Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 184 of 410
Found at i:56184614 original size:28 final size:28
Alignment explanation
Indices: 56184581--56184677 Score: 153
Period size: 28 Copynumber: 3.5 Consensus size: 28
56184571 GCGTAGATCA
56184581 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
56184609 TGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
56184637 CGAAATTACCCCTAAATAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
56184665 C--AATATACCCCTA
1 CGAAAT-TACCCCTA
56184678 GGGTTTAAAT
Statistics
Matches: 65, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
26 3 0.05
27 8 0.12
28 54 0.83
ACGTcount: A:0.45, C:0.26, G:0.08, T:0.21
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:56191746 original size:40 final size:39
Alignment explanation
Indices: 56191701--56191908 Score: 202
Period size: 40 Copynumber: 5.2 Consensus size: 39
56191691 CGGAATACAA
*
56191701 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
56191741 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
56191781 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* *** *
56191821 CCGGATGTGGTCACTAGCAC-AATGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAAT-GCCTTCGGGTCTTAGC
** * * *
56191861 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
56191901 CCGGATAT
1 CCGGATAT
56191909 CATTCAATTG
Statistics
Matches: 141, Mismatches: 24, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
39 4 0.03
40 134 0.95
41 3 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:56191841 original size:80 final size:80
Alignment explanation
Indices: 56191701--56191907 Score: 238
Period size: 80 Copynumber: 2.6 Consensus size: 80
56191691 CGGAATACAA
* * *
56191701 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACAAAT-
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCAC-AATG
*
56191765 GCCTTCGGGTATTAGC
65 GCCTTCGGGTATTAAC
* * **
56191781 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTGGTC-ACTAGCACAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-AGAACGACTAGCACAATG
*
56191845 GCCTTCGGGTCTTAAC
65 GCCTTCGGGTATTAAC
** * ** * *
56191861 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGATA
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATA
56191908 TCATTCAATT
Statistics
Matches: 107, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
79 3 0.03
80 102 0.95
81 2 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (80 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAATGG
CCTTCGGGTATTAAC
Found at i:56196604 original size:93 final size:93
Alignment explanation
Indices: 56196492--56196663 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
56196482 CGCCCATAAG
* *
56196492 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
56196557 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
56196585 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
56196650 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
56196664 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:56196660 original size:46 final size:46
Alignment explanation
Indices: 56196485--56196660 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
56196475 TGTAACCCGC
* * *
56196485 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
56196531 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
56196581 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
56196624 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
56196661 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:56205200 original size:28 final size:28
Alignment explanation
Indices: 56205131--56205231 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
56205121 GACAAGATTG
* * * *
56205131 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
56205161 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
56205189 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
56205218 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
56205232 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:56212816 original size:28 final size:28
Alignment explanation
Indices: 56212751--56212851 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
56212741 ATAGTGAATC
*
56212751 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
56212780 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
56212808 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
56212838 CGCACACTTAGTGC
1 CGCACACTTAGTGC
56212852 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:56215173 original size:46 final size:47
Alignment explanation
Indices: 56215106--56215279 Score: 207
Period size: 46 Copynumber: 3.7 Consensus size: 47
56215096 TGTAACCTGC
*
56215106 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGAG-CGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGAGACGTTCGCAT
* * *
56215152 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC-GA-GAC--GTTCGCAT
* *
56215202 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTC-AGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGAGACGTTCGCAT
*
56215245 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCG
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCG
56215280 GATGCTCAAC
Statistics
Matches: 108, Mismatches: 10, Indels: 19
0.79 0.07 0.14
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 3 0.03
45 3 0.03
46 58 0.54
47 28 0.26
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.21
Consensus pattern (47 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGAGACGTTCGCAT
Found at i:56215225 original size:93 final size:93
Alignment explanation
Indices: 56215113--56215284 Score: 310
Period size: 93 Copynumber: 1.8 Consensus size: 93
56215103 TGCCCATAAG
*
56215113 CGAACTCGGACTCAACTCAACGAGCTC-GAGCGTTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTCAGA-CATTCGCATCCATAAGTGAACTCGGACTCAACTC
56215177 AACGAGTTCGGATGCCTAGTTACATCTCA
65 AACGAGTTCGGATGCCTAGTTACATCTCA
*
56215206 CGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
56215271 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
56215285 TCAACCATCC
Statistics
Matches: 76, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
93 74 0.97
94 2 0.03
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:56219153 original size:17 final size:18
Alignment explanation
Indices: 56219121--56219154 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
56219111 GATATGATAC
*
56219121 TAAAATTATTTAAAAAAT
1 TAAAATTATATAAAAAAT
56219139 TAAAA-TATATAAAAAA
1 TAAAATTATATAAAAAA
56219155 AATCAGGGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (18 bp):
TAAAATTATATAAAAAAT
Found at i:56219453 original size:23 final size:22
Alignment explanation
Indices: 56219410--56219467 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
56219400 AAAAGGTATC
* *
56219410 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
56219431 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
56219454 TGCATATCATATCT
1 TACAAATCATATCT
56219468 AAGATTGCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:56219470 original size:19 final size:19
Alignment explanation
Indices: 56219446--56219482 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
56219436 AATCATATCT
56219446 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
56219465 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
56219483 TGAAGATCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.35, C:0.16, G:0.11, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:56219638 original size:21 final size:20
Alignment explanation
Indices: 56219600--56219639 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
56219590 TTGGACTTCG
**
56219600 TTTTTTTTTTGGGTTTATTA
1 TTTTTTTTTTGGACTTATTA
56219620 TTTTTGTTTTTGGACTTATT
1 TTTTT-TTTTTGGACTTATT
56219640 TTTGGGCCCA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.10, C:0.03, G:0.15, T:0.72
Consensus pattern (20 bp):
TTTTTTTTTTGGACTTATTA
Found at i:56219900 original size:45 final size:45
Alignment explanation
Indices: 56219832--56220028 Score: 254
Period size: 45 Copynumber: 4.4 Consensus size: 45
56219822 GGAAGGCGAT
* * *
56219832 ATCTGCTATCTTTGATCTACTCCCCCTCTAATACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTACTCCCCGTCTAATACAGAGACGCCAA
**
56219877 ATCTGTTATCTTCGATCCGCTCCCCGTCTAATACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTACTCCCCGTCTAATACAGAGACGCCAA
* * *
56219922 ATCTGCT-TCTTCAATCTACTCCCCGTCTAATACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTACTCCCCGTCTAATACAGAGACGCCAA
* * *
56219966 ATCTGTTATC-TCTGATTTGCTCCCCGTCTAATACAGAGATGCCAA
1 ATCTGTTATCTTC-GATCTACTCCCCGTCTAATACAGAGACGCCAA
* *
56220011 ATCTGTCATCTTGGATCT
1 ATCTGTTATCTTCGATCT
56220029 GCTTCGATGT
Statistics
Matches: 132, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
44 41 0.31
45 90 0.68
46 1 0.01
ACGTcount: A:0.25, C:0.30, G:0.14, T:0.31
Consensus pattern (45 bp):
ATCTGTTATCTTCGATCTACTCCCCGTCTAATACAGAGACGCCAA
Found at i:56219997 original size:89 final size:90
Alignment explanation
Indices: 56219832--56220015 Score: 282
Period size: 89 Copynumber: 2.1 Consensus size: 90
56219822 GGAAGGCGAT
**
56219832 ATCTGCTATCTTTGATCTACTCCCCCTCTAATACAGAGACGCCAAATCTGTTATCTTCGATCCGC
1 ATCTGCTATCTTCAATCTACTCCCCCTCTAATACAGAGACGCCAAATCTGTTATCTTCGATCCGC
56219897 TCCCCGTCTAATACAGAGACGCCAA
66 TCCCCGTCTAATACAGAGACGCCAA
* * **
56219922 ATCTGCT-TCTTCAATCTACTCCCCGTCTAATACAGAGATGCCAAATCTGTTATC-TCTGATTTG
1 ATCTGCTATCTTCAATCTACTCCCCCTCTAATACAGAGACGCCAAATCTGTTATCTTC-GATCCG
*
56219985 CTCCCCGTCTAATACAGAGATGCCAA
65 CTCCCCGTCTAATACAGAGACGCCAA
56220011 ATCTG
1 ATCTG
56220016 TCATCTTGGA
Statistics
Matches: 86, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
88 2 0.02
89 77 0.90
90 7 0.08
ACGTcount: A:0.26, C:0.31, G:0.14, T:0.30
Consensus pattern (90 bp):
ATCTGCTATCTTCAATCTACTCCCCCTCTAATACAGAGACGCCAAATCTGTTATCTTCGATCCGC
TCCCCGTCTAATACAGAGACGCCAA
Found at i:56220174 original size:78 final size:78
Alignment explanation
Indices: 56220045--56220339 Score: 466
Period size: 78 Copynumber: 3.8 Consensus size: 78
56220035 ATGTAAACAC
* * *
56220045 ATGAAGGTCAGATCTGCAATGTCTTTGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATTT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATAT
56220110 TGGATCTGCTTCA
66 TGGATCTGCTTCA
* *
56220123 ATGAAGGTCCA-ATCTGTTATGTCTTTGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATA
1 ATGAAGGT-CAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATA
56220187 TTGGATCTGCTTCA
65 TTGGATCTGCTTCA
* * *
56220201 ATGAAGGTCAGATCTGCTGTGTCTTCGATCTGCTCCCCTTCTAATACAGAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATAT
56220266 TGGATCTGCTTCA
66 TGGATCTGCTTCA
* * **
56220279 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATC
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATC
56220340 TGTTTCTTCG
Statistics
Matches: 201, Mismatches: 14, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
77 2 0.01
78 197 0.98
79 2 0.01
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.32
Consensus pattern (78 bp):
ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATAT
TGGATCTGCTTCA
Found at i:56220414 original size:44 final size:44
Alignment explanation
Indices: 56220290--56220822 Score: 613
Period size: 44 Copynumber: 12.1 Consensus size: 44
56220280 TGAAGGTCAG
* * **
56220290 ATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAA
1 ATCTGCTA--TCTTCGATCTGCTCTCTGAC-AATACAGAGATGCCAA
* * * * *
56220337 ATCTG-TTTCTTCGATTTGTTCTCTGATAGTACAGAGATGCCAA
1 ATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGATGCCAA
* * **
56220380 ATTTGCTATCTTTGATCTGCTCTCTGACAATACAGAGACACCAA
1 ATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGATGCCAA
* ** * *
56220424 ATTTGCTATCTTTAATCTTCTCTCTGATAATACAGAGATGCCAA
1 ATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGATGCCAA
* * *
56220468 ATCTTCTATCTTTGATCTGCTCTCTGACAATACAGAGACGCCAA
1 ATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGATGCCAA
*
56220512 ATCTAG-TATCTTCGATCTGCTCTCTGACAATACAAAGATGCCAA
1 ATCT-GCTATCTTCGATCTGCTCTCTGACAATACAGAGATGCCAA
* * * **
56220556 ATCTACTATCTTTGATCTGCTCTCTAACAATACAGAGACACCAA
1 ATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGATGCCAA
* * **
