.0 Consensus size: 65
52940440 CCATGAAAAT
* * *
52940450 TTAGCTAGCCCTTGTTGTAGAGAAATTTTTCATATTGGTGATTTTGTGAAAAATGGACTAAATTG
1 TTAGCTAGCCCTTGTTGCAGAGAAATTTTGCATATTGATGATTTTGTGAAAAATGGACTAAATTG
52940515 TTAGCTAGCCCTTGTTGCAGAGAAATTTTGCATATTGATGATTTTGTGAAAAATGGACTAAATTG
1 TTAGCTAGCCCTTGTTGCAGAGAAATTTTGCATATTGATGATTTTGTGAAAAATGGACTAAATTG
52940580 TTA
1 TTA
52940583 AAGTGTGAAA
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
65 65 1.00
ACGTcount: A:0.30, C:0.10, G:0.21, T:0.39
Consensus pattern (65 bp):
TTAGCTAGCCCTTGTTGCAGAGAAATTTTGCATATTGATGATTTTGTGAAAAATGGACTAAATTG
Found at i:52945835 original size:40 final size:40
Alignment explanation
Indices: 52945791--52945972 Score: 208
Period size: 39 Copynumber: 4.6 Consensus size: 40
52945781 GTTCAAAACA
* * ** * *
52945791 CCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATCATAACTCGCACAATTG
* * *
52945831 CCTTCGGGACTTAACCCGGATATCACAACTCGCATAATTG
1 CCTTCGGGACTTAGCCCGGATATCATAACTCGCACAATTG
* *
52945871 CCTTCGGG-CTTAGCCCGGGTATCATAGCTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGATATCATAACTCGCACAATTG
* * * *
52945910 CCTTCGGG-CTTAGCTCGGGTATCATAGCTCGCACAATTT
1 CCTTCGGGACTTAGCCCGGATATCATAACTCGCACAATTG
52945949 CCTTCGGG-CTTAGCCCGGATATCA
1 CCTTCGGGACTTAGCCCGGATATCA
52945973 CTCGAACATT
Statistics
Matches: 124, Mismatches: 18, Indels: 1
0.87 0.13 0.01
Matches are distributed among these distances:
39 85 0.69
40 39 0.31
ACGTcount: A:0.21, C:0.30, G:0.23, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATCATAACTCGCACAATTG
Found at i:52952433 original size:21 final size:21
Alignment explanation
Indices: 52952390--52952443 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
52952380 TGCAGGGCAC
**
52952390 ACACACCCGTGTGGTCAAGGG
1 ACACACCCGTGTGACCAAGGG
52952411 ACACACCCGTGTGACCATA-GG
1 ACACACCCGTGTGACCA-AGGG
*
52952432 ACACACCTGTGT
1 ACACACCCGTGT
52952444 TGCAGGTCGT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 28 0.97
22 1 0.03
ACGTcount: A:0.26, C:0.31, G:0.26, T:0.17
Consensus pattern (21 bp):
ACACACCCGTGTGACCAAGGG
Found at i:52964515 original size:14 final size:14
Alignment explanation
Indices: 52964498--52964524 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
52964488 AAGAACATCC
52964498 GTTAATAAACACTA
1 GTTAATAAACACTA
52964512 GTTAATAAACACT
1 GTTAATAAACACT
52964525 GGAACTGTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.48, C:0.15, G:0.07, T:0.30
Consensus pattern (14 bp):
GTTAATAAACACTA
Found at i:52971153 original size:34 final size:34
Alignment explanation
Indices: 52971080--52971161 Score: 105
Period size: 34 Copynumber: 2.4 Consensus size: 34
52971070 TATACTGAAT
* * *
52971080 TGGGCTAAGGCCCACACTGATATTGTTGCCGTAA
1 TGGGCTAAGGCCCACACTAATATTGCTACCGTAA
52971114 TGGGCTAAGGCCCACACTAATATTGCTACCGTTAA
1 TGGGCTAAGGCCCACACTAATATTGCTACCG-TAA
52971149 -GGGCTTAA-GCCCA
1 TGGGC-TAAGGCCCA
52971162 GACTGTTTGC
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
34 37 0.86
35 6 0.14
ACGTcount: A:0.26, C:0.26, G:0.24, T:0.24
Consensus pattern (34 bp):
TGGGCTAAGGCCCACACTAATATTGCTACCGTAA
Found at i:52975554 original size:28 final size:28
Alignment explanation
Indices: 52975485--52975585 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
52975475 GACAAGATTG
* * * *
52975485 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
52975515 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
52975543 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
52975572 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
52975586 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:52982169 original size:22 final size:21
Alignment explanation
Indices: 52982139--52982194 Score: 71
Period size: 22 Copynumber: 2.7 Consensus size: 21
52982129 GGAAGAATAA
52982139 AGAAATGAAAAAAAACAAAAG
1 AGAAATGAAAAAAAACAAAAG
*
52982160 AGAATATGAAGAAAAACAAAA-
1 AGAA-ATGAAAAAAAACAAAAG
*
52982181 A-AAAAGAAAAAAAA
1 AGAAATGAAAAAAAA
52982195 AAGTGTTCAT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
19 9 0.29
20 2 0.06
21 5 0.16
22 15 0.48
ACGTcount: A:0.79, C:0.04, G:0.12, T:0.05
Consensus pattern (21 bp):
AGAAATGAAAAAAAACAAAAG
Found at i:52982993 original size:30 final size:29
Alignment explanation
Indices: 52982921--52982985 Score: 103
Period size: 29 Copynumber: 2.2 Consensus size: 29
52982911 TGACGAGATT
* *
52982921 GGCACTAAGTGTGCATGCTGGAAATATAT
1 GGCACTAAGTGTGCATGCTGGAAAAATAC
52982950 GGCACTAAGTGTGCATGCTGGAAAAAATAC
