Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr13
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: 91551117
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2824764 characters in sequence are not A, C, G, or T
File 10 of 276
Found at i:3056073 original size:25 final size:25
Alignment explanation
Indices: 3056045--3056109 Score: 94
Period size: 25 Copynumber: 2.6 Consensus size: 25
3056035 CATTCACATT
* *
3056045 CTGATTTTGATTCTGTTACCTGATA
1 CTGATTCTGATTCTGTTACCTCATA
*
3056070 CTGATTCTGATTCTGTTACCTCATT
1 CTGATTCTGATTCTGTTACCTCATA
*
3056095 CTGATTCTGGTTCTG
1 CTGATTCTGATTCTG
3056110 ATTCTGATTC
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.15, C:0.20, G:0.17, T:0.48
Consensus pattern (25 bp):
CTGATTCTGATTCTGTTACCTCATA
Found at i:3056074 original size:19 final size:19
Alignment explanation
Indices: 3056070--3056195 Score: 107
Period size: 19 Copynumber: 6.4 Consensus size: 19
3056060 TTACCTGATA
3056070 CTGATTCTGATTCTGTTAC
1 CTGATTCTGATTCTGTTAC
*
3056089 CTCATTCTGATTCTGGTT--
1 CTGATTCTGATTCT-GTTAC
3056107 CTGATTCTGATTCTGTTACC
1 CTGATTCTGATTCTGTTA-C
3056127 TGATACTGATTCTGATTCTGTTAC
1 -----CTGATTCTGATTCTGTTAC
* *
3056151 CTAATTCTAATTCTGATT--
1 CTGATTCTGATTCTG-TTAC
* *
3056169 CTGATTTTGATTCTGTCAC
1 CTGATTCTGATTCTGTTAC
3056188 CTGATTCT
1 CTGATTCT
3056196 AATTTTGATT
Statistics
Matches: 86, Mismatches: 9, Indels: 24
0.72 0.08 0.20
Matches are distributed among these distances:
17 4 0.05
18 25 0.29
19 33 0.38
20 5 0.06
24 1 0.01
25 18 0.21
ACGTcount: A:0.17, C:0.21, G:0.14, T:0.48
Consensus pattern (19 bp):
CTGATTCTGATTCTGTTAC
Found at i:3056111 original size:37 final size:37
Alignment explanation
Indices: 3056064--3056146 Score: 130
Period size: 37 Copynumber: 2.2 Consensus size: 37
3056054 ATTCTGTTAC
* *
3056064 CTGATACTGATTCTGATTCTGTTACCTCATTCTGATT
1 CTGATTCTGATTCTGATTCTGTTACCTCATACTGATT
* *
3056101 CTGGTTCTGATTCTGATTCTGTTACCTGATACTGATT
1 CTGATTCTGATTCTGATTCTGTTACCTCATACTGATT
3056138 CTGATTCTG
1 CTGATTCTG
3056147 TTACCTAATT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.17, C:0.20, G:0.17, T:0.46
Consensus pattern (37 bp):
CTGATTCTGATTCTGATTCTGTTACCTCATACTGATT
Found at i:3056137 original size:25 final size:25
Alignment explanation
Indices: 3056107--3056171 Score: 103
Period size: 25 Copynumber: 2.6 Consensus size: 25
3056097 GATTCTGGTT
*
3056107 CTGATTCTGATTCTGTTACCTGATA
1 CTGATTCTGATTCTGTTACCTAATA
*
3056132 CTGATTCTGATTCTGTTACCTAATT
1 CTGATTCTGATTCTGTTACCTAATA
*
3056157 CTAATTCTGATTCTG
1 CTGATTCTGATTCTG
3056172 ATTTTGATTC
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.20, C:0.20, G:0.14, T:0.46
Consensus pattern (25 bp):
CTGATTCTGATTCTGTTACCTAATA
Found at i:3056140 original size:62 final size:62
Alignment explanation
Indices: 3056042--3056208 Score: 262
Period size: 62 Copynumber: 2.7 Consensus size: 62
3056032 TTGCATTCAC
* *
3056042 ATTCTGATTTTGATTCTGTTACCTGATACTGATTCTGATTCTGTTACCTCATTCTGATTCTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTGATTCTGATTCTGTTACCTAATTCTAATTCTG
* *
3056104 GTTCTGATTCTGATTCTGTTACCTGATACTGATTCTGATTCTGTTACCTAATTCTAATTCTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTGATTCTGATTCTGTTACCTAATTCTAATTCTG
* * * *
3056166 ATTCTGATTTTGATTCTGTCACCTGATTCTAATTTTGATTCTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTGATTCTGATTCTG
3056209 ATTCTAGTTC
Statistics
Matches: 95, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
62 95 1.00
ACGTcount: A:0.19, C:0.19, G:0.14, T:0.49
Consensus pattern (62 bp):
ATTCTGATTTTGATTCTGTTACCTGATACTGATTCTGATTCTGTTACCTAATTCTAATTCTG
Found at i:3056220 original size:37 final size:37
Alignment explanation
Indices: 3056126--3056213 Score: 131
Period size: 37 Copynumber: 2.4 Consensus size: 37
3056116 ATTCTGTTAC
* *
3056126 CTGATACTGATTCTGATTCTGTTACCTAATTCTAATT
1 CTGATTCTGATTCTGATTCTGTCACCTAATTCTAATT
* *
3056163 CTGATTCTGATTTTGATTCTGTCACCTGATTCTAATT
1 CTGATTCTGATTCTGATTCTGTCACCTAATTCTAATT
*
3056200 TTGATTCTGATTCT
1 CTGATTCTGATTCT
3056214 AGTTCTGATA
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 45 1.00
ACGTcount: A:0.20, C:0.18, G:0.12, T:0.49
Consensus pattern (37 bp):
CTGATTCTGATTCTGATTCTGTCACCTAATTCTAATT
Found at i:3058219 original size:27 final size:27
Alignment explanation
Indices: 3058183--3058359 Score: 160
Period size: 27 Copynumber: 6.6 Consensus size: 27
3058173 CAAAACCAAA
* **
3058183 ACCAAAATACCCTTGGTTTACAAAATT
1 ACCAAAATACCCCTGGTTTGTAAAATT
3058210 ACCAAAATACCCCTGGTTTGTAAAATT
1 ACCAAAATACCCCTGGTTTGTAAAATT
* * *
3058237 ATCAAAATATCCCTAGTTTGTAAAATT
1 ACCAAAATACCCCTGGTTTGTAAAATT
* *
3058264 ACCAAAATACCCCTGATTTGTGAAATT
1 ACCAAAATACCCCTGGTTTGTAAAATT
* ***
3058291 ACAAAAATA-CCCTCGACCTGTAAAATT
1 ACCAAAATACCCCT-GGTTTGTAAAATT
*** **
3058318 ATTGAAATA-CCCTCGACTTGTAAAATT
1 ACCAAAATACCCCT-GGTTTGTAAAATT
*
3058345 ACCAAAGTACCCCTG
1 ACCAAAATACCCCTG
3058360 ATTTATAGAA
Statistics
Matches: 125, Mismatches: 23, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
26 4 0.03
27 117 0.94
28 4 0.03
ACGTcount: A:0.39, C:0.23, G:0.10, T:0.29
Consensus pattern (27 bp):
ACCAAAATACCCCTGGTTTGTAAAATT
Found at i:3058389 original size:27 final size:27
Alignment explanation
Indices: 3058359--3058463 Score: 113
Period size: 27 Copynumber: 3.9 Consensus size: 27
3058349 AAGTACCCCT
* *
3058359 GATTTATAGAATTA-TCGTTTTACCATC
1 GATTTACAGAATTACT-ATTTTACCATC
* *
3058386 GATTGACAGAATTACTATTTTACCCTC
1 GATTTACAGAATTACTATTTTACCATC
* * *
3058413 GATTTACAAAATTACTACTTTACCCTC
1 GATTTACAGAATTACTATTTTACCATC
* *
3058440 GATTTACAAAATTACCATTTTACC
1 GATTTACAGAATTACTATTTTACC
3058464 CCTAGGGTGT
Statistics
Matches: 68, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
27 67 0.99
28 1 0.01
ACGTcount: A:0.32, C:0.21, G:0.08, T:0.39
Consensus pattern (27 bp):
GATTTACAGAATTACTATTTTACCATC
Found at i:3058410 original size:54 final size:54
Alignment explanation
Indices: 3058352--3058466 Score: 128
Period size: 54 Copynumber: 2.1 Consensus size: 54
3058342 ATTACCAAAG
* * * *
3058352 TACCCCT-GATTTATAGAATTATCGT-TTTACCATCGATTGACAGAATTACTATTT
1 TACCCCTCGATTTACAAAATTA-C-TATTTACCATCGATTGACAAAATTACCATTT
* *
3058406 TA-CCCTCGATTTACAAAATTACTACTTTACCCTCGATTTACAAAATTACCATTT
1 TACCCCTCGATTTACAAAATTACTA-TTTACCATCGATTGACAAAATTACCATTT
3058460 TACCCCT
1 TACCCCT
3058467 AGGGTGTTAA
Statistics
Matches: 51, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
52 1 0.02
53 5 0.10
54 41 0.80
55 4 0.08
ACGTcount: A:0.30, C:0.24, G:0.07, T:0.38
Consensus pattern (54 bp):
TACCCCTCGATTTACAAAATTACTATTTACCATCGATTGACAAAATTACCATTT
Found at i:3058464 original size:27 final size:27
Alignment explanation
Indices: 3058376--3058464 Score: 133
Period size: 27 Copynumber: 3.3 Consensus size: 27
3058366 AGAATTATCG
* * *
3058376 TTTTACCATCGATTGACAGAATTACTA
1 TTTTACCCTCGATTTACAAAATTACTA
3058403 TTTTACCCTCGATTTACAAAATTACTA
1 TTTTACCCTCGATTTACAAAATTACTA
* *
3058430 CTTTACCCTCGATTTACAAAATTACCA
1 TTTTACCCTCGATTTACAAAATTACTA
3058457 TTTTACCC
1 TTTTACCC
3058465 CTAGGGTGTT
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 56 1.00
ACGTcount: A:0.31, C:0.25, G:0.06, T:0.38
Consensus pattern (27 bp):
TTTTACCCTCGATTTACAAAATTACTA
Found at i:3058744 original size:27 final size:26
Alignment explanation
Indices: 3058700--3058751 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
3058690 CTCGCTGCAA
*
3058700 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
3058727 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
3058752 GCAACCTGGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:3058789 original size:67 final size:68
Alignment explanation
Indices: 3058681--3058820 Score: 183
Period size: 69 Copynumber: 2.1 Consensus size: 68
3058671 GAGGAAGCGT
* * * * *
3058681 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCC-ACATATATCTGTTCTGGTGACTTCGTCACA
1 TCTGGCAACCTCGCTGCAATCTAGTGGCCTCGCCAACATATATCTGTTCTGGTGACCTAGCCACA
3058745 ATA
66 ATA
* * * *
3058748 TCTGGCAACCTGGCTGCAATCTAGTGGCTTCGCCATATATATATCTGTTCTGGTGGCCTAGCCAC
1 TCTGGCAACCTCGCTGCAATCTAGTGGCCTCGCCA-ACATATATCTGTTCTGGTGACCTAGCCAC
3058813 AATA
65 AATA
3058817 TCTG
1 TCTG
3058821 TATTTGGTGA
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
67 30 0.48
69 32 0.52
ACGTcount: A:0.19, C:0.28, G:0.22, T:0.31
Consensus pattern (68 bp):
TCTGGCAACCTCGCTGCAATCTAGTGGCCTCGCCAACATATATCTGTTCTGGTGACCTAGCCACA
ATA
Found at i:3059008 original size:6 final size:6
Alignment explanation
Indices: 3058966--3059121 Score: 99
Period size: 6 Copynumber: 25.3 Consensus size: 6
3058956 TTTCATTCAC
* * * * *
3058966 ATTCTG ATTTTG ATTATG -TTACCTG ATACTA ATTCTG ATTCTG -TTACCTC
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATT--CTG
*
3059016 ATTCTG ATTCT- AGTTCTG ATTCTG ATTCT- ATTACCTA ATTCTG ATTCTG
1 ATTCTG ATTCTG A-TTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG
* * *
3059065 ATTCTG ATTTTG ATTCT- ATCACCTG ATTCTG ATTTTG ATTCTG ATTCT-
1 ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG
3059113 AGTTCTG AT
1 A-TTCTG AT
3059122 AATGTTTCTT
Statistics
Matches: 118, Mismatches: 16, Indels: 32
0.71 0.10 0.19
Matches are distributed among these distances:
5 11 0.09
6 89 0.75
7 10 0.08
8 8 0.07
ACGTcount: A:0.21, C:0.17, G:0.13, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:3059021 original size:19 final size:19
Alignment explanation
Indices: 3058994--3059064 Score: 92
Period size: 19 Copynumber: 3.8 Consensus size: 19
3058984 TTACCTGATA
3058994 CTAATTCTGATTCTGTTAC
1 CTAATTCTGATTCTGTTAC
*
3059013 CTCATTCTGATTCTAGTT--
1 CTAATTCTGATTCT-GTTAC
* *
3059031 CTGATTCTGATTCTATTAC
1 CTAATTCTGATTCTGTTAC
3059050 CTAATTCTGATTCTG
1 CTAATTCTGATTCTG
3059065 ATTCTGATTT
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
17 2 0.05
18 13 0.30
19 26 0.59
20 3 0.07
ACGTcount: A:0.20, C:0.21, G:0.11, T:0.48
Consensus pattern (19 bp):
CTAATTCTGATTCTGTTAC
Found at i:3059025 original size:25 final size:25
Alignment explanation
Indices: 3058966--3059107 Score: 107
Period size: 25 Copynumber: 5.7 Consensus size: 25
3058956 TTTCATTCAC
* *
3058966 ATTCTGATTTTGATTATGTTACCTG
1 ATTCTGATTCTGATTCTGTTACCTG
* * *
3058991 ATACTAATTCTGATTCTGTTACCTC
1 ATTCTGATTCTGATTCTGTTACCTG
3059016 ATTCTGATTCT-AGTTCTGATT--CTG
1 ATTCTGATTCTGA-TTCTG-TTACCTG
*
3059040 ATTCT-ATTACCTAATTCTGATT--CTG
1 ATTCTGATT--CTGATTCTG-TTACCTG
* * *
3059065 ATTCTGATTTTGATTCTATCACCTG
1 ATTCTGATTCTGATTCTGTTACCTG
*
3059090 ATTCTGATTTTGATTCTG
1 ATTCTGATTCTGATTCTG
3059108 ATTCTAGTTC
Statistics
Matches: 96, Mismatches: 13, Indels: 16
0.77 0.10 0.13
Matches are distributed among these distances:
23 4 0.04
24 14 0.15
25 72 0.75
26 6 0.06
ACGTcount: A:0.20, C:0.18, G:0.13, T:0.49
Consensus pattern (25 bp):
ATTCTGATTCTGATTCTGTTACCTG
Found at i:3059038 original size:37 final size:37
Alignment explanation
Indices: 3058988--3059112 Score: 162
Period size: 37 Copynumber: 3.4 Consensus size: 37
3058978 ATTATGTTAC
* * * *
3058988 CTGATACTAATTCTGATTCTGTTACCTCATTCTGATT
1 CTGATTCTGATTCTGATTCTATTACCTAATTCTGATT
3059025 CT-AGTTCTGATTCTGATTCTATTACCTAATTCTGATT
1 CTGA-TTCTGATTCTGATTCTATTACCTAATTCTGATT
* * *
3059062 CTGATTCTGATTTTGATTCTATCACCTGATTCTGATT
1 CTGATTCTGATTCTGATTCTATTACCTAATTCTGATT
*
3059099 TTGATTCTGATTCT
1 CTGATTCTGATTCT
3059113 AGTTCTGATA
Statistics
Matches: 77, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
36 1 0.01
37 75 0.97
38 1 0.01
ACGTcount: A:0.20, C:0.19, G:0.12, T:0.49
