Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
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: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 295 of 335
Found at i:88214148 original size:9 final size:9
Alignment explanation
Indices: 88214136--88214170 Score: 61
Period size: 9 Copynumber: 3.9 Consensus size: 9
88214126 TTTTATTTTA
*
88214136 ATTATTGAT
1 ATTATTAAT
88214145 ATTATTAAT
1 ATTATTAAT
88214154 ATTATTAAT
1 ATTATTAAT
88214163 ATTATTAA
1 ATTATTAA
88214171 ATAATCATTG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (9 bp):
ATTATTAAT
Found at i:88220049 original size:43 final size:43
Alignment explanation
Indices: 88219972--88220054 Score: 114
Period size: 43 Copynumber: 1.9 Consensus size: 43
88219962 CCCACACGAA
* *
88219972 CGTGTGCCTCAGTCACATAGCTGTGGACCTCTCTTCACATGGG
1 CGTGTGCCTCAGTCACACAGCTGTGGACCCCTCTTCACATGGG
* *
88220015 CGTGTGCCTCAGTCACACGGTTGTGTG-CCCCTCTTCACAT
1 CGTGTGCCTCAGTCACACAGCTGTG-GACCCCTCTTCACAT
88220055 AGGCTTTTGA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
43 34 0.97
44 1 0.03
ACGTcount: A:0.14, C:0.33, G:0.24, T:0.29
Consensus pattern (43 bp):
CGTGTGCCTCAGTCACACAGCTGTGGACCCCTCTTCACATGGG
Found at i:88222704 original size:19 final size:19
Alignment explanation
Indices: 88222680--88222720 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
88222670 GGGTGTTACA
* *
88222680 TTTATAAATTTTTACGATT
1 TTTATAAAATTTTACAATT
88222699 TTTATAAAATTTTACAATT
1 TTTATAAAATTTTACAATT
88222718 TTT
1 TTT
88222721 TTATTTTTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.34, C:0.05, G:0.02, T:0.59
Consensus pattern (19 bp):
TTTATAAAATTTTACAATT
Found at i:88222826 original size:20 final size:22
Alignment explanation
Indices: 88222788--88222829 Score: 70
Period size: 20 Copynumber: 2.0 Consensus size: 22
88222778 ATATTTATAG
88222788 TTTTTATTTATCTTAATTTTTA
1 TTTTTATTTATCTTAATTTTTA
88222810 TTTTTATTT-TC-TAATTTTTA
1 TTTTTATTTATCTTAATTTTTA
88222830 ATAAAAGTAG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 9 0.45
21 2 0.10
22 9 0.45
ACGTcount: A:0.21, C:0.05, G:0.00, T:0.74
Consensus pattern (22 bp):
TTTTTATTTATCTTAATTTTTA
Found at i:88224610 original size:2 final size:2
Alignment explanation
Indices: 88224603--88224643 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
88224593 CTAAGTGGCA
*
88224603 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
88224644 GCCGAAGCTA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:88226329 original size:2 final size:2
Alignment explanation
Indices: 88226322--88226357 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
88226312 CTCATACATT
*
88226322 TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA GA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
88226358 TTTTAAAGAC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:88226478 original size:54 final size:54
Alignment explanation
Indices: 88226408--88226514 Score: 178
Period size: 54 Copynumber: 2.0 Consensus size: 54
88226398 TGTTTTTTTC
* * *
88226408 GCTTTGGTCTTTAATGTTTTATTGGCCCTCTTTAATATCTAATATTATCAAATT
1 GCTTCGGTCCTTAATGTTTTATTGGCCCACTTTAATATCTAATATTATCAAATT
*
88226462 GCTTCGGTCCTTAATGTTTTATTGGCCCACTTTAGTATCTAATATTATCAAAT
1 GCTTCGGTCCTTAATGTTTTATTGGCCCACTTTAATATCTAATATTATCAAAT
88226515 GCTCCTACTG
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 49 1.00
ACGTcount: A:0.24, C:0.17, G:0.12, T:0.47
Consensus pattern (54 bp):
GCTTCGGTCCTTAATGTTTTATTGGCCCACTTTAATATCTAATATTATCAAATT
Found at i:88231049 original size:17 final size:16
Alignment explanation
Indices: 88231022--88231053 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
88231012 AGTTATTAAT
88231022 TTTTATTTTATTTATA
1 TTTTATTTTATTTATA
88231038 TTTTATTCTTATTTAT
1 TTTTATT-TTATTTAT
88231054 TCTTCTTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.75
Consensus pattern (16 bp):
TTTTATTTTATTTATA
Found at i:88231050 original size:11 final size:10
Alignment explanation
Indices: 88231022--88231072 Score: 50
Period size: 11 Copynumber: 4.8 Consensus size: 10
88231012 AGTTATTAAT
88231022 TTTTATTTTA
1 TTTTATTTTA
88231032 TTTATATTTTA
1 TTT-TATTTTA
88231043 TTCTTA-TTTA
1 TT-TTATTTTA
*
88231053 TTCTTCTTATTA
1 TT-TTATT-TTA
88231065 TTTTATTT
1 TTTTATTT
88231073 ATTACTCTTC
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
10 13 0.37
11 16 0.46
12 6 0.17
ACGTcount: A:0.20, C:0.06, G:0.00, T:0.75
Consensus pattern (10 bp):
TTTTATTTTA
Found at i:88231052 original size:21 final size:21
Alignment explanation
Indices: 88231014--88231075 Score: 58
Period size: 21 Copynumber: 3.0 Consensus size: 21
88231004 AAATTTATAG
*
88231014 TTATTAAT-TTTTATTTTATT-
1 TTATTATTATTTTA-TTTATTC
88231034 TATATT-TTATTCTTATTTATTC
1 T-TATTATTATT-TTATTTATTC
*
88231056 TTCTTATTATTTTATTTATT
1 TTATTATTATTTTATTTATT
88231076 ACTCTTCTAT
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
20 2 0.06
21 24 0.69
22 9 0.26
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.73
Consensus pattern (21 bp):
TTATTATTATTTTATTTATTC
Found at i:88231689 original size:87 final size:86
Alignment explanation
Indices: 88231560--88231730 Score: 191
Period size: 87 Copynumber: 2.0 Consensus size: 86
88231550 AAGCGCCGCT
* * **
88231560 AAAAGTACAGACCTTTAGCTGAGCTTTTGCCCAAAAAAGCCGCTAAATTTACAGACCTATAGCGG
1 AAAAGTACAGACCTTTAGCAGAGCTTTT-CCCAAAAAAGCCGCCAAAAGTACAGACCTATAGCGG
88231625 CGCTTACACCAAAAACGCCACC
65 CGCTTACACCAAAAACGCCACC
* * * * * *
88231647 AAAAGTACAGACCTTTTAGCAGCGC-TTTCTCCACAAATGCCGCCAAAAGTAGAGTCCTTTAGCG
1 AAAAGTACAGACC-TTTAGCAGAGCTTTTC-CCAAAAAAGCCGCCAAAAGTACAGACCTATAGCG
* * *
88231711 GCGCTTTCCCCACAAACGCC
64 GCGCTTACACCAAAAACGCC
88231731 GCTAAATTTA
Statistics
Matches: 69, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
86 1 0.01
87 59 0.86
88 9 0.13
ACGTcount: A:0.32, C:0.30, G:0.17, T:0.20
Consensus pattern (86 bp):
AAAAGTACAGACCTTTAGCAGAGCTTTTCCCAAAAAAGCCGCCAAAAGTACAGACCTATAGCGGC
GCTTACACCAAAAACGCCACC
Found at i:88231732 original size:43 final size:43
Alignment explanation
Indices: 88231420--88231736 Score: 212
Period size: 43 Copynumber: 7.3 Consensus size: 43
88231410 TTTATGTGAA
* * * * *
88231420 AAAAACGCCACTAAAAGT-CATCACTTTTAGCGGCG-TTTGAACG
1 AAAAACGCCGCTAAAAGTACA-GACCTTTAGCGGCGCTTT-CACC
* * * * *
88231463 GAAAACACCGTTAAAAGTAGATACCTTTAGCGGCGCTTT-ACC
1 AAAAACGCCGCTAAAAGTACAGACCTTTAGCGGCGCTTTCACC
* * * * * ***
88231505 ATAAACGCCGCTAATAGTATAGACCGTTAGCGGCGTTTGTTTGC
1 AAAAACGCCGCTAAAAGTACAGACCTTTAGCGGCGCTT-TCACC
* * *
88231549 -AAAGCGCCGCTAAAAGTACAGACCTTTAGCTGAGCTTTTGC-CC
1 AAAAACGCCGCTAAAAGTACAGACCTTTAGCGGCGC-TTT-CACC
* ** * *
88231592 AAAAAAGCCGCTAAATTTACAGACCTATAGCGGCGCTTACACC
1 AAAAACGCCGCTAAAAGTACAGACCTTTAGCGGCGCTTTCACC
* * * *
88231635 AAAAACGCCACCAAAAGTACAGACCTTTTAGCAGCGCTTTCTCC
1 AAAAACGCCGCTAAAAGTACAGACC-TTTAGCGGCGCTTTCACC
* * * * * *
88231679 ACAAATGCCGCCAAAAGTAGAGTCCTTTAGCGGCGCTTTCCCC
1 AAAAACGCCGCTAAAAGTACAGACCTTTAGCGGCGCTTTCACC
*
88231722 ACAAACGCCGCTAAA
1 AAAAACGCCGCTAAA
88231737 TTTACAGATT
Statistics
Matches: 210, Mismatches: 55, Indels: 18
0.74 0.19 0.06
Matches are distributed among these distances:
42 32 0.15
43 109 0.52
44 69 0.33
ACGTcount: A:0.32, C:0.27, G:0.19, T:0.22
Consensus pattern (43 bp):
AAAAACGCCGCTAAAAGTACAGACCTTTAGCGGCGCTTTCACC
Found at i:88232086 original size:21 final size:21
Alignment explanation
Indices: 88232062--88232122 Score: 95
Period size: 21 Copynumber: 2.9 Consensus size: 21
88232052 TTGCTTTACT
* *
88232062 CTGCCTCTCTCGCTGCTGCCG
1 CTGCCTCCCTCACTGCTGCCG
88232083 CTGCCTCCCTCACTGCTGCCG
1 CTGCCTCCCTCACTGCTGCCG
*
88232104 CTGCCTCCCTCTCTGCTGC
1 CTGCCTCCCTCACTGCTGC
88232123 ATCAGCTAGA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.02, C:0.51, G:0.20, T:0.28
Consensus pattern (21 bp):
CTGCCTCCCTCACTGCTGCCG
Found at i:88237703 original size:9 final size:9
Alignment explanation
Indices: 88237689--88237825 Score: 112
Period size: 9 Copynumber: 14.6 Consensus size: 9
88237679 ATGTATTAGT
88237689 TAAGTTATG
1 TAAGTTATG
88237698 TAAGTTATG
1 TAAGTTATG
*
88237707 TGAGTTATG
1 TAAGTTATG
*
88237716 TAAGTTGTTATA
1 TAA---GTTATG
*
88237728 TACGTTATG
1 TAAGTTATG
* *
88237737 TGAGTTATA
1 TAAGTTATG
*
88237746 TAAATTATG
1 TAAGTTATG
88237755 TAAGTTATG
1 TAAGTTATG
88237764 TAAGTTATG
1 TAAGTTATG
*
88237773 TAGGTTGTTATG
1 TA---AGTTATG
*
88237785 TAAATTATG
1 TAAGTTATG
*
88237794 TAAGTTACG
1 TAAGTTATG
*
88237803 TGAGTTATG
1 TAAGTTATG
* *
88237812 TAACTTATT
1 TAAGTTATG
88237821 TAAGT
1 TAAGT
88237826 AATGATCAAT
Statistics
Matches: 99, Mismatches: 23, Indels: 12
0.74 0.17 0.09
Matches are distributed among these distances:
9 84 0.85
12 15 0.15
ACGTcount: A:0.31, C:0.02, G:0.21, T:0.45
Consensus pattern (9 bp):
TAAGTTATG
Found at i:88237783 original size:48 final size:48
Alignment explanation
Indices: 88237689--88237820 Score: 149
Period size: 48 Copynumber: 2.8 Consensus size: 48
88237679 ATGTATTAGT
* *
88237689 TAAGTTATGTAAGTTATGTGAGTTATGTAAGTTGTTATATACGTTATG
1 TAAGTTATGTAAGTTATGTGAGTTATGTAAGTTATTAGATACGTTATG
* * * * * *
88237737 TGAGTTATATAAATTATGTAAGTTATGTAAGTTATGTAGGT-TGTTATG
1 TAAGTTATGTAAGTTATGTGAGTTATGTAAGTTAT-TAGATACGTTATG
* * *
88237785 TAAATTATGTAAGTTACGTGAGTTATGTAACTTATT
1 TAAGTTATGTAAGTTATGTGAGTTATGTAAGTTATT
88237821 TAAGTAATGA
Statistics
Matches: 68, Mismatches: 15, Indels: 3
0.79 0.17 0.03
Matches are distributed among these distances:
47 1 0.01
48 64 0.94
49 3 0.04
ACGTcount: A:0.31, C:0.02, G:0.21, T:0.45
Consensus pattern (48 bp):
TAAGTTATGTAAGTTATGTGAGTTATGTAAGTTATTAGATACGTTATG
Found at i:88237811 original size:57 final size:57
Alignment explanation
Indices: 88237689--88237825 Score: 166
Period size: 57 Copynumber: 2.4 Consensus size: 57
88237679 ATGTATTAGT
* ** * *
88237689 TAAGTTATGTAAGTTATGTGAGTTATGTAAGTTGTTATATACGTTATGTGAGTTATA
1 TAAGTTATGTAAGTTATGTAAGTTATGTAAGTTGTTATATAAATTATGTAAGTTACA
* * * *
88237746 TAAATTATGTAAGTTATGTAAGTTATGTAGGTTGTTATGTAAATTATGTAAGTTACG
1 TAAGTTATGTAAGTTATGTAAGTTATGTAAGTTGTTATATAAATTATGTAAGTTACA
* * *
88237803 TGAGTTATGTAACTTATTTAAGT
1 TAAGTTATGTAAGTTATGTAAGT
88237826 AATGATCAAT
Statistics
Matches: 67, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
57 67 1.00
ACGTcount: A:0.31, C:0.02, G:0.21, T:0.45
Consensus pattern (57 bp):
TAAGTTATGTAAGTTATGTAAGTTATGTAAGTTGTTATATAAATTATGTAAGTTACA
Found at i:88237909 original size:22 final size:20
Alignment explanation
Indices: 88237883--88237922 Score: 62
Period size: 22 Copynumber: 1.9 Consensus size: 20
88237873 AAAGACATTT
88237883 AAAATTATTAAATATTAAAATA
1 AAAATTATT-AATA-TAAAATA