1 GGCACTAAGTGTGCATGCTGG-AAAAATAC
52982980 GGCACT
1 GGCACT
52982986 GGGTGTGCGA
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
29 21 0.64
30 12 0.36
ACGTcount: A:0.32, C:0.17, G:0.28, T:0.23
Consensus pattern (29 bp):
GGCACTAAGTGTGCATGCTGGAAAAATAC
Found at i:52990557 original size:45 final size:45
Alignment explanation
Indices: 52990508--52990675 Score: 173
Period size: 45 Copynumber: 3.7 Consensus size: 45
52990498 GTTGAGCATC
*
52990508 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG-T
1 CGAACTCGTTGAGTTGAGT-CGAGTTCACTTATGGATGCAAACGCT
* * * *
52990553 CGAACTCGTTGAGTTGAGTCGAGTTC-GTGA--GATGTAACTAGGCAT
1 CGAACTCGTTGAGTTGAGTCGAGTTCACTTATGGATGCAA--ACGC-T
* * *
52990598 CCGAACTCGTTGAGTTGAGTCGAGTTCATTTATGGATGCGAACGCC
1 -CGAACTCGTTGAGTTGAGTCGAGTTCACTTATGGATGCAAACGCT
*
52990644 CGAGCTCGTTGAGTTGAGTCTGAGTTCACTTA
1 CGAACTCGTTGAGTTGAGTC-GAGTTCACTTA
52990676 GGGGCGGGTT
Statistics
Matches: 102, Mismatches: 12, Indels: 17
0.78 0.09 0.13
Matches are distributed among these distances:
41 6 0.06
43 4 0.04
44 7 0.07
45 39 0.38
46 36 0.35
47 5 0.05
49 5 0.05
ACGTcount: A:0.23, C:0.18, G:0.29, T:0.30
Consensus pattern (45 bp):
CGAACTCGTTGAGTTGAGTCGAGTTCACTTATGGATGCAAACGCT
Found at i:52990658 original size:91 final size:92
Alignment explanation
Indices: 52990503--52990670 Score: 268
Period size: 91 Copynumber: 1.8 Consensus size: 92
52990493 GGATGGTTGA
* *
52990503 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCGAACTCGTTGAGTT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCGAACTCGTTGAGTT
52990568 GAGTC-GAGTTCGTGAGATGTAACTAG
66 GAGTCTGAGTTCGTGAGATGTAACTAG
* * *
52990594 GCATCCGAACTCGTTGAGTTGAGT-CGAGTTCATTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG-CCGAACTCGTTGAGT
52990658 TGAGTCTGAGTTC
65 TGAGTCTGAGTTC
52990671 ACTTAGGGGC
Statistics
Matches: 70, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
90 21 0.30
91 43 0.61
92 6 0.09
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.30
Consensus pattern (92 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCGAACTCGTTGAGTT
GAGTCTGAGTTCGTGAGATGTAACTAG
Found at i:52990937 original size:19 final size:20
Alignment explanation
Indices: 52990900--52990937 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
52990890 ATAAGGTGGT
52990900 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
52990920 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
52990938 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:52996099 original size:19 final size:19
Alignment explanation
Indices: 52996075--52996133 Score: 56
Period size: 19 Copynumber: 3.3 Consensus size: 19
52996065 AAATTTAGTG
52996075 AATTAATTGAATCATGTTA
1 AATTAATTGAATCATGTTA
* *
52996094 AATTAA---AAT-TTAG-TG
1 AATTAATTGAATCAT-GTTA
52996109 AATTAATTGAATCATGTTA
1 AATTAATTGAATCATGTTA
52996128 AATTAA
1 AATTAA
52996134 ATGATTAAGG
Statistics
Matches: 30, Mismatches: 4, Indels: 12
0.65 0.09 0.26
Matches are distributed among these distances:
15 8 0.27
16 4 0.13
18 4 0.13
19 14 0.47
ACGTcount: A:0.46, C:0.03, G:0.10, T:0.41
Consensus pattern (19 bp):
AATTAATTGAATCATGTTA
Found at i:52996103 original size:34 final size:34
Alignment explanation
Indices: 52996065--52996134 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
52996055 TTTGAAAGTT
52996065 AAATTTAGTGAATTAATTGAATCATGTTAAATTA
1 AAATTTAGTGAATTAATTGAATCATGTTAAATTA
52996099 AAATTTAGTGAATTAATTGAATCATGTTAAATTA
1 AAATTTAGTGAATTAATTGAATCATGTTAAATTA
52996133 AA
1 AA
52996135 TGATTAAGGT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.46, C:0.03, G:0.11, T:0.40
Consensus pattern (34 bp):
AAATTTAGTGAATTAATTGAATCATGTTAAATTA
Found at i:52996594 original size:68 final size:64
Alignment explanation
Indices: 52996522--52996729 Score: 199
Period size: 67 Copynumber: 3.2 Consensus size: 64
52996512 CATCATGTGT
*
52996522 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATG
1 ACAAGAGAGCTAC--GAGA-TAT-ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATG
52996587 TAG
62 TAG
* * * * * *
52996590 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGCT-CCAGGTGAAGGACACCATG
1 ACAAGAGAGCTACGAGATATATGTAGCTAGGTCGCATGGGT-GATACTA--TG-TGTACACCATG
52996654 TAG
62 TAG
* * * *
52996657 ACAAGAGAGCTACGAGATAAAT-TGGCTAGGTCACATGGGTGATACTGA-GTGTTCACCATGT-G
1 ACAAGAGAGCTACGAGATATATGTAGCTAGGTCGCATGGGTGATACT-ATGTGTACACCATGTAG
52996719 TACAAGAGAGC
1 -ACAAGAGAGC
52996730 CGAACTCTAT
Statistics
Matches: 116, Mismatches: 17, Indels: 19