Consensus pattern (37 bp):
CTGATTCTGATTCTGATTCTATTACCTAATTCTGATT
Found at i:3064000 original size:21 final size:21
Alignment explanation
Indices: 3063974--3064022 Score: 98
Period size: 21 Copynumber: 2.3 Consensus size: 21
3063964 TACACGACCT
3063974 GACCACATGGGCGTGTCCTTA
1 GACCACATGGGCGTGTCCTTA
3063995 GACCACATGGGCGTGTCCTTA
1 GACCACATGGGCGTGTCCTTA
3064016 GACCACA
1 GACCACA
3064023 CTAGCGTGTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.22, C:0.31, G:0.27, T:0.20
Consensus pattern (21 bp):
GACCACATGGGCGTGTCCTTA
Found at i:3064029 original size:21 final size:21
Alignment explanation
Indices: 3063974--3064031 Score: 82
Period size: 21 Copynumber: 2.8 Consensus size: 21
3063964 TACACGACCT
*
3063974 GACCACATGGGCGTGTCCTTA
1 GACCACATGAGCGTGTCCTTA
*
3063995 GACCACATGGGCGTGTCCTTA
1 GACCACATGAGCGTGTCCTTA
3064016 GACCACACT-AGCGTGT
1 GACCACA-TGAGCGTGT
3064032 GAGCCCTACA
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
21 34 0.97
22 1 0.03
ACGTcount: A:0.21, C:0.29, G:0.28, T:0.22
Consensus pattern (21 bp):
GACCACATGAGCGTGTCCTTA
Found at i:3070127 original size:13 final size:14
Alignment explanation
Indices: 3070109--3070142 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
3070099 CCCAGTCTTG
3070109 CACCGCCACTG-GC
1 CACCGCCACTGTGC
*
3070122 CACCGCCTCTGTGC
1 CACCGCCACTGTGC
3070136 CACCGCC
1 CACCGCC
3070143 CTTTTGTACC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 10 0.53
14 9 0.47
ACGTcount: A:0.12, C:0.56, G:0.21, T:0.12
Consensus pattern (14 bp):
CACCGCCACTGTGC
Found at i:3072153 original size:48 final size:48
Alignment explanation
Indices: 3072065--3072187 Score: 140
Period size: 48 Copynumber: 2.6 Consensus size: 48
3072055 TGAGATCTCG
* * * *
3072065 TGTAAAACCATGTATGGGACATGGAATCAGCATTGATATGTG-TGTCA
1 TGTAAGACCATGTCTGGGAAATGGCATCAGCATTGATATGTGATGTCA
* * * * *
3072112 TTGTAAGACCATATCTGGGAAATGGCATCGGCTTTGGTATGTGATTTCA
1 -TGTAAGACCATGTCTGGGAAATGGCATCAGCATTGATATGTGATGTCA
*
3072161 TGTAAGACCATGTCTGGGATATGGCAT
1 TGTAAGACCATGTCTGGGAAATGGCAT
3072188 TGATATGAGA
Statistics
Matches: 63, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
48 59 0.94
49 4 0.06
ACGTcount: A:0.28, C:0.14, G:0.27, T:0.32
Consensus pattern (48 bp):
TGTAAGACCATGTCTGGGAAATGGCATCAGCATTGATATGTGATGTCA
Found at i:3072213 original size:42 final size:42
Alignment explanation
Indices: 3072149--3072272 Score: 158
Period size: 42 Copynumber: 3.0 Consensus size: 42
3072139 TCGGCTTTGG
* * * **
3072149 TATGTGATTTCATGTAAGACCATGTCTGGGATATGGCATTGA
1 TATGAGATTTCGTGTAAGACCATGTCTGGGACATGGCATCAA
* *
3072191 TATGAGATTTCGTGTAAGACCATGTCTGAGACATGACATCAA
1 TATGAGATTTCGTGTAAGACCATGTCTGGGACATGGCATCAA
* * *
3072233 TATGAGGTCTCGTGAAAGACCATGTCTGGGACATGGCATC
1 TATGAGATTTCGTGTAAGACCATGTCTGGGACATGGCATC
3072273 GGCACCGACA
Statistics
Matches: 70, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 70 1.00
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (42 bp):
TATGAGATTTCGTGTAAGACCATGTCTGGGACATGGCATCAA
Found at i:3075906 original size:40 final size:41
Alignment explanation
Indices: 3075817--3075966 Score: 203
Period size: 41 Copynumber: 3.7 Consensus size: 41
3075807 CGCTGACTCA
* * *
3075817 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACATTGCCCC
1 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
* * * * * *
3075858 GAAGGCCCTTCGAAACTAGGTTC-GATTATGACACTGGCTC
1 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
3075898 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
1 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
*
3075939 AAAAGCCCTTCGAGAGCAAGCTCGGATT
1 AAAAGCCCTTCGAGACCAAGCTCGGATT
3075967 TAAACCCCGA
Statistics
Matches: 92, Mismatches: 16, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
40 31 0.34
41 61 0.66
ACGTcount: A:0.29, C:0.28, G:0.23, T:0.21
Consensus pattern (41 bp):
AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
Found at i:3083979 original size:41 final size:40
Alignment explanation
Indices: 3083926--3084030 Score: 111
Period size: 40 Copynumber: 2.6 Consensus size: 40
3083916 CGCTGACTCA
* *
3083926 AAAAGCCCTTCGAGACCAAGCTCAGATTATGACATTGGCCC
1 AAAAGCCCTTCGAGACCAAGCTC-GATTATGACACTGGACC
* * * * * * * *
3083967 GAAGGCCCTTCGAAACTAGGTTCGGTTATGACACTGGATC
1 AAAAGCCCTTCGAGACCAAGCTCGATTATGACACTGGACC
3084007 AAAAGCCCTTCGAGACCAAGCTCG
1 AAAAGCCCTTCGAGACCAAGCTCG
3084031 GATTTAAACC
Statistics
Matches: 48, Mismatches: 16, Indels: 1
0.74 0.25 0.02
Matches are distributed among these distances:
40 31 0.65
41 17 0.35
ACGTcount: A:0.30, C:0.28, G:0.23, T:0.20
Consensus pattern (40 bp):
AAAAGCCCTTCGAGACCAAGCTCGATTATGACACTGGACC
Found at i:3086054 original size:31 final size:31
Alignment explanation
Indices: 3086019--3086081 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
3086009 GCTCAGCATC
* *
3086019 TTTAATCAAATCAACCCCGAAGATTTTTCTT
1 TTTAATCAAATCAACCCCGAAAATTTTACTT
*
3086050 TTTAATCAAATCAACTCCGAAAATTTTACTT
1 TTTAATCAAATCAACCCCGAAAATTTTACTT
3086081 T
1 T
3086082 CACCAAGCTC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.35, C:0.21, G:0.05, T:0.40
Consensus pattern (31 bp):
TTTAATCAAATCAACCCCGAAAATTTTACTT
Found at i:3091563 original size:41 final size:40
Alignment explanation
Indices: 3091450--3091595 Score: 166
Period size: 41 Copynumber: 3.6 Consensus size: 40
3091440 CGCTGACTCA
* *
3091450 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACATTGGCCC
1 AAAAGCCCTTCGAGACCAAGCTC-GATTATGACACTGGCTC
* * * * * * * * *
3091491 GAAGGCCTTTCGAAACTAGGTTCGGTTATGACACTGGCTT
1 AAAAGCCCTTCGAGACCAAGCTCGATTATGACACTGGCTC
3091531 AAAAGCCCTTCGAGACCAAGCTCGAATTATGACACTGGCTC
1 AAAAGCCCTTCGAGACCAAGCTCG-ATTATGACACTGGCTC
*
3091572 AAAAGCCCTTTGAGACCAAGCTCG
1 AAAAGCCCTTCGAGACCAAGCTCG
3091596 GATTTAAACC
Statistics
Matches: 83, Mismatches: 21, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
40 30 0.36
41 53 0.64
ACGTcount: A:0.29, C:0.27, G:0.23, T:0.22
Consensus pattern (40 bp):
AAAAGCCCTTCGAGACCAAGCTCGATTATGACACTGGCTC
Found at i:3097037 original size:46 final size:46
Alignment explanation
Indices: 3096974--3097064 Score: 128
Period size: 46 Copynumber: 2.0 Consensus size: 46
3096964 ATGTATTGAG
* * * * *
3096974 TGTAATGTATTGGGCTTTGTGCCTAGTAGGCTTTATGCCGATGTAC
1 TGTAATGTATCGAGCTTTGTGCCTAGCAGACTTTATGCAGATGTAC
*
3097020 TGTAATGTATCGAGCTTTGTGCCTAGCAGACTTTGTGCAGATGTA
1 TGTAATGTATCGAGCTTTGTGCCTAGCAGACTTTATGCAGATGTA
3097065 TCTATTGGGG
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.20, C:0.15, G:0.27, T:0.37
Consensus pattern (46 bp):
TGTAATGTATCGAGCTTTGTGCCTAGCAGACTTTATGCAGATGTAC
Found at i:3100515 original size:23 final size:24
Alignment explanation
Indices: 3100485--3100540 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 24
3100475 GAGCTGATGG
** *
3100485 ACAGTAAGCCCTATTGAGCT-GAA
1 ACAGTAAGCCCTAACGAGCTAAAA
*
3100508 ACAGTAAGCTCTAACGAGCTAAAA
1 ACAGTAAGCCCTAACGAGCTAAAA
3100532 ACAGTAAGC
1 ACAGTAAGC
3100541 TTTTATGAGC
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
23 17 0.61
24 11 0.39
ACGTcount: A:0.41, C:0.21, G:0.20, T:0.18
Consensus pattern (24 bp):
ACAGTAAGCCCTAACGAGCTAAAA
Found at i:3100576 original size:26 final size:24
Alignment explanation
Indices: 3100485--3100578 Score: 68
Period size: 24 Copynumber: 3.8 Consensus size: 24
3100475 GAGCTGATGG
* *
3100485 ACAGTAAGCCCTATTGAGCTG--AA
1 ACAGTAAGCTCTA-CGAGCTGAAAA
3100508 ACAGTAAGCTCTAACGAGCT-AAAA
1 ACAGTAAGCTCT-ACGAGCTGAAAA
* * *
3100532 ACAGTAAGCTTTTATGAGCTGATATA
1 ACAGTAAGC-TCTACGAGCTGA-AAA
*
3100558 TCAGTAAGCTCATACGAGCTG
1 ACAGTAAGCTC-TACGAGCTG
3100579 CGGTGAGTCC
Statistics
Matches: 56, Mismatches: 8, Indels: 11
0.75 0.11 0.15
Matches are distributed among these distances:
23 16 0.29
24 18 0.32
25 4 0.07
26 18 0.32
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.24
Consensus pattern (24 bp):
ACAGTAAGCTCTACGAGCTGAAAA
Found at i:3101920 original size:22 final size:22
Alignment explanation
Indices: 3101892--3101934 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
3101882 ATCGCAGTAC
3101892 ATCTTATTACCACCACCATGCT
1 ATCTTATTACCACCACCATGCT
*
3101914 ATCTTATTACCACCAGCATGC
1 ATCTTATTACCACCACCATGC
3101935 ATAGCATAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.28, C:0.35, G:0.07, T:0.30
Consensus pattern (22 bp):
ATCTTATTACCACCACCATGCT
Found at i:3110572 original size:25 final size:28
Alignment explanation
Indices: 3110529--3110579 Score: 81
Period size: 26 Copynumber: 1.9 Consensus size: 28
3110519 TTGTTAAAAC
3110529 TCTTCTAAAAGAAAACTC-AAGAGAAAT
1 TCTTCTAAAAGAAAACTCAAAGAGAAAT
3110556 TCTT-TAAAA-AAAACTCAAAGAGAA
1 TCTTCTAAAAGAAAACTCAAAGAGAA
3110580 TTAATTGACT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 7 0.30
26 12 0.52
27 4 0.17
ACGTcount: A:0.55, C:0.14, G:0.10, T:0.22
Consensus pattern (28 bp):
TCTTCTAAAAGAAAACTCAAAGAGAAAT
Found at i:3112889 original size:8 final size:8
Alignment explanation
Indices: 3112876--3112904 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
3112866 TTTAATGAGA
3112876 TATTTTAT
1 TATTTTAT
3112884 TATTTTAT
1 TATTTTAT
3112892 TATTTTAT
1 TATTTTAT
3112900 TATTT
1 TATTT
3112905 ATTTAATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TATTTTAT
Found at i:3115074 original size:46 final size:46
Alignment explanation
Indices: 3114999--3115319 Score: 434
Period size: 46 Copynumber: 7.0 Consensus size: 46
3114989 GCTTTCTGAA
*
3114999 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATATGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*
3115045 ATGGAATATGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATATGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*
3115091 ATGAAATATGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAT
1 ATGAAATATGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* * *
3115137 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
1 ATGAAATATGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*
3115183 ATGAAATGA-ATAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAAT-ATGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
** * *
3115229 GGGGAAATGA-ATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 -ATGAAAT-ATGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* * * *
3115276 A-GAAAGTGA-GTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 ATGAAA-T-ATGTAAGACCATGGTTGAAAGATACCATGGCAACATG
3115320 TCGAAGATAA
Statistics
Matches: 252, Mismatches: 20, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
45 4 0.02
46 205 0.81
47 43 0.17
ACGTcount: A:0.40, C:0.14, G:0.24, T:0.22
Consensus pattern (46 bp):
ATGAAATATGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
Found at i:3116559 original size:41 final size:40
Alignment explanation
Indices: 3116496--3116582 Score: 147
Period size: 41 Copynumber: 2.1 Consensus size: 40
3116486 CACCTAGCAC
* *
3116496 CTCATCGAGTAATTCGAAGTAGTAAATTGACACCCAGTGT
1 CTCATCGAATAAATCGAAGTAGTAAATTGACACCCAGTGT
3116536 CTCATCGAATAAATCTGAAGTAGTAAATTGACACCCAGTGT
1 CTCATCGAATAAATC-GAAGTAGTAAATTGACACCCAGTGT
3116577 CTCATC
1 CTCATC
3116583 AGTTAAACTG
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
40 13 0.30
41 31 0.70
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.28
Consensus pattern (40 bp):
CTCATCGAATAAATCGAAGTAGTAAATTGACACCCAGTGT
Found at i:3117519 original size:12 final size:13
Alignment explanation
Indices: 3117496--3117534 Score: 53
