Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr6
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: 56482370
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1659275 characters in sequence are not A, C, G, or T
File 59 of 172
Found at i:19233707 original size:30 final size:30
Alignment explanation
Indices: 19233671--19233742 Score: 144
Period size: 30 Copynumber: 2.4 Consensus size: 30
19233661 TTGTATATAT
19233671 AAATTTTAATTTTGTGCAATTTTATAAATG
1 AAATTTTAATTTTGTGCAATTTTATAAATG
19233701 AAATTTTAATTTTGTGCAATTTTATAAATG
1 AAATTTTAATTTTGTGCAATTTTATAAATG
19233731 AAATTTTAATTT
1 AAATTTTAATTT
19233743 GATCAAATTC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 42 1.00
ACGTcount: A:0.38, C:0.03, G:0.08, T:0.51
Consensus pattern (30 bp):
AAATTTTAATTTTGTGCAATTTTATAAATG
Found at i:19243565 original size:37 final size:37
Alignment explanation
Indices: 19243524--19243605 Score: 146
Period size: 37 Copynumber: 2.2 Consensus size: 37
19243514 ACGACACCTG
* *
19243524 GGAGTTAATTGATTTTTCAAGAGGAAAAAAGCCAATT
1 GGAGTTAACTGATCTTTCAAGAGGAAAAAAGCCAATT
19243561 GGAGTTAACTGATCTTTCAAGAGGAAAAAAGCCAATT
1 GGAGTTAACTGATCTTTCAAGAGGAAAAAAGCCAATT
19243598 GGAGTTAA
1 GGAGTTAA
19243606 ATGGGTTTAC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 43 1.00
ACGTcount: A:0.40, C:0.10, G:0.23, T:0.27
Consensus pattern (37 bp):
GGAGTTAACTGATCTTTCAAGAGGAAAAAAGCCAATT
Found at i:19245062 original size:41 final size:41
Alignment explanation
Indices: 19245002--19245162 Score: 207
Period size: 41 Copynumber: 3.9 Consensus size: 41
19244992 GCGATTCGGG
* *
19245002 ATAGCTTCGACTATTTATGGCACTTAGTGTGCGAGATTATA
1 ATAGCTTCGGCTATATATGGCACTTAGTGTGCGAGATTATA
**
19245043 ATAGCTTCGGCTATATATGGCACTTAGTGTGCGAGACCA-A
1 ATAGCTTCGGCTATATATGGCACTTAGTGTGCGAGATTATA
* *
19245083 GATAGCTTCGGCTATGTAAGGCACTTAGTGTGCGAGATTATA
1 -ATAGCTTCGGCTATATATGGCACTTAGTGTGCGAGATTATA
* * **
19245125 ATAGCTTCAGCTATACATTGGCACTTAGCATGCGAGAT
1 ATAGCTTCGGCTATATA-TGGCACTTAGTGTGCGAGAT
19245163 ATCGAGTATT
Statistics
Matches: 103, Mismatches: 14, Indels: 5
0.84 0.11 0.04
Matches are distributed among these distances:
40 1 0.01
41 84 0.82
42 18 0.17
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.31
Consensus pattern (41 bp):
ATAGCTTCGGCTATATATGGCACTTAGTGTGCGAGATTATA
Found at i:19245115 original size:82 final size:83
Alignment explanation
Indices: 19245001--19245161 Score: 252
Period size: 82 Copynumber: 2.0 Consensus size: 83
19244991 TGCGATTCGG
* * * *
19245001 GATAGCTTCGACTATTTATGGCACTTAGTGTGCGAGATTATAATAGCTTCGGCTATATA-TGGCA
1 GATAGCTTCGACTATGTAAGGCACTTAGTGTGCGAGATTATAATAGCTTCAGCTATACATTGGCA
**
19245065 CTTAGTGTGCGAGACCAA
66 CTTAGCATGCGAGACCAA
*
19245083 GATAGCTTCGGCTATGTAAGGCACTTAGTGTGCGAGATTATAATAGCTTCAGCTATACATTGGCA
1 GATAGCTTCGACTATGTAAGGCACTTAGTGTGCGAGATTATAATAGCTTCAGCTATACATTGGCA
19245148 CTTAGCATGCGAGA
66 CTTAGCATGCGAGA
19245162 TATCGAGTAT
Statistics
Matches: 71, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
82 54 0.76
83 17 0.24
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.30
Consensus pattern (83 bp):
GATAGCTTCGACTATGTAAGGCACTTAGTGTGCGAGATTATAATAGCTTCAGCTATACATTGGCA
CTTAGCATGCGAGACCAA
Found at i:19246044 original size:55 final size:55
Alignment explanation
Indices: 19245998--19246105 Score: 144
Period size: 55 Copynumber: 2.0 Consensus size: 55
19245988 GATTTTAGGG
* * * *
19245998 CACGGCCATGACACACGCCCGTGTGGCCTACCCGTGGGCAATACTGACTTAAAGA
1 CACGGCCATGACACACGCCCATGTGGCCTAACCATGGGCAATACTGATTTAAAGA
* * * *
19246053 CATGGCTATGGCACACGCCCATGTGGCCTAACCATGGGCAATCCTGATTTAAA
1 CACGGCCATGACACACGCCCATGTGGCCTAACCATGGGCAATACTGATTTAAA
19246106 AGTTTAAGTG
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
55 45 1.00
ACGTcount: A:0.26, C:0.31, G:0.24, T:0.19
Consensus pattern (55 bp):
CACGGCCATGACACACGCCCATGTGGCCTAACCATGGGCAATACTGATTTAAAGA
Found at i:19247056 original size:47 final size:44
Alignment explanation
Indices: 19246954--19247168 Score: 177
Period size: 47 Copynumber: 4.7 Consensus size: 44
19246944 ATATGTACCA
**
19246954 ATGCATGTCCCAGAC-TAGTCTTACACTAGCAT-AAAGCTTAGCCG
1 ATGCATGTCCCAGACAT-GTCTTACACTAGCATCATCG-TTAGCCG
* *
19246998 ATGCATGTCCCAGACACGTCTTACACTGGCTATCATCGTTGAGGCCG
1 ATGCATGTCCCAGACATGTCTTACACTAGC-ATCATCGTT-A-GCCG
*
19247045 ATGCATGTCCCAGACATGTCTTACACTAGCACTCATC-TCT-GCACCA
1 ATGCATGTCCCAGACATGTCTTACACTAGCA-TCATCGT-TAG--CCG
* ** * *
19247091 ATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAATATGGCTG
1 ATG-CATGTCCCAGACAT-GTCTTACACTAGC-ATCATCGT-TAGCCG
* *
19247139 ATGCATGTCCCAAACATGTCTTACTCTAGC
1 ATGCATGTCCCAGACATGTCTTACACTAGC
19247169 CCTCATATAA
Statistics
Matches: 142, Mismatches: 15, Indels: 26
0.78 0.08 0.14
Matches are distributed among these distances:
44 28 0.20
45 4 0.03
46 21 0.15
47 65 0.46
48 20 0.14
49 3 0.02
50 1 0.01
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (44 bp):
ATGCATGTCCCAGACATGTCTTACACTAGCATCATCGTTAGCCG
Found at i:19247150 original size:94 final size:92
Alignment explanation
Indices: 19246904--19247174 Score: 266
Period size: 94 Copynumber: 2.9 Consensus size: 92
19246894 ATCGAGGTTG
* * * * * * *
19246904 ATGCCATATCTCAGACATGGTCTTACACTAGCTCTCGTATATATGTACCAATGCATGTCCCAGAC
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATA-ATATG-GCCGATGCATGTCCCAGAC
* * *
19246969 -TAGTCTTACACTAGCA-TAAAGCTTAGCCG
64 AT-GTCTTACACTAGCACT-CATCTTAGCCA
* **
19246998 ATG-CATGTCCCAGACA-CGTCTTACACTGGCTATCATCGT-TGAGGCCGATGCATGTCCCAGAC
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAATAT--GGCCGATGCATGTCCCAGAC
19247060 ATGTCTTACACTAGCACTCATCTCT-GCACCA
64 ATGTCTTACACTAGCACTCATCT-TAG--CCA
* *
19247091 ATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAATATGGCTGATGCATGTCCCAAACAT
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAATATGGCCGATGCATGTCCCAGACAT
* *
19247156 GTCTTACTCTAGCCCTCAT
66 GTCTTACACTAGCACTCAT
19247175 ATAACCCAAT
Statistics
Matches: 147, Mismatches: 20, Indels: 20
0.79 0.11 0.11
Matches are distributed among these distances:
90 1 0.01
91 36 0.24
92 20 0.14
93 16 0.11
94 53 0.36
95 20 0.14
96 1 0.01
ACGTcount: A:0.26, C:0.29, G:0.17, T:0.28
Consensus pattern (92 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAATATGGCCGATGCATGTCCCAGACAT
GTCTTACACTAGCACTCATCTTAGCCA
Found at i:19247150 original size:141 final size:139
Alignment explanation
Indices: 19246852--19247119 Score: 335
Period size: 139 Copynumber: 1.9 Consensus size: 139
19246842 GGTGAAGTTA
* * * ** *
19246852 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCTTTATCGAGGTTGATGCCATATCTCA
1 CCGATG-CATGTCCCAGACA-CGTCTTACACTGGCTATCATCATCGAGGCCGATGCCATATCCCA
* *
19246917 GACATGGTCTTACACTAGCTCTCGTATATATGTACCAATGCATGTCCCAGACTAGTCTTACACTA
64 GACATGGTCTTACACTAGCACTCG-ATATATGCACCAATGCATGTCCCAGACTAGTCTTACACTA
19246982 GCATAAAGCTTAG
128 GCATAAA-CTTAG
* * *
19246995 CCGATGCATGTCCCAGACACGTCTTACACTGGCTATCATCGTTGAGGCCGATG-CATGTCCCAGA
1 CCGATGCATGTCCCAGACACGTCTTACACTGGCTATCATCATCGAGGCCGATGCCATATCCCAGA
* * *
19247059 CAT-GTCTTACACTAGCACTC-ATCTCTGCACCAATGCCATGTCCCAGACATGGTCTTACACT
66 CATGGTCTTACACTAGCACTCGATATATGCACCAATG-CATGTCCCAGAC-TAGTCTTACACT
19247120 GGCTATCATA
Statistics
Matches: 109, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
137 12 0.11
138 12 0.11
139 27 0.25
140 12 0.11
141 27 0.25
142 13 0.12
143 6 0.06
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (139 bp):
CCGATGCATGTCCCAGACACGTCTTACACTGGCTATCATCATCGAGGCCGATGCCATATCCCAGA
CATGGTCTTACACTAGCACTCGATATATGCACCAATGCATGTCCCAGACTAGTCTTACACTAGCA
TAAACTTAG
Found at i:19247160 original size:141 final size:139
Alignment explanation
Indices: 19246852--19247162 Score: 342
Period size: 141 Copynumber: 2.2 Consensus size: 139
19246842 GGTGAAGTTA
* * ** *
19246852 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCTTTATCGAGGTTGATGCCATATCTCA
1 CCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTATCATCATCGAGGCCGATGCCATATCCCA
* *
19246917 GACATGGTCTTACACTAGCTCTCGTATATATGTACCAATGCATGTCCCAGACTAGTCTTACACTA
64 GACATGGTCTTACACTAGCACTCG-ATATATGCACCAATGCATGTCCCAGACTAGTCTTACACTA
19246982 GCATAAAGCTTAG
128 GCATAAA-CTTAG
* * * *
19246995 CCGATGCATGTCCCAGACACGTCTTACACTGGCTATCATCGTTGAGGCCGATG-CATGTCCCAGA
1 CCGATGCATGTCCCAGACATGTCTTACACTGGCTATCATCATCGAGGCCGATGCCATATCCCAGA
* * * *
19247059 CAT-GTCTTACACTAGCACTC-ATCTCTGCACCAATGCCATGTCCCAGACATGGTCTTACACTGG
66 CATGGTCTTACACTAGCACTCGATATATGCACCAATG-CATGTCCCAGAC-TAGTCTTACACTAG
*
19247122 CTATCATAA-TATGG
129 C-AT-A-AACT-TAG
* *
19247136 CTGATGCATGTCCCAAACATGTCTTAC
1 CCGATGCATGTCCCAGACATGTCTTAC
19247163 TCTAGCCCTC
Statistics
Matches: 143, Mismatches: 19, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
137 12 0.08
138 12 0.08
139 29 0.20
140 15 0.10
141 54 0.38
142 15 0.10
143 6 0.04
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.28
Consensus pattern (139 bp):
CCGATGCATGTCCCAGACATGTCTTACACTGGCTATCATCATCGAGGCCGATGCCATATCCCAGA
CATGGTCTTACACTAGCACTCGATATATGCACCAATGCATGTCCCAGACTAGTCTTACACTAGCA
TAAACTTAG
Found at i:19247547 original size:30 final size:30
Alignment explanation
Indices: 19247506--19247563 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
19247496 AAATTTACAT
* *
19247506 CTTTGATAAAATGACCACTTTGCCCCTAGA
1 CTTTGACAAAATGACCACTTTACCCCTAGA
*
19247536 CTTTGACAAAATGACCATTTTACCCCTA
1 CTTTGACAAAATGACCACTTTACCCCTA
19247564 TGCTCGAAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.28, G:0.10, T:0.31
Consensus pattern (30 bp):
CTTTGACAAAATGACCACTTTACCCCTAGA
Found at i:19249162 original size:40 final size:40
Alignment explanation
Indices: 19249125--19249349 Score: 269
Period size: 40 Copynumber: 5.7 Consensus size: 40
19249115 GCTACTCGTT
* *
19249125 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
19249165 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
19249205 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * *
19249245 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* ** * * * *
19249284 CAAATGCCTT-TGGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
19249325 CAAAT-CCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
19249350 CATCATTCGA
Statistics
Matches: 163, Mismatches: 17, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
38 2 0.01
39 31 0.19
40 116 0.71
41 14 0.09
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:19249309 original size:119 final size:120
Alignment explanation
Indices: 19249127--19249349 Score: 292
Period size: 119 Copynumber: 1.9 Consensus size: 120
19249117 TACTCGTTCA
*
19249127 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* *
19249192 TTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
66 ATAGTAACTTAGCACAAAT-CCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
* * * **
19249247 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTT-TGGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* * *
19249309 ATATGGTCACTTAGCACAAATCCTTCGGGACTTAGCCCGGA
64 ATATAGTAACTTAGCACAAATCCTTCGGGACTTAACCCGGA
19249350 CATCATTCGA
Statistics
Matches: 89, Mismatches: 11, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
118 4 0.04
119 64 0.72
120 21 0.24
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCACAAATCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
Found at i:19250550 original size:56 final size:56
Alignment explanation
Indices: 19250483--19251090 Score: 941
Period size: 56 Copynumber: 11.1 Consensus size: 56
19250473 TATTAGTTTA
19250483 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
19250539 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
19250595 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATG-C-T-TC
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
* * * * *** * **
19250648 TT----A---TT-TTATTCT-TCCATTAACA-CAACATGTTTCATG--ACATG-TTT---