88237905 AAAATTATTAATATAAAA
1 AAAATTATTAATATAAAA
88237923 CAATAGTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.28
21 4 0.22
22 9 0.50
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (20 bp):
AAAATTATTAATATAAAATA
Found at i:88239782 original size:25 final size:26
Alignment explanation
Indices: 88239727--88239782 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 26
88239717 TTATAATTAA
* * *
88239727 ATTAATATAATATATAAAAATTTAGG
1 ATTAATATAAGATAAAAAAATTTACG
*
88239753 A-TAATATTAGATAAAAAAATTT-CG
1 ATTAATATAAGATAAAAAAATTTACG
88239777 ATTAAT
1 ATTAAT
88239783 TAAAAAAATT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
24 2 0.08
25 22 0.88
26 1 0.04
ACGTcount: A:0.54, C:0.02, G:0.07, T:0.38
Consensus pattern (26 bp):
ATTAATATAAGATAAAAAAATTTACG
Found at i:88241192 original size:7 final size:7
Alignment explanation
Indices: 88241180--88241229 Score: 55
Period size: 7 Copynumber: 7.0 Consensus size: 7
88241170 ACAAAATTAG
88241180 ACCCTAA
1 ACCCTAA
88241187 ACCCTAA
1 ACCCTAA
* *
88241194 ATCTTAA
1 ACCCTAA
88241201 ACCCTAA
1 ACCCTAA
*
88241208 ACTCTAA
1 ACCCTAA
*
88241215 ACCATAA
1 ACCCTAA
88241222 ATCCCTAA
1 A-CCCTAA
88241230 CCTTATAAAC
Statistics
Matches: 34, Mismatches: 8, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
7 29 0.85
8 5 0.15
ACGTcount: A:0.44, C:0.34, G:0.00, T:0.22
Consensus pattern (7 bp):
ACCCTAA
Found at i:88241203 original size:14 final size:15
Alignment explanation
Indices: 88241183--88241229 Score: 62
Period size: 14 Copynumber: 3.3 Consensus size: 15
88241173 AAATTAGACC
88241183 CTAAACCCTAAATCT
1 CTAAACCCTAAATCT
88241198 -TAAACCCTAAA-CT
1 CTAAACCCTAAATCT
* *
88241211 CTAAACCATAAATCC
1 CTAAACCCTAAATCT
88241226 CTAA
1 CTAA
88241230 CCTTATAAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
13 2 0.07
14 21 0.75
15 5 0.18
ACGTcount: A:0.45, C:0.32, G:0.00, T:0.23
Consensus pattern (15 bp):
CTAAACCCTAAATCT
Found at i:88241204 original size:21 final size:21
Alignment explanation
Indices: 88241180--88241229 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
88241170 ACAAAATTAG
* *
88241180 ACCCTAAACCCTAAATCTTAA
1 ACCCTAAACCCTAAACCATAA
*
88241201 ACCCTAAACTCTAAACCATAA
1 ACCCTAAACCCTAAACCATAA
88241222 ATCCCTAA
1 A-CCCTAA
88241230 CCTTATAAAC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
21 19 0.76
22 6 0.24
ACGTcount: A:0.44, C:0.34, G:0.00, T:0.22
Consensus pattern (21 bp):
ACCCTAAACCCTAAACCATAA
Found at i:88241725 original size:14 final size:14
Alignment explanation
Indices: 88241708--88241751 Score: 63
Period size: 14 Copynumber: 3.1 Consensus size: 14
88241698 TTAACTTATC
*
88241708 CCCTATCCCTTAAA
1 CCCTAACCCTTAAA
88241722 CCCTAACCCTT-AA
1 CCCTAACCCTTAAA
88241735 CCACTAACCCTTAAA
1 CC-CTAACCCTTAAA
88241750 CC
1 CC
88241752 TTAATACCGC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
13 4 0.15
14 19 0.70
15 4 0.15
ACGTcount: A:0.32, C:0.45, G:0.00, T:0.23
Consensus pattern (14 bp):
CCCTAACCCTTAAA
Found at i:88242514 original size:15 final size:16
Alignment explanation
Indices: 88242494--88242541 Score: 57
Period size: 15 Copynumber: 3.2 Consensus size: 16
88242484 AAATCACAAA
88242494 CACTAAACCCCT-AAC
1 CACTAAACCCCTAAAC
*
88242509 CACT-AACCCTTAAAC
1 CACTAAACCCCTAAAC
*
88242524 CCCTAAA-CCCTAAAC
1 CACTAAACCCCTAAAC
88242539 CAC
1 CAC
88242542 AAAAACATAA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
14 6 0.22
15 19 0.70
16 2 0.07
ACGTcount: A:0.40, C:0.46, G:0.00, T:0.15
Consensus pattern (16 bp):
CACTAAACCCCTAAAC
Found at i:88242582 original size:22 final size:22
Alignment explanation
Indices: 88242513--88242587 Score: 66
Period size: 22 Copynumber: 3.4 Consensus size: 22
88242503 CCTAACCACT
88242513 AACCCTTAAACCCCTAAACCC-TA
1 AACCCTTAAA--CCTAAACCCATA
** * *
88242536 AACCACAAAAACAT-AA-CCATG
1 AACC-CTTAAACCTAAACCCATA
88242557 AACCCTTAAACCTAAACCCATA
1 AACCCTTAAACCTAAACCCATA
88242579 AACCCTTAA
1 AACCCTTAA
88242588 TACCGCTAAA
Statistics
Matches: 40, Mismatches: 8, Indels: 9
0.70 0.14 0.16
Matches are distributed among these distances:
20 8 0.20
21 9 0.22
22 15 0.38
23 4 0.10
24 4 0.10
ACGTcount: A:0.47, C:0.36, G:0.01, T:0.16
Consensus pattern (22 bp):
AACCCTTAAACCTAAACCCATA
Found at i:88242718 original size:35 final size:35
Alignment explanation
Indices: 88242653--88242734 Score: 94
Period size: 35 Copynumber: 2.3 Consensus size: 35
88242643 CAAAATAACA
** *
88242653 AAACCCTAAACCATAAAATTAACATTTTAAATCTT
1 AAACCCTAAACCATAAAATTAACACCTTAAATATT
**
88242688 AAACCCTAAACCATAGACCTTAA-ACCTTAAATATT
1 AAACCCTAAACCATA-AAATTAACACCTTAAATATT
*
88242723 AAACCGTAAACC
1 AAACCCTAAACC
88242735 CAAAAAATAA
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
35 35 0.88
36 5 0.12
ACGTcount: A:0.48, C:0.24, G:0.02, T:0.26
Consensus pattern (35 bp):
AAACCCTAAACCATAAAATTAACACCTTAAATATT
Found at i:88243399 original size:41 final size:41
Alignment explanation
Indices: 88242798--88243392 Score: 740
Period size: 41 Copynumber: 14.6 Consensus size: 41
88242788 AGACGTTTAA
* *
88242798 CGGCGTTTCTCCAAAAACGCCGCTAATACTCAGACTTTTGG
1 CGGCGTTTTTCCAAAAACGCCGCTAATGCTCAGACTTTTGG
* *
88242839 CGGCGTTTTTCCAAAAACGCCGCAAATACTCAGACTTTTGG
1 CGGCGTTTTTCCAAAAACGCCGCTAATGCTCAGACTTTTGG
* * *
88242880 CGGCGTTTTCCCAAAAACGCCGCTAATACTCAGAATTTTGG
1 CGGCGTTTTTCCAAAAACGCCGCTAATGCTCAGACTTTTGG
* *
88242921 CGGCGTTTTCCCAAAAATGCCGCTAATGCTCAGTA-TTTTGG
1 CGGCGTTTTTCCAAAAACGCCGCTAATGCTCAG-ACTTTTGG
* *
88242962 CGGCG-TTTTCCTAAAAACGCCGCTAATTCTCAGACTTTTAG
1 CGGCGTTTTTCC-AAAAACGCCGCTAATGCTCAGACTTTTGG
* *
88243003 CGGCGTTTTTCCAAAAACACCGCAAATGCTCAGACTTTTGG
1 CGGCGTTTTTCCAAAAACGCCGCTAATGCTCAGACTTTTGG
* *
88243044 CGGCGTTTTTCCAACAACGCCGCTAATGCTCAGACTTTTAG
1 CGGCGTTTTTCCAAAAACGCCGCTAATGCTCAGACTTTTGG
* *
88243085 CGGCGCTTTT-C-AAAACGCCGCTAATGCTCAGACTTTTAG
1 CGGCGTTTTTCCAAAAACGCCGCTAATGCTCAGACTTTTGG
* * *
88243124 CGGCGCTTTTCCAAAAACGCCGCTAATGCTTAGACTTTTGA
1 CGGCGTTTTTCCAAAAACGCCGCTAATGCTCAGACTTTTGG
* *
88243165 CGGCATTTTT--ATAAAACGCCGCTAATGCTCAGACCTTTGG
1 CGGCGTTTTTCCA-AAAACGCCGCTAATGCTCAGACTTTTGG
*
88243205 CGGCGTTTTTCTAAAAA-GCCGCTAATGCTCAGACTTTTGG
1 CGGCGTTTTTCCAAAAACGCCGCTAATGCTCAGACTTTTGG
* *
88243245 CGGCGTTTTTCTAAAAATGCCGCTAATGCTCAGACTTTTGG
1 CGGCGTTTTTCCAAAAACGCCGCTAATGCTCAGACTTTTGG
** * * *
88243286 CGGCGTTTTTGGAAAAATGCCG-TGAATTCTTAGACTTTTGG
1 CGGCGTTTTTCCAAAAACGCCGCT-AATGCTCAGACTTTTGG
* * * * * *
88243327 AGGCATTTCTT-GAAAAACGCCGCTAATTCTCGGACTTTTAG
1 CGGCGTTT-TTCCAAAAACGCCGCTAATGCTCAGACTTTTGG
* *
88243368 AGGCGTTTTTCCGAAAACGCCGCTA
1 CGGCGTTTTTCCAAAAACGCCGCTA
88243393 TTTCTCGACT
Statistics
Matches: 496, Mismatches: 44, Indels: 28
0.87 0.08 0.05
Matches are distributed among these distances:
39 38 0.08
40 84 0.17
41 363 0.73
42 11 0.02
ACGTcount: A:0.24, C:0.25, G:0.21, T:0.30
Consensus pattern (41 bp):
CGGCGTTTTTCCAAAAACGCCGCTAATGCTCAGACTTTTGG
Found at i:88244043 original size:21 final size:21
Alignment explanation
Indices: 88244019--88244068 Score: 100
Period size: 21 Copynumber: 2.4 Consensus size: 21
88244009 ACCACACCGG
88244019 CGTGTGCTTCTGTTATACGGC
1 CGTGTGCTTCTGTTATACGGC
88244040 CGTGTGCTTCTGTTATACGGC
1 CGTGTGCTTCTGTTATACGGC
88244061 CGTGTGCT
1 CGTGTGCT
88244069 ACCCTTCACA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.08, C:0.24, G:0.30, T:0.38
Consensus pattern (21 bp):
CGTGTGCTTCTGTTATACGGC
Found at i:88247972 original size:46 final size:46
Alignment explanation
Indices: 88247826--88248032 Score: 242
Period size: 46 Copynumber: 4.5 Consensus size: 46
88247816 GGATCACATG
* * *
88247826 CTGCTAATCATATGAGTTTGCATAA-AGGCGTATATAGGGTTC-CATA
1 CTGCTAA-CATGTGAGTTTGCATAACAGACATATATA-GGTTCGCATA
* ** * * *
88247872 CTGCCAATGTGTGAGTTTGCATAACA-A-AAATATGGGTTTGCATA
1 CTGCTAACATGTGAGTTTGCATAACAGACATATATAGGTTCGCATA
*
88247916 CTGCTGACATGTGAGTTTGCATAACAGACATATATAGGTTCGCATA
1 CTGCTAACATGTGAGTTTGCATAACAGACATATATAGGTTCGCATA
* * *
88247962 CTACTAACATGTGAGTTTGCATAACAAATATATATAGGTTCGCATA
1 CTGCTAACATGTGAGTTTGCATAACAGACATATATAGGTTCGCATA
*
88248008 CTGCTAACATGTGAGTTCGCATAAC
1 CTGCTAACATGTGAGTTTGCATAAC
88248033 TGATAAGCTA
Statistics
Matches: 135, Mismatches: 22, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
43 4 0.03
44 30 0.22
45 15 0.11
46 86 0.64
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.31
Consensus pattern (46 bp):
CTGCTAACATGTGAGTTTGCATAACAGACATATATAGGTTCGCATA
Found at i:88247983 original size:23 final size:21
Alignment explanation
Indices: 88247881--88247986 Score: 61
Period size: 23 Copynumber: 4.8 Consensus size: 21
88247871 ACTGCCAATG
* *
88247881 TGTGAGTTTGCATAACAAAAA
1 TGTGAGTTTGCATAACTAACA
* * * *
88247902 TATGGGTTTGCATACTGCTGACA
1 TGTGAGTTTGCATA--ACTAACA
88247925 TGTGAGTTTGCATAAC-AGACA
1 TGTGAGTTTGCATAACTA-ACA
* * *
88247946 TATATAGGTTCGCATACTACTAACA
1 TGT-GA-GTTTGCATA--ACTAACA
88247971 TGTGAGTTTGCATAAC
1 TGTGAGTTTGCATAAC
88247987 AAATATATAT
Statistics
Matches: 61, Mismatches: 16, Indels: 16
0.66 0.17 0.17
Matches are distributed among these distances:
21 20 0.33
22 1 0.02
23 31 0.51
24 1 0.02
25 7 0.11
26 1 0.02
ACGTcount: A:0.32, C:0.15, G:0.21, T:0.32
Consensus pattern (21 bp):
TGTGAGTTTGCATAACTAACA
Found at i:88249453 original size:16 final size:16
Alignment explanation
Indices: 88249411--88249454 Score: 52
Period size: 18 Copynumber: 2.6 Consensus size: 16
88249401 ATACTAACTA
* *
88249411 GGGTTCGCATGCAAGG
1 GGGTTCACATACAAGG
88249427 GGGTTTTCACATACAAGG
1 GGG--TTCACATACAAGG
88249445 GGGTTCACAT
1 GGGTTCACAT
88249455 GAATATTCCT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
16 10 0.42
18 14 0.58
ACGTcount: A:0.23, C:0.18, G:0.34, T:0.25
Consensus pattern (16 bp):
GGGTTCACATACAAGG
Found at i:88252850 original size:20 final size:20
Alignment explanation
Indices: 88252825--88252862 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
88252815 GTTTATTCGC
*
88252825 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
88252845 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
88252863 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:88254522 original size:28 final size:28
Alignment explanation
Indices: 88254490--88254558 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
88254480 GCGTAGATCA
88254490 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
88254518 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
88254546 CGATA-TACCCCTA
1 CGAAATTACCCCTA
88254559 GGGTTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:88260858 original size:20 final size:20
Alignment explanation
Indices: 88260833--88260870 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
