Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr3
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: 36364294
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2168405 characters in sequence are not A, C, G, or T
File 30 of 91
Found at i:10367854 original size:43 final size:43
Alignment explanation
Indices: 10367795--10367924 Score: 156
Period size: 43 Copynumber: 3.0 Consensus size: 43
10367785 TTGTGTGATA
* * ** * *
10367795 ATGATGACCCAACTATGTGCGGTGTGGGAGTGCATATGAGTTG
1 ATGATGACCCAGCTATGTGCAGTGTGAAAGTGCACATGAGCTG
10367838 ATGATGACCCAGCTATGTGCAGTGTGAAAGTGCACATGAGCTG
1 ATGATGACCCAGCTATGTGCAGTGTGAAAGTGCACATGAGCTG
* *
10367881 ATGATGACCC-GACTATGTGCTAGT-AGAGAGTGCACATGAGCTG
1 ATGATGACCCAG-CTATGTGC-AGTGTGAAAGTGCACATGAGCTG
10367924 A
1 A
10367925 GTCTGGCGGG
Statistics
Matches: 77, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
42 1 0.01
43 73 0.95
44 3 0.04
ACGTcount: A:0.27, C:0.17, G:0.32, T:0.25
Consensus pattern (43 bp):
ATGATGACCCAGCTATGTGCAGTGTGAAAGTGCACATGAGCTG
Found at i:10373135 original size:156 final size:155
Alignment explanation
Indices: 10372851--10373162 Score: 570
Period size: 156 Copynumber: 2.0 Consensus size: 155
10372841 CTTAGCTACA
* * *
10372851 TCTCTCTTAAATCCTTTCTACCAATACACCTTTTTCAAATCTTGATACATCTTTGTAGCCCCTGG
1 TCTCTCTTAAATCCTTCCCACCAATACACCTCTTTCAAATCTTGATACATCTTTGTAGCCCCTGG
10372916 ATGTACCACATAAGCTGCCATGTGAGCTTCCTCCAATATTTCTCTCCTCAACCCGTCACCATCAG
66 ATGTACCACATAAGCTGCCATGTGAGCTTCCTCCAATATTTCTCTCCTCAACCCGTCACCATCAG
10372981 GCACATAAAGTCTGGTTCCATACCT
131 GCACATAAAGTCTGGTTCCATACCT
*
10373006 NTCTCTCTTAAGTCCTTCCCACCAATACACCTCTTTCAAATCTTGATACATCTTTGTAGCCCCTG
1 -TCTCTCTTAAATCCTTCCCACCAATACACCTCTTTCAAATCTTGATACATCTTTGTAGCCCCTG
10373071 GATGTACCACATAAGCTGCCATGTGAGCTTCCTCCAATATTTCTCTCCTCAACCCGTCACCATCA
65 GATGTACCACATAAGCTGCCATGTGAGCTTCCTCCAATATTTCTCTCCTCAACCCGTCACCATCA
*
10373136 GGCACATAAAGTTTGGTTCCATACCT
130 GGCACATAAAGTCTGGTTCCATACCT
10373162 T
1 T
10373163 AACACTCCAT
Statistics
Matches: 151, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
155 1 0.01
156 150 0.99
ACGTcount: A:0.24, C:0.32, G:0.11, T:0.32
Consensus pattern (155 bp):
TCTCTCTTAAATCCTTCCCACCAATACACCTCTTTCAAATCTTGATACATCTTTGTAGCCCCTGG
ATGTACCACATAAGCTGCCATGTGAGCTTCCTCCAATATTTCTCTCCTCAACCCGTCACCATCAG
GCACATAAAGTCTGGTTCCATACCT
Found at i:10382158 original size:21 final size:21
Alignment explanation
Indices: 10382132--10382174 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
10382122 ACTACAAATA
*
10382132 TCATTTTCCAACAGCTTCTTC
1 TCATTTTCCAACAACTTCTTC
* *
10382153 TCATTTTCTAGCAACTTCTTC
1 TCATTTTCCAACAACTTCTTC
10382174 T
1 T
10382175 TCTTCTTCCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.19, C:0.30, G:0.05, T:0.47
Consensus pattern (21 bp):
TCATTTTCCAACAACTTCTTC
Found at i:10383023 original size:43 final size:43
Alignment explanation
Indices: 10382957--10383086 Score: 172
Period size: 43 Copynumber: 3.0 Consensus size: 43
10382947 TTGTGTGATA
* *
10382957 ATGATGACCGAGCTATGTACGGTGTGGGAGTGCACATGAGCTG
1 ATGATGACCCAGCTATGTGCGGTGTGGGAGTGCACATGAGCTG
* *
10383000 ATGATGACCTAGCTTTGTGCGGTGTGGGAGTGCACATGAGCTG
1 ATGATGACCCAGCTATGTGCGGTGTGGGAGTGCACATGAGCTG
* ** *
10383043 ATGATGACCCGGCTATGTGCGAG-CAGGGAGTGCACATAAGCTG
1 ATGATGACCCAGCTATGTGCG-GTGTGGGAGTGCACATGAGCTG
10383086 A
1 A
10383087 GTGTGGAGGG
Statistics
Matches: 77, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
43 76 0.99
44 1 0.01
ACGTcount: A:0.23, C:0.18, G:0.36, T:0.23
Consensus pattern (43 bp):
ATGATGACCCAGCTATGTGCGGTGTGGGAGTGCACATGAGCTG
Found at i:10383460 original size:15 final size:15
Alignment explanation
Indices: 10383440--10383470 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
10383430 TTTCACTTTG
10383440 ATAAAGATTTTGACC
1 ATAAAGATTTTGACC
10383455 ATAAAGATTTTGACC
1 ATAAAGATTTTGACC
10383470 A
1 A
10383471 CCTTCTAGTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.42, C:0.13, G:0.13, T:0.32
Consensus pattern (15 bp):
ATAAAGATTTTGACC
Found at i:10387680 original size:17 final size:16
Alignment explanation
Indices: 10387653--10387685 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
10387643 AAATGGGGTC
10387653 AGCAACCAAACAGAAT
1 AGCAACCAAACAGAAT
10387669 AGCAAGCCAAACAGAAT
1 AGCAA-CCAAACAGAAT
10387686 GTTTCCCGCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.55, C:0.24, G:0.15, T:0.06
Consensus pattern (16 bp):
AGCAACCAAACAGAAT
Found at i:10388110 original size:38 final size:38
Alignment explanation
Indices: 10388068--10388156 Score: 160
Period size: 38 Copynumber: 2.3 Consensus size: 38
10388058 TCATTGTGTT
* *
10388068 CATCCCTCTACATCGTATATAGCTAATACCACCATGTG
1 CATCCCCCCACATCGTATATAGCTAATACCACCATGTG
10388106 CATCCCCCCACATCGTATATAGCTAATACCACCATGTG
1 CATCCCCCCACATCGTATATAGCTAATACCACCATGTG
10388144 CATCCCCCCACAT
1 CATCCCCCCACAT
10388157 GGTGCACAAG
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
38 49 1.00
ACGTcount: A:0.28, C:0.38, G:0.09, T:0.25
Consensus pattern (38 bp):
CATCCCCCCACATCGTATATAGCTAATACCACCATGTG
Found at i:10388178 original size:38 final size:38
Alignment explanation
Indices: 10388024--10388156 Score: 144
Period size: 38 Copynumber: 3.5 Consensus size: 38
10388014 TCACCCAGCT
* * *
10388024 CATGTGCATCCCCCCACATCGTGCACAGCTAGAGT--CAT
1 CATGTGCATCCCCCCACATCGTACATAGCTA-A-TACCAC
** * * * *
10388062 TGTGTTCATCCCTCTACATCGTATATAGCTAATACCAC
1 CATGTGCATCCCCCCACATCGTACATAGCTAATACCAC
*
10388100 CATGTGCATCCCCCCACATCGTATATAGCTAATACCAC
1 CATGTGCATCCCCCCACATCGTACATAGCTAATACCAC
10388138 CATGTGCATCCCCCCACAT
1 CATGTGCATCCCCCCACAT
10388157 GGTGCACAAG
Statistics
Matches: 79, Mismatches: 14, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
36 1 0.01
37 1 0.01
38 77 0.97
ACGTcount: A:0.26, C:0.36, G:0.13, T:0.26
Consensus pattern (38 bp):
CATGTGCATCCCCCCACATCGTACATAGCTAATACCAC
Found at i:10389798 original size:26 final size:26
Alignment explanation
Indices: 10389769--10389821 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
10389759 TCATTTCACA
10389769 CTTTGATTAATAACCTAATAGTGTTG
1 CTTTGATTAATAACCTAATAGTGTTG
*
10389795 CTTTGATTAATAACCTCATAGTGTTG
1 CTTTGATTAATAACCTAATAGTGTTG
10389821 C
1 C
10389822 AAAAACCCAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.42
Consensus pattern (26 bp):
CTTTGATTAATAACCTAATAGTGTTG
Found at i:10390363 original size:27 final size:26
Alignment explanation
Indices: 10390325--10390377 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 26
10390315 CCATTATTGA
10390325 TTTCAATCACATAT-CATAATCATAAAC
1 TTTCAATCACATATACAT-AT-ATAAAC
*
10390352 TTTCTATCACATATACATATATAAAC
1 TTTCAATCACATATACATATATAAAC
10390378 ATATATAAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
26 6 0.25
27 15 0.62
28 3 0.12
ACGTcount: A:0.43, C:0.21, G:0.00, T:0.36
Consensus pattern (26 bp):
TTTCAATCACATATACATATATAAAC
Found at i:10390489 original size:43 final size:43
Alignment explanation
Indices: 10390429--10390638 Score: 253
Period size: 43 Copynumber: 4.9 Consensus size: 43
10390419 AGCTAGGTCA
* *
10390429 TCATCATCGGCTTATGCGCACTCCCTACTCGTACATAGCCGGG
1 TCATCATCAGCTTATGCGCACTCCCTACTCGCACATAGCCGGG
* *
10390472 TCATCATCAGCTTATGCGCACTCCCTACTCGCGCATAGTCGGG
1 TCATCATCAGCTTATGCGCACTCCCTACTCGCACATAGCCGGG
* * * * *
10390515 TCATCATCAGCTCATGTGCACTTCC-ACATCGAACATAGCTGGG
1 TCATCATCAGCTTATGCGCACTCCCTAC-TCGCACATAGCCGGG
* *
10390558 TCATCATCGGCTTATGCGCACTCCCTACTCGCACATAACCGGG
1 TCATCATCAGCTTATGCGCACTCCCTACTCGCACATAGCCGGG
* * * *
10390601 TCATCATTAGCTCATGTGCACTCCC-ACATCGCATATAG
1 TCATCATCAGCTTATGCGCACTCCCTAC-TCGCACATAG
10390639 TTGAGTCATC
Statistics
Matches: 140, Mismatches: 24, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
42 4 0.03
43 134 0.96
44 2 0.01
ACGTcount: A:0.22, C:0.34, G:0.19, T:0.26
Consensus pattern (43 bp):
TCATCATCAGCTTATGCGCACTCCCTACTCGCACATAGCCGGG
Found at i:10390564 original size:86 final size:86
Alignment explanation
Indices: 10390429--10390651 Score: 295
Period size: 86 Copynumber: 2.6 Consensus size: 86
10390419 AGCTAGGTCA
* * * * *
10390429 TCATCATCGGCTTATGCGCACTCCCTAC-TCGTACATAGCCGGGTCATCATCAGCTTATGCGCAC
1 TCATCATCAGCTCATGTGCACTCCC-ACATCGAACATAGCTGGGTCATCATCAGCTTATGCGCAC
* **
10390493 TCCCTACTCGCGCATAGTCGGG
65 TCCCTACTCGCACATAACCGGG
* *
10390515 TCATCATCAGCTCATGTGCACTTCCACATCGAACATAGCTGGGTCATCATCGGCTTATGCGCACT
1 TCATCATCAGCTCATGTGCACTCCCACATCGAACATAGCTGGGTCATCATCAGCTTATGCGCACT
10390580 CCCTACTCGCACATAACCGGG
66 CCCTACTCGCACATAACCGGG
* * * * *
10390601 TCATCATTAGCTCATGTGCACTCCCACATCGCATATAGTTGAGTCATCATC
1 TCATCATCAGCTCATGTGCACTCCCACATCGAACATAGCTGGGTCATCATC
10390652 GTCACACAAC
Statistics
Matches: 120, Mismatches: 16, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
85 2 0.02
86 118 0.98
ACGTcount: A:0.22, C:0.33, G:0.18, T:0.26
Consensus pattern (86 bp):
TCATCATCAGCTCATGTGCACTCCCACATCGAACATAGCTGGGTCATCATCAGCTTATGCGCACT
CCCTACTCGCACATAACCGGG
Found at i:10393424 original size:43 final size:43
Alignment explanation
Indices: 10393362--10393495 Score: 166
Period size: 43 Copynumber: 3.1 Consensus size: 43
10393352 ACCATCCCAC
*
10393362 CATCATCAGCTCATGTGCACTCCCTAC-TCGCACATAA-CTGGGT
1 CATCATCAGCTCATGTGCACTCCC-ACACCGCACA-AAGCTGGGT
*
10393405 CATCATCAGCTCATCTGCACTCCCACACCGCACAAAGCTGGGT
1 CATCATCAGCTCATGTGCACTCCCACACCGCACAAAGCTGGGT
* * * * *
10393448 CATCATCAGCTCATGTGCACTGCCA-AACGCATATAGTTGGGT
1 CATCATCAGCTCATGTGCACTCCCACACCGCACAAAGCTGGGT
10393490 CATCAT
1 CATCAT
10393496 TATCACACAA
Statistics
Matches: 81, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
42 23 0.28
43 58 0.72
ACGTcount: A:0.25, C:0.34, G:0.17, T:0.24
Consensus pattern (43 bp):
CATCATCAGCTCATGTGCACTCCCACACCGCACAAAGCTGGGT
Found at i:10394329 original size:23 final size:23
Alignment explanation
Indices: 10394299--10394361 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
10394289 AGAAAGAAGA
* *
10394299 AGAAGAAGCTGCTGGGAAATGTG
1 AGAAGAAGCTACTGGAAAATGTG
10394322 AGAAGAAGCTACTGGAAAATGTG
1 AGAAGAAGCTACTGGAAAATGTG
* *
10394345 GGAAGAAGCTATTGGAA
1 AGAAGAAGCTACTGGAA
10394362 GATGATATTT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.40, C:0.08, G:0.35, T:0.17
Consensus pattern (23 bp):
AGAAGAAGCTACTGGAAAATGTG
Found at i:10398957 original size:54 final size:54
Alignment explanation
Indices: 10398894--10399052 Score: 212