0.76 0.11 0.12
Matches are distributed among these distances:
62 1 0.01
63 19 0.16
64 23 0.20
65 7 0.06
66 20 0.17
67 33 0.28
68 13 0.11
ACGTcount: A:0.31, C:0.17, G:0.29, T:0.22
Consensus pattern (64 bp):
ACAAGAGAGCTACGAGATATATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG
Found at i:53013700 original size:28 final size:27
Alignment explanation
Indices: 53013637--53013706 Score: 131
Period size: 27 Copynumber: 2.6 Consensus size: 27
53013627 ATAGTGAGTC
53013637 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
53013664 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
53013692 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
53013707 GTACAAATTT
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
27 23 0.55
28 19 0.45
ACGTcount: A:0.31, C:0.27, G:0.13, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:53021623 original size:28 final size:27
Alignment explanation
Indices: 53021560--53021629 Score: 131
Period size: 27 Copynumber: 2.6 Consensus size: 27
53021550 ATAGTGAGTC
53021560 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
53021587 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
53021615 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
53021630 GTACAAATTT
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
27 23 0.55
28 19 0.45
ACGTcount: A:0.31, C:0.27, G:0.13, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:53030273 original size:29 final size:29
Alignment explanation
Indices: 53030238--53030310 Score: 103
Period size: 29 Copynumber: 2.5 Consensus size: 29
53030228 GTTGTGAGAT
* *
53030238 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
53030267 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
53030296 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
53030311 ATGGTTGATT
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 35 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:53033208 original size:39 final size:39
Alignment explanation
Indices: 53033161--53033343 Score: 240
Period size: 39 Copynumber: 4.6 Consensus size: 39
53033151 AATGTTCGAG
53033161 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
53033200 TGATATCCGGGCTAAGCCCGAAGGCAATTGGGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
53033239 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* ** *
53033278 TGATATCCGGGTTAAGTCCCGAAGGCCTTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
53033318 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
53033344 GTTTGAACGA
Statistics
Matches: 126, Mismatches: 17, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
39 88 0.70
40 38 0.30
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:53039858 original size:40 final size:40
Alignment explanation
Indices: 53039763--53039911 Score: 185
Period size: 40 Copynumber: 3.8 Consensus size: 40
53039753 ATCACGATTT
* *
53039763 GCACAAATGCCTTCGGGTCTTAG-CCGGATTTAACAACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATTTAACTACTA
*
53039802 GCACGAATGCCTTCGGGTCTTAGCCCGGATTTAACTACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATTTAACTACTA
* * * * *
53039842 GCATAAATGTCC-TCGGGACTTAGCCCGGATGTAGCCACTA
1 GCACAAATG-CCTTCGGGTCTTAGCCCGGATTTAACTACTA
* *
53039882 GCACAATTGCCTTCGGGTCTTAACCCGGAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT
53039912 ATAATTTCCA
Statistics
Matches: 94, Mismatches: 13, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
39 24 0.26
40 68 0.72
41 2 0.02
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATTTAACTACTA
Found at i:53039909 original size:80 final size:80
Alignment explanation
Indices: 53039731--53039951 Score: 214
Period size: 80 Copynumber: 2.8 Consensus size: 80
53039721 CCGCACCAAG
* * * * * * * * *
53039731 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAATG-CCTTCGGGTCTTAG-CCGGATTT
1 GCCTTCGGGTCTTAACCCGGATATAACTACTAGCATAAATGTCC-TCGGGACTTAGCCCGGATGT
*
53039794 AACAACTTGCACGAAT
65 AACAACTAGCACGAAT
* *
53039810 GCCTTCGGGTCTTAGCCCGGATTTAACTACTAGCATAAATGTCCTCGGGACTTAGCCCGGATGTA
1 GCCTTCGGGTCTTAACCCGGATATAACTACTAGCATAAATGTCCTCGGGACTTAGCCCGGATGTA
* *
53039875 GCCACTAGCAC-AATT
66 ACAACTAGCACGAA-T
* * * * * * *
53039890 GCCTTCGGGTCTTAACCCGGATATAATTTCCAGCATTAACGTCTTCGGGGCTTAGCCCGGAT
1 GCCTTCGGGTCTTAACCCGGATATAACTACTAGCATAAATGTCCTCGGGACTTAGCCCGGAT
53039952 ATCATTCAAT
Statistics
Matches: 116, Mismatches: 23, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