88260823 GTTTATTCGC
*
88260833 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
88260853 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
88260871 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:88262530 original size:28 final size:28
Alignment explanation
Indices: 88262498--88262566 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
88262488 GCGTAGATCA
88262498 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
88262526 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
88262554 CGATA-TACCCCTA
1 CGAAATTACCCCTA
88262567 GGGTTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:88264164 original size:16 final size:15
Alignment explanation
Indices: 88264138--88264172 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
88264128 TGATGTGAAT
88264138 AATATAAAATATTAA
1 AATATAAAATATTAA
*
88264153 AATATCAAAATATTAG
1 AATAT-AAAATATTAA
88264169 AATA
1 AATA
88264173 ATAATAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (15 bp):
AATATAAAATATTAA
Found at i:88264361 original size:20 final size:21
Alignment explanation
Indices: 88264319--88264361 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 21
88264309 CCTTTTTTAG
* *
88264319 AATAATAATTAAATATACGAA
1 AATAATAATTAAATACACAAA
*
88264340 AATAAT-ATTATATACACAAA
1 AATAATAATTAAATACACAAA
88264360 AA
1 AA
88264362 GGTATATATA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.63, C:0.07, G:0.02, T:0.28
Consensus pattern (21 bp):
AATAATAATTAAATACACAAA
Found at i:88266291 original size:74 final size:74
Alignment explanation
Indices: 88266105--88266953 Score: 1198
Period size: 74 Copynumber: 11.5 Consensus size: 74
88266095 AGTGTGTGAT
* * *
88266105 CTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTGAAAGACAAAAATTGAAAATA
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTTTGAAA-ACAGAAATTGAAATTA
* *
88266170 CCTCAGCATGTGA
63 CCTCAGCGTGT-C
* *
88266183 ATCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTGAAAACAGAAATTGAAATTACC
1 CT-GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAATTACC
88266248 TCAGCGTGTC
65 TCAGCGTGTC
* * * *
88266258 CCGAGGCTCAACTCACCTTTCGCAATATGAGTTGA--TTTTTGAAAATAAAAATTGAAATTACCT
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAATTACCT
88266321 CAGCGTGTC
66 CAGCGTGTC
* * *
88266330 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAAAAATTGAAAATACCT
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAATTACCT
*
88266395 CAGCATGTC
66 CAGCGTGTC
* ** ** *
88266404 TTGAGGCTCAACTCATTTCTCGCAATATGAGTTTTTTTTTTTTGACAACAGAAATTGAAATTACC
1 CTGAGGCTCAACTCACCTCTCGCAATATGAG-TTGATTTTTTTGAAAACAGAAATTGAAATTACC
88266469 TCAGCGTGTC
65 TCAGCGTGTC
* *
88266479 CTGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCT
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAATTACCT
*
88266544 CAACGTGTC
66 CAGCGTGTC
* * ** *
88266553 TTAAGGCTCAACTCATTTCTCGCAATATGAGTTGA--ATTTTGAAAACAGAAATTGAAATTACCT
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAATTACCT
88266616 CAGCGTGTC
66 CAGCGTGTC
*
88266625 C-GAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAATAGAAATTGAAATTACCT
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAATTACCT
88266687 CAGCGTGTC
66 CAGCGTGTC
* *
88266696 C-GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAAAAATTGAAAATACCT
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAATTACCT
*
88266760 CAGCATGTC
66 CAGCGTGTC
* ** *
88266769 TTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA--ATTTTGAAAACAGAAATTGAAATTACCT
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAATTACCT
88266832 CAGCGTGTC
66 CAGCGTGTC
**
88266841 CTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTT-AACAACAGAAATTGAAATTACC
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAA-AACAGAAATTGAAATTACC
88266905 TCAGCGTGTC
65 TCAGCGTGTC
*
88266915 CTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTT
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
88266954 GAAAAAGTAG
Statistics
Matches: 695, Mismatches: 66, Indels: 24
0.89 0.08 0.03
Matches are distributed among these distances:
71 99 0.14
72 170 0.24
73 35 0.05
74 260 0.37
75 64 0.09
76 24 0.03
77 11 0.02
78 1 0.00
79 31 0.04
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.31
Consensus pattern (74 bp):
CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAATTACCT
CAGCGTGTC
Found at i:88266370 original size:146 final size:147
Alignment explanation
Indices: 88266105--88266953 Score: 1167
Period size: 146 Copynumber: 5.8 Consensus size: 147
88266095 AGTGTGTGAT
* * *
88266105 CTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTGAAAGACAAAAATTGAAAATA
1 CTGAGGCTCAACTCACTTCTCGCAATATGAGTTGA---TTTTTTGAAA-ACAAAAATTGAAATTA
*** *
88266170 CCTCAGCATGTGAATCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTGAAAACAGA
62 CCTCAGC--GTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGA
88266235 AATTGAAATTACCTCAGCGTGTC
125 AATTGAAATTACCTCAGCGTGTC
* *
88266258 CCGAGGCTCAACTCACCTT-TCGCAATATGAGTTGA-TTTTTGAAAATAAAAATTGAAATTACCT
1 CTGAGGCTCAACTCA-CTTCTCGCAATATGAGTTGATTTTTTGAAAACAAAAATTGAAATTACCT
*
88266321 CAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAAAAATTG
65 CAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTG
* *
88266386 AAAATACCTCAGCATGTC
130 AAATTACCTCAGCGTGTC
* * ** * *
88266404 TTGAGGCTCAACTCATTTCTCGCAATATGAGTTTTTTTTTTTTGACAACAGAAATTGAAATTACC
1 CTGAGGCTCAACTCACTTCTCGCAATATGAG--TTGATTTTTTGAAAACAAAAATTGAAATTACC
* *
88266469 TCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTGAAAACAGAAATT
64 TCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATT
* *
88266534 GAAAATACCTCAACGTGTC
129 GAAATTACCTCAGCGTGTC
* * * * *
88266553 TTAAGGCTCAACTCATTTCTCGCAATATGAGTTGA-ATTTTGAAAACAGAAATTGAAATTACCTC
1 CTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTGAAAACAAAAATTGAAATTACCTC
*
88266617 AGCGTGT-CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAATAGAAATTGA
66 AGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGA
88266679 AATTACCTCAGCGTGTC
131 AATTACCTCAGCGTGTC
* *
88266696 C-GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAAAAATTGAAAATACCT
1 CTGAGGCTCAACTCACTTCTCGCAATATGAGTTGA-TTTTTTGAAAACAAAAATTGAAATTACCT
* ** ** *
88266760 CAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA--ATTTTGAAAACAGAAATTG
65 CAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTG
88266823 AAATTACCTCAGCGTGTC
130 AAATTACCTCAGCGTGTC
* * *
88266841 CTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTAACAACAGAAATTGAAATTACCT
1 CTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTGAA-AACAAAAATTGAAATTACCT
* *
88266906 CAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTT
65 CAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
88266954 GAAAAAGTAG
Statistics
Matches: 624, Mismatches: 60, Indels: 29
0.88 0.08 0.04
Matches are distributed among these distances:
142 30 0.05
143 34 0.05
144 32 0.05
145 110 0.18
146 219 0.35
147 2 0.00
148 24 0.04
149 142 0.23
153 29 0.05
154 2 0.00
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.31
Consensus pattern (147 bp):
CTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTGAAAACAAAAATTGAAATTACCTC
AGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGA
AATTACCTCAGCGTGTC
Found at i:88267022 original size:54 final size:55
Alignment explanation
Indices: 88266922--88267027 Score: 144
Period size: 54 Copynumber: 1.9 Consensus size: 55
88266912 GTCCTGAGGC
* *
88266922 TCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATT-AAAAGGT
1 TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGCAGAAATTGAAAAGGT
* * *
88266976 TCAACCCACCTCTCGCAATATGAGTTGATTCTTGAACAA-CATAAATTGAAAA
1 TCAACCCACCTCTCGCAATATGAGCTGATT-TTGAAAAAGCAGAAATTGAAAA
88267028 CAGAAATTGA
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
54 34 0.76
55 11 0.24
ACGTcount: A:0.39, C:0.20, G:0.14, T:0.27
Consensus pattern (55 bp):
TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGCAGAAATTGAAAAGGT
Found at i:88267034 original size:13 final size:13
Alignment explanation
Indices: 88267007--88267040 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
88266997 GAGTTGATTC
*
88267007 TTGAACAACATAAA
1 TTGAA-AACAGAAA
88267021 TTGAAAACAGAAA
1 TTGAAAACAGAAA
88267034 TTGAAAA
1 TTGAAAA
88267041 TACCTCAGCG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 14 0.74
14 5 0.26
ACGTcount: A:0.59, C:0.09, G:0.12, T:0.21
Consensus pattern (13 bp):
TTGAAAACAGAAA
Found at i:88267138 original size:140 final size:128
Alignment explanation
Indices: 88266886--88267346 Score: 537
Period size: 140 Copynumber: 3.6 Consensus size: 128
88266876 TTTTTTTAAC
* *
88266886 AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
1 AACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
88266951 TTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGAACAAC
66 TTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAG-TG----TTG---AA-
88267016 ATAAATTGAA
122 ATAAA---AA
*
88267026 AACAGAAATTGAAAATACCTCAGCGTGACCTAAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
1 AACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
*
88267091 TTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGA--GTTGAAATTAAAA
66 TTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTGTTGAAATAAAAA
* * * * * *
88267152 CACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGAT
1 AACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
* * * * **
88267217 TTTGAAAAA-CAAAAATTAAAAGGCTT-AACTCACCTCTCGCAATATGA--G-T-CAAT-TTAA
66 TTTGAAAAAGTAGAAATTAAAAGG-TTCAACCCACCTCTCGCAATATGAGTGTTGAAATAAAAA
* * * * *
88267274 AACATAAACTAAAAATACCTCAGCGTG-CCTCGAGGCTCAACTCACTTCTCGCAATATGAGTTGA
1 AACAGAAATTGAAAATACCTCAGCGTGACCT-GAGGCTCAACTCACCTCTCGCAATATGAGCTGA
88267338 TTTTGAAAA
65 TTTTGAAAA
88267347 CAAAAATTAA
Statistics
Matches: 295, Mismatches: 24, Indels: 22
0.87 0.07 0.06
Matches are distributed among these distances:
121 2 0.01
122 65 0.22
123 3 0.01
124 1 0.00
125 33 0.11
126 71 0.24
129 4 0.01
130 2 0.01
133 3 0.01
137 1 0.00
140 110 0.37
ACGTcount: A:0.38, C:0.22, G:0.15, T:0.25
Consensus pattern (128 bp):
AACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
TTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTGTTGAAATAAAAA
Found at i:88267328 original size:122 final size:124
Alignment explanation
Indices: 88267018--88267358 Score: 476
Period size: 126 Copynumber: 2.8 Consensus size: 124
88267008 TGAACAACAT
* * *
88267018 AAATTGAAAACAGAAATTGAAAATACCTCAGCGTGACCT-AAGGCTCAACTCACCTCTCGCAATA
1 AAATTAAAAACAAAAATTGAAAATACCTCAGCGTG-CCTCGAGGCTCAACTCACCTCTCGCAATA
