Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A12
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: 102106374
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3186644 characters in sequence are not A, C, G, or T
File 37 of 311
Found at i:10642662 original size:41 final size:41
Alignment explanation
Indices: 10642610--10642730 Score: 206
Period size: 41 Copynumber: 3.0 Consensus size: 41
10642600 TGTAAAACAT
*
10642610 AGAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGAC
1 AGAGCAGTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGAC
* *
10642651 AGAGTAGTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGAT
1 AGAGCAGTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGAC
*
10642692 AGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAG
1 AGAGCAGTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAG
10642731 TCATATAACT
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 75 1.00
ACGTcount: A:0.32, C:0.20, G:0.28, T:0.20
Consensus pattern (41 bp):
AGAGCAGTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGAC
Found at i:10643373 original size:24 final size:24
Alignment explanation
Indices: 10643346--10643394 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
10643336 CGTATATTTA
*
10643346 TTAAAAGTTTATATAAAAATTAAT
1 TTAAAAGTCTATATAAAAATTAAT
10643370 TTAAAAGTCTATATAAAAATTAAT
1 TTAAAAGTCTATATAAAAATTAAT
10643394 T
1 T
10643395 GTTATTTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.41
Consensus pattern (24 bp):
TTAAAAGTCTATATAAAAATTAAT
Found at i:10643690 original size:7 final size:7
Alignment explanation
Indices: 10643680--10643728 Score: 80
Period size: 7 Copynumber: 6.9 Consensus size: 7
10643670 ATTTTAAGGT
10643680 TTATGGA
1 TTATGGA
10643687 TTATGGA
1 TTATGGA
10643694 TTATGGA
1 TTATGGA
10643701 TTATGGA
1 TTATGGA
*
10643708 TTATGGGT
1 TTAT-GGA
10643716 TTATGGA
1 TTATGGA
10643723 TTATGG
1 TTATGG
10643729 TTTACAGTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
7 33 0.85
8 6 0.15
ACGTcount: A:0.24, C:0.00, G:0.31, T:0.45
Consensus pattern (7 bp):
TTATGGA
Found at i:10643730 original size:14 final size:14
Alignment explanation
Indices: 10643680--10643746 Score: 80
Period size: 14 Copynumber: 4.7 Consensus size: 14
10643670 ATTTTAAGGT
*
10643680 TTATGGATTATGGA
1 TTATGGTTTATGGA
*
10643694 TTATGGATTATGGA
1 TTATGGTTTATGGA
10643708 TTATGGGTTTATGGA
1 TTAT-GGTTTATGGA
** *
10643723 TTATGGTTTACAGT
1 TTATGGTTTATGGA
10643737 TTATGGTTTA
1 TTATGGTTTA
10643747 AGGGTTGGGG
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
14 35 0.73
15 13 0.27
ACGTcount: A:0.24, C:0.01, G:0.27, T:0.48
Consensus pattern (14 bp):
TTATGGTTTATGGA
Found at i:10643741 original size:36 final size:36
Alignment explanation
Indices: 10643673--10643752 Score: 99
Period size: 36 Copynumber: 2.2 Consensus size: 36
10643663 AGTTACTATT
**
10643673 TTAA-GGTTTATGGATTATGGATTATGGATTATGGA
1 TTAAGGGTTTATGGATTATGGATTACAGATTATGGA
* * * *
10643708 TTATGGGTTTATGGATTATGGTTTACAGTTTATGGT
1 TTAAGGGTTTATGGATTATGGATTACAGATTATGGA
10643744 TTAAGGGTT
1 TTAAGGGTT
10643753 GGGGTTTAAG
Statistics
Matches: 37, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
35 3 0.08
36 34 0.92
ACGTcount: A:0.24, C:0.01, G:0.29, T:0.46
Consensus pattern (36 bp):
TTAAGGGTTTATGGATTATGGATTACAGATTATGGA
Found at i:10643745 original size:7 final size:7
Alignment explanation
Indices: 10643672--10643831 Score: 72
Period size: 7 Copynumber: 22.6 Consensus size: 7
10643662 GAGTTACTAT
*
10643672 TTTAAGG
1 TTTATGG
10643679 TTTATGG
1 TTTATGG
*
10643686 ATTATGG
1 TTTATGG
*
10643693 ATTATGG
1 TTTATGG
*
10643700 ATTATGG
1 TTTATGG
*
10643707 ATTATGGG
1 TTTAT-GG
10643715 TTTATGG
1 TTTATGG
*
10643722 ATTATGG
1 TTTATGG
**
10643729 TTTACAG
1 TTTATGG
10643736 TTTATGG
1 TTTATGG
*
10643743 TTTAAGG
1 TTTATGG
* **
10643750 GTTGGGG
1 TTTATGG
*
10643757 TTTAAGG
1 TTTATGG
10643764 TTTA-GG
1 TTTATGG
*
10643770 TGTTAGGG
1 T-TTATGG
* *
10643778 GTTAGGG
1 TTTATGG
*
10643785 GTTATGG
1 TTTATGG
*
10643792 GTTATGG
1 TTTATGG
*
10643799 ATTTAAGG
1 -TTTATGG
*
10643807 GTTAT-G
1 TTTATGG
*
10643813 TTGTATGA
1 TT-TATGG
*
10643821 TTTAAGG
1 TTTATGG
10643828 TTTA
1 TTTA
10643832 GGGGATAAAA
Statistics
Matches: 121, Mismatches: 26, Indels: 12
0.76 0.16 0.08
Matches are distributed among these distances:
6 5 0.04
7 101 0.83
8 15 0.12
ACGTcount: A:0.22, C:0.01, G:0.33, T:0.44
Consensus pattern (7 bp):
TTTATGG
Found at i:10644548 original size:22 final size:22
Alignment explanation
Indices: 10644523--10644580 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
10644513 AATTTTTTTA
*
10644523 AAAAAATATTTAAAATT-AATAT
1 AAAAAATA-TAAAAATTCAATAT
*
10644545 AAAAGATATAAAAATTCAATAT
1 AAAAAATATAAAAATTCAATAT
*
10644567 AAAAATTATAAAAA
1 AAAAAATATAAAAA
10644581 AGTCAAAAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
21 7 0.23
22 24 0.77
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (22 bp):
AAAAAATATAAAAATTCAATAT
Found at i:10644659 original size:38 final size:40
Alignment explanation
Indices: 10644591--10644699 Score: 177
Period size: 38 Copynumber: 2.8 Consensus size: 40
10644581 AGTCAAAAAT
*
10644591 TAGCGGCGTTTATGATAAAAACGCTGCAAAAGACAAGCAA
1 TAGCGGCGTTTATGATAAAAACGCCGCAAAAGACAAGCAA
* *
10644631 TAGCGGCGTTTAT-AT-AAAACGCCGCAAAAGGCAATCAA
1 TAGCGGCGTTTATGATAAAAACGCCGCAAAAGACAAGCAA
10644669 TAGCGGCGTTTATGATAAAAACGCCGCAAAA
1 TAGCGGCGTTTATGATAAAAACGCCGCAAAA
10644700 AGTAATTTAT
Statistics
Matches: 64, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
38 33 0.52
39 4 0.06
40 27 0.42
ACGTcount: A:0.40, C:0.19, G:0.22, T:0.18
Consensus pattern (40 bp):
TAGCGGCGTTTATGATAAAAACGCCGCAAAAGACAAGCAA
Found at i:10644997 original size:35 final size:34
Alignment explanation
Indices: 10644915--10644998 Score: 98
Period size: 35 Copynumber: 2.4 Consensus size: 34
10644905 TGACTAAGCC
* *
10644915 ATTTGCCTAAATCATAGTTCCCCCGAAACCCTCA
1 ATTTCCCTAAATCATAGTTCCCCCAAAACCCTCA
* *
10644949 TTTTCTCCCAAATCATAGTTCCCCCAAAACCC-CAAA
1 ATTTC-CCTAAATCATAGTTCCCCCAAAACCCTC--A
10644985 ATTTCCCTAAATCA
1 ATTTCCCTAAATCA
10644999 AACCCATTTG
Statistics
Matches: 41, Mismatches: 6, Indels: 5
0.79 0.12 0.10
Matches are distributed among these distances:
34 4 0.10
35 32 0.78
36 5 0.12
ACGTcount: A:0.32, C:0.36, G:0.05, T:0.27
Consensus pattern (34 bp):
ATTTCCCTAAATCATAGTTCCCCCAAAACCCTCA
Found at i:10657082 original size:21 final size:19
Alignment explanation
Indices: 10657049--10657090 Score: 57
Period size: 21 Copynumber: 2.1 Consensus size: 19
10657039 CTTCGTTCTT
*
10657049 TTTCTTTTGTTTTATTTTA
1 TTTCTTTTGTTTTATATTA
10657068 TTTCTTTTATGTTTTATATTA
1 TTTC-TTT-TGTTTTATATTA
10657089 TT
1 TT
10657091 ATTATATTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 4 0.20
20 3 0.15
21 13 0.65
ACGTcount: A:0.14, C:0.05, G:0.05, T:0.76
Consensus pattern (19 bp):
TTTCTTTTGTTTTATATTA
Found at i:10663066 original size:37 final size:36
Alignment explanation
Indices: 10663046--10663118 Score: 110
Period size: 37 Copynumber: 2.0 Consensus size: 36
10663036 AAATATTTAA
10663046 CATAGAACCACCAGACAGTGTACTTTAGTATCATTCT
1 CATAGAACCACCAGACAGTGTAC-TTAGTATCATTCT
* *
10663083 CATAGAACCACCAGACAATGTACTTTGCTATCATTC
1 CATAGAACCACCAGACAGTGTACTTAG-TATCATTC
10663119 AAAATCAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
36 3 0.09
37 30 0.91
ACGTcount: A:0.33, C:0.26, G:0.12, T:0.29
Consensus pattern (36 bp):
CATAGAACCACCAGACAGTGTACTTAGTATCATTCT
Found at i:10665133 original size:40 final size:40
Alignment explanation
Indices: 10665072--10665150 Score: 122
Period size: 40 Copynumber: 2.0 Consensus size: 40
10665062 CAATACTTTA
* * *
10665072 TGGTGTGTAGGGTTAGATGGGTCGATTTTATCCCCATATT
1 TGGTGTGCAGGGATAGATGGGTCAATTTTATCCCCATATT
*
10665112 TGGTGTGCAGGGATAGGTGGGTCAATTTTATCCCCATAT
1 TGGTGTGCAGGGATAGATGGGTCAATTTTATCCCCATAT
10665151 GGTGTGTTGG
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.19, C:0.14, G:0.30, T:0.37
Consensus pattern (40 bp):
TGGTGTGCAGGGATAGATGGGTCAATTTTATCCCCATATT
Found at i:10666983 original size:15 final size:15
Alignment explanation
Indices: 10666963--10666994 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
10666953 CCGATTTTTC
10666963 ATTTCTTGATCTTTA
1 ATTTCTTGATCTTTA
10666978 ATTTCTTGATCTTTA
1 ATTTCTTGATCTTTA
10666993 AT
1 AT
10666995 CGAACTTGGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.22, C:0.12, G:0.06, T:0.59
Consensus pattern (15 bp):
ATTTCTTGATCTTTA
Found at i:10670028 original size:10 final size:10
Alignment explanation
Indices: 10670001--10670059 Score: 84
Period size: 10 Copynumber: 5.9 Consensus size: 10
10669991 TTAAATTCTA
10670001 AAAGATAAAT
1 AAAGATAAAT
10670011 ACAA-ATAAAT
1 A-AAGATAAAT
*
10670021 AAAGATAATT
1 AAAGATAAAT
10670031 AAAGATAAAT
1 AAAGATAAAT
*
10670041 AAGGATAAAT
1 AAAGATAAAT
10670051 AAAGATAAA
1 AAAGATAAA
10670060 AGCTAAAATT
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
9 2 0.05
10 39 0.91
11 2 0.05
ACGTcount: A:0.68, C:0.02, G:0.10, T:0.20
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:10670095 original size:13 final size:12
Alignment explanation
Indices: 10670077--10670109 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
10670067 ATTAAATCTA
10670077 AATAATAATCCTT
1 AATAATAATCC-T
10670090 AATAATAATCCT
1 AATAATAATCCT
10670102 AAT-ATAAT
1 AATAATAAT
10670110 TGGAATTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 5 0.25
12 4 0.20
13 11 0.55
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (12 bp):
AATAATAATCCT
Found at i:10672020 original size:4 final size:4
Alignment explanation
Indices: 10672004--10672064 Score: 51
Period size: 4 Copynumber: 15.8 Consensus size: 4
10671994 TATCCAAACA
10672004 AAAT AAAGT -AAT AAAT -AAT AAAAT AAAAT AAAT -AAT AAAT AAAT -AAT
1 AAAT AAA-T AAAT AAAT AAAT -AAAT -AAAT AAAT AAAT AAAT AAAT AAAT
*
10672051 AAAT TAA- AAAT AAA
1 AAAT AAAT AAAT AAA
10672065 GAAAAATAAA
Statistics
Matches: 48, Mismatches: 2, Indels: 14
0.75 0.03 0.22
Matches are distributed among these distances:
3 12 0.25
4 27 0.56
5 9 0.19
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.25
Consensus pattern (4 bp):
AAAT
Found at i:10672044 original size:28 final size:28
Alignment explanation
Indices: 10672013--10672074 Score: 90