Period size: 54 Copynumber: 2.9 Consensus size: 54
10398884 TCATCATGTG
*
10398894 CATCTCACCCAACTCATTTGCATCCCACCACATCGTGCACATAGCCAGACATCC
1 CATCTCACCCAACTCATGTGCATCCCACCACATCGTGCACATAGCCAGACATCC
* * * **
10398948 TATCTCACCCAGCTCATGTGCATCCCACCACATCGTGCATATATTCAGACATCC
1 CATCTCACCCAACTCATGTGCATCCCACCACATCGTGCACATAGCCAGACATCC
* * * *
10399002 CATCTCACCC-AGTGCATGTGCATCCCACCACATCATGTACATAGCCGGACA
1 CATCTCACCCAACT-CATGTGCATCCCACCACATCGTGCACATAGCCAGACA
10399053 GTATCACCAT
Statistics
Matches: 89, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
53 1 0.01
54 88 0.99
ACGTcount: A:0.27, C:0.39, G:0.12, T:0.22
Consensus pattern (54 bp):
CATCTCACCCAACTCATGTGCATCCCACCACATCGTGCACATAGCCAGACATCC
Found at i:10403863 original size:21 final size:22
Alignment explanation
Indices: 10403838--10403878 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
10403828 CCTAGGTGGA
*
10403838 AAAATTCAAGGGAA-AAGTGTG
1 AAAATTCAAGGAAACAAGTGTG
10403859 AAAATTCAAGGAAACAAGTG
1 AAAATTCAAGGAAACAAGTG
10403879 AAAAAGGTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.51, C:0.07, G:0.24, T:0.17
Consensus pattern (22 bp):
AAAATTCAAGGAAACAAGTGTG
Found at i:10403879 original size:20 final size:21
Alignment explanation
Indices: 10403838--10403882 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
10403828 CCTAGGTGGA
*
10403838 AAAATTCAAGGGAAAAGTGTG
1 AAAATTCAAGGGAAAAGAGTG
10403859 AAAATTCAA-GGAAACA-AGTG
1 AAAATTCAAGGGAAA-AGAGTG
10403879 AAAA
1 AAAA
10403883 AGGTAAGATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.56, C:0.07, G:0.22, T:0.16
Consensus pattern (21 bp):
AAAATTCAAGGGAAAAGAGTG
Found at i:10403883 original size:21 final size:20
Alignment explanation
Indices: 10403836--10403883 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 20
10403826 ACCCTAGGTG
*
10403836 GAAAAATTCAAGGGAAAAGT
1 GAAAAATTCAAGGAAAAAGT
*
10403856 GTGAAAATTCAAGGAAACAAGT
1 G-AAAAATTCAAGGAAA-AAGT
10403878 GAAAAA
1 GAAAAA
10403884 GGTAAGATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 17 0.74
22 5 0.22
ACGTcount: A:0.56, C:0.06, G:0.23, T:0.15
Consensus pattern (20 bp):
GAAAAATTCAAGGAAAAAGT
Found at i:10411220 original size:13 final size:13
Alignment explanation
Indices: 10411202--10411228 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
10411192 TGTCTTAAAA
10411202 ATGCAACGTTTTC
1 ATGCAACGTTTTC
10411215 ATGCAACGTTTTC
1 ATGCAACGTTTTC
10411228 A
1 A
10411229 AGCCAAAACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.26, C:0.22, G:0.15, T:0.37
Consensus pattern (13 bp):
ATGCAACGTTTTC
Found at i:10417032 original size:35 final size:35
Alignment explanation
Indices: 10416980--10417099 Score: 135
Period size: 35 Copynumber: 3.5 Consensus size: 35
10416970 TTCCACCAAG
* *
10416980 CTTTGACAATGGCTTTTCACAAGCTCAACCACAAC
1 CTTTAACAATGGTTTTTCACAAGCTCAACCACAAC
* * *
10417015 CTTTAACAATGGTTTTTCACGAGATCAACCAAAAC
1 CTTTAACAATGGTTTTTCACAAGCTCAACCACAAC
10417050 C---AA-AAT-GTCTTTTCA-AAGGCTCAACCACAAC
1 CTTTAACAATGGT-TTTTCACAA-GCTCAACCACAAC
10417081 CTTTAACAATGGTTTTTCA
1 CTTTAACAATGGTTTTTCA
10417100 TGGGATCAAT
Statistics
Matches: 70, Mismatches: 8, Indels: 14
0.76 0.09 0.15
Matches are distributed among these distances:
30 3 0.04
31 21 0.30
32 2 0.03
34 2 0.03
35 40 0.57
36 2 0.03
ACGTcount: A:0.34, C:0.26, G:0.11, T:0.29
Consensus pattern (35 bp):
CTTTAACAATGGTTTTTCACAAGCTCAACCACAAC
Found at i:10417115 original size:66 final size:67
Alignment explanation
Indices: 10416987--10417121 Score: 202
Period size: 66 Copynumber: 2.0 Consensus size: 67
10416977 AAGCTTTGAC
10416987 AATGGCTTTTCACAAGCTCAACCACAACCTTTAACAATGGTTTTTCACGAGATCAACCAAAA-CC
1 AATGGCTTTTCACAAGCTCAACCACAACCTTTAACAATGGTTTTTCACGAGATCAACCAAAACCC
10417051 AA
66 AA
* * * **
10417053 AATGTCTTTTCA-AAGGCTCAACCACAACCTTTAACAATGGTTTTTCATGGGATCAATGAAAACC
1 AATGGCTTTTCACAA-GCTCAACCACAACCTTTAACAATGGTTTTTCACGAGATCAACCAAAACC
10417117 CAA
65 CAA
10417120 AA
1 AA
10417122 CTAACTTTTC
Statistics
Matches: 62, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
65 2 0.03
66 54 0.87
67 6 0.10
ACGTcount: A:0.38, C:0.24, G:0.12, T:0.26
Consensus pattern (67 bp):
AATGGCTTTTCACAAGCTCAACCACAACCTTTAACAATGGTTTTTCACGAGATCAACCAAAACCC
AA
Found at i:10424387 original size:42 final size:42
Alignment explanation
Indices: 10424329--10424704 Score: 707
Period size: 42 Copynumber: 9.0 Consensus size: 42
10424319 TGTTGATTTG
*
10424329 GACCCGGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCG
1 GACCCGGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCT
10424371 GACCCGGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCT
1 GACCCGGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCT
10424413 GACCCGGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCT
1 GACCCGGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCT
10424455 GACCCGGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCT
1 GACCCGGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCT
10424497 GACCCGGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCT
1 GACCCGGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCT
*
10424539 GACCCGACTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCT
1 GACCCGGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCT
*
10424581 GACCCGGCTATGTGCGAGTAGGAGTGCATATAAGCCGTTGCT
1 GACCCGGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCT
10424623 GACCCGGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCT
1 GACCCGGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCT
* *
10424665 GACCCGGCTATGTGTGAGTGGGAGTGCACATAAGCCGTTG
1 GACCCGGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTG
10424705 TTGCCCCCAT
Statistics
Matches: 327, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 327 1.00
ACGTcount: A:0.22, C:0.23, G:0.34, T:0.22
Consensus pattern (42 bp):
GACCCGGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCT
Found at i:10424975 original size:26 final size:26
Alignment explanation
Indices: 10424939--10425000 Score: 106
Period size: 26 Copynumber: 2.4 Consensus size: 26
10424929 TTGCATATGA
10424939 GATGATGATGATGGGATGATGTGCAT
1 GATGATGATGATGGGATGATGTGCAT
*
10424965 GATGATGATGATGGGATGGTGTGCAT
1 GATGATGATGATGGGATGATGTGCAT
*
10424991 GTTGATGATG
1 GATGATGATG
10425001 GGTATATGGT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.24, C:0.03, G:0.40, T:0.32
Consensus pattern (26 bp):
GATGATGATGATGGGATGATGTGCAT
Found at i:10432303 original size:43 final size:43
Alignment explanation
Indices: 10432229--10432347 Score: 168
Period size: 43 Copynumber: 2.8 Consensus size: 43
10432219 GTAATTATGT
* * *
10432229 TGACTCGGCTATGTGCGAGTAGGGAGAGCGCATAAGCCGAG-GA
1 TGACCCGGCTATGTGCGAGTAGGGAGTGCGCATAACCCG-GTGA
*
10432272 TGACCCGGTTATGTGCGAGTAGGGAGTGCGCATAACCCGGTGA
1 TGACCCGGCTATGTGCGAGTAGGGAGTGCGCATAACCCGGTGA
* *
10432315 TGACCCAGCCATGTGCGAGTAGGGAGTGCGCAT
1 TGACCCGGCTATGTGCGAGTAGGGAGTGCGCAT
10432348 GAGCTGGTGA
Statistics
Matches: 68, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
42 1 0.01
43 67 0.99
ACGTcount: A:0.23, C:0.21, G:0.38, T:0.18
Consensus pattern (43 bp):
TGACCCGGCTATGTGCGAGTAGGGAGTGCGCATAACCCGGTGA
Found at i:10432357 original size:43 final size:43
Alignment explanation
Indices: 10432239--10432360 Score: 165
Period size: 43 Copynumber: 2.8 Consensus size: 43
10432229 TGACTCGGCT
* * **
10432239 ATGTGCGAGTAGGGAGAGCGCATAAGCCGAG-GATGACCCGGTT
1 ATGTGCGAGTAGGGAGTGCGCATAAGCCG-GTGATGACCCAGCC
*
10432282 ATGTGCGAGTAGGGAGTGCGCATAACCCGGTGATGACCCAGCC
1 ATGTGCGAGTAGGGAGTGCGCATAAGCCGGTGATGACCCAGCC
* *
10432325 ATGTGCGAGTAGGGAGTGCGCATGAGCTGGTGATGA
1 ATGTGCGAGTAGGGAGTGCGCATAAGCCGGTGATGA
10432361 TGATGATGAG
Statistics
Matches: 70, Mismatches: 8, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
42 1 0.01
43 69 0.99
ACGTcount: A:0.24, C:0.19, G:0.39, T:0.18
Consensus pattern (43 bp):
ATGTGCGAGTAGGGAGTGCGCATAAGCCGGTGATGACCCAGCC
Found at i:10432371 original size:20 final size:20
Alignment explanation
Indices: 10432346--10432408 Score: 92
Period size: 20 Copynumber: 3.2 Consensus size: 20
10432336 GGGAGTGCGC
10432346 ATGAGCTGGTGATGATGATG
1 ATGAGCTGGTGATGATGATG
*
10432366 ATGAGCTAGTGATGATGATG
1 ATGAGCTGGTGATGATGATG
* *
10432386 ATGGGTTGGTGA-GATGATG
1 ATGAGCTGGTGATGATGATG
10432405 ATGA
1 ATGA
10432409 TGGGTTTATA
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
19 10 0.26
20 28 0.74
ACGTcount: A:0.27, C:0.03, G:0.40, T:0.30
Consensus pattern (20 bp):
ATGAGCTGGTGATGATGATG
Found at i:10436785 original size:60 final size:60
Alignment explanation
Indices: 10436696--10436843 Score: 154
Period size: 60 Copynumber: 2.5 Consensus size: 60
10436686 CACTGTAGCT
* * * * * *
10436696 TCTCGTTGCAGTGAGAAACTTTCTATTTCTGGGTTGCAGTTTCGCTACAAG-GAGATTGAA
1 TCTCGATGCAGCGAGAAACTTTCTGTTTCTAGGTTACAATTTCGCTAC-AGCGAGATTGAA
* * * * * *
10436756 TTTTGCTGCAGCGAGAAACATTCTGTTTCTAGGTTATAATTTCGCTGCAGCGAGATTGAA
1 TCTCGATGCAGCGAGAAACTTTCTGTTTCTAGGTTACAATTTCGCTACAGCGAGATTGAA
* *
10436816 TCTCGATGCAGCGAAAAACTTTTTGTTT
1 TCTCGATGCAGCGAGAAACTTTCTGTTT
10436844 TGGTCTCCTA
Statistics
Matches: 70, Mismatches: 17, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
59 2 0.03
60 68 0.97
ACGTcount: A:0.24, C:0.17, G:0.23, T:0.36
Consensus pattern (60 bp):
TCTCGATGCAGCGAGAAACTTTCTGTTTCTAGGTTACAATTTCGCTACAGCGAGATTGAA
Found at i:10441549 original size:17 final size:16
Alignment explanation
Indices: 10441527--10441559 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
10441517 AGTGAGAAAC
10441527 ATTCTGTTTGGCTTGCT
1 ATTCTGTTTGG-TTGCT
10441544 ATTCTGTTTGGTTGCT
1 ATTCTGTTTGGTTGCT
10441560 GACCCCCTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.06, C:0.15, G:0.24, T:0.55
Consensus pattern (16 bp):
ATTCTGTTTGGTTGCT
Found at i:10445204 original size:35 final size:35
Alignment explanation
Indices: 10445136--10445219 Score: 98
Period size: 35 Copynumber: 2.4 Consensus size: 35
10445126 CTTACTCAGC
*
10445136 TCATGTGCACTCCCTACACGCACAAGGCGATATCA
1 TCATGTGCACTCCCTACACGCACAAGGCAATATCA
* * ***
10445171 TCATGTTCACTCCCTACACGTACATTTCAATATCA
1 TCATGTGCACTCCCTACACGCACAAGGCAATATCA
10445206 TCA-GATGCACTCCC
1 TCATG-TGCACTCCC
10445220 GACCACATCA
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
34 1 0.02
35 40 0.98
ACGTcount: A:0.27, C:0.35, G:0.12, T:0.26
Consensus pattern (35 bp):
TCATGTGCACTCCCTACACGCACAAGGCAATATCA