1 TTGCCCATGCTTCTTATTTTATTC-TT-CCATTAACA--CAACATGTTTCATGACATGTT
19250692 -TGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
19250747 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
19250803 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
19250859 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
19250915 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
19250971 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
19251027 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
19251083 TTGCCCAT
1 TTGCCCAT
19251091 CATCCCTTGT
Statistics
Matches: 510, Mismatches: 20, Indels: 44
0.89 0.03 0.08
Matches are distributed among these distances:
43 1 0.00
44 2 0.00
45 16 0.03
46 5 0.01
47 5 0.01
49 5 0.01
50 4 0.01
51 16 0.03
52 3 0.01
53 3 0.01
54 1 0.00
55 1 0.00
56 448 0.88
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:19250647 original size:40 final size:40
Alignment explanation
Indices: 19250600--19250683 Score: 168
Period size: 40 Copynumber: 2.1 Consensus size: 40
19250590 ATGTTTTGCC
19250600 CATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTT
1 CATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTT
19250640 CATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTT
1 CATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTT
19250680 CATG
1 CATG
19250684 ACATGTTTTG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 44 1.00
ACGTcount: A:0.25, C:0.23, G:0.06, T:0.46
Consensus pattern (40 bp):
CATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTT
Found at i:19251537 original size:12 final size:12
Alignment explanation
Indices: 19251520--19251544 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
19251510 CAAAAATGTA
19251520 AAAATCATCAAG
1 AAAATCATCAAG
19251532 AAAATCATCAAG
1 AAAATCATCAAG
19251544 A
1 A
19251545 TCACTTACAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.16, G:0.08, T:0.16
Consensus pattern (12 bp):
AAAATCATCAAG
Found at i:19258735 original size:41 final size:40
Alignment explanation
Indices: 19258608--19258752 Score: 184
Period size: 40 Copynumber: 3.6 Consensus size: 40
19258598 CTCGCACAAG
* * * * *
19258608 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
19258648 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * * *
19258688 GCCTTC-GGATCTTAGTCCGGATGTAGTTGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
19258729 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
19258753 CATTCGAGTA
Statistics
Matches: 91, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
39 3 0.03
40 58 0.64
41 27 0.30
42 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:19263972 original size:47 final size:47
Alignment explanation
Indices: 19263921--19264049 Score: 161
Period size: 47 Copynumber: 2.7 Consensus size: 47
19263911 TTAGGATTCT
* *
19263921 ATGTGATGGATGTGAACA-TGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGGATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCA
* * * *
19263968 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGGATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCA
** *
19264015 ACATGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGGATGTGAAAGTGTATATATGTGATAAG
19264050 TCCCGAAGGG
Statistics
Matches: 69, Mismatches: 12, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
46 1 0.01
47 68 0.99
ACGTcount: A:0.33, C:0.09, G:0.31, T:0.28
Consensus pattern (47 bp):
ATGTGATGGATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCA
Found at i:19265046 original size:37 final size:37
Alignment explanation
Indices: 19264168--19265045 Score: 1711
Period size: 37 Copynumber: 23.7 Consensus size: 37
19264158 CCGAGCTCTA
19264168 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
*
19264205 AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
19264242 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
19264279 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
19264316 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
19264353 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
19264390 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
19264427 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
19264464 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
19264501 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
19264538 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
19264575 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
19264612 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
19264649 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
19264686 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
19264723 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
19264760 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
19264797 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
19264834 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
19264871 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
19264908 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
19264945 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
*
19264982 AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
* * *
19265019 AAGACCTGATAACTTCGTGTGGAGATT
1 AAGACCCGATGACTACGTGTGGAGATT
19265046 TCGTCTGAGC
Statistics
Matches: 835, Mismatches: 6, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
37 835 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
Found at i:19266116 original size:47 final size:46
Alignment explanation
Indices: 19266057--19266185 Score: 136
Period size: 47 Copynumber: 2.8 Consensus size: 46
19266047 TCATCGTTGA
* * *
19266057 GGCTGATGCATGTCCCAGACATGTCTTACTCTAGCACTGAT-CTCT
1 GGCTGATGCATGTCCCAGACATGTCTTACTCTAGCAATCATAATCT
* * * * *
19266102 -ACGTCGATGCCATGTCCCAAACATGGTCTTACACTGGCAATCATAATGT
1 GGC-T-GATG-CATGTCCCAGACAT-GTCTTACTCTAGCAATCATAATCT
19266151 GGCTGATGCATGTCCCAGACATGTCTTACTCTAGC
1 GGCTGATGCATGTCCCAGACATGTCTTACTCTAGC
19266186 CCTCATATAA
Statistics
Matches: 66, Mismatches: 12, Indels: 11
0.74 0.13 0.12
Matches are distributed among these distances:
44 1 0.02
45 1 0.02
46 15 0.23
47 26 0.39
48 19 0.29
49 3 0.05
50 1 0.02
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (46 bp):
GGCTGATGCATGTCCCAGACATGTCTTACTCTAGCAATCATAATCT
Found at i:19266162 original size:94 final size:91
Alignment explanation
Indices: 19265968--19266185 Score: 262
Period size: 94 Copynumber: 2.4 Consensus size: 91
19265958 TGTATACGTA
* * * *
19265968 CTGATGCATGTTCCATACATGTCTTA-TACTAGCACGAAGCTTAGCCGATGCATGTCTCAGACAC
1 CTGATGCATGTCCCAGACATGTCTTACT-CTAGCACGAAGCTTAGCCGATGCATGTCCCAAACAC
* **
19266032 GTCTTACACTGGCTATCATCGTTGAGG
65 GTCTTACACTGGCAATCATCAATGAGG
* *
19266059 CTGATGCATGTCCCAGACATGTCTTACTCTAGCACTG-ATCTCTACGTCGATGCCATGTCCCAAA
1 CTGATGCATGTCCCAGACATGTCTTACTCTAGCAC-GAAGCT-TA-GCCGATG-CATGTCCCAAA
* *
19266123 CATGGTCTTACACTGGCAATCAT-AATGTGG
62 CA-CGTCTTACACTGGCAATCATCAATGAGG
19266153 CTGATGCATGTCCCAGACATGTCTTACTCTAGC
1 CTGATGCATGTCCCAGACATGTCTTACTCTAGC
19266186 CCTCATATAA
Statistics
Matches: 110, Mismatches: 11, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
91 34 0.31
92 4 0.04
93 6 0.05
94 48 0.44
95 18 0.16
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.29
Consensus pattern (91 bp):
CTGATGCATGTCCCAGACATGTCTTACTCTAGCACGAAGCTTAGCCGATGCATGTCCCAAACACG
TCTTACACTGGCAATCATCAATGAGG
Found at i:19266915 original size:12 final size:12
Alignment explanation
Indices: 19266898--19266922 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
19266888 CATACCAAAA
19266898 AAAATCATCAAG
1 AAAATCATCAAG
19266910 AAAATCATCAAG
1 AAAATCATCAAG
19266922 A
1 A
19266923 TCACTTACAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.16, G:0.08, T:0.16
Consensus pattern (12 bp):
AAAATCATCAAG
Found at i:19269258 original size:40 final size:40
Alignment explanation
Indices: 19269203--19269282 Score: 151
Period size: 40 Copynumber: 2.0 Consensus size: 40
19269193 TCATTGGATT
*
19269203 CACTGATAGTGATTTTGCAGTGGATACAAATGGTCGGAAG
1 CACTGATAGTGATTTTGCAGTGGATACAAATGGGCGGAAG
19269243 CACTGATAGTGATTTTGCAGTGGATACAAATGGGCGGAAG
1 CACTGATAGTGATTTTGCAGTGGATACAAATGGGCGGAAG
19269283 AGCACTTCGG
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.30, C:0.12, G:0.31, T:0.26
Consensus pattern (40 bp):
CACTGATAGTGATTTTGCAGTGGATACAAATGGGCGGAAG
Found at i:19270132 original size:43 final size:43
Alignment explanation
Indices: 19270077--19270172 Score: 174
Period size: 43 Copynumber: 2.2 Consensus size: 43
19270067 ACGGCCGACG
*
19270077 ACACGCCTGTATGTCTAGCCCGTGTGACCTTCAAAGTGGCCGC
1 ACACGCCTGTATGTCTAGCCCGTGTGACCTTCAAAGTGGCCAC
*
19270120 ACACGCCTGTATGTCTAGCCCGTGTGCCCTTCAAAGTGGCCAC
1 ACACGCCTGTATGTCTAGCCCGTGTGACCTTCAAAGTGGCCAC
19270163 ACACGCCTGT
1 ACACGCCTGT
19270173 GTACCAGGTC
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 51 1.00
ACGTcount: A:0.19, C:0.34, G:0.24, T:0.23
Consensus pattern (43 bp):
ACACGCCTGTATGTCTAGCCCGTGTGACCTTCAAAGTGGCCAC
Found at i:19270570 original size:30 final size:30
Alignment explanation
Indices: 19270536--19270592 Score: 114
Period size: 30 Copynumber: 1.9 Consensus size: 30
19270526 TAGCCAGCCA
19270536 AAACATACTATTTCATATACATTTCATACC
1 AAACATACTATTTCATATACATTTCATACC
19270566 AAACATACTATTTCATATACATTTCAT
1 AAACATACTATTTCATATACATTTCAT
19270593 GCCATTTAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.40, C:0.21, G:0.00, T:0.39
Consensus pattern (30 bp):
AAACATACTATTTCATATACATTTCATACC
Found at i:19271476 original size:43 final size:43
Alignment explanation
Indices: 19271372--19271476 Score: 106
Period size: 43 Copynumber: 2.4 Consensus size: 43
19271362 TATCCCAGAT
* * * * * *
19271372 ATGGTCTTACATGTTATCACATATCGATGCCACTGCCCCAGAC
1 ATGGTCTTACAAGTAATCAAATAACGATGCCAATGCCCCAAAC
* *
19271415 AGGGTCTTATACAA--AATCAAATAACGATGCCAATGTCCCAAAC
1 ATGGTC-T-TACAAGTAATCAAATAACGATGCCAATGCCCCAAAC
19271458 ATGGTCTTACAAGTAATCA
1 ATGGTCTTACAAGTAATCA
19271477 CATCTCGGTA
Statistics
Matches: 49, Mismatches: 9, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
41 5 0.10
42 1 0.02
43 38 0.78
44 1 0.02
45 4 0.08
ACGTcount: A:0.34, C:0.25, G:0.15, T:0.26
Consensus pattern (43 bp):
ATGGTCTTACAAGTAATCAAATAACGATGCCAATGCCCCAAAC
Found at i:19274211 original size:20 final size:20
Alignment explanation
Indices: 19274186--19274224 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
19274176 TTATTTGTTA
19274186 TTTTTTATGTGTAGAATTTG
1 TTTTTTATGTGTAGAATTTG
*
19274206 TTTTTTTTGTGTAGAATTT
1 TTTTTTATGTGTAGAATTT
19274225 ATGTGTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.18, C:0.00, G:0.18, T:0.64
Consensus pattern (20 bp):
TTTTTTATGTGTAGAATTTG
Found at i:19274914 original size:21 final size:20
Alignment explanation
Indices: 19274890--19274930 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
19274880 AAAGAATAAT
*
19274890 TGTTATTTTTTTAAATAGGAA
1 TGTTATTTATTTAAAT-GGAA
19274911 TGTTATTTATTTAAATGGAA
1 TGTTATTTATTTAAATGGAA
19274931 AGAACATAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.34, C:0.00, G:0.15, T:0.51
Consensus pattern (20 bp):
TGTTATTTATTTAAATGGAA
Found at i:19283172 original size:65 final size:65
Alignment explanation
Indices: 19283103--19283234 Score: 176
Period size: 65 Copynumber: 2.0 Consensus size: 65
19283093 TTTCAAGCAA
** * * * *
19283103 TACACACAAAGTATACATTTCCTTTTCAAA-TGGTATACACAGAGTATACCTAACCTTTTCAAGT
1 TACACACAAAGTATACATAACCTTTTCAAAGT-GTACACACAAAGTATACATAACCTTTTCAAAT
19283167 G
65 G
* *
19283168 TACACACGAAGTATACATAACCTTTTCAAAGTGTACACACAAAGTGTACATAACCTTTTCAAATG
1 TACACACAAAGTATACATAACCTTTTCAAAGTGTACACACAAAGTATACATAACCTTTTCAAATG
19283233 TA
1 TA
19283235 ACCTTTTAGG
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
65 57 0.98
66 1 0.02
ACGTcount: A:0.38, C:0.21, G:0.11, T:0.30