Period size: 28 Copynumber: 2.2 Consensus size: 28
10672003 AAAATAAAGT
*
10672013 AATAAATAATAAAAT-AAAATAAATAATA
1 AATAAATAATAAAATAAAAATAAAGAA-A
*
10672041 AATAAATAATAAATTAAAAATAAAGAAA
1 AATAAATAATAAAATAAAAATAAAGAAA
10672069 AATAAA
1 AATAAA
10672075 AATTGGGTTG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
28 21 0.68
29 10 0.32
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.23
Consensus pattern (28 bp):
AATAAATAATAAAATAAAAATAAAGAAA
Found at i:10672045 original size:11 final size:11
Alignment explanation
Indices: 10672004--10672074 Score: 74
Period size: 11 Copynumber: 6.3 Consensus size: 11
10671994 TATCCAAACA
10672004 AAATAAAGTAAT
1 AAATAAA-TAAT
*
10672016 AAATAATAAAAT
1 AAATAA-ATAAT
10672028 AAAATAAATAAT
1 -AAATAAATAAT
10672040 AAATAAATAAT
1 AAATAAATAAT
10672051 AAATTAAA-AAT
1 AAA-TAAATAAT
*
10672062 AAAGAAA-AAT
1 AAATAAATAAT
10672072 AAA
1 AAA
10672075 AATTGGGTTG
Statistics
Matches: 53, Mismatches: 3, Indels: 8
0.83 0.05 0.12
Matches are distributed among these distances:
10 9 0.17
11 20 0.38
12 17 0.32
13 7 0.13
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.23
Consensus pattern (11 bp):
AAATAAATAAT
Found at i:10679075 original size:21 final size:21
Alignment explanation
Indices: 10679051--10679106 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
10679041 AATTAAATTC
* *
10679051 TAAAAGATAAATACAAATAAT
1 TAAAAGATAAATAAAAATAAA
10679072 TAAAA-ATAAATTAAAAATAAA
1 TAAAAGATAAA-TAAAAATAAA
*
10679093 T-AAGGATAAATAAA
1 TAAAAGATAAATAAA
10679107 GATCAGAACT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
20 11 0.37
21 19 0.63
ACGTcount: A:0.70, C:0.02, G:0.05, T:0.23
Consensus pattern (21 bp):
TAAAAGATAAATAAAAATAAA
Found at i:10679085 original size:11 final size:11
Alignment explanation
Indices: 10679051--10679093 Score: 54
Period size: 11 Copynumber: 4.0 Consensus size: 11
10679041 AATTAAATTC
10679051 TAAAAGATAAA-
1 TAAAA-ATAAAT
*
10679062 TACAAAT-AAT
1 TAAAAATAAAT
10679072 TAAAAATAAAT
1 TAAAAATAAAT
10679083 TAAAAATAAAT
1 TAAAAATAAAT
10679094 AAGGATAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
9 2 0.07
10 8 0.29
11 18 0.64
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (11 bp):
TAAAAATAAAT
Found at i:10684232 original size:4 final size:4
Alignment explanation
Indices: 10684223--10684256 Score: 68
Period size: 4 Copynumber: 8.5 Consensus size: 4
10684213 ATACTAGTGT
10684223 TATG TATG TATG TATG TATG TATG TATG TATG TA
1 TATG TATG TATG TATG TATG TATG TATG TATG TA
10684257 CCCATTCTTC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 30 1.00
ACGTcount: A:0.26, C:0.00, G:0.24, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:10689586 original size:20 final size:19
Alignment explanation
Indices: 10689558--10689643 Score: 66
Period size: 20 Copynumber: 4.4 Consensus size: 19
10689548 TTTTAAGAGA
*
10689558 TAATAATAATTTTAACATAT
1 TAATGATAATTTTAA-ATAT
*
10689578 TTATGATAATTTTAAATAT
1 TAATGATAATTTTAAATAT
* *
10689597 TAAATTATAATTTTAAGAGA-
1 T-AATGATAATTTTAA-ATAT
* *
10689617 TAATAATAAATTTAATATAT
1 TAATGATAATTTTAA-ATAT
*
10689637 TTATGAT
1 TAATGAT
10689644 TTTAATAATT
Statistics
Matches: 52, Mismatches: 11, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
19 19 0.37
20 31 0.60
21 2 0.04
ACGTcount: A:0.48, C:0.01, G:0.05, T:0.47
Consensus pattern (19 bp):
TAATGATAATTTTAAATAT
Found at i:10690035 original size:2 final size:2
Alignment explanation
Indices: 10690028--10690052 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
10690018 AATCATGGTG
10690028 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
10690053 ACATATTCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:10691607 original size:12 final size:12
Alignment explanation
Indices: 10691590--10691614 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
10691580 CTCCAGCATT
10691590 CAACAATGGTAA
1 CAACAATGGTAA
10691602 CAACAATGGTAA
1 CAACAATGGTAA
10691614 C
1 C
10691615 TTTATGAAAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.20, G:0.16, T:0.16
Consensus pattern (12 bp):
CAACAATGGTAA
Found at i:10692302 original size:18 final size:19
Alignment explanation
Indices: 10692256--10692304 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
10692246 TATAGTTTAT
10692256 GTGTTGTGAGTGTTGAAAA
1 GTGTTGTGAGTGTTGAAAA
***
10692275 AAATTAGTGAGT-TTGAAAA
1 GTGTT-GTGAGTGTTGAAAA
10692294 GTGTTGTGAGT
1 GTGTTGTGAGT
10692305 ATAGAAAGAA
Statistics
Matches: 23, Mismatches: 6, Indels: 3
0.72 0.19 0.09
Matches are distributed among these distances:
18 6 0.26
19 11 0.48
20 6 0.26
ACGTcount: A:0.31, C:0.00, G:0.33, T:0.37
Consensus pattern (19 bp):
GTGTTGTGAGTGTTGAAAA
Found at i:10696867 original size:35 final size:35
Alignment explanation
Indices: 10696828--10696897 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
10696818 ATATACTTAA
10696828 GGGATAAGTAATCATTAAGGTAACTAGACTATGTC
1 GGGATAAGTAATCATTAAGGTAACTAGACTATGTC
10696863 GGGATAAGTAATCATTAAGGTAACTAGACTATGTC
1 GGGATAAGTAATCATTAAGGTAACTAGACTATGTC
10696898 TATATATATG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.37, C:0.11, G:0.23, T:0.29
Consensus pattern (35 bp):
GGGATAAGTAATCATTAAGGTAACTAGACTATGTC
Found at i:10699289 original size:19 final size:20
Alignment explanation
Indices: 10699263--10699311 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 20
10699253 TTAAGACAAA
10699263 AAAT-TTAAATATCAAA-TC
1 AAATATTAAATATCAAACTC
*
10699281 GAATATTAAA-ATCAAACTC
1 AAATATTAAATATCAAACTC
*
10699300 AAATACTAAATA
1 AAATATTAAATA
10699312 GTATATTAAC
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
18 9 0.36
19 15 0.60
20 1 0.04
ACGTcount: A:0.57, C:0.12, G:0.02, T:0.29
Consensus pattern (20 bp):
AAATATTAAATATCAAACTC
Found at i:10702983 original size:23 final size:23
Alignment explanation
Indices: 10702957--10703002 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
10702947 AAATTTAAAT
*
10702957 TTTGAGTTAATCGAATCAAGTTA
1 TTTGAATTAATCGAATCAAGTTA
* * *
10702980 TTTGAATTATTCGAGTCGAGTTA
1 TTTGAATTAATCGAATCAAGTTA
10703003 AATTTTACGA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.41
Consensus pattern (23 bp):
TTTGAATTAATCGAATCAAGTTA
Found at i:10711119 original size:23 final size:23
Alignment explanation
Indices: 10711086--10711133 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
10711076 AGATAGCCAT
* *
10711086 ATATCGAAAAGTTCAAGCGAGCC
1 ATATCGAAAAGCTCAAGAGAGCC
* *
10711109 ATATCGGAAAGCTCCAGAGAGCC
1 ATATCGAAAAGCTCAAGAGAGCC
10711132 AT
1 AT
10711134 TAATTAGAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.17
Consensus pattern (23 bp):
ATATCGAAAAGCTCAAGAGAGCC
Found at i:10716293 original size:25 final size:24
Alignment explanation
Indices: 10716255--10716302 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 24
10716245 AAATTATTAA
* *
10716255 AAATAGATTTCAAAAGAAAACATC
1 AAATAGAGTTCAAAACAAAACATC
10716279 AAATAGCAGTTCAAAACAAAACAT
1 AAATAG-AGTTCAAAACAAAACAT
10716303 ACTTACAGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 6 0.29
25 15 0.71
ACGTcount: A:0.58, C:0.15, G:0.08, T:0.19
Consensus pattern (24 bp):
AAATAGAGTTCAAAACAAAACATC
Found at i:10721134 original size:29 final size:28
Alignment explanation
Indices: 10721091--10721168 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
10721081 TCATGAGATT
10721091 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
10721121 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
10721148 TGGCACTAAGTGTGCGCGGTT
1 -GGCACTAAGTGTGCG-GGTT
10721169 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:10721434 original size:175 final size:176
Alignment explanation
Indices: 10721121--10721451 Score: 565
Period size: 175 Copynumber: 1.9 Consensus size: 176
10721111 AAATTGTACA
* *
10721121 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
* *
10721186 TGTGCGAACCCAATATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTC
66 CGTGCGAACCCAATATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTC
*
10721251 GATTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 AATTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
* * * *
10721297 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGTGGTTGATTACTAAACATTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
*
10721362 CGTGC-AACCCTATATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTC
66 CGTGCGAACCCAATATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTC
10721426 AATTTTGGACAGCGGAAAAGGTAAGT
131 AATTTTGGACAGCGGAAAAGGTAAGT
10721452 ACCTTGAGTT
Statistics
Matches: 145, Mismatches: 10, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
175 82 0.57
176 63 0.43
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.31
Consensus pattern (176 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
CGTGCGAACCCAATATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTC
AATTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:10723615 original size:27 final size:28
Alignment explanation
Indices: 10723580--10723635 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
10723570 TGACTGCTAG
10723580 AACAGATA-TTGTGACAGAGCCACCAGA
1 AACAGATATTTGTGACAGAGCCACCAGA
*
10723607 AACAGATATTTGTGGCAGAGCCACCAGA
1 AACAGATATTTGTGACAGAGCCACCAGA
10723635 A
1 A
10723636 TGCTTCCTCC
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
27 8 0.30
28 19 0.70
ACGTcount: A:0.39, C:0.21, G:0.23, T:0.16
Consensus pattern (28 bp):
AACAGATATTTGTGACAGAGCCACCAGA
Found at i:10723796 original size:27 final size:26
Alignment explanation
Indices: 10723738--10723801 Score: 92
Period size: 26 Copynumber: 2.4 Consensus size: 26
10723728 CAAAATTAAC
*
10723738 CCTAGGGGTATAATGGTAATTTTGCA
1 CCTAGGGGTATAATGGTAATTTTACA
*
10723764 CCTAGGGGTATAATGGTAATTTTTATA
1 CCTAGGGGTATAATGGTAA-TTTTACA
*
10723791 CTTAGGGGTAT
1 CCTAGGGGTAT
10723802 TTTAGTAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
26 19 0.56
27 15 0.44
ACGTcount: A:0.27, C:0.09, G:0.27, T:0.38
Consensus pattern (26 bp):
CCTAGGGGTATAATGGTAATTTTACA
Found at i:10739285 original size:45 final size:45
Alignment explanation
Indices: 10739235--10739324 Score: 144
Period size: 45 Copynumber: 2.0 Consensus size: 45
10739225 TAATTTGTTG
*
10739235 TAAATGAGCAAGGTCAAAGGGTTAAAATTTTTGAAAGAATTTTGT