Found at i:10446688 original size:43 final size:43
Alignment explanation
Indices: 10446620--10446712 Score: 150
Period size: 43 Copynumber: 2.2 Consensus size: 43
10446610 CTGTGTGATA
* * *
10446620 ATGAGGACCCAGCTAAGTGCGGTGTGGGAGTGCACATGAGCTT
1 ATGATGACCCAGCTAAGTGCAGTGTGGGAGTGCACATGAGCTG
*
10446663 ATGATGACCCAGCTATGTGCAGTGTGGGAGTGCACATGAGCTG
1 ATGATGACCCAGCTAAGTGCAGTGTGGGAGTGCACATGAGCTG
10446706 ATGATGA
1 ATGATGA
10446713 TGATATTGCA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 46 1.00
ACGTcount: A:0.25, C:0.17, G:0.35, T:0.23
Consensus pattern (43 bp):
ATGATGACCCAGCTAAGTGCAGTGTGGGAGTGCACATGAGCTG
Found at i:10454889 original size:37 final size:36
Alignment explanation
Indices: 10454834--10454922 Score: 94
Period size: 37 Copynumber: 2.5 Consensus size: 36
10454824 TAATGTTGTG
* *
10454834 TGATGATG-TTGAAGTGTGCGAGTAGGGAGTGCACACA
1 TGATGATGATAGAAGTGTGCAAGTAGGGAGT--ACACA
*
10454871 TGATGATGATAGAA-TGTGCAAGTATGGAGTACACA
1 TGATGATGATAGAAGTGTGCAAGTAGGGAGTACACA
*
10454906 TGACGATGA-ATGAAGTG
1 TGATGATGATA-GAAGTG
10454923 GGGGGGTGTA
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
34 1 0.02
35 16 0.36
36 2 0.04
37 22 0.49
38 4 0.09
ACGTcount: A:0.33, C:0.09, G:0.34, T:0.25
Consensus pattern (36 bp):
TGATGATGATAGAAGTGTGCAAGTAGGGAGTACACA
Found at i:10455180 original size:22 final size:22
Alignment explanation
Indices: 10455155--10455199 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
10455145 TGTTTCTCGT
10455155 TGCAGTGAAAAAGAATTCTCAC
1 TGCAGTGAAAAAGAATTCTCAC
* *
10455177 TGCAGTGAAAATGGATTCTCAC
1 TGCAGTGAAAAAGAATTCTCAC
10455199 T
1 T
10455200 ACAGCGAGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.27
Consensus pattern (22 bp):
TGCAGTGAAAAAGAATTCTCAC
Found at i:10457112 original size:2 final size:2
Alignment explanation
Indices: 10457105--10457129 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
10457095 TGTCTATAGC
10457105 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
10457130 CACAAGTACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:10458908 original size:37 final size:37
Alignment explanation
Indices: 10458854--10458972 Score: 177
Period size: 37 Copynumber: 3.2 Consensus size: 37
10458844 CATATACATA
*
10458854 CATCATCATCATGTGTGCACTCCCTACTCGCACACTC
1 CATCATCATCATGTGTGCACTCCCTACTCTCACACTC
* *
10458891 TATTATCATCATGTGTGCACTCCCTACTCTCACACTC
1 CATCATCATCATGTGTGCACTCCCTACTCTCACACTC
*
10458928 CATCATCATCATGTGTGCACT-CCTGACTCTCACACTT
1 CATCATCATCATGTGTGCACTCCCT-ACTCTCACACTC
*
10458965 CAACATCA
1 CATCATCA
10458973 ACACCCAACA
Statistics
Matches: 74, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
36 3 0.04
37 71 0.96
ACGTcount: A:0.24, C:0.37, G:0.09, T:0.30
Consensus pattern (37 bp):
CATCATCATCATGTGTGCACTCCCTACTCTCACACTC
Found at i:10463740 original size:35 final size:35
Alignment explanation
Indices: 10463713--10463902 Score: 191
Period size: 36 Copynumber: 5.3 Consensus size: 35
10463703 CTTAATTGTT
*
10463713 TAATTTAATCAATTAGGCCCAATAACTTAATTAAA
1 TAATTTAATCAATTAAGCCCAATAACTTAATTAAA
* * *
10463748 TAATTTAATTAATTAAGCCCAACAACTTACTTAAA
1 TAATTTAATCAATTAAGCCCAATAACTTAATTAAA
* * * * * *
10463783 CAATTTTAATCAACTAGGTCCAATGACTTGATTAAA
1 TAA-TTTAATCAATTAAGCCCAATAACTTAATTAAA
* * *
10463819 CAATTTTAATCAATTAAGCCTAATGACTTAATTAAA
1 TAA-TTTAATCAATTAAGCCCAATAACTTAATTAAA
* * * *
10463855 CAATTTAATTAATTAAGCCCAACAACTTAATTACA
1 TAATTTAATCAATTAAGCCCAATAACTTAATTAAA
*
10463890 CAATTTTAATCAA
1 TAA-TTTAATCAA
10463903 GTACTTAAGA
Statistics
Matches: 129, Mismatches: 24, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
35 63 0.49
36 66 0.51
ACGTcount: A:0.44, C:0.16, G:0.05, T:0.34
Consensus pattern (35 bp):
TAATTTAATCAATTAAGCCCAATAACTTAATTAAA
Found at i:10463862 original size:71 final size:71
Alignment explanation
Indices: 10463714--10463902 Score: 236
Period size: 71 Copynumber: 2.7 Consensus size: 71
10463704 TTAATTGTTT
* * *
10463714 AATTTAATCAATTAGGCCCAATAACTTAATTAAATAA-TTTAATTAATTAAGCCCAACAACTTAC
1 AATTTAATCAATTAGGCCCAATAACTTAATTAAACAATTTTAATCAATTAAGCCCAACAACTTAA
10463778 TTAAAC
66 TTAAAC
* * * * * **
10463784 AATTTTAATCAACTAGGTCCAATGACTTGATTAAACAATTTTAATCAATTAAGCCTAATGACTTA
1 AA-TTTAATCAATTAGGCCCAATAACTTAATTAAACAATTTTAATCAATTAAGCCCAACAACTTA
10463849 ATTAAAC
65 ATTAAAC
* * * *
10463856 AATTTAATTAATTAAGCCCAACAACTTAATTACACAATTTTAATCAA
1 AATTTAATCAATTAGGCCCAATAACTTAATTAAACAATTTTAATCAA
10463903 GTACTTAAGA
Statistics
Matches: 99, Mismatches: 18, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
70 2 0.02
71 67 0.68
72 30 0.30
ACGTcount: A:0.44, C:0.16, G:0.05, T:0.34
Consensus pattern (71 bp):
AATTTAATCAATTAGGCCCAATAACTTAATTAAACAATTTTAATCAATTAAGCCCAACAACTTAA
TTAAAC
Found at i:10464698 original size:2 final size:2
Alignment explanation
Indices: 10464656--10464690 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
10464646 ACATATTTAC
10464656 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
10464691 CGTATATACC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:10464760 original size:20 final size:20
Alignment explanation
Indices: 10464703--10464765 Score: 101
Period size: 20 Copynumber: 3.2 Consensus size: 20
10464693 TATATACCCA
*
10464703 TCATCATCATC-TCACCAAC
1 TCATCATCATCATCACCAGC
*
10464722 CCATCATCATCATCACCAGC
1 TCATCATCATCATCACCAGC
10464742 TCATCATCATCATCACCAGC
1 TCATCATCATCATCACCAGC
10464762 TCAT
1 TCAT
10464766 GCGCACTCCC
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
19 10 0.25
20 30 0.75
ACGTcount: A:0.30, C:0.41, G:0.03, T:0.25
Consensus pattern (20 bp):
TCATCATCATCATCACCAGC
Found at i:10464812 original size:43 final size:43
Alignment explanation
Indices: 10464764--10464882 Score: 168
Period size: 43 Copynumber: 2.8 Consensus size: 43
10464754 TCACCAGCTC
** * *
10464764 ATGCGCACTCCCTACTCGCACATGGCTGGGTCATCAC-CGGGTT
1 ATGCGCACTCCCTACTCGCACATAACCGGGTCATC-CTCGGCTT
10464807 ATGCGCACTCCCTACTCGCACATAACCGGGTCATCCTCGGCTT
1 ATGCGCACTCCCTACTCGCACATAACCGGGTCATCCTCGGCTT
* *
10464850 ATGCGCACTCCCTACTCGCACATAGCCGAGTCA
1 ATGCGCACTCCCTACTCGCACATAACCGGGTCA
10464883 ACATAATTAC
Statistics
Matches: 69, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
42 1 0.01
43 68 0.99
ACGTcount: A:0.19, C:0.38, G:0.21, T:0.22
Consensus pattern (43 bp):
ATGCGCACTCCCTACTCGCACATAACCGGGTCATCCTCGGCTT
Found at i:10469835 original size:24 final size:23
Alignment explanation
Indices: 10469804--10469971 Score: 246
Period size: 23 Copynumber: 7.2 Consensus size: 23
10469794 TTGTTGCCAA
10469804 TTTGTGCAGAAAAATTGGAGCTG
1 TTTGTGCAGAAAAATTGGAGCTG
*
10469827 TTTGCTGCAGAAAAATTGGAGTTG
1 TTTG-TGCAGAAAAATTGGAGCTG
10469851 TTTGTGCAGAAAAATTGGAGCTG
1 TTTGTGCAGAAAAATTGGAGCTG
*
10469874 TTTGCTGCAGAAAAATTGGAGCTA
1 TTTG-TGCAGAAAAATTGGAGCTG
** *
10469898 TTTGTATAGAAAAATTGGAGTTG
1 TTTGTGCAGAAAAATTGGAGCTG
*
10469921 TTTGCTGCAAAAAAATTGGAGCTG
1 TTTG-TGCAGAAAAATTGGAGCTG
*
10469945 TTTGTGCAGAAAAATTGGAGCTA
1 TTTGTGCAGAAAAATTGGAGCTG
10469968 TTTG
1 TTTG
10469972 CTGCCAATTT
Statistics
Matches: 129, Mismatches: 13, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
23 66 0.51
24 63 0.49
ACGTcount: A:0.32, C:0.08, G:0.27, T:0.33
Consensus pattern (23 bp):
TTTGTGCAGAAAAATTGGAGCTG
Found at i:10469873 original size:47 final size:47
Alignment explanation
Indices: 10469804--10469975 Score: 281
Period size: 47 Copynumber: 3.7 Consensus size: 47
10469794 TTGTTGCCAA
*
10469804 TTTGTGCAGAAAAATTGGAGCTGTTTGCTGCAGAAAAATTGGAGTTG
1 TTTGTGCAGAAAAATTGGAGCTGTTTGCTGCAGAAAAATTGGAGCTG
*
10469851 TTTGTGCAGAAAAATTGGAGCTGTTTGCTGCAGAAAAATTGGAGCTA
1 TTTGTGCAGAAAAATTGGAGCTGTTTGCTGCAGAAAAATTGGAGCTG
** * *
10469898 TTTGTATAGAAAAATTGGAGTTGTTTGCTGCAAAAAAATTGGAGCTG
1 TTTGTGCAGAAAAATTGGAGCTGTTTGCTGCAGAAAAATTGGAGCTG
*
10469945 TTTGTGCAGAAAAATTGGAGCTATTTGCTGC
1 TTTGTGCAGAAAAATTGGAGCTGTTTGCTGC
10469976 CAATTTGTGC
Statistics
Matches: 114, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 114 1.00
ACGTcount: A:0.31, C:0.09, G:0.27, T:0.33
Consensus pattern (47 bp):
TTTGTGCAGAAAAATTGGAGCTGTTTGCTGCAGAAAAATTGGAGCTG
Found at i:10470017 original size:36 final size:34
Alignment explanation
Indices: 10469945--10470018 Score: 105
Period size: 34 Copynumber: 2.1 Consensus size: 34
10469935 ATTGGAGCTG
*
10469945 TTTGTGCAGAAAAATTGGAGCTATTTGCTGCCAA
1 TTTGTGCAGAAAAATTGGAGCCATTTGCTGCCAA
10469979 TTTGTGCAGAAAAATTGGA-CAACATTGTGCTGCCAA
1 TTTGTGCAGAAAAATTGGAGC--CATT-TGCTGCCAA
10470015 TTTG
1 TTTG
10470019 AGGGAGAAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
33 1 0.03
34 19 0.53
35 3 0.08
36 13 0.36
ACGTcount: A:0.30, C:0.15, G:0.23, T:0.32
Consensus pattern (34 bp):
TTTGTGCAGAAAAATTGGAGCCATTTGCTGCCAA
Found at i:10470149 original size:22 final size:22
Alignment explanation
Indices: 10470107--10470150 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
10470097 ACGACCCAAG
* *
10470107 GAAGAGAGGAAGCCACGGTGGT
1 GAAGAGAGGAAGACACAGTGGT
*
10470129 GAAGAGAGGAAGACATAGTGGT
1 GAAGAGAGGAAGACACAGTGGT
10470151 TAAGGGAGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.36, C:0.09, G:0.43, T:0.11
Consensus pattern (22 bp):
GAAGAGAGGAAGACACAGTGGT
Found at i:10470235 original size:28 final size:28
Alignment explanation
Indices: 10470204--10470297 Score: 140
Period size: 28 Copynumber: 3.5 Consensus size: 28
10470194 AGAAAAGAAG
*
10470204 TAGAAAATAAAAATGGGCATGGCCCAAA
1 TAGAAAATAAAAATGGGCATGACCCAAA
*
10470232 TAGAAAATAAAAAAGGGCATGACCCAAA
1 TAGAAAATAAAAATGGGCATGACCCAAA
*
10470260 TAGAAAAT--AAATAGGCATGACCC-AA
1 TAGAAAATAAAAATGGGCATGACCCAAA
10470285 TAGAAAATAAAAA
1 TAGAAAATAAAAA
10470298 AAAAATAGGT
Statistics
Matches: 60, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
25 10 0.17
26 13 0.22
27 3 0.05
28 34 0.57
ACGTcount: A:0.56, C:0.13, G:0.17, T:0.14
Consensus pattern (28 bp):
TAGAAAATAAAAATGGGCATGACCCAAA
Found at i:10470760 original size:2 final size:2
Alignment explanation
Indices: 10470753--10470781 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
10470743 ATCATTTGAA
10470753 AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10470782 GTAAAGTGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:10472096 original size:18 final size:19
Alignment explanation
Indices: 10472055--10472096 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
10472045 TCTACGCCCT
* *
10472055 ACTCGCTGAGTCGATGATT