Consensus pattern (65 bp):
TACACACAAAGTATACATAACCTTTTCAAAGTGTACACACAAAGTATACATAACCTTTTCAAATG
Found at i:19283189 original size:32 final size:32
Alignment explanation
Indices: 19283103--19283234 Score: 174
Period size: 33 Copynumber: 4.1 Consensus size: 32
19283093 TTTCAAGCAA
**
19283103 TACACACAAAGTATACATTTCCTTTTCAAATGG
1 TACACACAAAGTATACATAACCTTTTCAAAT-G
* * * *
19283136 TATACACAGAGTATACCTAACCTTTTCAAGTG
1 TACACACAAAGTATACATAACCTTTTCAAATG
*
19283168 TACACACGAAGTATACATAACCTTTTCAAAGTG
1 TACACACAAAGTATACATAACCTTTTCAAA-TG
*
19283201 TACACACAAAGTGTACATAACCTTTTCAAATG
1 TACACACAAAGTATACATAACCTTTTCAAATG
19283233 TA
1 TA
19283235 ACCTTTTAGG
Statistics
Matches: 85, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
32 30 0.35
33 55 0.65
ACGTcount: A:0.38, C:0.21, G:0.11, T:0.30
Consensus pattern (32 bp):
TACACACAAAGTATACATAACCTTTTCAAATG
Found at i:19283926 original size:20 final size:22
Alignment explanation
Indices: 19283884--19283931 Score: 64
Period size: 21 Copynumber: 2.2 Consensus size: 22
19283874 TGTAAAAGTG
*
19283884 ATTTATCTATCAATAATCTTTC
1 ATTTATCTATCAATAAACTTTC
19283906 ATTT-TCTATCAA-AAACTTTC
1 ATTTATCTATCAATAAACTTTC
19283926 AGTTTA
1 A-TTTA
19283932 CAGCATATTC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
20 8 0.35
21 11 0.48
22 4 0.17
ACGTcount: A:0.33, C:0.17, G:0.02, T:0.48
Consensus pattern (22 bp):
ATTTATCTATCAATAAACTTTC
Found at i:19290179 original size:29 final size:29
Alignment explanation
Indices: 19290146--19290246 Score: 118
Period size: 29 Copynumber: 3.6 Consensus size: 29
19290136 TGAATGTGAC
**
19290146 TGGGCCTAACAGGCCATATAAATATGATT
1 TGGGCCTAATGGGCCATATAAATATGATT
* *
19290175 TGGGCCTAATGGGCCATATACAA-GTGGTT
1 TGGGCCTAATGGGCCATATA-AATATGATT
*
19290204 TGGGCCTAATGGGCCAT-TGAATATGA-T
1 TGGGCCTAATGGGCCATATAAATATGATT
*
19290231 TGGGCTTAATGGGCCA
1 TGGGCCTAATGGGCCA
19290247 GATACAGGTA
Statistics
Matches: 62, Mismatches: 8, Indels: 6
0.82 0.11 0.08
Matches are distributed among these distances:
27 18 0.29
28 3 0.05
29 39 0.63
30 2 0.03
ACGTcount: A:0.27, C:0.17, G:0.29, T:0.28
Consensus pattern (29 bp):
TGGGCCTAATGGGCCATATAAATATGATT
Found at i:19303817 original size:163 final size:163
Alignment explanation
Indices: 19303612--19303944 Score: 470
Period size: 163 Copynumber: 2.0 Consensus size: 163
19303602 CAAGTCAGAC
* * * * *
19303612 AGTTACACGGCCTAGCACGCTACCTGGCACACGGGTGTGTAGGGCTA-TTTCAAGAGTTACATAA
1 AGTTACACAGCCTAGCACACTACCTGGCACACAGGCGTGTAGGGCTATTTTCAA-AGTTACACAA
** * *
19303676 CCTGACACACGGGCGTGTGACACGGCCTTGTGACCCTACTCAGTGAGTTACACGGGTGATGACAC
65 CCTGACACACGGGCGTGTGACACAACCGTGTGACCCTACTCAGTGAGTTACACGGGTGAGGACAC
*
19303741 AGGCTAGAACACGACCGTGTGTCTCTAGTTCAAA
130 AGGCTAGAACACGACCGTGTATCTCTAGTTCAAA
* * * **
19303775 AGTTACACAGCCTAGCACACTACCTGGTACATAGGCGTGTAGGGCTATTTTGAAAGTTACACGGC
1 AGTTACACAGCCTAGCACACTACCTGGCACACAGGCGTGTAGGGCTATTTTCAAAGTTACACAAC
*
19303840 TTGACACACGGGCGTGTGACACAACCGTGTGACCCTACTCAGTGAGTTACACGGGTGAGGACACA
66 CTGACACACGGGCGTGTGACACAACCGTGTGACCCTACTCAGTGAGTTACACGGGTGAGGACACA
* * *
19303905 GGCTATAACATGACCGTGTATCTCTAGTTCGAA
131 GGCTAGAACACGACCGTGTATCTCTAGTTCAAA
*
19303938 AGCTACA
1 AGTTACA
19303945 TGGCCTGAGA
Statistics
Matches: 149, Mismatches: 20, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
163 144 0.97
164 5 0.03
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (163 bp):
AGTTACACAGCCTAGCACACTACCTGGCACACAGGCGTGTAGGGCTATTTTCAAAGTTACACAAC
CTGACACACGGGCGTGTGACACAACCGTGTGACCCTACTCAGTGAGTTACACGGGTGAGGACACA
GGCTAGAACACGACCGTGTATCTCTAGTTCAAA
Found at i:19305376 original size:32 final size:33
Alignment explanation
Indices: 19305334--19305411 Score: 88
Period size: 32 Copynumber: 2.4 Consensus size: 33
19305324 CTGTCCTGGT
*
19305334 GGACTTACTCTATTCAATGTTTACTAGTCCAG-C
1 GGACTTACTCTATTCAATATTTACTA-TCCAGAC
* ** *
19305367 GG-CTTACTCTGTTCCCTATTTACTATCCCGAC
1 GGACTTACTCTATTCAATATTTACTATCCAGAC
19305399 GGACTTACTCTAT
1 GGACTTACTCTAT
19305412 GGATTCCATG
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
31 4 0.11
32 22 0.59
33 11 0.30
ACGTcount: A:0.21, C:0.28, G:0.14, T:0.37
Consensus pattern (33 bp):
GGACTTACTCTATTCAATATTTACTATCCAGAC
Found at i:19311509 original size:19 final size:19
Alignment explanation
Indices: 19311485--19311522 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
19311475 TTTTAAATAA
19311485 AACTCAAGCTAATTCATAC
1 AACTCAAGCTAATTCATAC
19311504 AACTCAAGCTAATTCATAC
1 AACTCAAGCTAATTCATAC
19311523 CTCGTCATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.26, G:0.05, T:0.26
Consensus pattern (19 bp):
AACTCAAGCTAATTCATAC
Found at i:19314601 original size:47 final size:47
Alignment explanation
Indices: 19314535--19314773 Score: 352
Period size: 47 Copynumber: 5.1 Consensus size: 47
19314525 GAAATGATAG
19314535 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
19314582 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
19314629 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGCATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
19314676 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*** * * * * * * *
19314723 CGGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
19314770 TAAG
1 TAAG
19314774 TCCCGAAGGG
Statistics
Matches: 173, Mismatches: 19, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 173 1.00
ACGTcount: A:0.32, C:0.10, G:0.31, T:0.27
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:19314948 original size:37 final size:37
Alignment explanation
Indices: 19314892--19314970 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
19314882 CCGAGCTCTA
* *
19314892 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
19314929 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
19314966 AAGAC
1 AAGAC
19314971 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:19317030 original size:23 final size:24
Alignment explanation
Indices: 19316999--19317053 Score: 67
Period size: 23 Copynumber: 2.3 Consensus size: 24
19316989 CCTATACTTG
*
19316999 TGATGTATGAAATGTG-GTGAAAA
1 TGATTTATGAAATGTGTGTGAAAA
* *
19317022 TGATTTATGATATGTGTGTTAAAA
1 TGATTTATGAAATGTGTGTGAAAA
19317046 TGAGTTTA
1 TGA-TTTA
19317054 ATACAAAGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
23 14 0.52
24 9 0.33
25 4 0.15
ACGTcount: A:0.35, C:0.00, G:0.25, T:0.40
Consensus pattern (24 bp):
TGATTTATGAAATGTGTGTGAAAA
Found at i:19327755 original size:13 final size:13
Alignment explanation
Indices: 19327737--19327762 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
19327727 GCCCAGTTTT
19327737 AGCATGTGATTAC
1 AGCATGTGATTAC
19327750 AGCATGTGATTAC
1 AGCATGTGATTAC
19327763 GTAAGTGTGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (13 bp):
AGCATGTGATTAC
Found at i:19328963 original size:43 final size:43
Alignment explanation
Indices: 19328869--19328968 Score: 121
Period size: 43 Copynumber: 2.3 Consensus size: 43
19328859 TTGATATGTA
* * * *
19328869 ATTACATGTAAGACCATGTCTGAGACATTGGCATTATATTGAG
1 ATTACGTGTAAGACCATGTCTGAAACATTGGCATCATAATGAG
* *
19328912 ATTACGTGTAAGACCATGTTTGAAACATTGGCATCATTAAT-CG
1 ATTACGTGTAAGACCATGTCTGAAACATTGGCATCA-TAATGAG
*
19328955 ATTTCGTGTAAGAC
1 ATTACGTGTAAGAC
19328969 ATTGTCTAGG
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
43 46 0.94
44 3 0.06
ACGTcount: A:0.32, C:0.15, G:0.20, T:0.33
Consensus pattern (43 bp):
ATTACGTGTAAGACCATGTCTGAAACATTGGCATCATAATGAG
Found at i:19343527 original size:47 final size:47
Alignment explanation
Indices: 19343449--19343794 Score: 539
Period size: 47 Copynumber: 7.3 Consensus size: 47
19343439 CCCTTCGGGA
* * * * * *
19343449 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
***
19343496 CCCGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
19343543 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
19343590 CCTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
19343637 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
** *
19343684 CTTATCACGCATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
19343731 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
19343780 CTTATCACATATATA
1 CTTATCACATATATA
19343795 TACACAACTT
Statistics
Matches: 278, Mismatches: 19, Indels: 4
0.92 0.06 0.01
Matches are distributed among these distances:
47 233 0.84
49 45 0.16
ACGTcount: A:0.30, C:0.31, G:0.08, T:0.31
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:19347608 original size:40 final size:40
Alignment explanation
Indices: 19347518--19347749 Score: 369
Period size: 40 Copynumber: 5.8 Consensus size: 40
19347508 GAATACACAT
* *
19347518 CACCAGCATGAATGCTCTTCGAGACTTAGCCCGG--ATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* *
19347556 CACCAGCTCGAATGCTCTTCGGGACCTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
*
19347596 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAT
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* *
19347636 CACTAGCACGAATGCTCTTCGAGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
*
19347676 CACCAGCTCGAATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
*
19347716 CACCAGCACGAATGCTCTTCAGGACTTAGCCCGG
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGG
19347750 GTATCTAACT
Statistics
Matches: 177, Mismatches: 15, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
38 30 0.17
40 147 0.83
ACGTcount: A:0.26, C:0.31, G:0.22, T:0.21
Consensus pattern (40 bp):
CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
Found at i:19347699 original size:120 final size:118
Alignment explanation
Indices: 19347516--19347749 Score: 414
Period size: 120 Copynumber: 2.0 Consensus size: 118
19347506 CCGAATACAC
*
19347516 ATCACCAGCATGAATGCTCTTCGAGACTTAGCCCGGATAACACCAGCTCGAATGCTCTTCGGGAC
1 ATCACCAGCACGAATGCTCTTCGAGACTTAGCCCGGATAACACCAGCTCGAATGCTCTTCGGGAC
*
19347581 CTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
66 CTAGCCCGGATATAACACCAGCACGAATGCTCTTCAGGACTTAGCCCGGATAT
*
19347634 ATCACTAGCACGAATGCTCTTCGAGACTTAGCCCGGATATAACACCAGCTCGAATGCTCTTCGGG
1 ATCACCAGCACGAATGCTCTTCGAGACTTAGCCCGG--ATAACACCAGCTCGAATGCTCTTCGGG
*
19347699 ACTTAGCCCGGATATAACACCAGCACGAATGCTCTTCAGGACTTAGCCCGG
64 ACCTAGCCCGGATATAACACCAGCACGAATGCTCTTCAGGACTTAGCCCGG
19347750 GTATCTAACT
Statistics
Matches: 110, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
118 34 0.31
120 76 0.69
ACGTcount: A:0.26, C:0.30, G:0.22, T:0.21
Consensus pattern (118 bp):
ATCACCAGCACGAATGCTCTTCGAGACTTAGCCCGGATAACACCAGCTCGAATGCTCTTCGGGAC
CTAGCCCGGATATAACACCAGCACGAATGCTCTTCAGGACTTAGCCCGGATAT
Found at i:19349092 original size:37 final size:37
Alignment explanation
Indices: 19349029--19349100 Score: 117
Period size: 37 Copynumber: 1.9 Consensus size: 37
19349019 AGCTCAGATG
*
19349029 AAATCTCCACACGAAGTTATCAGGTCTTACCCGGACA
1 AAATCTCCACACGAAGTCATCAGGTCTTACCCGGACA
* *
19349066 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGAAGTCATCAGGTCTTACCCGGA
19349101 ATATATTTCC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.29, C:0.31, G:0.18, T:0.22
Consensus pattern (37 bp):
AAATCTCCACACGAAGTCATCAGGTCTTACCCGGACA
Found at i:19349363 original size:98 final size:98
Alignment explanation
Indices: 19349254--19349587 Score: 605
Period size: 98 Copynumber: 3.4 Consensus size: 98
19349244 TCCTACATAC
* * * * * * *
19349254 TTCACACTAGCCCTTCGACTTTACCACATATACGTATCTCATACATATTTCACACTAGCCATTCG
1 TTCACATTAGCCATTCGGCTTTACTACATATACATATCCCATACATATTTCACATTAGCCATTCG
19349319 GCTTTACCACATATACATATCTCATATATACAT
66 GCTTTACCACATATACATATCTCATATATACAT
19349352 TTCACATTAGCCATTCGGCTTTACTACATATACATATCCCATACATATTTCACATTAGCCATTCG
1 TTCACATTAGCCATTCGGCTTTACTACATATACATATCCCATACATATTTCACATTAGCCATTCG
19349417 GCTTTACCACATATACATATCTCATATATACAT
66 GCTTTACCACATATACATATCTCATATATACAT
19349450 TTCACATTAGCCATTCGGCTTTACTACATATACATATCCCATACATATTTCACATTAGCCATTCG