* * *
88267082 TGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTG
65 TGAGTTGATTTTGAAAAA-CAAAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTG
* *
88267143 AAATTAAAACACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAATA
1 AAATTAAAA-ACAAAAATTGAAAATACCTCAGCGTGCCTCGAGGCTCAACTCACCTCTCGCAATA
*
88267208 TGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTT-AACTCACCTCTCGCAATATGAG-T-
65 TGAGTTGATTTTGAAAAACAAAAATTAAAAGG-TTCAACCCACCTCTCGCAATATGAGTTG
* * * * * *
88267266 CAATTTAAAACATAAACTAAAAATACCTCAGCGTGCCTCGAGGCTCAACTCACTTCTCGCAATAT
1 AAATTAAAAACAAAAATTGAAAATACCTCAGCGTGCCTCGAGGCTCAACTCACCTCTCGCAATAT
88267331 GAGTTGATTTTG-AAAACAAAAATTAAAA
66 GAGTTGATTTTGAAAAACAAAAATTAAAA
88267359 ATACCTCAAC
Statistics
Matches: 196, Mismatches: 17, Indels: 10
0.88 0.08 0.04
Matches are distributed among these distances:
121 16 0.08
122 62 0.32
123 7 0.04
124 1 0.01
125 43 0.22
126 67 0.34
ACGTcount: A:0.40, C:0.21, G:0.14, T:0.24
Consensus pattern (124 bp):
AAATTAAAAACAAAAATTGAAAATACCTCAGCGTGCCTCGAGGCTCAACTCACCTCTCGCAATAT
GAGTTGATTTTGAAAAACAAAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTG
Found at i:88267384 original size:71 final size:70
Alignment explanation
Indices: 88267243--88267411 Score: 225
Period size: 71 Copynumber: 2.4 Consensus size: 70
88267233 TAAAAGGCTT
* * * * *
88267243 AACTCACCTCTCGCAATATGAG-TCAATTTAAAACATAAACTAAAAATACCTCAGCGTGCCTCGA
1 AACTCACTTCTCGCAATATGAGTTGATTTTAAAACAAAAACTAAAAATACCTCAACGTGCCTCGA
*
88267307 GGCTC
66 GACTC
* * *
88267312 AACTCACTTCTCGCAATATGAGTTGATTTTGAAAACAAAAATTAAAAATACCTCAACGTGTCTTG
1 AACTCACTTCTCGCAATATGAGTTGATTTT-AAAACAAAAACTAAAAATACCTCAACGTGCCTCG
88267377 AGACTC
65 AGACTC
88267383 AACTCA-TCTCTCGCAATATGAGTTGATTT
1 AACTCACT-TCTCGCAATATGAGTTGATTT
88267412 CCCTTGAAAA
Statistics
Matches: 88, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
69 21 0.24
70 6 0.07
71 61 0.69
ACGTcount: A:0.36, C:0.23, G:0.13, T:0.28
Consensus pattern (70 bp):
AACTCACTTCTCGCAATATGAGTTGATTTTAAAACAAAAACTAAAAATACCTCAACGTGCCTCGA
GACTC
Found at i:88274266 original size:12 final size:12
Alignment explanation
Indices: 88274246--88274281 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
88274236 TGGGATATGC
*
88274246 AATGTATGAATG
1 AATGCATGAATG
88274258 AATGCATGAATG
1 AATGCATGAATG
88274270 AATGCATGAATG
1 AATGCATGAATG
88274282 TCAAATGAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.42, C:0.06, G:0.25, T:0.28
Consensus pattern (12 bp):
AATGCATGAATG
Found at i:88275866 original size:16 final size:15
Alignment explanation
Indices: 88275840--88275874 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
88275830 TGATGTGAAT
88275840 AATATAAAATATTAA
1 AATATAAAATATTAA
*
88275855 AATATCAAAATATTAG
1 AATAT-AAAATATTAA
88275871 AATA
1 AATA
88275875 ATAATAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (15 bp):
AATATAAAATATTAA
Found at i:88276063 original size:20 final size:21
Alignment explanation
Indices: 88276021--88276063 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 21
88276011 CCTTTTTTAG
* *
88276021 AATAATAATTAAATATACGAA
1 AATAATAATTAAATACACAAA
*
88276042 AATAAT-ATTATATACACAAA
1 AATAATAATTAAATACACAAA
88276062 AA
1 AA
88276064 GGTATATATA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.63, C:0.07, G:0.02, T:0.28
Consensus pattern (21 bp):
AATAATAATTAAATACACAAA
Found at i:88276295 original size:20 final size:21
Alignment explanation
Indices: 88276263--88276303 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
88276253 TAACATTAAG
*
88276263 AATATATATATATATAATATA
1 AATATATATATATACAATATA
88276284 AATATA-ATATATACAATATA
1 AATATATATATATACAATATA
88276304 CACATATGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (21 bp):
AATATATATATATACAATATA
Found at i:88277652 original size:14 final size:14
Alignment explanation
Indices: 88277633--88277688 Score: 58
Period size: 14 Copynumber: 3.9 Consensus size: 14
88277623 ATTAATTGTG
*
88277633 ATTAAGGTTAATTA
1 ATTAAGTTTAATTA
*
88277647 ATTAAGATTTAATTT
1 ATTAAG-TTTAATTA
* *
88277662 ATTAAATTTGATTA
1 ATTAAGTTTAATTA
88277676 ATTAAGATTTAAT
1 ATTAAG-TTTAAT
88277689 CTAAATATAT
Statistics
Matches: 33, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
14 17 0.52
15 16 0.48
ACGTcount: A:0.43, C:0.00, G:0.09, T:0.48
Consensus pattern (14 bp):
ATTAAGTTTAATTA
Found at i:88277660 original size:15 final size:15
Alignment explanation
Indices: 88277640--88277688 Score: 73
Period size: 15 Copynumber: 3.3 Consensus size: 15
88277630 GTGATTAAGG
88277640 TTAATTAATTAAGAT
1 TTAATTAATTAAGAT
*
88277655 TTAATTTATTAA-AT
1 TTAATTAATTAAGAT
*
88277669 TTGATTAATTAAGAT
1 TTAATTAATTAAGAT
88277684 TTAAT
1 TTAAT
88277689 CTAAATATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
14 12 0.41
15 17 0.59
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (15 bp):
TTAATTAATTAAGAT
Found at i:88279287 original size:24 final size:23
Alignment explanation
Indices: 88279260--88279304 Score: 54
Period size: 24 Copynumber: 1.9 Consensus size: 23
88279250 CTCAAATCCC
*
88279260 TATTCTATCTTTCTTTTATTATGT
1 TATTCTATCTTTATTTT-TTATGT
* *
88279284 TATTTTATTTTTATTTTTTAT
1 TATTCTATCTTTATTTTTTAT
88279305 TCTTTCTTCT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 4 0.22
24 14 0.78
ACGTcount: A:0.18, C:0.07, G:0.02, T:0.73
Consensus pattern (23 bp):
TATTCTATCTTTATTTTTTATGT
Found at i:88288753 original size:31 final size:28
Alignment explanation
Indices: 88288717--88288786 Score: 97
Period size: 27 Copynumber: 2.4 Consensus size: 28
88288707 ATATTAAATT
88288717 GTGAAAAGTTAGACTAAATAAACTAAGGTTA
1 GTGAAAAGTTA-A--AAATAAACTAAGGTTA
*
88288748 GTGAAAAGTT-AAAATGAACTAAGGTTA
1 GTGAAAAGTTAAAAATAAACTAAGGTTA
88288775 GTGAAAAGTTAA
1 GTGAAAAGTTAA
88288787 GCCTTAATTT
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
27 25 0.68
28 1 0.03
29 1 0.03
31 10 0.27
ACGTcount: A:0.49, C:0.04, G:0.21, T:0.26
Consensus pattern (28 bp):
GTGAAAAGTTAAAAATAAACTAAGGTTA
Found at i:88288768 original size:27 final size:27
Alignment explanation
Indices: 88288732--88288786 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
88288722 AAGTTAGACT
88288732 AAATAAACTAAGGTTAGTGAAAAGTTA
1 AAATAAACTAAGGTTAGTGAAAAGTTA
*
88288759 AAATGAACTAAGGTTAGTGAAAAGTTA
1 AAATAAACTAAGGTTAGTGAAAAGTTA
88288786 A
1 A
88288787 GCCTTAATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.51, C:0.04, G:0.20, T:0.25
Consensus pattern (27 bp):
AAATAAACTAAGGTTAGTGAAAAGTTA
Found at i:88294112 original size:46 final size:44
Alignment explanation
Indices: 88294059--88294214 Score: 141
Period size: 46 Copynumber: 3.4 Consensus size: 44
88294049 TTTTGGACTG
88294059 CAATTTAAGCTCGTGCTTAGGAGTATCATCATTTATTATGTATGAA
1 CAATTTAAGCTCGTGCTTAGGAG-ATCATCATTTATT-TGTATGAA
** * *
88294105 CAATTTAAATTCATGCTTAGGAGGTCATCATTTATTTCGTATGAA
1 CAATTTAAGCTCGTGCTTAGGAGATCATCATTTATTT-GTATGAA
* * * * * *
88294150 TAGTTTAAGCTCGTGCTTCGGAGGATCTTTATTTATTTTTTATGAA
1 CAATTTAAGCTCGTGCTTAGGA-GATCATCATTTA-TTTGTATGAA
* * * *
88294196 TAGTTTAAGATTGTGCTTA
1 CAATTTAAGCTCGTGCTTA
88294215 AAGCATGACC
Statistics
Matches: 90, Mismatches: 17, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
44 1 0.01
45 35 0.39
46 51 0.57
47 3 0.03
ACGTcount: A:0.28, C:0.12, G:0.18, T:0.43
Consensus pattern (44 bp):
CAATTTAAGCTCGTGCTTAGGAGATCATCATTTATTTGTATGAA
Found at i:88295844 original size:15 final size:15
Alignment explanation
Indices: 88295820--88295849 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
88295810 TAACGAGATC
*
88295820 GAAGAGAAAGAAAAA
1 GAAGAAAAAGAAAAA
88295835 GAAGAAAAAGAAAAA
1 GAAGAAAAAGAAAAA
88295850 AAAATAACTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (15 bp):
GAAGAAAAAGAAAAA
Found at i:88298133 original size:17 final size:17
Alignment explanation
Indices: 88298111--88298168 Score: 66
Period size: 17 Copynumber: 3.5 Consensus size: 17
88298101 ATCAGACACT
*
88298111 TATCCATC-TATATGTCA
1 TATCCATCATTTAT-TCA
*
88298128 TATCCATCGTTTATTCA
1 TATCCATCATTTATTCA
*
88298145 TACCCATCATTTATTCA
1 TATCCATCATTTATTCA
88298162 T-TCCATC
1 TATCCATC
88298169 TGCCACTTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
16 5 0.14
17 27 0.75
18 4 0.11
ACGTcount: A:0.26, C:0.28, G:0.03, T:0.43
Consensus pattern (17 bp):
TATCCATCATTTATTCA
Found at i:88298224 original size:20 final size:20
Alignment explanation
Indices: 88298191--88298234 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
88298181 TTCTATAATT
*
88298191 TATTTATTTATTATTTTTAA
1 TATTTATTTATTATTCTTAA
88298211 TATTTA-TTATTTATTCTTAA
1 TATTTATTTA-TTATTCTTAA
88298231 -ATTT
1 TATTT
88298235 CTCATTTTAG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 7 0.32
20 15 0.68
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (20 bp):
TATTTATTTATTATTCTTAA
Found at i:88304397 original size:26 final size:26
Alignment explanation
Indices: 88304368--88304475 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
88304358 TAATACAAAT
88304368 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
88304394 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
88304420 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
88304446 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
88304472 TGAT
1 TGAT
88304476 GGGAATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:88306008 original size:24 final size:24
Alignment explanation
Indices: 88305962--88306008 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
88305952 CAGTTTTACC
88305962 CCTAGGAGATAAATTACCGAAATA
1 CCTAGGAGATAAATTACCGAAATA
* *
88305986 CCTAGG-GTTAAATTGACCTAAAT
1 CCTAGGAGATAAATT-ACCGAAAT
88306009 GCATGTTTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 7 0.35
24 13 0.65
ACGTcount: A:0.40, C:0.17, G:0.17, T:0.26
Consensus pattern (24 bp):
CCTAGGAGATAAATTACCGAAATA
Found at i:88312507 original size:26 final size:26
Alignment explanation
Indices: 88312477--88312584 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
88312467 TTATACAAAT
88312477 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
88312503 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
88312529 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
88312555 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
88312581 TGAT
1 TGAT
88312585 GGGAATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:88326634 original size:10 final size:10
Alignment explanation
Indices: 88326619--88326690 Score: 51
Period size: 10 Copynumber: 7.3 Consensus size: 10
88326609 AATAAATAAT
88326619 AAAATTATTA
1 AAAATTATTA
*
88326629 AAAATTGTTA