1 ACTCACTGAGTCGATGATG
10472074 A-TCACTGAGTCGATGA-G
1 ACTCACTGAGTCGATGATG
10472091 ACTCAC
1 ACTCAC
10472097 ACCCCTTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
17 1 0.05
18 18 0.90
19 1 0.05
ACGTcount: A:0.26, C:0.24, G:0.24, T:0.26
Consensus pattern (19 bp):
ACTCACTGAGTCGATGATG
Found at i:10476566 original size:24 final size:23
Alignment explanation
Indices: 10476535--10476702 Score: 237
Period size: 23 Copynumber: 7.2 Consensus size: 23
10476525 TTGTTGCCAA
10476535 TTTGTGCAGAAAAATTGGAGCTG
1 TTTGTGCAGAAAAATTGGAGCTG
*
10476558 TTTGCTGCAGAAAAATTGGAGTTG
1 TTTG-TGCAGAAAAATTGGAGCTG
10476582 TTTGTGCAGAAAAATTGGAGCTG
1 TTTGTGCAGAAAAATTGGAGCTG
* *
10476605 TTTGCTGCAGAAAAATTGGATCTA
1 TTTG-TGCAGAAAAATTGGAGCTG
** *
10476629 TTTGTATAGAAAAATTGGAGTTG
1 TTTGTGCAGAAAAATTGGAGCTG
*
10476652 TTTGCTGCAAAAAAATTGGAGCTG
1 TTTG-TGCAGAAAAATTGGAGCTG
*
10476676 TTTGTGCAGAAAAATTGGAGCTA
1 TTTGTGCAGAAAAATTGGAGCTG
10476699 TTTG
1 TTTG
10476703 CTGCCAATTT
Statistics
Matches: 127, Mismatches: 15, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
23 65 0.51
24 62 0.49
ACGTcount: A:0.32, C:0.08, G:0.27, T:0.33
Consensus pattern (23 bp):
TTTGTGCAGAAAAATTGGAGCTG
Found at i:10476604 original size:47 final size:47
Alignment explanation
Indices: 10476535--10476706 Score: 265
Period size: 47 Copynumber: 3.7 Consensus size: 47
10476525 TTGTTGCCAA
10476535 TTTGTGCAGAAAAATTGGAGCTGTTTGCTGCAGAAAAATTGGAGTTG
1 TTTGTGCAGAAAAATTGGAGCTGTTTGCTGCAGAAAAATTGGAGTTG
*
10476582 TTTGTGCAGAAAAATTGGAGCTGTTTGCTGCAGAAAAATTGGA-TCTA
1 TTTGTGCAGAAAAATTGGAGCTGTTTGCTGCAGAAAAATTGGAGT-TG
** * * *
10476629 TTTGTATAGAAAAATTGGAGTTGTTTGCTGCAAAAAAATTGGAGCTG
1 TTTGTGCAGAAAAATTGGAGCTGTTTGCTGCAGAAAAATTGGAGTTG
*
10476676 TTTGTGCAGAAAAATTGGAGCTATTTGCTGC
1 TTTGTGCAGAAAAATTGGAGCTGTTTGCTGC
10476707 CAATTTGTGC
Statistics
Matches: 112, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
46 1 0.01
47 111 0.99
ACGTcount: A:0.31, C:0.09, G:0.27, T:0.33
Consensus pattern (47 bp):
TTTGTGCAGAAAAATTGGAGCTGTTTGCTGCAGAAAAATTGGAGTTG
Found at i:10476748 original size:36 final size:34
Alignment explanation
Indices: 10476676--10476749 Score: 105
Period size: 34 Copynumber: 2.1 Consensus size: 34
10476666 ATTGGAGCTG
*
10476676 TTTGTGCAGAAAAATTGGAGCTATTTGCTGCCAA
1 TTTGTGCAGAAAAATTGGAGCCATTTGCTGCCAA
10476710 TTTGTGCAGAAAAATTGGA-CAACATTGTGCTGCCAA
1 TTTGTGCAGAAAAATTGGAGC--CATT-TGCTGCCAA
10476746 TTTG
1 TTTG
10476750 AGGGAGAAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
33 1 0.03
34 19 0.53
35 3 0.08
36 13 0.36
ACGTcount: A:0.30, C:0.15, G:0.23, T:0.32
Consensus pattern (34 bp):
TTTGTGCAGAAAAATTGGAGCCATTTGCTGCCAA
Found at i:10476867 original size:22 final size:22
Alignment explanation
Indices: 10476839--10476882 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
10476829 ACGACCCAAG
*
10476839 GAAGAGAGGAAGCCACGGTGGT
1 GAAGAGAGGAAGACACGGTGGT
*
10476861 GAAGAGAGGAAGACATGGTGGT
1 GAAGAGAGGAAGACACGGTGGT
10476883 TAAGGGAGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.34, C:0.09, G:0.45, T:0.11
Consensus pattern (22 bp):
GAAGAGAGGAAGACACGGTGGT
Found at i:10476975 original size:28 final size:27
Alignment explanation
Indices: 10476942--10477061 Score: 149
Period size: 28 Copynumber: 4.5 Consensus size: 27
10476932 AGAAAAGAAG
*
10476942 TAGAAAATAAAAATGGGCATGGCCCAAA
1 TAGAAAATAAAAATGGGCATGACCC-AA
10476970 TAGAAAATAAAAATGGGCATGACCCAAA
1 TAGAAAATAAAAATGGGCATGACCC-AA
* *
10476998 TA-AAAA-ATAAATGGGCATGACTCAA
1 TAGAAAATAAAAATGGGCATGACCCAA
* *
10477023 TAGAAAAT--AAGTGGGCATGGCCCAA
1 TAGAAAATAAAAATGGGCATGACCCAA
10477048 TAGAAAATAAAAAT
1 TAGAAAATAAAAAT
10477062 AAATAGGTTT
Statistics
Matches: 81, Mismatches: 7, Indels: 9
0.84 0.07 0.09
Matches are distributed among these distances:
25 26 0.32
26 19 0.23
27 7 0.09
28 29 0.36
ACGTcount: A:0.52, C:0.12, G:0.19, T:0.17
Consensus pattern (27 bp):
TAGAAAATAAAAATGGGCATGACCCAA
Found at i:10477009 original size:26 final size:25
Alignment explanation
Indices: 10476952--10477058 Score: 115
Period size: 25 Copynumber: 4.1 Consensus size: 25
10476942 TAGAAAATAA
* *
10476952 AAATGGGCATGGCCCAAATAGAAAATAA
1 AAATGGGCATGACCC-AATA-AAAA-AT
10476980 AAATGGGCATGACCCAAATAAAAAAT
1 AAATGGGCATGACCC-AATAAAAAAT
* *
10477006 AAATGGGCATGACTCAATAGAAAAT
1 AAATGGGCATGACCCAATAAAAAAT
* * *
10477031 AAGTGGGCATGGCCCAATAGAAAAT
1 AAATGGGCATGACCCAATAAAAAAT
10477056 AAA
1 AAA
10477059 AATAAATAGG
Statistics
Matches: 71, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
25 33 0.46
26 15 0.21
27 4 0.06
28 19 0.27
ACGTcount: A:0.50, C:0.14, G:0.21, T:0.16
Consensus pattern (25 bp):
AAATGGGCATGACCCAATAAAAAAT
Found at i:10477062 original size:31 final size:33
Alignment explanation
Indices: 10477021--10477086 Score: 82
Period size: 31 Copynumber: 2.1 Consensus size: 33
10477011 GGCATGACTC
* *
10477021 AATAGAAAATAAGTGGGCATGGCCC-AATAGAA
1 AATAGAAAATAAATAGGCATGGCCCAAATAGAA
**
10477053 AATA-AAAATAAATAGGTTTGGCCCAAATAGAA
1 AATAGAAAATAAATAGGCATGGCCCAAATAGAA
10477085 AA
1 AA
10477087 AATGGAGAAG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
31 16 0.55
32 13 0.45
ACGTcount: A:0.52, C:0.11, G:0.20, T:0.18
Consensus pattern (33 bp):
AATAGAAAATAAATAGGCATGGCCCAAATAGAA
Found at i:10479839 original size:2 final size:2
Alignment explanation
Indices: 10479829--10479859 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
10479819 ACACATTTAC
*
10479829 AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
10479860 CGTATACTAC
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:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:10483477 original size:37 final size:36
Alignment explanation
Indices: 10483391--10483487 Score: 97
Period size: 37 Copynumber: 2.7 Consensus size: 36
10483381 AAAGGTAGAG
* ** ***
10483391 AAGTTGTGCTTGATCCTTAAAAAACATTTGGTTGTA
1 AAGTTGTGCTTAATCCTTAAAAGGCATTTGGCCATA
* *
10483427 GAGCTTGTACTTAATCCTTAAAAGGCATTTGGCCATAA
1 AAG-TTGTGCTTAATCCTTAAAAGGCATTTGGCCAT-A
10483465 AAGTTGTGCTTAATCC-TAAAAGG
1 AAGTTGTGCTTAATCCTTAAAAGG
10483488 GTAGTGACTT
Statistics
Matches: 49, Mismatches: 10, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
36 9 0.18
37 37 0.76
38 3 0.06
ACGTcount: A:0.32, C:0.14, G:0.20, T:0.34
Consensus pattern (36 bp):
AAGTTGTGCTTAATCCTTAAAAGGCATTTGGCCATA
Found at i:10484122 original size:19 final size:21
Alignment explanation
Indices: 10484079--10484128 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 21
10484069 ATTATTTATA
**
10484079 TTGATATGAGGTTTTGTTGTG
1 TTGATATGACATTTTGTTGTG
10484100 TTGATATGACATTTT-TT-TG
1 TTGATATGACATTTTGTTGTG
*
10484119 TTGATGTGAC
1 TTGATATGAC
10484129 GTTGAATTTG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
19 11 0.42
20 2 0.08
21 13 0.50
ACGTcount: A:0.18, C:0.04, G:0.26, T:0.52
Consensus pattern (21 bp):
TTGATATGACATTTTGTTGTG
Found at i:10489221 original size:19 final size:20
Alignment explanation
Indices: 10489197--10489239 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
10489187 GAGAGAGTAC
10489197 ATATTATAC-AGTC-ATACAT
1 ATATTA-ACGAGTCTATACAT
*
10489216 ATATTAACGAGTCTATATAT
1 ATATTAACGAGTCTATACAT
10489236 ATAT
1 ATAT
10489240 ATAATTGGCT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 2 0.10
19 10 0.48
20 9 0.43
ACGTcount: A:0.42, C:0.12, G:0.07, T:0.40
Consensus pattern (20 bp):
ATATTAACGAGTCTATACAT
Found at i:10497012 original size:22 final size:21
Alignment explanation
Indices: 10496987--10497027 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
10496977 AAGAAAGAAA
10496987 AGAAAGAAGACAAAGGGAAACT
1 AGAAA-AAGACAAAGGGAAACT
**
10497009 AGAAAAATTCAAAGGGAAA
1 AGAAAAAGACAAAGGGAAA
10497028 TTCGAGTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.61, C:0.07, G:0.24, T:0.07
Consensus pattern (21 bp):
AGAAAAAGACAAAGGGAAACT
Found at i:10512356 original size:44 final size:44
Alignment explanation
Indices: 10512306--10512392 Score: 174
Period size: 44 Copynumber: 2.0 Consensus size: 44
10512296 TAATAACGTG
10512306 TTATGAAATATAACTTGAAAGAACAACTATAAGAGAAATATAAA
1 TTATGAAATATAACTTGAAAGAACAACTATAAGAGAAATATAAA
10512350 TTATGAAATATAACTTGAAAGAACAACTATAAGAGAAATATAA
1 TTATGAAATATAACTTGAAAGAACAACTATAAGAGAAATATAA
10512393 GAGAAAGAAT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.56, C:0.07, G:0.11, T:0.25
Consensus pattern (44 bp):
TTATGAAATATAACTTGAAAGAACAACTATAAGAGAAATATAAA
Found at i:10512416 original size:19 final size:19
Alignment explanation
Indices: 10512392--10512431 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
10512382 GAGAAATATA
*
10512392 AGAGAAAGAATTTAGAGGG
1 AGAGAAAGAATTTAAAGGG
*
10512411 AGAGAAAGTATTTAAAGGG
1 AGAGAAAGAATTTAAAGGG
10512430 AG
1 AG
10512432 TAAAAAGATC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.47, C:0.00, G:0.35, T:0.17
Consensus pattern (19 bp):
AGAGAAAGAATTTAAAGGG
Found at i:10513252 original size:22 final size:21
Alignment explanation
Indices: 10513220--10513264 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 21
10513210 ATGTTTCGAT
10513220 TTTCTTTAATTAAGCCTTCAA
1 TTTCTTTAATTAAGCCTTCAA
* *
10513241 TTTCTTTCAATTGAGTCTTCAA
1 TTTCTTT-AATTAAGCCTTCAA
10513263 TT
1 TT
10513265 GAATGACAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 7 0.33
22 14 0.67
ACGTcount: A:0.24, C:0.18, G:0.07, T:0.51
Consensus pattern (21 bp):
TTTCTTTAATTAAGCCTTCAA
Found at i:10520276 original size:18 final size:18
Alignment explanation
Indices: 10520253--10520296 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
10520243 TGCAAGATGA
10520253 AAAAAAATATAA-TATCTT
1 AAAAAAATATAATTAT-TT
*
10520271 AAAAAAATTTAATTATTT
1 AAAAAAATATAATTATTT
*
10520289 AAATAAAT
1 AAAAAAAT
10520297 CATTATTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 20 0.87
19 3 0.13
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.36
Consensus pattern (18 bp):
AAAAAAATATAATTATTT
Found at i:10522668 original size:2 final size:2
Alignment explanation
Indices: 10522661--10522686 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
10522651 AAAATTGAAT
10522661 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
10522687 AACATCCTAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:10522775 original size:76 final size:73
Alignment explanation
Indices: 10522654--10522794 Score: 230
Period size: 76 Copynumber: 1.9 Consensus size: 73