1 TAAATGAGCAAGGTCAAAGAGTTAAAATTTTTGAAAGAATTTTGT
* * *
10739280 TAAATGAGCAAGGTGACAGAGTTAAAATTTTTTAAAGAATTTTGT
1 TAAATGAGCAAGGTCAAAGAGTTAAAATTTTTGAAAGAATTTTGT
10739325 ATGATCAACA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.40, C:0.04, G:0.21, T:0.34
Consensus pattern (45 bp):
TAAATGAGCAAGGTCAAAGAGTTAAAATTTTTGAAAGAATTTTGT
Found at i:10739502 original size:20 final size:20
Alignment explanation
Indices: 10739464--10739502 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
10739454 TTATTTATTC
10739464 AATTAAATAATAATCTAAAGA
1 AATTAAATAAT-ATCTAAAGA
10739485 AATTAAATTAAT-TCTAAA
1 AATTAAA-TAATATCTAAA
10739503 TTATCTCGTC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 6 0.35
21 7 0.41
22 4 0.24
ACGTcount: A:0.59, C:0.05, G:0.03, T:0.33
Consensus pattern (20 bp):
AATTAAATAATATCTAAAGA
Found at i:10742505 original size:224 final size:225
Alignment explanation
Indices: 10742115--10742526 Score: 607
Period size: 224 Copynumber: 1.8 Consensus size: 225
10742105 AAAAAGGTTT
* **
10742115 TTTTACTAAATTGACTCAAAAAAATTTTATATTTATAAAAATGATTTAGGTTCAAAAACAATCAC
1 TTTTACTAAATTGACTCAAAAAAATTTTATATTTACAAAAATGATCCAGGTTCAAAAACAATCAC
* * * * *
10742180 CAAAATTACCTGAAATAAATAGTAGAATAGGGTTTTAGCTTGTCAATGACCGGCACCAATTCGTA
66 CAAAATGACCTGAAATAAACAGTAGAATAGGGTTTTAGCCTGTCAATGACCAGCACCAACTCGTA
* * *
10742245 TTTTGGACCTCTGATTGTCTGATAATTGTGTCAGGCTTT-AAAAATTGTTTTTTTTGGGCTGTCA
131 TTTTGGACCTCTGATTGCCTGATAACTGTGTCAGGCTTTAAAAAATTGATTTTTTTGGGCTGTCA
10742309 ATGGCCGACATCAGGGTATTTTTTTGGCTA
196 ATGGCCGACATCAGGGTATTTTTTTGGCTA
* *
10742339 TTTTACTAAATTGAC-CCAAAAAATTTTGATATTTACAAAAATTATCCAGGTTCAAAAACAATCA
1 TTTTACTAAATTGACTCAAAAAAATTTT-ATATTTACAAAAATGATCCAGGTTCAAAAACAATCA
* * * * *
10742403 CCAGAATGACCTGAAATGAACAGTAGAATGGGGTTTTGGCCTGT-AAGTGGCCAGCACCAACTCG
65 CCAAAATGACCTGAAATAAACAGTAGAATAGGGTTTTAGCCTGTCAA-TGACCAGCACCAACTCG
10742467 TATTTTGGACC-CATGATTGCCTGATAACTGTGTCAGGCTTTAAAAAATTGATTTTTTTGG
129 TATTTTGGACCTC-TGATTGCCTGATAACTGTGTCAGGCTTTAAAAAATTGATTTTTTTGG
10742527 TTCTGGCCTG
Statistics
Matches: 166, Mismatches: 18, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
223 14 0.08
224 135 0.81
225 17 0.10
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.34
Consensus pattern (225 bp):
TTTTACTAAATTGACTCAAAAAAATTTTATATTTACAAAAATGATCCAGGTTCAAAAACAATCAC
CAAAATGACCTGAAATAAACAGTAGAATAGGGTTTTAGCCTGTCAATGACCAGCACCAACTCGTA
TTTTGGACCTCTGATTGCCTGATAACTGTGTCAGGCTTTAAAAAATTGATTTTTTTGGGCTGTCA
ATGGCCGACATCAGGGTATTTTTTTGGCTA
Found at i:10742722 original size:104 final size:103
Alignment explanation
Indices: 10742608--10742802 Score: 300
Period size: 104 Copynumber: 1.9 Consensus size: 103
10742598 CCAGTATTTA
* * *
10742608 AAAAAAATTGGTTCTGCCCTGTCAATGGCTGGCACCAGAATACGTGTTTTTAAAAAAAAAATTGG
1 AAAAAAATTGGTTCTGCCCTATCAATGGCTGGAACCAGAATACGAGTTTTT-AAAAAAAAATTGG
10742673 TACTGGCCTATCAATGGCCGGCACCAAAGTACAAGTTTT
65 TACTGGCCTATCAATGGCCGGCACCAAAGTACAAGTTTT
* * * * *
10742712 AAAAAAATTGGTTCTGGCCTATCAATTGCTGGAACCAGAGTACGAGTTTTTTAAAAAAAATTTGT
1 AAAAAAATTGGTTCTGCCCTATCAATGGCTGGAACCAGAATACGAGTTTTTAAAAAAAAATTGGT
*
10742777 GCTGGCCTATCAATGGCCGGCACCAA
66 ACTGGCCTATCAATGGCCGGCACCAA
10742803 GTAAAAAAAA
Statistics
Matches: 82, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
103 37 0.45
104 45 0.55
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.27
Consensus pattern (103 bp):
AAAAAAATTGGTTCTGCCCTATCAATGGCTGGAACCAGAATACGAGTTTTTAAAAAAAAATTGGT
ACTGGCCTATCAATGGCCGGCACCAAAGTACAAGTTTT
Found at i:10742737 original size:50 final size:52
Alignment explanation
Indices: 10742604--10742802 Score: 233
Period size: 50 Copynumber: 3.8 Consensus size: 52
10742594 AATACCAGTA
* * * *
10742604 TTTAAAAAAAATTGGTTCTGCCCTGTCAATGGCTGGCACCAGAA-TACGTGTT
1 TTTAAAAAAAATTGGTTCTGGCCTATCAATGGCCGGCACCA-AAGTACGAGTT
* *
10742656 TTTAAAAAAAAAATTGGTACTGGCCTATCAATGGCCGGCACCAAAGTACAAG-T
1 TTT--AAAAAAAATTGGTTCTGGCCTATCAATGGCCGGCACCAAAGTACGAGTT
* * * *
10742709 TTT-AAAAAAATTGGTTCTGGCCTATCAATTGCTGGAACCAGAGTACGAGTTT
1 TTTAAAAAAAATTGGTTCTGGCCTATCAATGGCCGGCACCAAAGTACGAG-TT
* *
10742761 TTTAAAAAAAATTTGTGCTGGCCTATCAATGGCCGGCACCAA
1 TTTAAAAAAAATTGGTTCTGGCCTATCAATGGCCGGCACCAA
10742803 GTAAAAAAAA
Statistics
Matches: 123, Mismatches: 18, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
50 40 0.33
52 7 0.06
53 38 0.31
54 38 0.31
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.28
Consensus pattern (52 bp):
TTTAAAAAAAATTGGTTCTGGCCTATCAATGGCCGGCACCAAAGTACGAGTT
Found at i:10743004 original size:16 final size:17
Alignment explanation
Indices: 10742980--10743038 Score: 59
Period size: 18 Copynumber: 3.4 Consensus size: 17
10742970 TTGTCAAAAT
*
10742980 TTTCTTTTTTCATTTT-
1 TTTCATTTTTCATTTTA
10742996 TTTCATTTTTTTCATTTTCA
1 TTTCA--TTTTTCATTTT-A
*
10743016 TTTCA-TTTTAATTTTA
1 TTTCATTTTTCATTTTA
10743032 TTTCATT
1 TTTCATT
10743039 CCAATTTCAT
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
16 10 0.28
17 10 0.28
18 11 0.31
20 5 0.14
ACGTcount: A:0.15, C:0.12, G:0.00, T:0.73
Consensus pattern (17 bp):
TTTCATTTTTCATTTTA
Found at i:10743006 original size:11 final size:9
Alignment explanation
Indices: 10742984--10743024 Score: 64
Period size: 9 Copynumber: 4.3 Consensus size: 9
10742974 CAAAATTTTC
10742984 TTTTTTCAT
1 TTTTTTCAT
10742993 TTTTTTCAT
1 TTTTTTCAT
10743002 TTTTTTCAT
1 TTTTTTCAT
10743011 TTTCATTTCAT
1 TTT--TTTCAT
10743022 TTT
1 TTT
10743025 AATTTTATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
9 21 0.70
11 9 0.30
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.76
Consensus pattern (9 bp):
TTTTTTCAT
Found at i:10743007 original size:18 final size:19
Alignment explanation
Indices: 10742984--10743066 Score: 69
Period size: 21 Copynumber: 4.1 Consensus size: 19
10742974 CAAAATTTTC
10742984 TTTTTTCATTTT-TTTCAT
1 TTTTTTCATTTTATTTCAT
10743002 TTTTTTCATTTTCATTTCAT
1 TTTTTTCATTTT-ATTTCAT
* * *
10743022 TTTAATTTTATTTCATTCCAAT
1 TTT--TTTCATTTTATTTC-AT
*
10743044 TTCATTTCATTTTAATTTCAT
1 TT-TTTTCATTTT-ATTTCAT
10743065 TT
1 TT
10743067 CCATTCCTAT
Statistics
Matches: 51, Mismatches: 7, Indels: 11
0.74 0.10 0.16
Matches are distributed among these distances:
18 12 0.24
20 9 0.18
21 15 0.29
22 15 0.29
ACGTcount: A:0.19, C:0.13, G:0.00, T:0.67
Consensus pattern (19 bp):
TTTTTTCATTTTATTTCAT
Found at i:10743021 original size:5 final size:5
Alignment explanation
Indices: 10742987--10743094 Score: 76
Period size: 5 Copynumber: 20.6 Consensus size: 5
10742977 AATTTTCTTT
* * * *
10742987 TTTCA TTT-T TTTCA TTT-T TTTCA TTTTCA TTTCA TTTTAA TTTTA TTTCA
1 TTTCA TTTCA TTTCA TTTCA TTTCA -TTTCA TTTCA -TTTCA TTTCA TTTCA
* * *
10743037 TTCCAA TTTCA TTTCA TTTTAA TTTCA TTTCCA TTCCTA TTTCCA TTTCA
1 TTTC-A TTTCA TTTCA -TTTCA TTTCA TTT-CA TTTC-A TTT-CA TTTCA
10743087 TTTCA TTT
1 TTTCA TTT
10743095 AAATTATACT
Statistics
Matches: 81, Mismatches: 13, Indels: 18
0.72 0.12 0.16
Matches are distributed among these distances:
4 6 0.07
5 46 0.57
6 28 0.35
7 1 0.01
ACGTcount: A:0.19, C:0.18, G:0.00, T:0.63
Consensus pattern (5 bp):
TTTCA
Found at i:10743029 original size:11 final size:11
Alignment explanation
Indices: 10742987--10743094 Score: 93
Period size: 11 Copynumber: 10.3 Consensus size: 11
10742977 AATTTTCTTT
10742987 TTTCATTTT--
1 TTTCATTTTCA
10742996 TTTCATTTT--
1 TTTCATTTTCA
10743005 TTTCATTTTCA
1 TTTCATTTTCA
*
10743016 TTTCATTTTAA
1 TTTCATTTTCA
*
10743027 TTTTA-TTTCA
1 TTTCATTTTCA
* *
10743037 TTCCAATTTCA
1 TTTCATTTTCA
*
10743048 TTTCATTTTAA
1 TTTCATTTTCA
*
10743059 TTTCATTTCCA
1 TTTCATTTTCA
* *
10743070 TTCCTATTTCCA
1 TTTC-ATTTTCA
10743082 TTTCA-TTTCA
1 TTTCATTTTCA
10743092 TTT
1 TTT
10743095 AAATTATACT
Statistics
Matches: 82, Mismatches: 13, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
9 18 0.22
10 14 0.17
11 40 0.49
12 10 0.12
ACGTcount: A:0.19, C:0.18, G:0.00, T:0.63
Consensus pattern (11 bp):
TTTCATTTTCA
Found at i:10743044 original size:16 final size:16
Alignment explanation
Indices: 10743011--10743088 Score: 84
Period size: 16 Copynumber: 4.8 Consensus size: 16
10743001 TTTTTTTCAT
**
10743011 TTTCATTTCATTTTAA
1 TTTCATTTCATTCCAA
*
10743027 TTTTATTTCATTCCAA
1 TTTCATTTCATTCCAA
**
10743043 TTTCATTTCATTTTAA
1 TTTCATTTCATTCCAA
*
10743059 TTTCATTTCCATTCCTA
1 TTTCATTT-CATTCCAA
10743076 TTTCCATTTCATT
1 TTT-CATTTCATT
10743089 TCATTTAAAT
Statistics
Matches: 51, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
16 34 0.67
17 12 0.24
18 5 0.10
ACGTcount: A:0.22, C:0.19, G:0.00, T:0.59
Consensus pattern (16 bp):
TTTCATTTCATTCCAA
Found at i:10743128 original size:21 final size:20
Alignment explanation
Indices: 10743087--10743129 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
10743077 TTCCATTTCA
*
10743087 TTTCATTTAAATTATACTTT
1 TTTCAATTAAATTATACTTT
*
10743107 TTTCAATTAAATT-TATTTT
1 TTTCAATTAAATTATACTTT
10743126 TTTC
1 TTTC
10743130 TCAATTCATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 9 0.43
20 12 0.57
ACGTcount: A:0.28, C:0.09, G:0.00, T:0.63
Consensus pattern (20 bp):
TTTCAATTAAATTATACTTT
Found at i:10743421 original size:54 final size:55
Alignment explanation
Indices: 10743286--10743411 Score: 202
Period size: 54 Copynumber: 2.3 Consensus size: 55
10743276 CATACTCTTT
* *
10743286 TGCCGGCCATTGACAGGCCAATACC-AAAAAATTTGATTTTTTTTTTGCACTTGG
1 TGCCGGCCATTGACAGGCCAACACCAAAAAAATTTGATTTTTTTTTCGCACTTGG
*
10743340 TGCCGGCCATTGACAGGCCAACACCAAAAAAATTTGA-TTTTTTTTCGTACTTGG
1 TGCCGGCCATTGACAGGCCAACACCAAAAAAATTTGATTTTTTTTTCGCACTTGG
*
10743394 TGCCGGCCATTAACAGGC
1 TGCCGGCCATTGACAGGC
10743412 GAGAACCAAA
Statistics
Matches: 67, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
54 56 0.84
55 11 0.16
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.31
Consensus pattern (55 bp):
TGCCGGCCATTGACAGGCCAACACCAAAAAAATTTGATTTTTTTTTCGCACTTGG
Found at i:10745762 original size:37 final size:37
Alignment explanation
Indices: 10745608--10745761 Score: 228
Period size: 37 Copynumber: 4.3 Consensus size: 37
10745598 TAAATTGTTG
*
10745608 GTGTGGAGATTATGTCCGGGTAAGACCCAATGACTAC
1 GTGTGGAGATTATGTCCGGGTAAGACCCGATGACTAC
10745645 GTGTGGAGATTATGTCCGGGTAAGACCCGATGACTAC
1 GTGTGGAGATTATGTCCGGGTAAGACCCGATGACTAC
*
10745682 GTGTGGAGAGTATGTCC-GG---G-CCCGATGACTAC
1 GTGTGGAGATTATGTCCGGGTAAGACCCGATGACTAC