Period size: 12 Copynumber: 3.0 Consensus size: 13
3117486 GCTGTGGCTT
3117496 TCTTTCTTCTTTC
1 TCTTTCTTCTTTC
*
3117509 TCTTT-TTCTTTT
1 TCTTTCTTCTTTC
3117521 TCTTTCTTTCTTTC
1 TCTTTC-TTCTTTC
3117535 CTGTTTAGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 11 0.50
13 5 0.23
14 6 0.27
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (13 bp):
TCTTTCTTCTTTC
Found at i:3117525 original size:25 final size:25
Alignment explanation
Indices: 3117494--3117570 Score: 77
Period size: 26 Copynumber: 3.1 Consensus size: 25
3117484 AGGCTGTGGC
3117494 TTTCTTTCTTCTTTCTCTTTTTCTT
1 TTTCTTTCTTCTTTCTCTTTTTCTT
**
3117519 TTTCTTTCTTTCTTTC-CTGTTTAGTT
1 TTTCTTTC-TTCTTTCTCT-TTTTCTT
* * *
3117545 TTGCTTTGTTCTTT-TTTTTTTCTT
1 TTTCTTTCTTCTTTCTCTTTTTCTT
3117569 TT
1 TT
3117571 ATTTATTTGT
Statistics
Matches: 42, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
24 7 0.17
25 17 0.40
26 18 0.43
ACGTcount: A:0.01, C:0.18, G:0.05, T:0.75
Consensus pattern (25 bp):
TTTCTTTCTTCTTTCTCTTTTTCTT
Found at i:3119282 original size:15 final size:17
Alignment explanation
Indices: 3119264--3119305 Score: 52
Period size: 15 Copynumber: 2.6 Consensus size: 17
3119254 TAATCACTTT
3119264 AATATTAAATT-AA-TA
1 AATATTAAATTAAATTA
* *
3119279 AATATTATATTAAATTT
1 AATATTAAATTAAATTA
3119296 AATATTAAAT
1 AATATTAAAT
3119306 CTTATTAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
15 10 0.45
16 2 0.09
17 10 0.45
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
AATATTAAATTAAATTA
Found at i:3119445 original size:17 final size:18
Alignment explanation
Indices: 3119406--3119446 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
3119396 TACTATTAAG
3119406 AAAAGTATTAAATTAGATT
1 AAAA-TATTAAATTAGATT
*
3119425 -AAATATTAAATT-TATT
1 AAAATATTAAATTAGATT
3119441 AAAATA
1 AAAATA
3119447 ATATTATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
16 3 0.15
17 14 0.70
18 3 0.15
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.39
Consensus pattern (18 bp):
AAAATATTAAATTAGATT
Found at i:3120855 original size:15 final size:15
Alignment explanation
Indices: 3120835--3120865 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
3120825 CATTATTATC
3120835 TGTCACGAAAAAGAT
1 TGTCACGAAAAAGAT
*
3120850 TGTCACGGAAAAGAT
1 TGTCACGAAAAAGAT
3120865 T
1 T
3120866 AGATAGGATG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.42, C:0.13, G:0.23, T:0.23
Consensus pattern (15 bp):
TGTCACGAAAAAGAT
Found at i:3126588 original size:59 final size:59
Alignment explanation
Indices: 3126513--3126630 Score: 227
Period size: 59 Copynumber: 2.0 Consensus size: 59
3126503 AAGATAAAAA
*
3126513 GGGAAAGTGAAGCAAATGAAAGACAGAATCTCATGGTACCTCGGTAACGCCAACGAAGT
1 GGGAAAGAGAAGCAAATGAAAGACAGAATCTCATGGTACCTCGGTAACGCCAACGAAGT
3126572 GGGAAAGAGAAGCAAATGAAAGACAGAATCTCATGGTACCTCGGTAACGCCAACGAAGT
1 GGGAAAGAGAAGCAAATGAAAGACAGAATCTCATGGTACCTCGGTAACGCCAACGAAGT
3126631 CGATAGATTG
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 58 1.00
ACGTcount: A:0.40, C:0.19, G:0.27, T:0.14
Consensus pattern (59 bp):
GGGAAAGAGAAGCAAATGAAAGACAGAATCTCATGGTACCTCGGTAACGCCAACGAAGT
Found at i:3146542 original size:24 final size:25
Alignment explanation
Indices: 3146496--3146542 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
3146486 TCCGAGCTAA
*
3146496 TCAGGAAACTCATAAGAGTTTTTAC
1 TCAGGAAACTCATAAGAGCTTTTAC
*
3146521 TCAGGAAGCTCAT-AGAGCTTTT
1 TCAGGAAACTCATAAGAGCTTTT
3146543 CAGATATCTC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 8 0.40
25 12 0.60
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.32
Consensus pattern (25 bp):
TCAGGAAACTCATAAGAGCTTTTAC
Found at i:3149205 original size:52 final size:52
Alignment explanation
Indices: 3149109--3149297 Score: 197
Period size: 50 Copynumber: 3.7 Consensus size: 52
3149099 GTTGTGAGAA
* *** *
3149109 CACATGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAAATGGTTTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATGGTTTTAGGT
* * *
3149161 CACGTGTGTAGTACTAAGTGCAGACTACTACGTGTACCAGATGG--TTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATGGTTTTAGGT
* * * * * *
3149211 CGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCTGATAGCTTCTA--T
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGAT-GGTTTTAGGT
* *
3149262 CACATGTGTGGTACTAAGTGCAGGCCACTATGTGTA
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTA
3149298 AAAGATAACT
Statistics
Matches: 112, Mismatches: 22, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
50 41 0.37
51 33 0.29
52 36 0.32
53 2 0.02
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.32
Consensus pattern (52 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATGGTTTTAGGT
Found at i:3149232 original size:50 final size:51
Alignment explanation
Indices: 3149109--3149240 Score: 167
Period size: 52 Copynumber: 2.6 Consensus size: 51
3149099 GTTGTGAGAA
* **
3149109 CACATGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAAATGGTTTTAGGT
1 CACATGTGTAGTACTATGTGCAGGCTACTACGTGTACAAAATGG-TTTAGGT
* * * * *
3149161 CACGTGTGTAGTACTAAGTGCAGACTACTACGTGTACCAGATGG-TTAGGT
1 CACATGTGTAGTACTATGTGCAGGCTACTACGTGTACAAAATGGTTTAGGT
*
3149211 CGCATGTGTAGTACTATGTGCAGGCTACTA
1 CACATGTGTAGTACTATGTGCAGGCTACTA
3149241 TGCGTACCTG
Statistics
Matches: 68, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
50 32 0.47
52 36 0.53
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.33
Consensus pattern (51 bp):
CACATGTGTAGTACTATGTGCAGGCTACTACGTGTACAAAATGGTTTAGGT
Found at i:3149316 original size:51 final size:51
Alignment explanation
Indices: 3149109--3149392 Score: 200
Period size: 51 Copynumber: 5.6 Consensus size: 51
3149099 GTTGTGAGAA
* * * *
3149109 CACATGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAA-ATGGTTTTAGGT
1 CACATGTGTAGTACTATGTGCAGGCCACTATGTG-TAAAAGATAGCTTT-GGT
* * * * * ** * *
3149161 CACGTGTGTAGTACTAAGTGCAGACTACTACGTGTACCAGAT-GGTTAGGT
1 CACATGTGTAGTACTATGTGCAGGCCACTATGTGTAAAAGATAGCTTTGGT
* * * *** *
3149211 CGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCTGATAGCTTCT-AT
1 CACATGTGTAGTACTATGTGCAGGCCACTATGTGTAAAAGATAGCTT-TGGT
* * *
3149262 CACATGTGTGGTACTAAGTGCAGGCCACTATGTGTAAAAGATAACTTTGGT
1 CACATGTGTAGTACTATGTGCAGGCCACTATGTGTAAAAGATAGCTTTGGT
* * * * * *
3149313 CACAAGTGTGGTACTATGTGAAGGCCACTTTGTG-AAGAAGGTAGCTTT-GA
1 CACATGTGTAGTACTATGTGCAGGCCACTATGTGTAA-AAGATAGCTTTGGT
* * *
3149363 CTACAAGGGTGGTACTATGTGCAGGCCACT
1 C-ACATGTGTAGTACTATGTGCAGGCCACT
3149393 GGGCATCTGT
Statistics
Matches: 188, Mismatches: 38, Indels: 13
0.79 0.16 0.05
Matches are distributed among these distances:
50 43 0.23
51 113 0.60
52 32 0.17
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.31
Consensus pattern (51 bp):
CACATGTGTAGTACTATGTGCAGGCCACTATGTGTAAAAGATAGCTTTGGT
Found at i:3152478 original size:34 final size:34
Alignment explanation
Indices: 3152399--3152479 Score: 101
Period size: 34 Copynumber: 2.4 Consensus size: 34
3152389 ATGATACTGT
* * **
3152399 ACTGAAATGGGCTAAGGCCCACACTGATACTATT
1 ACTGATATGGGCTAAGGCCCACACTAATACTACG
*
3152433 ACTG-TATTGGGCTAAGGCCCACACTAATACTGCG
1 ACTGATA-TGGGCTAAGGCCCACACTAATACTACG
3152467 ACTGATATGGGCT
1 ACTGATATGGGCT
3152480 TAAGCCTGGA
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
33 1 0.03
34 37 0.93
35 2 0.05
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.25
Consensus pattern (34 bp):
ACTGATATGGGCTAAGGCCCACACTAATACTACG
Found at i:3153787 original size:6 final size:6
Alignment explanation
Indices: 3153776--3153833 Score: 68
Period size: 6 Copynumber: 10.0 Consensus size: 6
3153766 TATCTCTGTC
* *
3153776 TTTAAT TTTAAT TTTAAT CTTTAAT TTTAAT TTTAAT GTTAGT TTT-A-
1 TTTAAT TTTAAT TTTAAT -TTTAAT TTTAAT TTTAAT TTTAAT TTTAAT
3153823 TTT-AT TTTAAT
1 TTTAAT TTTAAT
3153834 AAAGCCGGCC
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
4 4 0.09
5 3 0.07
6 32 0.71
7 6 0.13
ACGTcount: A:0.29, C:0.02, G:0.03, T:0.66
Consensus pattern (6 bp):
TTTAAT
Found at i:3153790 original size:25 final size:25
Alignment explanation
Indices: 3153748--3153812 Score: 69
Period size: 25 Copynumber: 2.6 Consensus size: 25
3153738 TCTTAGTTTT
* *
3153748 ATTTTAATTTTTCATTTTTATCTCT-
1 ATTTTAA-TTTTAATTTTAATCTCTA
* *
3153773 GTCTTTAATTTTAATTTTAATCTTTA
1 AT-TTTAATTTTAATTTTAATCTCTA
3153799 ATTTTAATTTTAAT
1 ATTTTAATTTTAAT
3153813 GTTAGTTTTA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
25 27 0.82
26 6 0.18
ACGTcount: A:0.26, C:0.08, G:0.02, T:0.65
Consensus pattern (25 bp):
ATTTTAATTTTAATTTTAATCTCTA
Found at i:3153796 original size:19 final size:19
Alignment explanation
Indices: 3153774--3153812 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
3153764 TTTATCTCTG
3153774 TCTTTAATTTTAATTTTAA
1 TCTTTAATTTTAATTTTAA
3153793 TCTTTAATTTTAATTTTAA
1 TCTTTAATTTTAATTTTAA
3153812 T
1 T
3153813 GTTAGTTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.64
Consensus pattern (19 bp):
TCTTTAATTTTAATTTTAA
Found at i:3155811 original size:25 final size:25
Alignment explanation
Indices: 3155758--3155805 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
3155748 ATTTCTTATC
* *
3155758 TTTAGTTTTTATTTCTTTTTAGGTG
1 TTTAGTTTTTATTTCTTGTTAGATG
3155783 TTTA-TTTTTATTTCCTTGTTAGA
1 TTTAGTTTTTATTT-CTTGTTAGA
3155806 ATTTTAGCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 9 0.45
25 11 0.55
ACGTcount: A:0.15, C:0.06, G:0.12, T:0.67
Consensus pattern (25 bp):
TTTAGTTTTTATTTCTTGTTAGATG
Found at i:3156045 original size:25 final size:25
Alignment explanation
Indices: 3156011--3156058 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
3156001 AAATGGGAGG
3156011 GTAAGGTATTTCACATGAATTTTTA
1 GTAAGGTATTTCACATGAATTTTTA
*
3156036 GTAAGGTATTTCGCATGAATTTT
1 GTAAGGTATTTCACATGAATTTT
3156059 GAAGTATGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.29, C:0.08, G:0.19, T:0.44
Consensus pattern (25 bp):
GTAAGGTATTTCACATGAATTTTTA
Found at i:3163789 original size:26 final size:26
Alignment explanation
Indices: 3163753--3163826 Score: 96
Period size: 25 Copynumber: 2.9 Consensus size: 26
3163743 GATTTACTCG
*
3163753 GGCTGTTAACACTAGCTTCAGATCAA
1 GGCTGCTAACACTAGCTTCAGATCAA
*
3163779 GGCTGCTAACACTAGCTT-AGTTCAA
1 GGCTGCTAACACTAGCTTCAGATCAA
* * *
3163804 TGTTACTAACACTAGCTTCAGAT
1 GGCTGCTAACACTAGCTTCAGAT
3163827 AATCTGCAAC
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
25 21 0.51
26 20 0.49
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.30
Consensus pattern (26 bp):
GGCTGCTAACACTAGCTTCAGATCAA
Found at i:3165259 original size:103 final size:103
Alignment explanation
Indices: 3165143--3165348 Score: 394
Period size: 103 Copynumber: 2.0 Consensus size: 103
3165133 AATGAAAAAA
3165143 AAAAGATAATAATGTCTTTTCTTATGTTTTAGTTTTATCCTTTTAACATATATTAATAATTTAAT
1 AAAAGATAATAATGTCTTTTCTTATGTTTTAGTTTTATCCTTTTAACATATATTAATAATTTAAT
3165208 TAATATTTTCATATATAATTCACTCAAATCTAAGCCAC
66 TAATATTTTCATATATAATTCACTCAAATCTAAGCCAC
*
3165246 AAAAGATAATAATGTTTTTTCTTATGTTTTAGTTTTATCCTTTTAACATATATTAATAATTTAAT
1 AAAAGATAATAATGTCTTTTCTTATGTTTTAGTTTTATCCTTTTAACATATATTAATAATTTAAT
*
3165311 TAATATTTTCATATATAGTTCACTCAAATCTAAGCCAC
66 TAATATTTTCATATATAATTCACTCAAATCTAAGCCAC
3165349 TAATCGACTA
Statistics
Matches: 101, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
103 101 1.00
ACGTcount: A:0.36, C:0.12, G:0.05, T:0.46
Consensus pattern (103 bp):
AAAAGATAATAATGTCTTTTCTTATGTTTTAGTTTTATCCTTTTAACATATATTAATAATTTAAT
TAATATTTTCATATATAATTCACTCAAATCTAAGCCAC