10522644 GAATCACAAA
*
10522654 ATTGAATTATATATATATATATATATATATATAAACATCCTAGTTGCTAAGAAGAAAAAATTTAA
1 ATTGAATTATATATATATATATATATATATAGAAACATCCTAGTTGCTAAG-AGAAAAAATTTAA
10522719 AATTNATTGG
65 AATT-ATTGG
10522729 ATTGAATTTATATATATATATATATATATTATAGAAACATCC-AGTTGCTAAGAGAAAAAATTTA
1 ATTGAA-TTATATATATATATATATATA-TATAGAAACATCCTAGTTGCTAAGAGAAAAAATTTA
10522793 AA
64 AA
10522795 TATCTTTTAT
Statistics
Matches: 63, Mismatches: 1, Indels: 4
0.93 0.01 0.06
Matches are distributed among these distances:
75 20 0.32
76 31 0.49
77 12 0.19
ACGTcount: A:0.48, C:0.06, G:0.09, T:0.37
Consensus pattern (73 bp):
ATTGAATTATATATATATATATATATATATAGAAACATCCTAGTTGCTAAGAGAAAAAATTTAAA
ATTATTGG
Found at i:10525374 original size:73 final size:72
Alignment explanation
Indices: 10525254--10525447 Score: 241
Period size: 72 Copynumber: 2.7 Consensus size: 72
10525244 AAATTGCAGA
*
10525254 CAGAGAGC-TCTTAGTCGACTAACT-TTCTTCTTGGTCGACTAAGTTGGTTCTGTCTTCCAA-TC
1 CAGAGAGCAT-TTAGTCGACTAACTCAT-TTCTTGGTCGACTAAGTTGGTTCTGTCTT-CAAGTC
10525316 ACAGATTTTGG
63 -CAGATTTTGG
* * * *
10525327 TAGAGAGCATTTAGTTGACTAACTCATTTCTCGGTCGACTAAGTTGGTTCTGTCTTGAAGTCCAG
1 CAGAGAGCATTTAGTCGACTAACTCATTTCTTGGTCGACTAAGTTGGTTCTGTCTTCAAGTCCAG
10525392 ATTTTGG
66 ATTTTGG
* * ** *
10525399 CAAAGAGCATTTAGTCAACTAACTCACATCTTGGTCGACTAAGTCGGTT
1 CAGAGAGCATTTAGTCGACTAACTCATTTCTTGGTCGACTAAGTTGGTT
10525448 TTGTTTATCA
Statistics
Matches: 105, Mismatches: 13, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
72 53 0.50
73 50 0.48
74 2 0.02
ACGTcount: A:0.24, C:0.20, G:0.21, T:0.35
Consensus pattern (72 bp):
CAGAGAGCATTTAGTCGACTAACTCATTTCTTGGTCGACTAAGTTGGTTCTGTCTTCAAGTCCAG
ATTTTGG
Found at i:10526429 original size:20 final size:21
Alignment explanation
Indices: 10526388--10526432 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 21
10526378 CCTAGGTGGA
*
10526388 AAAATTCAAGGGAAAAGTGTG
1 AAAATTCAAGGGAAAAGAGTG
*
10526409 AAAATTCAA-GGAAACGAGTG
1 AAAATTCAAGGGAAAAGAGTG
10526429 AAAA
1 AAAA
10526433 AAAAAGGTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 13 0.59
21 9 0.41
ACGTcount: A:0.53, C:0.07, G:0.24, T:0.16
Consensus pattern (21 bp):
AAAATTCAAGGGAAAAGAGTG
Found at i:10526433 original size:21 final size:22
Alignment explanation
Indices: 10526386--10526433 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 22
10526376 ACCCTAGGTG
*
10526386 GAAAAATTCAAGGGAAAAGTGT
1 GAAAAATTCAAGGGAAAAGAGT
*
10526408 G-AAAATTCAA-GGAAACGAGT
1 GAAAAATTCAAGGGAAAAGAGT
10526428 GAAAAA
1 GAAAAA
10526434 AAAAGGTAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 9 0.39
21 13 0.57
22 1 0.04
ACGTcount: A:0.54, C:0.06, G:0.25, T:0.15
Consensus pattern (22 bp):
GAAAAATTCAAGGGAAAAGAGT
Found at i:10528809 original size:17 final size:17
Alignment explanation
Indices: 10528787--10528823 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
10528777 AAATGAGGAT
10528787 TGCTCCCCCTAAGTGAG
1 TGCTCCCCCTAAGTGAG
* *
10528804 TGCTCCCCCTTAGTGTG
1 TGCTCCCCCTAAGTGAG
10528821 TGC
1 TGC
10528824 ATATTCTGCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.11, C:0.35, G:0.24, T:0.30
Consensus pattern (17 bp):
TGCTCCCCCTAAGTGAG
Found at i:10531157 original size:11 final size:11
Alignment explanation
Indices: 10531124--10531158 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
10531114 CCTAGGGTTC
10531124 TTGTTCTTCCT
1 TTGTTCTTCCT
10531135 TT-TTCTTCCT
1 TTGTTCTTCCT
*
10531145 TTGTTCTTGCT
1 TTGTTCTTCCT
10531156 TTG
1 TTG
10531159 GCCGGCCATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 10 0.45
11 12 0.55
ACGTcount: A:0.00, C:0.23, G:0.11, T:0.66
Consensus pattern (11 bp):
TTGTTCTTCCT
Found at i:10547199 original size:72 final size:73
Alignment explanation
Indices: 10547030--10547227 Score: 240
Period size: 72 Copynumber: 2.7 Consensus size: 73
10547020 AAATTGCAGA
* * ** *
10547030 TAGAGAGC-TCTTAGTCGACTAACT-TTCTTCTTGGTTGACTAAGTTGGTTCTATCTTCTGGTTG
1 TAGAGAGCAT-TTAGTCGACTAACTCAT-TTCTTGGTCGACTAAGTTGGTTCTATCTTCAAGTTA
10547093 CAGATTTTGG
64 CAGATTTTGG
* * *
10547103 CAGAGAGCATTTAGTCGACTAACTCATTTCTTGGTCGACTAAGTTGGTTCTGTCTTGAAG-TACA
1 TAGAGAGCATTTAGTCGACTAACTCATTTCTTGGTCGACTAAGTTGGTTCTATCTTCAAGTTACA
10547167 GATTTTGG
66 GATTTTGG
** ** *
10547175 TAGAGAGCATTTAGTCGACTAACTCACATCTTGAACGACTAAGTCGGTTCTAT
1 TAGAGAGCATTTAGTCGACTAACTCATTTCTTGGTCGACTAAGTTGGTTCTAT
10547228 TTCTCAATAC
Statistics
Matches: 108, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
72 57 0.53
73 49 0.45
74 2 0.02
ACGTcount: A:0.23, C:0.18, G:0.22, T:0.37
Consensus pattern (73 bp):
TAGAGAGCATTTAGTCGACTAACTCATTTCTTGGTCGACTAAGTTGGTTCTATCTTCAAGTTACA
GATTTTGG
Found at i:10557926 original size:57 final size:55
Alignment explanation
Indices: 10557849--10557960 Score: 197
Period size: 56 Copynumber: 2.0 Consensus size: 55
10557839 TAAAAGCTTA
*
10557849 ACACTTGTCACCTTACCATTGGTCCATTTTTAAATTCTTAATTGTTAAGCTTTCNTT
1 ACACTTGTCACCTTACCATTGGTCCA-TTTTAAATTCTTAACTGTTAAGCTTTC-TT
10557906 ACACTTGTCACCTTACCATTGGTCCATTTTAAATTCTTAACTGTTAAGCTTTCTT
1 ACACTTGTCACCTTACCATTGGTCCATTTTAAATTCTTAACTGTTAAGCTTTCTT
10557961 TCTCCACCAC
Statistics
Matches: 54, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
55 2 0.04
56 26 0.48
57 26 0.48
ACGTcount: A:0.23, C:0.22, G:0.09, T:0.45
Consensus pattern (55 bp):
ACACTTGTCACCTTACCATTGGTCCATTTTAAATTCTTAACTGTTAAGCTTTCTT
Found at i:10575216 original size:23 final size:23
Alignment explanation
Indices: 10575186--10575237 Score: 86
Period size: 23 Copynumber: 2.3 Consensus size: 23
10575176 TCAAAGAGAT
*
10575186 AACTTTATATATGATTGAGCTTA
1 AACTTTATATATGATTGAGCGTA
10575209 AACTTTATATATGATTGAGCGTA
1 AACTTTATATATGATTGAGCGTA
*
10575232 AGCTTT
1 AACTTT
10575238 CTACTATCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.33, C:0.10, G:0.15, T:0.42
Consensus pattern (23 bp):
AACTTTATATATGATTGAGCGTA
Found at i:10581797 original size:11 final size:11
Alignment explanation
Indices: 10581781--10581806 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
10581771 GTGTCTCTAA
10581781 TTTTTTTAAAT
1 TTTTTTTAAAT
10581792 TTTTTTTAAAT
1 TTTTTTTAAAT
10581803 TTTT
1 TTTT
10581807 CTTCTTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (11 bp):
TTTTTTTAAAT
Found at i:10583266 original size:73 final size:72
Alignment explanation
Indices: 10583189--10583394 Score: 200
Period size: 73 Copynumber: 2.8 Consensus size: 72
10583179 GTGGAGTTGG
** *
10583189 TGGGTTAAGAAACAGAGA-CGGCTTAATCGACTAAGAAACATAGTTAGTCGACTAAAAGCTTACT
1 TGGGTTAAGAAACAGA-ATCAACTTAATCGACTAAGAAACAT-GTTAGTCGACTAAAAGCTCACT
10583253 GCCAAAAAC
64 GCCAAAAAC
* * ** * *
10583262 TGGGTTTAGAGACAGAATCAACTTAATCGACTAAGAAGTATGTTAGTCGACTAAGAGCTCACTGT
1 TGGGTTAAGAAACAGAATCAACTTAATCGACTAAGAAACATGTTAGTCGACTAAAAGCTCACTGC
* *
10583327 CTACAAC
66 CAAAAAC
* * * * * * *
10583334 TAGGGTT-AGAAGACAAAACCAACTTAATCGACTAAGAAGCAAGTTATTCAACTAAGAGCTC
1 T-GGGTTAAGAA-ACAGAATCAACTTAATCGACTAAGAAACATGTTAGTCGACTAAAAGCTC
10583395 TCTGTTTGCC
Statistics
Matches: 112, Mismatches: 18, Indels: 6
0.82 0.13 0.04
Matches are distributed among these distances:
72 31 0.28
73 81 0.72
ACGTcount: A:0.39, C:0.18, G:0.20, T:0.23
Consensus pattern (72 bp):
TGGGTTAAGAAACAGAATCAACTTAATCGACTAAGAAACATGTTAGTCGACTAAAAGCTCACTGC
CAAAAAC
Found at i:10586916 original size:22 final size:23
Alignment explanation
Indices: 10586884--10586926 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
10586874 TTAAATTATA
10586884 TTTATGATTAAAATATTAAAAAG
1 TTTATGATTAAAATATTAAAAAG
* *
10586907 TTTAT-ATTAATATTTTAAAA
1 TTTATGATTAAAATATTAAAA
10586927 TTAAAAATCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.47
Consensus pattern (23 bp):
TTTATGATTAAAATATTAAAAAG
Found at i:10593198 original size:42 final size:42
Alignment explanation
Indices: 10593139--10593292 Score: 202
Period size: 42 Copynumber: 3.6 Consensus size: 42
10593129 CAGCTCATGT
* * * *
10593139 GCACTCCTTACTAGCACAT-GGCTGGATCATCATCGACTTATGC
1 GCACTCC-TACTCGCACATAGTC-GGGTCATCATCGGCTTATGC
*
10593182 GCACTCTTACTCGCACATAGTCGGGTCATCATCGGCTTATGC
1 GCACTCCTACTCGCACATAGTCGGGTCATCATCGGCTTATGC
* *
10593224 GCACTCCTACTCTCACATAGTCGGGTCATCATCGGCGTATGC
1 GCACTCCTACTCGCACATAGTCGGGTCATCATCGGCTTATGC
* *
10593266 GCACTCCTACTCACACATTGTCGGGTC
1 GCACTCCTACTCGCACATAGTCGGGTC
10593293 CACATCAACA
Statistics
Matches: 100, Mismatches: 10, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
42 92 0.92
43 8 0.08
ACGTcount: A:0.20, C:0.32, G:0.20, T:0.27
Consensus pattern (42 bp):
GCACTCCTACTCGCACATAGTCGGGTCATCATCGGCTTATGC
Found at i:10594562 original size:44 final size:43
Alignment explanation
Indices: 10594507--10594608 Score: 168
Period size: 44 Copynumber: 2.3 Consensus size: 43
10594497 GCTTTTCCCT
10594507 TTGCTCTCTCACATCGACCTCTCTTTTTCTTCTTCAGCTTTCTC
1 TTGCTCTCTCACA-CGACCTCTCTTTTTCTTCTTCAGCTTTCTC
*
10594551 TTGCTCTCTCACACTGACCTCTCTTTTTCTTCTTTAGCTTTCTC
1 TTGCTCTCTCACAC-GACCTCTCTTTTTCTTCTTCAGCTTTCTC
*
10594595 TTCCTCTCTCACAC
1 TTGCTCTCTCACAC
10594609 CGACTCCTCT
Statistics
Matches: 55, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
43 1 0.02
44 54 0.98
ACGTcount: A:0.10, C:0.37, G:0.06, T:0.47
Consensus pattern (43 bp):
TTGCTCTCTCACACGACCTCTCTTTTTCTTCTTCAGCTTTCTC
Found at i:10599684 original size:23 final size:23
Alignment explanation
Indices: 10599654--10599698 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
10599644 TTTTCAATTG
*
10599654 ATTAATTAAACTAAAAATAAATA
1 ATTAATTAAACGAAAAATAAATA
*
10599677 ATTAATTAAACGAAGAATAAAT
1 ATTAATTAAACGAAAAATAAAT
10599699 TGTCACTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.29
Consensus pattern (23 bp):
ATTAATTAAACGAAAAATAAATA
Found at i:10605835 original size:12 final size:10
Alignment explanation
Indices: 10605805--10605838 Score: 68
Period size: 10 Copynumber: 3.4 Consensus size: 10
10605795 GGTGGTGTAC
10605805 ATGTTTATAT
1 ATGTTTATAT
10605815 ATGTTTATAT
1 ATGTTTATAT
10605825 ATGTTTATAT
1 ATGTTTATAT
10605835 ATGT
1 ATGT
10605839 ATATCTGATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.29, C:0.00, G:0.12, T:0.59
Consensus pattern (10 bp):
ATGTTTATAT
Found at i:10608077 original size:2 final size:2
Alignment explanation
Indices: 10608022--10608064 Score: 63
Period size: 2 Copynumber: 22.0 Consensus size: 2
10608012 TATGTGCTCC
10608022 TA TA T- TA TA T- TGA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA
10608063 TA
1 TA
10608065 CACATGAATA
Statistics
Matches: 38, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
1 2 0.05
2 35 0.92
3 1 0.03
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (2 bp):
TA
Found at i:10608214 original size:2 final size:2
Alignment explanation
Indices: 10608160--10608201 Score: 70
Period size: 2 Copynumber: 22.0 Consensus size: 2
10608150 GATGATGANC
10608160 TA TA T- TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
10608200 TA
1 TA
10608202 CACATGAATA
Statistics
Matches: 38, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
1 2 0.05
2 36 0.95
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:10608269 original size:137 final size:137
Alignment explanation
Indices: 10608021--10608295 Score: 534
Period size: 137 Copynumber: 2.0 Consensus size: 137
10608011 CTATGTGCTC
10608021 CTATATTATATTGATATATATATATATATATATATATATATATACACATGAATATATGTTATGCA
1 CTATATTATATTGATATATATATATATATATATATATATATATACACATGAATATATGTTATGCA
10608086 TTGATGAATAATGCTGTGTAATGATATTGACCTGGTTATGTGCGAGTAGGAGTGTGCATAAGTCG
66 TTGATGAATAATGCTGTGTAATGATATTGACCTGGTTATGTGCGAGTAGGAGTGTGCATAAGTCG
10608151 ATGATGA
131 ATGATGA
10608158 NCTATATTATATT-ATATATATATATATATATATATATATATATACACATGAATATATGTTATGC
1 -CTATATTATATTGATATATATATATATATATATATATATATATACACATGAATATATGTTATGC
10608222 ATTGATGAATAATGCTGTGTAATGATATTGACCTGGTTATGTGCGAGTAGGAGTGTGCATAAGTC
65 ATTGATGAATAATGCTGTGTAATGATATTGACCTGGTTATGTGCGAGTAGGAGTGTGCATAAGTC
10608287 GATGATGA
130 GATGATGA
10608295 C
1 C
10608296 CCGGCCATAT
Statistics
Matches: 137, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
136 1 0.01
137 124 0.91
138 12 0.09
ACGTcount: A:0.35, C:0.08, G:0.19, T:0.39
Consensus pattern (137 bp):
CTATATTATATTGATATATATATATATATATATATATATATATACACATGAATATATGTTATGCA
TTGATGAATAATGCTGTGTAATGATATTGACCTGGTTATGTGCGAGTAGGAGTGTGCATAAGTCG
ATGATGA
Found at i:10608296 original size:42 final size:42
Alignment explanation
Indices: 10608250--10608421 Score: 191
Period size: 42 Copynumber: 4.1 Consensus size: 42
10608240 GTAATGATAT
* * * *
10608250 TGACCTGGTTATGTGCGAGTAGGAGTGTGCATAAGTCGATGA
1 TGACCCGGCTATGTGCGAGTAGGAGTGCGCATAAGCCGATGA
* * * ** *
10608292 TGACCCGGCCATATGCGAGTGGGAGTGCTTATAAGCCGATGC
1 TGACCCGGCTATGTGCGAGTAGGAGTGCGCATAAGCCGATGA
* * *
10608334 TGACCCGGCTATGTGCGAGTGGGAATGCGCATAAGCCGATGC
1 TGACCCGGCTATGTGCGAGTAGGAGTGCGCATAAGCCGATGA
* * *
10608376 TGACTCGGTTATGTGCAAGTAAGGAGTGCGCATAAGCCGATGA
1 TGACCCGGCTATGTGCGAGT-AGGAGTGCGCATAAGCCGATGA
10608419 TGA
1 TGA
10608422 TGATGACCTG
Statistics
Matches: 108, Mismatches: 21, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
42 86 0.80
43 22 0.20
ACGTcount: A:0.24, C:0.19, G:0.34, T:0.23
Consensus pattern (42 bp):
TGACCCGGCTATGTGCGAGTAGGAGTGCGCATAAGCCGATGA
Found at i:10615011 original size:20 final size:20
Alignment explanation
Indices: 10614986--10615025 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
10614976 TTATAAATAT
10614986 CTCATTTCTCCAGTAGCTTC
1 CTCATTTCTCCAGTAGCTTC
*
10615006 CTCATTTTTCCAGTAGCTTC
1 CTCATTTCTCCAGTAGCTTC
10615026 TTGTTCTTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.15, C:0.33, G:0.10, T:0.42
Consensus pattern (20 bp):
CTCATTTCTCCAGTAGCTTC
Found at i:10632573 original size:230 final size:229
Alignment explanation
Indices: 10632149--10632608 Score: 699
Period size: 229 Copynumber: 2.0 Consensus size: 229
10632139 AGTACTCTCT
* * * * * *
10632149 ATTTTTCTACTCTTTGCTCTTTGATTTCATACTCTGTTTTGCTGATTTTATTTTCTTATATTTTT
1 ATTTTTCTACTCTTTACTCATTCATCTCATACTCTGTTTTGCTGATTTTATTTTCTTACATTTCT
*
10632214 GCTTCATCTTCAAAGCTTTTTGAAGAAAGAGGAATGTTTATTTGACAACCAATTCACCCACTTCT
66 GCTTCATCTTCAAAGCTTTTTGAAGAAAGAGGAATGTTTATTTCACAACCAATTCACCCACTTCT
10632279 TAGTAGTTTTACTTTAAGCTTATCTTTCTAACACACTTGTAGAAAATGATGTGGCTTTTATAACA
131 TAGTAGTTTTACTTTAAGCTTATCTTTCTAACACACTTGTAGAAAATGATGTGGCTTTTATAACA
*
10632344 TGAAATAATGATTAATTAAAATGATCATGTCTTG
196 TGAAATAATGATAAATTAAAATGATCATGTCTTG
* *
10632378 ATTTTTTTACTCTTTACTCATTCATCTCATACTTTGTTTTGCTGATTTTATTTTCTTACATTTCT
1 ATTTTTCTACTCTTTACTCATTCATCTCATACTCTGTTTTGCTGATTTTATTTTCTTACATTTCT
* * * * * *
10632443 GCTTTATCTTTAAAG-TTTTTCGAA-AAGGGGAGAATTTTTATTTCACAACCAATTCACCCCCTT
66 GCTTCATCTTCAAAGCTTTTT-GAAGAAAGAG-GAATGTTTATTTCACAACCAATTCACCCAC-T
* * *
10632506 TCTTGGTAGTTTTACTTTAAGTTTATCTTTCTAACACACTTGTAGAAAATGGTGTGGCTTTTATA
128 TCTTAGTAGTTTTACTTTAAGCTTATCTTTCTAACACACTTGTAGAAAATGATGTGGCTTTTATA
*
10632571 ACATGAAATAATGGTAAATTAAAATGATCATGTCTTG
193 ACATGAAATAATGATAAATTAAAATGATCATGTCTTG
10632608 A
1 A
10632609 GCTAAAATAT
Statistics
Matches: 208, Mismatches: 20, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
228 9 0.04
229 100 0.48
230 99 0.48
ACGTcount: A:0.27, C:0.15, G:0.12, T:0.45
Consensus pattern (229 bp):
ATTTTTCTACTCTTTACTCATTCATCTCATACTCTGTTTTGCTGATTTTATTTTCTTACATTTCT
GCTTCATCTTCAAAGCTTTTTGAAGAAAGAGGAATGTTTATTTCACAACCAATTCACCCACTTCT
TAGTAGTTTTACTTTAAGCTTATCTTTCTAACACACTTGTAGAAAATGATGTGGCTTTTATAACA
TGAAATAATGATAAATTAAAATGATCATGTCTTG
Found at i:10634286 original size:6 final size:6
Alignment explanation
Indices: 10634248--10634304 Score: 51
Period size: 6 Copynumber: 9.0 Consensus size: 6
10634238 AAAAAGAAAT
* * *
10634248 AAAATA AAAAGA CAAAAGA GAAAAGA AAGAGA AAAAGA AAAGAGA GAAAGA
1 AAAAGA AAAAGA -AAAAGA -AAAAGA AAAAGA AAAAGA AAA-AGA AAAAGA
*
10634299 GAAAGA
1 AAAAGA
10634305 CTTGTAAAGA
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
6 27 0.61
7 17 0.39
ACGTcount: A:0.74, C:0.02, G:0.23, T:0.02
Consensus pattern (6 bp):
AAAAGA
Found at i:10634291 original size:13 final size:13
Alignment explanation
Indices: 10634261--10634304 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
10634251 ATAAAAAGAC
10634261 AAAAGAG-AAAAG
1 AAAAGAGAAAAAG
10634273 -AAAGAGAAAAAG
1 AAAAGAGAAAAAG
*
10634285 AAAAGAGAGAAAG
1 AAAAGAGAAAAAG
10634298 AGAAAGA
1 A-AAAGA
10634305 CTTGTAAAGA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
11 6 0.21
12 5 0.18
13 12 0.43
14 5 0.18
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (13 bp):
AAAAGAGAAAAAG
Found at i:10634293 original size:26 final size:27
Alignment explanation
Indices: 10634253--10634304 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 27
10634243 GAAATAAAAT
10634253 AAAAAGACAAAAGAGAAA-AGAAAGAG
1 AAAAAGACAAAAGAGAAAGAGAAAGAG
10634279 AAAAAGA-AAAGAGAGAAAGAGAAAGA
1 AAAAAGACAAA-AGAGAAAGAGAAAGA
10634305 CTTGTAAAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
25 3 0.12
26 14 0.58
27 7 0.29
ACGTcount: A:0.73, C:0.02, G:0.25, T:0.00
Consensus pattern (27 bp):
AAAAAGACAAAAGAGAAAGAGAAAGAG
Found at i:10635784 original size:30 final size:29
Alignment explanation
Indices: 10635718--10635784 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 29
10635708 TGAATTAAGT
* *
10635718 CCTTATATTTTTATTTTGAACTAAATAAG
1 CCTTATACTTTTATTTTGAACTAAATAAA
**
10635747 CCTTTATACTTTTATTTTGAGTTAAATAAA
1 CC-TTATACTTTTATTTTGAACTAAATAAA
10635777 CTCTTATA
1 C-CTTATA
10635785 ACTAATTATT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
29 2 0.06
30 29 0.91
31 1 0.03
ACGTcount: A:0.33, C:0.12, G:0.06, T:0.49
Consensus pattern (29 bp):
CCTTATACTTTTATTTTGAACTAAATAAA
Found at i:10635890 original size:33 final size:33
Alignment explanation
Indices: 10635846--10635909 Score: 110
Period size: 33 Copynumber: 1.9 Consensus size: 33
10635836 GCTAATATAG
* *
10635846 TATGTTGATATATCATAATTGATGATGATGTAA
1 TATGTTAATATATCATAATTAATGATGATGTAA
10635879 TATGTTAATATATCATAATTAATGATGATGT
1 TATGTTAATATATCATAATTAATGATGATGT
10635910 GACATTTTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.38, C:0.03, G:0.16, T:0.44
Consensus pattern (33 bp):
TATGTTAATATATCATAATTAATGATGATGTAA
Found at i:10635920 original size:33 final size:33
Alignment explanation
Indices: 10635847--10635920 Score: 103
Period size: 33 Copynumber: 2.2 Consensus size: 33
10635837 CTAATATAGT
* * *
10635847 ATGTTGATATATCATAATTGATGATGATGTAAT
1 ATGTTAATATATCATAATTAATGATGATGTAAC
*
10635880 ATGTTAATATATCATAATTAATGATGATGTGAC
1 ATGTTAATATATCATAATTAATGATGATGTAAC
*
10635913 ATTTTAAT
1 ATGTTAAT
10635921 TTGACATGAT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.38, C:0.04, G:0.15, T:0.43
Consensus pattern (33 bp):
ATGTTAATATATCATAATTAATGATGATGTAAC
Found at i:10641848 original size:44 final size:44
Alignment explanation
Indices: 10641785--10641937 Score: 186
Period size: 43 Copynumber: 3.5 Consensus size: 44
10641775 ATGTTGACTC
*
10641785 GGCTATGTGCGAGTAGGGAGTGCGCATAAGCCGAGGATGACCTT
1 GGCTATGTGCGAGTAGGGAGTGCGCATAACCCGAGGATGACCTT
* *
10641829 GGCTATGTGCGAGTGGGGAGTGCGCATAACCCG-GTGATGA-CTC
1 GGCTATGTGCGAGTAGGGAGTGCGCATAACCCGAG-GATGACCTT
** * * *
10641872 GATTCTGTGTGAGTAGGGAGTGCGCATAACCCGATGATGACC-T
1 GGCTATGTGCGAGTAGGGAGTGCGCATAACCCGAGGATGACCTT
* *
10641915 AGCCATGTGCGAGTAGGGAGTGC
1 GGCTATGTGCGAGTAGGGAGTGC
10641938 ACATGAGCTG
Statistics
Matches: 90, Mismatches: 16, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
43 53 0.59
44 37 0.41
ACGTcount: A:0.22, C:0.19, G:0.38, T:0.22
Consensus pattern (44 bp):
GGCTATGTGCGAGTAGGGAGTGCGCATAACCCGAGGATGACCTT
Found at i:10642000 original size:2 final size:2
Alignment explanation
Indices: 10641995--10642029 Score: 61
Period size: 2 Copynumber: 17.0 Consensus size: 2
10641985 GGTATATACG
10641995 TA TA TA TA TA TA TA TA TA TA TA TA TA CTA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA
10642030 ATGTGTGTTG
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 30 0.94
3 2 0.06
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:10642205 original size:2 final size:2
Alignment explanation
Indices: 10642198--10642228 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
10642188 GTAGTATACG
*
10642198 TA TA TA TA TA TA TA TA TA TA TA TA TA CA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
10642229 GTAAATGTGT
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):
TA
Found at i:10658689 original size:26 final size:26
Alignment explanation
Indices: 10658653--10658703 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
10658643 GTGTCCTGGT
*
10658653 GGTGGAAAATTACTATTTTGCCCTTG
1 GGTGGAAAATTACCATTTTGCCCTTG
*
10658679 GGTGGCAAATTACCATTTTGCCCTT
1 GGTGGAAAATTACCATTTTGCCCTT
10658704 ATGCTCCAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.22, C:0.20, G:0.22, T:0.37