56220600 ATATGTTATCTTCGATCTGCTCTCTGACAATACAGAGATGTTAA
1 ATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGATGCCAA
* * *
56220644 ATCTTCTATTTTTGATCTGCTCTCTGACAATACAGAGATGCCAA
1 ATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGATGCCAA
* * * *
56220688 ATCTGCTATTTTCGATCTGCTCGCTGACTATACGGAGATGCCAA
1 ATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGATGCCAA
* *
56220732 ATCTGCTATCTTCGATCTGCTCCCTGTCTAATACAGAGATGCCAA
1 ATCTGCTATCTTCGATCTGCTCTCTGAC-AATACAGAGATGCCAA
* * *
56220777 ATCTG-TTTCTTCGATTTGTTCTCTGACAATACAGAGATGCCAA
1 ATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGATGCCAA
56220820 ATC
1 ATC
56220823 ATCTTGGATC
Statistics
Matches: 412, Mismatches: 70, Indels: 12
0.83 0.14 0.02
Matches are distributed among these distances:
43 36 0.09
44 351 0.85
45 19 0.05
46 1 0.00
47 5 0.01
ACGTcount: A:0.27, C:0.24, G:0.15, T:0.34
Consensus pattern (44 bp):
ATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGATGCCAA
Found at i:56225818 original size:80 final size:80
Alignment explanation
Indices: 56225685--56225908 Score: 322
Period size: 80 Copynumber: 2.8 Consensus size: 80
56225675 AGGATTATAT
* *
56225685 CCGGGTTAAGTCCCGAAGGCATTCATGCTGGTTGTTATTTCCGGGTTAAGTCCCGAAGGAATTCG
1 CCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTGTTATTTCCGGGTTAAGTCCCGAAGGAATTCA
*
56225750 TGCTGGTTGTTATTC
66 TGCTGGTTGCTATTC
* *
56225765 CCGGGTTAAGTCTCGAAGGCATTCGTGCTGGTTGTTATTTCCGGGTTAAGTCCCGAAGGCATTCA
1 CCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTGTTATTTCCGGGTTAAGTCCCGAAGGAATTCA
*
56225830 TGCTGGTTGCTATTT
66 TGCTGGTTGCTATTC
* * ** * * *
56225845 CTGGGTTAAGTCCCGAAGGCATTTGTGCTGGTTGTTACATCTGGGCTAAATCCCGAAGGTAATT
1 CCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTGTTATTTCCGGGTTAAGTCCCGAAGG-AATT
56225909 GGGTTGGAAA
Statistics
Matches: 128, Mismatches: 15, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
80 125 0.98
81 3 0.02
ACGTcount: A:0.18, C:0.20, G:0.29, T:0.33
Consensus pattern (80 bp):
CCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTGTTATTTCCGGGTTAAGTCCCGAAGGAATTCA
TGCTGGTTGCTATTC
Found at i:56225903 original size:40 final size:40
Alignment explanation
Indices: 56225679--56225881 Score: 325
Period size: 40 Copynumber: 5.1 Consensus size: 40
56225669 CAATTGAGGA
* *
56225679 TTATATCCGGGTTAAGTCCCGAAGGCATTCATGCTGGTTG
1 TTATTTCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
*
56225719 TTATTTCCGGGTTAAGTCCCGAAGGAATTCGTGCTGGTTG
1 TTATTTCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
* *
56225759 TTATTCCCGGGTTAAGTCTCGAAGGCATTCGTGCTGGTTG
1 TTATTTCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
*
56225799 TTATTTCCGGGTTAAGTCCCGAAGGCATTCATGCTGGTTG
1 TTATTTCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
* * *
56225839 CTATTTCTGGGTTAAGTCCCGAAGGCATTTGTGCTGGTTG
1 TTATTTCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
56225879 TTA
1 TTA
56225882 CATCTGGGCT
Statistics
Matches: 149, Mismatches: 14, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 149 1.00
ACGTcount: A:0.17, C:0.19, G:0.29, T:0.35
Consensus pattern (40 bp):
TTATTTCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
Found at i:56228607 original size:71 final size:71
Alignment explanation
Indices: 56228521--56228684 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
56228511 CGATTTGTCT
56228521 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
56228586 CTTTCA
66 CTTTCA
56228592 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
56228657 CTTTCA
66 CTTTCA
56228663 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
56228685 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:56228722 original size:71 final size:70
Alignment explanation
Indices: 56228521--56228718 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
56228511 CGATTTGTCT
* * * *
56228521 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
56228586 CTTTCA
65 CTTTCA
* * * *
56228592 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
56228657 CTTTCA
65 CTTTCA
* *
56228663 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
56228719 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:56236175 original size:71 final size:71
Alignment explanation
Indices: 56236089--56236252 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
56236079 CGATTTGTCT
56236089 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
56236154 CTTTCA
66 CTTTCA
56236160 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
56236225 CTTTCA
66 CTTTCA
56236231 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
56236253 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:56236290 original size:71 final size:70
Alignment explanation
Indices: 56236089--56236286 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
56236079 CGATTTGTCT
* * * *
56236089 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
56236154 CTTTCA
65 CTTTCA
* * * *
56236160 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
56236225 CTTTCA
65 CTTTCA
* *
56236231 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
56236287 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:56242894 original size:13 final size:13
Alignment explanation
Indices: 56242878--56242902 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
56242868 CCATTTTGTT
56242878 TTCGGTAGCTTTC
1 TTCGGTAGCTTTC
56242891 TTCGGTAGCTTT
1 TTCGGTAGCTTT
56242903 TATTTCCTCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.20, G:0.24, T:0.48
Consensus pattern (13 bp):
TTCGGTAGCTTTC
Found at i:56245531 original size:46 final size:47
Alignment explanation
Indices: 56245449--56245567 Score: 143
Period size: 46 Copynumber: 2.5 Consensus size: 47
56245439 ACATTATGAG
*
56245449 AGCCAATGTAAGACCATGTCTGGGACTTGGCATCAGCATTGAGACGAA
1 AGCCAGTGTAAGA-CATGTCTGGGACTTGGCATCAGCATTGAGACGAA
* * * * *
56245497 AGCTAGTGTAAGACATCTCTGGGA-TAT-GCATCAGCCTTGAGATGTA
1 AGCCAGTGTAAGACATGTCTGGGACT-TGGCATCAGCATTGAGACGAA
*
56245543 AGCCAGTGCAAGACATGTCTGGGAC
1 AGCCAGTGTAAGACATGTCTGGGAC
56245568 ATCCATTGGC
Statistics
Matches: 60, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
46 38 0.63
47 11 0.18
48 11 0.18
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (47 bp):
AGCCAGTGTAAGACATGTCTGGGACTTGGCATCAGCATTGAGACGAA
Found at i:56245709 original size:100 final size:95
Alignment explanation
Indices: 56245588--56245767 Score: 247
Period size: 100 Copynumber: 1.8 Consensus size: 95
56245578 TACCAGATGT
* *
56245588 GTCAGTGTAAGACCATGTCTGGGACATGGCATC-AATATAGATATGTGA-GAGCTAGTGTAAGAC
1 GTCAATGTAAGACCATGTCTGGGACAT-GCATCGAAT-T-G--ATG-GATGAGCCAGTGTAAGAC
56245651 CATGTCCTAGGACATGGCATCGGCCTCAATTTCGATA
60 CATG-CCTAGGACATGGCATCGGCCTCAATTTCGATA
*
56245688 GTCAATGTAAGACCATGTCTGGGACATGCATCGACTTGATGGATGAGCCAGTGTAAGACCATGCC
1 GTCAATGTAAGACCATGTCTGGGACATGCATCGAATTGATGGATGAGCCAGTGTAAGACCATGCC
*
56245753 TGGGACATGGCATCG
66 TAGGACATGGCATCG
56245768 ACATTATACC
Statistics
Matches: 74, Mismatches: 4, Indels: 9
0.85 0.05 0.10
Matches are distributed among these distances:
95 18 0.24
96 21 0.28
98 1 0.01
99 6 0.08
100 28 0.38
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (95 bp):
GTCAATGTAAGACCATGTCTGGGACATGCATCGAATTGATGGATGAGCCAGTGTAAGACCATGCC
TAGGACATGGCATCGGCCTCAATTTCGATA
Found at i:56256309 original size:24 final size:24
Alignment explanation
Indices: 56256277--56256326 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
56256267 ATGACATGAC
56256277 ATGTTGCATGGGGGTAGGGTTGAT
1 ATGTTGCATGGGGGTAGGGTTGAT
56256301 ATGTTGCATGGGGGTAGGGTTGAT
1 ATGTTGCATGGGGGTAGGGTTGAT
56256325 AT
1 AT
56256327 ACTGGAGGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.18, C:0.04, G:0.44, T:0.34
Consensus pattern (24 bp):
ATGTTGCATGGGGGTAGGGTTGAT
Found at i:56258619 original size:40 final size:40
Alignment explanation
Indices: 56258511--56258720 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
56258501 CGGGATTTAA
* * * * *
56258511 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
56258551 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
56258591 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
56258631 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
56258671 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
56258711 CCGGATATAT
1 CCGGATATAT
56258721 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:56266583 original size:40 final size:40
Alignment explanation
Indices: 56266475--56266684 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
56266465 CGGGATTTAA
* * * * *
56266475 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
56266515 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
56266555 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
56266595 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
56266635 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
56266675 CCGGATATAT
1 CCGGATATAT
56266685 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:56272490 original size:39 final size:39
Alignment explanation
Indices: 56272384--56272554 Score: 234
Period size: 39 Copynumber: 4.4 Consensus size: 39
56272374 CTTCAGGACA
* ** * **
56272384 TAGCCCGGTTATGGTAACCCGCACAAAGGCCTTCGGGACT
1 TAGCCCGGATATCATAACTCGCACAATTGCCTTCGGG-CT
* * * *
56272424 TAACCCGGATATCACAATTTGCACAATTGCCTTCGGGCT
1 TAGCCCGGATATCATAACTCGCACAATTGCCTTCGGGCT
*
56272463 TAGCCCGGATATCATAACTCGCCCAATTGCCTTCGGGCT
1 TAGCCCGGATATCATAACTCGCACAATTGCCTTCGGGCT
56272502 TAGCCCGGATATCATAACTCGCACAATTGCCTTCGGGCT
1 TAGCCCGGATATCATAACTCGCACAATTGCCTTCGGGCT
56272541 TAGCCCGGATATCA
1 TAGCCCGGATATCA
56272555 CTCAACATTC
Statistics
Matches: 115, Mismatches: 16, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
39 88 0.77
40 27 0.23
ACGTcount: A:0.23, C:0.30, G:0.22, T:0.25
Consensus pattern (39 bp):
TAGCCCGGATATCATAACTCGCACAATTGCCTTCGGGCT
Found at i:56274693 original size:25 final size:25
Alignment explanation
Indices: 56274659--56274722 Score: 101
Period size: 25 Copynumber: 2.6 Consensus size: 25
56274649 CATGTACATA
56274659 TGTGCTCACACAAGCTATGAATAAG
1 TGTGCTCACACAAGCTATGAATAAG
* *
56274684 TGTGCTCACACGAGCTGTGAATAAG
1 TGTGCTCACACAAGCTATGAATAAG
*
56274709 TGTCCTCACACAAG
1 TGTGCTCACACAAG
56274723 ATGTGGAGTA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.31, C:0.23, G:0.22, T:0.23
Consensus pattern (25 bp):
TGTGCTCACACAAGCTATGAATAAG
Found at i:56276550 original size:9 final size:9
Alignment explanation
Indices: 56276536--56276565 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
56276526 AGCATCAAAG
56276536 GAGGAAGAT
1 GAGGAAGAT
56276545 GAGGAAGAT
1 GAGGAAGAT
*
56276554 GAGGAGGAT
1 GAGGAAGAT
56276563 GAG
1 GAG
56276566 TCAAATAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.50, T:0.10
Consensus pattern (9 bp):
GAGGAAGAT
Found at i:56281709 original size:23 final size:21
Alignment explanation
Indices: 56281667--56281710 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 21
56281657 ATCTAATATA
56281667 TGAAGAGAAAAAGAAGGTGAG
1 TGAAGAGAAAAAGAAGGTGAG
*
56281688 TGAAGGAGAAATAAGGAGGTGAG
1 TGAA-GAGAAA-AAGAAGGTGAG
56281711 CCTTAAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 4 0.20
22 6 0.30
23 10 0.50
ACGTcount: A:0.48, C:0.00, G:0.41, T:0.11
Consensus pattern (21 bp):
TGAAGAGAAAAAGAAGGTGAG
Found at i:56283063 original size:27 final size:28
Alignment explanation
Indices: 56283033--56283099 Score: 91
Period size: 28 Copynumber: 2.4 Consensus size: 28
56283023 GCAAGGTTCA
56283033 CCACAAAGG-TTATCCCTTCATAATTTG
1 CCACAAAGGCTTATCCCTTCATAATTTG
* * * *
56283060 CCACAAAGGCTTTTTCTTTCATATTTTG
1 CCACAAAGGCTTATCCCTTCATAATTTG
56283088 CCACAAAGGCTT
1 CCACAAAGGCTT
56283100 TTCTTTCATG
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
27 9 0.26
28 26 0.74
ACGTcount: A:0.27, C:0.25, G:0.12, T:0.36
Consensus pattern (28 bp):
CCACAAAGGCTTATCCCTTCATAATTTG
Found at i:56283089 original size:28 final size:28
Alignment explanation
Indices: 56283049--56283133 Score: 111
Period size: 27 Copynumber: 3.1 Consensus size: 28
56283039 AGGTTATCCC
*
56283049 TTCATAATTTGCCACAAAGGCTTTTTCT
1 TTCATATTTTGCCACAAAGGCTTTTTCT
56283077 TTCATATTTTGCCACAAAGGC-TTTTCT
1 TTCATATTTTGCCACAAAGGCTTTTTCT
* * * *