1 AAAATTATTA
* **
88326639 GAAATTGCTA
1 AAAATTATTA
88326649 AATAATGTA--A
1 AA-AAT-TATTA
*
88326659 AAAATTATAA
1 AAAATTATTA
88326669 AAAATTATTA
1 AAAATTATTA
*
88326679 GAAATTA-TA
1 AAAATTATTA
88326688 AAA
1 AAA
88326691 GAAGATAAAA
Statistics
Matches: 50, Mismatches: 8, Indels: 9
0.75 0.12 0.13
Matches are distributed among these distances:
8 2 0.04
9 7 0.14
10 37 0.74
11 3 0.06
12 1 0.02
ACGTcount: A:0.58, C:0.01, G:0.07, T:0.33
Consensus pattern (10 bp):
AAAATTATTA
Found at i:88326653 original size:40 final size:40
Alignment explanation
Indices: 88326609--88326684 Score: 109
Period size: 40 Copynumber: 1.9 Consensus size: 40
88326599 AAAAATTTGT
* *
88326609 AATAA-ATAATAAAATTATTAAAAATTGTTAGAAATTGCTA
1 AATAATATAA-AAAATTATAAAAAATTATTAGAAATTGCTA
*
88326649 AATAATGTAAAAAATTATAAAAAATTATTAGAAATT
1 AATAATATAAAAAATTATAAAAAATTATTAGAAATT
88326685 ATAAAAGAAG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
40 29 0.91
41 3 0.09
ACGTcount: A:0.58, C:0.01, G:0.07, T:0.34
Consensus pattern (40 bp):
AATAATATAAAAAATTATAAAAAATTATTAGAAATTGCTA
Found at i:88326683 original size:20 final size:20
Alignment explanation
Indices: 88326620--88326690 Score: 65
Period size: 20 Copynumber: 3.5 Consensus size: 20
88326610 ATAAATAATA
* *
88326620 AAATTATTAAAAATTGTTAG
1 AAATTATAAAAAATTATTAG
* * *
88326640 AAATTGCTAAATAATGTA--AA
1 AAATT-ATAAAAAAT-TATTAG
88326660 AAATTATAAAAAATTATTAG
1 AAATTATAAAAAATTATTAG
88326680 AAATTATAAAA
1 AAATTATAAAA
88326691 GAAGATAAAA
Statistics
Matches: 39, Mismatches: 8, Indels: 8
0.71 0.15 0.15
Matches are distributed among these distances:
18 2 0.05
19 7 0.18
20 23 0.59
21 6 0.15
22 1 0.03
ACGTcount: A:0.58, C:0.01, G:0.07, T:0.34
Consensus pattern (20 bp):
AAATTATAAAAAATTATTAG
Found at i:88326700 original size:40 final size:41
Alignment explanation
Indices: 88326614--88326711 Score: 103
Period size: 40 Copynumber: 2.4 Consensus size: 41
88326604 TTTGTAATAA
* * * *
88326614 ATAATAAAATTATTAAAAATTGTTAGAAATTGCTAAATAATG
1 ATAA-AAAATTATAAAAAATTATTAGAAATTGATAAATAAAG
88326656 -TAAAAAATTATAAAAAATTATTAGAAATT-ATAAA-AGAAG
1 ATAAAAAATTATAAAAAATTATTAGAAATTGATAAATA-AAG
*
88326695 ATAAAAATTTAATAAAA
1 ATAAAAAATT-ATAAAA
88326712 GTTAAAAACA
Statistics
Matches: 48, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
38 1 0.02
39 6 0.12
40 32 0.67
41 9 0.19
ACGTcount: A:0.60, C:0.01, G:0.07, T:0.32
Consensus pattern (41 bp):
ATAAAAAATTATAAAAAATTATTAGAAATTGATAAATAAAG
Found at i:88326847 original size:11 final size:11
Alignment explanation
Indices: 88326831--88326855 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
88326821 TTTTATAAAA
88326831 AATATTTTAAT
1 AATATTTTAAT
88326842 AATATTTTAAT
1 AATATTTTAAT
88326853 AAT
1 AAT
88326856 TTAAAATATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (11 bp):
AATATTTTAAT
Found at i:88326938 original size:34 final size:34
Alignment explanation
Indices: 88326895--88326964 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
88326885 AACTCCTTAA
88326895 TTCATAAATAGGAGGATAATACACTTTAGCATAC
1 TTCATAAATAGGAGGATAATACACTTTAGCATAC
88326929 TTCATAAATAGGAGGATAATACACTTTAGCATAC
1 TTCATAAATAGGAGGATAATACACTTTAGCATAC
88326963 TT
1 TT
88326965 GAACCCACAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.40, C:0.14, G:0.14, T:0.31
Consensus pattern (34 bp):
TTCATAAATAGGAGGATAATACACTTTAGCATAC
Found at i:88336377 original size:19 final size:18
Alignment explanation
Indices: 88336353--88336398 Score: 56
Period size: 19 Copynumber: 2.5 Consensus size: 18
88336343 GGTAAAAATC
*
88336353 TTATTTTTTTATTCTTTTT
1 TTATTTTTTTATT-TTATT
*
88336372 TTATTTTGTTATTTTATT
1 TTATTTTTTTATTTTATT
*
88336390 GTATTTTTT
1 TTATTTTTT
88336399 GATAAATATA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
18 11 0.48
19 12 0.52
ACGTcount: A:0.13, C:0.02, G:0.04, T:0.80
Consensus pattern (18 bp):
TTATTTTTTTATTTTATT
Found at i:88336896 original size:22 final size:23
Alignment explanation
Indices: 88336868--88336911 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
88336858 CTGAAAATTT
88336868 TTTAGA-TAGTGGGCT-TGGGTTG
1 TTTAGATTAGTGGG-TATGGGTTG
88336890 TTTAGATTAGTGGGTATGGGTT
1 TTTAGATTAGTGGGTATGGGTT
88336912 AGCGGGCTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 7 0.35
23 13 0.65
ACGTcount: A:0.16, C:0.02, G:0.39, T:0.43
Consensus pattern (23 bp):
TTTAGATTAGTGGGTATGGGTTG
Found at i:88337843 original size:71 final size:71
Alignment explanation
Indices: 88337611--88337860 Score: 270
Period size: 71 Copynumber: 3.5 Consensus size: 71
88337601 ATTAAAAAGA
* * *
88337611 CTCAACTCACCTCTCGCAATATGAA-TTGAATTTTGAAA-ATAGAATTTGAAAATACCTTAGCGT
1 CTCAACTCACCTCTCGCAATAT-AAGTTGATTTTTGAAACATA-AA-TTGAAATTACCTCAGCGT
* *
88337674 GCCGCAAGG
63 GCCCCGAGG
* * * **
88337683 CTCAACTCACCCCTCGCAATATGAGTTGATTTTAGATTTAACAGGAATTGAAATTACCTCAGCGT
1 CTCAACTCACCTCTCGCAATATAAGTTGATTTTTGA---AACATAAATTGAAATTACCTCAGCGT
88337748 GCCCCGAGG
63 GCCCCGAGG
* * * *
88337757 TTCAACTCACTTCTCGCAATATAAGTTGATTTTTGAAACATAAATTGAAATTACCTCAACGTGTC
1 CTCAACTCACCTCTCGCAATATAAGTTGATTTTTGAAACATAAATTGAAATTACCTCAGCGTGCC
**
88337822 TTGAGG
66 CCGAGG
* *
88337828 CTCAACTCACCTCTCGCAATATGAGCTGATTTT
1 CTCAACTCACCTCTCGCAATATAAGTTGATTTT
88337861 CTTGGAAAAC
Statistics
Matches: 148, Mismatches: 25, Indels: 11
0.80 0.14 0.06
Matches are distributed among these distances:
71 59 0.40
72 30 0.20
74 54 0.36
75 4 0.03
76 1 0.01
ACGTcount: A:0.31, C:0.23, G:0.16, T:0.30
Consensus pattern (71 bp):
CTCAACTCACCTCTCGCAATATAAGTTGATTTTTGAAACATAAATTGAAATTACCTCAGCGTGCC
CCGAGG
Found at i:88338052 original size:281 final size:286
Alignment explanation
Indices: 88337737--88338371 Score: 1095
Period size: 281 Copynumber: 2.2 Consensus size: 286
88337727 GAATTGAAAT
88337737 TACCTCAGC--GTGCCCCGAGGTTCAACTCACTTCTCGCAATATAAGTTGATTTTTGAAACATAA
1 TACCTCAGCGTGTGCCCCGAGGTTCAACTCACTTCTCGCAATATAAGTTGATTTTTGAAACATAA
88337800 ATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTCTTG
66 ATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTCTTG
88337865 GAAAACATGAATTAAAAAGCAGAAATTGAAAATACCTCAGCGTACCCTGAGGCTCAACTCACTTC
131 GAAAACATGAATTAAAAAGCAGAAATTGAAAATACCTCAGCGTACCCTGAGGCTCAACTCACTTC
*
88337930 TCGCGATATGGGTTGATTTTTGAAACAGAGAAATTAAAAGCTT-ACTCACCTCTCGCAATATGAG
196 TCGCGATATGGGTTGATTTTTGAAACAGAGAAATTAAAAGCTTAACTCACCTCTCGCAAGATGAG
*
88337994 TCAA-TTT-AAAACATAAACTAAGAA
261 TCAATTTTCAAAACATAAACTAAAAA
*
88338018 TACC-CCG-GTGTGCCCCGAGGTTCAACTCACTTCTCGCAATATAAGTTGATTTTTGAAACATAA
1 TACCTCAGCGTGTGCCCCGAGGTTCAACTCACTTCTCGCAATATAAGTTGATTTTTGAAACATAA
88338081 ATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTCTTG
66 ATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTCTTG
88338146 GAAAACATGAATTAAAAAGCAGAAATTGAAAATACCTCAGCGTACCCTGAGGCTCAACTCACTTC
131 GAAAACATGAATTAAAAAGCAGAAATTGAAAATACCTCAGCGTACCCTGAGGCTCAACTCACTTC
*
88338211 TCGCGATATGGGTTGATTTTTGAAACAGAGAAATTAAAAGCTTAACTCACCTTTCGCAAGATGAG
196 TCGCGATATGGGTTGATTTTTGAAACAGAGAAATTAAAAGCTTAACTCACCTCTCGCAAGATGAG
* *
88338276 TCAATTTTTCTAAACGTAAACTAAAAA
261 TCAA-TTTTCAAAACATAAACTAAAAA
* * * * * *
88338303 TACCTCAGCGTGTGACCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTGAAAACATG
1 TACCTCAGCGTGTGCCCCGAGGTTCAACTCACTTCTCGCAATATAAGTTGATTTTTG-AAACATA
88338368 AATT
65 AATT
88338372 AAAGATACCT
Statistics
Matches: 332, Mismatches: 13, Indels: 11
0.93 0.04 0.03
Matches are distributed among these distances:
280 2 0.01
281 231 0.70
282 23 0.07
284 3 0.01
285 18 0.05
286 2 0.01
287 43 0.13
288 10 0.03
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.29
Consensus pattern (286 bp):
TACCTCAGCGTGTGCCCCGAGGTTCAACTCACTTCTCGCAATATAAGTTGATTTTTGAAACATAA
ATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTCTTG
GAAAACATGAATTAAAAAGCAGAAATTGAAAATACCTCAGCGTACCCTGAGGCTCAACTCACTTC
TCGCGATATGGGTTGATTTTTGAAACAGAGAAATTAAAAGCTTAACTCACCTCTCGCAAGATGAG
TCAATTTTCAAAACATAAACTAAAAA
Found at i:88357809 original size:40 final size:40
Alignment explanation
Indices: 88357750--88357918 Score: 173
Period size: 40 Copynumber: 4.2 Consensus size: 40
88357740 CGGGACTTTA
* * *
88357750 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
88357790 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * * * *
88357830 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * *
88357870 CCCGGATAT-A-AA-TTTCAGCATAATTGTCTTCGGGGCTTAG
1 CCCGGATATAACAACTTGCA-CA-AA-TGCCTTCGGGTCTTAG
88357910 CCCGGATAT
1 CCCGGATAT
88357919 CATTCAATTT
Statistics
Matches: 106, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
37 3 0.03
38 3 0.03
39 1 0.01
40 99 0.93
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
Found at i:88362882 original size:27 final size:25
Alignment explanation
Indices: 88362836--88362890 Score: 65
Period size: 27 Copynumber: 2.1 Consensus size: 25
88362826 ATTTTATTAC
*
88362836 TATAGTATATTATTAATTATTTAATTT
1 TATACTATATTATTAATTA-TT-ATTT
**
88362863 TATACTATATTATTTCTTATTATTT
1 TATACTATATTATTAATTATTATTT
88362888 TAT
1 TAT
88362891 CCATTACTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 7 0.28
26 2 0.08
27 16 0.64
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.62
Consensus pattern (25 bp):
TATACTATATTATTAATTATTATTT
Found at i:88364677 original size:16 final size:18
Alignment explanation
Indices: 88364638--88364671 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
88364628 TAAGGTTATA
88364638 ATATTT-TATATTATGTT
1 ATATTTATATATTATGTT
*
88364655 ATTTTTATATATTATGT
1 ATATTTATATATTATGT
88364672 AATTTAGAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (18 bp):
ATATTTATATATTATGTT
Found at i:88365583 original size:63 final size:63
Alignment explanation
Indices: 88365484--88365610 Score: 254
Period size: 63 Copynumber: 2.0 Consensus size: 63
88365474 CGGGGTCTCT
88365484 AGAAAGTTTATTTTATAAAATCTTTGAGATGAATATTGTATGGTAGCGGTAGGAAATTCTTTG
1 AGAAAGTTTATTTTATAAAATCTTTGAGATGAATATTGTATGGTAGCGGTAGGAAATTCTTTG
88365547 AGAAAGTTTATTTTATAAAATCTTTGAGATGAATATTGTATGGTAGCGGTAGGAAATTCTTTG
1 AGAAAGTTTATTTTATAAAATCTTTGAGATGAATATTGTATGGTAGCGGTAGGAAATTCTTTG
88365610 A
1 A
88365611 CTTGAATCAG
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 64 1.00
ACGTcount: A:0.34, C:0.05, G:0.22, T:0.39
Consensus pattern (63 bp):
AGAAAGTTTATTTTATAAAATCTTTGAGATGAATATTGTATGGTAGCGGTAGGAAATTCTTTG
Found at i:88367188 original size:36 final size:36
Alignment explanation
Indices: 88367148--88367219 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
88367138 TTGAGAAGCT
88367148 AAAAATTTATGATCATAAGTTACATGGGTTGAAACA
1 AAAAATTTATGATCATAAGTTACATGGGTTGAAACA
88367184 AAAAATTTATGATCATAAGTTACATGGGTTGAAACA