Consensus pattern (26 bp):
GGTGGAAAATTACCATTTTGCCCTTG
Found at i:10660006 original size:26 final size:26
Alignment explanation
Indices: 10659970--10660021 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
10659960 TCCTCCAAGG
*
10659970 CCTGAATAGTTCTCTCAAATTGACCA
1 CCTGAATAGTTCTCTCAAACTGACCA
10659996 CCTGAATAGTTCTCTCAAACTGACCA
1 CCTGAATAGTTCTCTCAAACTGACCA
10660022 TCAGTCTGCG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.31, C:0.29, G:0.12, T:0.29
Consensus pattern (26 bp):
CCTGAATAGTTCTCTCAAACTGACCA
Found at i:10664120 original size:5 final size:5
Alignment explanation
Indices: 10664106--10664140 Score: 52
Period size: 5 Copynumber: 7.0 Consensus size: 5
10664096 CTATTCAACC
* *
10664106 TAACC TAACT TAACT TAGCT TAACT TAACT TAACT
1 TAACT TAACT TAACT TAACT TAACT TAACT TAACT
10664141 AGGGGCCACA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.37, C:0.23, G:0.03, T:0.37
Consensus pattern (5 bp):
TAACT
Found at i:10667609 original size:17 final size:18
Alignment explanation
Indices: 10667580--10667613 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
10667570 GGGTTAATAT
10667580 TATTTTATTTTATTGAAC
1 TATTTTATTTTATTGAAC
10667598 TATTTT-TTTTATTGAA
1 TATTTTATTTTATTGAA
10667614 TAAACAACTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.26, C:0.03, G:0.06, T:0.65
Consensus pattern (18 bp):
TATTTTATTTTATTGAAC
Found at i:10668362 original size:15 final size:16
Alignment explanation
Indices: 10668337--10668366 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
10668327 GTTAATATTA
10668337 TTTTATTTTATTGAAC
1 TTTTATTTTATTGAAC
10668353 TTTT-TTTTATTGAA
1 TTTTATTTTATTGAA
10668367 TAAATAACGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.23, C:0.03, G:0.07, T:0.67
Consensus pattern (16 bp):
TTTTATTTTATTGAAC
Found at i:10668745 original size:752 final size:753
Alignment explanation
Indices: 10667195--10668894 Score: 2823
Period size: 752 Copynumber: 2.3 Consensus size: 753
10667185 TGATGTCATG
* * * * ** *
10667195 ATTTACCATTTTTAAATTTTGGGAAGCATGAAAACCTTGTATCAGAAAATCATTCGTAGACCATC
1 ATTTACTAATTTTAAATATTGGAAAAAATGAGAACCTTGTATCAGAAAATCATTCGTAGACCATC
* * * *
10667260 TCAATGCTTTAGTGAAGTCTCAAAGTTTTTCGCACCTAGGGATGTCTCCGCAAGAGCTCATCACT
66 CCAATGCTTTAGTGAAGTTTCAAAGTTTTTCGCACCTAGGGATGTCTCCGAAAGAACTCATCACT
* * * *
10667325 ACAAATCCACTAAGAAAATCCCATCATCAGGATTCTTGTCCCATTAACAAAATAGACATGTCGTA
131 ACAAGTCCACTGAGAAAATCCCATCATCAGGATTCTTGTCCCATTAACAGAATAGACATGTTGTA
10667390 TGCTACGTCAAAATAAAATCGTGAATGATGCCAAATGAGTGCATTTATGAGTATAAATTTGTTGA
196 TGCTACGTCAAAATAAAATCGTGAATGATGCCAAATGAGTGCATTTATGAGTATAAATTTGTTGA
* *
10667455 TTAAAATTTATATATATTTAATAGTTTAATGCAACTAAATAATTCATTTATTTTTTTACTGTATA
261 TTAAAATTTATATATATTTAATAGTTTAATACAACTAAATAATTCATTTATTTTTTTACTATATA
* *
10667520 TCTTTTAAGGAAACATTTTATTTAAATTGATAATTTTTAATTAATATTATGGGTTAATATTATTT
326 TCTTTTAAGCAAACATTTTATTTAAATCGATAATTTTTAATTAATATTATGGGTTAATATTATTT
* *
10667585 TATTTTATTGAACTATTTTTTTTATTGAATAAACAACTAATCTTTTATTGACGATGATTGTTTAA
391 TATTTTATTGAAC-ATTTTTTTTATTGAATAAACAACGAATCTTTTATTGACGATCATTGTTTAA
* * *
10667650 ATTAATTAATAATCATATCAATTTTAATTTAGATGGAATATTATATGAATTTATTTCTTTATGAA
455 ATTAATTAATAATCATATCAATTTTAATTTAGACGAAAAATTATATGAATTTATTTCTTTATGAA
* * *
10667715 TTTAAGGTAATTACTTGAATTATCGAAATATTGAAATATAAAATTAGGATTTTTTCTGACACTTC
520 TTTAAGCTAATTACTTGAATTAACGAAATATTGAAATATAAAATTAGGATTTTTCCTGACACTTC
* *
10667780 AGAGAAAAACTTAATTGAATTCTGTTCCTAGGAAAGTTATCCCGAGAATAGCAACTTTTTGCTTT
585 AGAGAAAAACTTAATTGAATTCTGTTCCTAGGAAAGTTATCCCAAGAATAGCAACTCTTTGCTTT
*
10667845 TCCGAGTTTAATTCCATCATCAGAATTAATCTAGAATTAACCACTGCTATCAATATGTATATTTT
650 TCCGAGTTTAATTCCAGCATCAGAATTAATCTAGAATTAACCACTGCTATCAATATGTATATTTT
* *
10667910 TATTAAACTACCACTTTTGGGAATAAATATCTTAATAGA
715 TATTAAACTACCACGTTTGGGAATAAATATCTTAACAGA
* *
10667949 ATTTACTAATTTCAAATATTGAAAAAAATGAGAACCTTGTATCAGAAAATCATTCGTAGACCATC
1 ATTTACTAATTTTAAATATTGGAAAAAATGAGAACCTTGTATCAGAAAATCATTCGTAGACCATC
** * * *
10668014 CCAAAACTTTAGTGAAGTTTCAAAGTTTTTCGGACCTAGGGATGTCTCCAAAAGAACTCATCATT
66 CCAATGCTTTAGTGAAGTTTCAAAGTTTTTCGCACCTAGGGATGTCTCCGAAAGAACTCATCACT
* *
10668079 ACAAGTCGACTGAGAAAATCCCATCATCAGGATTCTTGTCCCATTAACAGAACAGACATGTTGTA
131 ACAAGTCCACTGAGAAAATCCCATCATCAGGATTCTTGTCCCATTAACAGAATAGACATGTTGTA
*
10668144 TGCTATGTCAAAATAAAATCGTGAATGATGCCAAATGAGTGCATTTATGAGTATAAATTTGTTGA
196 TGCTACGTCAAAATAAAATCGTGAATGATGCCAAATGAGTGCATTTATGAGTATAAATTTGTTGA
* *
10668209 TTACAATTTATATATATATTTAATAGTTTAATACAATTAAATAATTCATTTA-TTTTTTACTATA
261 TTA-AAATT-TATATATATTTAATAGTTTAATACAACTAAATAATTCATTTATTTTTTTACTATA
* *
10668273 TATTTTTTAAGCAAACATTTTATTTAAATCGATAATTTTTAATTATTATTATGGGTTAATATTAT
324 TATCTTTTAAGCAAACATTTTATTTAAATCGATAATTTTTAATTAATATTATGGGTTAATATTAT
*
10668338 TTTATTTTATTGAAC-TTTTTTTTATTGAATAAATAACGAATCTTTTATTGACGATCATTGTTTA
389 TTTATTTTATTGAACATTTTTTTTATTGAATAAACAACGAATCTTTTATTGACGATCATTGTTTA
10668402 AATTAATTAATAATCATATCAATTTTAATTTAGACGAAAAATTATATGAATTTATTTCTTTATGA
454 AATTAATTAATAATCATATCAATTTTAATTTAGACGAAAAATTATATGAATTTATTTCTTTATGA
* * *
10668467 ATTTAAGCTAATTGCTTGAATTAACGGAATATTGAAATATAAAATTAGGA-TTTTCCTGGCACTT
519 ATTTAAGCTAATTACTTGAATTAACGAAATATTGAAATATAAAATTAGGATTTTTCCTGACACTT
*
10668531 CAGAGAAAAACTTAATTGAATTCTGTTCCTAGGAAAGTTATCTCAAGAATAGCAACTCTTTGCTT
584 CAGAGAAAAACTTAATTGAATTCTGTTCCTAGGAAAGTTATCCCAAGAATAGCAACTCTTTGCTT
*
10668596 TTCC-AGGTTTAATTCTAGCATCAGAATTAATCTAGAATTAACCACTGCTATCAATATGTATATT
649 TTCCGA-GTTTAATTCCAGCATCAGAATTAATCTAGAATTAACCACTGCTATCAATATGTATATT
*
10668660 TTTATTAAACTACCACGTTTGTGAATAAATATCTTAACAGA
713 TTTATTAAACTACCACGTTTGGGAATAAATATCTTAACAGA
10668701 ATTTACTAATTTTAAATATTGGAAAAAATGAGAACCTTGTATCAGAAAATCATTCGTAGACCATC
1 ATTTACTAATTTTAAATATTGGAAAAAATGAGAACCTTGTATCAGAAAATCATTCGTAGACCATC
**
10668766 CCAATGCTTTAGTGAAGTTTCAAAGTTTTTCGCACCTAGGGATGTCTTTGAAAGAACTCATCACT
66 CCAATGCTTTAGTGAAGTTTCAAAGTTTTTCGCACCTAGGGATGTCTCCGAAAGAACTCATCACT
* *
10668831 ACAAGTCCACCGAGAAAATCCCATCATCAGGATTCTTGTCCCATTAACAGAATAGACACGTTGT
131 ACAAGTCCACTGAGAAAATCCCATCATCAGGATTCTTGTCCCATTAACAGAATAGACATGTTGT
10668895 GTCATGACCC
Statistics
Matches: 877, Mismatches: 66, Indels: 8
0.92 0.07 0.01
Matches are distributed among these distances:
751 1 0.00
752 353 0.40
753 154 0.18
754 238 0.27
755 91 0.10
756 40 0.05
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.38
Consensus pattern (753 bp):
ATTTACTAATTTTAAATATTGGAAAAAATGAGAACCTTGTATCAGAAAATCATTCGTAGACCATC
CCAATGCTTTAGTGAAGTTTCAAAGTTTTTCGCACCTAGGGATGTCTCCGAAAGAACTCATCACT
ACAAGTCCACTGAGAAAATCCCATCATCAGGATTCTTGTCCCATTAACAGAATAGACATGTTGTA
TGCTACGTCAAAATAAAATCGTGAATGATGCCAAATGAGTGCATTTATGAGTATAAATTTGTTGA
TTAAAATTTATATATATTTAATAGTTTAATACAACTAAATAATTCATTTATTTTTTTACTATATA
TCTTTTAAGCAAACATTTTATTTAAATCGATAATTTTTAATTAATATTATGGGTTAATATTATTT
TATTTTATTGAACATTTTTTTTATTGAATAAACAACGAATCTTTTATTGACGATCATTGTTTAAA
TTAATTAATAATCATATCAATTTTAATTTAGACGAAAAATTATATGAATTTATTTCTTTATGAAT
TTAAGCTAATTACTTGAATTAACGAAATATTGAAATATAAAATTAGGATTTTTCCTGACACTTCA
GAGAAAAACTTAATTGAATTCTGTTCCTAGGAAAGTTATCCCAAGAATAGCAACTCTTTGCTTTT
CCGAGTTTAATTCCAGCATCAGAATTAATCTAGAATTAACCACTGCTATCAATATGTATATTTTT
ATTAAACTACCACGTTTGGGAATAAATATCTTAACAGA
Found at i:10675646 original size:17 final size:18
Alignment explanation
Indices: 10675624--10675664 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
10675614 TAAGCCAACT
* *
10675624 TTTTTTTTTATAT-TTGA
1 TTTTTTTTTAAATATTAA
10675641 TTTTTTTTTAAATATTAA
1 TTTTTTTTTAAATATTAA
10675659 TTTTTT
1 TTTTTT
10675665 GGTTTGCGAG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 12 0.57
18 9 0.43
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.76
Consensus pattern (18 bp):
TTTTTTTTTAAATATTAA
Found at i:10676214 original size:62 final size:62
Alignment explanation
Indices: 10676040--10676432 Score: 431
Period size: 62 Copynumber: 6.4 Consensus size: 62
10676030 TGCTAAGATA
* ** * * * * *
10676040 ATTGGGCTTAAAAT-TATTTCAAGCCAATATAACTAGACTTAAACATCTTGGATACTAGTTTA
1 ATTGGGCTTAAACTCT-TTTCGTGCCAACATAACTAGACTTATACATCTTGGATGCCAGTTTG
* * * *
10676102 ATTAGGCTTAAACTCTTTT-GTGCTAACGTAACTAGACTTATGCATCTTGGATGCCAGTTTG
1 ATTGGGCTTAAACTCTTTTCGTGCCAACATAACTAGACTTATACATCTTGGATGCCAGTTTG
*
10676163 ATTGGGCTTAAACTCTTTTTGTGCCAACATAACTAGACTTATACATCTTGGATG-CATGTTTG
1 ATTGGGCTTAAACTCTTTTCGTGCCAACATAACTAGACTTATACATCTTGGATGCCA-GTTTG
* *
10676225 ATTGGGCTTAAACTCTTTTCATGCTAACATAACTAGACTTGA-ACATCTTGGATGCCAGTTTG
1 ATTGGGCTTAAACTCTTTTCGTGCCAACATAACTAGACTT-ATACATCTTGGATGCCAGTTTG
* * * * * * * * *
10676287 ATTGGGCTTAAAATCATTTCGTGCCAATATAATTGGACTTAAATATCTTGGATGCTA-ATTG
1 ATTGGGCTTAAACTCTTTTCGTGCCAACATAACTAGACTTATACATCTTGGATGCCAGTTTG
* * * *
10676348 AATTTGAG-TTAAAATCATTTCGTGCCAACATAACTAGGCTTATACATCTTGGATGCCAGTTTG
1 -A-TTGGGCTTAAACTCTTTTCGTGCCAACATAACTAGACTTATACATCTTGGATGCCAGTTTG
*
10676411 ATTGGGCTTAAATTC-TTTCGTG
1 ATTGGGCTTAAACTCTTTTCGTG
10676433 TTTGGTTTTT
Statistics
Matches: 281, Mismatches: 40, Indels: 21
0.82 0.12 0.06
Matches are distributed among these distances:
61 67 0.24
62 203 0.72
63 11 0.04
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.37
Consensus pattern (62 bp):
ATTGGGCTTAAACTCTTTTCGTGCCAACATAACTAGACTTATACATCTTGGATGCCAGTTTG
Found at i:10676297 original size:124 final size:123
Alignment explanation
Indices: 10676040--10676432 Score: 481
Period size: 124 Copynumber: 3.2 Consensus size: 123
10676030 TGCTAAGATA
** * *
10676040 ATTGGGCTTAAAAT-TATTTCAAGCCAATATAACTAGACTTAAACATCTTGGATACTAGTTTAAT
1 ATTGGGCTTAAAATCT-TTTCGTGCCAATATAACTAGACTTAAACATCTTGGATGCT-GTTTGAT
* * *
10676104 TAGGCTTAAACTCTTTT-GTGCTAACGTAACTAGACTTATGCATCTTGGATGCCAGTTTG
64 TGGGCTTAAACTCTTTTCGTGCTAACATAACTAGACTTATACATCTTGGATGCCAGTTTG
* * * *
10676163 ATTGGGCTTAAACTCTTTTTGTGCCAACATAACTAGACTTATACATCTTGGATGCATGTTTGATT
1 ATTGGGCTTAAAATCTTTTCGTGCCAATATAACTAGACTTAAACATCTTGGATGC-TGTTTGATT
*
10676228 GGGCTTAAACTCTTTTCATGCTAACATAACTAGACTTGA-ACATCTTGGATGCCAGTTTG
65 GGGCTTAAACTCTTTTCGTGCTAACATAACTAGACTT-ATACATCTTGGATGCCAGTTTG
* * * * **
10676287 ATTGGGCTTAAAATCATTTCGTGCCAATATAATTGGACTTAAATATCTTGGATGCTAATTGAATT
1 ATTGGGCTTAAAATCTTTTCGTGCCAATATAACTAGACTTAAACATCTTGGATGCTGTTTG-A-T
* * * * *
10676352 TGAG-TTAAAATCATTTCGTGCCAACATAACTAGGCTTATACATCTTGGATGCCAGTTTG
64 TGGGCTTAAACTCTTTTCGTGCTAACATAACTAGACTTATACATCTTGGATGCCAGTTTG
*
10676411 ATTGGGCTTAAATTC-TTTCGTG
1 ATTGGGCTTAAAATCTTTTCGTG
10676433 TTTGGTTTTT