* * *
10745714 GTGTGGAGATTTTGTCCGGGTAAGACCCGATAACTTC
1 GTGTGGAGATTATGTCCGGGTAAGACCCGATGACTAC
10745751 GTGTGGAGATT
1 GTGTGGAGATT
10745762 TCGTCTGAGC
Statistics
Matches: 106, Mismatches: 6, Indels: 10
0.87 0.05 0.08
Matches are distributed among these distances:
32 27 0.25
33 3 0.03
36 3 0.03
37 73 0.69
ACGTcount: A:0.23, C:0.18, G:0.33, T:0.26
Consensus pattern (37 bp):
GTGTGGAGATTATGTCCGGGTAAGACCCGATGACTAC
Found at i:10746689 original size:17 final size:17
Alignment explanation
Indices: 10746665--10746700 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
10746655 AAGGTTTCTT
*
10746665 TTTTTTTTTTCA-TTTA
1 TTTTCTTTTTCATTTTA
10746681 TTTTCTTTTTCATTTTA
1 TTTTCTTTTTCATTTTA
10746698 TTT
1 TTT
10746701 CATTCTAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 11 0.61
17 7 0.39
ACGTcount: A:0.11, C:0.08, G:0.00, T:0.81
Consensus pattern (17 bp):
TTTTCTTTTTCATTTTA
Found at i:10746727 original size:6 final size:5
Alignment explanation
Indices: 10746688--10746749 Score: 70
Period size: 5 Copynumber: 11.6 Consensus size: 5
10746678 TTATTTTCTT
* *
10746688 TTTCA TTTTA TTTCA TTCTAA TTTCA TTTCCA TTCTCA TTTCCA TTTCA
1 TTTCA TTTCA TTTCA TT-TCA TTTCA TTT-CA TT-TCA TTT-CA TTTCA
10746737 TTTCA TTTCA TTT
1 TTTCA TTTCA TTT
10746750 AAATTATATT
Statistics
Matches: 49, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
5 31 0.63
6 17 0.35
7 1 0.02
ACGTcount: A:0.19, C:0.21, G:0.00, T:0.60
Consensus pattern (5 bp):
TTTCA
Found at i:10746728 original size:12 final size:11
Alignment explanation
Indices: 10746708--10746749 Score: 68
Period size: 12 Copynumber: 3.8 Consensus size: 11
10746698 TTTCATTCTA
10746708 ATTTCATTTCC
1 ATTTCATTTCC
10746719 ATTCTCATTTCC
1 ATT-TCATTTCC
10746731 ATTTCATTT-C
1 ATTTCATTTCC
10746741 ATTTCATTT
1 ATTTCATTT
10746750 AAATTATATT
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
10 10 0.33
11 9 0.30
12 11 0.37
ACGTcount: A:0.19, C:0.24, G:0.00, T:0.57
Consensus pattern (11 bp):
ATTTCATTTCC
Found at i:10746734 original size:23 final size:21
Alignment explanation
Indices: 10746688--10746749 Score: 72
Period size: 21 Copynumber: 2.9 Consensus size: 21
10746678 TTATTTTCTT
* *
10746688 TTTCATTTTATTTCA-TTCTAA
1 TTTCATTTCATTTCATTTC-CA
10746709 TTTCATTTCCATTCTCATTTCCA
1 TTTCATTT-CATT-TCATTTCCA
10746732 TTTCATTTCATTTCATTT
1 TTTCATTTCATTTCATTT
10746750 AAATTATATT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
21 14 0.39
22 7 0.19
23 12 0.33
24 3 0.08
ACGTcount: A:0.19, C:0.21, G:0.00, T:0.60
Consensus pattern (21 bp):
TTTCATTTCATTTCATTTCCA
Found at i:10746760 original size:21 final size:20
Alignment explanation
Indices: 10746731--10746785 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 20
10746721 TCTCATTTCC
10746731 ATTTCATTTCATTTC-ATTTAA
1 ATTT-ATTT-ATTTCAATTTAA
*
10746752 ATTATATTTTTTTCAATTTAA
1 ATT-TATTTATTTCAATTTAA
*
10746773 ATTTATTTTTTTC
1 ATTTATTTATTTC
10746786 TCAATTCATT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
20 14 0.45
21 16 0.52
22 1 0.03
ACGTcount: A:0.27, C:0.09, G:0.00, T:0.64
Consensus pattern (20 bp):
ATTTATTTATTTCAATTTAA
Found at i:10746783 original size:22 final size:22
Alignment explanation
Indices: 10746742--10746827 Score: 81
Period size: 22 Copynumber: 4.0 Consensus size: 22
10746732 TTTCATTTCA
*
10746742 TTTC-ATTTAAA-TTATATTTT
1 TTTCAATTTAAATTTATTTTTT
10746762 TTTCAATTTAAATTTATTTTTT
1 TTTCAATTTAAATTTATTTTTT
* * *
10746784 TCTCAA-TT-CATTTATATTATT
1 TTTCAATTTAAATTTAT-TTTTT
* *
10746805 TTTAAATTTAAATTTAATTTTT
1 TTTCAATTTAAATTTATTTTTT
10746827 T
1 T
10746828 CCTCATTTCA
Statistics
Matches: 52, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
20 10 0.19
21 17 0.33
22 20 0.38
23 5 0.10
ACGTcount: A:0.30, C:0.06, G:0.00, T:0.64
Consensus pattern (22 bp):
TTTCAATTTAAATTTATTTTTT
Found at i:10746816 original size:43 final size:43
Alignment explanation
Indices: 10746753--10746847 Score: 138
Period size: 44 Copynumber: 2.2 Consensus size: 43
10746743 TTCATTTAAA
* *
10746753 TTATATTTTTTTCAATTTAAATTT-ATTTTTTTCTCAATTCAT
1 TTATATTTTTTTAAATTTAAATTTAATTTTTTCCTCAATTCAT
*
10746795 TTATATTATTTTTAAATTTAAATTTAATTTTTTCCTCATTTCAT
1 TTATATT-TTTTTAAATTTAAATTTAATTTTTTCCTCAATTCAT
*
10746839 TTAAATTTT
1 TTATATTTT
10746848 CTATTTTTCA
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
42 7 0.15
43 18 0.38
44 22 0.47
ACGTcount: A:0.28, C:0.08, G:0.00, T:0.63
Consensus pattern (43 bp):
TTATATTTTTTTAAATTTAAATTTAATTTTTTCCTCAATTCAT
Found at i:10746827 original size:21 final size:22
Alignment explanation
Indices: 10746742--10746827 Score: 94
Period size: 21 Copynumber: 4.1 Consensus size: 22
10746732 TTTCATTTCA
10746742 TTTC-ATTTAAA-TTATATTTT
1 TTTCAATTTAAATTTATATTTT
10746762 TTTCAATTTAAATTTAT-TTTT
1 TTTCAATTTAAATTTATATTTT
*
10746783 TTCTCAA-TT-CATTTATATTATT
1 TT-TCAATTTAAATTTATATT-TT
*
10746805 TTTAAATTTAAATTTA-ATTTT
1 TTTCAATTTAAATTTATATTTT
10746826 TT
1 TT
10746828 CCTCATTTCA
Statistics
Matches: 56, Mismatches: 3, Indels: 13
0.78 0.04 0.18
Matches are distributed among these distances:
20 10 0.18
21 24 0.43
22 17 0.30
23 5 0.09
ACGTcount: A:0.30, C:0.06, G:0.00, T:0.64
Consensus pattern (22 bp):
TTTCAATTTAAATTTATATTTT
Found at i:10746980 original size:52 final size:53
Alignment explanation
Indices: 10746871--10746980 Score: 116
Period size: 52 Copynumber: 2.1 Consensus size: 53
10746861 CAAATTTAAT
* * ***
10746871 TTTTTTAAATACTGGTACTCTGGTGCCAGCCATTAACAGGCCAGAAGCAATTT
1 TTTTTTAAATACTCGTACTCTGGTGCCAGCCATTAACAGGCCAGAAGAAAAAA
* * * *
10746924 TTTTTTAAA-ACTCGTACTCTGGTGTCGGCCATTGACAGGCTAGCAA-AAAAAA
1 TTTTTTAAATACTCGTACTCTGGTGCCAGCCATTAACAGGCCAG-AAGAAAAAA
10746976 TTTTT
1 TTTTT
10746981 GATTTTTTTT
Statistics
Matches: 47, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
52 36 0.77
53 11 0.23
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.34
Consensus pattern (53 bp):
TTTTTTAAATACTCGTACTCTGGTGCCAGCCATTAACAGGCCAGAAGAAAAAA
Found at i:10747420 original size:51 final size:50
Alignment explanation
Indices: 10747343--10747586 Score: 260
Period size: 50 Copynumber: 4.8 Consensus size: 50
10747333 AATATCAGTA
* * * *
10747343 TTTAAAAAAATTGGTTCTGACCTGTCAATGGCTGGCACCAGAGTACGAGT
1 TTTAAAAAAAATGGTGCTGGCCTGTCAATGGCTGGCACCAAAGTACGAGT
* * *
10747393 TTTAAAAAAAAAAGGTGTTGGCTTGTCAATGGCTGGCACCAAAGTAC-ATGT
1 TTT-AAAAAAAATGGTGCTGGCCTGTCAATGGCTGGCACCAAAGTACGA-GT
* * *
10747444 TTTAAAAAAAATGGTACTGGCCTGTCAATGGCCGGCACCAAAGTACAAGT
1 TTTAAAAAAAATGGTGCTGGCCTGTCAATGGCTGGCACCAAAGTACGAGT
* * * * *
10747494 TTTAAAAAAAATTTTGGTGTTTGCCTATCAATTG-TCGGCACCAGAGTACGAGT
1 TTTAAAAAAAA---TGGTGCTGGCCTGTCAATGGCT-GGCACCAAAGTACGAGT
* *
10747547 TTT-AAAAAAATTGTGCTGGCCTGTCAATGGCCGGCACCAA
1 TTTAAAAAAAATGGTGCTGGCCTGTCAATGGCTGGCACCAA
10747587 GTAAAAAAAA
Statistics
Matches: 159, Mismatches: 27, Indels: 17
0.78 0.13 0.08
Matches are distributed among these distances:
49 22 0.14
50 55 0.35
51 42 0.26
52 7 0.04
53 33 0.21
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.27
Consensus pattern (50 bp):
TTTAAAAAAAATGGTGCTGGCCTGTCAATGGCTGGCACCAAAGTACGAGT
Found at i:10747468 original size:101 final size:101
Alignment explanation
Indices: 10747343--10747589 Score: 295
Period size: 101 Copynumber: 2.4 Consensus size: 101
10747333 AATATCAGTA
* * * * *
10747343 TTTAAAAAAATTGGTTCTGACCTGTCAATGGCTGGCACCAGAGTACGAGTTTTAAAAAAAA-AAG
1 TTTAAAAAAAATGGTACTGGCCTGTCAATGGCCGGCACCA-AGTACAAGTTTTAAAAAAAATAAG
* *
10747407 GTGTTGGCTTGTCAATGG-CTGGCACCAAAGTAC-ATGT
65 GTGTTGGCCTATCAATGGTC-GGCACCAAAGTACGA-GT
**
10747444 TTTAAAAAAAATGGTACTGGCCTGTCAATGGCCGGCACCAAAGTACAAGTTTTAAAAAAAATTTT
1 TTTAAAAAAAATGGTACTGGCCTGTCAATGGCCGGCACC-AAGTACAAGTTTTAAAAAAAA-TAA
* * *
10747509 GGTGTTTGCCTATCAATTGTCGGCACCAGAGTACGAGT
64 GGTGTTGGCCTATCAATGGTCGGCACCAAAGTACGAGT
* *
10747547 TTT-AAAAAAATTGTGCTGGCCTGTCAATGGCCGGCACCAAGTA
1 TTTAAAAAAAATGGTACTGGCCTGTCAATGGCCGGCACCAAGTA
10747590 AAAAAAAATC
Statistics
Matches: 127, Mismatches: 14, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
101 59 0.46
102 34 0.27
103 32 0.25
104 2 0.02
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.28
Consensus pattern (101 bp):
TTTAAAAAAAATGGTACTGGCCTGTCAATGGCCGGCACCAAGTACAAGTTTTAAAAAAAATAAGG
TGTTGGCCTATCAATGGTCGGCACCAAAGTACGAGT
Found at i:10747789 original size:11 final size:11
Alignment explanation
Indices: 10747770--10747854 Score: 66
Period size: 11 Copynumber: 7.8 Consensus size: 11
10747760 AAGATTTTTT
10747770 TTTTCATTTCA
1 TTTTCATTTCA
* *
10747781 TTTTAATTTTA
1 TTTTCATTTCA
*
10747792 -TTTCATTCCA
1 TTTTCATTTCA
*
10747802 ATTTCATTTCA
1 TTTTCATTTCA
* *
10747813 TTCTAATTTCA
1 TTTTCATTTCA
* *
10747824 TTTCCATTCTTA
1 TTTTCATT-TCA
*
10747836 TTTCCATTTCA
1 TTTTCATTTCA
10747847 -TTTCATTT
1 TTTTCATTT
10747855 AAATTATATT
Statistics
Matches: 57, Mismatches: 15, Indels: 5
0.74 0.19 0.06
Matches are distributed among these distances:
10 14 0.25
11 33 0.58
12 10 0.18
ACGTcount: A:0.21, C:0.19, G:0.00, T:0.60
Consensus pattern (11 bp):
TTTTCATTTCA
Found at i:10747794 original size:16 final size:16
Alignment explanation
Indices: 10747771--10747849 Score: 88
Period size: 16 Copynumber: 4.8 Consensus size: 16
10747761 AGATTTTTTT
10747771 TTTCATTTCATTTTAA
1 TTTCATTTCATTTTAA
* **
10747787 TTTTATTTCATTCCAA
1 TTTCATTTCATTTTAA
*
10747803 TTTCATTTCATTCTAA
1 TTTCATTTCATTTTAA
10747819 TTTCATTTCCATTCTT-A
1 TTTCATTT-CATT-TTAA
10747836 TTTCCATTTCATTT
1 TTT-CATTTCATTT
10747850 CATTTAAATT
Statistics
Matches: 54, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
16 36 0.67
17 12 0.22
18 6 0.11
ACGTcount: A:0.22, C:0.19, G:0.00, T:0.59
Consensus pattern (16 bp):
TTTCATTTCATTTTAA
Found at i:10747844 original size:6 final size:5
Alignment explanation
Indices: 10747771--10747854 Score: 69
Period size: 5 Copynumber: 15.6 Consensus size: 5
10747761 AGATTTTTTT
* * * *
10747771 TTTCA TTTCA TTTTAA TTTTA TTTCA TTCCAA TTTCA TTTCA TTCTAA
1 TTTCA TTTCA -TTTCA TTTCA TTTCA TTTC-A TTTCA TTTCA TT-TCA
*
10747819 TTTCA TTTCCA TTCTTA TTTCCA TTTCA TTTCA TTT
1 TTTCA TTT-CA TT-TCA TTT-CA TTTCA TTTCA TTT
10747855 AAATTATATT
Statistics
Matches: 64, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
5 40 0.62
6 23 0.36
7 1 0.02
ACGTcount: A:0.21, C:0.19, G:0.00, T:0.60
Consensus pattern (5 bp):