1 TTCACATTAGCCATTCGGCTTTACTACATATACATATCCCATACATATTTCACATTAGCCATTCG
19349515 GCTTTACCACATATACATATCTCATATATACAT
66 GCTTTACCACATATACATATCTCATATATACAT
19349548 TTCACATTAGCCATTCGGCTTTACTACATATACATATCCC
1 TTCACATTAGCCATTCGGCTTTACTACATATACATATCCC
19349588 TAATCTTGTG
Statistics
Matches: 229, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
98 229 1.00
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (98 bp):
TTCACATTAGCCATTCGGCTTTACTACATATACATATCCCATACATATTTCACATTAGCCATTCG
GCTTTACCACATATACATATCTCATATATACAT
Found at i:19349584 original size:50 final size:48
Alignment explanation
Indices: 19349247--19349585 Score: 498
Period size: 48 Copynumber: 6.9 Consensus size: 48
19349237 CCACACCTCC
* * * * *
19349247 TACATACTTCACACTAGCCCTTCGACTTTACCACATATACGTATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
19349295 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
* * *
19349343 TATATACATTTCACATTAGCCATTCGGCTTTACTACATATACATATCCCA
1 TACAT--ATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
19349393 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
* * *
19349441 TATATACATTTCACATTAGCCATTCGGCTTTACTACATATACATATCCCA
1 TACAT--ATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
19349491 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
* *
19349539 TATATACATTTCACATTAGCCATTCGGCTTTACTACATATACATATC
1 TACAT--ATTTCACATTAGCCATTCGGCTTTACCACATATACATATC
19349586 CCTAATCTTG
Statistics
Matches: 266, Mismatches: 19, Indels: 10
0.90 0.06 0.03
Matches are distributed among these distances:
48 138 0.52
50 128 0.48
ACGTcount: A:0.31, C:0.27, G:0.06, T:0.35
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:19352599 original size:48 final size:48
Alignment explanation
Indices: 19352477--19352658 Score: 276
Period size: 48 Copynumber: 3.8 Consensus size: 48
19352467 ACATCGCCTA
* **
19352477 CATATTTCACACTAGCCATTCGGCTTTACCACATATAAATATCTCATAT
1 CATATTTCACATTAGCCATTCGGCTTTACCACATATGCATATCTCAT-T
* *
19352526 ATATATTTCACATT-GACCATTCGGCTTTACCACATATGCTTATCTCATT
1 -CATATTTCACATTAG-CCATTCGGCTTTACCACATATGCATATCTCATT
*
19352575 CATATTTCACATTAGCCATTCGGCTTTACCACATATGCATATCTCATA
1 CATATTTCACATTAGCCATTCGGCTTTACCACATATGCATATCTCATT
19352623 CATATTTCACATTAGCCATTCGGCTTTACCACATAT
1 CATATTTCACATTAGCCATTCGGCTTTACCACATAT
19352659 ATGCATGTTC
Statistics
Matches: 122, Mismatches: 8, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
48 79 0.65
49 3 0.02
50 40 0.33
ACGTcount: A:0.29, C:0.26, G:0.08, T:0.37
Consensus pattern (48 bp):
CATATTTCACATTAGCCATTCGGCTTTACCACATATGCATATCTCATT
Found at i:19352662 original size:98 final size:97
Alignment explanation
Indices: 19352477--19352658 Score: 296
Period size: 98 Copynumber: 1.9 Consensus size: 97
19352467 ACATCGCCTA
*
19352477 CATATTTCACACTAGCCATTCGGCTTTACCACATATAAATATCTCATATATATATTTCACATTGA
1 CATATTTCACACTAGCCATTCGGCTTTACCACATATAAATATCTCA-ATACATATTTCACATTGA
19352542 CCATTCGGCTTTACCACATATGCTTATCTCATT
65 CCATTCGGCTTTACCACATATGCTTATCTCATT
* **
19352575 CATATTTCACATTAGCCATTCGGCTTTACCACATATGCATATCTC-ATACATATTTCACATT-AG
1 CATATTTCACACTAGCCATTCGGCTTTACCACATATAAATATCTCAATACATATTTCACATTGA-
19352638 CCATTCGGCTTTACCACATAT
65 CCATTCGGCTTTACCACATAT
19352659 ATGCATGTTC
Statistics
Matches: 79, Mismatches: 4, Indels: 4
0.91 0.05 0.05
Matches are distributed among these distances:
95 1 0.01
96 36 0.46
98 42 0.53
ACGTcount: A:0.29, C:0.26, G:0.08, T:0.37
Consensus pattern (97 bp):
CATATTTCACACTAGCCATTCGGCTTTACCACATATAAATATCTCAATACATATTTCACATTGAC
CATTCGGCTTTACCACATATGCTTATCTCATT
Found at i:19352708 original size:47 final size:47
Alignment explanation
Indices: 19352629--19352822 Score: 262
Period size: 47 Copynumber: 4.1 Consensus size: 47
19352619 CATACATATT
* * * *
19352629 TCACATTAGCCATTCGGCTTTACCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * * * *
19352676 CCACATTGGTCATTCGGCCTTATCACACATATGCATGCTCGCATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
*
19352723 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACAGTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * **
19352770 TCACATTGGCCATTCGGCCTTATCTCATATATACACATTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
19352817 TCACAT
1 TCACAT
19352823 AAAATCCTAA
Statistics
Matches: 127, Mismatches: 20, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
47 127 1.00
ACGTcount: A:0.26, C:0.29, G:0.12, T:0.33
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:19360281 original size:16 final size:16
Alignment explanation
Indices: 19360260--19360291 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
19360250 CCATATCTAG
19360260 GATATGGCATCAGTGT
1 GATATGGCATCAGTGT
*
19360276 GATATGGCATCCGTGT
1 GATATGGCATCAGTGT
19360292 AAGACCATAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.22, C:0.16, G:0.31, T:0.31
Consensus pattern (16 bp):
GATATGGCATCAGTGT
Found at i:19360348 original size:49 final size:47
Alignment explanation
Indices: 19360177--19360408 Score: 192
Period size: 47 Copynumber: 5.0 Consensus size: 47
19360167 CATCGGAGAG
* * *
19360177 ATGTGATTATGTGCTTCCGTATAAGACCATATCTGGGATATGGCATCA
1 ATGTGA-TATGTGATTACGTATAAGACCATAGCTGGGATATGGCATCA
* * * * *
19360225 GTGTGATATAT-ACTACTGTATAAGACCATATCTAGGATATGGCATCA
1 ATGTGATATGTGATTAC-GTATAAGACCATAGCTGGGATATGGCATCA
* * * * *
19360272 GTGTGATATG-GCA-TCCGTGTAAGACCATAGCTGGGCTATGGTATCGA
1 ATGTGATATGTG-ATTACGTATAAGACCATAGCTGGGATATGGCATC-A
*
19360319 TATGTGATATGTGATTACGTATAAGACCATAGCTGGGCTATGGCATC-
1 -ATGTGATATGTGATTACGTATAAGACCATAGCTGGGATATGGCATCA
* * * * *
19360366 ----GATATATGAATATGTGTAAGACCATAGCTGGGCTATGGCATCA
1 ATGTGATATGTGATTACGTATAAGACCATAGCTGGGATATGGCATCA
19360409 TTATGTGAAG
Statistics
Matches: 155, Mismatches: 21, Indels: 21
0.79 0.11 0.11
Matches are distributed among these distances:
42 38 0.25
46 26 0.17
47 45 0.29
48 16 0.10
49 30 0.19
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.31
Consensus pattern (47 bp):
ATGTGATATGTGATTACGTATAAGACCATAGCTGGGATATGGCATCA
Found at i:19360386 original size:42 final size:42
Alignment explanation
Indices: 19360340--19360434 Score: 147
Period size: 42 Copynumber: 2.3 Consensus size: 42
19360330 TGATTACGTA
* *
19360340 TAAGACCATAGCTGGGCTATGGCATCGA-TATATGAATATGTG
1 TAAGACCATAGCTGGGCTATGGCATC-ATTATATGAAGATATG
*
19360382 TAAGACCATAGCTGGGCTATGGCATCATTATGTGAAGATATG
1 TAAGACCATAGCTGGGCTATGGCATCATTATATGAAGATATG
19360424 TAAGACCATAG
1 TAAGACCATAG
19360435 TTGAACTCTG
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
41 1 0.02
42 48 0.98
ACGTcount: A:0.33, C:0.15, G:0.25, T:0.27
Consensus pattern (42 bp):
TAAGACCATAGCTGGGCTATGGCATCATTATATGAAGATATG
Found at i:19360414 original size:91 final size:94
Alignment explanation
Indices: 19360198--19360416 Score: 252
Period size: 91 Copynumber: 2.4 Consensus size: 94
19360188 TGCTTCCGTA
* * * *
19360198 TAAGACCATATCTGGGATATGGCATCA-GTGTGATATATACTACTGTATAAGACCATATCTAGGA
1 TAAGACCATAGCTGGGCTATGGCATCATATGTGATATATACTACTGTATAAGACCATAGCTAGGA
* * *
19360262 TATGGCATCAGTGTGATATGGCATCCGTG
66 TATGGCATCAGTATGATATGGAATACGTG
* * * *
19360291 TAAGACCATAGCTGGGCTATGGTATCGATATGTGATATGTGATTAC-GTATAAGACCATAGCTGG
1 TAAGACCATAGCTGGGCTATGGCATC-ATATGTGATATAT-ACTACTGTATAAGACCATAGCTAG
* *
19360355 GCTATGGCATC-G-AT-ATAT-GAATATGTG
64 GATATGGCATCAGTATGATATGGAATACGTG
19360382 TAAGACCATAGCTGGGCTATGGCATCATTATGTGA
1 TAAGACCATAGCTGGGCTATGGCATCA-TATGTGA
19360417 AGATATGTAA
Statistics
Matches: 108, Mismatches: 14, Indels: 10
0.82 0.11 0.08
Matches are distributed among these distances:
90 1 0.01
91 38 0.35
92 4 0.04
93 24 0.22
94 2 0.02
95 35 0.32
96 4 0.04
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30
Consensus pattern (94 bp):
TAAGACCATAGCTGGGCTATGGCATCATATGTGATATATACTACTGTATAAGACCATAGCTAGGA
TATGGCATCAGTATGATATGGAATACGTG
Found at i:19362090 original size:28 final size:28
Alignment explanation
Indices: 19362050--19362203 Score: 274
Period size: 28 Copynumber: 5.5 Consensus size: 28
19362040 TAAATTGTAC
19362050 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
19362078 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
19362106 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
19362134 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
19362162 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
19362189 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
19362204 GACTTAATAT
Statistics
Matches: 124, Mismatches: 2, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
27 24 0.19
28 100 0.81
ACGTcount: A:0.26, C:0.12, G:0.29, T:0.34
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATGT
Found at i:19362217 original size:56 final size:56
Alignment explanation
Indices: 19362025--19362203 Score: 279
Period size: 56 Copynumber: 3.2 Consensus size: 56
19362015 GAGATTGGTG
* * * *
19362025 CTAAGTGTGCGGGTTTAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCACTAAGTGTGCGAGTTTGATTATGTAGCA
*
19362082 CTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGTTTGATTATGTAGCA
*
19362138 CTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGTTTGATTATGTAGCA
*
19362193 CTGAGTGTGCG
1 CTAAGTGTGCG
19362204 GACTTAATAT
Statistics
Matches: 114, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
55 23 0.20
56 76 0.67
57 15 0.13
ACGTcount: A:0.26, C:0.12, G:0.28, T:0.34
Consensus pattern (56 bp):
CTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGTTTGATTATGTAGCA
Found at i:19372487 original size:40 final size:40
Alignment explanation
Indices: 19372442--19372633 Score: 226
Period size: 40 Copynumber: 4.8 Consensus size: 40
19372432 ATAACCACAA
* * *
19372442 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
*
19372482 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
* * *
19372522 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATAGCAACTC
* * * * *
19372562 GCATAAATGCCTTCGGGACTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATAGCAACTC
* *
19372602 GCATAAATGCCTTCGGGACTTAGCCCGGATAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAT
19372634 CATTCAAATG
Statistics
Matches: 141, Mismatches: 10, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
39 1 0.01
40 136 0.96
41 4 0.03
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
Found at i:19372526 original size:80 final size:80
Alignment explanation
Indices: 19372413--19372632 Score: 248
Period size: 80 Copynumber: 2.8 Consensus size: 80
19372403 ACCCAAGTTT
* * * * * * * * *
19372413 CTTCGGAATTTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGGT-ATAG
1 CTTCGGGACTTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAAG
19372476 CAACTCGCACAAATGC
66 C-ACTCGCACAAATGC
* * *
19372492 CTTCGGGTCTTAGCCCGGAT-ATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAA
1 CTTCGGGACTTAGCCCGGATAAAATC-ACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAA
* * *
19372556 TCACTTGCATAAATGC
65 GCACTCGCACAAATGC
* *
19372572 CTTCGGGACTTAGCCCGGATAAAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGATA
1 CTTCGGGACTTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATA
19372633 TCATTCAAAT
Statistics
Matches: 117, Mismatches: 20, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
79 12 0.10
80 98 0.84
81 7 0.06
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAAG
CACTCGCACAAATGC
Found at i:19378883 original size:3 final size:3
Alignment explanation
Indices: 19378875--19379033 Score: 318
Period size: 3 Copynumber: 53.0 Consensus size: 3
19378865 TTGAATTACT
19378875 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
19378923 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
19378971 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
19379019 TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA
19379034 CTTTGTTATT
Statistics