56283104 TTCATGTTTTTCCATAAAGG-TTTTCCT
1 TTCATATTTTGCCACAAAGGCTTTTTCT
56283131 TTC
1 TTC
56283134 TTGACGTGAT
Statistics
Matches: 51, Mismatches: 5, Indels: 3
0.86 0.08 0.05
Matches are distributed among these distances:
27 31 0.61
28 20 0.39
ACGTcount: A:0.21, C:0.21, G:0.11, T:0.47
Consensus pattern (28 bp):
TTCATATTTTGCCACAAAGGCTTTTTCT
Found at i:56288451 original size:27 final size:28
Alignment explanation
Indices: 56288421--56288520 Score: 109
Period size: 27 Copynumber: 3.7 Consensus size: 28
56288411 TTTAGTTTAC
56288421 TAAAATTACCGAAATACCCTTAG-TTTG
1 TAAAATTACCGAAATACCCTTAGATTTG
* * *
56288448 TAAAAATACTGAAATACCC-TCGATTTG
1 TAAAATTACCGAAATACCCTTAGATTTG
* * *
56288475 TAAAATTACTGAAATA-CCTTCGACTTG
1 TAAAATTACCGAAATACCCTTAGATTTG
56288502 TAAAATTACC-AAATTACCC
1 TAAAATTACCGAAA-TACCC
56288521 CGATTTACAG
Statistics
Matches: 63, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
26 7 0.11
27 54 0.86
28 2 0.03
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (28 bp):
TAAAATTACCGAAATACCCTTAGATTTG
Found at i:56288520 original size:54 final size:53
Alignment explanation
Indices: 56288421--56288526 Score: 126
Period size: 54 Copynumber: 2.0 Consensus size: 53
56288411 TTTAGTTTAC
* *
56288421 TAAAATTACCGAAATACCCTTAGTTTGTAAAAATACTGAAATACCCTCGATTTG
1 TAAAATTACCGAAATACCCTTAGCTTGTAAAAATACTCAAATACCC-CGATTTG
* * *
56288475 TAAAATTACTGAAATA-CCTTCGACTTGTAAAATTAC-CAAATTACCCCGATTT
1 TAAAATTACCGAAATACCCTTAG-CTTGTAAAAATACTCAAA-TACCCCGATTT
56288527 ACAGAATTAC
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
53 14 0.31
54 31 0.69
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.32
Consensus pattern (53 bp):
TAAAATTACCGAAATACCCTTAGCTTGTAAAAATACTCAAATACCCCGATTTG
Found at i:56288726 original size:27 final size:27
Alignment explanation
Indices: 56288515--56288725 Score: 298
Period size: 27 Copynumber: 7.9 Consensus size: 27
56288505 AATTACCAAA
56288515 TTACCC-CGATTTACAGAATTACCGTT
1 TTACCCTCGATTTACAGAATTACCGTT
* *
56288541 TTACCCTTGATTTACATAATTACCGTT
1 TTACCCTCGATTTACAGAATTACCGTT
* *
56288568 TTACCCTCGATTTACATAATTATCGTT
1 TTACCCTCGATTTACAGAATTACCGTT
*
56288595 TTACCCTCGACTTACAGAATTACCGTT
1 TTACCCTCGATTTACAGAATTACCGTT
* *
56288622 TTACCCTCGATTTATAGAATTACCATT
1 TTACCCTCGATTTACAGAATTACCGTT
* * *
56288649 TTAGCCTCGATTTATAGAATTACTGTT
1 TTACCCTCGATTTACAGAATTACCGTT
* *
56288676 TTACCCTTGATTTACAGAATTACTGTT
1 TTACCCTCGATTTACAGAATTACCGTT
*
56288703 TTACCCTCGATTTACAAAATTAC
1 TTACCCTCGATTTACAGAATTAC
56288726 TAAAATACCC
Statistics
Matches: 166, Mismatches: 18, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
26 6 0.04
27 160 0.96
ACGTcount: A:0.27, C:0.23, G:0.09, T:0.40
Consensus pattern (27 bp):
TTACCCTCGATTTACAGAATTACCGTT
Found at i:56288734 original size:27 final size:27
Alignment explanation
Indices: 56288677--56288916 Score: 155
Period size: 27 Copynumber: 8.8 Consensus size: 27
56288667 ATTACTGTTT
* *****
56288677 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTTGATTTACAAAATTACCAAAA
* *
56288704 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTTGATTTACAAAATTACCAAAA
* **
56288731 TACCCTTGGTTTGTAAAATTACCAAAA
1 TACCCTTGATTTACAAAATTACCAAAA
*
56288758 TACCCCT-AGTTTGA-AAAATTACCAAAA
1 TACCCTTGA-TTT-ACAAAATTACCAAAA
* *** *
56288785 TACCCTTGGTTTGTGAAATTACCGAAA
1 TACCCTTGATTTACAAAATTACCAAAA
** **
56288812 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTTGATTTACAAAATTACCAAAA
* *
56288839 TACCCCTGATTTACAAAGTTA-CAGAAA
1 TACCCTTGATTTACAAAATTACCA-AAA
**
56288866 TACCCTTGACTTT-CTAAAAATTATAAAAA
1 TACCCTTGA-TTTAC--AAAATTACCAAAA
* *
56288895 TACCATTGGTTTACAAAATTAC
1 TACCCTTGATTTACAAAATTAC
56288917 TGAAATACGC
Statistics
Matches: 167, Mismatches: 36, Indels: 20
0.75 0.16 0.09
Matches are distributed among these distances:
26 2 0.01
27 141 0.84
28 6 0.04
29 17 0.10
30 1 0.01
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.33
Consensus pattern (27 bp):
TACCCTTGATTTACAAAATTACCAAAA
Found at i:56288751 original size:54 final size:53
Alignment explanation
Indices: 56288704--56288924 Score: 192
Period size: 54 Copynumber: 4.1 Consensus size: 53
56288694 ATTACTGTTT
* * *
56288704 TACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTGTAAAATTACCAAAA
1 TACCCTCAATTTA-AAAATTACCAAAATACCCTTGGTTTGTAAAATTACCGAAA
* *
56288758 TACCC-CTAGTTTGAAAAATTACCAAAATACCCTTGGTTTGTGAAATTACCGAAA
1 TACCCTC-AATTT-AAAAATTACCAAAATACCCTTGGTTTGTAAAATTACCGAAA
* * * ** * *
56288812 TACCCTCAATTTGTAAAATTACCAAAATACCCCTGATTTACAAAGTTACAGAAA
1 TACCCTCAATTT-AAAAATTACCAAAATACCCTTGGTTTGTAAAATTACCGAAA
* * ** * ** *
56288866 TACCCTTGACTTTCTAAAAATTATAAAAATACCATTGGTTTACAAAATTACTGAAA
1 TACCC-TCA-ATT-TAAAAATTACCAAAATACCCTTGGTTTGTAAAATTACCGAAA
56288922 TAC
1 TAC
56288925 GCTTGGTTTG
Statistics
Matches: 137, Mismatches: 24, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
53 1 0.01
54 93 0.68
55 4 0.03
56 38 0.28
57 1 0.01
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.31
Consensus pattern (53 bp):
TACCCTCAATTTAAAAATTACCAAAATACCCTTGGTTTGTAAAATTACCGAAA
Found at i:56288751 original size:81 final size:81
Alignment explanation
Indices: 56288462--56288752 Score: 262
Period size: 81 Copynumber: 3.6 Consensus size: 81
56288452 AATACTGAAA
** ** * * * ****
56288462 TACCCTCGATTTGTAAAATTACTGAAATACCTTCGACTTGTAAAATTACCAAATTACCC-CGATT
1 TACCCTCGATTTACAAAATTACCAAAATACCCTCGATTTATAAAATTACTGTTTTACCCTCGATT
56288526 TACAGAATTACCGTTT
66 TACAGAATTACCGTTT
* * **** * * *
56288542 TACCCTTGATTTACATAATTACCGTTTTACCCTCGATTTACATAATTA-TCGTTTTACCCTCGAC
1 TACCCTCGATTTACAAAATTACCAAAATACCCTCGATTTATAAAATTACT-GTTTTACCCTCGAT
56288606 TTACAGAATTACCGTTT
65 TTACAGAATTACCGTTT
* * *** * * *
56288623 TACCCTCGATTTATAGAATTACCATTTTAGCCTCGATTTATAGAATTACTGTTTTACCCTTGATT
1 TACCCTCGATTTACAAAATTACCAAAATACCCTCGATTTATAAAATTACTGTTTTACCCTCGATT
*
56288688 TACAGAATTACTGTTT
66 TACAGAATTACCGTTT
* * * *
56288704 TACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTGTAAAATTAC
1 TACCCTCGATTTACAAAATTACCAAAATACCCTCGATTTATAAAATTAC
56288753 CAAAATACCC
Statistics
Matches: 169, Mismatches: 39, Indels: 5
0.79 0.18 0.02
Matches are distributed among these distances:
80 41 0.24
81 127 0.75
82 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.10, T:0.38
Consensus pattern (81 bp):
TACCCTCGATTTACAAAATTACCAAAATACCCTCGATTTATAAAATTACTGTTTTACCCTCGATT
TACAGAATTACCGTTT
Found at i:56288922 original size:27 final size:27
Alignment explanation
Indices: 56288704--56288956 Score: 161
Period size: 27 Copynumber: 9.3 Consensus size: 27
56288694 ATTACTGTTT
* * *
56288704 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTTGGTTTACAAAATTACCAAAA
**
56288731 TACCCTTGGTTTGTAAAATTACCAAAA
1 TACCCTTGGTTTACAAAATTACCAAAA
* *
56288758 TACCCCTAGTTTGA-AAAATTACCAAAA
1 TACCCTTGGTTT-ACAAAATTACCAAAA
*** *
56288785 TACCCTTGGTTTGTGAAATTACCGAAA
1 TACCCTTGGTTTACAAAATTACCAAAA
*** **
56288812 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTTGGTTTACAAAATTACCAAAA
* * *
56288839 TACCCCTGATTTACAAAGTTA-CAGAAA
1 TACCCTTGGTTTACAAAATTACCA-AAA
* **
56288866 TACCCTTGACTTT-CTAAAAATTATAAAAA
1 TACCCTTG-GTTTAC--AAAATTACCAAAA
* **
56288895 TACCATTGGTTTACAAAATTACTGAAA
1 TACCCTTGGTTTACAAAATTACCAAAA
* ** * *
56288922 TACGCTTGGTTTGTAGATTTACCAAAA
1 TACCCTTGGTTTACAAAATTACCAAAA
*
56288949 CACCCTTG
1 TACCCTTG
56288957 TAGGATGAAA
Statistics
Matches: 175, Mismatches: 43, Indels: 16
0.75 0.18 0.07
Matches are distributed among these distances:
26 2 0.01
27 149 0.85
28 6 0.03
29 17 0.10
30 1 0.01
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.31
Consensus pattern (27 bp):
TACCCTTGGTTTACAAAATTACCAAAA
Found at i:56289027 original size:27 final size:27
Alignment explanation
Indices: 56288974--56289051 Score: 70
Period size: 27 Copynumber: 2.9 Consensus size: 27
56288964 AAATGACTAA
* * *
56288974 AATACCCCTATTA-GGTAAAAAGTCCGT
1 AATACCCCT-GTAGGGTAAAATGACCGT
*
56289001 AA-AGCCCCTGTAGGGTAAAGTGACCGT
1 AATA-CCCCTGTAGGGTAAAATGACCGT
* *
56289028 AATACCTCTGTATGGTAAAATGAC
1 AATACCCCTGTAGGGTAAAATGAC
56289052 AAATATGCCC
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
26 3 0.07
27 37 0.90
28 1 0.02
ACGTcount: A:0.35, C:0.21, G:0.21, T:0.24
Consensus pattern (27 bp):
AATACCCCTGTAGGGTAAAATGACCGT
Found at i:56289888 original size:26 final size:26
Alignment explanation
Indices: 56289854--56289977 Score: 178
Period size: 26 Copynumber: 4.8 Consensus size: 26
56289844 GAGGAAGTGC
* *
56289854 AAAAAGGCTTATGCCCCAGTTTACCA
1 AAAAGGGCTTATGCCCCAGTTTACCG
**
56289880 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
56289906 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
*
56289932 AAAAGGGCTTATGCCCCAGGTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
* *
56289958 AAATGGGCTT-TGACCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
56289978 ATTAAAGAGG
Statistics
Matches: 88, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
25 8 0.09
26 80 0.91
ACGTcount: A:0.28, C:0.24, G:0.23, T:0.25
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACCG
Found at i:56290180 original size:41 final size:42
Alignment explanation
Indices: 56290122--56290212 Score: 139
Period size: 41 Copynumber: 2.2 Consensus size: 42
56290112 TAGTCTCCCC
* * *
56290122 AAATGGGCTTGCATACATTCATTGG-TTTTCATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGGCATTACATGTGATATTG
*
56290163 AAATGGGCTTGCGTACATCCATTGGCATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGGCATTACATGTGATATTG
56290205 AAATGGGC
1 AAATGGGC
56290213 CTATGGGCCA
Statistics
Matches: 45, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
41 23 0.51
42 22 0.49
ACGTcount: A:0.26, C:0.14, G:0.24, T:0.35
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGGCATTACATGTGATATTG
Found at i:56290271 original size:31 final size:31
Alignment explanation
Indices: 56290236--56290307 Score: 126
Period size: 31 Copynumber: 2.3 Consensus size: 31
56290226 CGTTTACAGT
56290236 AAAGGCTTCGGCCCAGTGAAATGATTTATGA
1 AAAGGCTTCGGCCCAGTGAAATGATTTATGA
* *
56290267 AAAGGCTTTGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGAAATGATTTATGA
56290298 AAAGGCTTCG
1 AAAGGCTTCG
56290308 AAAGGCTTCG
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.28
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGAAATGATTTATGA
Found at i:56291783 original size:27 final size:26
Alignment explanation
Indices: 56291753--56291860 Score: 144
Period size: 27 Copynumber: 4.0 Consensus size: 26
56291743 ATCTATCCTT
* *
56291753 GTGGCTATGCCACAATTATCTGATCTG
1 GTGGCTCTGCCAC-ATTATCTGTTCTG
56291780 GTGGCTCTGCCACATATATCTGTTCTG
1 GTGGCTCTGCCACAT-TATCTGTTCTG
*
56291807 GTGGCTCTGCCACGATTATCTGTTTTG
1 GTGGCTCTGCCAC-ATTATCTGTTCTG
* *
56291834 GTGACTCTGTCACATTATCTGTTCTG
1 GTGGCTCTGCCACATTATCTGTTCTG
56291860 G
1 G
56291861 CAGCCATGCT
Statistics
Matches: 73, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
26 15 0.21
27 56 0.77
28 2 0.03
ACGTcount: A:0.16, C:0.23, G:0.23, T:0.38
Consensus pattern (26 bp):
GTGGCTCTGCCACATTATCTGTTCTG
Found at i:56291825 original size:54 final size:54
Alignment explanation
Indices: 56291739--56291860 Score: 156
Period size: 54 Copynumber: 2.3 Consensus size: 54
56291729 CGCCACATAT
* * * *
56291739 ATATATCTATCCTTGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCAC
1 ATATATCTGTTCTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCAC
* * * * *
56291793 ATATATCTGTTCTGGTGGCTCTGCCACGATTATCTGTTTTGGTGACTCTGTCAC
1 ATATATCTGTTCTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCAC
56291847 AT-TATCTGTTCTGG
1 ATATATCTGTTCTGG
56291861 CAGCCATGCT
Statistics
Matches: 59, Mismatches: 9, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
53 12 0.20
54 47 0.80
ACGTcount: A:0.17, C:0.23, G:0.20, T:0.39
Consensus pattern (54 bp):
ATATATCTGTTCTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCAC
Found at i:56292011 original size:19 final size:19
Alignment explanation
Indices: 56291982--56292052 Score: 74
Period size: 19 Copynumber: 3.8 Consensus size: 19
56291972 CATTCACATT
*
56291982 CTGATTTTGATTCTGTTAC
1 CTGATTCTGATTCTGTTAC
* *
56292001 CTGATACTGATTCTAATT--
1 CTGATTCTGATTCT-GTTAC
* *
56292019 CTAATTCTGATTCTGTCAC
1 CTGATTCTGATTCTGTTAC
56292038 CTGATTCTGATTCTG
1 CTGATTCTGATTCTG
56292053 ATTCTGATTC