TTTCA
Found at i:10747884 original size:18 final size:19
Alignment explanation
Indices: 10747847--10747886 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
10747837 TTCCATTTCA
*
10747847 TTTCATTTAAATTATATTT
1 TTTCAATTAAATTATATTT
10747866 TTTCAATTAAATT-TATTT
1 TTTCAATTAAATTATATTT
10747884 TTT
1 TTT
10747887 TCTCAATTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 8 0.40
19 12 0.60
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.65
Consensus pattern (19 bp):
TTTCAATTAAATTATATTT
Found at i:10747887 original size:19 final size:19
Alignment explanation
Indices: 10747847--10747931 Score: 64
Period size: 21 Copynumber: 4.2 Consensus size: 19
10747837 TTCCATTTCA
*
10747847 TTTCATTTAAA-TTATATTT
1 TTTCAATTAAATTTAT-TTT
10747866 TTTCAATTAAATTTATTTTT
1 TTTCAATTAAATTTA-TTTT
* *
10747886 TTCTCAATTCATTTATATTATT
1 TT-TCAATTAAATT-TATT-TT
* *
10747908 TTTAAATTTAAATTTAATTT
1 TTTCAA-TTAAATTTATTTT
10747928 TTTC
1 TTTC
10747932 CTCATTTCAT
Statistics
Matches: 52, Mismatches: 8, Indels: 11
0.73 0.11 0.15
Matches are distributed among these distances:
19 10 0.19
20 13 0.25
21 18 0.35
22 11 0.21
ACGTcount: A:0.31, C:0.07, G:0.00, T:0.62
Consensus pattern (19 bp):
TTTCAATTAAATTTATTTT
Found at i:10747943 original size:44 final size:45
Alignment explanation
Indices: 10747844--10747948 Score: 135
Period size: 44 Copynumber: 2.4 Consensus size: 45
10747834 TATTTCCATT
* *
10747844 TCATTTCATTTAAATTATATTTTTTCAATTAAATTTATTTTTTTC
1 TCATTTCATTTAAATTATATTTTTTAAATTAAATTTATTTTTTCC
* *
10747889 TCAATTCATTTATA-T-TA-TTTTTAAATTTAAATTTAATTTTTTCC
1 TCATTTCATTTAAATTATATTTTTTAAA-TTAAATTT-ATTTTTTCC
10747933 TCATTTCATTTAAATT
1 TCATTTCATTTAAATT
10747949 TTCTATTTTT
Statistics
Matches: 51, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
42 7 0.14
43 10 0.20
44 21 0.41
45 13 0.25
ACGTcount: A:0.30, C:0.10, G:0.00, T:0.60
Consensus pattern (45 bp):
TCATTTCATTTAAATTATATTTTTTAAATTAAATTTATTTTTTCC
Found at i:10748108 original size:53 final size:53
Alignment explanation
Indices: 10747985--10748124 Score: 138
Period size: 53 Copynumber: 2.6 Consensus size: 53
10747975 TTTTAAATAC
* * * *
10747985 TGGTGCCGGCCATTAACAGGCTAGCACCAAAAAAATTTGATTTTTTTTTTTGTACT
1 TGGTGCC-GCCATTGACAGGCCAACACCAAAAAAATTTGA--TTTTTTTTCGTACT
* * *
10748041 TGGTGCCTGCCATTGATAGGCCAACACCAAAAAATTTTGA-TTTTTTTCGTGCT
1 TGGTGCC-GCCATTGACAGGCCAACACCAAAAAAATTTGATTTTTTTTCGTACT
* * *
10748094 TGGTGCCGACCATTGGCACGCCAGCACCAAA
1 TGGTGCCG-CCATTGACAGGCCAACACCAAA
10748125 TTTTTTTTTT
Statistics
Matches: 71, Mismatches: 12, Indels: 5
0.81 0.14 0.06
Matches are distributed among these distances:
52 1 0.01
53 36 0.51
56 34 0.48
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.31
Consensus pattern (53 bp):
TGGTGCCGCCATTGACAGGCCAACACCAAAAAAATTTGATTTTTTTTCGTACT
Found at i:10748643 original size:52 final size:53
Alignment explanation
Indices: 10748576--10748679 Score: 131
Period size: 52 Copynumber: 2.0 Consensus size: 53
10748566 ATCAATTTTT
* * **
10748576 TTTGGTGCTAGCCTGTTAATGGTC-GATACCAGAGTATGAGT-TTTAAAAAAAA
1 TTTGGTGCTAGCCTGTCAATGGCCAG-TACCAGAGTACCAGTATTTAAAAAAAA
* *
10748628 TTTGTTGCTGGCCTGTCAATGGCCAGTACCAGAGTACCAGTATTTAAAAAAA
1 TTTGGTGCTAGCCTGTCAATGGCCAGTACCAGAGTACCAGTATTTAAAAAAA
10748680 TTAAATTTGC
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
52 33 0.75
53 11 0.25
ACGTcount: A:0.32, C:0.15, G:0.22, T:0.31
Consensus pattern (53 bp):
TTTGGTGCTAGCCTGTCAATGGCCAGTACCAGAGTACCAGTATTTAAAAAAAA
Found at i:10748731 original size:48 final size:43
Alignment explanation
Indices: 10748674--10748789 Score: 133
Period size: 43 Copynumber: 2.6 Consensus size: 43
10748664 CCAGTATTTA
** *
10748674 AAAAAATTAAATTTGCATTGAAAAATAGAAAATTTAAATGAATTGAGG
1 AAAAAATTAAATTTAAATTGAAAAAT----AATATAAATGAATTGA-G
* *
10748722 AAAAAATTAAAATTAAATTTAAAAATAATATAAATGAATTGAG
1 AAAAAATTAAATTTAAATTGAAAAATAATATAAATGAATTGAG
*
10748765 AAAAAAATAAATTTAAATTGAAAAA
1 AAAAAATTAAATTTAAATTGAAAAA
10748790 AAAAATATAA
Statistics
Matches: 60, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
43 23 0.38
44 15 0.25
48 22 0.37
ACGTcount: A:0.61, C:0.01, G:0.09, T:0.28
Consensus pattern (43 bp):
AAAAAATTAAATTTAAATTGAAAAATAATATAAATGAATTGAG
Found at i:10748734 original size:22 final size:21
Alignment explanation
Indices: 10748702--10748775 Score: 62
Period size: 22 Copynumber: 3.4 Consensus size: 21
10748692 TGAAAAATAG
*
10748702 AAAATTTAAATGAATTGAGGAA
1 AAAATTAAAATGAATTGA-GAA
* *
10748724 AAAATTAAAATTAAATTTA-AA
1 AAAATTAAAA-TGAATTGAGAA
10748745 AATAA-TATAAATGAATTGAGAA
1 AA-AATTA-AAATGAATTGAGAA
*
10748767 AAAAATAAA
1 AAAATTAAA
10748776 TTTAAATTGA
Statistics
Matches: 42, Mismatches: 5, Indels: 11
0.72 0.09 0.19
Matches are distributed among these distances:
21 16 0.38
22 20 0.48
23 6 0.14
ACGTcount: A:0.64, C:0.00, G:0.09, T:0.27
Consensus pattern (21 bp):
AAAATTAAAATGAATTGAGAA
Found at i:10748790 original size:44 final size:45
Alignment explanation
Indices: 10748702--10748799 Score: 128
Period size: 43 Copynumber: 2.2 Consensus size: 45
10748692 TGAAAAATAG
* * *
10748702 AAAATTTAAATGAATTGAGGAAAAAATTAAAATTAAATT-TAAAA
1 AAAATATAAATGAATTGAGGAAAAAAATAAAATTAAATTAAAAAA
* *
10748746 ATAATATAAATGAATTGA-GAAAAAAATAAATTTAAATTGAAAAAA
1 AAAATATAAATGAATTGAGGAAAAAAATAAAATTAAATT-AAAAAA
10748791 AAAATATAA
1 AAAATATAA
10748800 TTTAAATGAA
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
43 18 0.39
44 16 0.35
45 12 0.26
ACGTcount: A:0.64, C:0.00, G:0.08, T:0.28
Consensus pattern (45 bp):
AAAATATAAATGAATTGAGGAAAAAAATAAAATTAAATTAAAAAA
Found at i:10748809 original size:23 final size:23
Alignment explanation
Indices: 10748722--10748810 Score: 78
Period size: 23 Copynumber: 4.0 Consensus size: 23
10748712 TGAATTGAGG
* * *
10748722 AAAAAATTAAAATTAAATTTAAA
1 AAAAAAATAAATTTAAATTGAAA
* * * *
10748745 AATAATATAAA-T-GAATTG-AG
1 AAAAAAATAAATTTAAATTGAAA
10748765 AAAAAAATAAATTTAAATTGAAA
1 AAAAAAATAAATTTAAATTGAAA
10748788 AAAAAAATATAATTTAAA-TGAAA
1 AAAAAAATA-AATTTAAATTGAAA
10748811 TGAAATGGAA
Statistics
Matches: 52, Mismatches: 10, Indels: 8
0.74 0.14 0.11
Matches are distributed among these distances:
20 10 0.19
21 5 0.10
22 6 0.12
23 23 0.44
24 8 0.15
ACGTcount: A:0.66, C:0.00, G:0.06, T:0.28
Consensus pattern (23 bp):
AAAAAAATAAATTTAAATTGAAA
Found at i:10748823 original size:6 final size:5
Alignment explanation
Indices: 10748803--10748886 Score: 60
Period size: 5 Copynumber: 15.6 Consensus size: 5
10748793 AATATAATTT
* * *
10748803 AAATG AAATG AAATGG AAATGG GAATGG AAATG AAATT AGAATG AAATA
1 AAATG AAATG AAAT-G AAAT-G AAAT-G AAATG AAATG A-AATG AAATG
* **
10748852 AAATTA AAATG AAATG AAAATG AAAAA AAATG AAA
1 AAA-TG AAATG AAATG -AAATG AAATG AAATG AAA
10748887 AAAGAAAAAG
Statistics
Matches: 65, Mismatches: 10, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
5 36 0.55
6 29 0.45
ACGTcount: A:0.62, C:0.00, G:0.19, T:0.19
Consensus pattern (5 bp):
AAATG
Found at i:10748873 original size:27 final size:27
Alignment explanation
Indices: 10748826--10748887 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
10748816 TGGAAATGGG
* * * *
10748826 AATGGAAATGAAATTAGAATGAAATAA
1 AATGAAAATGAAATGAAAATGAAAAAA
*
10748853 AATTAAAATGAAATGAAAATGAAAAAA
1 AATGAAAATGAAATGAAAATGAAAAAA
10748880 AATGAAAA
1 AATGAAAA
10748888 AAGAAAAAGA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.66, C:0.00, G:0.15, T:0.19
Consensus pattern (27 bp):
AATGAAAATGAAATGAAAATGAAAAAA
Found at i:10748887 original size:6 final size:6
Alignment explanation
Indices: 10748803--10748887 Score: 51
Period size: 6 Copynumber: 15.5 Consensus size: 6
10748793 AATATAATTT
* * * * * *
10748803 AAATG- AAATG- AAATGG AAATGG GAATGG AAATG- AAATTA GAATG-
1 AAATGA AAATGA AAATGA AAATGA AAATGA AAATGA AAATGA AAATGA
*
10748847 AAAT-A AAATTA AAATG- AAATGA AAATGA AAA--A AAATGA AAA
1 AAATGA AAATGA AAATGA AAATGA AAATGA AAATGA AAATGA AAA
10748888 AAGAAAAAGA
Statistics
Matches: 66, Mismatches: 7, Indels: 13
0.77 0.08 0.15
Matches are distributed among these distances:
4 4 0.06
5 26 0.39
6 36 0.55
ACGTcount: A:0.62, C:0.00, G:0.19, T:0.19
Consensus pattern (6 bp):
AAATGA
Found at i:10749214 original size:107 final size:108
Alignment explanation
Indices: 10749011--10749260 Score: 285
Period size: 107 Copynumber: 2.3 Consensus size: 108
10749001 AGCAAACTTC
* * *
10749011 AAAAAAAAAATTAAATATTGGTACTCTGGTGCCTGCCATTGTCAGGCCTGCATCAAATTTTTTTA
1 AAAAAAAAAATTAAA-ACTCGTACTCTGGTGCCAGCCATTGTCAGGCCTGCAT-AAATTTTTTTA
* * *
10749076 GAAAAAACTCGTACTTTGGTGCTAGCCATTGACAGG-TCAGCACCA
64 GAAAAAACACGTACTCTGGTGCTAGCAATTGACAGGCT-AGCACCA
* *
10749121 AAAAAAAAAATTAAAACTCGTACTCTGGTGCCAGCCATTGAT-AGG-TTAGCAT-AATTTTTTTT
1 AAAAAAAAAATTAAAACTCGTACTCTGGTGCCAGCCATTG-TCAGGCCT-GCATAAATTTTTTTA
*
10749183 TAAAAAACACGTACTCTGGTGCT-GACAATTGACAGGCTAGCACCA
64 GAAAAAACACGTACTCTGGTGCTAG-CAATTGACAGGCTAGCACCA
** *
10749228 AAAAAAAATTTTTAAAAACTCATACTCTGGTGC
1 AAAAAAAA-AATT-AAAACTCGTACTCTGGTGC
10749261 TGACAATTGA
Statistics
Matches: 122, Mismatches: 12, Indels: 13
0.83 0.08 0.09
Matches are distributed among these distances:
106 1 0.01
107 54 0.44
108 4 0.03
109 47 0.39
110 16 0.13
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.29
Consensus pattern (108 bp):
AAAAAAAAAATTAAAACTCGTACTCTGGTGCCAGCCATTGTCAGGCCTGCATAAATTTTTTTAGA
AAAAACACGTACTCTGGTGCTAGCAATTGACAGGCTAGCACCA
Found at i:10752188 original size:59 final size:57
Alignment explanation
Indices: 10752123--10752279 Score: 153
Period size: 59 Copynumber: 2.8 Consensus size: 57
10752113 GAATAGATCA
10752123 AATGCAAAGAGTTTGAGTATGTGTTGCTAGGACTTGTGAACAAGTGTTAGAAAAAAATG
1 AATGCAAAGAGTTTGAGTATGTGTTGCTAGGACTTG-GAACAAGTGTTAGAAAAAAA-G
* ** * * *
10752182 AGTGCAAAGAGTTTGAGCCTGTGTTACTA-G----GGAACAAGTGTTAGAATAGAAG
1 AATGCAAAGAGTTTGAGTATGTGTTGCTAGGACTTGGAACAAGTGTTAGAAAAAAAG
* * * * *
10752234 AATGCATAGGGTTTGAGTACGAGTTGCTTGGACTTGGGAACAAGTG
1 AATGCAAAGAGTTTGAGTATGTGTTGCTAGGACTT-GGAACAAGTG
10752280 CTATATAGGG
Statistics
Matches: 77, Mismatches: 15, Indels: 13
0.73 0.14 0.12
Matches are distributed among these distances:
52 21 0.27
53 19 0.25
54 1 0.01
58 11 0.14
59 25 0.32
ACGTcount: A:0.33, C:0.09, G:0.31, T:0.27
Consensus pattern (57 bp):
AATGCAAAGAGTTTGAGTATGTGTTGCTAGGACTTGGAACAAGTGTTAGAAAAAAAG