Found at i:3173217 original size:26 final size:24
Alignment explanation
Indices: 3173170--3173219 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 24
3173160 TTATAAATCA
*
3173170 GAAAAATATCTCTAGAAATTTTCT
1 GAAAAATATCTCCAGAAATTTTCT
*
3173194 GAAATAATCTCTCCAGAGAATTTTCT
1 GAAA-AATATCTCCAGA-AATTTTCT
3173220 CTCTACAACT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 4 0.18
25 10 0.45
26 8 0.36
ACGTcount: A:0.38, C:0.16, G:0.10, T:0.36
Consensus pattern (24 bp):
GAAAAATATCTCCAGAAATTTTCT
Found at i:3175280 original size:17 final size:17
Alignment explanation
Indices: 3175258--3175296 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
3175248 AAGTCTAATA
*
3175258 AAATAATTAAAATAAAT
1 AAATAACTAAAATAAAT
*
3175275 AAATAACTAAGATAAAT
1 AAATAACTAAAATAAAT
3175292 AAATA
1 AAATA
3175297 GAACAATAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.69, C:0.03, G:0.03, T:0.26
Consensus pattern (17 bp):
AAATAACTAAAATAAAT
Found at i:3177896 original size:22 final size:20
Alignment explanation
Indices: 3177870--3177915 Score: 56
Period size: 22 Copynumber: 2.2 Consensus size: 20
3177860 AATCTTTGCC
3177870 CCTTTCTTTCTTCTCTTTTTCT
1 CCTTTCTTTCTT-T-TTTTTCT
* *
3177892 CCTTTTTTTCTTTTTTTTTT
1 CCTTTCTTTCTTTTTTTTCT
3177912 CCTT
1 CCTT
3177916 AACTTTATTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 10 0.45
21 1 0.05
22 11 0.50
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (20 bp):
CCTTTCTTTCTTTTTTTTCT
Found at i:3186046 original size:32 final size:32
Alignment explanation
Indices: 3186005--3186072 Score: 127
Period size: 32 Copynumber: 2.1 Consensus size: 32
3185995 AAATAATAAG
3186005 ACCAGAAAACCTTTCTCTTATCATCATTTACA
1 ACCAGAAAACCTTTCTCTTATCATCATTTACA
*
3186037 ACCAGAAAACCTTTCTCTTATTATCATTTACA
1 ACCAGAAAACCTTTCTCTTATCATCATTTACA
3186069 ACCA
1 ACCA
3186073 AGTATAGCAC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.35, C:0.28, G:0.03, T:0.34
Consensus pattern (32 bp):
ACCAGAAAACCTTTCTCTTATCATCATTTACA
Found at i:3192414 original size:8 final size:8
Alignment explanation
Indices: 3192392--3192421 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
3192382 TACTTCAATT
3192392 TTATTTTA
1 TTATTTTA
3192400 TTTATTTTA
1 -TTATTTTA
3192409 TTATTTTA
1 TTATTTTA
3192417 TTATT
1 TTATT
3192422 CTATAAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 13 0.62
9 8 0.38
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (8 bp):
TTATTTTA
Found at i:3193616 original size:22 final size:22
Alignment explanation
Indices: 3193590--3193632 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
3193580 GATAGAATGC
3193590 ATAAAGAAGAAAAGATAAGAAA
1 ATAAAGAAGAAAAGATAAGAAA
*
3193612 ATAAAGGAGAAAAGATAAGAA
1 ATAAAGAAGAAAAGATAAGAA
3193633 CTTACATGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.70, C:0.00, G:0.21, T:0.09
Consensus pattern (22 bp):
ATAAAGAAGAAAAGATAAGAAA
Found at i:3195232 original size:20 final size:20
Alignment explanation
Indices: 3195207--3195251 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
3195197 TGGTGTAATC
3195207 AAATAG-GTAAAAATCTCATA
1 AAATAGTGTAAAAATCTCA-A
* *
3195227 AAATAGTGTCAAATTCTCAA
1 AAATAGTGTAAAAATCTCAA
3195247 AAATA
1 AAATA
3195252 CGATTTAAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.53, C:0.11, G:0.09, T:0.27
Consensus pattern (20 bp):
AAATAGTGTAAAAATCTCAA
Found at i:3196313 original size:10 final size:10
Alignment explanation
Indices: 3196298--3196352 Score: 55
Period size: 10 Copynumber: 5.8 Consensus size: 10
3196288 TCTACAAGTT
3196298 ATTTTTAATA
1 ATTTTTAATA
3196308 ATTTTTAATA
1 ATTTTTAATA
3196318 A-TTTTAATA
1 ATTTTTAATA
*
3196327 A-GTTT-ATA
1 ATTTTTAATA
*
3196335 ATTTCTT-ATC
1 ATTT-TTAATA
3196345 ATTTTTAA
1 ATTTTTAA
3196353 ATTTTTTTAG
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
8 4 0.10
9 15 0.38
10 20 0.51
ACGTcount: A:0.36, C:0.04, G:0.02, T:0.58
Consensus pattern (10 bp):
ATTTTTAATA
Found at i:3196322 original size:9 final size:9
Alignment explanation
Indices: 3196300--3196338 Score: 53
Period size: 9 Copynumber: 4.3 Consensus size: 9
3196290 TACAAGTTAT
3196300 TTTTAATAA
1 TTTTAATAA
3196309 TTTTTAATAA
1 -TTTTAATAA
3196319 TTTTAATAA
1 TTTTAATAA
*
3196328 GTTT-ATAA
1 TTTTAATAA
3196336 TTT
1 TTT
3196339 CTTATCATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
8 6 0.22
9 12 0.44
10 9 0.33
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (9 bp):
TTTTAATAA
Found at i:3196511 original size:10 final size:9
Alignment explanation
Indices: 3196482--3196512 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
3196472 ATATTTATTA
*
3196482 TTTAAGATT
1 TTTAAAATT
3196491 TTTAAAATT
1 TTTAAAATT
3196500 TTTAAAATT
1 TTTAAAATT
3196509 TTTA
1 TTTA
3196513 CGCTAAACTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (9 bp):
TTTAAAATT
Found at i:3204149 original size:40 final size:40
Alignment explanation
Indices: 3204066--3204328 Score: 325
Period size: 40 Copynumber: 6.6 Consensus size: 40
3204056 TTGAATGCTG
* * * * * *
3204066 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
3204106 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
3204146 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
3204186 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
3204226 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
3204266 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
3204305 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
3204329 TGAACGAGGA
Statistics
Matches: 201, Mismatches: 19, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.17
40 158 0.79
41 8 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:3204348 original size:79 final size:80
Alignment explanation
Indices: 3204105--3204363 Score: 256
Period size: 80 Copynumber: 3.3 Consensus size: 80
3204095 AAGTGAATAT
* * * * * *
3204105 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCAT
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAT
** * *
3204169 TCGTGCGAGTTA-TTAA
65 TCGAACGAG-GAGCTAA
* * *
3204185 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
** ** *
3204250 CGTGCGAGTTGTTAA
66 CGAACGAGGAGCTAA
* * *
3204265 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
* *
3204329 TGAACGAGGAGCTAT
66 CGAACGAGGAGCTAA
*
3204344 ATCC-GGTTAAATCCCGAAGG
1 ATCCGGGTTAAGTCCCGAAGG
3204364 TACGTGATTT
Statistics
Matches: 156, Mismatches: 21, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
78 14 0.09
79 48 0.31
80 94 0.60
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (80 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
CGAACGAGGAGCTAA
Found at i:3212101 original size:40 final size:40
Alignment explanation
Indices: 3212018--3212280 Score: 325
Period size: 40 Copynumber: 6.6 Consensus size: 40
3212008 TTGAATGCTG
* * * * * *
3212018 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
3212058 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
3212098 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
3212138 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
3212178 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
3212218 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
3212257 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
3212281 TGAACGAGGA
Statistics
Matches: 201, Mismatches: 19, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.17
40 158 0.79
41 8 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:3212300 original size:79 final size:80
Alignment explanation
Indices: 3212057--3212315 Score: 256
Period size: 80 Copynumber: 3.3 Consensus size: 80
3212047 AAGTGAATAT
* * * * * *
3212057 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCAT
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAT
** * *
3212121 TCGTGCGAGTTA-TTAA
65 TCGAACGAG-GAGCTAA
* * *
3212137 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
** ** *
3212202 CGTGCGAGTTGTTAA
66 CGAACGAGGAGCTAA
* * *
3212217 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
* *
3212281 TGAACGAGGAGCTAT
66 CGAACGAGGAGCTAA
*
3212296 ATCC-GGTTAAATCCCGAAGG
1 ATCCGGGTTAAGTCCCGAAGG
3212316 TACGTGATTT
Statistics
Matches: 156, Mismatches: 21, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
78 14 0.09
79 48 0.31
80 94 0.60
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (80 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
CGAACGAGGAGCTAA
Found at i:3214846 original size:44 final size:44
Alignment explanation
Indices: 3214787--3215291 Score: 159
Period size: 44 Copynumber: 10.8 Consensus size: 44
3214777 CCTTTATTTT
*
3214787 AATCCGCTCCACTATAATCTCAGGGAGATAGGATTACTAGCTTC
1 AATCCGCTCCACTATAATCTCAGGGAGATAAGATTACTAGCTTC
* * * * *
3214831 AATCTGCTCCGCTATAATCTTAGGGAGATAAGATTTCTGGCTTC
1 AATCCGCTCCACTATAATCTCAGGGAGATAAGATTACTAGCTTC
* * ** * * *
3214875 AATATGATGCGATCTACTCTACTGTAA-CTTCAAAGAGATAAGATCCT-TTA-TTTT
1 ---A--ATCCG--CT-C-C-ACTATAATC-TCAGGGAGATAAGAT--TACTAGCTTC
* * *
3214929 AATCCGCTCCACTGTAATATCAGGGAGATAGGATTACTAGCTTC
1 AATCCGCTCCACTATAATCTCAGGGAGATAAGATTACTAGCTTC
** * **
3214973 AATTTGCTCCACTGTAATCTCAGGGAGATAAGATTTTTAGCTTC
1 AATCCGCTCCACTATAATCTCAGGGAGATAAGATTACTAGCTTC
* * * *
3215017 AATCTAATGCGATCTACTCTACTGTAA-CTTCAGAGAGAT--GA-TACCCTTTA-TTTT
1 AATC-----CG--CT-C-C-ACTATAATC-TCAGGGAGATAAGATTA--C--TAGCTTC
* * *
3215071 AATCCGCTCCACTATAATATCAGGAAGATAGGATTACTAGCTTC
1 AATCCGCTCCACTATAATCTCAGGGAGATAAGATTACTAGCTTC
* ** * * * *
3215115 AATCTGCTCCGGTGTAATCTCTGGGAGATAAGATTTCTGGCTTC
1 AATCCGCTCCACTATAATCTCAGGGAGATAAGATTACTAGCTTC
* * * *
3215159 AATCTGATGCGATCTACTCTACTGTAA-CTTCAGAGAGATAAGATCCT-TTA-CTTT
1 AATC-----CG--CT-C-C-ACTATAATC-TCAGGGAGATAAGAT--TACTAGCTTC
* * *
3215213 AATGCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTC
1 AATCCGCTCCACTATAATCTCAGGGAGATAAGATTACTAGCTTC
* * *
3215257 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGATT
1 AATCCGCTCCACTATAATCTCAGGGAGATAAGATT
3215292 TCTTCTTCAG
Statistics
Matches: 338, Mismatches: 71, Indels: 104
0.66 0.14 0.20
Matches are distributed among these distances:
42 2 0.01
43 6 0.02
44 208 0.62
45 5 0.01
46 5 0.01
47 9 0.03
49 13 0.04
51 8 0.02
52 5 0.01
53 6 0.02
54 65 0.19
55 4 0.01
56 2 0.01
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (44 bp):
AATCCGCTCCACTATAATCTCAGGGAGATAAGATTACTAGCTTC
Found at i:3214998 original size:142 final size:142
Alignment explanation
Indices: 3214736--3215294 Score: 929
Period size: 142 Copynumber: 3.9 Consensus size: 142
3214726 GAGATACGAC
3214736 CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTA
1 CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTA
* * *
3214801 TAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTATAATCTTAGGGAGATAAGATT
66 TAATATCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATT
3214866 TCTGGCTTCAAT
131 TCTGGCTTCAAT
* * *
3214878 ATGATGCGATCTACTCTACTGTAACTTCAAAGAGATAAGATCCTTTATTTTAATCCGCTCCACTG
1 CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTA
* *
3214943 TAATATCAGGGAGATAGGATTACTAGCTTCAATTTGCTCCACTGTAATCTCAGGGAGATAAGATT
66 TAATATCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATT
* *
3215008 TTTAGCTTCAAT
131 TCTGGCTTCAAT
* * * *
3215020 CTAATGCGATCTACTCTACTGTAACTTCAGAGAGATGATACCCTTTATTTTAATCCGCTCCACTA
1 CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTA
* * *
3215085 TAATATCAGGAAGATAGGATTACTAGCTTCAATCTGCTCCGGTGTAATCTCTGGGAGATAAGATT
66 TAATATCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATT
3215150 TCTGGCTTCAAT
131 TCTGGCTTCAAT
* * *
3215162 CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTACTTTAATGCGCTCCACTG
1 CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTA
*
3215227 TAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATT
66 TAATATCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATT
3215292 TCT
131 TCT
3215295 TCTTCAGTCT
Statistics
Matches: 382, Mismatches: 35, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
142 382 1.00
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (142 bp):
CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTA
TAATATCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATT
TCTGGCTTCAAT
Found at i:3215316 original size:43 final size:43
Alignment explanation
Indices: 3215221--3215350 Score: 122
Period size: 44 Copynumber: 3.0 Consensus size: 43
3215211 TTAATGCGCT
* * * * *
3215221 CCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCT
1 CCACTGTAATCTCAGGGAGATAAGATTTCT-TCTTCAGTCTGCC
*
3215265 CCGCTGTAATCTCAGGGAGATAAGATTTCTTCTTCAGTCTGCC
1 CCACTGTAATCTCAGGGAGATAAGATTTCTTCTTCAGTCTGCC
* *
3215308 CCATTGTAA-CTTCAGGG-GAATAAGACTTGTTTTCTT-AGTCTGC
1 CCACTGTAATC-TCAGGGAG-ATAAGA-TT-TCTTCTTCAGTCTGC
3215351 TCTGCCACTG
Statistics
Matches: 73, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
42 2 0.03
43 29 0.40
44 36 0.49
45 6 0.08
ACGTcount: A:0.24, C:0.22, G:0.21, T:0.33
Consensus pattern (43 bp):
CCACTGTAATCTCAGGGAGATAAGATTTCTTCTTCAGTCTGCC
Found at i:3215518 original size:131 final size:131
Alignment explanation
Indices: 3215346--3215818 Score: 741
Period size: 131 Copynumber: 3.6 Consensus size: 131
3215336 GTTTTCTTAG
* * * * * * *
3215346 TCTGCTCTGCCACTGCTTAGGGAAACAAGATCTGCAATTTCCAACCTATTCTACTGCTGATCAGG
1 TCTGCTCCGCTACTGCTTAGAGAGACAAGACCTGCAATTTCCAACCTATTCCACTGCTGGTCAGG
*
3215411 GACATAGGACGTGTGGCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCGCCGTCTCCG
66 GACATAGGACGTGTGGCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCGCCGTCTTCG
3215476 A
131 A
* *
3215477 TCTGCTCCGCTACTGCTTAGAGAGACAAGACCTACAATTTCCAACCTAGTCCACTGCTGGTCAGG
1 TCTGCTCCGCTACTGCTTAGAGAGACAAGACCTGCAATTTCCAACCTATTCCACTGCTGGTCAGG
* * *
3215542 GACATAGGACGTGTGGCTTAAATCTGCTTCCCTACTCTTGGGGAAGATAAGATTCGCCGTTTTCG
66 GACATAGGACGTGTGGCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCGCCGTCTTCG
3215607 A
131 A
* * *
3215608 TTTGCTCCGCTACTGCTTAGGGAGACAAGACCTGTAATTTCCAACCTATTCCACTGCTGGTCAGG
1 TCTGCTCCGCTACTGCTTAGAGAGACAAGACCTGCAATTTCCAACCTATTCCACTGCTGGTCAGG
* *
3215673 GACATAGGACGTGTGGCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGATTTGTCGTCTTCG
66 GACATAGGACGTGTGGCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCGCCGTCTTCG
3215738 A
131 A
* *
3215739 TCTGCTCCGCTACTGCTTA-AGGAGACAAGATCTGCAATTTCCAACCTATTCCATTGCTGGTCAG
1 TCTGCTCCGCTACTGCTTAGA-GAGACAAGACCTGCAATTTCCAACCTATTCCACTGCTGGTCAG
*
3215803 GGACATAGGACTTGTG
65 GGACATAGGACGTGTG
3215819 ATTTCATTGA
Statistics
Matches: 312, Mismatches: 29, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
131 312 1.00
ACGTcount: A:0.23, C:0.25, G:0.23, T:0.29
Consensus pattern (131 bp):
TCTGCTCCGCTACTGCTTAGAGAGACAAGACCTGCAATTTCCAACCTATTCCACTGCTGGTCAGG
GACATAGGACGTGTGGCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCGCCGTCTTCG
A
Found at i:3217081 original size:7 final size:7
Alignment explanation
Indices: 3217064--3217113 Score: 55
Period size: 8 Copynumber: 6.7 Consensus size: 7
3217054 GGCCTCTCCA
3217064 TTTTTACT
1 TTTTTA-T
3217072 TTTTTAT
1 TTTTTAT
*
3217079 TTTTCAT
1 TTTTTAT
3217086 TTTTTCAT
1 TTTTT-AT
3217094 TTTTTCAT
1 TTTTT-AT
*
3217102 TTTTCAT
1 TTTTTAT
3217109 TTTTT
1 TTTTT
3217114 TTACTCAAAG
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
7 17 0.46
8 20 0.54
ACGTcount: A:0.12, C:0.10, G:0.00, T:0.78
Consensus pattern (7 bp):
TTTTTAT
Found at i:3217113 original size:15 final size:15
Alignment explanation
Indices: 3217062--3217112 Score: 63
Period size: 14 Copynumber: 3.5 Consensus size: 15
3217052 TTGGCCTCTC
3217062 CATTTTT-ACTTTTTT
1 CATTTTTCA-TTTTTT
3217077 -ATTTTTCATTTTTT
1 CATTTTTCATTTTTT
3217091 CATTTTTTCA-TTTTT
1 CA-TTTTTCATTTTTT
3217106 CATTTTT
1 CATTTTT
3217113 TTTACTCAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
14 17 0.52
15 9 0.27
16 7 0.21
ACGTcount: A:0.14, C:0.12, G:0.00, T:0.75
Consensus pattern (15 bp):
CATTTTTCATTTTTT
Found at i:3217114 original size:16 final size:16
Alignment explanation
Indices: 3217062--3217113 Score: 67
Period size: 15 Copynumber: 3.5 Consensus size: 16
3217052 TTGGCCTCTC
*
3217062 CATTTTTAC-TTTTTT
1 CATTTTTTCATTTTTT
3217077 -A-TTTTTCATTTTTT
1 CATTTTTTCATTTTTT
3217091 CATTTTTTCA-TTTTT
1 CATTTTTTCATTTTTT
3217106 CATTTTTT
1 CATTTTTT
3217114 TTACTCAAAG
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
13 5 0.15
14 7 0.21
15 14 0.42
16 7 0.21
ACGTcount: A:0.13, C:0.12, G:0.00, T:0.75
Consensus pattern (16 bp):
CATTTTTTCATTTTTT
Found at i:3218034 original size:22 final size:22
Alignment explanation
Indices: 3217982--3218053 Score: 92
Period size: 22 Copynumber: 3.2 Consensus size: 22
3217972 CTTCTCTCTT
* * *
3217982 TTTTCATTTTCATTTTGACTTTG
1 TTTTGATTTTGATTTT-TCTTTG
3218005 ATTTTGATTTTGATTTTTCTTTG
1 -TTTTGATTTTGATTTTTCTTTG
3218028 TTTTGATTTTGATTTTT-TTTG
1 TTTTGATTTTGATTTTTCTTTG
3218049 TTTTG
1 TTTTG
3218054 CTTCCTTTTT
Statistics
Matches: 45, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
21 9 0.20
22 17 0.38
23 5 0.11
24 14 0.31
ACGTcount: A:0.11, C:0.06, G:0.12, T:0.71
Consensus pattern (22 bp):
TTTTGATTTTGATTTTTCTTTG
Found at i:3218052 original size:6 final size:6
Alignment explanation
Indices: 3217982--3218043 Score: 67
Period size: 6 Copynumber: 10.7 Consensus size: 6
3217972 CTTCTCTCTT
* * *
3217982 TTTTCA TTTTCA TTTTGA CTTTGA TTTTGA TTTTGA TTTT-- TCTTTG-
1 TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA T-TTTGA
3218028 TTTTGA TTTTGA TTTT
1 TTTTGA TTTTGA TTTT
3218044 TTTTGTTTTG
Statistics
Matches: 50, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
4 1 0.02
5 7 0.14
6 42 0.84
ACGTcount: A:0.13, C:0.06, G:0.11, T:0.69
Consensus pattern (6 bp):
TTTTGA
Found at i:3228536 original size:17 final size:17
Alignment explanation
Indices: 3228516--3228578 Score: 54
Period size: 17 Copynumber: 3.5 Consensus size: 17
3228506 TAATTTCAAG
3228516 AATTATGTAATGTTTTT
1 AATTATGTAATGTTTTT
* ***
3228533 AATTATGTAGTGATTCAA
1 AATTATGTAATG-TTTTT
*
3228551 AGACTTATGTAATATTTTT
1 A-A-TTATGTAATGTTTTT
3228570 AATTATGTA
1 AATTATGTA
3228579 GTGATTCAAT
Statistics
Matches: 34, Mismatches: 9, Indels: 6
0.69 0.18 0.12
Matches are distributed among these distances:
17 18 0.53
18 4 0.12
19 4 0.12
20 8 0.24
ACGTcount: A:0.35, C:0.03, G:0.13, T:0.49
Consensus pattern (17 bp):
AATTATGTAATGTTTTT
Found at i:3228540 original size:37 final size:37
Alignment explanation
Indices: 3228513--3228587 Score: 114
Period size: 37 Copynumber: 2.0 Consensus size: 37
3228503 TGTTAATTTC
* *
3228513 AAGAATTATGTAATGTTTTTAATTATGTAGTGATTCA
1 AAGAATTATGTAATATTTTTAATTATGTAGTAATTCA
* *
3228550 AAGACTTATGTAATATTTTTAATTATGTAGTGATTCA
1 AAGAATTATGTAATATTTTTAATTATGTAGTAATTCA
3228587 A
1 A
3228588 TTCGGGTAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.36, C:0.04, G:0.15, T:0.45
Consensus pattern (37 bp):
AAGAATTATGTAATATTTTTAATTATGTAGTAATTCA
Found at i:3231421 original size:231 final size:231
Alignment explanation
Indices: 3231016--3231492 Score: 688
Period size: 231 Copynumber: 2.1 Consensus size: 231
3231006 CCTGTAACAA
* * *
3231016 TCACACTTGGATAACCTAATCATTTGTTTCTTGAATACTAAGTAGACTAAGACAAACTAATGAGT
1 TCACACTTGGATAGCATAATCATTTGATTCTTGAATACTAAGTAGACTAAGACAAACTAATGAGT
3231081 CTTATATACCATATCAACTCATTTGAGCATGGTCATGCATTTATAGTCTCACTTGATCAAAAAAC
66 CTTATATACCATATCAACTCATTTGAGCATGGTCATGCATTTATAGTCTCACTTGATCAAAAAAC
*** * * * * ** *
3231146 CTGGGATATCACTCTTATTAAGTAGGAGAGACAAATCGTATCTTGATCGTTTACATAC-CACTAC
131 CTAACATATCACTCCTATTAAATAGGAGAGAAAAATCCTATCTTGATCAATCACAT-CTCACTAC
* *** *
3231210 ATAGATTGTGGCATACCTAACACAAGTCTTGTAGTAG
195 ATAGATTGTGGCATACCCAACACAAGTCCCATAGCAG
* * *
3231247 TCACACTTGTATAGCATAATTATTTGATTCTTGAATGCTAAGTAGACTAAGACAAACTAATGAGT
1 TCACACTTGGATAGCATAATCATTTGATTCTTGAATACTAAGTAGACTAAGACAAACTAATGAGT
* * *
3231312 CTTATAT-CTCATATTAACTCATTTGAGCATGGTCATGCATTTCTAGTCTCACTTGATCAAAATA
66 CTTATATAC-CATATCAACTCATTTGAGCATGGTCATGCATTTATAGTCTCACTTGATCAAAAAA
*
3231376 CCTAACATATCACTCCTATTAAATAGGAGGGAAAAATCCTATCTTGATCAATCACATCTCACTAC
130 CCTAACATATCACTCCTATTAAATAGGAGAGAAAAATCCTATCTTGATCAATCACATCTCACTAC
*
3231441 ATGGATTGTGGCATACCCAACACAAGTCCCATAGCAG
195 ATAGATTGTGGCATACCCAACACAAGTCCCATAGCAG
3231478 TCACACTTGGATAGC
1 TCACACTTGGATAGC
3231493 CCTGTAGAAA
Statistics
Matches: 217, Mismatches: 27, Indels: 4
0.88 0.11 0.02
Matches are distributed among these distances:
230 2 0.01
231 215 0.99
ACGTcount: A:0.34, C:0.20, G:0.14, T:0.31
Consensus pattern (231 bp):
TCACACTTGGATAGCATAATCATTTGATTCTTGAATACTAAGTAGACTAAGACAAACTAATGAGT
CTTATATACCATATCAACTCATTTGAGCATGGTCATGCATTTATAGTCTCACTTGATCAAAAAAC
CTAACATATCACTCCTATTAAATAGGAGAGAAAAATCCTATCTTGATCAATCACATCTCACTACA
TAGATTGTGGCATACCCAACACAAGTCCCATAGCAG
Found at i:3231984 original size:32 final size:33
Alignment explanation
Indices: 3231917--3231998 Score: 130
Period size: 32 Copynumber: 2.5 Consensus size: 33
3231907 TCAAGATTCC
3231917 AACAAATACCTTAATGCCTTTTGTCAAAAAAAA
1 AACAAATACCTTAATGCCTTTTGTCAAAAAAAA
* **
3231950 AACAAATACCTTAGTGCCTTTT-TTTAAAAAAA
1 AACAAATACCTTAATGCCTTTTGTCAAAAAAAA
3231982 AACAAATACCTTAATGC
1 AACAAATACCTTAATGC
3231999 TTACATGATA
Statistics
Matches: 45, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
32 24 0.53
33 21 0.47
ACGTcount: A:0.46, C:0.18, G:0.06, T:0.29
Consensus pattern (33 bp):
AACAAATACCTTAATGCCTTTTGTCAAAAAAAA
Found at i:3253853 original size:3 final size:3
Alignment explanation
Indices: 3253847--3253873 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
3253837 AGTAGCAATT
3253847 ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA
3253874 TTTTGAAAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:3253975 original size:36 final size:38
Alignment explanation
Indices: 3253907--3253977 Score: 94
Period size: 36 Copynumber: 1.9 Consensus size: 38
3253897 GAAGTAAATA
*
3253907 ATAACTAATAAAAATGATATAATTAGACAAATATATAT
1 ATAACTAATAAAAATGAAATAATTAGACAAATATATAT
*
3253945 ATAA-TAA-AAAAATGAAATAAATTATA-AAATATA
1 ATAACTAATAAAAATGAAAT-AATTAGACAAATATA
3253978 CTAATTCATG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
36 17 0.57
37 9 0.30
38 4 0.13
ACGTcount: A:0.63, C:0.03, G:0.04, T:0.30
Consensus pattern (38 bp):
ATAACTAATAAAAATGAAATAATTAGACAAATATATAT
Found at i:3254063 original size:12 final size:12
Alignment explanation
Indices: 3254032--3254070 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
3254022 AGATAAAAAC
*
3254032 TAATAATAACAAG
1 TAATAATAA-TAG
*
3254045 CAATAATAATAG
1 TAATAATAATAG
3254057 TAATAATAATAG
1 TAATAATAATAG
3254069 TA
1 TA
3254071 CCAAATTTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
12 15 0.65
13 8 0.35
ACGTcount: A:0.59, C:0.05, G:0.08, T:0.28
Consensus pattern (12 bp):
TAATAATAATAG
Found at i:3256210 original size:43 final size:41
Alignment explanation
Indices: 3256082--3256211 Score: 147
Period size: 43 Copynumber: 3.0 Consensus size: 41
3256072 CATAGGATTT
3256082 TCGATATGTGTTATCGTGTAAGACCACGTCTGGGACGTTGGCA