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
17 1 0.02
18 12 0.29
19 26 0.63
20 2 0.05
ACGTcount: A:0.20, C:0.20, G:0.14, T:0.46
Consensus pattern (19 bp):
CTGATTCTGATTCTGTTAC
Found at i:56292033 original size:6 final size:6
Alignment explanation
Indices: 56291979--56292072 Score: 77
Period size: 6 Copynumber: 15.3 Consensus size: 6
56291969 TTTCATTCAC
* * * *
56291979 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG ATTCTA ATTCTA ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
*
56292028 ATTCTG -TCACCTG ATTCTG ATTCTG ATTCTG ATTCT- AGTTCTG AT
1 ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
56292073 AATGTTTCTT
Statistics
Matches: 72, Mismatches: 8, Indels: 16
0.75 0.08 0.17
Matches are distributed among these distances:
5 4 0.06
6 59 0.82
7 7 0.10
8 2 0.03
ACGTcount: A:0.20, C:0.18, G:0.14, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:56292070 original size:37 final size:37
Alignment explanation
Indices: 56291979--56292063 Score: 125
Period size: 37 Copynumber: 2.3 Consensus size: 37
56291969 TTTCATTCAC
* *
56291979 ATTCTGATTTTGATTCTGTTACCTGATACTGATTCTA
1 ATTCTGATTCTGATTCTGTCACCTGATACTGATTCTA
* * *
56292016 ATTCTAATTCTGATTCTGTCACCTGATTCTGATTCTG
1 ATTCTGATTCTGATTCTGTCACCTGATACTGATTCTA
56292053 ATTCTGATTCT
1 ATTCTGATTCT
56292064 AGTTCTGATA
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 42 1.00
ACGTcount: A:0.20, C:0.19, G:0.13, T:0.48
Consensus pattern (37 bp):
ATTCTGATTCTGATTCTGTCACCTGATACTGATTCTA
Found at i:56293478 original size:27 final size:26
Alignment explanation
Indices: 56293437--56293555 Score: 148
Period size: 27 Copynumber: 4.5 Consensus size: 26
56293427 CACATATATA
* * *
56293437 TATCTGTCCTAGTGGCTATGCCACAAT
1 TATCTGTTCTGGTGGCTCTGCCAC-AT
*
56293464 TATCTGATCTGGTGGCTCTGCCACAT
1 TATCTGTTCTGGTGGCTCTGCCACAT
56293490 ATATCTGTTCTGGTGGCTCTGCCACGAT
1 -TATCTGTTCTGGTGGCTCTGCCAC-AT
* * *
56293518 TATCTGTTTTGGTGACTCTGTCACAT
1 TATCTGTTCTGGTGGCTCTGCCACAT
56293544 TATCTGTTCTGG
1 TATCTGTTCTGG
56293556 CAGCCATGCT
Statistics
Matches: 81, Mismatches: 9, Indels: 5
0.85 0.09 0.05
Matches are distributed among these distances:
26 15 0.19
27 64 0.79
28 2 0.02
ACGTcount: A:0.16, C:0.24, G:0.22, T:0.39
Consensus pattern (26 bp):
TATCTGTTCTGGTGGCTCTGCCACAT
Found at i:56293514 original size:54 final size:54
Alignment explanation
Indices: 56293434--56293555 Score: 165
Period size: 54 Copynumber: 2.3 Consensus size: 54
56293424 CGCCACATAT
* * *
56293434 ATATATCTGTCCTAGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCAC
1 ATATATCTGTTCTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCAC
* * * * *
56293488 ATATATCTGTTCTGGTGGCTCTGCCACGATTATCTGTTTTGGTGACTCTGTCAC
1 ATATATCTGTTCTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCAC
56293542 AT-TATCTGTTCTGG
1 ATATATCTGTTCTGG
56293556 CAGCCATGCT
Statistics
Matches: 60, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
53 12 0.20
54 48 0.80
ACGTcount: A:0.17, C:0.23, G:0.21, T:0.39
Consensus pattern (54 bp):
ATATATCTGTTCTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCAC
Found at i:56293705 original size:6 final size:6
Alignment explanation
Indices: 56293674--56293767 Score: 86
Period size: 6 Copynumber: 15.3 Consensus size: 6
56293664 TTGCATTCAC
* *
56293674 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* *
56293723 ATTCTG -TCACCTG ACTCTG ATTCTG ATTCTG ATTCT- AGTTCTG AT
1 ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
56293768 AATGTTTCTT
Statistics
Matches: 72, Mismatches: 8, Indels: 16
0.75 0.08 0.17
Matches are distributed among these distances:
5 4 0.06
6 60 0.83
7 7 0.10
8 1 0.01
ACGTcount: A:0.18, C:0.19, G:0.16, T:0.47
Consensus pattern (6 bp):
ATTCTG
Found at i:56293765 original size:37 final size:37
Alignment explanation
Indices: 56293674--56293758 Score: 136
Period size: 37 Copynumber: 2.3 Consensus size: 37
56293664 TTGCATTCAC
* *
56293674 ATTCTGATTTTGATTCTGTTACCTGATACTGATTCTG
1 ATTCTGATTCTGATTCTGTCACCTGATACTGATTCTG
56293711 ATTCTGATTCTGATTCTGTCACCTGACT-CTGATTCTG
1 ATTCTGATTCTGATTCTGTCACCTGA-TACTGATTCTG
56293748 ATTCTGATTCT
1 ATTCTGATTCT
56293759 AGTTCTGATA
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
37 44 0.98
38 1 0.02
ACGTcount: A:0.18, C:0.20, G:0.15, T:0.47
Consensus pattern (37 bp):
ATTCTGATTCTGATTCTGTCACCTGATACTGATTCTG
Found at i:56295745 original size:27 final size:28
Alignment explanation
Indices: 56295715--56295804 Score: 123
Period size: 27 Copynumber: 3.3 Consensus size: 28
56295705 TTTAGTTTAC
56295715 TAAAATTACTGAAATACCCTTAG-TTTG
1 TAAAATTACTGAAATACCCTTAGATTTG
* *
56295742 TAAAAATACTGAAATACCC-TCGATTTG
1 TAAAATTACTGAAATACCCTTAGATTTG
* *
56295769 TAAAATTACTGAAATA-CCTTCGACTTG
1 TAAAATTACTGAAATACCCTTAGATTTG
56295796 TAAAATTAC
1 TAAAATTAC
56295805 CAAAGTACCC
Statistics
Matches: 57, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
26 4 0.07
27 53 0.93
ACGTcount: A:0.40, C:0.17, G:0.10, T:0.33
Consensus pattern (28 bp):
TAAAATTACTGAAATACCCTTAGATTTG
Found at i:56295782 original size:54 final size:54
Alignment explanation
Indices: 56295715--56295821 Score: 146
Period size: 54 Copynumber: 2.0 Consensus size: 54
56295705 TTTAGTTTAC
* *
56295715 TAAAATTACTGAAATACCCTTAG-TTTGTAAAAATACTGAAA-TACCCTCGATTTG
1 TAAAATTACTGAAATA-CCTTAGACTTGTAAAAATAC-CAAAGTACCCTCGATTTG
* *
56295769 TAAAATTACTGAAATACCTTCGACTTGTAAAATTACCAAAGTACCCTCGATTT
1 TAAAATTACTGAAATACCTTAGACTTGTAAAAATACCAAAGTACCCTCGATTT
56295822 ACAGAATTAC
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
53 8 0.17
54 39 0.83
ACGTcount: A:0.38, C:0.19, G:0.10, T:0.33
Consensus pattern (54 bp):
TAAAATTACTGAAATACCTTAGACTTGTAAAAATACCAAAGTACCCTCGATTTG
Found at i:56295813 original size:27 final size:27
Alignment explanation
Indices: 56295715--56295818 Score: 122
Period size: 27 Copynumber: 3.9 Consensus size: 27
56295705 TTTAGTTTAC
* *
56295715 TAAAATTACTGAAATACCCT-TAGTTTG
1 TAAAATTACTGAAATACCCTCGA-CTTG
* *
56295742 TAAAAATACTGAAATACCCTCGATTTG
1 TAAAATTACTGAAATACCCTCGACTTG
*
56295769 TAAAATTACTGAAATACCTTCGACTTG
1 TAAAATTACTGAAATACCCTCGACTTG
*
56295796 TAAAATTAC-CAAAGTACCCTCGA
1 TAAAATTACTGAAA-TACCCTCGA
56295819 TTTACAGAAT
Statistics
Matches: 68, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
26 3 0.04
27 64 0.94
28 1 0.01
ACGTcount: A:0.39, C:0.19, G:0.11, T:0.31
Consensus pattern (27 bp):
TAAAATTACTGAAATACCCTCGACTTG
Found at i:56295830 original size:54 final size:54
Alignment explanation
Indices: 56295710--56295831 Score: 140
Period size: 54 Copynumber: 2.2 Consensus size: 54
56295700 AATACTTTAG
* *
56295710 TTTACTAAAATTACTGAAATACCCTTAGTTTGTAAAAATACTGAAATACCCTCGA
1 TTTAC-AAAATTACTGAAATACCCTTAGCTTGTAAAAATACTCAAATACCCTCGA
** * *
56295765 TTTGTAAAATTACTGAAATA-CCTTCGACTTGTAAAATTAC-CAAAGTACCCTCGA
1 TTTACAAAATTACTGAAATACCCTTAG-CTTGTAAAAATACTCAAA-TACCCTCGA
*
56295819 TTTACAGAATTAC
1 TTTACAAAATTAC
56295832 CGTTTTACCC
Statistics
Matches: 56, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
53 8 0.14
54 45 0.80
55 3 0.05
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.33
Consensus pattern (54 bp):
TTTACAAAATTACTGAAATACCCTTAGCTTGTAAAAATACTCAAATACCCTCGA
Found at i:56296022 original size:27 final size:27
Alignment explanation
Indices: 56295810--56296020 Score: 271
Period size: 27 Copynumber: 7.8 Consensus size: 27
56295800 ATTACCAAAG
56295810 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
56295837 TACCC-CTAATTTACATAATTACCGTTT
1 TACCCTC-GATTTACAGAATTACCGTTT
* * *
56295864 TACCCCCGATTTACATAATTATCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
**
56295891 TACCCTCGACATACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
56295918 TACCCTTGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
56295945 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* **
56295972 TACCCTTGATTTACAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
56295999 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTAC
56296021 TAAAATACCC
Statistics
Matches: 162, Mismatches: 20, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
26 1 0.01
27 160 0.99
28 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.09, T:0.39
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCGTTT
Found at i:56296029 original size:27 final size:27
Alignment explanation
Indices: 56295972--56296223 Score: 145
Period size: 27 Copynumber: 9.3 Consensus size: 27
56295962 ATTACTGTTT
* ***
56295972 TACCCTTGATTTACAGAATTACTATTT
1 TACCCTTGATTTACAAAATTACTAAAA
*
56295999 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTTGATTTACAAAATTACTAAAA
* ** *
56296026 TACCCTTGGTTTGTAAAATTACCAAAA
1 TACCCTTGATTTACAAAATTACTAAAA
* ** *
56296053 TACCCTAG-TTTGTAAAATTACCAAAA
1 TACCCTTGATTTACAAAATTACTAAAA
* * *** *
56296079 TACCATTGGTTTGTGAAATTA-TCGAAA
1 TACCCTTGATTTACAAAATTACT-AAAA
** ** *
56296106 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTTGATTTACAAAATTACTAAAA
* *
56296133 TACCCCTGATTTACAAAGTTAC-AGAAA
1 TACCCTTGATTTACAAAATTACTA-AAA
56296160 TACCCTTGACTTT-CTAAAAATTA-TAAAAA
1 TACCCTTGA-TTTAC--AAAATTACT-AAAA
* * *
56296189 TACCATTGGTTTACAAAATTACTGAAA
1 TACCCTTGATTTACAAAATTACTAAAA
*
56296216 TACGCTTG
1 TACCCTTG
56296224 GTTTGTAGAT
Statistics
Matches: 178, Mismatches: 36, Indels: 22
0.75 0.15 0.09
Matches are distributed among these distances:
26 25 0.14
27 128 0.72
28 7 0.04
29 17 0.10
30 1 0.01
ACGTcount: A:0.39, C:0.19, G:0.09, T:0.33
Consensus pattern (27 bp):
TACCCTTGATTTACAAAATTACTAAAA
Found at i:56296030 original size:54 final size:54
Alignment explanation
Indices: 56295797--56296033 Score: 161
Period size: 54 Copynumber: 4.4 Consensus size: 54
56295787 TTCGACTTGT
* * * * *
56295797 AAAATTACCAAAGTACCCTCGATTTACAGAATTACCGTTTTACCC-CTAATTTAC
1 AAAATTACTAAAATACCCTTGATTTACAGAATTACCATTTTACCCTC-GATTTAC
* ***** ** * * * **
56295851 ATAATTACCGTTTTACCCCCGATTTACATAATTATCGTTTTACCCTCGACATAC
1 AAAATTACTAAAATACCCTTGATTTACAGAATTACCATTTTACCCTCGATTTAC
* ***** * * *
56295905 AGAATTACCGTTTTACCCTTGATTTATAGAATTACCGTTTTACCCTCGATTTAT
1 AAAATTACTAAAATACCCTTGATTTACAGAATTACCATTTTACCCTCGATTTAC
* **** *
56295959 AGAATTACTGTTTTACCCTTGATTTACAGAATTACTATTTTACCCTCGATTTAC
1 AAAATTACTAAAATACCCTTGATTTACAGAATTACCATTTTACCCTCGATTTAC
56296013 AAAATTACTAAAATACCCTTG
1 AAAATTACTAAAATACCCTTG
56296034 GTTTGTAAAA
Statistics
Matches: 152, Mismatches: 30, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
54 151 0.99
55 1 0.01
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (54 bp):
AAAATTACTAAAATACCCTTGATTTACAGAATTACCATTTTACCCTCGATTTAC
Found at i:56296030 original size:81 final size:81
Alignment explanation
Indices: 56295756--56296047 Score: 228
Period size: 81 Copynumber: 3.6 Consensus size: 81
56295746 AATACTGAAA
** * * * * *****
56295756 TACCCTCGATTTGTAAAATTACTGAAATACCTTCGACTTGTAAAATTACCAAAGTACCCTCGATT
1 TACCCTCGATTTACAAAATTACCGAAATACCCTCGATTTATAAAATTACTGTTTTACCCTCGATT
56295821 TACAGAATTACCGTTT
66 TACAGAATTACCGTTT
* * *** * * *
56295837 TACCC-CTAATTTACATAATTACCGTTTTACCCCCGATTTACATAATTA-TCGTTTTACCCTCGA
1 TACCCTC-GATTTACAAAATTACCGAAATACCCTCGATTTATAAAATTACT-GTTTTACCCTCGA
**
56295900 CATACAGAATTACCGTTT
64 TTTACAGAATTACCGTTT
* * * *** * *
56295918 TACCCTTGATTTATAGAATTACCGTTTTACCCTCGATTTATAGAATTACTGTTTTACCCTTGATT
1 TACCCTCGATTTACAAAATTACCGAAATACCCTCGATTTATAAAATTACTGTTTTACCCTCGATT
**
56295983 TACAGAATTACTATTT
66 TACAGAATTACCGTTT
** * * *
56295999 TACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTGTAAAATTAC
1 TACCCTCGATTTACAAAATTACCGAAATACCCTCGATTTATAAAATTAC
56296048 CAAAATACCC
Statistics
Matches: 162, Mismatches: 45, Indels: 8
0.75 0.21 0.04
Matches are distributed among these distances:
80 1 0.01
81 160 0.99
82 1 0.01
ACGTcount: A:0.31, C:0.22, G:0.09, T:0.38
Consensus pattern (81 bp):
TACCCTCGATTTACAAAATTACCGAAATACCCTCGATTTATAAAATTACTGTTTTACCCTCGATT
TACAGAATTACCGTTT
Found at i:56296046 original size:54 final size:54
Alignment explanation
Indices: 56295918--56296154 Score: 163
Period size: 54 Copynumber: 4.4 Consensus size: 54
56295908 ATTACCGTTT
* * * ****
56295918 TACCCTTGATTTATAGAATTACCGTTTTACCCTCGATTTATAGAATTACTGTTT
1 TACCCTTGATTTATAAAATTACCATTTTACCCTCGATTTATAAAATTACTAAAA
* * * *
56295972 TACCCTTGATTTACAGAATTACTATTTTACCCTCGATTTACAAAATTACTAAAA