79 44 0.38
80 72 0.62
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.27
Consensus pattern (80 bp):
GCCTTCGGGTCTTAACCCGGATATAACTACTAGCATAAATGTCCTCGGGACTTAGCCCGGATGTA
ACAACTAGCACGAAT
Found at i:53052045 original size:39 final size:39
Alignment explanation
Indices: 53051998--53052179 Score: 238
Period size: 39 Copynumber: 4.6 Consensus size: 39
53051988 AATGTTCGAG
53051998 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
53052037 TGATATCCGGGCTAAGCCCGAAGGCAATTGGGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
53052076 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * ** *
53052115 TGATATCCGGGTTAAGTCCGAAGGCCTTTGTGCGGGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
** * *
53052154 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
53052180 GTTTGAACGA
Statistics
Matches: 123, Mismatches: 19, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
39 115 0.93
40 8 0.07
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:53056848 original size:77 final size:79
Alignment explanation
Indices: 53056753--53056903 Score: 261
Period size: 77 Copynumber: 1.9 Consensus size: 79
53056743 AATGTTCGAG
53056753 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATTGTGATATCCGGGCTAAG-CCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATTGTGATATCCGGGCTAAGTCCCGAAGGC
53056817 AATTGTGCGAGCTA
66 AATTGTGCGAGCTA
* *
53056831 TGATATCC-GGCTAAGCCCGAAGGCAATTGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATTGTGATATCCGGGCTAAGTCCCGAAGGC
*
53056895 ATTTGTGCG
66 AATTGTGCG
53056904 GGTTACCATA
Statistics
Matches: 69, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
77 44 0.64
78 25 0.36
ACGTcount: A:0.24, C:0.21, G:0.31, T:0.24
Consensus pattern (79 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATTGTGATATCCGGGCTAAGTCCCGAAGGC
AATTGTGCGAGCTA
Found at i:53056852 original size:38 final size:39
Alignment explanation
Indices: 53056752--53056903 Score: 243
Period size: 39 Copynumber: 3.9 Consensus size: 39
53056742 GAATGTTCGA
*
53056752 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
53056791 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
53056830 ATGATATCC-GGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
* *
53056868 GTGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 GTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
53056904 GGTTACCATA
Statistics
Matches: 104, Mismatches: 7, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
38 36 0.35
39 51 0.49
40 17 0.16
ACGTcount: A:0.24, C:0.21, G:0.32, T:0.24
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
Found at i:53056919 original size:40 final size:39
Alignment explanation
Indices: 53056753--53056933 Score: 238
Period size: 39 Copynumber: 4.6 Consensus size: 39
53056743 AATGTTCGAG
* *
53056753 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
53056792 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
53056831 TGATATCC-GGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
53056869 TGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
53056909 CCATAACCGGGCTATGTCCCGAAGG
1 TGATATCCGGGCTAAG-CCCGAAGG
53056934 TGTTTTGAAC
Statistics
Matches: 126, Mismatches: 14, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
38 36 0.29
39 50 0.40
40 40 0.32
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:53064913 original size:40 final size:39
Alignment explanation
Indices: 53064763--53064915 Score: 252
Period size: 39 Copynumber: 3.9 Consensus size: 39
53064753 GAATGTTCGA
*
53064763 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
53064802 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
53064841 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
* *
53064880 GTGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 GTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
53064916 GGTTACCATA
Statistics
Matches: 106, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 89 0.84
40 17 0.16
ACGTcount: A:0.24, C:0.21, G:0.32, T:0.24
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
Found at i:53064931 original size:40 final size:39
Alignment explanation
Indices: 53064764--53064946 Score: 249
Period size: 39 Copynumber: 4.6 Consensus size: 39
53064754 AATGTTCGAG
* *
53064764 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
53064803 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
53064842 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