1 TCGATATGTGTTA-CGTGTAAGACC-CGTCTGGGACGTTGGCA
* *
3256125 TCGACT-TGTGTTTACGTGTAAGAGCCTGTCTAGGACAG-TGGCA
1 TCGA-TATGTG-TTACGTGTAAGA-CCCGTCTGGGAC-GTTGGCA
*
3256168 TCGATATGTGATTACATGTAAGACCGCGTCTGGGACGTTGGCA
1 TCGATATGTG-TTACGTGTAAGACC-CGTCTGGGACGTTGGCA
3256211 T
1 T
3256212 TGTACGAGTT
Statistics
Matches: 74, Mismatches: 6, Indels: 14
0.79 0.06 0.15
Matches are distributed among these distances:
42 4 0.05
43 63 0.85
44 7 0.09
ACGTcount: A:0.22, C:0.18, G:0.30, T:0.30
Consensus pattern (41 bp):
TCGATATGTGTTACGTGTAAGACCCGTCTGGGACGTTGGCA
Found at i:3256879 original size:14 final size:15
Alignment explanation
Indices: 3256855--3256889 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
3256845 TACTTTAATC
3256855 ATGGATTAGTATTT-T
1 ATGG-TTAGTATTTAT
3256870 ATGGTTAGTATTTAT
1 ATGGTTAGTATTTAT
3256885 ATGGT
1 ATGGT
3256890 AATGTATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 9 0.47
15 10 0.53
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.51
Consensus pattern (15 bp):
ATGGTTAGTATTTAT
Found at i:3257251 original size:21 final size:21
Alignment explanation
Indices: 3257227--3257267 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
3257217 AAAAAATTGA
* *
3257227 ATATGTGCTGTTCAATTTTGT
1 ATATATGCTGTTAAATTTTGT
3257248 ATATATGCTGTTAAATTTTG
1 ATATATGCTGTTAAATTTTG
3257268 ACGTATAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.24, C:0.07, G:0.17, T:0.51
Consensus pattern (21 bp):
ATATATGCTGTTAAATTTTGT
Found at i:3257311 original size:47 final size:47
Alignment explanation
Indices: 3257249--3257637 Score: 619
Period size: 47 Copynumber: 8.4 Consensus size: 47
3257239 CAATTTTGTA
* *
3257249 TATATGCTGTTAAATTTTGACGTATAAATGCAGTCCAATTATATATG
1 TATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAATTATATATG
* * *
3257296 TATATGCTATCAAATTTCGATGTATAAATGCAGTCCAATTATATGTG
1 TATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAATTATATATG
3257343 TATATGCTGTCAAATTTTGATGTAT-AATGCAGTCCAATTATATATG
1 TATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAATTATATATG
*
3257389 TATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAATTATACATG
1 TATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAATTATATATG
3257436 TATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAATTATATATG
1 TATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAATTATATATG
3257483 TATATGCTGTCAAATTTTGATGTAT-AATGCAGTCCAATTATATATG
1 TATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAATTATATATG
* *
3257529 TATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAATT-T-TGTA
1 TATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAATTATATATG
* * * *
3257574 TATATGCTCTTAAATTTTGATGTATAAATGCAGTCCAATT-T-TGTA
1 TATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAATTATATATG
*
3257619 TATATGCTGTCCAATTTTG
1 TATATGCTGTCAAATTTTG
3257638 GTGAAAAAAA
Statistics
Matches: 323, Mismatches: 17, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
45 61 0.19
46 92 0.28
47 170 0.53
ACGTcount: A:0.32, C:0.12, G:0.15, T:0.41
Consensus pattern (47 bp):
TATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAATTATATATG
Found at i:3257392 original size:93 final size:94
Alignment explanation
Indices: 3257249--3257637 Score: 619
Period size: 93 Copynumber: 4.2 Consensus size: 94
3257239 CAATTTTGTA
* * * *
3257249 TATATGCTGTTAAATTTTGACGTATAAATGCAGTCCAATTATATATGTATATGCTATCAAATTTC
1 TATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAATTATATATGTATATGCTGTCAAATTTT
*
3257314 GATGTATAAATGCAGTCCAATTATATGTG
66 GATGTATAAATGCAGTCCAATTATATATG
3257343 TATATGCTGTCAAATTTTGATGTAT-AATGCAGTCCAATTATATATGTATATGCTGTCAAATTTT
1 TATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAATTATATATGTATATGCTGTCAAATTTT
*
3257407 GATGTATAAATGCAGTCCAATTATACATG
66 GATGTATAAATGCAGTCCAATTATATATG
3257436 TATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAATTATATATGTATATGCTGTCAAATTTT
1 TATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAATTATATATGTATATGCTGTCAAATTTT
3257501 GATGTAT-AATGCAGTCCAATTATATATG
66 GATGTATAAATGCAGTCCAATTATATATG
* * * *
3257529 TATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAATT-T-TGTATATATGCTCTTAAATTTT
1 TATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAATTATATATGTATATGCTGTCAAATTTT
* *
3257592 GATGTATAAATGCAGTCCAATT-T-TGTA
66 GATGTATAAATGCAGTCCAATTATATATG
*
3257619 TATATGCTGTCCAATTTTG
1 TATATGCTGTCAAATTTTG
3257638 GTGAAAAAAA
Statistics
Matches: 279, Mismatches: 14, Indels: 8
0.93 0.05 0.03
Matches are distributed among these distances:
90 20 0.07
91 26 0.09
92 15 0.05
93 149 0.53
94 69 0.25
ACGTcount: A:0.32, C:0.12, G:0.15, T:0.41
Consensus pattern (94 bp):
TATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAATTATATATGTATATGCTGTCAAATTTT
GATGTATAAATGCAGTCCAATTATATATG
Found at i:3257404 original size:140 final size:140
Alignment explanation
Indices: 3257249--3257637 Score: 642
Period size: 140 Copynumber: 2.8 Consensus size: 140
3257239 CAATTTTGTA
* * *
3257249 TATATGCTGTTAAATTTTGACGTATAAATGCAGTCCAATTATATATGTATATGCTATCAAATTTC
1 TATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAATTATATATGTATATGCTATCAAATTTT
3257314 GATGTATAAATGCAGTCCAATTATATGTGTATATGCTGTCAAATTTTGATGTATAATGCAGTCCA
66 GATGTATAAATGCAGTCCAATTATATGTGTATATGCTGTCAAATTTTGATGTATAATGCAGTCCA
3257379 ATTATATATG
131 ATTATATATG
* *
3257389 TATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAATTATACATGTATATGCTGTCAAATTTT
1 TATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAATTATATATGTATATGCTATCAAATTTT
*
3257454 GATGTATAAATGCAGTCCAATTATATATGTATATGCTGTCAAATTTTGATGTATAATGCAGTCCA
66 GATGTATAAATGCAGTCCAATTATATGTGTATATGCTGTCAAATTTTGATGTATAATGCAGTCCA
3257519 ATTATATATG
131 ATTATATATG
* * * *
3257529 TATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAATT-T-TGTATATATGCTCTTAAATTTT
1 TATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAATTATATATGTATATGCTATCAAATTTT
* *
3257592 GATGTATAAATGCAGTCCAATT-T-TGTATATATGCTGTCCAATTTTG
66 GATGTATAAATGCAGTCCAATTATATGTGTATATGCTGTCAAATTTTG
3257638 GTGAAAAAAA
Statistics
Matches: 235, Mismatches: 14, Indels: 4
0.93 0.06 0.02
Matches are distributed among these distances:
136 20 0.09
137 1 0.00
138 39 0.17
139 1 0.00
140 174 0.74
ACGTcount: A:0.32, C:0.12, G:0.15, T:0.41
Consensus pattern (140 bp):
TATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAATTATATATGTATATGCTATCAAATTTT
GATGTATAAATGCAGTCCAATTATATGTGTATATGCTGTCAAATTTTGATGTATAATGCAGTCCA
ATTATATATG
Found at i:3257683 original size:23 final size:23
Alignment explanation
Indices: 3257657--3257708 Score: 86
Period size: 23 Copynumber: 2.3 Consensus size: 23
3257647 AAATGTTGCT
*
3257657 CAAATTGTTGTATATATGCTGCC
1 CAAATTGCTGTATATATGCTGCC
*
3257680 CAAATTGCTGTATATATGCTGTC
1 CAAATTGCTGTATATATGCTGCC
3257703 CAAATT
1 CAAATT
3257709 TTGGTGTGAA
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:0.29, C:0.17, G:0.15, T:0.38
Consensus pattern (23 bp):
CAAATTGCTGTATATATGCTGCC
Found at i:3257764 original size:23 final size:23
Alignment explanation
Indices: 3257657--3257765 Score: 76
Period size: 23 Copynumber: 4.7 Consensus size: 23
3257647 AAATGTTGCT
* * *
3257657 CAAATTGTTGTATATATGCTGCC
1 CAAATTGGTGTATAAATGCTGTC
* *
3257680 CAAATTGCTGTATATATGCTGTC
1 CAAATTGGTGTATAAATGCTGTC
*
3257703 CAAATTTTGGTGTGA-AAATGCTATC
1 CAAA--TTGGTGT-ATAAATGCTGTC
* ** *
3257728 TAGTTTGGTATATAAATGCTGTC
1 CAAATTGGTGTATAAATGCTGTC
* *
3257751 CAGATTGATGTATAA
1 CAAATTGGTGTATAA
3257766 TAGTTGTCCA
Statistics
Matches: 68, Mismatches: 14, Indels: 8
0.76 0.16 0.09
Matches are distributed among these distances:
22 1 0.01
23 51 0.75
25 15 0.22
26 1 0.01
ACGTcount: A:0.29, C:0.13, G:0.19, T:0.39
Consensus pattern (23 bp):
CAAATTGGTGTATAAATGCTGTC
Found at i:3264406 original size:14 final size:15
Alignment explanation
Indices: 3264382--3264416 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
3264372 TACTTTAATC
3264382 ATGGATTAGTATTT-T
1 ATGG-TTAGTATTTAT
3264397 ATGGTTAGTATTTAT
1 ATGGTTAGTATTTAT
3264412 ATGGT
1 ATGGT
3264417 AATGTATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 9 0.47
15 10 0.53
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.51
Consensus pattern (15 bp):
ATGGTTAGTATTTAT
Found at i:3264913 original size:138 final size:137
Alignment explanation
Indices: 3264763--3265251 Score: 750
Period size: 138 Copynumber: 3.6 Consensus size: 137
3264753 ATGTGCTGTT
3264763 CAATTTTGTATATATGCTGTTAAATTTTGATGTATAAATGCAGTCCAATTATATATGTATATGCT
1 CAATTTTGTATATATGCTGTTAAATTTTGATGTATAAATGCAGTCCAATTATATATGTATATGCT
* *
3264828 GTCAAATTTTGATGTATAATGCGGTCCAATTATATATGCATATGCTGTCAAATTTTGATGTATAA
66 GTCAAATTTTGATGTATAATGCAGTCCAATTATATATG-ATATGCTGTTAAATTTTGATGTATAA
3264893 ATGCAGTC
130 ATGCAGTC
3264901 CAATTTTGTATATATGCTGTTAAATTTTGATGTATAAATGCAGTCCAATTATATATGTATATGCT
1 CAATTTTGTATATATGCTGTTAAATTTTGATGTATAAATGCAGTCCAATTATATATGTATATGCT
* *
3264966 GTCAAATTTTGATGTATAATACAATCCAATTATATATGTATATGCTGTTAAATTTTGATGTATAA
66 GTCAAATTTTGATGTATAATGCAGTCCAATTATATATG-ATATGCTGTTAAATTTTGATGTATAA
3265031 ATGCAGTC
130 ATGCAGTC
*
3265039 CAATTTTGTATATATGTTGTTAAATTTTGATGTATAAATGCAGTCCAATTATATATGTATATGCT
1 CAATTTTGTATATATGCTGTTAAATTTTGATGTATAAATGCAGTCCAATTATATATGTATATGCT
* * * * *
3265104 GTCAAATTTTAATGTATAAATGTAGTCCAATTTTGTAT-ATATGTTGTTAAATTTTGATGTATAA
66 GTCAAATTTTGATGTAT-AATGCAGTCCAATTATATATGATATGCTGTTAAATTTTGATGTATAA
3265168 ATGCAGTC
130 ATGCAGTC
* * * * * * *
3265176 CAATTATATATGTATATGCTGTCAAATTTTAATGTATAAATGTAGTCCAATT-T-TGTATATATG
1 CAATT-T-TGTATATATGCTGTTAAATTTTGATGTATAAATGCAGTCCAATTATATATGTATATG
*
3265239 CTGTCCAATTTTG
64 CTGTCAAATTTTG
3265252 GTGAAAAAAA
Statistics
Matches: 325, Mismatches: 23, Indels: 7
0.92 0.06 0.02
Matches are distributed among these distances:
137 57 0.18
138 215 0.66
139 53 0.16
ACGTcount: A:0.33, C:0.09, G:0.15, T:0.43
Consensus pattern (137 bp):
CAATTTTGTATATATGCTGTTAAATTTTGATGTATAAATGCAGTCCAATTATATATGTATATGCT
GTCAAATTTTGATGTATAATGCAGTCCAATTATATATGATATGCTGTTAAATTTTGATGTATAAA
TGCAGTC
Found at i:3264968 original size:92 final size:92
Alignment explanation
Indices: 3264763--3265251 Score: 725
Period size: 92 Copynumber: 5.3 Consensus size: 92
3264753 ATGTGCTGTT
*
3264763 CAATTTTGTATATATGCTGTTAAATTTTGATGTATAAATGCAGTCCAATTATATATGTATATGCT
1 CAATTTTGTATATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAATTATATATGTATATGCT
*
3264828 GTCAAATTTTGATGTAT-AATGCGGTC
66 GTCAAATTTTGATGTATAAATGCAGTC
* * * *
3264854 CAATTATATATGCATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAATT-T-TGTATATATG
1 CAATTTTGTAT--ATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAATTATATATGTATATG
*
3264917 CTGTTAAATTTTGATGTATAAATGCAGTC
64 CTGTCAAATTTTGATGTATAAATGCAGTC
* * * *
3264946 CAATTATATATGTATATGCTGTCAAATTTTGATGTAT-AATACAATCCAATTATATATGTATATG
1 CAATT-T-TGTATATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAATTATATATGTATATG
*
3265010 CTGTTAAATTTTGATGTATAAATGCAGTC
64 CTGTCAAATTTTGATGTATAAATGCAGTC
* *
3265039 CAATTTTGTATATATGTTGTTAAATTTTGATGTATAAATGCAGTCCAATTATATATGTATATGCT
1 CAATTTTGTATATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAATTATATATGTATATGCT
* *
3265104 GTCAAATTTTAATGTATAAATGTAGTC
66 GTCAAATTTTGATGTATAAATGCAGTC
* *
3265131 CAATTTTGTATATATGTTGTTAAATTTTGATGTATAAATGCAGTCCAATTATATATGTATATGCT
1 CAATTTTGTATATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAATTATATATGTATATGCT
* *
3265196 GTCAAATTTTAATGTATAAATGTAGTC
66 GTCAAATTTTGATGTATAAATGCAGTC
*