1 TACCCTTGATTTATAAAATTACCATTTTACCCTCGATTTATAAAATTACTAAAA
* * *** * * *
56296026 TACCCTTGGTTTGTAAAATTACCAAAATACCCTAG-TTTGTAAAATTACCAAAA
1 TACCCTTGATTTATAAAATTACCATTTTACCCTCGATTTATAAAATTACTAAAA
* * * * * ** * * *
56296079 TACCATTGGTTTGTGAAATTATCGA-AATACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTTGATTTATAAAATTA-CCATTTTACCCTCGATTTATAAAATTACTAAAA
* * *
56296133 TACCCCTGATTTACAAAGTTAC
1 TACCCTTGATTTATAAAATTAC
56296155 AGAAATACCC
Statistics
Matches: 148, Mismatches: 33, Indels: 5
0.80 0.18 0.03
Matches are distributed among these distances:
53 43 0.29
54 105 0.71
ACGTcount: A:0.35, C:0.19, G:0.09, T:0.36
Consensus pattern (54 bp):
TACCCTTGATTTATAAAATTACCATTTTACCCTCGATTTATAAAATTACTAAAA
Found at i:56296088 original size:53 final size:54
Alignment explanation
Indices: 56295999--56296136 Score: 188
Period size: 53 Copynumber: 2.6 Consensus size: 54
56295989 ATTACTATTT
* ** * *
56295999 TACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTGTAAAATTACCAAAA
1 TACCCTCAATTTGTAAAATTACCAAAATACCATTGGTTTGTAAAATTACCAAAA
* * * *
56296053 TACCCT-AGTTTGTAAAATTACCAAAATACCATTGGTTTGTGAAATTATCGAAA
1 TACCCTCAATTTGTAAAATTACCAAAATACCATTGGTTTGTAAAATTACCAAAA
56296106 TACCCTCAATTTGTAAAATTACCAAAATACC
1 TACCCTCAATTTGTAAAATTACCAAAATACC
56296137 CCTGATTTAC
Statistics
Matches: 73, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
53 44 0.60
54 29 0.40
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.32
Consensus pattern (54 bp):
TACCCTCAATTTGTAAAATTACCAAAATACCATTGGTTTGTAAAATTACCAAAA
Found at i:56296160 original size:54 final size:54
Alignment explanation
Indices: 56295999--56296250 Score: 174
Period size: 54 Copynumber: 4.6 Consensus size: 54
56295989 ATTACTATTT
* ** *
56295999 TACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTGTA-AAATTACCA-AAA
1 TACCCTCAATTTGTAAAATTACCAAAATACCCTTGG-TT-TACAAATTACCAGAAA
* * ** *
56296053 TACCCT-AGTTTGTAAAATTACCAAAATACCATTGGTTTGTGAAATTATC-GAAA
1 TACCCTCAATTTGTAAAATTACCAAAATACCCTTGGTTT-ACAAATTACCAGAAA
* *
56296106 TACCCTCAATTTGTAAAATTACCAAAATACCCCTGATTTACAAAGTTA-CAGAAA
1 TACCCTCAATTTGTAAAATTACCAAAATACCCTTGGTTTACAAA-TTACCAGAAA
* * * ** * *
56296160 TACCCTTGACTTTCTAAAAATTATAAAAATACCATTGGTTTACAAAATTA-CTGAAA
1 TACCC-TCAATTTGT-AAAATTACCAAAATACCCTTGGTTTAC-AAATTACCAGAAA
* *** * * *
56296216 TACGCTTGGTTTGTAGATTTACCAAAACACCCTTG
1 TACCCTCAATTTGTAAAATTACCAAAATACCCTTG
56296251 TAGGATGAAA
Statistics
Matches: 155, Mismatches: 34, Indels: 18
0.75 0.16 0.09
Matches are distributed among these distances:
51 1 0.01
52 2 0.01
53 43 0.28
54 61 0.39
55 11 0.07
56 34 0.22
57 3 0.02
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.32
Consensus pattern (54 bp):
TACCCTCAATTTGTAAAATTACCAAAATACCCTTGGTTTACAAATTACCAGAAA
Found at i:56298625 original size:29 final size:29
Alignment explanation
Indices: 56298591--56298722 Score: 137
Period size: 29 Copynumber: 4.6 Consensus size: 29
56298581 TAATCGATCA
*
56298591 CGCACACTTAGTGCCAT-GTGATTT-AAGCT
1 CGCACACTTAGTGCCATACT--TTTCAAGCT
* * **
56298620 CGCACACATAGTGCCGTATA-ATTT-AAATT
1 CGCACACTTAGTGCC--ATACTTTTCAAGCT
56298649 CGCACACTTAGTGCCATACTTTTCAAGCT
1 CGCACACTTAGTGCCATACTTTTCAAGCT
*
56298678 TGCACACTTAGTGCCATACTTTTCAAGCT
1 CGCACACTTAGTGCCATACTTTTCAAGCT
*
56298707 TGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
56298723 ATCTTGTCAC
Statistics
Matches: 89, Mismatches: 9, Indels: 10
0.82 0.08 0.09
Matches are distributed among these distances:
27 3 0.03
28 3 0.03
29 81 0.91
31 2 0.02
ACGTcount: A:0.27, C:0.27, G:0.16, T:0.31
Consensus pattern (29 bp):
CGCACACTTAGTGCCATACTTTTCAAGCT
Found at i:56306572 original size:29 final size:28
Alignment explanation
Indices: 56306538--56306640 Score: 109
Period size: 29 Copynumber: 3.6 Consensus size: 28
56306528 TAATCGATCA
*
56306538 CGCACACTTAGTGCCATGTGATTTAAGCT
1 CGCACACTTAGTGCCATAT-ATTTAAGCT
* * **
56306567 CGCACACATAGTGCCGTATAATTTAAATT
1 CGCACACTTAGTGCCATAT-ATTTAAGCT
56306596 CGCACACTTAGTGCCATACT-TTTCAAGCT
1 CGCACACTTAGTGCCATA-TATTT-AAGCT
*
56306625 TGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
56306641 ATCTTGTCAC
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
28 3 0.05
29 57 0.93
30 1 0.02
ACGTcount: A:0.27, C:0.26, G:0.17, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCCATATATTTAAGCT
Found at i:56308247 original size:26 final size:26
Alignment explanation
Indices: 56308218--56308367 Score: 214
Period size: 26 Copynumber: 5.8 Consensus size: 26
56308208 GAGGATGTGC
56308218 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
* **
56308244 AAAAGGGCTTATGCCCCAATTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
*
56308270 AAAAAGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
*
56308296 AAAAGGGCTTATGCCCCAGGTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
*
56308322 AAAAGGGCTTATGCCTCAAG-TTACCG
1 AAAAGGGCTTATGCC-CCAGTTTACCG
*
56308348 AAAAGGGCTT-TGACCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
56308368 ATTAAAGAGG
Statistics
Matches: 110, Mismatches: 12, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
24 3 0.03
25 4 0.04
26 100 0.91
27 3 0.03
ACGTcount: A:0.29, C:0.24, G:0.23, T:0.24
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACCG
Found at i:56308569 original size:41 final size:42
Alignment explanation
Indices: 56308512--56308602 Score: 148
Period size: 42 Copynumber: 2.2 Consensus size: 42
56308502 TAGTCTCCCC
** *
56308512 AAATGGGCTTGCATACAT-CATTGGTATTTCATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
56308553 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
56308595 AAATGGGC
1 AAATGGGC
56308603 CTATGGGCCA
Statistics
Matches: 46, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
41 18 0.39
42 28 0.61
ACGTcount: A:0.30, C:0.14, G:0.22, T:0.34
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
Found at i:56308661 original size:31 final size:31
Alignment explanation
Indices: 56308626--56308733 Score: 143
Period size: 31 Copynumber: 3.5 Consensus size: 31
56308616 CGTTTACAGT
56308626 AAAGGCTTCGGCCCAGTGAAATGATTTATGA
1 AAAGGCTTCGGCCCAGTGAAATGATTTATGA
* *
56308657 AAAGGCTTTGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGAAATGATTTATGA
*
56308688 AAAGGCTTCGGCCCAGT--AATCG-TTAAATG-
1 AAAGGCTTCGGCCCAGTGAAAT-GATT-TATGA
56308717 AAAGGCTTCGGCCCAGT
1 AAAGGCTTCGGCCCAGT
56308734 ATATGTCAAG
Statistics
Matches: 70, Mismatches: 5, Indels: 6
0.86 0.06 0.07
Matches are distributed among these distances:
29 21 0.30
30 4 0.06
31 45 0.64
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.26
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGAAATGATTTATGA
Found at i:56310753 original size:39 final size:39
Alignment explanation
Indices: 56310694--56310809 Score: 196
Period size: 39 Copynumber: 3.0 Consensus size: 39
56310684 TTCAGTGATG
*
56310694 TATATCCGGACTTAGCGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
56310733 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
* * *
56310772 TATATCCGGACTTAAGGTCTGCAGGCTACGTGCTGGAA
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAA
56310810 ATATGTCCAG
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 73 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (39 bp):
TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
Found at i:56314697 original size:93 final size:93
Alignment explanation
Indices: 56314538--56314708 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
56314528 GGATGGTTGA
* * * *
56314538 GCATCCGAACTCGTTCAGTTGAGTCCGAGTTCACCTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTCAGTTGAGTCCAAGTTCACCTATGGATGCGAACGCCCGAACTCATTGAGT
*
56314603 TGAGTCTGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
56314631 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCCCGAGCTCATTGAGT
1 GCATCCGAACTCGTTCAGTTGAGTCCAAGTTCACCTATGGATGCGAACGCCCGAACTCATTGAGT
56314696 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
56314709 ACTTAGGGGC
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.22, C:0.22, G:0.27, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTCAGTTGAGTCCAAGTTCACCTATGGATGCGAACGCCCGAACTCATTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:56314711 original size:46 final size:46
Alignment explanation
Indices: 56314542--56314713 Score: 172
Period size: 46 Copynumber: 3.7 Consensus size: 46
56314532 GGTTGAGCAT
* * * *
56314542 CCGAACTCGTTCAGTTGAGTCCGAGTTCACCTATGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* * * *
56314588 CCGAACTCGTTGAGTTGAGTCTGAGTTC-GTGA--GATG-TAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---GC
*
56314633 ATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* *
56314681 CCGAGCTCATTGAGTTGAGTCCGAGTTCACTTA
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
56314714 GGGGCGGGTT
Statistics
Matches: 101, Mismatches: 16, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 2 0.02
46 56 0.55
47 26 0.26
48 4 0.04
50 4 0.04
51 3 0.03
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.28
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:56322007 original size:40 final size:40
Alignment explanation
Indices: 56321962--56322128 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
56321952 CGGAATATAA
56321962 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
56322002 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
56322042 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
56322082 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
56322121 CCGGATAT
1 CCGGATAT
56322129 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:56322112 original size:80 final size:79
Alignment explanation
Indices: 56321962--56322128 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
56321952 CGGAATATAA
* *
56321962 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATG
1 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
56322027 CCTTCGGGCCTTAGC
66 CCTTCGGG-CTTAGC
* * ** *
56322042 CCGGATATAACCAC-TAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA
*
56322104 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
56322121 CCGGATAT
1 CCGGATAT
56322129 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 18 0.24
80 58 0.76
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (79 bp):
CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:56322976 original size:17 final size:19
Alignment explanation
Indices: 56322953--56322998 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
56322943 AAGAAGCATG
56322953 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
56322971 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
56322989 AATCATGCTC
1 AATCATGCTC
56322999 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:56333467 original size:29 final size:29
Alignment explanation
Indices: 56333433--56333564 Score: 137
Period size: 29 Copynumber: 4.6 Consensus size: 29
56333423 TAATCGATCA
*
56333433 CGCACACTTAGTGCCAT-GTGATTT-AAGCT
1 CGCACACTTAGTGCCATACT--TTTCAAGCT
* * **
56333462 CGCACACATAGTGCCGTATA-ATTT-AAATT
1 CGCACACTTAGTGCC--ATACTTTTCAAGCT
56333491 CGCACACTTAGTGCCATACTTTTCAAGCT
1 CGCACACTTAGTGCCATACTTTTCAAGCT
*
56333520 TGCACACTTAGTGCCATACTTTTCAAGCT
1 CGCACACTTAGTGCCATACTTTTCAAGCT
*
56333549 TGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
56333565 ATCTTGTCAC
Statistics
Matches: 89, Mismatches: 9, Indels: 10
0.82 0.08 0.09
Matches are distributed among these distances:
27 3 0.03
28 3 0.03
29 81 0.91
31 2 0.02
ACGTcount: A:0.27, C:0.27, G:0.16, T:0.31
Consensus pattern (29 bp):
CGCACACTTAGTGCCATACTTTTCAAGCT
Found at i:56345101 original size:49 final size:49
Alignment explanation
Indices: 56344945--56345206 Score: 250
Period size: 49 Copynumber: 5.4 Consensus size: 49
56344935 GGTGGTATGT
* * * * *
56344945 GAGCCAGTGTAAAACATGTCTGGGACAT-GCATCGGCATTG--AGACGA
1 GAGCCAGTGTAAGACCTGTCTGGGACATGGCATCGACATCGATAGATGA
* * * * * * *
56344991 AAGCTAGTGTAAGACATGTCTGGGACAT-GCATCGGCCTCGGGATATA-CA
1 GAGCCAGTGTAAGACCTGTCTGGGACATGGCATCGACATC--GATAGATGA
* *
56345040 -AGCTAATGTAAGACCTGTCTGGGACATGGCATCGACATCGATAGATGA
1 GAGCCAGTGTAAGACCTGTCTGGGACATGGCATCGACATCGATAGATGA
* *
56345088 GAGCCAGTGTAAGACCTGTTTGGGACATGGCATCGACATCAATAGATGA
1 GAGCCAGTGTAAGACCTGTCTGGGACATGGCATCGACATCGATAGATGA