Matches: 156, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 156 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:19379301 original size:28 final size:28
Alignment explanation
Indices: 19379220--19379302 Score: 71
Period size: 28 Copynumber: 2.9 Consensus size: 28
19379210 TTTATAGTTA
* *
19379220 CTTTTAAATCTATTTAATATATATATTTT
1 CTTTTAAAT-TATTTTATATATATATTCT
** *
19379249 CTTTTCAAATCTA--TTAGGTAAATATTCT
1 CTTTT-AAAT-TATTTTATATATATATTCT
*
19379277 CTTTTAAATTTTTTTATATATATATT
1 CTTTTAAATTATTTTATATATATATT
19379303 TTTAAATTTA
Statistics
Matches: 42, Mismatches: 9, Indels: 7
0.72 0.16 0.12
Matches are distributed among these distances:
26 1 0.02
27 4 0.10
28 25 0.60
29 5 0.12
30 7 0.17
ACGTcount: A:0.33, C:0.08, G:0.02, T:0.57
Consensus pattern (28 bp):
CTTTTAAATTATTTTATATATATATTCT
Found at i:19382526 original size:43 final size:42
Alignment explanation
Indices: 19382469--19382553 Score: 125
Period size: 43 Copynumber: 2.0 Consensus size: 42
19382459 CAGACCTTAG
* *
19382469 CGGTTAGGCTGATGTCATAAGTGCGAAGTATGAGTTAGAGTC
1 CGGTTAGGCCGATGTCATAACTGCGAAGTATGAGTTAGAGTC
* *
19382511 CGGTTCAGGCCGATGTCCTAACTGTGAAGTATGAGTTAGAGTC
1 CGGTT-AGGCCGATGTCATAACTGCGAAGTATGAGTTAGAGTC
19382554 GGACCAGGGT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
42 5 0.13
43 33 0.87
ACGTcount: A:0.25, C:0.15, G:0.32, T:0.28
Consensus pattern (42 bp):
CGGTTAGGCCGATGTCATAACTGCGAAGTATGAGTTAGAGTC
Found at i:19391187 original size:45 final size:45
Alignment explanation
Indices: 19391121--19391373 Score: 150
Period size: 45 Copynumber: 5.7 Consensus size: 45
19391111 AAATTGCAGA
19391121 TCTTATCTCCATGTATCGGCTATGGAGCAGATCGAAGATGGCGAG
1 TCTTATCTCCATGTATCGGCTATGGAGCAGATCGAAGATGGCGAG
* *** *** * *
19391166 TCTTATCTCCATGTATTGGCTATGGAGCAGATTTTAG-CCACCAA
1 TCTTATCTCCATGTATCGGCTATGGAGCAGATCGAAGATGGCGAG
* * * * * * *
19391210 CCTTATCTCTC-TGAAAT-TGC-A-GAGAGCAGGTTGAAGAT-ACAAG
1 TCTTATCTC-CATG-TATCGGCTATG-GAGCAGATCGAAGATGGCGAG
* * * * * *
19391253 TCTTATCTTCTTGAAGT-TGC-A-GGAAGCAGA-CTGAAAATTGC-AG
1 TCTTATCTCCATGTA-TCGGCTATGG-AGCAGATC-GAAGATGGCGAG
* *
19391296 ATCTTATCTCCATGTATCGGCTATGGAGTAGATCAAAGATGGCGAG
1 -TCTTATCTCCATGTATCGGCTATGGAGCAGATCGAAGATGGCGAG
19391342 TCTTATCTCCATGTATCGGCTATGGAGCAGAT
1 TCTTATCTCCATGTATCGGCTATGGAGCAGAT
19391374 TTTAGCCACC
Statistics
Matches: 160, Mismatches: 33, Indels: 30
0.72 0.15 0.13
Matches are distributed among these distances:
42 5 0.03
43 42 0.26
44 29 0.18
45 79 0.49
46 5 0.03
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.30
Consensus pattern (45 bp):
TCTTATCTCCATGTATCGGCTATGGAGCAGATCGAAGATGGCGAG
Found at i:19391701 original size:353 final size:353
Alignment explanation
Indices: 19391073--19391802 Score: 1131
Period size: 353 Copynumber: 2.1 Consensus size: 353
19391063 GCTTAATACG
* *
19391073 CAAGTCTTATCTTCTTGAAGTTGCAGGAAGCAAACTGAAAATTGCAGATCTTATCTCCATGTATC
1 CAAGTCTTATCTTCTTGAAGTTGCAAGAAGCAAACTGAAAATTACAGATCTTATCTCCATGTATC
* *
19391138 GGCTATGGAGCAGATCGAAGATGGCGAGTCTTATCTCCATGTATTGGCTATGGAGCAGATTTTAG
66 GGCTATGGAGCAGATCGAAGATGGCAAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAG
* *
19391203 CCACCAACCTTATCTCTCTGAAATTGCAGAGAGCAGGTTGAAGATACAAGTCTTATCTTCTTGAA
131 CCACCAACCTTATCTCTCTGAAATAGCAGAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAA
* * *
19391268 GTTGCAGGAAGCAGACTGAAAATTGCAGATCTTATCTCCATGTATCGGCTATGGAGTAGATCAAA
196 GTTGCAGGAAGCAGACTGAAAATTACAGATCTTATCTCCATGTATCAGCTATGGAGCAGATCAAA
*
19391333 GATGGCGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAACCTTATCTCTCT
261 GATGGCGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAACCTTATCTCCCT
*
19391398 GAAGTTGCA-AAGAGCAGGTTGAAGACA
326 GAAATTGCAGAAGAGCAGGTTGAAGACA
* * * * *
19391425 CTAGTCTTATCTTCTTTAAGTTGCAAGAAGCAGACTGAAAGTTATAGATCTTATCTCCATGTATC
1 CAAGTCTTATCTTCTTGAAGTTGCAAGAAGCAAACTGAAAATTACAGATCTTATCTCCATGTATC
19391490 GGCTATGGAGCAGATCAGAA-ATGGCAAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTA
66 GGCTATGGAGCAGATC-GAAGATGGCAAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTA
** * * *
19391554 GCCACCAACCTTATCTCTCTGAGGTAGCAAGAGCGCAGGTTGAAGATATAGGTCTTATCTTCCTG
130 GCCACCAACCTTATCTCTCTGAAATAGC-AGAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTG
* *
19391619 AAGTTGCAGGAAGCAGACTGAAAGTTACAGATCTTATCTCCATGTATCAGCTATGGAGCAGATCG
194 AAGTTGCAGGAAGCAGACTGAAAATTACAGATCTTATCTCCATGTATCAGCTATGGAGCAGATCA
* * * *
19391684 AAGATGGTGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCGACTTTGTCTCC
259 AAGATGGCGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAACCTTATCTCC
* ** *
19391749 CTGAAATTGTAGTGGAGCAGGTTGAAGTCA
324 CTGAAATTGCAGAAGAGCAGGTTGAAGACA
**
19391779 CAAACCTTATCTTCTTGAAGTTGC
1 CAAGTCTTATCTTCTTGAAGTTGC
19391803 TGTAAGGCTA
Statistics
Matches: 340, Mismatches: 35, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
352 141 0.41
353 164 0.48
354 35 0.10
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.29
Consensus pattern (353 bp):
CAAGTCTTATCTTCTTGAAGTTGCAAGAAGCAAACTGAAAATTACAGATCTTATCTCCATGTATC
GGCTATGGAGCAGATCGAAGATGGCAAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAG
CCACCAACCTTATCTCTCTGAAATAGCAGAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAA
GTTGCAGGAAGCAGACTGAAAATTACAGATCTTATCTCCATGTATCAGCTATGGAGCAGATCAAA
GATGGCGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAACCTTATCTCCCT
GAAATTGCAGAAGAGCAGGTTGAAGACA
Found at i:19391790 original size:177 final size:176
Alignment explanation
Indices: 19391073--19391802 Score: 1113
Period size: 176 Copynumber: 4.1 Consensus size: 176
19391063 GCTTAATACG
* *
19391073 CAAGTCTTATCTTCTTGAAGTTGCAGGAAGCAAACTGAAAATTGCAGATCTTATCTCCATGTATC
1 CAAGTCTTATCTTCTTGAAGTTGCAGGAAGCAGACTGAAAATTACAGATCTTATCTCCATGTATC
*
19391138 GGCTATGGAGCAGATCGAAGATGGCGAGTCTTATCTCCATGTATTGGCTATGGAGCAGATTTTAG
66 GGCTATGGAGCAGATCGAAGATGGCGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAG
19391203 CCACCAACCTTATCTCTCTGAAATTGCAGAGAGCAGGTTGAAGATA
131 CCACCAACCTTATCTCTCTGAAATTGCAGAGAGCAGGTTGAAGATA
*
19391249 CAAGTCTTATCTTCTTGAAGTTGCAGGAAGCAGACTGAAAATTGCAGATCTTATCTCCATGTATC
1 CAAGTCTTATCTTCTTGAAGTTGCAGGAAGCAGACTGAAAATTACAGATCTTATCTCCATGTATC
* *
19391314 GGCTATGGAGTAGATCAAAGATGGCGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAG
66 GGCTATGGAGCAGATCGAAGATGGCGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAG
* * *
19391379 CCACCAACCTTATCTCTCTGAAGTTGCAAAGAGCAGGTTGAAGACA
131 CCACCAACCTTATCTCTCTGAAATTGCAGAGAGCAGGTTGAAGATA
* * * * *
19391425 CTAGTCTTATCTTCTTTAAGTTGCAAGAAGCAGACTGAAAGTTATAGATCTTATCTCCATGTATC
1 CAAGTCTTATCTTCTTGAAGTTGCAGGAAGCAGACTGAAAATTACAGATCTTATCTCCATGTATC
*
19391490 GGCTATGGAGCAGATCAGAA-ATGGCAAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTA
66 GGCTATGGAGCAGATC-GAAGATGGCGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTA
** * *
19391554 GCCACCAACCTTATCTCTCTGAGGTAGCAAGAGCGCAGGTTGAAGATA
130 GCCACCAACCTTATCTCTCTGAAATTGC-AGAGAGCAGGTTGAAGATA
* * * *
19391602 TAGGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAGTTACAGATCTTATCTCCATGTATC
1 CAAGTCTTATCTTCTTGAAGTTGCAGGAAGCAGACTGAAAATTACAGATCTTATCTCCATGTATC
* *
19391667 AGCTATGGAGCAGATCGAAGATGGTGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAG
66 GGCTATGGAGCAGATCGAAGATGGCGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAG
* * * * * *
19391732 CCACCGACTTTGTCTCCCTGAAATTGTAGTGGAGCAGGTTGAAG-TCA
131 CCACCAACCTTATCTCTCTGAAATTGCAG-AGAGCAGGTTGAAGAT-A
**
19391779 CAAACCTTATCTTCTTGAAGTTGC
1 CAAGTCTTATCTTCTTGAAGTTGC
19391803 TGTAAGGCTA
Statistics
Matches: 503, Mismatches: 46, Indels: 9
0.90 0.08 0.02
Matches are distributed among these distances:
176 318 0.63
177 185 0.37
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.29
Consensus pattern (176 bp):
CAAGTCTTATCTTCTTGAAGTTGCAGGAAGCAGACTGAAAATTACAGATCTTATCTCCATGTATC
GGCTATGGAGCAGATCGAAGATGGCGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAG
CCACCAACCTTATCTCTCTGAAATTGCAGAGAGCAGGTTGAAGATA
Found at i:19393315 original size:22 final size:23
Alignment explanation
Indices: 19393273--19393315 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
19393263 AATATTCTCT
*
19393273 TTTAAATTTTTTTTATATATATA
1 TTTAAATTTTATTTATATATATA
*
19393296 TTTAAA-TTTATTTATGTATA
1 TTTAAATTTTATTTATATATA
19393316 ATTCGGTTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (23 bp):
TTTAAATTTTATTTATATATATA
Found at i:19395728 original size:3 final size:3
Alignment explanation
Indices: 19395722--19395765 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
19395712 TTTTTTTCAA
19395722 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
19395766 GAGTTAACAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:19404497 original size:20 final size:21
Alignment explanation
Indices: 19404472--19404513 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
19404462 AAATATTAAA
19404472 TTATTTTATA-ATTTTATAAT
1 TTATTTTATATATTTTATAAT
*
19404492 TTATTTTATATATTTTGTAAT
1 TTATTTTATATATTTTATAAT
19404513 T
1 T
19404514 CAATATTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 10 0.50
21 10 0.50
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (21 bp):
TTATTTTATATATTTTATAAT
Found at i:19404505 original size:29 final size:29
Alignment explanation
Indices: 19404473--19404530 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
19404463 AATATTAAAT
**
19404473 TATTTTATAATTTTATAATTTATTTTATA
1 TATTTTATAATTCAATAATTTATTTTATA
* *
19404502 TATTTTGTAATTCAATATTTTATTTTATA
1 TATTTTATAATTCAATAATTTATTTTATA
19404531 AAAATAATGT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.64
Consensus pattern (29 bp):
TATTTTATAATTCAATAATTTATTTTATA
Found at i:19404722 original size:17 final size:17
Alignment explanation
Indices: 19404702--19404751 Score: 50
Period size: 17 Copynumber: 3.0 Consensus size: 17
19404692 TTATTATAAT
19404702 AAAATCTAATTAACATA
1 AAAATCTAATTAACATA
*
19404719 AAAATCCTTA-TAA-ATA
1 AAAAT-CTAATTAACATA
* *
19404735 AGAATCTAATTAGCATA
1 AAAATCTAATTAACATA
19404752 CATTATAACA
Statistics
Matches: 26, Mismatches: 4, Indels: 6
0.72 0.11 0.17
Matches are distributed among these distances:
15 3 0.12
16 9 0.35
17 11 0.42
18 3 0.12
ACGTcount: A:0.54, C:0.12, G:0.04, T:0.30
Consensus pattern (17 bp):
AAAATCTAATTAACATA
Found at i:19405707 original size:16 final size:16
Alignment explanation
Indices: 19405686--19405718 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
19405676 AAAATAAAAC
19405686 TTAAACAAGAAATCCA
1 TTAAACAAGAAATCCA
19405702 TTAAACAAGAAATCCA
1 TTAAACAAGAAATCCA
19405718 T
1 T
19405719 GTGTCATACT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.55, C:0.18, G:0.06, T:0.21
Consensus pattern (16 bp):
TTAAACAAGAAATCCA
Found at i:19414761 original size:27 final size:27
Alignment explanation
Indices: 19414730--19414906 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 27
19414720 TAAATTGTAC
19414730 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
19414757 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
** * *
19414783 ATGCACTAAGTGTGCGAAGTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
19414811 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* * *
19414839 AGCGCTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
19414866 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
19414893 AGCACTGA-TGTGCG
1 AGCACTAAGTGTGCG
19414907 GACTCAATAT
Statistics
Matches: 125, Mismatches: 22, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
26 6 0.05
27 98 0.78
28 21 0.17
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:19414847 original size:82 final size:81
Alignment explanation
Indices: 19414731--19414881 Score: 223
Period size: 82 Copynumber: 1.9 Consensus size: 81
19414721 AAATTGTACA
* *
19414731 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
19414795 TGCGAAGTGACCATGCG
65 TGCGAAGTGACCATGCG