3265223 CAATTTTGTATATATGCTGTCCAATTTTG
1 CAATTTTGTATATATGCTGTCAAATTTTG
3265252 GTGAAAAAAA
Statistics
Matches: 365, Mismatches: 25, Indels: 15
0.90 0.06 0.04
Matches are distributed among these distances:
91 72 0.20
92 209 0.57
93 80 0.22
94 4 0.01
ACGTcount: A:0.33, C:0.09, G:0.15, T:0.43
Consensus pattern (92 bp):
CAATTTTGTATATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAATTATATATGTATATGCT
GTCAAATTTTGATGTATAAATGCAGTC
Found at i:3265123 original size:230 final size:231
Alignment explanation
Indices: 3264773--3265214 Score: 771
Period size: 230 Copynumber: 1.9 Consensus size: 231
3264763 CAATTTTGTA
*
3264773 TATATGCTGTTAAATTTTGATGTATAAATGCAGTCCAATTATATATGTATATGCTGTCAAATTTT
1 TATATGCTGTTAAATTTTGATGTATAAATGCAGTCCAATTATATATATATATGCTGTCAAATTTT
* *
3264838 GATGTATAATGCGGTCCAATTATATATGCATATGCTGTCAAATTTTGATGTATAAATGCAGTCCA
66 GATGTATAATGCAGTCCAATTATATATGCATATGCTGTCAAATTTTAATGTATAAATGCAGTCCA
3264903 ATTTTGTATATATGCTGTTAAATTTTGATGTATAAATGCAGTCCAATTATATATGTATATGCTGT
131 ATTTTGTATATATGCTGTTAAATTTTGATGTATAAATGCAGTCCAATTATATATGTATATGCTGT
*
3264968 CAAATTTTGATGTATAATACAATCCAATTATATATG
196 CAAATTTTAATGTATAATACAATCCAATTATATATG
* * *
3265004 TATATGCTGTTAAATTTTGATGTATAAATGCAGTCCAATT-T-TGTATATATGTTGTTAAATTTT
1 TATATGCTGTTAAATTTTGATGTATAAATGCAGTCCAATTATATATATATATGCTGTCAAATTTT
* *
3265067 GATGTATAAATGCAGTCCAATTATATATGTATATGCTGTCAAATTTTAATGTATAAATGTAGTCC
66 GATGTAT-AATGCAGTCCAATTATATATGCATATGCTGTCAAATTTTAATGTATAAATGCAGTCC
*
3265132 AATTTTGTATATATGTTGTTAAATTTTGATGTATAAATGCAGTCCAATTATATATGTATATGCTG
130 AATTTTGTATATATGCTGTTAAATTTTGATGTATAAATGCAGTCCAATTATATATGTATATGCTG
3265197 TCAAATTTTAATGTATAA
195 TCAAATTTTAATGTATAA
3265215 ATGTAGTCCA
Statistics
Matches: 200, Mismatches: 10, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
229 25 0.12
230 135 0.68
231 40 0.20
ACGTcount: A:0.33, C:0.09, G:0.14, T:0.43
Consensus pattern (231 bp):
TATATGCTGTTAAATTTTGATGTATAAATGCAGTCCAATTATATATATATATGCTGTCAAATTTT
GATGTATAATGCAGTCCAATTATATATGCATATGCTGTCAAATTTTAATGTATAAATGCAGTCCA
ATTTTGTATATATGCTGTTAAATTTTGATGTATAAATGCAGTCCAATTATATATGTATATGCTGT
CAAATTTTAATGTATAATACAATCCAATTATATATG
Found at i:3265265 original size:47 final size:46
Alignment explanation
Indices: 3264763--3265251 Score: 625
Period size: 47 Copynumber: 10.7 Consensus size: 46
3264753 ATGTGCTGTT
*
3264763 CAATT-TTGTATATATGCTGTTAAATTTTGATGTATAAATGCAGTC
1 CAATTATTGTATATATGCTGTCAAATTTTGATGTATAAATGCAGTC
* * *
3264808 CAATTATATATGTATATGCTGTCAAATTTTGATGTAT-AATGCGGTC
1 CAATTAT-TGTATATATGCTGTCAAATTTTGATGTATAAATGCAGTC
*
3264854 CAATTA-TATATGCATATGCTGTCAAATTTTGATGTATAAATGCAGTC
1 CAATTATTGTAT--ATATGCTGTCAAATTTTGATGTATAAATGCAGTC
*
3264901 CAATT-TTGTATATATGCTGTTAAATTTTGATGTATAAATGCAGTC
1 CAATTATTGTATATATGCTGTCAAATTTTGATGTATAAATGCAGTC
* * * *
3264946 CAATTATATATGTATATGCTGTCAAATTTTGATGTAT-AATACAATC
1 CAATTAT-TGTATATATGCTGTCAAATTTTGATGTATAAATGCAGTC
* * *
3264992 CAATTATATATGTATATGCTGTTAAATTTTGATGTATAAATGCAGTC
1 CAATTAT-TGTATATATGCTGTCAAATTTTGATGTATAAATGCAGTC
* *
3265039 CAATT-TTGTATATATGTTGTTAAATTTTGATGTATAAATGCAGTC
1 CAATTATTGTATATATGCTGTCAAATTTTGATGTATAAATGCAGTC
* * * *
3265084 CAATTATATATGTATATGCTGTCAAATTTTAATGTATAAATGTAGTC
1 CAATTAT-TGTATATATGCTGTCAAATTTTGATGTATAAATGCAGTC
* *
3265131 CAATT-TTGTATATATGTTGTTAAATTTTGATGTATAAATGCAGTC
1 CAATTATTGTATATATGCTGTCAAATTTTGATGTATAAATGCAGTC
* * * *
3265176 CAATTATATATGTATATGCTGTCAAATTTTAATGTATAAATGTAGTC
1 CAATTAT-TGTATATATGCTGTCAAATTTTGATGTATAAATGCAGTC
*
3265223 CAATT-TTGTATATATGCTGTCCAATTTTG
1 CAATTATTGTATATATGCTGTCAAATTTTG
3265252 GTGAAAAAAA
Statistics
Matches: 390, Mismatches: 41, Indels: 26
0.85 0.09 0.06
Matches are distributed among these distances:
44 4 0.01
45 141 0.36
46 88 0.23
47 157 0.40
ACGTcount: A:0.33, C:0.09, G:0.15, T:0.43
Consensus pattern (46 bp):
CAATTATTGTATATATGCTGTCAAATTTTGATGTATAAATGCAGTC
Found at i:3265296 original size:23 final size:23
Alignment explanation
Indices: 3265270--3265321 Score: 86
Period size: 23 Copynumber: 2.3 Consensus size: 23
3265260 AAATGTTGCT
*
3265270 CAAATTGTTGTATATATGCTGCC
1 CAAATTGCTGTATATATGCTGCC
*
3265293 CAAATTGCTGTATATATGCTGTC
1 CAAATTGCTGTATATATGCTGCC
3265316 CAAATT
1 CAAATT
3265322 TTGATGTGAA
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:0.29, C:0.17, G:0.15, T:0.38
Consensus pattern (23 bp):
CAAATTGCTGTATATATGCTGCC
Found at i:3265772 original size:44 final size:44
Alignment explanation
Indices: 3265705--3266274 Score: 356
Period size: 44 Copynumber: 12.7 Consensus size: 44
3265695 TCTGAGTTGT
* *
3265705 TTCAATCTGCTCCACTACTACTTCAGGGAGATAAGATTGGTATC
1 TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGGTATC
* * *
3265749 TTCAA-CTTGCTCCACTGCAACTTCAGGGAGGTAAGGTTTGCTATC
1 TTCAATC-TGCTCCACTGCAACTTCAGGGAGATAA-GATTGGTATC
* * *
3265794 TTCAGTCTGCTCCACTGCAACTTCAGGAAGATAAGACTTGTTA-C
1 TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTGGTATC
* * * **
3265838 TTCAATCTGCTCTATTGCAACTTCAAGG-GATAAGATTCATCAT-
1 TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGGT-ATC
* **
3265881 TTTAAT-TCGCTCCACTGCAACTTCATTGAGATAAGACTT-GTATC
1 TTCAATCT-GCTCCACTGCAACTTCAGGGAGATAAGA-TTGGTATC
* * *
3265925 TTCAACCTGCTCCACTGCAACTTCAAGGAGATAGGACTT-G--TC
1 TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTGGTATC
* * * * * * *
3265967 AT-GATCTGCTCTACTGCAACTTCAGAGAGGTAAGATCTGCTATT
1 TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TGGTATC
* * *
3266011 TTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTTATG
1 TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTGGTATC
* ** * ** * * *
3266056 GTGGATTTAATCCAACCTACTAAAACTTCAGAGGTG-TAGGATT--TATC
1 TTCAATCTGCTCC-A-CTGC---AACTTCAG-GGAGATAAGATTGGTATC
* * * * * * *
3266103 GTTTTAATCCGCTCCACTGCAATTTTAGGGAGATAGGATTAGTAGC
1 --TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGGTATC
* *
3266149 TTCAATCTGCCCCACTGCAGCTTCAGGGAGATAAGATTTGTAGCCTATC
1 TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTG--G--TATC
* * * *
3266198 TTCAATCTGCTCTACTGCAACTTCAGGGGGATAAGGTTTGCTATC
1 TTCAATCTGCTCCACTGCAACTTCAGGGAGATAA-GATTGGTATC
* * *
3266243 TTCACTCTGCTCCACTACAACTTCAAGGAGAT
1 TTCAATCTGCTCCACTGCAACTTCAGGGAGAT
3266275 GAGACTTGTC
Statistics
Matches: 403, Mismatches: 89, Indels: 67
0.72 0.16 0.12
Matches are distributed among these distances:
40 1 0.00
41 27 0.07
42 7 0.02
43 35 0.09
44 139 0.34
45 117 0.29
46 6 0.01
47 10 0.02
48 1 0.00
49 44 0.11
50 13 0.03
51 3 0.01
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.31
Consensus pattern (44 bp):
TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGGTATC
Found at i:3266215 original size:49 final size:47
Alignment explanation
Indices: 3266108--3266283 Score: 155
Period size: 45 Copynumber: 3.8 Consensus size: 47
3266098 TTATCGTTTT
* * * * * *
3266108 AATCCGCTCCACTGCAATTTTAGGGAGATAGGA-TT-AG-TAGCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTGCTATCTTC
* * *
3266152 AATCTGCCCCACTGCAGCTTCAGGGAGATAAGATTTGTAGCCTATCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGT-G-CTATCTTC
* * *
3266201 AATCTGCTCTACTGCAACTTCAGGGGGATAAG-GTT-TGCTATCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTGCTATCTTC
* * * *
3266246 ACTCTGCTCCACTACAACTTCAAGGAGATGAGACTTGT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGT
3266284 CGTTTTCAAT
Statistics
Matches: 105, Mismatches: 20, Indels: 11
0.77 0.15 0.08
Matches are distributed among these distances:
44 27 0.26
45 36 0.34
46 3 0.03
47 3 0.03
48 2 0.02
49 34 0.32
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.30
Consensus pattern (47 bp):
AATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTGCTATCTTC
Found at i:3266376 original size:50 final size:50
Alignment explanation
Indices: 3266300--3266887 Score: 550
Period size: 50 Copynumber: 11.8 Consensus size: 50
3266290 CAATCTGTTC
* * *
3266300 GCCAAGGAAGTAAGATTCACTGTTGTAGCTTCTATCTATTCCACTACACC
1 GCCAAGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTCCACTACACT
* * * ** * *
3266350 ACCAAGGAAGTAAGATTCGCTGTTGTAGCCTCAATCTTTTTAACTGCAAT
1 GCCAAGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTCCACTACACT
* ** * * * *
3266400 GTCGGGGAAGCAAGATTCGTTGTTGTAGCTTCAATCTATTCCAATACACC
1 GCCAAGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTCCACTACACT
* * * ** * *
3266450 GCCAAGGAAGTAAGATTCACTGTTGTAGCTTCAATATTTTTAACTGCAAT
1 GCCAAGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTCCACTACACT
* ** * * * *
3266500 GTCGGGGAAGCAAGATTTGCTGTTGTAGCTTCAACCTATTCCACTACACC
1 GCCAAGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTCCACTACACT
* * * * * * *
3266550 GCCAGGGAAGTAAGATTCGTTATTGTAGCTTCAATCTTTTCAACTGCAAT
1 GCCAAGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTCCACTACACT
* * * *
3266600 GTCGAGGAAGAAAGATTCGCTGTTGTAGCTTCAATCTATTCCACTACACC
1 GCCAAGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTCCACTACACT
* * * * * *
3266650 GCCAAGGAAGTAAGATTCGCTGTTGTGGTTTCAATCTTTTCAACTGCAAT
1 GCCAAGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTCCACTACACT
* * * * * *
3266700 GTCGAGGAAGCAAGATTAGCTGTTGTAGCTTCAATTTGTTCCACTACACT
1 GCCAAGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTCCACTACACT
* * ** *
3266750 GCCAGGGAAGTAAGATTCGTTG-TGTTAGCTTCAATCT-TCTTAACTACAAT
1 GCCAAGGAAGTAAGATTCGCTGTTG-TAGCTTCAATCTAT-TCCACTACACT
* ** * * *
3266800 GTCGGGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTACACC
1 GCCAAGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTCCACTACACT
*
3266850 GCGAAGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTA
1 GCCAAGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTA
3266888 CAACACTTCA
Statistics
Matches: 414, Mismatches: 120, Indels: 8
0.76 0.22 0.01
Matches are distributed among these distances:
49 3 0.01
50 408 0.99
51 3 0.01
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (50 bp):
GCCAAGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTCCACTACACT
Found at i:3266478 original size:100 final size:100
Alignment explanation
Indices: 3266305--3266886 Score: 869
Period size: 100 Copynumber: 5.8 Consensus size: 100
3266295 TGTTCGCCAA
* * * *
3266305 GGAAGTAAGATTCACTGTTGTAGCTTCTATCTATTCCACTACACCACCAAGGAAGTAAGATTCGC
1 GGAAGCAAGATTCGCTGTTGTAGCTTCAATCTATTCCACTACACCGCCAAGGAAGTAAGATTCGC
*
3266370 TGTTGTAGCCTCAATCTTTTTAACTGCAATGTCGG
66 TGTTGTAGCTTCAATCTTTTTAACTGCAATGTCGG
* * *
3266405 GGAAGCAAGATTCGTTGTTGTAGCTTCAATCTATTCCAATACACCGCCAAGGAAGTAAGATTCAC
1 GGAAGCAAGATTCGCTGTTGTAGCTTCAATCTATTCCACTACACCGCCAAGGAAGTAAGATTCGC
*
3266470 TGTTGTAGCTTCAATATTTTTAACTGCAATGTCGG
66 TGTTGTAGCTTCAATCTTTTTAACTGCAATGTCGG
* * * *
3266505 GGAAGCAAGATTTGCTGTTGTAGCTTCAACCTATTCCACTACACCGCCAGGGAAGTAAGATTCGT
1 GGAAGCAAGATTCGCTGTTGTAGCTTCAATCTATTCCACTACACCGCCAAGGAAGTAAGATTCGC
* * *
3266570 TATTGTAGCTTCAATCTTTTCAACTGCAATGTCGA
66 TGTTGTAGCTTCAATCTTTTTAACTGCAATGTCGG
*
3266605 GGAAGAAAGATTCGCTGTTGTAGCTTCAATCTATTCCACTACACCGCCAAGGAAGTAAGATTCGC
1 GGAAGCAAGATTCGCTGTTGTAGCTTCAATCTATTCCACTACACCGCCAAGGAAGTAAGATTCGC
* * * *
3266670 TGTTGTGGTTTCAATCTTTTCAACTGCAATGTCGA
66 TGTTGTAGCTTCAATCTTTTTAACTGCAATGTCGG
* * * * * *
3266705 GGAAGCAAGATTAGCTGTTGTAGCTTCAATTTGTTCCACTACACTGCCAGGGAAGTAAGATTCGT
1 GGAAGCAAGATTCGCTGTTGTAGCTTCAATCTATTCCACTACACCGCCAAGGAAGTAAGATTCGC
* *
3266770 TG-TGTTAGCTTCAATCTTCTTAACTACAATGTCGG
66 TGTTG-TAGCTTCAATCTTTTTAACTGCAATGTCGG
* *
3266805 GGAAGCAAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTACACCGCGAAGGAAGTAAGATTCGC