Statistics
Matches: 234, Mismatches: 29, Indels: 14
0.84 0.10 0.05
Matches are distributed among these distances:
123 80 0.34
124 149 0.64
125 5 0.02
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.37
Consensus pattern (123 bp):
ATTGGGCTTAAAATCTTTTCGTGCCAATATAACTAGACTTAAACATCTTGGATGCTGTTTGATTG
GGCTTAAACTCTTTTCGTGCTAACATAACTAGACTTATACATCTTGGATGCCAGTTTG
Found at i:10676322 original size:31 final size:31
Alignment explanation
Indices: 10676287--10676389 Score: 79
Period size: 31 Copynumber: 3.3 Consensus size: 31
10676277 TGCCAGTTTG
10676287 ATTGGGCTTAAAATCATTTCGTGCCAATATA
1 ATTGGGCTTAAAATCATTTCGTGCCAATATA
* * *
10676318 ATTGGACTT-AAAT-ATCTTGGATGCTAAT-TGA
1 ATTGGGCTTAAAATCAT-TTCG-TGCCAATAT-A
* *
10676349 ATTTGAG-TTAAAATCATTTCGTGCCAACATA
1 A-TTGGGCTTAAAATCATTTCGTGCCAATATA
* *
10676380 ACTAGGCTTA
1 ATTGGGCTTA
10676390 TACATCTTGG
Statistics
Matches: 53, Mismatches: 11, Indels: 16
0.66 0.14 0.20
Matches are distributed among these distances:
29 2 0.04
30 10 0.19
31 28 0.53
32 11 0.21
33 2 0.04
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.36
Consensus pattern (31 bp):
ATTGGGCTTAAAATCATTTCGTGCCAATATA
Found at i:10685427 original size:17 final size:17
Alignment explanation
Indices: 10685405--10685440 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
10685395 TTCATGACAT
10685405 TTTGGTGATATTTGATG
1 TTTGGTGATATTTGATG
10685422 TTTGGTGATATTTGATG
1 TTTGGTGATATTTGATG
10685439 TT
1 TT
10685441 AAATGGAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.17, C:0.00, G:0.28, T:0.56
Consensus pattern (17 bp):
TTTGGTGATATTTGATG
Found at i:10688253 original size:18 final size:18
Alignment explanation
Indices: 10688222--10688257 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
10688212 CAAACACCAG
* *
10688222 TCACCGGATTTTTCTTCT
1 TCACCAGATCTTTCTTCT
10688240 TCACCAGATCTTTCTTCT
1 TCACCAGATCTTTCTTCT
10688258 CTTCTTCAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.14, C:0.31, G:0.08, T:0.47
Consensus pattern (18 bp):
TCACCAGATCTTTCTTCT
Found at i:10688764 original size:20 final size:20
Alignment explanation
Indices: 10688739--10688776 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
10688729 AAATATTTGA
*
10688739 TGTTATTATTATTTTTATTC
1 TGTTATAATTATTTTTATTC
10688759 TGTTATAATTATTTTTAT
1 TGTTATAATTATTTTTAT
10688777 AACTATAGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.24, C:0.03, G:0.05, T:0.68
Consensus pattern (20 bp):
TGTTATAATTATTTTTATTC
Found at i:10688844 original size:9 final size:9
Alignment explanation
Indices: 10688830--10688862 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
10688820 TAAATATTTT
10688830 TGTTAATCG
1 TGTTAATCG
10688839 TGTTAAAT-G
1 TGTT-AATCG
10688848 TGTTAATCG
1 TGTTAATCG
10688857 TGTTAA
1 TGTTAA
10688863 ACTTGTTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
8 3 0.14
9 16 0.73
10 3 0.14
ACGTcount: A:0.27, C:0.06, G:0.21, T:0.45
Consensus pattern (9 bp):
TGTTAATCG
Found at i:10688869 original size:18 final size:17
Alignment explanation
Indices: 10688829--10688870 Score: 66
Period size: 18 Copynumber: 2.4 Consensus size: 17
10688819 GTAAATATTT
10688829 TTGTTAATCGTGTTAAA
1 TTGTTAATCGTGTTAAA
10688846 TGTGTTAATCGTGTTAAA
1 T-TGTTAATCGTGTTAAA
10688864 CTTGTTA
1 -TTGTTA
10688871 TTAATCGTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 1 0.04
18 21 0.91
19 1 0.04
ACGTcount: A:0.26, C:0.07, G:0.19, T:0.48
Consensus pattern (17 bp):
TTGTTAATCGTGTTAAA
Found at i:10694509 original size:52 final size:52
Alignment explanation
Indices: 10694430--10694584 Score: 249
Period size: 52 Copynumber: 3.0 Consensus size: 52
10694420 CACATGACAG
* *
10694430 TGATAGTTGTGTGCTGGGTGAAG-GCACACACTGATGATATATGCCATGTGCA
1 TGATAGTGGTGTGCTGTGTG-AGTGCACACACTGATGATATATGCCATGTGCA
*
10694482 TGATAGTGGTGTGCTGTGTGAGTGCACACACTGATGATATATGCCATGTGCG
1 TGATAGTGGTGTGCTGTGTGAGTGCACACACTGATGATATATGCCATGTGCA
* *
10694534 TGATAGTGGTGTGTTGTATGAGTGCACACACTGATGATATATGCCATGTGC
1 TGATAGTGGTGTGCTGTGTGAGTGCACACACTGATGATATATGCCATGTGC
10694585 GATGTCGGAG
Statistics
Matches: 97, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
51 2 0.02
52 95 0.98
ACGTcount: A:0.23, C:0.15, G:0.31, T:0.31
Consensus pattern (52 bp):
TGATAGTGGTGTGCTGTGTGAGTGCACACACTGATGATATATGCCATGTGCA
Found at i:10694630 original size:35 final size:36
Alignment explanation
Indices: 10694560--10694674 Score: 128
Period size: 35 Copynumber: 3.2 Consensus size: 36
10694550 TATGAGTGCA
* * *
10694560 CACACTGATGATATATGCCATGTGCGATGTCGGAGTG
1 CACA-TGATGATATATGCCTTGTGCGGTGTGGGAGTG
10694597 CACATGATGATAT-TGCCTTGTGCGGTGTGGGAGTG
1 CACATGATGATATATGCCTTGTGCGGTGTGGGAGTG
* * *
10694632 CACAGGATGAT-TCTAG-CTATGTGCGGTGTGGAAGTG
1 CACATGATGATATAT-GCCT-TGTGCGGTGTGGGAGTG
10694668 CACATGA
1 CACATGA
10694675 GCTAGTGAGA
Statistics
Matches: 69, Mismatches: 6, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
34 1 0.01
35 32 0.46
36 32 0.46
37 4 0.06
ACGTcount: A:0.23, C:0.17, G:0.33, T:0.28
Consensus pattern (36 bp):
CACATGATGATATATGCCTTGTGCGGTGTGGGAGTG
Found at i:10737488 original size:35 final size:34
Alignment explanation
Indices: 10737414--10737495 Score: 94
Period size: 35 Copynumber: 2.4 Consensus size: 34
10737404 AAAAGCTAAC
* * *
10737414 TTGTAAGGGTTATCTCTTGATCTCGTAAAGAGCCG
1 TTGTAAGGGTTATCACTTGATCTCG-AAAAAGCCA
*
10737449 TTGTAAGAGTTATCACTTGATACTAC-AAAAAGCCA
1 TTGTAAGGGTTATCACTTGAT-CT-CGAAAAAGCCA
10737484 TTGTAAGGGTTA
1 TTGTAAGGGTTA
10737496 CTGCTTGATC
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
35 37 0.93
36 2 0.05
37 1 0.03
ACGTcount: A:0.30, C:0.15, G:0.22, T:0.33
Consensus pattern (34 bp):
TTGTAAGGGTTATCACTTGATCTCGAAAAAGCCA
Found at i:10737503 original size:35 final size:33
Alignment explanation
Indices: 10737414--10737505 Score: 87
Period size: 35 Copynumber: 2.6 Consensus size: 33
10737404 AAAAGCTAAC
* *
10737414 TTGTAAGGGTTATCTCTTGATCTCGTAAAGAGCCG
1 TTGTAAGGGTTA-CTCTTGATCTCG-AAAAAGCCA
* *
10737449 TTGTAAGAGTTATCACTTGATACTAC-AAAAAGCCA
1 TTGTAAGGGTTA-CTCTTGAT-CT-CGAAAAAGCCA
10737484 TTGTAAGGGTTACTGCTTGATC
1 TTGTAAGGGTTACT-CTTGATC
10737506 CCTCTAAAAA
Statistics
Matches: 48, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
34 2 0.04
35 43 0.90
36 2 0.04
37 1 0.02
ACGTcount: A:0.28, C:0.16, G:0.22, T:0.34
Consensus pattern (33 bp):
TTGTAAGGGTTACTCTTGATCTCGAAAAAGCCA
Found at i:10748358 original size:35 final size:36
Alignment explanation
Indices: 10748319--10748399 Score: 87
Period size: 35 Copynumber: 2.3 Consensus size: 36
10748309 CATTAAAAGG
* ***
10748319 CATTGTTGTGGGTT-TTGGCTGAGCTTGTGAAAAAC
1 CATTGTTGAGGGTTGTTGGCTGAGCCCATGAAAAAC
* *
10748354 CATTG-TGAGGGTTGTTGGTTGATCCCATGAAAAAC
1 CATTGTTGAGGGTTGTTGGCTGAGCCCATGAAAAAC
10748389 CATTG-TGAGGG
1 CATTGTTGAGGG
10748400 CTTGATCCCA
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
34 7 0.18
35 32 0.82
ACGTcount: A:0.22, C:0.12, G:0.32, T:0.33
Consensus pattern (36 bp):
CATTGTTGAGGGTTGTTGGCTGAGCCCATGAAAAAC
Found at i:10750203 original size:39 final size:40
Alignment explanation
Indices: 10750134--10750220 Score: 101
Period size: 39 Copynumber: 2.2 Consensus size: 40
10750124 GCGAAATTCA
10750134 TTCTCGCTACAGCAAGATTCAAGCGACAAAATA-A-AAAGT
1 TTCTCGCTACAGCAAGATTCAAGCGACAAAA-ACAGAAAGT
* *
10750173 TTCTCGCTACAGCAAG-TTGCAGGC-AGCAAAAACAGAATGT
1 TTCTCGCTACAGCAAGATT-CAAGCGA-CAAAAACAGAAAGT
10750213 TTCTCGCT
1 TTCTCGCT
10750221 GTAGCGAGAA
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
38 4 0.10
39 26 0.62
40 12 0.29
ACGTcount: A:0.36, C:0.23, G:0.18, T:0.23
Consensus pattern (40 bp):
TTCTCGCTACAGCAAGATTCAAGCGACAAAAACAGAAAGT
Found at i:10763342 original size:2 final size:2
Alignment explanation
Indices: 10763337--10763372 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
10763327 TGTATATATA
10763337 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
10763373 CCTAGAGGTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:10782245 original size:2 final size:2
Alignment explanation
Indices: 10782232--10782261 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
10782222 TAGGTGTTTT
*
10782232 AG AG AG AA AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
10782262 CTTTCATAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.53, C:0.00, G:0.47, T:0.00
Consensus pattern (2 bp):
AG
Found at i:10782905 original size:43 final size:43
Alignment explanation
Indices: 10782797--10782933 Score: 118
Period size: 48 Copynumber: 3.1 Consensus size: 43
10782787 TTGTGTGATA
* * * * *
10782797 ATGATGACCCAGCAATGTGTGGTGTGGGAGTACACATGAGCTA
1 ATGATGACCCAGCTATGTGCGATGTGGGAGTGCACATGAGCTG
*
10782840 ATGATGACCCAACCCAACTATGTGCGATGTGGGAGTGCACATGAGCTG
1 ATGATG-----ACCCAGCTATGTGCGATGTGGGAGTGCACATGAGCTG
* * *
10782888 ATGATGACCCGGCTATGTTCGA-GTAGGAAGTGCACATGA--TG
1 ATGATGACCCAGCTATGTGCGATGT-GGGAGTGCACATGAGCTG
10782929 ATGAT
1 ATGAT
10782934 ATTGCATTGT
Statistics
Matches: 78, Mismatches: 10, Indels: 14
0.76 0.10 0.14
Matches are distributed among these distances:
41 7 0.09
42 2 0.03
43 32 0.41
48 37 0.47
ACGTcount: A:0.28, C:0.18, G:0.31, T:0.23
Consensus pattern (43 bp):
ATGATGACCCAGCTATGTGCGATGTGGGAGTGCACATGAGCTG
Found at i:10796494 original size:19 final size:19
Alignment explanation
Indices: 10796454--10796495 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
10796444 AGACCTAAGG
* *
10796454 AATAAATGAATGATGGTAA
1 AATAAATGAATGAAGATAA
10796473 AATAAATGAAT-AAGATAGA
1 AATAAATGAATGAAGATA-A
10796492 AATA
1 AATA
10796496 CTGATAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 4 0.20
19 16 0.80
ACGTcount: A:0.60, C:0.00, G:0.17, T:0.24
Consensus pattern (19 bp):
AATAAATGAATGAAGATAA
Found at i:10797567 original size:43 final size:41
Alignment explanation
Indices: 10797498--10797591 Score: 118
Period size: 43 Copynumber: 2.2 Consensus size: 41
10797488 TCCTTTTGTG
*
10797498 TGATAATGATGACCCAGCTATGTGCGATGT-GGGAGTGAACA
1 TGATGATGATGACCCAGCTATGTGCGA-GTAGGGAGTGAACA
* * *
10797539 TGAGCTGATGATGACCCGGCTATTTGCGAGTAGGGAGTGCACA
1 TGA--TGATGATGACCCAGCTATGTGCGAGTAGGGAGTGAACA
10797582 TGATGATGAT
1 TGATGATGAT
10797592 ATTGCATTGT
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
41 10 0.22
42 2 0.04
43 34 0.74
ACGTcount: A:0.27, C:0.15, G:0.33, T:0.26
Consensus pattern (41 bp):
TGATGATGATGACCCAGCTATGTGCGAGTAGGGAGTGAACA
Done.