1 AAAAATTTATGATCATAAGTTACATGGGTTGAAACA
88367220 TATATGTTGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.44, C:0.08, G:0.17, T:0.31
Consensus pattern (36 bp):
AAAAATTTATGATCATAAGTTACATGGGTTGAAACA
Found at i:88367719 original size:160 final size:162
Alignment explanation
Indices: 88367447--88367768 Score: 614
Period size: 160 Copynumber: 2.0 Consensus size: 162
88367437 AGAGTGAGCT
88367447 TTATAATTGTTCATACGCCCTATAGTGGCACTTCTCCCTTGAGTATATTGTCAAAGTCTTGTGCT
1 TTATAATTGTTCATACGCCCTATAGTGGCACTTCTCCCTTGAGTATATTGTCAAAGTCTTGTGCT
88367512 TCCCTAATCATTTCCTTCACATCTTCCAACCAATTTCAACTCCCTTTGGTATCTTCCCTGTAGGA
66 TCCCTAATCATTTCCTTCACATCTTCCAACCAATTTCAACTCCCTTTGGTATCTTCCCTGTAGGA
88367577 CGAAGAA-GGATCTGCTTTCAGTTGCTGCTCC
131 CGAAGAAGGGATCTGCTTTCAGTTGCTGCTCC
88367608 TTATAATTGTTCATACGCCCTATAGTGGCACTTCTCCCTTGAG-ATATTGTCAAAGTCTTGTGCT
1 TTATAATTGTTCATACGCCCTATAGTGGCACTTCTCCCTTGAGTATATTGTCAAAGTCTTGTGCT
88367672 TCCCTAATCATTTCCTTCACATCTTCCAACCAATTTTCAAC-CCCTTTGGTATCTTCCCTGTAGG
66 TCCCTAATCATTTCCTTCACATCTTCCAACCAA-TTTCAACTCCCTTTGGTATCTTCCCTGTAGG
88367736 ACGAAGAAGGGATCTGCTTTCAGTTGCTGCTCC
130 ACGAAGAAGGGATCTGCTTTCAGTTGCTGCTCC
88367769 GTATTTTCTT
Statistics
Matches: 159, Mismatches: 0, Indels: 4
0.98 0.00 0.02
Matches are distributed among these distances:
160 85 0.53
161 74 0.47
ACGTcount: A:0.21, C:0.27, G:0.15, T:0.36
Consensus pattern (162 bp):
TTATAATTGTTCATACGCCCTATAGTGGCACTTCTCCCTTGAGTATATTGTCAAAGTCTTGTGCT
TCCCTAATCATTTCCTTCACATCTTCCAACCAATTTCAACTCCCTTTGGTATCTTCCCTGTAGGA
CGAAGAAGGGATCTGCTTTCAGTTGCTGCTCC
Found at i:88367849 original size:28 final size:28
Alignment explanation
Indices: 88367817--88367870 Score: 76
Period size: 28 Copynumber: 1.9 Consensus size: 28
88367807 ATTGCTCAAG
88367817 TATATTATGTTATAA-AAT-ATTATATAAT
1 TATA-TATGTTA-AATAATAATTATATAAT
88367845 TATATATGTTAAATAATAATTATATA
1 TATATATGTTAAATAATAATTATATA
88367871 TATACGTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
26 2 0.08
27 10 0.42
28 12 0.50
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (28 bp):
TATATATGTTAAATAATAATTATATAAT
Found at i:88372082 original size:30 final size:27
Alignment explanation
Indices: 88372047--88372102 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 27
88372037 CGCACGTACT
*
88372047 ATATATACATATAATATAGTTATTAAGAAA
1 ATATATACA-AT-ATATA-ATATTAAGAAA
88372077 ATATATACAATATATAATATTAAGAA
1 ATATATACAATATATAATATTAAGAA
88372103 TATACACAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
27 9 0.36
28 5 0.20
29 2 0.08
30 9 0.36
ACGTcount: A:0.55, C:0.04, G:0.05, T:0.36
Consensus pattern (27 bp):
ATATATACAATATATAATATTAAGAAA
Found at i:88372556 original size:3 final size:3
Alignment explanation
Indices: 88372548--88372669 Score: 52
Period size: 3 Copynumber: 40.0 Consensus size: 3
88372538 AATATTATAT
* * *
88372548 ATA ATA ATA ATA CTA GA-A ATA GTA ATA ACTA GTA ATA ATA ATA CATTA
1 ATA ATA ATA ATA ATA -ATA ATA ATA ATA A-TA ATA ATA ATA ATA -A-TA
* * * ** * * * *
88372596 AAA ATA ATA AT- ATG TTA ATA ACC AGA ATA TTA ATT ATA ACA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* *
88372643 ATA ATA GA-A ATA ATA GTA TTA ATA ATA
1 ATA ATA -ATA ATA ATA ATA ATA ATA ATA
88372670 TTAGTGTAGA
Statistics
Matches: 86, Mismatches: 25, Indels: 16
0.68 0.20 0.13
Matches are distributed among these distances:
2 4 0.05
3 75 0.87
4 5 0.06
5 2 0.02
ACGTcount: A:0.57, C:0.05, G:0.06, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:88373997 original size:16 final size:15
Alignment explanation
Indices: 88373949--88373999 Score: 70
Period size: 15 Copynumber: 3.5 Consensus size: 15
88373939 AATTATTTTC
88373949 CTATTATTTATTATA
1 CTATTATTTATTATA
*
88373964 CTATT-TTT-TTACA
1 CTATTATTTATTATA
88373977 CTATTATTTATTATA
1 CTATTATTTATTATA
88373992 CTTATTAT
1 C-TATTAT
88374000 ATCATTTTCA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
13 9 0.29
14 6 0.19
15 10 0.32
16 6 0.19
ACGTcount: A:0.29, C:0.10, G:0.00, T:0.61
Consensus pattern (15 bp):
CTATTATTTATTATA
Found at i:88381182 original size:4 final size:4
Alignment explanation
Indices: 88381175--88381212 Score: 67
Period size: 4 Copynumber: 9.5 Consensus size: 4
88381165 ACACGCAAGC
*
88381175 AAAT AAAT AAAT GAAT AAAT AAAT AAAT AAAT AAAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AA
88381213 TGGTAGAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 32 1.00
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:88381743 original size:27 final size:27
Alignment explanation
Indices: 88381675--88381743 Score: 70
Period size: 25 Copynumber: 2.6 Consensus size: 27
88381665 AGAAATAACA
* *
88381675 ATAATATGGTATATTAAAATATGTATAT
1 ATAATAT-TTATATTAAAAGATGTATAT
* * *
88381703 -TTATA-TGATGTTAAAAGATGTATAT
1 ATAATATTTATATTAAAAGATGTATAT
88381728 ATAATATTTATATTAA
1 ATAATATTTATATTAA
88381744 TAATAATAAT
Statistics
Matches: 31, Mismatches: 8, Indels: 5
0.70 0.18 0.11
Matches are distributed among these distances:
25 16 0.52
26 4 0.13
27 11 0.35
ACGTcount: A:0.45, C:0.00, G:0.10, T:0.45
Consensus pattern (27 bp):
ATAATATTTATATTAAAAGATGTATAT
Found at i:88381911 original size:6 final size:6
Alignment explanation
Indices: 88381895--88381924 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
88381885 GGTATTACAA
88381895 AAAAAT AAAAAAT AAAAAT AAAAAT AAAAA
1 AAAAAT -AAAAAT AAAAAT AAAAAT AAAAA
88381925 AATATATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 17 0.74
7 6 0.26
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (6 bp):
AAAAAT
Found at i:88382098 original size:12 final size:12
Alignment explanation
Indices: 88382069--88382110 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
88382059 TACGTAATAT
*
88382069 ACATATATATAT
1 ACATATATATAA
*
88382081 ATATATATATAA
1 ACATATATATAA
*
88382093 ACATATGTATAA
1 ACATATATATAA
88382105 A-ATATA
1 ACATATA
88382111 GACCTAATAT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
11 4 0.16
12 21 0.84
ACGTcount: A:0.55, C:0.05, G:0.02, T:0.38
Consensus pattern (12 bp):
ACATATATATAA
Found at i:88386935 original size:10 final size:10
Alignment explanation
Indices: 88386920--88386946 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
88386910 CTGAAATCTA
88386920 AAAAAAAAAG
1 AAAAAAAAAG
88386930 AAAAAAAAAG
1 AAAAAAAAAG
88386940 AAAAAAA
1 AAAAAAA
88386947 CCGGAGAGGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.93, C:0.00, G:0.07, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:88387874 original size:45 final size:43
Alignment explanation
Indices: 88387810--88388011 Score: 113
Period size: 45 Copynumber: 4.6 Consensus size: 43
88387800 AATCCCACAG
*
88387810 ATCTTGTTTCCCTGAAGTTGCAGTGGAGTAGATCGAAAACGATGA
1 ATCTTGCTT-CCTGAAGTTGCAGTGGAGTAGATCGAAAAC-ATGA
** * ** **
88387855 ATCTTGACTTCCTGAAGTTGCAGTAAAGCAGATTTAAGTCACT-A
1 ATCTTG-CTTCCTGAAGTTGCAGTGGAGTAGATCGAAAACA-TGA
* * * * * * * *
88387899 ACCTAGCTCCCTAAAATTGTAGTGGAGTAGGTTGAAATTACA-G-
1 ATCTTGCTTCCTGAAGTTGCAGTGGAGTAGATCGAAA--ACATGA
* * *
88387942 ATCTTGTTTCCCTGAAGTTGCAGTGGAGTAGATCGAAGACGAAGA
1 ATCTTGCTT-CCTGAAGTTGCAGTGGAGTAGATCGAAAAC-ATGA
* *
88387987 ATCTTGACTTTCTAAAGTTGCAGTG
1 ATCTTG-CTTCCTGAAGTTGCAGTG
88388012 AAGCAGATTT
Statistics
Matches: 113, Mismatches: 34, Indels: 20
0.68 0.20 0.12
Matches are distributed among these distances:
42 2 0.02
43 27 0.24
44 29 0.26
45 51 0.45
46 4 0.04
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (43 bp):
ATCTTGCTTCCTGAAGTTGCAGTGGAGTAGATCGAAAACATGA
Found at i:88388297 original size:133 final size:133
Alignment explanation
Indices: 88387808--88388982 Score: 1411
Period size: 133 Copynumber: 8.9 Consensus size: 133
88387798 CAAATCCCAC
* * * * * *
88387808 AGATCTTGTTTCCCTGA-AGTTGCAGTGGAGTAGATCGAAAAC-GATGAATCTTGACTTCCTGAA
1 AGATCTTGTTTCCCTGAGA-TTGCAGTGGAGCAGATCGAAGACAG-CGAATCTAGGCTTCCTGAT
* * * * *
88387871 GTTGCAGTAAAGCAGATTTAAGTCACTAACCTAGCTCCCTAAAATTGTAGTGGAGTAGGTTGAA-
64 GTTGCAGTGAAGCAGATTTAAGCCACCATCCTAGCTCCCTAAAGTTGTAGTGGAGTAGGTTGAAG
**
88387935 ATTAC
129 ATTGT
* * * * * * *
88387940 AGATCTTGTTTCCCTGA-AGTTGCAGTGGAGTAGATCGAAGAC-GAAGAATCTTGACTTTCTAAA
1 AGATCTTGTTTCCCTGAGA-TTGCAGTGGAGCAGATCGAAGACAG-CGAATCTAGGCTTCCTGAT
* * * *
88388003 GTTGCAGTGAAGCAGATTTAAGTCACTAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGGTGAAG
64 GTTGCAGTGAAGCAGATTTAAGCCACCATCCTAGCTCCCTAAAGTTGTAGTGGAGTAGGTTGAAG
88388068 ATTGT
129 ATTGT
88388073 AGATCTTGTTTCCCTGAGATTGCAAG-GG-GCAGATCGAAGACAGCGAATCTAGGCTTCCTGATG
1 AGATCTTGTTTCCCTGAGATTGC-AGTGGAGCAGATCGAAGACAGCGAATCTAGGCTTCCTGATG
* *
88388136 TTGCAGTGAAGCAGATTTAAACCACCATCATAGCTCCCTAAAGTTGTAGTGGAGTAGGTTGAAGA
65 TTGCAGTGAAGCAGATTTAAGCCACCATCCTAGCTCCCTAAAGTTGTAGTGGAGTAGGTTGAAGA
88388201 TTGT
130 TTGT
* *
88388205 AGATCTTGTTTCCCTGAGACT-CTAGTGGAGCAGATCGAAGACAGCGAATCTAGGCTTCCTAATG
1 AGATCTTGTTTCCCTGAGATTGC-AGTGGAGCAGATCGAAGACAGCGAATCTAGGCTTCCTGATG
* * * *
88388269 TTGCAGTGAAGTAGATATAAACCACCATCCTAGCTCCCTAAAGTTGTAGTAGAGTAGGTTGAAGA
65 TTGCAGTGAAGCAGATTTAAGCCACCATCCTAGCTCCCTAAAGTTGTAGTGGAGTAGGTTGAAGA
88388334 TTGT
130 TTGT
* * *
88388338 AGATCTTGTTTTCCTGAGATTGCAGTGGAGCAGATCGAAGACAGCGGATCTAGGCTTCCTGATAT
1 AGATCTTGTTTCCCTGAGATTGCAGTGGAGCAGATCGAAGACAGCGAATCTAGGCTTCCTGATGT
* *
88388403 TGCAGTGAAGTAGATTTAAGCCACCATCCTAGCTCCCTAAAGTTGTAGTAGAGTAGGTTGAAGAT
66 TGCAGTGAAGCAGATTTAAGCCACCATCCTAGCTCCCTAAAGTTGTAGTGGAGTAGGTTGAAGAT
88388468 TGT
131 TGT
** * *
88388471 AGATCTTGTTTCCCTGAGATTGCAGTGGAGCAGATTAAAGACGGC-AGATCTAGGTTTCCTGATG
1 AGATCTTGTTTCCCTGAGATTGCAGTGGAGCAGATCGAAGACAGCGA-ATCTAGGCTTCCTGATG
* * * * * ****
88388535 TTGCAGCGAAACGGATTTAAGTCACCACCCTAGCTCCCTAAAGTTGTAGTGGAGTAGACCCAAGA
65 TTGCAGTGAAGCAGATTTAAGCCACCATCCTAGCTCCCTAAAGTTGTAGTGGAGTAGGTTGAAGA
*
88388600 TTGC
130 TTGT
* * * * * * * ** * *
88388604 AGACCTCG--T---T----TT-CAGTGGAGCAGATTGAATACGGTGAATCTCGATTTCCTAAAGT
1 AGATCTTGTTTCCCTGAGATTGCAGTGGAGCAGATCGAAGACAGCGAATCTAGGCTTCCTGATGT
* * * * *
88388659 TGCAGCGAAGCAGATTTAAGCTACCATCCTAGCTCCCTAAGGTTGTAGTGGAGTAGGCTGAATAT
66 TGCAGTGAAGCAGATTTAAGCCACCATCCTAGCTCCCTAAAGTTGTAGTGGAGTAGGTTGAAGAT
88388724 TGT
131 TGT
88388727 AGATCTTGTTTCCCTGAGATTGCAAG-GG-GCAGATCGAAGACAGCGAATCTAGGCTTCCTGATG
1 AGATCTTGTTTCCCTGAGATTGC-AGTGGAGCAGATCGAAGACAGCGAATCTAGGCTTCCTGATG
* *
88388790 TTGCAGTGAAGCAGATTTAAACCACCATCCTAGCTCCCTAAAGTTGTAGTGGAATAGGTTGAAGA
65 TTGCAGTGAAGCAGATTTAAGCCACCATCCTAGCTCCCTAAAGTTGTAGTGGAGTAGGTTGAAGA
88388855 TTGT
130 TTGT
* * *
88388859 AGATGATCTTGTTTTCCTGAGATTGTAGTGGAGCAGATCGAAGACAGCGGATCTAGGCTTCCTGA
1 --A-GATCTTGTTTCCCTGAGATTGCAGTGGAGCAGATCGAAGACAGCGAATCTAGGCTTCCTGA
* * * * *