1 GGAAGCAAGATTCGCTGTTGTAGCTTCAATCTATTCCACTACACCGCCAAGGAAGTAAGATTCGC
3266870 TGTTGTAGCTTCAATCT
66 TGTTGTAGCTTCAATCT
3266887 ACAACACTTC
Statistics
Matches: 433, Mismatches: 47, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
99 2 0.00
100 429 0.99
101 2 0.00
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (100 bp):
GGAAGCAAGATTCGCTGTTGTAGCTTCAATCTATTCCACTACACCGCCAAGGAAGTAAGATTCGC
TGTTGTAGCTTCAATCTTTTTAACTGCAATGTCGG
Found at i:3268970 original size:50 final size:51
Alignment explanation
Indices: 3268871--3268989 Score: 195
Period size: 50 Copynumber: 2.4 Consensus size: 51
3268861 ACTTCTGATC
*
3268871 AGTGACAAGTGATAAGTGGTAGCTTTAGCTGCACTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
3268922 AGTGACAAGTGATAAGTGGTAGC-TTAGCTACACTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
* * *
3268972 AGAGATAAATGATAAGTG
1 AGTGACAAGTGATAAGTG
3268990 ATTCCGTGTA
Statistics
Matches: 64, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
50 41 0.64
51 23 0.36
ACGTcount: A:0.34, C:0.13, G:0.25, T:0.28
Consensus pattern (51 bp):
AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
Found at i:3270916 original size:5 final size:5
Alignment explanation
Indices: 3270906--3270948 Score: 61
Period size: 5 Copynumber: 8.4 Consensus size: 5
3270896 TCTCTCCTTC
3270906 TTCTT TTCTT TTCTTT TTCTT TTCTT TTCTT CTTCTT TT-TT TT
1 TTCTT TTCTT TTC-TT TTCTT TTCTT TTCTT -TTCTT TTCTT TT
3270949 ATGAAACATT
Statistics
Matches: 36, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
4 4 0.11
5 22 0.61
6 10 0.28
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (5 bp):
TTCTT
Found at i:3270923 original size:11 final size:11
Alignment explanation
Indices: 3270909--3270945 Score: 58
Period size: 11 Copynumber: 3.4 Consensus size: 11
3270899 CTCCTTCTTC
3270909 TTTTCTTTTCT
1 TTTTCTTTTCT
3270920 TTTTCTTTTC-
1 TTTTCTTTTCT
3270930 TTTTCTTCTTCT
1 TTTTCTT-TTCT
3270942 TTTT
1 TTTT
3270946 TTTATGAAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
10 7 0.29
11 13 0.54
12 4 0.17
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (11 bp):
TTTTCTTTTCT
Found at i:3270927 original size:16 final size:16
Alignment explanation
Indices: 3270902--3270948 Score: 78
Period size: 16 Copynumber: 3.0 Consensus size: 16
3270892 TTGGTCTCTC
3270902 CTTCTTCTTTTCTTTT
1 CTTCTTCTTTTCTTTT
*
3270918 CTTTTTCTTTTCTTTT
1 CTTCTTCTTTTCTTTT
3270934 CTTCTTCTTTT-TTTT
1 CTTCTTCTTTTCTTTT
3270949 ATGAAACATT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
15 4 0.14
16 25 0.86
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (16 bp):
CTTCTTCTTTTCTTTT
Found at i:3274495 original size:15 final size:15
Alignment explanation
Indices: 3274475--3274513 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
3274465 TCAAAAACTG
3274475 TTAGTTAGTTAGCAA
1 TTAGTTAGTTAGCAA
*
3274490 TTAGTTAGTTAGCGA
1 TTAGTTAGTTAGCAA
*
3274505 TTGGTTAGT
1 TTAGTTAGT
3274514 AGTAGTTAGG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.26, C:0.05, G:0.26, T:0.44
Consensus pattern (15 bp):
TTAGTTAGTTAGCAA
Found at i:3275077 original size:18 final size:16
Alignment explanation
Indices: 3275054--3275101 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 16
3275044 AAAAAAAGTC
*
3275054 ATTTTAGTTTTTTATTTT
1 ATTTTA-TTTTTTA-TCT
3275072 ATTTTATTTTATTATCT
1 ATTTTATTTT-TTATCT
*
3275089 ATTTTAATTTTTA
1 ATTTTATTTTTTA
3275102 AACTTCTATT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
16 3 0.11
17 15 0.56
18 9 0.33
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.73
Consensus pattern (16 bp):
ATTTTATTTTTTATCT
Found at i:3276588 original size:13 final size:13
Alignment explanation
Indices: 3276570--3276594 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3276560 GAATTCAAAA
3276570 TCAGCTAGCTAAC
1 TCAGCTAGCTAAC
3276583 TCAGCTAGCTAA
1 TCAGCTAGCTAA
3276595 ATTTAGACGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.28, G:0.16, T:0.24
Consensus pattern (13 bp):
TCAGCTAGCTAAC
Found at i:3278509 original size:26 final size:22
Alignment explanation
Indices: 3278461--3278504 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
3278451 TGAAACACGA
3278461 GAGGAGTGTCATTTTTTTCTTT
1 GAGGAGTGTCATTTTTTTCTTT
3278483 GAGGAGTGTCATTTTTTTCTTT
1 GAGGAGTGTCATTTTTTTCTTT
3278505 CTTTGTGAGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.14, C:0.09, G:0.23, T:0.55
Consensus pattern (22 bp):
GAGGAGTGTCATTTTTTTCTTT
Found at i:3282743 original size:17 final size:17
Alignment explanation
Indices: 3282714--3282746 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
3282704 TAGGCAGTAG
3282714 AAGAAAAGTAAGAGAAA
1 AAGAAAAGTAAGAGAAA
3282731 AAGAAGAAG-AAGAGAA
1 AAGAA-AAGTAAGAGAA
3282747 GGAATGGAGC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 12 0.80
18 3 0.20
ACGTcount: A:0.70, C:0.00, G:0.27, T:0.03
Consensus pattern (17 bp):
AAGAAAAGTAAGAGAAA
Found at i:3283409 original size:32 final size:32
Alignment explanation
Indices: 3283362--3283433 Score: 101
Period size: 32 Copynumber: 2.2 Consensus size: 32
3283352 AACCGATTTT
* *
3283362 CTTTTCTTCTCCTTAATCTCAATCGATCCTTTC
1 CTTTTCTTCCCCTTAATCTCAATCCAT-CTTTC
*
3283395 CTTTT-TTCCCCTTAATCTCAATCCATCTTTT
1 CTTTTCTTCCCCTTAATCTCAATCCATCTTTC
3283426 CTTTTCTT
1 CTTTTCTT
3283434 TTCCCTAAAC
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
31 9 0.26
32 21 0.60
33 5 0.14
ACGTcount: A:0.14, C:0.32, G:0.01, T:0.53
Consensus pattern (32 bp):
CTTTTCTTCCCCTTAATCTCAATCCATCTTTC
Found at i:3283520 original size:21 final size:21
Alignment explanation
Indices: 3283487--3283526 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
3283477 CAACGTGGCA
*
3283487 AGTTAACTAGCCACGTCACTT
1 AGTTAACCAGCCACGTCACTT
* *
3283508 AGTTAACCGGCCATGTCAC
1 AGTTAACCAGCCACGTCAC
3283527 CTATCCCGTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.28, C:0.30, G:0.17, T:0.25
Consensus pattern (21 bp):
AGTTAACCAGCCACGTCACTT
Found at i:3283663 original size:20 final size:20
Alignment explanation
Indices: 3283612--3283669 Score: 89
Period size: 20 Copynumber: 2.9 Consensus size: 20
3283602 TTGTTATTTT
* *
3283612 TTGAAAGTTGAATGACTAGG
1 TTGAAAGTTGAGTGATTAGG
*
3283632 TTGAAAGTTGAGTGATTGGG
1 TTGAAAGTTGAGTGATTAGG
3283652 TTGAAAGTTGAGTGATTA
1 TTGAAAGTTGAGTGATTA
3283670 TTTTGTTATT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.31, C:0.02, G:0.33, T:0.34
Consensus pattern (20 bp):
TTGAAAGTTGAGTGATTAGG
Found at i:3285114 original size:18 final size:18
Alignment explanation
Indices: 3285091--3285133 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
3285081 GCATTGATTC
3285091 TCAAAAGTATTTTTAGTG
1 TCAAAAGTATTTTTAGTG
*
3285109 TCAAAAGTATTTTTGGTG
1 TCAAAAGTATTTTTAGTG
3285127 TCAAAAG
1 TCAAAAG
3285134 CGTTTAAAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.35, C:0.07, G:0.19, T:0.40
Consensus pattern (18 bp):
TCAAAAGTATTTTTAGTG
Found at i:3285398 original size:21 final size:20
Alignment explanation
Indices: 3285341--3285399 Score: 55
Period size: 22 Copynumber: 2.8 Consensus size: 20
3285331 TATTGAAATT
*
3285341 TATTTTAAATATATAATATTA
1 TATTTT-AATATTTAATATTA
* *
3285362 TATATTTAATTTTTTATTGATTA
1 TAT-TTTAA-TATTTAAT-ATTA
3285385 TATTTTAATATTTAA
1 TATTTTAATATTTAA
3285400 AATATAATTT
Statistics
Matches: 30, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
21 10 0.33
22 13 0.43
23 7 0.23
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (20 bp):
TATTTTAATATTTAATATTA
Found at i:3289439 original size:21 final size:21
Alignment explanation
Indices: 3289415--3289454 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
3289405 AATAAACATT
3289415 CTCA-ATTTCAATTCTAAATAA
1 CTCATATTTC-ATTCTAAATAA
*
3289436 CTCATTTTTCATTCTAAAT
1 CTCATATTTCATTCTAAAT
3289455 GTCTTCTTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.35, C:0.20, G:0.00, T:0.45
Consensus pattern (21 bp):
CTCATATTTCATTCTAAATAA
Found at i:3299362 original size:24 final size:24
Alignment explanation
Indices: 3299335--3299397 Score: 65
Period size: 24 Copynumber: 2.6 Consensus size: 24
3299325 TCACCTCGAT
3299335 CCTCGTACTCATCTTCATCTCAAC
1 CCTCGTACTCATCTTCATCTCAAC
* * * *
3299359 CCTCGCATTCATCTTTATCTCGAC
1 CCTCGTACTCATCTTCATCTCAAC
*
3299383 CTTCGT-CGTCATCTT
1 CCTCGTAC-TCATCTT
3299398 TGTCTCCATC
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.16, C:0.38, G:0.08, T:0.38
Consensus pattern (24 bp):
CCTCGTACTCATCTTCATCTCAAC
Found at i:3302282 original size:10 final size:10
Alignment explanation
Indices: 3302267--3302299 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
3302257 ATTTAATTTT
3302267 TATTTTTATA
1 TATTTTTATA
3302277 TATTTTT-TA
1 TATTTTTATA
*
3302286 AATTTTTATA
1 TATTTTTATA
3302296 TATT
1 TATT
3302300 AAAATTTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
9 8 0.40
10 12 0.60
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (10 bp):
TATTTTTATA
Found at i:3302285 original size:17 final size:18
Alignment explanation
Indices: 3302263--3302299 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
3302253 AAGAATTTAA
3302263 TTTTT-ATTTTTATATAT
1 TTTTTAATTTTTATATAT
3302280 TTTTTAAATTTTTATATAT
1 TTTTT-AATTTTTATATAT
3302299 T
1 T
3302300 AAAATTTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 5 0.28
19 13 0.72
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (18 bp):
TTTTTAATTTTTATATAT
Found at i:3305614 original size:74 final size:74
Alignment explanation
Indices: 3305525--3305704 Score: 308
Period size: 74 Copynumber: 2.4 Consensus size: 74
3305515 AAAAATTCAT
*
3305525 CGTTCTCAATGGCTGGCT-GTGATTCTACTTCTAAACCATCACCACCTAAAATTGAATGTTGAAA
1 CGTTCTTAATGGCTGG-TAGTGATTCTACTTCTAAACCATCACCACCTAAAATTGAATGTTGAAA
3305589 CTATCACCAC
65 CTATCACCAC
* *
3305599 CGTTCTTAATGGCTGGTGGCGATTCTACTTCTAAACCATCACCACCTAAAATTGAATGTTGAAAC
1 CGTTCTTAATGGCTGGTAGTGATTCTACTTCTAAACCATCACCACCTAAAATTGAATGTTGAAAC
*
3305664 TATCACCAT
66 TATCACCAC
3305673 CGTTCTTAATGGCTGGTAGTGATTCTACTTCT
1 CGTTCTTAATGGCTGGTAGTGATTCTACTTCT
3305705 CCACCACCTA
Statistics
Matches: 100, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
73 1 0.01
74 99 0.99
ACGTcount: A:0.27, C:0.24, G:0.16, T:0.33
Consensus pattern (74 bp):
CGTTCTTAATGGCTGGTAGTGATTCTACTTCTAAACCATCACCACCTAAAATTGAATGTTGAAAC
TATCACCAC
Found at i:3307239 original size:32 final size:32
Alignment explanation
Indices: 3307175--3307241 Score: 82
Period size: 32 Copynumber: 2.1 Consensus size: 32
3307165 CCAGACCTTA
* * * *
3307175 TGGGTCACACGGGCTGAGTTATTTGGGTCGTG
1 TGGGTCACACAGGCTGAGTTAATTAGGCCGTG
3307207 TGGGTCACACAGGCTG-GTTCAATTAGGCCGTG
1 TGGGTCACACAGGCTGAGTT-AATTAGGCCGTG
3307239 TGG
1 TGG
3307242 CCCTCACGCC
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
31 3 0.10
32 27 0.90
ACGTcount: A:0.15, C:0.18, G:0.39, T:0.28
Consensus pattern (32 bp):
TGGGTCACACAGGCTGAGTTAATTAGGCCGTG
Found at i:3309401 original size:19 final size:19
Alignment explanation
Indices: 3309377--3309447 Score: 70
Period size: 20 Copynumber: 3.6 Consensus size: 19
3309367 AAATTTTATA
*
3309377 TTTTATATTTTTTTACGAT
1 TTTTATATTTTTTTACAAT
***
3309396 TTTTATAAAATTTTACAATT
1 TTTTATATTTTTTTACAA-T
*
3309416 TTTTATATATTTTTTATAAT
1 TTTTATAT-TTTTTTACAAT
3309436 TTTTAATATTTT
1 TTTT-ATATTTT
3309448 AATATTTTAT
Statistics
Matches: 41, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
19 14 0.34
20 16 0.39
21 11 0.27
ACGTcount: A:0.30, C:0.03, G:0.01, T:0.66
Consensus pattern (19 bp):
TTTTATATTTTTTTACAAT
Done.