Found at i:10759903 original size:107 final size:107
Alignment explanation
Indices: 10759769--10759981 Score: 336
Period size: 107 Copynumber: 2.0 Consensus size: 107
10759759 GCATATAACA
* * * *
10759769 CATCTAAGGTTTACTAAGGGGAAAAAATATTAGCAATTTCATATTTCCATTGCATGGGGCCTCAT
1 CATCTAAGGTTCACTAAGGGGAAAAAATATGAGCAATTTCATATTTCCATTACATGAGGCCTCAT
*
10759834 AACATATGAATCCATATTTCAGAGCAAACTTTCATGCTCAAT
66 AACATATGAATCCATAGTTCAGAGCAAACTTTCATGCTCAAT
**
10759876 CATCTAAGGTTCACTAAGGGGGGAAAATATGAGCAATTTCATATTTCCATTACATGAGGCCTCAT
1 CATCTAAGGTTCACTAAGGGGAAAAAATATGAGCAATTTCATATTTCCATTACATGAGGCCTCAT
* * *
10759941 AACATATGAATCCATAGTTCAGAGCACACTTTTATGTTCAA
66 AACATATGAATCCATAGTTCAGAGCAAACTTTCATGCTCAA
10759982 CAAGCACTCT
Statistics
Matches: 96, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
107 96 1.00
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (107 bp):
CATCTAAGGTTCACTAAGGGGAAAAAATATGAGCAATTTCATATTTCCATTACATGAGGCCTCAT
AACATATGAATCCATAGTTCAGAGCAAACTTTCATGCTCAAT
Found at i:10764514 original size:2 final size:2
Alignment explanation
Indices: 10764507--10764534 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
10764497 CAAGGGATGC
10764507 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10764535 TTGTGTCATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10766900 original size:39 final size:39
Alignment explanation
Indices: 10766857--10766984 Score: 184
Period size: 39 Copynumber: 3.3 Consensus size: 39
10766847 GGTCTTTAAC
** *
10766857 CCGGATATTTTTCCAGCACGTAGCCTGCGGACCTCAAGT
1 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
* * *
10766896 CCGGATATATTTCTAGCATATAGCCTGCGGATCTCATGT
1 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
*
10766935 CCAGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
1 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
*
10766974 CTGGATATTTT
1 CCGGATATTTT
10766985 CAATCTCATA
Statistics
Matches: 77, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 77 1.00
ACGTcount: A:0.22, C:0.26, G:0.20, T:0.32
Consensus pattern (39 bp):
CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
Found at i:10771346 original size:29 final size:30
Alignment explanation
Indices: 10771287--10771356 Score: 72
Period size: 29 Copynumber: 2.3 Consensus size: 30
10771277 AGATTTATCC
***
10771287 TTATTAAATTGAATATTTTTTTGTGAAAAA
1 TTATTAAATTGAATATTTGGATGTGAAAAA
*
10771317 -TATTAAATTGAATCTTTGGATG-GAATAAA
1 TTATTAAATTGAATATTTGGATGTGAA-AAA
10771346 TTGATTAAATT
1 TT-ATTAAATT
10771357 CGTTGGAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
28 3 0.09
29 21 0.64
30 1 0.03
31 8 0.24
ACGTcount: A:0.40, C:0.01, G:0.13, T:0.46
Consensus pattern (30 bp):
TTATTAAATTGAATATTTGGATGTGAAAAA
Found at i:10774826 original size:169 final size:162
Alignment explanation
Indices: 10774549--10774872 Score: 434
Period size: 169 Copynumber: 2.0 Consensus size: 162
10774539 ACTAAGTTTG
*
10774549 ATTAATTAAACTTCAATAGTTAAATGATTATTTAAAAAAAAAAATATTTTCTGACTGTAGGTGAC
1 ATTAATTAAACTTCAATAGATAAATGATTATTT-AAAAAAAAAATATTTTCTGACTGTAGGTGAC
* * * * *
10774614 ATATTAGCAAATTATCTTTGTTTGTATTTGCCACACTATTAACCAAATGCCATATAGGAGTTAAG
65 ATATTAGCAAATTATATTTGTATGCATTTGCCACACCATTAACCAAATGCCATATAGGAGTTAAC
10774679 AATGCTATTGCTAACATTAGCATTTTCCGTCCA
130 AATGCTATTGCTAACATTAGCATTTTCCGTCCA
* ** *
10774712 ATTAATTGAAACTTGAATAAGATAAATGATTATTT-AAAAAAGCATATTTTGTGACTGTAGGTGA
1 ATTAATT-AAACTTCAAT-AGATAAATGATTATTTAAAAAAAAAATATTTTCTGACTGTA-G-G-
* *
10774776 CAATGACATATTAGGAAATTATATTTGTATGCATTTGCCACACCATTAACCGAATGCCATATAGG
61 ---TGACATATTAGCAAATTATATTTGTATGCATTTGCCACACCATTAACCAAATGCCATATAGG
**
10774841 AGTTAACAATGCTATTGCTGGCATTAGCATTT
123 AGTTAACAATGCTATTGCTAACATTAGCATTT
10774873 CCATACAATT
Statistics
Matches: 139, Mismatches: 14, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
163 28 0.20
164 10 0.07
165 16 0.12
169 85 0.61
ACGTcount: A:0.37, C:0.13, G:0.15, T:0.35
Consensus pattern (162 bp):
ATTAATTAAACTTCAATAGATAAATGATTATTTAAAAAAAAAATATTTTCTGACTGTAGGTGACA
TATTAGCAAATTATATTTGTATGCATTTGCCACACCATTAACCAAATGCCATATAGGAGTTAACA
ATGCTATTGCTAACATTAGCATTTTCCGTCCA
Found at i:10780017 original size:17 final size:16
Alignment explanation
Indices: 10779990--10780029 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
10779980 CCATAATTTA
10779990 TTTATAAAAAAATAAG
1 TTTATAAAAAAATAAG
10780006 TTTATAAAAAAATAAG
1 TTTATAAAAAAATAAG
*
10780022 TTTTTAAA
1 TTTATAAA
10780030 GTTATGACAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (16 bp):
TTTATAAAAAAATAAG
Found at i:10783422 original size:30 final size:29
Alignment explanation
Indices: 10783359--10783422 Score: 83
Period size: 30 Copynumber: 2.2 Consensus size: 29
10783349 TATATATAAC
* ** *
10783359 TATCAAGTAAGTATTTTTAATTACATGAC
1 TATCAAGTAAGTATTTTTAATTAAAAAAA
10783388 TATCAAGTAAGTATTTTTTAATTAAAAAAA
1 TATCAAGTAAGTA-TTTTTAATTAAAAAAA
10783418 TATCA
1 TATCA
10783423 TAACAATAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
29 13 0.43
30 17 0.57
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.41
Consensus pattern (29 bp):
TATCAAGTAAGTATTTTTAATTAAAAAAA
Found at i:10788865 original size:17 final size:19
Alignment explanation
Indices: 10788825--10788867 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
10788815 CAGGGGCAAA
*
10788825 ATGATTATTTTGCCAAAAT
1 ATGATTATTTTGACAAAAT
*
10788844 ATGATT-TTTTGACTAAAT
1 ATGATTATTTTGACAAAAT
10788862 -TGATTA
1 ATGATTA
10788868 GAATGAAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 5 0.24
18 10 0.48
19 6 0.29
ACGTcount: A:0.35, C:0.07, G:0.12, T:0.47
Consensus pattern (19 bp):
ATGATTATTTTGACAAAAT
Found at i:10790178 original size:17 final size:19
Alignment explanation
Indices: 10790142--10790179 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
10790132 GTAATTAGCC
10790142 TTATCATATTTGATGTATGT
1 TTATCATA-TTGATGTATGT
10790162 TTATCATA-TGA-GTATGT
1 TTATCATATTGATGTATGT
10790179 T
1 T
10790180 AGTTTATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 7 0.39
18 3 0.17
20 8 0.44
ACGTcount: A:0.26, C:0.05, G:0.16, T:0.53
Consensus pattern (19 bp):
TTATCATATTGATGTATGT
Found at i:10791422 original size:18 final size:18
Alignment explanation
Indices: 10791396--10791430 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
10791386 ATTTGAGTTG
10791396 ACTCAAATAACTCGATTA
1 ACTCAAATAACTCGATTA
*
10791414 ACTCGAATAACTCGATT
1 ACTCAAATAACTCGATT
10791431 CGTTTAACTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.40, C:0.23, G:0.09, T:0.29
Consensus pattern (18 bp):
ACTCAAATAACTCGATTA
Found at i:10791661 original size:28 final size:28
Alignment explanation
Indices: 10791621--10791678 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
10791611 TTGAAAAACG
*
10791621 ACCTATTTTTGTCCACACGGGTAGAGAC
1 ACCTATTTTTGTCCACACGGGCAGAGAC
10791649 ACCTATTTTTGTCCACACGGGCAGAGAC
1 ACCTATTTTTGTCCACACGGGCAGAGAC
10791677 AC
1 AC
10791679 GAGTGTGTGT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.26
Consensus pattern (28 bp):
ACCTATTTTTGTCCACACGGGCAGAGAC
Found at i:10791689 original size:28 final size:28
Alignment explanation
Indices: 10791630--10791689 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 28
10791620 GACCTATTTT
* * * *
10791630 TGTCCACACGGGTAGAGACACCTATTTT
1 TGTCCACACGGGCAGAGACACCGATGTG
10791658 TGTCCACACGGGCAGAGACA-CGAGTGTG
1 TGTCCACACGGGCAGAGACACCGA-TGTG
10791686 TGTC
1 TGTC
10791690 TTAGCCGTGT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 2 0.07
28 25 0.93
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.23
Consensus pattern (28 bp):
TGTCCACACGGGCAGAGACACCGATGTG
Found at i:10791785 original size:12 final size:12
Alignment explanation
Indices: 10791768--10791798 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
10791758 TCAGTAGCTT
10791768 CACACGGCCTAG
1 CACACGGCCTAG
*
10791780 CACACGGCCTGG
1 CACACGGCCTAG
10791792 CACACGG
1 CACACGG
10791799 GCATGTGCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.23, C:0.42, G:0.29, T:0.06
Consensus pattern (12 bp):
CACACGGCCTAG
Found at i:10792689 original size:43 final size:42
Alignment explanation
Indices: 10792638--10792795 Score: 163
Period size: 43 Copynumber: 3.7 Consensus size: 42
10792628 CAAAGGTTAG
* * *
10792638 CAGAATGCCACAAAGGCCATATCAGAATACTACAGAGGCTAA
1 CAGAATGCCACAAAGGCCATATCAAAATACAATAGAGGCTAA
* * * *
10792680 CCAGAATGCCACAAAGACTATATCAAAATACAATAGTGGTTAA
1 -CAGAATGCCACAAAGGCCATATCAAAATACAATAGAGGCTAA
* * * *
10792723 TAGAATTCCACAAAAGGCCATATCAAAATACCATAGAGGCTTA
1 CAGAATGCCAC-AAAGGCCATATCAAAATACAATAGAGGCTAA
* * * *
10792766 TAGAATACCACAAATGCCATGTCAAAATAC
1 CAGAATGCCACAAAGGCCATATCAAAATAC
10792796 GCCATAAAGG
Statistics
Matches: 96, Mismatches: 18, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
42 26 0.27
43 70 0.73
ACGTcount: A:0.45, C:0.22, G:0.15, T:0.19
Consensus pattern (42 bp):
CAGAATGCCACAAAGGCCATATCAAAATACAATAGAGGCTAA
Found at i:10792791 original size:85 final size:85
Alignment explanation
Indices: 10792639--10792795 Score: 201
Period size: 85 Copynumber: 1.8 Consensus size: 85
10792629 AAAGGTTAGC
* * * *
10792639 AGAATGCCACAAAGGCCATATCAGAATACTACAGAGGCTAACCAGAATGCCACAAAGACTATATC
1 AGAATGCCACAAAGGCCATATCAAAATACCACAGAGGCTAACCAGAATACCACAAAGACCATATC
10792704 AAAATACAATAGTGGTTAAT
66 AAAATACAATAGTGGTTAAT
* * * * *
10792724 AGAATTCCACAAAAGGCCATATCAAAATACCATAGAGGCTTA-TAGAATACCACAAATG-CCATG
1 AGAATGCCAC-AAAGGCCATATCAAAATACCACAGAGGCTAACCAGAATACCACAAA-GACCATA
10792787 TCAAAATAC
64 TCAAAATAC
10792796 GCCATAAAGG
Statistics
Matches: 61, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
85 33 0.54
86 28 0.46
ACGTcount: A:0.45, C:0.21, G:0.15, T:0.19
Consensus pattern (85 bp):
AGAATGCCACAAAGGCCATATCAAAATACCACAGAGGCTAACCAGAATACCACAAAGACCATATC
AAAATACAATAGTGGTTAAT
Found at i:10792814 original size:44 final size:43
Alignment explanation
Indices: 10792622--10792820 Score: 122
Period size: 43 Copynumber: 4.6 Consensus size: 43
10792612 TTGATAGAGC
* * * *
10792622 ATACCACAAAGG-TTAGCAGAATGCCAC-AAAGGCCATATCAGA
1 ATACCATAAAGGCTTA-TAGAATACCACAAAAGGCCATATCAAA
* * * * * * * *
10792664 ATACTACAGAGGCTAACCAGAATGCCAC-AAAGACTATATCAAA
1 ATACCATAAAGGCTTA-TAGAATACCACAAAAGGCCATATCAAA
* ** *
10792707 ATACAATAGTGG-TTAATAGAATTCCACAAAAGGCCATATCAAA