* ** *
19414812 GCACTAAGTGTGCGAGTTTGACTATGTAGCGCTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
19414877 TGCGA
65 TGCGA
19414882 GTTGATTATA
Statistics
Matches: 62, Mismatches: 6, Indels: 3
0.87 0.08 0.04
Matches are distributed among these distances:
81 15 0.24
82 46 0.74
83 1 0.02
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.28
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAAGTGACCATGCG
Found at i:19414871 original size:55 final size:55
Alignment explanation
Indices: 19414731--19414884 Score: 177
Period size: 55 Copynumber: 2.8 Consensus size: 55
19414721 AAATTGTACA
* **
19414731 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGA-AATGAATATGAT
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAGTTTGAATATGAT
** * ** *
19414785 GCACTAAGTGTGCGAAGTGACCATGCGGCACTAAGTGTGCGAGTTTGACTATG-T
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAGTTTGAATATGAT
* * *
19414839 AGCGCTAAGTGTGCGATTTGATTACGTAGCACTAAGTGTGCGAGTT
1 -GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAGTT
19414885 GATTATATAG
Statistics
Matches: 82, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
54 38 0.46
55 44 0.54
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (55 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAGTTTGAATATGAT
Found at i:19428261 original size:21 final size:21
Alignment explanation
Indices: 19428214--19428255 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
19428204 TAACTGATGA
*
19428214 GGGCTCCTTCGTTCTTTTGCT
1 GGGCTCCTTCGTTCTTTCGCT
19428235 GGGCTCCTTCGTTCTTTCGCT
1 GGGCTCCTTCGTTCTTTCGCT
19428256 TTGCTCATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.00, C:0.31, G:0.24, T:0.45
Consensus pattern (21 bp):
GGGCTCCTTCGTTCTTTCGCT
Found at i:19444773 original size:40 final size:40
Alignment explanation
Indices: 19444688--19445026 Score: 540
Period size: 40 Copynumber: 8.5 Consensus size: 40
19444678 TGGATGATAA
*
19444688 CCGGGCTAAGTCCCGAAGGCATTT-TGCGCTAGTGACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCG--AGTTACTATAT
*
19444729 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
19444769 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
19444809 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
19444849 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
19444889 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
19444929 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
19444969 CCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
19445009 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
19445027 TACTTGGCTT
Statistics
Matches: 284, Mismatches: 12, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
39 15 0.05
40 241 0.85
41 24 0.08
42 4 0.01
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:19447726 original size:21 final size:21
Alignment explanation
Indices: 19447667--19447740 Score: 103
Period size: 21 Copynumber: 3.5 Consensus size: 21
19447657 CAGCTTTTAT
*
19447667 GAGCTTCTGTTAAGCACTCAC
1 GAGCTTCTGTTAAGCTCTCAC
*
19447688 GAGCTTCTGTTAATCTCTCAC
1 GAGCTTCTGTTAAGCTCTCAC
* *
19447709 GAGCTTCTGTTAAGCTCTTAT
1 GAGCTTCTGTTAAGCTCTCAC
*
19447730 AAGCTTCTGTT
1 GAGCTTCTGTT
19447741 GGCGTCTTCG
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 47 1.00
ACGTcount: A:0.20, C:0.24, G:0.18, T:0.38
Consensus pattern (21 bp):
GAGCTTCTGTTAAGCTCTCAC
Found at i:19450034 original size:40 final size:39
Alignment explanation
Indices: 19450003--19450212 Score: 233
Period size: 40 Copynumber: 5.3 Consensus size: 39
19449993 GGACTAAGAT
* *
19450003 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGATACAAA-TCCGGGTTAAGTC
* *
19450043 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
* *
19450083 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* ** *
19450123 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGAT-ACAAATCCGGGTTAAGTC
* * * * *
19450163 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
19450202 CCGAAGGCATT
1 CCGAAGGCATT
19450213 TGAACGAGGA
Statistics
Matches: 153, Mismatches: 13, Indels: 9
0.87 0.07 0.05
Matches are distributed among these distances:
39 33 0.22
40 117 0.76
41 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGATACAAATCCGGGTTAAGTC
Found at i:19450166 original size:120 final size:120
Alignment explanation
Indices: 19449950--19450212 Score: 300
Period size: 120 Copynumber: 2.2 Consensus size: 120
19449940 TTGAATGCTG
* *
19449950 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
* *
19450014 TGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
66 CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACTAAA
* * * * **
19450070 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* ** * * * *
19450133 TCGTGCGAGTTGTTAAA-TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
65 TCGTGCGAGAT-ACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
* *
19450189 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
19450213 TGAACGAGGA
Statistics
Matches: 120, Mismatches: 20, Indels: 7
0.82 0.14 0.05
Matches are distributed among these distances:
119 38 0.32
120 73 0.61
121 9 0.08
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:19450232 original size:79 final size:80
Alignment explanation
Indices: 19450003--19450247 Score: 228
Period size: 80 Copynumber: 3.1 Consensus size: 80
19449993 GGACTAAGAT
* * * * * * * ** *
19450003 CCGAAGGCATTTGTGCGAGATAC-AAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGA-GATAC
1 CCGAAGGCATTCGTGCGAGTTACTAAA-ACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGA-GC
19450066 TAAATCCGGGTTAAGTC
64 TAAATCCGGGTTAAGTC
* * * ** ** *
19450083 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
*
19450148 AATCCGGGTTATGTC
66 AATCCGGGTTAAGTC
* * *
19450163 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
* *
19450227 TATCC-GGTTAAATC
66 AATCCGGGTTAAGTC
19450241 CCGAAGG
1 CCGAAGG
19450248 TACGTGATTT
Statistics
Matches: 138, Mismatches: 25, Indels: 6
0.82 0.15 0.04
Matches are distributed among these distances:
78 14 0.10
79 46 0.33
80 75 0.54
81 3 0.02
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
AATCCGGGTTAAGTC
Found at i:19458036 original size:80 final size:79
Alignment explanation
Indices: 19457952--19458123 Score: 220
Period size: 79 Copynumber: 2.2 Consensus size: 79
19457942 GGACTAAGAT
*
19457952 CCGAAGGCATTTGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACT
1 CCGAAGGCATTTGTGCGAGATATCAAA-TCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACT
* *
19458016 AAATCCGGGTTAAGTC
64 AAAACCGGGCTAAGTC
* * * * * * *
19458032 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
*
19458097 AACCGGGCTATGTC
66 AACCGGGCTAAGTC
19458111 CCGAAGGCATTTG
1 CCGAAGGCATTTG
19458124 AACGAGGAGC
Statistics
Matches: 79, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
79 38 0.48
80 38 0.48
81 3 0.04
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
AACCGGGCTAAGTC
Found at i:19458103 original size:39 final size:39
Alignment explanation
Indices: 19457899--19458121 Score: 209
Period size: 40 Copynumber: 5.6 Consensus size: 39
19457889 TTGAATGCTG
* * * * *
19457899 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTA-AGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGA-T-ACTAAA
**
19457939 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAA
1 TCCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGATACTAAA
* *
19457978 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 -TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGATACTAAA
* *
19458019 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGATACTAAA
* * *
19458059 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
* * *
19458098 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
19458122 TGAACGAGGA
Statistics
Matches: 157, Mismatches: 18, Indels: 17
0.82 0.09 0.09
Matches are distributed among these distances:
39 40 0.25
40 103 0.66
41 13 0.08
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:19458141 original size:79 final size:80
Alignment explanation
Indices: 19457979--19458156 Score: 191
Period size: 79 Copynumber: 2.2 Consensus size: 80
19457969 AGATACAAAT
* * * *
19457979 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** * *
19458044 GTGCGAGTTATTAAA
66 GAACGAGTGACTAAA
* * * * *
19458059 TCCGGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
19458123 GAACGAG-GAGCTATA
66 GAACGAGTGA-CTAAA
*
19458138 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
19458157 TACGTGATTT
Statistics
Matches: 81, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
78 15 0.19
79 48 0.59
80 18 0.22
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGTGACTAAA
Found at i:19464992 original size:45 final size:45
Alignment explanation
Indices: 19464937--19465065 Score: 150
Period size: 45 Copynumber: 2.9 Consensus size: 45
19464927 CTATATGCCT
* * *
19464937 AAAATAAGTAAGACCATAGTTGAAAGATGTTATGACATCATGTTA
1 AAAATAAGTAAGACCATAGCTGAAAGATGTTATGGCATCATGATA
* * * * *
19464982 AAAATGAGTAACACCGTAGCTAAAATATGTTATGGCATCATGATA
1 AAAATAAGTAAGACCATAGCTGAAAGATGTTATGGCATCATGATA
* * * *
19465027 AATATTATTAAGACCATAGCTGAAAGATGCTATGGCATC
1 AAAATAAGTAAGACCATAGCTGAAAGATGTTATGGCATC
19465066 CTTTGGTAGT
Statistics
Matches: 68, Mismatches: 16, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
45 68 1.00
ACGTcount: A:0.42, C:0.12, G:0.18, T:0.28
Consensus pattern (45 bp):
AAAATAAGTAAGACCATAGCTGAAAGATGTTATGGCATCATGATA
Found at i:19465112 original size:27 final size:27
Alignment explanation
Indices: 19465082--19465159 Score: 102
Period size: 27 Copynumber: 2.9 Consensus size: 27
19465072 TAGTTCGTTG
19465082 GGACAATAAACACGGGGTAGTCCAACA
1 GGACAATAAACACGGGGTAGTCCAACA
* *
19465109 GGACAATAAACACAGGGTAGTCCATCA
1 GGACAATAAACACGGGGTAGTCCAACA
* * * *
19465136 GAAAAATAAACACGGAGTACTCCA
1 GGACAATAAACACGGGGTAGTCCA
19465160 CCGGGATCGT
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 44 1.00
ACGTcount: A:0.44, C:0.22, G:0.22, T:0.13
Consensus pattern (27 bp):
GGACAATAAACACGGGGTAGTCCAACA
Found at i:19466351 original size:12 final size:13
Alignment explanation
Indices: 19466319--19466352 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
19466309 GGTTACAGTG
19466319 CATTACAGTAAAAA
1 CATTACA-TAAAAA
19466333 CATTACATAAAAA
1 CATTACATAAAAA
19466346 CA-TACAT
1 CATTACAT
19466353 TTCCAAACAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 5 0.25
13 8 0.40
14 7 0.35
ACGTcount: A:0.56, C:0.18, G:0.03, T:0.24
Consensus pattern (13 bp):
CATTACATAAAAA
Found at i:19471909 original size:39 final size:39
Alignment explanation
Indices: 19471796--19471913 Score: 155
Period size: 39 Copynumber: 3.0 Consensus size: 39
19471786 TGATATTGGG
* * * * *
19471796 AATATATCCAAACATGAGGTCCGCAGGCTGTATGCTGGG
1 AATATATCCAAACTTGAAGTCCGCAGGCTATGTGCTGGA
**
19471835 AATATATCCGGACTTGAAGTCCGCAGGCTATGTGCTGGA
1 AATATATCCAAACTTGAAGTCCGCAGGCTATGTGCTGGA
* *
19471874 AATATATCCTAACTTGAAGTCCGCAGGCTACGTGCTGGA
1 AATATATCCAAACTTGAAGTCCGCAGGCTATGTGCTGGA
19471913 A
1 A
19471914 TGGAATCTGG
Statistics
Matches: 69, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 69 1.00
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (39 bp):
AATATATCCAAACTTGAAGTCCGCAGGCTATGTGCTGGA
Found at i:19478516 original size:39 final size:39
Alignment explanation
Indices: 19478403--19478520 Score: 173
Period size: 39 Copynumber: 3.0 Consensus size: 39
19478393 TGATATTGGG
* * * *
19478403 AATATATCCGGACATGAGGTCCGCAGGCTATATGCTGGG
1 AATATATCCGGACTTGAAGTCCGCAGGCTATGTGCTGGA
*
19478442 AATATATCTGGACTTGAAGTCCGCAGGCTATGTGCTGGA
1 AATATATCCGGACTTGAAGTCCGCAGGCTATGTGCTGGA
* *
19478481 AATATATCCAGACTTGAAGTCCGCAGGCTACGTGCTGGA
1 AATATATCCGGACTTGAAGTCCGCAGGCTATGTGCTGGA
19478520 A
1 A
19478521 TGGAATCCGG