53064881 TGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
53064921 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
53064947 GTTTGAACGA
Statistics
Matches: 129, Mismatches: 14, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
39 88 0.68
40 41 0.32
ACGTcount: A:0.23, C:0.22, G:0.31, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:53064973 original size:79 final size:78
Alignment explanation
Indices: 53064770--53064984 Score: 218
Period size: 78 Copynumber: 2.7 Consensus size: 78
53064760 CGAGTGATAT
** * * *
53064770 CCGGGCTAAGCCCGAAGGCAATTGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTG
1 CCGGGCTAAGCCCGAAGGCAATTGAACGAGTAGTGATATCCGGGTTAAGCCCGAAGGCAATTGTG
** *
53064835 CGAGCTATGATAT
66 CGAGCTACCATAA
** * *
53064848 CCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATTTGT
1 CCGGGCTAAGCCCGAAGGCAATTGAACGAGTAGTGATATCCGGGTTAAG-CCCGAAGGCAATTGT
* *
53064913 GCGGGTTACCATAA
65 GCGAGCTACCATAA
* ** *
53064927 CCGGGCTATGTCCCGAAGGCGTTTGAACGAGTAGCT-ATATCC-GGTTAAACTCCGAAGG
1 CCGGGCTAAG-CCCGAAGGCAATTGAACGAGTAG-TGATATCCGGGTTAAGC-CCGAAGG
53064985 TATGTGATTC
Statistics
Matches: 118, Mismatches: 15, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
78 48 0.41
79 45 0.38
80 24 0.20
81 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (78 bp):
CCGGGCTAAGCCCGAAGGCAATTGAACGAGTAGTGATATCCGGGTTAAGCCCGAAGGCAATTGTG
CGAGCTACCATAA
Found at i:53073516 original size:20 final size:20
Alignment explanation
Indices: 53073491--53073535 Score: 74
Period size: 20 Copynumber: 2.2 Consensus size: 20
53073481 GTTTTGATAT
53073491 ACATGAT-TGATATGATATGC
1 ACATGATATG-TATGATATGC
53073511 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
53073531 ACATG
1 ACATG
53073536 TTGTATTCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 22 0.92
21 2 0.08
ACGTcount: A:0.36, C:0.11, G:0.20, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:53073717 original size:24 final size:25
Alignment explanation
Indices: 53073585--53073717 Score: 182
Period size: 25 Copynumber: 5.4 Consensus size: 25
53073575 AGGAAGTGCA
* *
53073585 AAAAGGGC-TATGCCCCAGTTTACC
1 AAAAGGGCTTTTGCCCCAGTTTATC
*
53073609 GAAAAGGGCTTTTGCCCCAGTTTATT
1 -AAAAGGGCTTTTGCCCCAGTTTATC
53073635 AAAAGGGCTTTTGCCCCAGTTTATC
1 AAAAGGGCTTTTGCCCCAGTTTATC
53073660 AAAAGGGCTTTTGCCCCAGTTTATC
1 AAAAGGGCTTTTGCCCCAGTTTATC
* *
53073685 AAAAGGGC-TTTACCCCAG-TTATT
1 AAAAGGGCTTTTGCCCCAGTTTATC
53073708 AAAAGAGGCT
1 AAAAG-GGCT
53073718 AGGCCTCTAG
Statistics
Matches: 99, Mismatches: 6, Indels: 6
0.89 0.05 0.05
Matches are distributed among these distances:
23 9 0.09
24 12 0.12
25 65 0.66
26 13 0.13
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.29
Consensus pattern (25 bp):
AAAAGGGCTTTTGCCCCAGTTTATC
Found at i:53073964 original size:31 final size:31
Alignment explanation
Indices: 53073926--53073989 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
53073916 CATTTACAGT
53073926 AAAGGCTTCGACCCAGTAATATGAAATATGA
1 AAAGGCTTCGACCCAGTAATATGAAATATGA
* **
53073957 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGACCCAGTAATATGAAATATGA
53073988 AA
1 AA
53073990 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGACCCAGTAATATGAAATATGA
Found at i:53081316 original size:20 final size:20
Alignment explanation
Indices: 53081291--53081336 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
53081281 TAAGCTCGGT
53081291 TGAGCTCAAACAAGTTGAAA
1 TGAGCTCAAACAAGTTGAAA
** *
53081311 TGAGCTCAAATGAGTTGAAT
1 TGAGCTCAAACAAGTTGAAA
53081331 TGAGCT
1 TGAGCT
53081337 GGACGAAGCT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.37, C:0.13, G:0.24, T:0.26
Consensus pattern (20 bp):
TGAGCTCAAACAAGTTGAAA
Found at i:53081889 original size:15 final size:15
Alignment explanation
Indices: 53081846--53081889 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
53081836 GTGTTGTAAA
53081846 TTGGATTTCCTTATC
1 TTGGATTTCCTTATC
* * **
53081861 ATGGTTTTTTTTATC
1 TTGGATTTCCTTATC
53081876 TTGGATTTCCTTAT
1 TTGGATTTCCTTAT
53081890 TCTGGCCTTC
Statistics
Matches: 21, Mismatches: 8, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.14, C:0.14, G:0.14, T:0.59
Consensus pattern (15 bp):
TTGGATTTCCTTATC
Found at i:53088839 original size:44 final size:44
Alignment explanation
Indices: 53088774--53088900 Score: 145
Period size: 44 Copynumber: 2.9 Consensus size: 44
53088764 GTTGACATTA
* *
53088774 ATCTGAGATATCGTGTAAGACCGTGTCTGGGACACAGGCCTCG-