* * *
56345137 GAGCCAGTGTAAGACCTATCTGGGACATGGCATCGGCCA-CGATATATGA
1 GAGCCAGTGTAAGACCTGTCTGGGACATGGCATC-GACATCGATAGATGA
* * *
56345186 AAGTCAGTGCAAGACCTGTCT
1 GAGCCAGTGTAAGACCTGTCT
56345207 ACGACACGAC
Statistics
Matches: 182, Mismatches: 26, Indels: 13
0.82 0.12 0.06
Matches are distributed among these distances:
46 34 0.19
47 5 0.03
48 27 0.15
49 111 0.61
50 5 0.03
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.22
Consensus pattern (49 bp):
GAGCCAGTGTAAGACCTGTCTGGGACATGGCATCGACATCGATAGATGA
Found at i:56345220 original size:147 final size:143
Alignment explanation
Indices: 56344945--56345262 Score: 313
Period size: 147 Copynumber: 2.2 Consensus size: 143
56344935 GGTGGTATGT
* * *
56344945 GAGCCAGTGTAAAACATGTCTGGGACATGCATCGGCATTGAGACGAAAGCTAGTGTAAGACATGT
1 GAGCCAGTGTAAAACATGTCTGGGACATGCATCGACATTGAGACGAAAGCCAGTGTAAGACATAT
* * * ** * *
56345010 CTGGGACATGCATCGGCCTCGGGATATACAAGCTAATGTAAGACCTGTCTGGGACATGGCATCGA
66 CTGGGACATGCATCGGCCACGAGATATACAAGCTAATGCAAGACCTGTCTACGACACGACATCGA
56345075 CATCGATAGATGA
131 CATCGATAGATGA
* * * * *
56345088 GAGCCAGTGTAAGACCTGTTTGGGACATGGCATCGACATCAAT-AGATGAGAGCCAGTGTAAGAC
1 GAGCCAGTGTAAAACATGTCTGGGACAT-GCATCGACAT---TGAGACGAAAGCCAGTGTAAGAC
* * *
56345152 CTATCTGGGACATGGCATCGGCCACGATATATGA-AAG-TCAGTGCAAGACCTGTCTACGACACG
62 ATATCTGGGACAT-GCATCGGCCACGAGATAT-ACAAGCT-AATGCAAGACCTGTCTACGACACG
* ** *
56345215 ACATCGACTTTAAT-G-TGC
124 ACATCGACATCGATAGATGA
* *
56345233 TAGCCAGTGTAAAACCATGTCTAGGACATG
1 GAGCCAGTGTAAAA-CATGTCTGGGACATG
56345263 GCGTCGATAT
Statistics
Matches: 140, Mismatches: 27, Indels: 14
0.77 0.15 0.08
Matches are distributed among these distances:
143 25 0.18
144 9 0.06
145 15 0.11
146 42 0.30
147 48 0.34
148 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.27, T:0.22
Consensus pattern (143 bp):
GAGCCAGTGTAAAACATGTCTGGGACATGCATCGACATTGAGACGAAAGCCAGTGTAAGACATAT
CTGGGACATGCATCGGCCACGAGATATACAAGCTAATGCAAGACCTGTCTACGACACGACATCGA
CATCGATAGATGA
Found at i:56347668 original size:20 final size:20
Alignment explanation
Indices: 56347643--56347695 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
56347633 AACAGGGGTC
*
56347643 ACACGCCTGTGTGGCTTGGG
1 ACACGCCCGTGTGGCTTGGG
56347663 ACACGCCCGTGTGGCTTGGG
1 ACACGCCCGTGTGGCTTGGG
* *
56347683 ACATGCCGGTGTG
1 ACACGCCCGTGTG
56347696 AGCAGGCCGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.11, C:0.26, G:0.40, T:0.23
Consensus pattern (20 bp):
ACACGCCCGTGTGGCTTGGG
Found at i:56349013 original size:42 final size:43
Alignment explanation
Indices: 56348935--56349015 Score: 137
Period size: 42 Copynumber: 1.9 Consensus size: 43
56348925 TACATGGGAA
*
56348935 CTCATATTGATGCCAATAGCCCAGCTATGGTCTTACACGAAGT
1 CTCATATTGATGCCAATAGCCCAGATATGGTCTTACACGAAGT
*
56348978 CTCATATTGATGCC-ATATCCCAGATATGGTCTTACACG
1 CTCATATTGATGCCAATAGCCCAGATATGGTCTTACACG
56349016 TAACCTCAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
42 22 0.61
43 14 0.39
ACGTcount: A:0.27, C:0.26, G:0.17, T:0.30
Consensus pattern (43 bp):
CTCATATTGATGCCAATAGCCCAGATATGGTCTTACACGAAGT
Found at i:56350561 original size:22 final size:21
Alignment explanation
Indices: 56350530--56350570 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
56350520 GAACATATAG
* *
56350530 CCACTAATGTTGCGACAACCA
1 CCACTAATGTCGCAACAACCA
56350551 CCACTCAATGTCGCAACAAC
1 CCACT-AATGTCGCAACAAC
56350571 AAACTTCAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 5 0.29
22 12 0.71
ACGTcount: A:0.34, C:0.37, G:0.12, T:0.17
Consensus pattern (21 bp):
CCACTAATGTCGCAACAACCA
Found at i:56352364 original size:14 final size:14
Alignment explanation
Indices: 56352329--56352365 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
56352319 CTTTTTCGGA
56352329 CCCCCCCCC--CCC
1 CCCCCCCCCAACCC
56352341 CCCCCCCCCAACCC
1 CCCCCCCCCAACCC
*
56352355 GCCCCCCCCAA
1 CCCCCCCCCAA
56352366 AAAAAAGGGG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 9 0.41
14 13 0.59
ACGTcount: A:0.11, C:0.86, G:0.03, T:0.00
Consensus pattern (14 bp):
CCCCCCCCCAACCC
Found at i:56354698 original size:20 final size:20
Alignment explanation
Indices: 56354652--56354712 Score: 65
Period size: 20 Copynumber: 3.1 Consensus size: 20
56354642 TTGAATATTT
*
56354652 AAAA-TATTAAAATTGAT-AT
1 AAAATTATTAAAATT-ATAAA
*
56354671 AAACTTATTAAAATTATAAA
1 AAAATTATTAAAATTATAAA
56354691 AAAATTA-TAAATATTATAAA
1 AAAATTATTAAA-ATTATAAA
56354711 AA
1 AA
56354713 CATAAAAATA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
19 9 0.25
20 27 0.75
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (20 bp):
AAAATTATTAAAATTATAAA
Found at i:56354857 original size:10 final size:9
Alignment explanation
Indices: 56354597--56354857 Score: 70
Period size: 9 Copynumber: 27.6 Consensus size: 9
56354587 TTTTTTCATA
56354597 AAAATATTA-
1 AAAA-ATTAT
*
56354606 AAAAATCAT
1 AAAAATTAT
*
56354615 AACAATTAT
1 AAAAATTAT
*
56354624 AACAATATAT
1 AAAAAT-TAT
56354634 AATAAA-TATT
1 AA-AAATTA-T
* *
56354644 GAATATT-T
1 AAAAATTAT
56354652 -AAAA-TAT
1 AAAAATTAT
*
56354659 TAAAATTGAT
1 AAAAATT-AT
*
56354669 ATAAACTTAT
1 A-AAAATTAT
*
56354679 TAAAATTAT
1 AAAAATTAT
56354688 AAAAAAATTAT
1 --AAAAATTAT
*
56354699 AAATATTAT
1 AAAAATTAT
*
56354708 AAAAA-CAT
1 AAAAATTAT
*
56354716 AAAAATATCT
1 AAAAAT-TAT
56354726 AAGAAATTAT
1 AA-AAATTAT
56354736 AAAAATT-T
1 AAAAATTAT
56354744 ATAAAATTAAT
1 A-AAAATT-AT
* *
56354755 AACATTTATT
1 AAAAATTA-T
* *
56354765 TAAATTTAT
1 AAAAATTAT
56354774 AAAAATACATAT
1 AAAAAT---TAT
* ** *
56354786 GAGAGTTTTT
1 -AAAAATTAT
* *
56354796 GAAAATAAT
1 AAAAATTAT
56354805 AAAATATTAT
1 AAAA-ATTAT
56354815 AAAAA-TAT
1 AAAAATTAT
*
56354823 TAAAATTGAT
1 AAAAATT-AT
*
56354833 ATAAACTTAT
1 A-AAAATTAT
56354843 AAAAATTATT
1 AAAAATTA-T
56354853 AAAAA
1 AAAAA
56354858 CAATCATAAA
Statistics
Matches: 184, Mismatches: 40, Indels: 55
0.66 0.14 0.20
Matches are distributed among these distances:
6 1 0.01
7 4 0.02
8 24 0.13
9 72 0.39
10 51 0.28
11 26 0.14
12 3 0.02
13 3 0.02
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.35
Consensus pattern (9 bp):
AAAAATTAT
Found at i:56355383 original size:20 final size:21
Alignment explanation
Indices: 56355346--56355384 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
56355336 CTAATACTTT
* *
56355346 TATGATTTTTATAGAATTTAA
1 TATGATTTTTACAAAATTTAA
56355367 TATG-TTTTTACAAAATTT
1 TATGATTTTTACAAAATTT
56355385 TAAATATTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.36, C:0.03, G:0.08, T:0.54
Consensus pattern (21 bp):
TATGATTTTTACAAAATTTAA
Found at i:56355455 original size:20 final size:19
Alignment explanation
Indices: 56355406--56355462 Score: 69
Period size: 20 Copynumber: 2.8 Consensus size: 19
56355396 CATATGTTCT
56355406 ATATTTTTATAATTTATTAGA
1 ATATTTTTATAA--TATTAGA
* *
56355427 ATTTTTTTATAATATCTATA
1 ATATTTTTATAATAT-TAGA
56355447 ATATTTTTATAATATT
1 ATATTTTTATAATATT
56355463 TTATAGGTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
19 4 0.12
20 17 0.53
21 11 0.34
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.60
Consensus pattern (19 bp):
ATATTTTTATAATATTAGA
Found at i:56355459 original size:11 final size:11
Alignment explanation
Indices: 56355406--56355464 Score: 61
Period size: 11 Copynumber: 5.6 Consensus size: 11
56355396 CATATGTTCT
56355406 ATATTTTTATA
1 ATATTTTTATA
* *
56355417 AT-TTATTAGA
1 ATATTTTTATA
*
56355427 ATTTTTTTATA
1 ATATTTTTATA
*
56355438 ATA--TCTATA
1 ATATTTTTATA
56355447 ATATTTTTATA
1 ATATTTTTATA
56355458 ATATTTT
1 ATATTTT
56355465 ATAGGTTTAT
Statistics
Matches: 38, Mismatches: 7, Indels: 6
0.75 0.14 0.12
Matches are distributed among these distances:
9 8 0.21
10 8 0.21
11 22 0.58
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.61
Consensus pattern (11 bp):
ATATTTTTATA
Found at i:56356806 original size:48 final size:48
Alignment explanation
Indices: 56356736--56356962 Score: 323
Period size: 48 Copynumber: 4.7 Consensus size: 48
56356726 CTGTGCTAAA
* * ** *
56356736 TGTGCCTGTGTGAGACTATGTCTGGGACATGGCATCGTTGATGATATA
1 TGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATG
56356784 TGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATG
1 TGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATG
*
56356832 TGTG-CTAGTGTAAGACCATGTCTGGGACATGGCATCAGCGATGATATG
1 TGTGCCT-GTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATG
*
56356880 TGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATG
1 TGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATG
** * *
56356928 TG-GATTCATGTAAGACCATGTCGGGGACATGGCAT
1 TGTGCCT-GTGTAAGACCATGTCTGGGACATGGCAT
56356963 TGGTACTTTA
Statistics
Matches: 163, Mismatches: 13, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
47 3 0.02
48 159 0.98
49 1 0.01
ACGTcount: A:0.23, C:0.17, G:0.32, T:0.28
Consensus pattern (48 bp):
TGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATG
Found at i:56369082 original size:55 final size:54
Alignment explanation
Indices: 56368952--56369357 Score: 431
Period size: 55 Copynumber: 7.5 Consensus size: 54
56368942 AACTTACCAT
* * *** *
56368952 TGCCATGTCTTGACATGGTCTTACGTGGTTTCCTTGCCTTAT-GAACTCACCAA
1 TGCCATGCCTTGACATGGTCTTACATGGGACCCTTGCCTTATAGAACTCATCAA
* * * * *
56369005 TGCCATGCCCTGGCATGGTCTTACATGGGAACTTTGCCTTATAGTAGCTCATCAA
1 TGCCATGCCTTGACATGGTCTTACATGGGACCCTTGCCTTATAG-AACTCATCAA
* * ***** *
56369060 TGCCATGTCTTGACATGTTCTTACATGATTTTCTTGCCTTATAGAACTTATCAA
1 TGCCATGCCTTGACATGGTCTTACATGGGACCCTTGCCTTATAGAACTCATCAA
* * * * *
56369114 TGTCATGCCTTGGCATGGTATTACAT--GATTCCTTGCCTTATAGAACTTATCAA
1 TGCCATGCCTTGACATGGTCTTACATGGGA-CCCTTGCCTTATAGAACTCATCAA
* *
56369167 TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGTAACTCATCAA
1 TGCCATGCCTTGACATGGTCTTACATGGGACCCTTGCCTTATAG-AACTCATCAA
* ***
56369222 TGCCATGTCTTGACATGGTCTTACATGATTCCCTTGCCTTATAGTAACTCATCAA
1 TGCCATGCCTTGACATGGTCTTACATGGGACCCTTGCCTTATAG-AACTCATCAA
* *** *
56369277 TGCCATGTCTTGACATGGTCTTACATGATTCCCTTGCCTTATAGAACTTATCAA
1 TGCCATGCCTTGACATGGTCTTACATGGGACCCTTGCCTTATAGAACTCATCAA
*
56369331 TGCCATGCCTTGGCATGGTCTTACATG
1 TGCCATGCCTTGACATGGTCTTACATG
56369358 ATATCCTTAT
Statistics
Matches: 303, Mismatches: 44, Indels: 11
0.85 0.12 0.03
Matches are distributed among these distances:
53 81 0.27
54 76 0.25
55 146 0.48
ACGTcount: A:0.22, C:0.24, G:0.18, T:0.36
Consensus pattern (54 bp):
TGCCATGCCTTGACATGGTCTTACATGGGACCCTTGCCTTATAGAACTCATCAA
Found at i:56369177 original size:25 final size:25
Alignment explanation
Indices: 56369094--56369177 Score: 64
Period size: 25 Copynumber: 3.2 Consensus size: 25
56369084 ATGATTTTCT
*
56369094 TGCCTTATAGAACTTATCAATGTCA
1 TGCCTTATAGAACTTATCAATGCCA
* * * *
56369119 TGCCTTGGCATGGTA-TTA-CATGATTCCT
1 TGCCTT---ATAGAACTTATCA--ATGCCA
56369147 TGCCTTATAGAACTTATCAATGCCA
1 TGCCTTATAGAACTTATCAATGCCA
56369172 TGCCTT
1 TGCCTT
56369178 GGCATGGTCT
Statistics
Matches: 43, Mismatches: 9, Indels: 14
0.65 0.14 0.21
Matches are distributed among these distances:
25 20 0.47
26 5 0.12
27 5 0.12
28 13 0.30
ACGTcount: A:0.25, C:0.23, G:0.15, T:0.37
Consensus pattern (25 bp):
TGCCTTATAGAACTTATCAATGCCA
Found at i:56369208 original size:162 final size:163
Alignment explanation
Indices: 56368952--56369357 Score: 627
Period size: 162 Copynumber: 2.5 Consensus size: 163
56368942 AACTTACCAT
* * * * * * *
56368952 TGCCATGTCTTGACATGGTCTTACGTGGTTTCCTTGCCTTAT-GAACTCACCAATGCCATGCCCT
1 TGCCATGCCTTGACATGGTATTACAT-GATTCCTTGCCTTATAGAACTTATCAATGCCATGCCTT
* *
56369016 GGCATGGTCTTACATGGGAACTTTGCCTTATAGTAGCTCATCAATGCCATGTCTTGACATGTTCT
65 GGCATGGTCTTACATGGGAACTTTGCCTTATAGTAACTCATCAATGCCATGTCTTGACATGGTCT
** *
56369081 TACATGATTTTCTTGCCTTATAG-AACTTATCAA
130 TACATGATTCCCTTGCCTTATAGTAACTCATCAA
* *
56369114 TGTCATGCCTTGGCATGGTATTACATGATTCCTTGCCTTATAGAACTTATCAATGCCATGCCTTG
1 TGCCATGCCTTGACATGGTATTACATGATTCCTTGCCTTATAGAACTTATCAATGCCATGCCTTG
*
56369179 GCATGGTCTTACATGGGACCTTTGCCTTATAGTAACTCATCAATGCCATGTCTTGACATGGTCTT
66 GCATGGTCTTACATGGGAACTTTGCCTTATAGTAACTCATCAATGCCATGTCTTGACATGGTCTT
56369244 ACATGATTCCCTTGCCTTATAGTAACTCATCAA
131 ACATGATTCCCTTGCCTTATAGTAACTCATCAA
* *
56369277 TGCCATGTCTTGACATGGTCTTACATGATTCCCTTGCCTTATAGAACTTATCAATGCCATGCCTT
1 TGCCATGCCTTGACATGGTATTACATGATT-CCTTGCCTTATAGAACTTATCAATGCCATGCCTT