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 71 1.00
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.25
Consensus pattern (39 bp):
AATATATCCGGACTTGAAGTCCGCAGGCTATGTGCTGGA
Found at i:19479425 original size:19 final size:21
Alignment explanation
Indices: 19479403--19479443 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
19479393 TTTGTAGATA
19479403 AATATTT-TA-TTAATTTAAT
1 AATATTTATATTTAATTTAAT
19479422 AATATTTAATATTTAATTTAAT
1 AATATTT-ATATTTAATTTAAT
19479444 TTAATCTTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.37
21 2 0.11
22 10 0.53
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (21 bp):
AATATTTATATTTAATTTAAT
Found at i:19479494 original size:26 final size:26
Alignment explanation
Indices: 19479431--19479495 Score: 64
Period size: 26 Copynumber: 2.5 Consensus size: 26
19479421 TAATATTTAA
*
19479431 TATTTAATTTAATTTAATCTTGATAAG
1 TATTAAATTTAATTTAATCTTGA-AAG
*
19479458 TATTATA-TTAATTTAATAC-TG-AAG
1 TATTAAATTTAATTTAAT-CTTGAAAG
19479482 TAATTAAATTTAAT
1 T-ATTAAATTTAAT
19479496 AATAGTTGAA
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
24 4 0.12
25 5 0.16
26 17 0.53
27 6 0.19
ACGTcount: A:0.42, C:0.03, G:0.06, T:0.49
Consensus pattern (26 bp):
TATTAAATTTAATTTAATCTTGAAAG
Found at i:19494252 original size:36 final size:36
Alignment explanation
Indices: 19494206--19494277 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
19494196 TTTCGCTCGA
19494206 TCGAGTTTCTGACCTTGGGGTGCACCAGTATTGTTC
1 TCGAGTTTCTGACCTTGGGGTGCACCAGTATTGTTC
19494242 TCGAGTTTCTGACCTTGGGGTGCACCAGTATTGTTC
1 TCGAGTTTCTGACCTTGGGGTGCACCAGTATTGTTC
19494278 GTGAAAAAGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.14, C:0.22, G:0.28, T:0.36
Consensus pattern (36 bp):
TCGAGTTTCTGACCTTGGGGTGCACCAGTATTGTTC
Found at i:19506334 original size:26 final size:26
Alignment explanation
Indices: 19506298--19506359 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 26
19506288 TTAGCTCGTA
*
19506298 TGAGCATCCCGATTAAA-GCCTCTTTG
1 TGAGCTTCCCG-TTAAATGCCTCTTTG
*
19506324 TGAGCTTCCCGTTAAATTGGCTCTTTG
1 TGAGCTTCCCGTTAAA-TGCCTCTTTG
19506351 TGAGCTTCC
1 TGAGCTTCC
19506360 TGATAGTGCT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
25 5 0.16
26 10 0.31
27 17 0.53
ACGTcount: A:0.18, C:0.26, G:0.21, T:0.35
Consensus pattern (26 bp):
TGAGCTTCCCGTTAAATGCCTCTTTG
Found at i:19508348 original size:43 final size:43
Alignment explanation
Indices: 19508287--19508500 Score: 222
Period size: 43 Copynumber: 5.0 Consensus size: 43
19508277 GAGCTTCCGA
* *
19508287 GATATATGATATCGTGTAAGACCCTATCTGGGACAGTGGCATC
1 GATATATGATTTCGTGTAAGACCCTGTCTGGGACAGTGGCATC
*
19508330 GATATATGATTTCATGTAAGACCAC-GTCTGGGAC-GTTGGCATC
1 GATATATGATTTCGTGTAAGACC-CTGTCTGGGACAG-TGGCATC
* * *
19508373 GATTTGA-GATTTTCGTGTAAGACCATGTCTGGGACATTGGCATC
1 GATAT-ATGA-TTTCGTGTAAGACCCTGTCTGGGACAGTGGCATC
* * *
19508417 -ATATTTAATTTCGTGTAAGACCCTGTCTGGGACAATGGCATC
1 GATATATGATTTCGTGTAAGACCCTGTCTGGGACAGTGGCATC
* * * * *
19508459 GATATTTGATTACATGTAAGACCAC-GTCTAGGACATTGGCAT
1 GATATATGATTTCGTGTAAGACC-CTGTCTGGGACAGTGGCAT
19508501 TGTACGAGTT
Statistics
Matches: 145, Mismatches: 17, Indels: 18
0.81 0.09 0.10
Matches are distributed among these distances:
42 33 0.23
43 80 0.55
44 32 0.22
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (43 bp):
GATATATGATTTCGTGTAAGACCCTGTCTGGGACAGTGGCATC
Found at i:19511113 original size:28 final size:27
Alignment explanation
Indices: 19511062--19511114 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 27
19511052 TGAATTTGAG
*
19511062 AATTAGGGCTAAATTGTAGAAATAATA
1 AATTAGGGCTAAAATGTAGAAATAATA
19511089 AATTGAGGGACTAAAATGTA-AAATAA
1 AATT-AGGG-CTAAAATGTAGAAATAA
19511115 ATGAAATGTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
27 4 0.17
28 10 0.43
29 9 0.39
ACGTcount: A:0.51, C:0.04, G:0.19, T:0.26
Consensus pattern (27 bp):
AATTAGGGCTAAAATGTAGAAATAATA
Found at i:19511677 original size:43 final size:43
Alignment explanation
Indices: 19511616--19511757 Score: 194
Period size: 43 Copynumber: 3.3 Consensus size: 43
19511606 CATAAAATTT
*
19511616 TCGATGTGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCA
1 TCGATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCA
* * *
19511659 TCGATATGTGATTACGTGTAAGATCATGTCTGGGACATTGGCA
1 TCGATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCA
* * * ***
19511702 TCGGTATGTGATTACGAGTAAGACCACGTTTAATACGTTGGCA
1 TCGATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCA
19511745 TCGATATGTGATT
1 TCGATATGTGATT
19511758 CTGATATGTG
Statistics
Matches: 85, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 85 1.00
ACGTcount: A:0.25, C:0.15, G:0.28, T:0.32
Consensus pattern (43 bp):
TCGATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCA
Found at i:19511792 original size:56 final size:56
Alignment explanation
Indices: 19511706--19511838 Score: 171
Period size: 56 Copynumber: 2.4 Consensus size: 56
19511696 TTGGCATCGG
*
19511706 TATGTGAT-TACGAGTAAGACCACGTTTAATACGTTGGCATCGATAT-GTGATTCTGA
1 TATGTG-TGTACGAGTAAGACCACGTTTAATACGTTGGCATCAAT-TGGTGATTCTGA
* * * * *
19511762 TATGTGTGTGCGAGCAAGACCACGTTTAATACTTTGGTATCAATTGGTGATTTTGA
1 TATGTGTGTACGAGTAAGACCACGTTTAATACGTTGGCATCAATTGGTGATTCTGA
*
19511818 TATGTGTTTACGAGTAAGACC
1 TATGTGTGTACGAGTAAGACC
19511839 CTTTCTAAGA
Statistics
Matches: 66, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
55 2 0.03
56 64 0.97
ACGTcount: A:0.27, C:0.14, G:0.24, T:0.35
Consensus pattern (56 bp):
TATGTGTGTACGAGTAAGACCACGTTTAATACGTTGGCATCAATTGGTGATTCTGA
Found at i:19514632 original size:27 final size:27
Alignment explanation
Indices: 19514590--19514713 Score: 144
Period size: 27 Copynumber: 4.6 Consensus size: 27
19514580 ACCTCACAAC
* *
19514590 AGGGGTATTACCGTCATTTTACCCTAT
1 AGGGGTATTTCGGTCATTTTACCCTAT
* * *
19514617 AGGGGTATTTCAGTCATTTTATCCAAT
1 AGGGGTATTTCGGTCATTTTACCCTAT
*
19514644 -GAGGGTATTTCGGTCATTTAACCCTAT
1 AG-GGGTATTTCGGTCATTTTACCCTAT
**
19514671 TTGGGTATTTCGGTCATTTTACCCTAT
1 AGGGGTATTTCGGTCATTTTACCCTAT
*
19514698 GGGGGTATTT-GGTCAT
1 AGGGGTATTTCGGTCAT
19514714 CATTTCAGCC
Statistics
Matches: 83, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
26 7 0.08
27 76 0.92
ACGTcount: A:0.20, C:0.17, G:0.23, T:0.40
Consensus pattern (27 bp):
AGGGGTATTTCGGTCATTTTACCCTAT
Found at i:19514660 original size:54 final size:54
Alignment explanation
Indices: 19514569--19514713 Score: 157
Period size: 54 Copynumber: 2.6 Consensus size: 54
19514559 GTAGGACAAA
** * * *
19514569 TCAGTCATTTTACCTCACAACAGGGGTATTACCGTCATTTTACCCTATAGGGGTATT
1 TCAGTCATTTTACC-CA-ATGA-GGGTATTTCGGTCATTTAACCCTATAGGGGTATT
* **
19514626 TCAGTCATTTTATCCAATGAGGGTATTTCGGTCATTTAACCCTATTTGGGTATT
1 TCAGTCATTTTACCCAATGAGGGTATTTCGGTCATTTAACCCTATAGGGGTATT
* * *
19514680 TCGGTCATTTTACCCTATGGGGGTATTT-GGTCAT
1 TCAGTCATTTTACCCAATGAGGGTATTTCGGTCAT
19514714 CATTTCAGCC
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
53 6 0.08
54 53 0.70
55 2 0.03
56 2 0.03
57 13 0.17
ACGTcount: A:0.21, C:0.19, G:0.20, T:0.39
Consensus pattern (54 bp):
TCAGTCATTTTACCCAATGAGGGTATTTCGGTCATTTAACCCTATAGGGGTATT
Found at i:19519621 original size:17 final size:17
Alignment explanation
Indices: 19519595--19519629 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
19519585 TTATGATTCA
19519595 TTTTTCTTCTCTT-CTC
1 TTTTTCTTCTCTTGCTC
19519611 TTTTTCATTCTCTTGCTC
1 TTTTTC-TTCTCTTGCTC
19519629 T
1 T
19519630 CTTAATTCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.35
17 7 0.41
18 4 0.24
ACGTcount: A:0.03, C:0.29, G:0.03, T:0.66
Consensus pattern (17 bp):
TTTTTCTTCTCTTGCTC
Found at i:19520983 original size:20 final size:20
Alignment explanation
Indices: 19520940--19520987 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
19520930 GCTGTTTTGT
19520940 TATGGGCCAACTGTATTGAA
1 TATGGGCCAACTGTATTGAA
*
19520960 -ATGGGCCCAACTGTGTT-AA
1 TATGGG-CCAACTGTATTGAA
19520979 TAT-GGCCAA
1 TATGGGCCAA
19520988 GACCCAATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
18 4 0.16
19 9 0.36
20 12 0.48
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (20 bp):
TATGGGCCAACTGTATTGAA
Found at i:19523868 original size:17 final size:19
Alignment explanation
Indices: 19523826--19523869 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
19523816 ACGAAATTTT
*
19523826 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
19523845 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
19523863 AA-TATTA
1 AATTATTA
19523870 CTACATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:19523983 original size:15 final size:15
Alignment explanation
Indices: 19523965--19523993 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
19523955 ATATTTATAA
19523965 AATTATTATTATTAT
1 AATTATTATTATTAT
19523980 AATTATTATTATTA
1 AATTATTATTATTA
19523994 GATAGGGAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
AATTATTATTATTAT
Found at i:19525597 original size:16 final size:15
Alignment explanation
Indices: 19525568--19525601 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
19525558 ACTAGATCGG
19525568 CAAAAGCCGAAAAGC
1 CAAAAGCCGAAAAGC
*
19525583 CAAAATGCCGGAAAGC
1 CAAAA-GCCGAAAAGC
19525599 CAA
1 CAA
19525602 CATTTTGTGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.50, C:0.26, G:0.21, T:0.03
Consensus pattern (15 bp):
CAAAAGCCGAAAAGC
Found at i:19526254 original size:20 final size:20
Alignment explanation
Indices: 19526211--19526258 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
19526201 GCTATTTTGT
19526211 TATGGGCCAACTGTATTGAA
1 TATGGGCCAACTGTATTGAA
*
19526231 -ATGGGCCCAACTGTGTT-AA
1 TATGGG-CCAACTGTATTGAA
19526250 TAT-GGCCAA
1 TATGGGCCAA
19526259 GGCCTAATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
18 4 0.16
19 9 0.36
20 12 0.48
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (20 bp):
TATGGGCCAACTGTATTGAA
Found at i:19528384 original size:25 final size:25
Alignment explanation
Indices: 19528356--19528432 Score: 83
Period size: 25 Copynumber: 3.3 Consensus size: 25
19528346 AAAAAATTGA
19528356 TAAAAAAGTCAAATAAGGATTATAT
1 TAAAAAAGTCAAATAAGGATTATAT
* *
19528381 TAAAAAA-T-AGA-AA--ATTTTAT
1 TAAAAAAGTCAAATAAGGATTATAT
* *
19528401 AAAAAAAGTCAAATAGGGATTATAT
1 TAAAAAAGTCAAATAAGGATTATAT
19528426 TAAAAAA
1 TAAAAAA
19528433 TAGAAAATTT
Statistics
Matches: 40, Mismatches: 7, Indels: 10
0.70 0.12 0.18
Matches are distributed among these distances:
20 12 0.30
21 1 0.03
22 4 0.10
23 3 0.08
24 1 0.03
25 19 0.47
ACGTcount: A:0.60, C:0.03, G:0.10, T:0.27
Consensus pattern (25 bp):
TAAAAAAGTCAAATAAGGATTATAT
Found at i:19528395 original size:26 final size:25
Alignment explanation
Indices: 19528366--19528440 Score: 65
Period size: 26 Copynumber: 3.2 Consensus size: 25
19528356 TAAAAAAGTC
19528366 AAATAAGGATTATATTAAAAAATAGA
1 AAAT-AGGATTATATTAAAAAATAGA
*
19528392 AAAT----TT-TA-TAAAAAA-AGTC
1 AAATAGGATTATATTAAAAAATAG-A
19528411 AAATAGGGATTATATTAAAAAATAGA
1 AAATA-GGATTATATTAAAAAATAGA
19528437 AAAT
1 AAAT
19528441 TTTACATGGT
Statistics
Matches: 38, Mismatches: 2, Indels: 18
0.66 0.03 0.31
Matches are distributed among these distances:
18 2 0.05
19 11 0.29
20 2 0.05
21 2 0.05
24 2 0.05
25 2 0.05
26 15 0.39
27 2 0.05
ACGTcount: A:0.60, C:0.01, G:0.11, T:0.28
Consensus pattern (25 bp):
AAATAGGATTATATTAAAAAATAGA
Found at i:19528412 original size:45 final size:45
Alignment explanation
Indices: 19528357--19528444 Score: 167
Period size: 45 Copynumber: 2.0 Consensus size: 45
19528347 AAAAATTGAT
19528357 AAAAAAGTCAAATAAGGATTATATTAAAAAATAGAAAATTTTATA
1 AAAAAAGTCAAATAAGGATTATATTAAAAAATAGAAAATTTTATA
*
19528402 AAAAAAGTCAAATAGGGATTATATTAAAAAATAGAAAATTTTA
1 AAAAAAGTCAAATAAGGATTATATTAAAAAATAGAAAATTTTA
19528445 CATGGTGAAA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.59, C:0.02, G:0.10, T:0.28