1 ATCTGAGATTTCGTGTAAGACCGTGTCTGGGACACAGGCATCGT
* *
53088817 ATTTGAGATTTACGTGTAAGACCAG-GTCTGGGACATAGGCATCGT
1 ATCTGAGATTT-CGTGTAAGACC-GTGTCTGGGACACAGGCATCGT
* * *
53088862 ATCT--GATTTCATGTAAGACCCTGTCTGGGACAGAGGCAT
1 ATCTGAGATTTCGTGTAAGACCGTGTCTGGGACACAGGCAT
53088901 TGATACTAAA
Statistics
Matches: 72, Mismatches: 8, Indels: 9
0.81 0.09 0.10
Matches are distributed among these distances:
42 26 0.36
43 14 0.19
44 28 0.39
45 4 0.06
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (44 bp):
ATCTGAGATTTCGTGTAAGACCGTGTCTGGGACACAGGCATCGT
Found at i:53088888 original size:42 final size:43
Alignment explanation
Indices: 53088787--53088925 Score: 131
Period size: 42 Copynumber: 3.2 Consensus size: 43
53088777 TGAGATATCG
* * * *
53088787 TGTAAGACCGTGTCTGGGACACAGGCCTCGATTTGAGATTTACG
1 TGTAAGACCATGTCTGGGACACAGGCATCGATCT-AGATTTACA
* *
53088831 TGTAAGACCAGGTCTGGGACATAGGCATCGTATCT-GATTT-CA
1 TGTAAGACCATGTCTGGGACACAGGCATCG-ATCTAGATTTACA
* * * * *
53088873 TGTAAGACCCTGTCTGGGACAGAGGCATTGATACTA-AATTACC
1 TGTAAGACCATGTCTGGGACACAGGCATCGAT-CTAGATTTACA
53088916 TGTAAGACCA
1 TGTAAGACCA
53088926 CGTCCAGGAC
Statistics
Matches: 78, Mismatches: 13, Indels: 9
0.78 0.13 0.09
Matches are distributed among these distances:
41 2 0.03
42 32 0.41
43 15 0.19
44 26 0.33
45 3 0.04
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.27
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACACAGGCATCGATCTAGATTTACA
Found at i:53095590 original size:43 final size:42
Alignment explanation
Indices: 53095494--53095599 Score: 113
Period size: 42 Copynumber: 2.5 Consensus size: 42
53095484 GACTTATGAT
**
53095494 TTACATGTAAGACCATGTCTAGGACATTGGCATCGTATTTGA
1 TTACATGTAAGACCATGTCTAGGACAGAGGCATCGTATTTGA
*** * * *
53095536 TTTTGTGTAAGACCCTGTCTGGGATAGAGGCATCGGTATTTGA
1 TTACATGTAAGACCATGTCTAGGACAGAGGCATC-GTATTTGA
* *
53095579 TTACATCTAAGACCACGTCTA
1 TTACATGTAAGACCATGTCTA
53095600 AGACGTTGGC
Statistics
Matches: 48, Mismatches: 15, Indels: 1
0.75 0.23 0.02
Matches are distributed among these distances:
42 26 0.54
43 22 0.46
ACGTcount: A:0.26, C:0.18, G:0.23, T:0.33
Consensus pattern (42 bp):
TTACATGTAAGACCATGTCTAGGACAGAGGCATCGTATTTGA
Found at i:53099480 original size:13 final size:14
Alignment explanation
Indices: 53099459--53099491 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
53099449 TTTATTAATG
53099459 AAATATATTAAA-AT
1 AAAT-TATTAAATAT
53099473 AAATTATTAAATAT
1 AAATTATTAAATAT
53099487 AAATT
1 AAATT
53099492 TATATTTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 7 0.39
14 11 0.61
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (14 bp):
AAATTATTAAATAT
Found at i:53104937 original size:46 final size:46
Alignment explanation
Indices: 53104880--53105095 Score: 230
Period size: 46 Copynumber: 4.7 Consensus size: 46
53104870 GCTGTTATGT
* *
53104880 GAGCCAGTGTAAGACATGTTTGGGACATGCATCGACATTAAGATGA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGACATTAAGATGA
* * **
53104926 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGACATTAAGATG-A
* *
53104973 -AGCCAGTGTAAGACATGTCTGGGACATGCATCG--GTTAAGA-GA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGACATTAAGATGA
* *
53105015 TGTGCTAGTGTAAGACATGTC-GAGGACATGCATCAGCACGGA-T-ATATGA
1 -GAGCTAGTGTAAGACATGTCTG-GGACATGCATC-G-AC--ATTAAGATGA
53105064 GAGCTAGTGTAAGACATGTCTGGGACATGCAT
1 GAGCTAGTGTAAGACATGTCTGGGACATGCAT
53105096 TGGCACGGAT
Statistics
Matches: 143, Mismatches: 15, Indels: 22
0.79 0.08 0.12
Matches are distributed among these distances:
42 1 0.01
43 2 0.01
44 32 0.22
45 1 0.01
46 71 0.50
47 1 0.01
48 31 0.22
49 4 0.03
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.24
Consensus pattern (46 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATCGACATTAAGATGA
Found at i:53105073 original size:92 final size:93
Alignment explanation
Indices: 53104875--53105095 Score: 283
Period size: 92 Copynumber: 2.4 Consensus size: 93
53104865 ACATTGCTGT
* *
53104875 TATGTGAGCCAGTGTAAGACATGTTTGGGACATGCATCGACATTAAGATGAGAGCTAGTGTAAGA
1 TATGAGAGCCAGTGTAAGACATGTCTGGGACATGCATCGA-ATTAAGATGAGAGCTAGTGTAAGA
*
53104940 CATGTCTGGGACATGCATCGGCCTCGAGA
65 CATGTCTGGGACATGCATCAGCCTCGAGA
* * *
53104969 TGT-A-AGCCAGTGTAAGACATGTCTGGGACATGCATCG-GTTAAGA-GATGTGCTAGTGTAAGA
1 TATGAGAGCCAGTGTAAGACATGTCTGGGACATGCATCGAATTAAGATGA-GAGCTAGTGTAAGA
* *
53105030 CATGTC-GAGGACATGCATCAGCAC-GGATA
65 CATGTCTG-GGACATGCATCAGC-CTCGAGA
*
53105059 TATGAGAGCTAGTGTAAGACATGTCTGGGACATGCAT
1 TATGAGAGCCAGTGTAAGACATGTCTGGGACATGCAT