1 ATACCATAAAGGCTT-ATAGAATACCACAAAAGGCCATATCAAA
* * *
10792750 ATACCATAGAGGCTTATAGAATACCAC-AAATGCCATGTCAAA
1 ATACCATAAAGGCTTATAGAATACCACAAAAGGCCATATCAAA
*
10792792 ATACGCCATAAAGGC-TAGTAGAATGCCAC
1 ATA--CCATAAAGGCTTA-TAGAATACCAC
10792821 CCAAACACCT
Statistics
Matches: 128, Mismatches: 22, Indels: 12
0.79 0.14 0.07
Matches are distributed among these distances:
42 36 0.28
43 71 0.55
44 21 0.16
ACGTcount: A:0.44, C:0.22, G:0.16, T:0.19
Consensus pattern (43 bp):
ATACCATAAAGGCTTATAGAATACCACAAAAGGCCATATCAAA
Found at i:10796737 original size:6 final size:6
Alignment explanation
Indices: 10796719--10796763 Score: 63
Period size: 6 Copynumber: 7.3 Consensus size: 6
10796709 GACTCTTCTT
* *
10796719 TTCCCC TTTCCCC TTCCCC TTCGCC TTCCCA TTCCCC TTCCCC TT
1 TTCCCC -TTCCCC TTCCCC TTCCCC TTCCCC TTCCCC TTCCCC TT
10796764 GGGTTGCAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
6 28 0.82
7 6 0.18
ACGTcount: A:0.02, C:0.58, G:0.02, T:0.38
Consensus pattern (6 bp):
TTCCCC
Found at i:10796828 original size:20 final size:21
Alignment explanation
Indices: 10796795--10796833 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
10796785 AAGGAGAACC
*
10796795 GAAGCCATTTTCAATGTTGAA
1 GAAGCCATTTTCAAAGTTGAA
10796816 GAAGCCA-TTTCAAAGTTG
1 GAAGCCATTTTCAAAGTTG
10796834 GCTTATCTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.33, C:0.15, G:0.21, T:0.31
Consensus pattern (21 bp):
GAAGCCATTTTCAAAGTTGAA
Found at i:10802237 original size:30 final size:30
Alignment explanation
Indices: 10802203--10802259 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
10802193 AAACGGGTAA
*
10802203 CCTGATGTAATTTCAGCTCGTGTGAGCGAC
1 CCTGATATAATTTCAGCTCGTGTGAGCGAC
* *
10802233 CCTGATATAATTTTAGCTTGTGTGAGC
1 CCTGATATAATTTCAGCTCGTGTGAGC
10802260 AACTTAGTCA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.21, C:0.19, G:0.25, T:0.35
Consensus pattern (30 bp):
CCTGATATAATTTCAGCTCGTGTGAGCGAC
Found at i:10812895 original size:3 final size:3
Alignment explanation
Indices: 10812887--10812929 Score: 61
Period size: 3 Copynumber: 14.7 Consensus size: 3
10812877 TTTAATTTAG
* *
10812887 ATT ATT ATT ATT ATT ATT ATT A-T AAT AAT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
10812930 GAAATAAGTT
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
2 2 0.05
3 36 0.95
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:10813253 original size:24 final size:24
Alignment explanation
Indices: 10813221--10813277 Score: 96
Period size: 24 Copynumber: 2.4 Consensus size: 24
10813211 TGAAAGTATG
* *
10813221 ACAATTGTATGGTATTGATATTGT
1 ACAAATGTATGATATTGATATTGT
10813245 ACAAATGTATGATATTGATATTGT
1 ACAAATGTATGATATTGATATTGT
10813269 ACAAATGTA
1 ACAAATGTA
10813278 CAAAATATGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.37, C:0.05, G:0.18, T:0.40
Consensus pattern (24 bp):
ACAAATGTATGATATTGATATTGT
Found at i:10813492 original size:3 final size:3
Alignment explanation
Indices: 10813477--10813508 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
10813467 TATTTATTAA
*
10813477 ATT ATT GTT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
10813509 CAAAAAATTG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:10814620 original size:45 final size:45
Alignment explanation
Indices: 10814553--10814638 Score: 129
Period size: 45 Copynumber: 1.9 Consensus size: 45
10814543 ATAAGTGTTG
* *
10814553 CCTTACTGTTACTGTTCTGGATTCGTTCCGAA-GAGGTACTCCGTA
1 CCTTACTATTACTGTTCCGGATTCGTTCC-AATGAGGTACTCCGTA
*
10814598 CCTTACTATTACTGTTCCGGATTTGTTCCAATGAGGTACTC
1 CCTTACTATTACTGTTCCGGATTCGTTCCAATGAGGTACTC
10814639 TGTGTACCGC
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
44 2 0.05
45 35 0.95
ACGTcount: A:0.19, C:0.24, G:0.20, T:0.37
Consensus pattern (45 bp):
CCTTACTATTACTGTTCCGGATTCGTTCCAATGAGGTACTCCGTA
Found at i:10814904 original size:18 final size:18
Alignment explanation
Indices: 10814795--10814900 Score: 106
Period size: 18 Copynumber: 5.9 Consensus size: 18
10814785 TAAATAAAGG
* *
10814795 TACTGAATAACTTACTGC
1 TACTGAATAACTGACTGT
10814813 TACTGAATAACTGACTGT
1 TACTGAATAACTGACTGT
* * *
10814831 TAATGGATAACTGACTGC
1 TACTGAATAACTGACTGT
*
10814849 TACTGAATAATTGACTGT
1 TACTGAATAACTGACTGT
* * * *
10814867 TACTAAATAATTTA-TCAT
1 TACTGAATAACTGACT-GT
10814885 TACTGAATAACTGACT
1 TACTGAATAACTGACT
10814901 ATTAAAGAGT
Statistics
Matches: 71, Mismatches: 15, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
17 1 0.01
18 69 0.97
19 1 0.01
ACGTcount: A:0.36, C:0.16, G:0.13, T:0.35
Consensus pattern (18 bp):
TACTGAATAACTGACTGT
Found at i:10819441 original size:35 final size:35
Alignment explanation
Indices: 10819397--10819506 Score: 107
Period size: 35 Copynumber: 3.1 Consensus size: 35
10819387 GTAAAACATC
10819397 GTCGGTTTATCCGGCCAATGCAGGGCACAACTATT
1 GTCGGTTTATCCGGCCAATGCAGGGCACAACTATT
* * * *
10819432 GTCGGTTTATCCGACCAACGCTGGGTGCAAAAC-ATT
1 GTCGGTTTATCCGGCCAATGC-AGG-GCACAACTATT
* * * *
10819468 GTTGGTTTAACC-GACAAGTGTAGGGCACAACTATT
1 GTCGGTTTATCCGGCCAA-TGCAGGGCACAACTATT
10819503 GTCG
1 GTCG
10819507 ACATATCTGA
Statistics
Matches: 58, Mismatches: 13, Indels: 8
0.73 0.16 0.10
Matches are distributed among these distances:
34 6 0.10
35 30 0.52
36 16 0.28
37 6 0.10
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (35 bp):
GTCGGTTTATCCGGCCAATGCAGGGCACAACTATT
Found at i:10819447 original size:71 final size:71
Alignment explanation
Indices: 10819364--10819506 Score: 180
Period size: 71 Copynumber: 2.0 Consensus size: 71
10819354 TGATATCATT
* * * * *
10819364 GGTTTATCCGACCAGCGTTGGCCGTAAAACATCGTCGGTTTATCCGGCCAA-TGCAGGGCACAAC
1 GGTTTATCCGACCAACGCTGGCCGCAAAACATCGTCGGTTTAACC-GACAAGTGCAGGGCACAAC
10819428 TATTGTC
65 TATTGTC
** * * *
10819435 GGTTTATCCGACCAACGCTGGGTGCAAAACATTGTTGGTTTAACCGACAAGTGTAGGGCACAACT
1 GGTTTATCCGACCAACGCTGGCCGCAAAACATCGTCGGTTTAACCGACAAGTGCAGGGCACAACT
10819500 ATTGTC
66 ATTGTC
10819506 G
1 G
10819507 ACATATCTGA
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
70 4 0.07
71 57 0.93
ACGTcount: A:0.24, C:0.24, G:0.26, T:0.26
Consensus pattern (71 bp):
GGTTTATCCGACCAACGCTGGCCGCAAAACATCGTCGGTTTAACCGACAAGTGCAGGGCACAACT
ATTGTC
Found at i:10819476 original size:36 final size:35
Alignment explanation
Indices: 10819364--10819482 Score: 105
Period size: 36 Copynumber: 3.3 Consensus size: 35
10819354 TGATATCATT
* * * * *
10819364 GGTTTATCCGACCAGCGTTGGCCGTAAAACATCGTC
1 GGTTTATCCGACCAACGCTGG-GGCAAAACATTGTC
* * * *
10819400 GGTTTATCCGGCCAATGC-AGGGCACAACTATTGTC
1 GGTTTATCCGACCAACGCTGGGGCAAAAC-ATTGTC
*
10819435 GGTTTATCCGACCAACGCTGGGTGCAAAACATTGTT
1 GGTTTATCCGACCAACGCTGGG-GCAAAACATTGTC
*
10819471 GGTTTAACCGAC
1 GGTTTATCCGAC
10819483 AAGTGTAGGG
Statistics
Matches: 65, Mismatches: 15, Indels: 6
0.76 0.17 0.07
Matches are distributed among these distances:
34 5 0.08
35 22 0.34
36 32 0.49
37 6 0.09
ACGTcount: A:0.24, C:0.25, G:0.25, T:0.26
Consensus pattern (35 bp):
GGTTTATCCGACCAACGCTGGGGCAAAACATTGTC
Found at i:10822601 original size:41 final size:41
Alignment explanation
Indices: 10822556--10822639 Score: 150
Period size: 41 Copynumber: 2.0 Consensus size: 41
10822546 TCAATAAGCC
*
10822556 TTAAACACCAACAATCAATCCAACAACCAACCAACAAATGA
1 TTAAACACCAACAATCAATCCAACAACCAACAAACAAATGA
*
10822597 TTAAACACCAACAATCAATGCAACAACCAACAAACAAATGA
1 TTAAACACCAACAATCAATCCAACAACCAACAAACAAATGA
10822638 TT
1 TT
10822640 TGAACATCAT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.54, C:0.29, G:0.04, T:0.14
Consensus pattern (41 bp):
TTAAACACCAACAATCAATCCAACAACCAACAAACAAATGA
Found at i:10831057 original size:41 final size:41
Alignment explanation
Indices: 10831011--10831088 Score: 120
Period size: 41 Copynumber: 1.9 Consensus size: 41
10831001 ATTATAATAG
10831011 ATACAGAACATGCTTAACAGATAACAAATTATACACAACTT
1 ATACAGAACATGCTTAACAGATAACAAATTATACACAACTT
** * *
10831052 ATACAGATTATGCTTAATAGATAACATATTATACACA
1 ATACAGAACATGCTTAACAGATAACAAATTATACACA
10831089 TAGAGCTTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 33 1.00
ACGTcount: A:0.47, C:0.17, G:0.08, T:0.28
Consensus pattern (41 bp):
ATACAGAACATGCTTAACAGATAACAAATTATACACAACTT
Found at i:10833283 original size:49 final size:49
Alignment explanation
Indices: 10833226--10833332 Score: 196
Period size: 49 Copynumber: 2.2 Consensus size: 49
10833216 CAAAGAGATT
10833226 ATCGGGAAGCTTATCCAAGCTATATAACTGGAAGCTCATAAGAGCCATA
1 ATCGGGAAGCTTATCCAAGCTATATAACTGGAAGCTCATAAGAGCCATA
* *
10833275 ATCGGGAAGCTTATCTAGGCTATATAACTGGAAGCTCATAAGAGCCATA
1 ATCGGGAAGCTTATCCAAGCTATATAACTGGAAGCTCATAAGAGCCATA
10833324 ATCGGGAAG
1 ATCGGGAAG
10833333 TTTACAAAGA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
49 56 1.00
ACGTcount: A:0.36, C:0.19, G:0.23, T:0.22
Consensus pattern (49 bp):
ATCGGGAAGCTTATCCAAGCTATATAACTGGAAGCTCATAAGAGCCATA
Found at i:10833285 original size:24 final size:24
Alignment explanation
Indices: 10833255--10833332 Score: 86
Period size: 24 Copynumber: 3.2 Consensus size: 24
10833245 CTATATAACT
10833255 GGAAGCTCATAAGAGCCATAATCG
1 GGAAGCTCATAAGAGCCATAATCG
* * * * *
10833279 GGAAGCTTATCTAG-GCTATATAACT
1 GGAAGCTCAT-AAGAGCCATA-ATCG
10833304 GGAAGCTCATAAGAGCCATAATCG
1 GGAAGCTCATAAGAGCCATAATCG
10833328 GGAAG
1 GGAAG
10833333 TTTACAAAGA
Statistics
Matches: 41, Mismatches: 10, Indels: 6
0.72 0.18 0.11
Matches are distributed among these distances:
24 23 0.56
25 18 0.44
ACGTcount: A:0.36, C:0.18, G:0.26, T:0.21
Consensus pattern (24 bp):
GGAAGCTCATAAGAGCCATAATCG
Found at i:10833309 original size:25 final size:25
Alignment explanation
Indices: 10833230--10833310 Score: 78
Period size: 25 Copynumber: 3.3 Consensus size: 25
10833220 GAGATTATCG
10833230 GGAAGCTTATCCAA-GCTATATAACT
1 GGAAGCTTAT-CAAGGCTATATAACT
* * * *
10833255 GGAAGCTCAT-AAGAGCCATA-ATCG
1 GGAAGCTTATCAAG-GCTATATAACT
*
10833279 GGAAGCTTATCTAGGCTATATAACT
1 GGAAGCTTATCAAGGCTATATAACT
10833304 GGAAGCT
1 GGAAGCT
10833311 CATAAGAGCC
Statistics
Matches: 43, Mismatches: 9, Indels: 8
0.72 0.15 0.13
Matches are distributed among these distances:
23 2 0.05
24 16 0.37
25 25 0.58
ACGTcount: A:0.35, C:0.19, G:0.22, T:0.25
Consensus pattern (25 bp):
GGAAGCTTATCAAGGCTATATAACT
Found at i:10833373 original size:23 final size:23
Alignment explanation
Indices: 10833336--10833392 Score: 62