56369342 GGCATGGTCTTACATG
65 GGCATGGTCTTACATG
56369358 ATATCCTTAT
Statistics
Matches: 222, Mismatches: 19, Indels: 4
0.91 0.08 0.02
Matches are distributed among these distances:
161 14 0.06
162 123 0.55
163 35 0.16
164 50 0.23
ACGTcount: A:0.22, C:0.24, G:0.18, T:0.36
Consensus pattern (163 bp):
TGCCATGCCTTGACATGGTATTACATGATTCCTTGCCTTATAGAACTTATCAATGCCATGCCTTG
GCATGGTCTTACATGGGAACTTTGCCTTATAGTAACTCATCAATGCCATGTCTTGACATGGTCTT
ACATGATTCCCTTGCCTTATAGTAACTCATCAA
Found at i:56369315 original size:217 final size:216
Alignment explanation
Indices: 56368941--56369365 Score: 611
Period size: 217 Copynumber: 2.0 Consensus size: 216
56368931 TTTCCTTTTT
* * * **
56368941 GAACTTACCATTGCCATGTCTTGACATGGTCTTACGTGGTTTCCTTGCCTTATGAACTCACCAAT
1 GAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTGACCTTGCCTTATGAACTCACCAAT
* * * *
56369006 GCCATGCCCTGGCATGGTCTTACATGGGAACTTTGCCTTATAGTAGCTCATCAATGCCATGTCTT
66 GCCATGCCCTGACATGGTCTTACATGAGAACCTTGCCTTATAGTAACTCATCAATGCCATGTCTT
* ** *
56369071 GACATGTTCTTACATGATTTTCTTGCCTTATAGAACTTATCAATGTCATGCCTTGGCATGGTATT
131 GACATGGTCTTACATGATTCCCTTGCCTTATAGAACTTATCAATGCCATGCCTTGGCATGGTATT
56369136 ACATGAT-TCCTTGCCTTATA
196 ACATGATATCCTTGCCTTATA
* * *
56369156 GAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGG-GACCTTTGCCTTATAGTAACTCATC
1 GAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTGACC-TTGCCTTAT-G-AACTCACC
* * ***
56369220 AATGCCATGTCTTGACATGGTCTTACATGATTCCCTTGCCTTATAGTAACTCATCAATGCCATGT
63 AATGCCATGCCCTGACATGGTCTTACATGAGAACCTTGCCTTATAGTAACTCATCAATGCCATGT
56369285 CTTGACATGGTCTTACATGATTCCCTTGCCTTATAGAACTTATCAATGCCATGCCTTGGCATGGT
128 CTTGACATGGTCTTACATGATTCCCTTGCCTTATAGAACTTATCAATGCCATGCCTTGGCATGGT
*
56369350 CTTACATGATATCCTT
193 ATTACATGATATCCTT
56369366 ATCTTACCAA
Statistics
Matches: 184, Mismatches: 22, Indels: 5
0.87 0.10 0.02
Matches are distributed among these distances:
214 2 0.01
215 43 0.23
216 1 0.01
217 133 0.72
218 5 0.03
ACGTcount: A:0.23, C:0.24, G:0.17, T:0.36
Consensus pattern (216 bp):
GAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTGACCTTGCCTTATGAACTCACCAAT
GCCATGCCCTGACATGGTCTTACATGAGAACCTTGCCTTATAGTAACTCATCAATGCCATGTCTT
GACATGGTCTTACATGATTCCCTTGCCTTATAGAACTTATCAATGCCATGCCTTGGCATGGTATT
ACATGATATCCTTGCCTTATA
Found at i:56369399 original size:47 final size:47
Alignment explanation
Indices: 56369344--56369465 Score: 174
Period size: 47 Copynumber: 2.6 Consensus size: 47
56369334 CATGCCTTGG
* *
56369344 CATGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
* * *
56369391 CATGGTCTTTCAAGGGATCCTTGT-TGTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCT-TACCAAATGCCATGTTCCAAA
*
56369438 CATGGTCGTACATGGTATCCTTGTCTTA
1 CATGGTCTTACATGGTATCCTTGTCTTA
56369466 GTGCCAATGC
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
46 1 0.02
47 62 0.97
48 1 0.02
ACGTcount: A:0.25, C:0.24, G:0.16, T:0.34
Consensus pattern (47 bp):
CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
Found at i:56369624 original size:44 final size:44
Alignment explanation
Indices: 56369559--56369643 Score: 109
Period size: 44 Copynumber: 1.9 Consensus size: 44
56369549 ATCCTTAACC
* *
56369559 GTCAATTCCTCCTTAAATGCCATGTTATGAA-CATGGACTTTTCT
1 GTCAATTCCTCCTTAAATGCCATGGTA-CAACCATGGACTTTTCT
* * *
56369603 GTCAGTTCTTCCTTAATTGCCATGGTACAACCATGGACTTT
1 GTCAATTCCTCCTTAAATGCCATGGTACAACCATGGACTTT
56369644 GAGATATCAA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
43 2 0.06
44 33 0.94
ACGTcount: A:0.24, C:0.24, G:0.15, T:0.38
Consensus pattern (44 bp):
GTCAATTCCTCCTTAAATGCCATGGTACAACCATGGACTTTTCT
Found at i:56375842 original size:53 final size:54
Alignment explanation
Indices: 56375774--56375972 Score: 215
Period size: 53 Copynumber: 3.7 Consensus size: 54
56375764 TTTCCTTTTT
* * * *
56375774 GAACTTACCATTGCCATGTCTTGACATGGTCTTACGTGGTTTCCTTGCCTTAT-
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGGTTTCCTTGCCTTATA
* **
56375827 GAACTCACCAATGCCATGCCTTGGCATGGTCTTACATGG-GACCTTTGCCTTATA
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGGTTTCC-TTGCCTTATA
* * * *
56375881 GTAACTCATCAATGCCATGTCTTGACATGTTCTTACATGATTT-CTTGCCTTATA
1 G-AACTCACCAATGCCATGCCTTGACATGGTCTTACATGGTTTCCTTGCCTTATA
* * * * *
56375935 GAACTTATCAATGTCATGCCTTGGCATGGTATTACATG
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATG
56375973 ATATCCTTAT
Statistics
Matches: 122, Mismatches: 20, Indels: 8
0.81 0.13 0.05
Matches are distributed among these distances:
52 2 0.02
53 74 0.61
54 12 0.10
55 34 0.28
ACGTcount: A:0.22, C:0.24, G:0.18, T:0.36
Consensus pattern (54 bp):
GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGGTTTCCTTGCCTTATA
Found at i:56376067 original size:47 final size:47
Alignment explanation
Indices: 56375959--56376077 Score: 202
Period size: 47 Copynumber: 2.5 Consensus size: 47
56375949 CATGCCTTGG
* * *
56375959 CATGGTATTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
56376006 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
*
56376053 CATGGTCTTACATGGTGTCCTTGTC
1 CATGGTCTTACATGGTATCCTTGTC
56376078 GTAGTACCAA
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 68 1.00
ACGTcount: A:0.25, C:0.24, G:0.15, T:0.35
Consensus pattern (47 bp):
CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
Found at i:56380041 original size:9 final size:9
Alignment explanation
Indices: 56380027--56380052 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
56380017 TATTTTCCCT
56380027 TTTTAATTC
1 TTTTAATTC
56380036 TTTTAATTC
1 TTTTAATTC
56380045 TTTTAATT
1 TTTTAATT
56380053 ACTAAATGAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.23, C:0.08, G:0.00, T:0.69
Consensus pattern (9 bp):
TTTTAATTC
Found at i:56382231 original size:40 final size:40
Alignment explanation
Indices: 56382172--56382358 Score: 198
Period size: 40 Copynumber: 4.7 Consensus size: 40
56382162 CATTGGAATG
* * *
56382172 ATATCCGGGCTAAGTCCCGAAGGCAATTGTGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTATT
* *
56382212 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAGTTATT
* **
56382252 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTATT
* * * *
56382292 AAATCCGGGTTAAGACCCGAAGGCAATTGTGCGAA-TCACT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-AAGTTATT
* * * *
56382332 ATAACCGGGCTATGTCCCGAAGACAAT
1 ATATCCGGGCTAAGACCCGAAGGCAAT
56382359 CGAGCGAGTC
Statistics
Matches: 124, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
39 3 0.02
40 117 0.94
41 4 0.03
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTATT
Found at i:56382306 original size:80 final size:80
Alignment explanation
Indices: 56382172--56382325 Score: 220
Period size: 80 Copynumber: 1.9 Consensus size: 80
56382162 CATTGGAATG
* * ** *
56382172 ATATCCGGGCTAAGTCCCGAAGGCAATTGTGCTAGTAATTATATCCGGGCTAAGACCCGAAGGC-
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCA
56382236 ATTCGTGCGAGTTGTT
66 ATT-GTGCGAGTTGTT
* * *
56382252 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAATCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCA
56382317 ATTGTGCGA
66 ATTGTGCGA
56382326 ATCACTATAA
Statistics
Matches: 65, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
80 62 0.95
81 3 0.05
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.23
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCA
ATTGTGCGAGTTGTT
Found at i:56394778 original size:40 final size:40
Alignment explanation
Indices: 56394720--56394905 Score: 196
Period size: 40 Copynumber: 4.7 Consensus size: 40
56394710 ATTGGAATGT
* * *
56394720 TATCCGGGCTAAGTCCCGAAGGCAATTGTGCTAGTAATTA
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTATTA
* *
56394760 TATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTGTTA
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAGTTATTA
* **
56394800 TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCA
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTATTA
* * * *
56394840 AATCCGGGTTAAGACCCGAAGGCAATTGTGCGAA-TCACTA
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC-AAGTTATTA
* * * *
56394880 TAACCGGGCTATGTCCCGAAGACAAT
1 TATCCGGGCTAAGACCCGAAGGCAAT
56394906 CGAGCGAGTC
Statistics
Matches: 123, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
39 3 0.02
40 116 0.94
41 4 0.03
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTATTA
Found at i:56394853 original size:80 final size:80
Alignment explanation
Indices: 56394720--56394872 Score: 218
Period size: 80 Copynumber: 1.9 Consensus size: 80
56394710 ATTGGAATGT
* * ** *
56394720 TATCCGGGCTAAGTCCCGAAGGCAATTGTGCTAGTAATTATATCCGGGCTAAGACCCGAAGGC-A
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCAA
56394784 TTCGTGCGAGTTGTTA
66 TT-GTGCGAGTTGTTA
* * *
56394800 TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAATCCGGGTTAAGACCCGAAGGCAA
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCAA
56394865 TTGTGCGA
66 TTGTGCGA
56394873 ATCACTATAA
Statistics
Matches: 64, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
80 61 0.95
81 3 0.05
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (80 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCAA
TTGTGCGAGTTGTTA
Found at i:56397800 original size:44 final size:42
Alignment explanation
Indices: 56397658--56397806 Score: 131
Period size: 44 Copynumber: 3.5 Consensus size: 42
56397648 AATGACAACG
** *
56397658 TCCCAGACATGGTCTTACATGT-AATCAAATATCGATGCCACTA
1 TCCCAGACATGGTCTTACACATAAATC-AA-ATCGATGCCAATA
* * * * * * *
56397701 TCTCACACAGGGTCTTACACA-AAATCAAATACAATACCGATG
1 TCCCAGACATGGTCTTACACATAAATCAAAT-CGATGCCAATA
*
56397743 TCCCAGGCATGGTCTTACACATAAATCATAAGTCGATGCCAATA
1 TCCCAGACATGGTCTTACACATAAATCA-AA-TCGATGCCAATA
*
56397787 TCCCAGACCTGGTCTTACAC
1 TCCCAGACATGGTCTTACAC
56397807 GAAAACACAT
Statistics
Matches: 81, Mismatches: 20, Indels: 9
0.74 0.18 0.08
Matches are distributed among these distances:
41 2 0.02
42 25 0.31
43 26 0.32
44 27 0.33
45 1 0.01
ACGTcount: A:0.34, C:0.28, G:0.14, T:0.25
Consensus pattern (42 bp):
TCCCAGACATGGTCTTACACATAAATCAAATCGATGCCAATA
Found at i:56407602 original size:17 final size:17
Alignment explanation
Indices: 56407582--56407619 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
56407572 ACATACCAAA
56407582 AACTTACCAAATTGACT
1 AACTTACCAAATTGACT
56407599 AACTTACCAAATTGACT
1 AACTTACCAAATTGACT
56407616 AACT
1 AACT
56407620 CTCTTGGTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.42, C:0.24, G:0.05, T:0.29
Consensus pattern (17 bp):
AACTTACCAAATTGACT
Found at i:56411720 original size:33 final size:33
Alignment explanation
Indices: 56411678--56411744 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
56411668 TCCTAGGTGA
*
56411678 TAGGTCCATTGTATGGAGAAGTGTAAAGCAGAC
1 TAGGTCCATTGTATGGAGAAGTGTAAAGAAGAC
56411711 TAGGTCCATTGTATGGAGAAGTGTAAAGAAGAC
1 TAGGTCCATTGTATGGAGAAGTGTAAAGAAGAC
56411744 T
1 T
56411745 TGTACTACTG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.34, C:0.10, G:0.30, T:0.25
Consensus pattern (33 bp):
TAGGTCCATTGTATGGAGAAGTGTAAAGAAGAC
Found at i:56414219 original size:37 final size:37
Alignment explanation
Indices: 56414178--56414335 Score: 219
Period size: 37 Copynumber: 4.3 Consensus size: 37
56414168 AAAACACGTT
* * * *
56414178 AAATGCTCATAATAGCTAATCCAACTGAT-ACCTCACC
1 AAATGCTCATAAGAGCTAATCCAAC-CATAAACACACC
* * **
56414215 AAATGATCATAAGAGCTAATCCAATCATAAACATGCC
1 AAATGCTCATAAGAGCTAATCCAACCATAAACACACC
*
56414252 AAATGCTCATAAGAGCTAATCCAACCATAAACACGCC
1 AAATGCTCATAAGAGCTAATCCAACCATAAACACACC
56414289 AAATGCTCATAAGAGCTAATCCAACCATAAACACACC
1 AAATGCTCATAAGAGCTAATCCAACCATAAACACACC
56414326 AAATGCTCAT
1 AAATGCTCAT
56414336 TAGAACTATA
Statistics
Matches: 108, Mismatches: 12, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
36 2 0.02
37 106 0.98
ACGTcount: A:0.43, C:0.27, G:0.09, T:0.20
Consensus pattern (37 bp):
AAATGCTCATAAGAGCTAATCCAACCATAAACACACC
Found at i:56416628 original size:40 final size:40
Alignment explanation
Indices: 56416502--56416628 Score: 186
Period size: 40 Copynumber: 3.2 Consensus size: 40
56416492 ACCCAAGTAT
* *
56416502 CTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* **
56416541 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
56416581 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