53105096 TGGCACGGAT
Statistics
Matches: 112, Mismatches: 10, Indels: 12
0.84 0.07 0.09
Matches are distributed among these distances:
89 3 0.03
90 43 0.38
91 2 0.02
92 62 0.55
94 2 0.02
ACGTcount: A:0.29, C:0.16, G:0.30, T:0.24
Consensus pattern (93 bp):
TATGAGAGCCAGTGTAAGACATGTCTGGGACATGCATCGAATTAAGATGAGAGCTAGTGTAAGAC
ATGTCTGGGACATGCATCAGCCTCGAGA
Found at i:53105079 original size:48 final size:47
Alignment explanation
Indices: 53104875--53105149 Score: 224
Period size: 46 Copynumber: 5.9 Consensus size: 47
53104865 ACATTGCTGT
* * * * ***
53104875 TATGTGAGCCAGTGTAAGACATGTTTGGGACATGCATCGACATTA-A
1 TATGAGAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCGGATA
* * *
53104921 GATGAGAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGA
1 TATGAGAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCC-GGATA
* * **
53104969 TGT-A-AGCCAGTGTAAGACATGTCTGGGACATGCATCGG--TTA-A
1 TATGAGAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCGGATA
* * *
53105011 GA-GATGTGCTAGTGTAAGACATGTC-GAGGACATGCATCAGCACGGATA
1 TATGA-GAGCTAGTGTAAGACATGTCTG-GGACATGCATCGGC-CGGATA
*
53105059 TATGAGAGCTAGTGTAAGACATGTCTGGGACATGCATTGGCACGGATA
1 TATGAGAGCTAGTGTAAGACATGTCTGGGACATGCATCGGC-CGGATA
* * * * *
53105107 TATGAGAGCCAATGTAAGACCATATCTAGGATATGGCATCGGC
1 TATGAGAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
53105150 ATCGATATGT
Statistics
Matches: 185, Mismatches: 30, Indels: 24
0.77 0.13 0.10
Matches are distributed among these distances:
42 2 0.01
43 2 0.01
44 29 0.16
46 69 0.37
47 3 0.02
48 59 0.32
49 14 0.08
50 7 0.04
ACGTcount: A:0.30, C:0.17, G:0.29, T:0.24
Consensus pattern (47 bp):
TATGAGAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCGGATA
Found at i:53107826 original size:28 final size:28
Alignment explanation
Indices: 53107781--53107849 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
53107771 ATTTAAAACC
*
53107781 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
53107808 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
53107836 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
53107850 TGATCTTACC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:53109587 original size:19 final size:18
Alignment explanation
Indices: 53109550--53109593 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
53109540 ATACATACAG
53109550 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
53109567 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
53109586 TACTAATT
1 TAATAATT
53109594 AAAATTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:53112022 original size:28 final size:28
Alignment explanation
Indices: 53111976--53112044 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
53111966 TTTAAAACCC
*
53111976 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
53112003 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
53112031 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
53112045 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:53113873 original size:19 final size:18
Alignment explanation
Indices: 53113836--53113879 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
53113826 ATACATACAG
53113836 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
53113853 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
53113872 TACTAATT
1 TAATAATT
53113880 AAAATTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:53120898 original size:24 final size:24
Alignment explanation
Indices: 53120871--53120947 Score: 84
Period size: 24 Copynumber: 3.2 Consensus size: 24
53120861 AGTGATTTGT
53120871 GGAGAGAATCATGGAGAGGATTAG
1 GGAGAGAATCATGGAGAGGATTAG
* * *
53120895 GGAGAAAATCAAGGAGAGGATTAT
1 GGAGAGAATCATGGAGAGGATTAG
**
53120919 GGAGAG-ATTGTAGGAGAGGATTAAG
1 GGAGAGAATCAT-GGAGAGGATT-AG
53120944 GGAG
1 GGAG
53120948 TTTGAGGGGG
Statistics
Matches: 43, Mismatches: 8, Indels: 3
0.80 0.15 0.06
Matches are distributed among these distances:
23 2 0.05
24 36 0.84
25 5 0.12
ACGTcount: A:0.39, C:0.03, G:0.42, T:0.17
Consensus pattern (24 bp):
GGAGAGAATCATGGAGAGGATTAG
Found at i:53122588 original size:17 final size:17
Alignment explanation
Indices: 53122559--53122592 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
53122549 CAAACAGGGT
53122559 TTTACAAGTAATAACGA
1 TTTACAAGTAATAACGA
53122576 TTTA-AAGTGAATAACGA
1 TTTACAAGT-AATAACGA
53122593 ATAGCTAGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.47, C:0.09, G:0.15, T:0.29