88388924 TGTTGTAGTGAAGCAGATTTGAGTCACCACCCTAGCTCCTTAAAGTTGTAGTGGAGTAG
63 TGTTGCAGTGAAGCAGATTTAAGCCACCATCCTAGCTCCCTAAAGTTGTAGTGGAGTAG
88388983 ACCCAAGATT
Statistics
Matches: 915, Mismatches: 103, Indels: 46
0.86 0.10 0.04
Matches are distributed among these distances:
123 97 0.11
124 3 0.00
125 1 0.00
128 2 0.00
131 4 0.00
132 321 0.35
133 372 0.41
134 9 0.01
135 22 0.02
136 84 0.09
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.28
Consensus pattern (133 bp):
AGATCTTGTTTCCCTGAGATTGCAGTGGAGCAGATCGAAGACAGCGAATCTAGGCTTCCTGATGT
TGCAGTGAAGCAGATTTAAGCCACCATCCTAGCTCCCTAAAGTTGTAGTGGAGTAGGTTGAAGAT
TGT
Found at i:88388712 original size:123 final size:123
Alignment explanation
Indices: 88388493--88389025 Score: 316
Period size: 123 Copynumber: 4.2 Consensus size: 123
88388483 CCTGAGATTG
* * * *
88388493 CAGTGGAGCAGATTAAAGACGGCAGATCTAGGTTTCCTGATGTTGCAGCGAAACGGATTTAAGTC
1 CAGTGGAGCAGATTAAAGACGGCAGATCTAGATTTCCTAAAGTTGCAGCGAAACAGATTTAAGTC
88388558 ACCACCCTAGCTCCCTAAAGTTGTAGTGGAGTAGACCCAAGATTGCAGACCTCGTTTT
66 ACCACCCTAGCTCCCTAAAGTTGTAGTGGAGTAGACCCAAGATTGCAGACCTCGTTTT
* * * * *
88388616 CAGTGGAGCAGATTGAATACGG-TGAATCTCGATTTCCTAAAGTTGCAGCGAAGCAGATTTAAG-
1 CAGTGGAGCAGATTAAAGACGGCAG-ATCTAGATTTCCTAAAGTTGCAGCGAAACAGATTTAAGT
* * * ** * * * *
88388679 CTACCATCCTAGCTCCCTAAGGTTGTAGTGGAGTAGGCTGAATATTGTAGATCTTGTTTCCCT
65 C-ACCACCCTAGCTCCCTAAAGTTGTAGTGGAGTAGACCCAAGATTGCAGACCTCGTTT---T
* * ** * ** * * * *
88388742 GAGATTGCAAGGGGCAGATCGAAGACAGC-GAATCTAGGCTTCCTGATGTTGCAGTGAAGCAGAT
1 CAG--T----GGAGCAGATTAAAGACGGCAG-ATCTAGATTTCCTAAAGTTGCAGCGAAACAGAT
** * * **** * * *
88388806 TTAAACCACCATCCTAGCTCCCTAAAGTTGTAGTGGAATAGGTTGAAGATTGTAGATGATCTTGT
59 TTAAGTCACCACCCTAGCTCCCTAAAGTTGTAGTGGAGTAGACCCAAGATTG--CA-GACCTCGT
88388871 TTT
121 TTT
** * * ** * * * * *
88388874 CCTGAGATTGTAGTGGAGCAGATCGAAGACAGCGGATCTAGGCTTCCTGATGTTGTAGTGAAGCA
1 -C---------AGTGGAGCAGATTAAAGACGGCAGATCTAGATTTCCTAAAGTTGCAGCGAAACA
* *
88388939 GATTTGAGTCACCACCCTAGCTCCTTAAAGTTGTAGTGGAGTAGACCCAAGATTGCAGACCTCGT
56 GATTTAAGTCACCACCCTAGCTCCCTAAAGTTGTAGTGGAGTAGACCCAAGATTGCAGACCTCGT
* *
88389004 CTC
121 TTT
*
88389007 CAGTGGAGCAGATCAAAGA
1 CAGTGGAGCAGATTAAAGA
88389026 AAACAAGCCT
Statistics
Matches: 329, Mismatches: 54, Indels: 54
0.75 0.12 0.12
Matches are distributed among these distances:
122 2 0.01
123 117 0.36
126 3 0.01
128 1 0.00
132 90 0.27
133 8 0.02
134 2 0.01
135 10 0.03
136 92 0.28
137 1 0.00
140 1 0.00
142 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.27
Consensus pattern (123 bp):
CAGTGGAGCAGATTAAAGACGGCAGATCTAGATTTCCTAAAGTTGCAGCGAAACAGATTTAAGTC
ACCACCCTAGCTCCCTAAAGTTGTAGTGGAGTAGACCCAAGATTGCAGACCTCGTTTT
Found at i:88388993 original size:136 final size:131
Alignment explanation
Indices: 88388657--88388982 Score: 456
Period size: 136 Copynumber: 2.4 Consensus size: 131
88388647 ATTTCCTAAA
* * *
88388657 GTTGCAGCGAAGCAGATTTAAGCTACCATCCTAGCTCCCTAAGGTTGTAGTGGAGTAGGCTGAAT
1 GTTGCAGTGAAGCAGATTTAAGC-ACCATCCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAG
88388722 ATTGTAGATCTTGTTTCCCTGAGATTGCAAGGGGCAGATCGAAGACAGCGAATCTAGGCTTCCTG
65 ATTGTAGATCTTGTTTCCCTGAGATTGCAAGGGGCAGATCGAAGACAGCGAATCTAGGCTTCCTG
88388787 AT
130 AT
* * *
88388789 GTTGCAGTGAAGCAGATTTAAACCACCATCCTAGCTCCCTAAAGTTGTAGTGGAATAGGTTGAAG
1 GTTGCAGTGAAGCAGATTT-AAGCACCATCCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAG
* * *
88388854 ATTGTAGATGATCTTGTTTTCCTGAGATTG-TAGTGGAGCAGATCGAAGACAGCGGATCTAGGCT
65 ATTGT--A-GATCTTGTTTCCCTGAGATTGCAAG-GG-GCAGATCGAAGACAGCGAATCTAGGCT
88388918 TCCTGAT
125 TCCTGAT
* * * *
88388925 GTTGTAGTGAAGCAGATTTGAGTCACCACCCTAGCTCCTTAAAGTTGTAGTGGAGTAG
1 GTTGCAGTGAAGCAGATTTAAG-CACCATCCTAGCTCCCTAAAGTTGTAGTGGAGTAG
88388983 ACCCAAGATT
Statistics
Matches: 172, Mismatches: 15, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
132 60 0.35
133 3 0.02
134 3 0.02
135 23 0.13
136 83 0.48
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (131 bp):
GTTGCAGTGAAGCAGATTTAAGCACCATCCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAGA
TTGTAGATCTTGTTTCCCTGAGATTGCAAGGGGCAGATCGAAGACAGCGAATCTAGGCTTCCTGA
T
Found at i:88390967 original size:16 final size:15
Alignment explanation
Indices: 88390919--88390969 Score: 70
Period size: 15 Copynumber: 3.5 Consensus size: 15
88390909 AATTATTTTC
88390919 CTATTATTTATTATA
1 CTATTATTTATTATA
*
88390934 CTATT-TTT-TTACA
1 CTATTATTTATTATA
88390947 CTATTATTTATTATA
1 CTATTATTTATTATA
88390962 CTTATTAT
1 C-TATTAT
88390970 ATCATTTTCA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
13 9 0.29
14 6 0.19
15 10 0.32
16 6 0.19
ACGTcount: A:0.29, C:0.10, G:0.00, T:0.61
Consensus pattern (15 bp):
CTATTATTTATTATA
Found at i:88392177 original size:23 final size:22
Alignment explanation
Indices: 88392134--88392192 Score: 57
Period size: 23 Copynumber: 2.6 Consensus size: 22
88392124 GACAATTAGG
* *
88392134 AATGATAATAACAATATTAAAAA
1 AATGAAAATAA-AATAGTAAAAA
*
88392157 AATGAAAATAAAATAAGTAAATA
1 AATGAAAATAAAAT-AGTAAAAA
88392180 AAT-AAAATGAAAA
1 AATGAAAAT-AAAA
88392193 AGGACTAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
22 8 0.26
23 23 0.74
ACGTcount: A:0.69, C:0.02, G:0.07, T:0.22
Consensus pattern (22 bp):
AATGAAAATAAAATAGTAAAAA
Found at i:88392755 original size:20 final size:21
Alignment explanation
Indices: 88392730--88392769 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
88392720 AAGGTAATTT
*
88392730 TTATAT-TTTTTTCTTTTTTA
1 TTATATATTTTTTATTTTTTA
88392750 TTATATATTTTTTATTTTTT
1 TTATATATTTTTTATTTTTT
88392770 TTAGTTTACA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.80
Consensus pattern (21 bp):
TTATATATTTTTTATTTTTTA
Found at i:88392782 original size:25 final size:22
Alignment explanation
Indices: 88392732--88392782 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 22
88392722 GGTAATTTTT
*
88392732 ATATTTTTTTCTTTTTTATTAT
1 ATATTTTTTTCTTTTTTATTAC
*
88392754 ATATTTTTTATTTTTTTTAGTTTAC
1 ATATTTTTT-TCTTTTTTA--TTAC
88392779 ATAT
1 ATAT
88392783 ATGTTAAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 9 0.38
23 8 0.33
25 7 0.29
ACGTcount: A:0.22, C:0.04, G:0.02, T:0.73
Consensus pattern (22 bp):
ATATTTTTTTCTTTTTTATTAC
Found at i:88394196 original size:80 final size:79
Alignment explanation
Indices: 88393975--88394208 Score: 300
Period size: 80 Copynumber: 3.0 Consensus size: 79
88393965 TGAAACTTAA
* ** * * *
88393975 TTTGGAAAGCAGATTTTGAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATT
1 TTTGAAAAGCAGAAATTGAAAATACCTCAGCGTG-GACCCGAGGCTCAACTCACCTCTCGCAATA
*
88394040 TGAGTTGA---TTTC
65 TGAGTTGATTTTTTT
** * *
88394052 TTTGAAAAGCAGAAATCAAAAATTCCTCAGCGT---CCTGAGGCTCAACTCACCTCTCGCAATAT
1 TTTGAAAAGCAGAAATTGAAAATACCTCAGCGTGGACCCGAGGCTCAACTCACCTCTCGCAATAT
88394114 GAGTTGATTTTTTT
66 GAGTTGATTTTTTT
*
88394128 TTTGAAAAGTAGAAATTGAAAATACCTCAGCGTGCGACCCGAGGCTCAACTCACCTCTCGCAATA
1 TTTGAAAAGCAGAAATTGAAAATACCTCAGCGTG-GACCCGAGGCTCAACTCACCTCTCGCAATA
88394193 TGAGTTGATTTTTTT
65 TGAGTTGATTTTTTT
88394208 T
1 T
88394209 AAAAACAGAC
Statistics
Matches: 134, Mismatches: 16, Indels: 11
0.83 0.10 0.07
Matches are distributed among these distances:
73 34 0.25
76 32 0.24
77 25 0.19
80 43 0.32
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (79 bp):
TTTGAAAAGCAGAAATTGAAAATACCTCAGCGTGGACCCGAGGCTCAACTCACCTCTCGCAATAT
GAGTTGATTTTTTT
Found at i:88394288 original size:89 final size:91
Alignment explanation
Indices: 88394129--88394303 Score: 300
Period size: 89 Copynumber: 1.9 Consensus size: 91
88394119 GATTTTTTTT
* *
88394129 TTGAAAAGTAGAAATTGAAAATACCTCAGCGTGCGACCCGAGGCTCAACTCACCTCTCGCAATAT
1 TTGAAAAGCAGAAATTGAAAATACCTCAACGTGC-ACCCGAGGCTCAACTCACCTCTCGCAATAT
88394194 GAGTTGA-TTTTTTTTAAAAACAGACA
65 GAGTTGATTTTTTTTTAAAAACAGACA
*
88394220 TTGAAAAGCAGAAATTGAAAATACCTCAACGTGC-CCTGAGGCTCAACTCACCTCTCGCAATATG
1 TTGAAAAGCAGAAATTGAAAATACCTCAACGTGCACCCGAGGCTCAACTCACCTCTCGCAATATG
88394284 AGTTGATTTTTTTTTAAAAA
66 AGTTGATTTTTTTTTAAAAA
88394304 AAAGAAAAAT
Statistics
Matches: 80, Mismatches: 3, Indels: 3
0.93 0.03 0.03
Matches are distributed among these distances:
89 35 0.44
90 13 0.16
91 32 0.40
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.28
Consensus pattern (91 bp):
TTGAAAAGCAGAAATTGAAAATACCTCAACGTGCACCCGAGGCTCAACTCACCTCTCGCAATATG
AGTTGATTTTTTTTTAAAAACAGACA
Found at i:88401182 original size:31 final size:31
Alignment explanation
Indices: 88401147--88401208 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
88401137 TCTCAGGATT
*
88401147 AGGTCTTGCTGGCCTTTGTTCGTTTTTAGGC
1 AGGTCTTGCAGGCCTTTGTTCGTTTTTAGGC
88401178 AGGTCTTGCAGGCCTTTGTTCGTTTTTAGGC
1 AGGTCTTGCAGGCCTTTGTTCGTTTTTAGGC
88401209 TGGCCTTGGG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.08, C:0.19, G:0.29, T:0.44
Consensus pattern (31 bp):
AGGTCTTGCAGGCCTTTGTTCGTTTTTAGGC
Found at i:88404596 original size:10 final size:11
Alignment explanation
Indices: 88404577--88404609 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
88404567 TTGATATGTT
88404577 AATGAAGAGAA
1 AATGAAGAGAA
88404588 AAT-AAGAGAA
1 AATGAAGAGAA
*
88404598 AGTGAAGAGAA
1 AATGAAGAGAA
88404609 A
1 A
88404610 TAGTGTAGAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
10 9 0.45
11 11 0.55
ACGTcount: A:0.64, C:0.00, G:0.27, T:0.09
Consensus pattern (11 bp):
AATGAAGAGAA
Found at i:88406361 original size:46 final size:46
Alignment explanation
Indices: 88406314--88406633 Score: 426
Period size: 46 Copynumber: 7.0 Consensus size: 46
88406304 GCTCTCTGAT
** * *
88406314 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** * * *
88406360 ATGAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAACGTGAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
*
88406406 ATGAAACGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
**
88406452 GGGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** * *
88406498 GGGAAATGAATAAGACCATGGTTGAAAGATACCGTGGCAACGTGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
*
88406544 ATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * * * *
88406590 A-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 ATG-AAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATG
88406634 TCAAAGATAA
Statistics
Matches: 249, Mismatches: 24, Indels: 2
0.91 0.09 0.01
Matches are distributed among these distances:
45 1 0.00
46 248 1.00
ACGTcount: A:0.41, C:0.15, G:0.25, T:0.19
Consensus pattern (46 bp):
ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:88411883 original size:40 final size:40
Alignment explanation
Indices: 88411828--88412049 Score: 304
Period size: 40 Copynumber: 5.6 Consensus size: 40