Consensus pattern (45 bp):
AAAAAAGTCAAATAAGGATTATATTAAAAAATAGAAAATTTTATA
Found at i:19530493 original size:55 final size:53
Alignment explanation
Indices: 19530382--19530576 Score: 187
Period size: 55 Copynumber: 3.6 Consensus size: 53
19530372 ATTAGGGTTT
* * * * ** *
19530382 AAGGATACCATGTAAGACCATGCCAAGGCAAGCCAATTGGTAAGGTTTC-TACGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGC-ATTAATAA-G-TTCATAAGGC
* *
19530437 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTAATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTAATAAGTT-C-ATAAGGC
* * * ** *
19530492 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGC
1 -AAGGATACCATGTAAGACCATGTCAAGACATGGCATTAATAAGTTCATAAGGC
19530545 AAGGATACCATGTAAGACCATGTCAAGACATG
1 AAGGATACCATGTAAGACCATGTCAAGACATG
19530577 ACAATGGTAA
Statistics
Matches: 115, Mismatches: 20, Indels: 12
0.78 0.14 0.08
Matches are distributed among these distances:
52 6 0.05
53 33 0.29
54 7 0.06
55 65 0.57
56 4 0.03
ACGTcount: A:0.36, C:0.19, G:0.24, T:0.21
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGTCAAGACATGGCATTAATAAGTTCATAAGGC
Found at i:19530731 original size:23 final size:24
Alignment explanation
Indices: 19530705--19530749 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
19530695 AAGGTAAGGT
*
19530705 AAGGTAAGACGAGTT-ATGCTAAA
1 AAGGTAAGACAAGTTCATGCTAAA
19530728 AAGGTAAGACAAGTTCATGCTA
1 AAGGTAAGACAAGTTCATGCTA
19530750 GAAGAGCAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.42, C:0.11, G:0.24, T:0.22
Consensus pattern (24 bp):
AAGGTAAGACAAGTTCATGCTAAA
Found at i:19530849 original size:16 final size:16
Alignment explanation
Indices: 19530828--19530858 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
19530818 ATAAATTTGA
19530828 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
19530844 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
19530859 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:19535098 original size:39 final size:39
Alignment explanation
Indices: 19535041--19535152 Score: 179
Period size: 39 Copynumber: 2.9 Consensus size: 39
19535031 ATATATATGT
* *
19535041 GAGAATTATATCCTGACTTCAGGTCCGTAGGCTATAAGC
1 GAGAATTATATCCGGACTTCAGGTCCGCAGGCTATAAGC
* *
19535080 GAGAATTATATCCGGACTTCATGTCCGCAGGCTATATGC
1 GAGAATTATATCCGGACTTCAGGTCCGCAGGCTATAAGC
*
19535119 AAGAATTATATCCGGACTTCAGGTCCGCAGGCTA
1 GAGAATTATATCCGGACTTCAGGTCCGCAGGCTA
19535153 CGTGCTGGAC
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 67 1.00
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.27
Consensus pattern (39 bp):
GAGAATTATATCCGGACTTCAGGTCCGCAGGCTATAAGC
Found at i:19535399 original size:15 final size:16
Alignment explanation
Indices: 19535374--19535408 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
19535364 GTATGTATAG
19535374 ATATACGTATCGATGA
1 ATATACGTATCGATGA
*
19535390 ATAT-CGTATCTATGA
1 ATATACGTATCGATGA
19535405 ATAT
1 ATAT
19535409 GAAAATAACT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 14 0.78
16 4 0.22
ACGTcount: A:0.37, C:0.11, G:0.14, T:0.37
Consensus pattern (16 bp):
ATATACGTATCGATGA
Found at i:19545658 original size:34 final size:34
Alignment explanation
Indices: 19545618--19545715 Score: 142
Period size: 34 Copynumber: 2.9 Consensus size: 34
19545608 GTGAAAACAT
* * * *
19545618 TCTGGGCCTAAGCCCATATCAGTGACAGTAGTAG
1 TCTGGGCCTTAGCCCATTTCAGTAACAGTAGCAG
*
19545652 TTTGGGCCTTAGCCCATTTCAGTAACAGTAGCAG
1 TCTGGGCCTTAGCCCATTTCAGTAACAGTAGCAG
*
19545686 TCTGGGCTTTAGCCCATTTCAGTAACAGTA
1 TCTGGGCCTTAGCCCATTTCAGTAACAGTA
19545716 ATCAGTGCAG
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
34 57 1.00
ACGTcount: A:0.24, C:0.23, G:0.23, T:0.29
Consensus pattern (34 bp):
TCTGGGCCTTAGCCCATTTCAGTAACAGTAGCAG
Found at i:19545728 original size:18 final size:18
Alignment explanation
Indices: 19545705--19545754 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
19545695 TAGCCCATTT
* *
19545705 CAGTAACAGTAATCAGTG
1 CAGTAACAGTAATCAATA
*
19545723 CAGTAACCA-TGATCAATA
1 CAGTAA-CAGTAATCAATA
19545741 CAGTAACAGTAATC
1 CAGTAACAGTAATC
19545755 GGTGTAATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
17 2 0.08
18 22 0.85
19 2 0.08
ACGTcount: A:0.42, C:0.20, G:0.16, T:0.22
Consensus pattern (18 bp):
CAGTAACAGTAATCAATA
Found at i:19546145 original size:27 final size:27
Alignment explanation
Indices: 19546103--19546162 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
19546093 GAATAAATCT
*
19546103 GTCATTTTACCTTACAAGGGTATTACA
1 GTCATTTTACCCTACAAGGGTATTACA
* **
19546130 GTCATTTTACCCTACAATGGTATTTTA
1 GTCATTTTACCCTACAAGGGTATTACA
19546157 GTCATT
1 GTCATT
19546163 CCACCCTATG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.27, C:0.18, G:0.13, T:0.42
Consensus pattern (27 bp):
GTCATTTTACCCTACAAGGGTATTACA
Found at i:19546168 original size:27 final size:27
Alignment explanation
Indices: 19546115--19546170 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 27
19546105 CATTTTACCT
**
19546115 TACAAGGGTATTACAGTCATTTTACCC
1 TACAAGGGTATTACAGTCATTCCACCC
* **
19546142 TACAATGGTATTTTAGTCATTCCACCC
1 TACAAGGGTATTACAGTCATTCCACCC
19546169 TA
1 TA
19546171 TGGGGGTATT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.29, C:0.23, G:0.12, T:0.36
Consensus pattern (27 bp):
TACAAGGGTATTACAGTCATTCCACCC
Found at i:19546188 original size:27 final size:27
Alignment explanation
Indices: 19546158--19546216 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 27
19546148 GGTATTTTAG
* *
19546158 TCATTCCACCCTATGGGGGTATTTCGA
1 TCATTCCACCCTATGAGGGAATTTCGA
** *
19546185 TCATTTTACCTTATGAGGGAATTTCGA
1 TCATTCCACCCTATGAGGGAATTTCGA
19546212 TCATT
1 TCATT
19546217 TGATCACATA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.39
Consensus pattern (27 bp):
TCATTCCACCCTATGAGGGAATTTCGA
Found at i:19546377 original size:81 final size:80
Alignment explanation
Indices: 19546212--19546440 Score: 334
Period size: 81 Copynumber: 2.9 Consensus size: 80
19546202 GGAATTTCGA
* * *
19546212 TCATTTGATCACATAAGGGAAAAATCAACATTTTATCACA-CGGGTAAAATCATCATTTTATCAC
1 TCATTTTATCACATAAGGGAAAAATCATCATTTTATCACATAGGGTAAAATCATCATTTTATCAC
* * *
19546276 ATAAGGGCCAAATCG
66 ATGAGGACAAAATCG
* *
19546291 TCATTTTATCACATAAGGGAAAAATCATCATTTTATCACATGAGGGAAAAATCATTATTTTATCA
1 TCATTTTATCACATAAGGGAAAAATCATCATTTTATCACAT-AGGGTAAAATCATCATTTTATCA
19546356 CATGAGGACAAAATCG
65 CATGAGGACAAAATCG
* * *
19546372 TCATTTTATCACATGAGGGCAAAATCATCATTTTATCACATAAGGGTAAAATCGTCATTTTATCA
1 TCATTTTATCACATAAGGGAAAAATCATCATTTTATCACAT-AGGGTAAAATCATCATTTTATCA
19546437 CATG
65 CATG
19546441 TGGGTTCAGG
Statistics
Matches: 134, Mismatches: 14, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
79 38 0.28
81 96 0.72
ACGTcount: A:0.38, C:0.17, G:0.14, T:0.31
Consensus pattern (80 bp):
TCATTTTATCACATAAGGGAAAAATCATCATTTTATCACATAGGGTAAAATCATCATTTTATCAC
ATGAGGACAAAATCG
Found at i:19546445 original size:27 final size:27
Alignment explanation
Indices: 19546211--19546439 Score: 293
Period size: 27 Copynumber: 8.6 Consensus size: 27
19546201 GGGAATTTCG
*
19546211 ATCATTTGATCACATAAGGGAAAAATC
1 ATCATTTTATCACATAAGGGAAAAATC
* * *
19546238 AACATTTTATCAC--ACGGGTAAAATC
1 ATCATTTTATCACATAAGGGAAAAATC
**
19546263 ATCATTTTATCACATAAGGGCCAAATC
1 ATCATTTTATCACATAAGGGAAAAATC
*
19546290 GTCATTTTATCACATAAGGGAAAAATC
1 ATCATTTTATCACATAAGGGAAAAATC
*
19546317 ATCATTTTATCACATGAGGGAAAAATC
1 ATCATTTTATCACATAAGGGAAAAATC
* *
19546344 ATTATTTTATCACATGA-GGACAAAATC
1 ATCATTTTATCACATAAGGGA-AAAATC
* * *
19546371 GTCATTTTATCACATGAGGGCAAAATC
1 ATCATTTTATCACATAAGGGAAAAATC
*
19546398 ATCATTTTATCACATAAGGGTAAAATC
1 ATCATTTTATCACATAAGGGAAAAATC
*
19546425 GTCATTTTATCACAT
1 ATCATTTTATCACAT
19546440 GTGGGTTCAG
Statistics
Matches: 177, Mismatches: 21, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
25 22 0.12
26 3 0.02
27 150 0.85
28 2 0.01
ACGTcount: A:0.39, C:0.17, G:0.13, T:0.31
Consensus pattern (27 bp):
ATCATTTTATCACATAAGGGAAAAATC
Found at i:19548431 original size:93 final size:93
Alignment explanation
Indices: 19548319--19548490 Score: 294
Period size: 93 Copynumber: 1.8 Consensus size: 93
19548309 CGCCCATAAG
*
19548319 CGAACTCGGACTCAACTCAACGAGCTT--GAGCGTTCGCATCCATAAGTGAACTCGGACTCAACT
1 CGAACTCGGACTCAACTCAACGAG-TTCGGA-CATTCGCATCCATAAGTGAACTCGGACTCAACT
19548382 CAACGAGTTCGGATGCCTAGTTACATCTCA
64 CAACGAGTTCGGATGCCTAGTTACATCTCA
*
19548412 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTTGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
19548477 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
19548491 TCAACCATCC
Statistics
Matches: 75, Mismatches: 2, Indels: 4
0.93 0.02 0.05
Matches are distributed among these distances:
92 2 0.03
93 71 0.95
94 2 0.03
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:19548486 original size:46 final size:47
Alignment explanation
Indices: 19548312--19548487 Score: 204
Period size: 46 Copynumber: 3.8 Consensus size: 47
19548302 TGTAACCCGC
*
19548312 CCATAAGCGAACTCGGACTCAACTCAACGAGCTT--GAGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAG-TTCGGAGCATTCGCAT
* *
19548358 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA-G-C-A-TTCGCAT
*
19548408 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGA-CATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGAGCATTCGCAT
* *
19548451 CCATAAGTGAACTTGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
19548488 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 9, Indels: 20
0.79 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 4 0.04
46 58 0.52
47 31 0.28
48 3 0.03
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (47 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGAGCATTCGCAT
Found at i:19548506 original size:46 final size:44
Alignment explanation
Indices: 19548320--19548506 Score: 132
Period size: 46 Copynumber: 4.0 Consensus size: 44
19548310 GCCCATAAGC
* * * *
19548320 GAACTCGGACTCAACTCAACGAGCTT-GAGCGTTCGCATCCAT-AAGT
1 GAACTCGGACTCAACTCAACGAG-TTCG-G-ATGC-CAACCATCTAGT
*
19548366 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTA-CATCTCA-C
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCC-A---ACCATCT-AGT
* * *
19548413 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT-AAGT
1 GAACTCGGACTCAACTCAACGAGTTCGG--ATGC-CAACCATCTAGT
*
19548459 GAACTTGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGC-CAACCAT-CTAGT
19548505 GA
1 GA
19548507 CATTTCACTT
Statistics
Matches: 113, Mismatches: 14, Indels: 28
0.73 0.09 0.18
Matches are distributed among these distances:
43 1 0.01
44 12 0.11
45 4 0.04
46 59 0.52
47 31 0.27
48 1 0.01
49 4 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (44 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCCAACCATCTAGT
Found at i:19550175 original size:125 final size:125
Alignment explanation
Indices: 19549929--19550166 Score: 395
Period size: 125 Copynumber: 1.9 Consensus size: 125
19549919 TCACTTACCC
* * **
19549929 AAAACGCAGAGTCTAGATTTAGGAGGGAAGAACAATCGGCTCTTACCCATACAAGTTGAGAGTAC
1 AAAACGCAGAGTCCAGATTTAGGAGGGAAGAACAATCAGCTCTTACCCATACAAGTCAAGAGTAC
*
19549994 AAAAAGAATGATAGGGGCGCCCCCAATATCAAAGAACACTTGCAAAAGCCAAAAACACTG
66 AAAAAGAATGATAGAGGCGCCCCCAATATCAAAGAACACTTGCAAAAGCCAAAAACACTG
*
19550054 AAAACGCAGAGTCCAGATTTAGGAGGGAAGAACAATCAGCTCTTGCCCATACAAGTCAAGAGTAC
1 AAAACGCAGAGTCCAGATTTAGGAGGGAAGAACAATCAGCTCTTACCCATACAAGTCAAGAGTAC
* * *
19550119 ATATAGAATGATAGAGGCGCCCCCAATATCAGAGAACACTTGCAAAAG
66 AAAAAGAATGATAGAGGCGCCCCCAATATCAAAGAACACTTGCAAAAG
19550167 TTGAAAACAG
Statistics
Matches: 104, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
125 104 1.00
ACGTcount: A:0.41, C:0.21, G:0.22, T:0.16
Consensus pattern (125 bp):
AAAACGCAGAGTCCAGATTTAGGAGGGAAGAACAATCAGCTCTTACCCATACAAGTCAAGAGTAC
AAAAAGAATGATAGAGGCGCCCCCAATATCAAAGAACACTTGCAAAAGCCAAAAACACTG
Done.