Period size: 23 Copynumber: 2.4 Consensus size: 23
10833326 CGGGAAGTTT
*
10833336 ACAAAGAACCATATC-AATAAGCTC
1 ACAAAGAGCC-TATCGAA-AAGCTC
**
10833360 ATGAAGAGCCTATCGAAAAGCTC
1 ACAAAGAGCCTATCGAAAAGCTC
10833383 ACAAAGAGCC
1 ACAAAGAGCC
10833393 ATGTAACGGG
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
23 18 0.67
24 9 0.33
ACGTcount: A:0.46, C:0.25, G:0.16, T:0.14
Consensus pattern (23 bp):
ACAAAGAGCCTATCGAAAAGCTC
Found at i:10842055 original size:228 final size:229
Alignment explanation
Indices: 10841640--10842105 Score: 675
Period size: 228 Copynumber: 2.0 Consensus size: 229
10841630 GTACTACTTT
* *
10841640 AGTGTATTAATTTTCCTCAACTGGTCGTTTTCTGCTTGTAGTTGAGGGAACCCTAGTTGTACCAT
1 AGTGTGTTAATATTCCTCAACTGGTCGTTTTCTGCTTGTAGTTGAGGGAACCCTAGTTGTA-CAT
* * * *
10841705 ATTTTTTGTAAAATGCATTGCATTCATGCTAATTACTGTTTTGATTGTTTTTTTGTTGCATGGTA
65 ATTTTTTGTAAAATGCATTGCACTCATGCTAATTACTGTTTAGATTGTTCTTTTGTTGCATAGTA
* *
10841770 AAATGGCCCATCAAAATTATAACCATTGTTTTTCTATTTAAGTTGACGTGATGTCACACTTGCAT
130 AAACGGCCCATCAAAATTATAACCATTGTTTTTCTATTTAAGTTGACGTGATGTCACACTTGCAG
* * *
10841835 GGCAGCCTAAATGACACCATCTTAGTACTGGCTGC
195 GGCAGCCTAAAAGACACCATCTTACTACAGGCTGC
* * * * * *
10841870 AGTGTGTTAATATTCTTCAACTGGTTGTTTTGTGTTTTTAGTTGAGGGAACCCTAGTTGTA-ATG
1 AGTGTGTTAATATTCCTCAACTGGTCGTTTTCTGCTTGTAGTTGAGGGAACCCTAGTTGTACATA
* * *
10841934 TCTTTTTGTGAACTGCATTGCACTCATGTTAATTACTGTTTAGATTG-TCTTTTGTTGCATAGTA
66 T-TTTTTGTAAAATGCATTGCACTCATGCTAATTACTGTTTAGATTGTTCTTTTGTTGCATAGTA
* **
10841998 ATACGGCCCATCAAAATTATAACTGTTGTTTTTCTATTTAAGTTGACGTGATGTCACACTTGCAG
130 AAACGGCCCATCAAAATTATAACCATTGTTTTTCTATTTAAGTTGACGTGATGTCACACTTGCAG
* *
10842063 GGCAGCCTAAAAGACACCTTCTTACTACAGGCTGG
195 GGCAGCCTAAAAGACACCATCTTACTACAGGCTGC
10842098 AGTGTGTT
1 AGTGTGTT
10842106 TGTTAGTGCC
Statistics
Matches: 210, Mismatches: 25, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
228 116 0.55
229 40 0.19
230 54 0.26
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.40
Consensus pattern (229 bp):
AGTGTGTTAATATTCCTCAACTGGTCGTTTTCTGCTTGTAGTTGAGGGAACCCTAGTTGTACATA
TTTTTTGTAAAATGCATTGCACTCATGCTAATTACTGTTTAGATTGTTCTTTTGTTGCATAGTAA
AACGGCCCATCAAAATTATAACCATTGTTTTTCTATTTAAGTTGACGTGATGTCACACTTGCAGG
GCAGCCTAAAAGACACCATCTTACTACAGGCTGC
Found at i:10843345 original size:387 final size:387
Alignment explanation
Indices: 10842631--10843406 Score: 1381
Period size: 387 Copynumber: 2.0 Consensus size: 387
10842621 GTGTTTCAGT
10842631 TGGGATGCGTTTCAGAATGCTTTTTGAGACAGAAGAATCAAGTGTTCGTAGGTATAATAGTTCTT
1 TGGGATGCGTTTCAGAATGCTTTTTGAGACAGAAGAATCAAGTGTTCGTAGGTATAATAGTTCTT
*
10842696 AGCGGTTCATTAAGTATTTCTTTGGTGGTTTATCTTGTGTGATTTTTAGCATTTGTTTATATAAT
66 AGCGGTTCATTAAGTATTTCTTTGGTGGTTTATCTTGTGTGATTATTAGCATTTGTTTATATAAT
**
10842761 CATGTTCTTGAAAGCCATCTATATTCTTGTTAAAATCTTTTGCTTACTTTCTGACTCGCTTGTGA
131 CATGTTCTTGAAAGCCATCTATATTCTTAATAAAATCTTTTGCTTACTTTCTGACTCGCTTGTGA
* *
10842826 GCTTGTAACTGGTACACTAAAAGATTTAGCATCCAACTGTTTTGTATTTGTCCAAAAGTAAGAAT
196 GCTTATAACTGGTACACTAAAAGATTTAGCACCCAACTGTTTTGTATTTGTCCAAAAGTAAGAAT
* *
10842891 ATGTTTTGACATATCCAAGTCTTTCATCTGAAAATGTCTGAAGAACAGATTTGAGAGCTTAGATA
261 ATGTTTTGACATACCCAAGTCTTTCATCTGAAAATGTCTGAAGAACAGATCTGAGAGCTTAGATA
10842956 CCTTCATTCTTACTAGCAGTAATAACAATATCATTAACATACACAACTAAAAGTATAATAGC
326 CCTTCATTCTTACTAGCAGTAATAACAATATCATTAACATACACAACTAAAAGTATAATAGC
* *
10843018 TGGGATGCGTTTCAGAATGCTTTTTGAGACAGAAGAATCATGTGTTTGTAGGTATAATAGTTCTT
1 TGGGATGCGTTTCAGAATGCTTTTTGAGACAGAAGAATCAAGTGTTCGTAGGTATAATAGTTCTT
* * *
10843083 AGTGGTTCGTTAGGTATTTCTTTGGTGGTTTATCTTGTGTGATTATTAGCATTTGTTTATATAAT
66 AGCGGTTCATTAAGTATTTCTTTGGTGGTTTATCTTGTGTGATTATTAGCATTTGTTTATATAAT
*
10843148 CATGTTCTTGAAAGCCATCTATATTCTTAATCAAATCTTTTGCTTACTTTCTGACTCGCTTGTGA
131 CATGTTCTTGAAAGCCATCTATATTCTTAATAAAATCTTTTGCTTACTTTCTGACTCGCTTGTGA
* * * *
10843213 TCTTATCACTGGTACACTATAAGATTTAGCACCCAACTGTTTTGTATTTGTCCAGAAGTAAGAAT
196 GCTTATAACTGGTACACTAAAAGATTTAGCACCCAACTGTTTTGTATTTGTCCAAAAGTAAGAAT
*
10843278 ATGTTTTGACATACCCAAGTCTTTCATCTGAAAATGTCTGAAGAACAGGTCTGAGAGCTTAGATA
261 ATGTTTTGACATACCCAAGTCTTTCATCTGAAAATGTCTGAAGAACAGATCTGAGAGCTTAGATA
*
10843343 CCTTCATTCTTACTAGCAGTAATAACAATATCATTAACGTACACAACTAAAAGTATAATAGC
326 CCTTCATTCTTACTAGCAGTAATAACAATATCATTAACATACACAACTAAAAGTATAATAGC
10843405 TG
1 TG
10843407 CTTTACTTTG
Statistics
Matches: 370, Mismatches: 19, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
387 370 1.00
ACGTcount: A:0.29, C:0.15, G:0.17, T:0.38
Consensus pattern (387 bp):
TGGGATGCGTTTCAGAATGCTTTTTGAGACAGAAGAATCAAGTGTTCGTAGGTATAATAGTTCTT
AGCGGTTCATTAAGTATTTCTTTGGTGGTTTATCTTGTGTGATTATTAGCATTTGTTTATATAAT
CATGTTCTTGAAAGCCATCTATATTCTTAATAAAATCTTTTGCTTACTTTCTGACTCGCTTGTGA
GCTTATAACTGGTACACTAAAAGATTTAGCACCCAACTGTTTTGTATTTGTCCAAAAGTAAGAAT
ATGTTTTGACATACCCAAGTCTTTCATCTGAAAATGTCTGAAGAACAGATCTGAGAGCTTAGATA
CCTTCATTCTTACTAGCAGTAATAACAATATCATTAACATACACAACTAAAAGTATAATAGC
Found at i:10849296 original size:23 final size:22
Alignment explanation
Indices: 10849236--10849305 Score: 56
Period size: 22 Copynumber: 3.1 Consensus size: 22
10849226 CCAAATATTA
10849236 TTATATTAATAAAAA-AT-AAT-T
1 TTATATT--TAAAAATATAAATAT
10849257 TTAATATTTAAAAATATTAAATAT
1 TT-ATATTTAAAAATA-TAAATAT
** *
10849281 TTATATTTAATCATATAAATTT
1 TTATATTTAAAAATATAAATAT
10849303 TTA
1 TTA
10849306 ATATACAATT
Statistics
Matches: 41, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
20 6 0.15
21 3 0.07
22 15 0.37
23 14 0.34
24 3 0.07
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (22 bp):
TTATATTTAAAAATATAAATAT
Found at i:10849309 original size:23 final size:24
Alignment explanation
Indices: 10849255--10849309 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 24
10849245 TAAAAAATAA
10849255 TTTTAATATTTAAAAATATTAAAT
1 TTTTAATATTTAAAAATATTAAAT
* **
10849279 ATTT-ATATTTAATCATA-TAAAT
1 TTTTAATATTTAAAAATATTAAAT
10849301 TTTTAATAT
1 TTTTAATAT
10849310 ACAATTTTAT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
22 8 0.31
23 15 0.58
24 3 0.12
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (24 bp):
TTTTAATATTTAAAAATATTAAAT
Found at i:10849373 original size:20 final size:20
Alignment explanation
Indices: 10849350--10849396 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 20
10849340 AATACTAAAA
10849350 AATAATTTTAA-ATTTTATGT
1 AATAATTTTAATATTTTAT-T
10849370 AAT-ATTCTTAATATTTTATT
1 AATAATT-TTAATATTTTATT
10849390 AA-AATTT
1 AATAATTT
10849397 ATATTAATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
19 4 0.17
20 13 0.54
21 7 0.29
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.55
Consensus pattern (20 bp):
AATAATTTTAATATTTTATT
Found at i:10856169 original size:52 final size:50
Alignment explanation
Indices: 10856085--10856188 Score: 154
Period size: 52 Copynumber: 2.0 Consensus size: 50
10856075 TGAAGAACTT
* *
10856085 AACCGGATTTTAAATGCATTGTAATCCGTTATATATGAGATATTCTTATGAA
1 AACCAGATTTTAAATGCATTGTAATCCATTATATATGAG--ATTCTTATGAA
* *
10856137 AACCAGATTTTAATTGCCTTGTAATCCATTATATATGAGATTCTTATGAA
1 AACCAGATTTTAAATGCATTGTAATCCATTATATATGAGATTCTTATGAA
10856187 AA
1 AA
10856189 AGGGCATACT
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
50 13 0.27
52 35 0.73
ACGTcount: A:0.36, C:0.12, G:0.13, T:0.38
Consensus pattern (50 bp):
AACCAGATTTTAAATGCATTGTAATCCATTATATATGAGATTCTTATGAA
Found at i:10858840 original size:36 final size:36
Alignment explanation
Indices: 10858799--10858871 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
10858789 ACACAGTTTC
10858799 AACCAAAATTATCATTCAAAGTAAACACATTCATTA
1 AACCAAAATTATCATTCAAAGTAAACACATTCATTA
10858835 AACCAAAATTATCATTCAAAGTAAACACATTCATTA
1 AACCAAAATTATCATTCAAAGTAAACACATTCATTA
10858871 A
1 A
10858872 CTCCTATGTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.51, C:0.19, G:0.03, T:0.27
Consensus pattern (36 bp):
AACCAAAATTATCATTCAAAGTAAACACATTCATTA
Found at i:10859884 original size:24 final size:23
Alignment explanation
Indices: 10859831--10859894 Score: 65
Period size: 24 Copynumber: 2.7 Consensus size: 23
10859821 TTATTATATT
*
10859831 AATAAAAATAATTTTAATATTTAAA
1 AATATAAA-AATTTT-ATATTTAAA
*
10859856 AATATTAAAAATTTTATATTTAAT
1 AATA-TAAAAATTTTATATTTAAA
* *
10859880 CATATAAAATTTTTA
1 AATATAAAAATTTTA
10859895 ATATAAACAA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
23 10 0.29
24 11 0.32
25 10 0.29
26 3 0.09
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (23 bp):
AATATAAAAATTTTATATTTAAA
Found at i:10859898 original size:24 final size:25
Alignment explanation
Indices: 10859840--10859898 Score: 77
Period size: 24 Copynumber: 2.4 Consensus size: 25
10859830 TAATAAAAAT
10859840 AATTTTAATATTTAAAAATATTAAA
1 AATTTTAATATTTAAAAATATTAAA
**
10859865 AATTTT-ATATTTAATCATA-TAAA
1 AATTTTAATATTTAAAAATATTAAA
*
10859888 ATTTTTAATAT
1 AATTTTAATAT
10859899 AAACAATTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.30
24 15 0.50
25 6 0.20
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (25 bp):
AATTTTAATATTTAAAAATATTAAA
Found at i:10866732 original size:52 final size:51
Alignment explanation
Indices: 10866647--10866751 Score: 149
Period size: 52 Copynumber: 2.0 Consensus size: 51
10866637 TGAAGAACTT
* *
10866647 AACCGGATTTTAAAATGCATTGTAATCCGTTATATATGAGATATTCTTATGAA
1 AACCAGATTTTAAAATGCATTGTAATCCATTATATATGAG--ATTCTTATGAA
* *
10866700 AACCAGATTTT-AATTGCCTTGTAATCCATTATATATGAGATTCTTATGAA
1 AACCAGATTTTAAAATGCATTGTAATCCATTATATATGAGATTCTTATGAA
10866750 AA
1 AA
10866752 AGGGCATACT
Statistics
Matches: 48, Mismatches: 4, Indels: 3
0.87 0.07 0.05
Matches are distributed among these distances:
50 13 0.27
52 25 0.52
53 10 0.21
ACGTcount: A:0.36, C:0.12, G:0.13, T:0.38
Consensus pattern (51 bp):
AACCAGATTTTAAAATGCATTGTAATCCATTATATATGAGATTCTTATGAA
Found at i:10870437 original size:24 final size:25
Alignment explanation
Indices: 10870381--10870437 Score: 73
Period size: 24 Copynumber: 2.4 Consensus size: 25
10870371 TAAAAAATAA
10870381 TTTTAATATTTAAAAATATTAAAAT
1 TTTTAATATTTAAAAATATTAAAAT
* **
10870406 ATTT-ATATTTAATCATA-TAAAAT
1 TTTTAATATTTAAAAATATTAAAAT
10870429 TTTTAATAT
1 TTTTAATAT
10870438 ACAATTTTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
23 9 0.33
24 15 0.56
25 3 0.11
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (25 bp):
TTTTAATATTTAAAAATATTAAAAT
Done.