Consensus pattern (17 bp):
TTTACAAGTAATAACGA
Found at i:53124506 original size:64 final size:64
Alignment explanation
Indices: 53124425--53124605 Score: 172
Period size: 67 Copynumber: 2.8 Consensus size: 64
53124415 AGACATTATG
* *
53124425 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
53124489 ATGTAGCTAGGTCGCATGCGTGGCT-CCAGGTGAAGGACACCATGTAGACAAGAGAGCTATGAGA
1 ATGTAGCTAGGTCGCATGGGT-GATACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGA
53124553 TAA
62 TAA
* * * *
53124556 AT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAG
1 ATGTAGCTAGGTCGCATGGGTGATACT-ATGTGTACACCATGTAG-ACAAGAG
53124606 GCCGAACTAT
Statistics
Matches: 94, Mismatches: 16, Indels: 15
0.75 0.13 0.12
Matches are distributed among these distances:
62 1 0.01
63 16 0.17
64 23 0.24
65 4 0.04
66 18 0.19
67 32 0.34
ACGTcount: A:0.29, C:0.17, G:0.31, T:0.24
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:53125678 original size:2 final size:2
Alignment explanation
Indices: 53125671--53125701 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
53125661 TCATGACATG
53125671 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
53125702 GACTAGTCTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:53127661 original size:16 final size:15
Alignment explanation
Indices: 53127634--53127667 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
53127624 ATAACTAGTA
*
53127634 TATAATTATATTTAT
1 TATAATTATATTAAT
53127649 TATAATATATATTAAT
1 TATAAT-TATATTAAT
53127665 TAT
1 TAT
53127668 TATCAACTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TATAATTATATTAAT
Found at i:53128480 original size:25 final size:26
Alignment explanation
Indices: 53128427--53128480 Score: 76
Period size: 25 Copynumber: 2.1 Consensus size: 26
53128417 TTCTCTTAAA
*
53128427 TTTCAATTTTATTTAATTATTTAATT
1 TTTCAATTTTATTGAATTATTTAATT
53128453 TTTCAA-TTTATTGAATTA-TTAATAT
1 TTTCAATTTTATTGAATTATTTAAT-T
53128478 TTT
1 TTT
53128481 ATACTAATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 5 0.19
25 15 0.58
26 6 0.23
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (26 bp):
TTTCAATTTTATTGAATTATTTAATT
Found at i:53130412 original size:16 final size:16
Alignment explanation
Indices: 53130393--53130423 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
53130383 CTTCTTCACT
53130393 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
53130409 TACTTACTTACTTAA
1 TACTCACTTACTTAA
53130424 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:53130429 original size:20 final size:20
Alignment explanation
Indices: 53130390--53130429 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
53130380 AAACTTCTTC
* *
53130390 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
53130410 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
53130430 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:53130865 original size:55 final size:54
Alignment explanation
Indices: 53130612--53130865 Score: 242
Period size: 55 Copynumber: 4.8 Consensus size: 54
53130602 ACATTGATAC
* * *
53130612 CTTACC-ATTGCCATGACTTGTCATGGTCTTACGTGGTATCCTT---TT-GAAA
1 CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAA
* * *
53130661 CTTACC-ATTG-CATGTCTTGACATGGTCTTACATGGTAGCCTTGCCTTATG-AG
1 CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTA-GAAA
* * * *
53130713 CTCACCAA-TGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAA
1 CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCC-TTGCC-T-TAGAAA
* * * *
53130768 CTTATCAA-TGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAA
1 CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAA
* *
53130821 CCTTACCAATTGCCATGCCTTGGCATGGTCTTACACGGTATCCTT
1 -CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTT
53130866 AAACACTAAT
Statistics
Matches: 167, Mismatches: 24, Indels: 22
0.78 0.11 0.10
Matches are distributed among these distances:
48 28 0.17
49 10 0.06
51 2 0.01
52 10 0.06
53 36 0.22
54 10 0.06
55 69 0.41
56 2 0.01
ACGTcount: A:0.21, C:0.25, G:0.19, T:0.35
Consensus pattern (54 bp):
CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAA
Found at i:53137979 original size:16 final size:16
Alignment explanation
Indices: 53137960--53137990 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
53137950 CTTCTTCACT
53137960 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
53137976 TACTTACTTACTTAA
1 TACTCACTTACTTAA
53137991 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Done.