56416621 CTTCGGGA
1 CTTCGGGA
56416629 TAGTGACTTT
Statistics
Matches: 78, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
39 11 0.14
40 66 0.85
41 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.24
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:56421528 original size:21 final size:21
Alignment explanation
Indices: 56421495--56421538 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
56421485 TGCCTCCTCT
56421495 CACACGGGCGTGTTAACCCCC
1 CACACGGGCGTGTTAACCCCC
* * *
56421516 CACAGGGGTGTGTTGACCCCC
1 CACACGGGCGTGTTAACCCCC
56421537 CA
1 CA
56421539 ATGGTCTAGG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.18, C:0.39, G:0.27, T:0.16
Consensus pattern (21 bp):
CACACGGGCGTGTTAACCCCC
Found at i:56426468 original size:48 final size:48
Alignment explanation
Indices: 56426397--56427358 Score: 1602
Period size: 48 Copynumber: 20.0 Consensus size: 48
56426387 TGTACAAGAT
* *
56426397 AAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCGAATGTA
1 AAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
* * *
56426445 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
1 AAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
*
56426493 AAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCGAATGTG
1 AAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
* * * *
56426541 AAATATGTATGAGATATGTGTATGTGGTAAAGCCGAATGGCTAATGTG
1 AAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
*
56426589 AAATATATGTGTTATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
1 AAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
56426637 AAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
1 AAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
*
56426685 AAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCGAATGTG
1 AAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
* * *
56426733 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
1 AAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
* *
56426781 AAATATATGTATGATATGTATATGTGGTAAAGCCGAATGGCGAATGTG
1 AAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
* * *
56426829 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
1 AAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
56426877 AAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
1 AAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
*
56426925 AAATATATGTGTAATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
1 AAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
*
56426973 AAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCGAATGTG
1 AAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
* * *
56427021 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
1 AAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
* *
56427069 AAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCAAATTTG
1 AAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
56427117 AAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGG-TGAATGTG
1 AAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT-AATGTG
* * *
56427165 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
1 AAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
56427213 AAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
1 AAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
*
56427261 AAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCGAATGTG
1 AAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
* * *
56427309 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
1 AAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
56427357 AA
1 AA
56427359 TGTTGTAATA
Statistics
Matches: 849, Mismatches: 63, Indels: 4
0.93 0.07 0.00
Matches are distributed among these distances:
48 848 1.00
49 1 0.00
ACGTcount: A:0.35, C:0.06, G:0.27, T:0.32
Consensus pattern (48 bp):
AAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
Found at i:56427453 original size:37 final size:37
Alignment explanation
Indices: 56427403--56427474 Score: 117
Period size: 37 Copynumber: 1.9 Consensus size: 37
56427393 GGAAATGTAT
* *
56427403 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGATAAGACCCGATAACTACGTGTGGAGATTTTG
*
56427440 TCCGGATAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGATAAGACCCGATAACTACGTGTGGAGATTT
56427475 CGTCTGAGCT
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:0.24, C:0.19, G:0.29, T:0.28
Consensus pattern (37 bp):
TCCGGATAAGACCCGATAACTACGTGTGGAGATTTTG
Found at i:56428736 original size:40 final size:40
Alignment explanation
Indices: 56428692--56429096 Score: 648
Period size: 40 Copynumber: 10.1 Consensus size: 40
56428682 GAGAATTGAG
*
56428692 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCT
* *
56428732 AGTGATGTAACCGGACTAAATCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCT
* *
56428772 AGTGATGTATCCGGACTAAGTTCCGAAGAGTATTCGTGCT
1 AGTGATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCT
56428812 AGTGATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCT
*
56428852 AGTGATGTATCCGGACTAAGTCCCGAAGAGCATCCGTGCT
1 AGTGATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCT
* *
56428892 AGTGATGTAACCGGACTAAATCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCT
* * *
56428932 AGTGATGTATCTGGACTAAGTTCCGAAGAGCATTCATGCT
1 AGTGATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCT
56428972 AGTGATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCT
* *
56429012 AGTGATGTAACCGGACTAAGTCCCAAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCT
* * * * *
56429052 AGTGATGTATCCGGGCTAGGTCTCGAAGAGCAATCATGCT
1 AGTGATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCT
56429092 AGTGA
1 AGTGA
56429097 CGTGTATTCG
Statistics
Matches: 335, Mismatches: 30, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 335 1.00
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (40 bp):
AGTGATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCT
Found at i:56432756 original size:48 final size:48
Alignment explanation
Indices: 56432685--56433118 Score: 733
Period size: 48 Copynumber: 9.0 Consensus size: 48
56432675 TGTACAAGAT
* * *
56432685 AAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCGAATGTG
1 AAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
*
56432733 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
1 AAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
* * *
56432781 AAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCGAATGTG
1 AAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
*
56432829 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
1 AAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
* *
56432877 AAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
1 AAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
* *
56432925 AAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
1 AAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
* *
56432973 AAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
1 AAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
*
56433021 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
1 AAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
56433069 AAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
1 AAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
56433117 AA
1 AA
56433119 TGTTGTAATA
Statistics
Matches: 367, Mismatches: 19, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 367 1.00
ACGTcount: A:0.35, C:0.06, G:0.27, T:0.32
Consensus pattern (48 bp):
AAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
Found at i:56433213 original size:37 final size:37
Alignment explanation
Indices: 56433163--56433234 Score: 126
Period size: 37 Copynumber: 1.9 Consensus size: 37
56433153 GGAAATGTAT
*
56433163 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATAACTACGTGTGGAGATTTTG
*
56433200 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATAACTACGTGTGGAGATTT
56433235 CGTCTGAGCT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.22, C:0.19, G:0.31, T:0.28
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATAACTACGTGTGGAGATTTTG
Found at i:56435312 original size:50 final size:50
Alignment explanation
Indices: 56435222--56435342 Score: 127
Period size: 50 Copynumber: 2.4 Consensus size: 50
56435212 GTCATTAGGG
* * * * ** *
56435222 TTACCGATTCTCAACTCGTATGAGCTTATCGGTTTGCAGCTCATAAGAGT-
1 TTACCGATTCTTAGCTCGTATAAGCTTACCAATTTACAGCTCATAAGA-TC
* *
56435272 TTACCGATTCTTAGCTCGTATAAGCTTACCAATTTACAGCTCGTGAGATC
1 TTACCGATTCTTAGCTCGTATAAGCTTACCAATTTACAGCTCATAAGATC
* *
56435322 ATACCGATTCATAGCTCGTAT
1 TTACCGATTCTTAGCTCGTAT
56435343 GAGCATACAT
Statistics
Matches: 59, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
49 1 0.02
50 58 0.98
ACGTcount: A:0.26, C:0.23, G:0.17, T:0.34
Consensus pattern (50 bp):
TTACCGATTCTTAGCTCGTATAAGCTTACCAATTTACAGCTCATAAGATC
Found at i:56435349 original size:25 final size:25
Alignment explanation
Indices: 56435273--56435350 Score: 77
Period size: 25 Copynumber: 3.1 Consensus size: 25
56435263 CATAAGAGTT
* * *
56435273 TACCGATTCTTAGCTCGTATAAGCT
1 TACCGATTCATAGCTCGTATGAGCA
* * * *
56435298 TACCAATTTACAGCTCGTGA-GATCA
1 TACCGATTCATAGCTCGT-ATGAGCA
56435323 TACCGATTCATAGCTCGTATGAGCA
1 TACCGATTCATAGCTCGTATGAGCA
56435348 TAC
1 TAC
56435351 ATGTACAGGA
Statistics
Matches: 40, Mismatches: 11, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
24 1 0.03
25 38 0.95
26 1 0.03
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.31
Consensus pattern (25 bp):
TACCGATTCATAGCTCGTATGAGCA
Found at i:56439892 original size:23 final size:23
Alignment explanation
Indices: 56439865--56439911 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
56439855 CATTTACATG
*
56439865 TCAAAGCATTCAAAATCATTATA
1 TCAAACCATTCAAAATCATTATA
56439888 TCAAACCATTCAAAATCATTATA
1 TCAAACCATTCAAAATCATTATA
56439911 T
1 T
56439912 AAGTTATAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.47, C:0.19, G:0.02, T:0.32
Consensus pattern (23 bp):
TCAAACCATTCAAAATCATTATA
Found at i:56440011 original size:37 final size:37
Alignment explanation
Indices: 56439970--56440156 Score: 234
Period size: 37 Copynumber: 5.1 Consensus size: 37
56439960 AATACACAAG
* *
56439970 TAATCCAACCGATAACACGTCAAATGCTCATAAGAGC
1 TAATCCAATCGATAACACGCCAAATGCTCATAAGAGC
* *
56440007 TAATCCAATCAATAACACGCTAAATGCTCATAAGAGC
1 TAATCCAATCGATAACACGCCAAATGCTCATAAGAGC
*** * **
56440044 TAATCCAATCGATAACACGTTGAATGATCATAAGATT
1 TAATCCAATCGATAACACGCCAAATGCTCATAAGAGC
*
56440081 TAATCCAATCG-TAAACAAGCCAAATGCTCATAAGAGC
1 TAATCCAATCGAT-AACACGCCAAATGCTCATAAGAGC
*
56440118 TAATCCAACCG-TAAACACGCCAAATGCTCATAAGAGC
1 TAATCCAATCGAT-AACACGCCAAATGCTCATAAGAGC
56440155 TA
1 TA
56440157 TACATCCGCC
Statistics
Matches: 130, Mismatches: 19, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
36 1 0.01
37 129 0.99
ACGTcount: A:0.42, C:0.24, G:0.13, T:0.21
Consensus pattern (37 bp):
TAATCCAATCGATAACACGCCAAATGCTCATAAGAGC
Found at i:56446805 original size:30 final size:30
Alignment explanation
Indices: 56446769--56446897 Score: 136
Period size: 30 Copynumber: 4.3 Consensus size: 30
56446759 GACTGTCGAT
*
56446769 TATGAAAAGGGATGGTGACGACCATCGAAC
1 TATGAAAAGGGATGGTGACGACCATCAAAC
* ** * * *
56446799 TATGAAAA-GGATAGCT-TTGGCTATCAAAT
1 TATGAAAAGGGAT-GGTGACGACCATCAAAC
* * *
56446828 TATGAAAAGGGATGGTAACAACCATCGAAC
1 TATGAAAAGGGATGGTGACGACCATCAAAC
*
56446858 TATGAAAAGGGATGGTGACGACCATCAAAT
1 TATGAAAAGGGATGGTGACGACCATCAAAC
56446888 TATGAAAAGG
1 TATGAAAAGG
56446898 TATAGCTTCA
Statistics
Matches: 77, Mismatches: 19, Indels: 6
0.75 0.19 0.06
Matches are distributed among these distances:
29 21 0.27
30 56 0.73
ACGTcount: A:0.40, C:0.13, G:0.26, T:0.21
Consensus pattern (30 bp):
TATGAAAAGGGATGGTGACGACCATCAAAC
Found at i:56449527 original size:14 final size:14
Alignment explanation
Indices: 56449508--56449534 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
56449498 GATCTCAAAA
56449508 ACAAAAAAAAAATT
1 ACAAAAAAAAAATT
56449522 ACAAAAAAAAAAT
1 ACAAAAAAAAAAT
56449535 GAAAAATGGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.81, C:0.07, G:0.00, T:0.11
Consensus pattern (14 bp):
ACAAAAAAAAAATT
Done.