88411818 TATTCGGATG
*
88411828 ATATCCGGGCTAAGTCTCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
**
88411868 ATATCCGGGCTAAGTCTTGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
88411908 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGTTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* * * * * *
88411948 ATTTCTGGGCTAAGACCCGAAGGCATGTGTGCGAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
88411988 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTG-CG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
88412028 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
88412050 TACTTGGTTT
Statistics
Matches: 163, Mismatches: 18, Indels: 3
0.89 0.10 0.02
Matches are distributed among these distances:
39 15 0.09
40 147 0.90
41 1 0.01
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:88420171 original size:40 final size:40
Alignment explanation
Indices: 88420116--88420398 Score: 266
Period size: 40 Copynumber: 7.6 Consensus size: 40
88420106 TATTCGGATG
88420116 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
88420156 ATATCCGGGCTAAGTCCCAAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
88420196 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGTTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* * * * * *
88420236 ATTTCTGGGCTAAGACCCGAAGGCATGTGTGCGAGTTAC-
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
88420275 -TA-------T-A-TCCCGAAGGCATTTGTGTTAGTGAC-
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* * * *
88420304 -TA-----GCTAAGACCCGAAGGCATGTGTGCGAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
88420338 ATATCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTG-CG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
88420377 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
88420399 TACTTGGTTT
Statistics
Matches: 204, Mismatches: 26, Indels: 27
0.79 0.10 0.11
Matches are distributed among these distances:
29 22 0.11
30 1 0.00
31 2 0.01
32 1 0.00
33 20 0.10
35 2 0.01
38 8 0.04
39 32 0.16
40 116 0.57
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:88420295 original size:29 final size:29
Alignment explanation
Indices: 88420251--88420343 Score: 105
Period size: 29 Copynumber: 3.1 Consensus size: 29
88420241 TGGGCTAAGA
88420251 CCCGAAGGCATGTGTGCGAGTTACTATAT
1 CCCGAAGGCATGTGTGCGAGTTACTATAT
* ** * *
88420280 CCCGAAGGCATTTGTGTTAGTGACTAGCTAAGA
1 CCCGAAGGCATGTGTGCGAGTTACTA--T-A-T
88420313 CCCGAAGGCATGTGTGCGAGTTACTATAT
1 CCCGAAGGCATGTGTGCGAGTTACTATAT
88420342 CC
1 CC
88420344 GGGCTAAGTC
Statistics
Matches: 50, Mismatches: 10, Indels: 8
0.74 0.15 0.12
Matches are distributed among these distances:
29 24 0.48
30 1 0.02
31 2 0.04
32 1 0.02
33 22 0.44
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.27
Consensus pattern (29 bp):
CCCGAAGGCATGTGTGCGAGTTACTATAT
Found at i:88420361 original size:39 final size:39
Alignment explanation
Indices: 88420313--88420398 Score: 120
Period size: 39 Copynumber: 2.2 Consensus size: 39
88420303 CTAGCTAAGA
* *
88420313 CCCGAAGGCATGTGTGCGAGTTACTATATCCGGGCTAAGT
1 CCCGAAGGCATGTGTGCGAGTTACGATATCC-GGCTAAAT
* *
88420353 -CCGAAGGCATTTGTGCGAGTTGCGATATCCGGCTAAAT
1 CCCGAAGGCATGTGTGCGAGTTACGATATCCGGCTAAAT
88420391 CCCGAAGG
1 CCCGAAGG
88420399 TACTTGGTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
38 7 0.17
39 34 0.83
ACGTcount: A:0.23, C:0.23, G:0.30, T:0.23
Consensus pattern (39 bp):
CCCGAAGGCATGTGTGCGAGTTACGATATCCGGCTAAAT
Found at i:88421996 original size:10 final size:11
Alignment explanation
Indices: 88421977--88422009 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
88421967 TTGATATGTT
88421977 AATGAAGAGAA
1 AATGAAGAGAA
88421988 AAT-AAGAGAA
1 AATGAAGAGAA
*
88421998 AGTGAAGAGAA
1 AATGAAGAGAA
88422009 A
1 A
88422010 TAGTGTAGAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
10 9 0.45
11 11 0.55
ACGTcount: A:0.64, C:0.00, G:0.27, T:0.09
Consensus pattern (11 bp):
AATGAAGAGAA
Found at i:88423724 original size:46 final size:46
Alignment explanation
Indices: 88423611--88423934 Score: 407
Period size: 46 Copynumber: 7.0 Consensus size: 46
88423601 GCTCTCTGAT
** *
88423611 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCAACCTGAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAA-C-A--TGAC
** * *
88423661 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
*
88423707 ATGAAACGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
**
88423753 GGGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** * *
88423799 GGGAAATGAATAAGACCATGGTTGAAAGATACCGTGGCAACGTGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
*
88423845 ATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * * * * *
88423891 A-GAAAATGAGTAAAACCATAGTTGAAAGACACTATGGCATCATG
1 ATG-AAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATG
88423935 TCAAAGATAA
Statistics
Matches: 250, Mismatches: 23, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
45 1 0.00
46 208 0.83
49 1 0.00
50 40 0.16
ACGTcount: A:0.41, C:0.15, G:0.24, T:0.19
Consensus pattern (46 bp):
ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:88423865 original size:138 final size:138
Alignment explanation
Indices: 88423621--88423934 Score: 448
Period size: 138 Copynumber: 2.2 Consensus size: 138
88423611 ATGAAATGTG
* * **
88423621 TAAGACCATGGTTGAAAGATACCATGGCAACCAACCTGATATGAAATGTGTAAGACCATGGTTGA
1 TAAGACCATGGTTGAAAGATACCATGGCAA-C-A--TGACAGGAAATGAATAAGACCATGGTTGA
* *
88423686 AAGATACCATGGCAACGTGATATGAAACGAATAAGACCATGGTTGAAAGATACCATGGCAACATG
62 AAGATACCATGGCAACGTGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAACATG
* *
88423751 ACGGGAAATGAA
127 ACAGAAAATGAA
*
88423763 TAAGACCATGGTTGAAAGATACCATGGCAACATGACGGGAAATGAATAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAATAAGACCATGGTTGAAAGA
*
88423828 TACCGTGGCAACGTGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACAG
66 TACCATGGCAACGTGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACAG
*
88423893 AAAATGAG
131 AAAATGAA
* * * * *
88423901 TAAAACCATAGTTGAAAGACACTATGGCATCATG
1 TAAGACCATGGTTGAAAGATACCATGGCAACATG
88423935 TCAAAGATAA
Statistics
Matches: 156, Mismatches: 16, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
138 124 0.79
140 1 0.01
141 1 0.01
142 30 0.19
ACGTcount: A:0.41, C:0.16, G:0.24, T:0.19
Consensus pattern (138 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAATAAGACCATGGTTGAAAGA
TACCATGGCAACGTGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACAG
AAAATGAA
Found at i:88425744 original size:136 final size:136
Alignment explanation
Indices: 88425512--88425921 Score: 757
Period size: 136 Copynumber: 3.0 Consensus size: 136
88425502 GCCCATTCAA
* * *
88425512 GTAATAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTC
1 GTAACAGTGATACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTC
88425577 AGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAACATATGCAAGCCC
66 AGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAACATATGCAAGCCC
88425642 ATTTGG
131 ATTTGG
*
88425648 GTAACAGTGATACTGGGCCAAAACCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTC
1 GTAACAGTGATACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTC
*
88425713 AGATAACTGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAACATATGCAAGCCC
66 AGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAACATATGCAAGCCC
88425778 ATTTGG
131 ATTTGG
88425784 GTAACAGTGATACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTC
1 GTAACAGTGATACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTC
*
88425849 AGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAACATATGCAAGCC
66 AGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAAT-AACATATGCAAGCC
88425914 CATTTGG
130 CATTTGG
88425921 G
1 G
88425922 GAGACTACTC
Statistics
Matches: 265, Mismatches: 8, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
136 243 0.92
137 22 0.08
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (136 bp):
GTAACAGTGATACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTC
AGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAACATATGCAAGCCC
ATTTGG
Found at i:88427744 original size:26 final size:26
Alignment explanation
Indices: 88427708--88427843 Score: 236
Period size: 26 Copynumber: 5.2 Consensus size: 26
88427698 CATGAAATTC
88427708 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
88427734 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
88427760 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
88427786 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
88427812 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
88427838 TTATCA
1 TTATCA
88427844 ATTTGTATCA
Statistics
Matches: 104, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 104 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:88430729 original size:2 final size:2
Alignment explanation
Indices: 88430722--88430763 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
88430712 TTAATGATGC
*
88430722 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
88430764 ATACGGTGTT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
TA
Found at i:88431104 original size:30 final size:27
Alignment explanation
Indices: 88431069--88431124 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 27
88431059 TGCATGTACT
*
88431069 ATATATACATATAATATAGTTATTAAGAAA
1 ATATATACA-AT-ATATA-ATATTAAGAAA
88431099 ATATATACAATATATAATATTAAGAA
1 ATATATACAATATATAATATTAAGAA
88431125 TATACACAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
27 9 0.36
28 5 0.20
29 2 0.08
30 9 0.36
ACGTcount: A:0.55, C:0.04, G:0.05, T:0.36
Consensus pattern (27 bp):
ATATATACAATATATAATATTAAGAAA
Found at i:88431594 original size:16 final size:16
Alignment explanation
Indices: 88431561--88431617 Score: 62
Period size: 16 Copynumber: 3.6 Consensus size: 16
88431551 AATATTATAT
88431561 ATAATAAT-ACTAGAA
1 ATAATAATAACTAGAA
* *
88431576 ATAGTAATAACTAGTA
1 ATAATAATAACTAGAA
* *
88431592 ATAATAATACATTAAAA
1 ATAATAATA-ACTAGAA
88431609 ATAATAATA
1 ATAATAATA
88431618 TGTTAATAAC
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
15 7 0.21
16 14 0.41
17 13 0.38
ACGTcount: A:0.60, C:0.05, G:0.05, T:0.30
Consensus pattern (16 bp):
ATAATAATAACTAGAA
Found at i:88431695 original size:3 final size:3
Alignment explanation
Indices: 88431561--88431679 Score: 55
Period size: 3 Copynumber: 39.0 Consensus size: 3
88431551 AATATTATAT
* * * *
88431561 ATA ATA ATA CTA GA-A ATA GTA ATA ACTA GTA ATA ATA ATA CATTA AAA
1 ATA ATA ATA ATA -ATA ATA ATA ATA A-TA ATA ATA ATA ATA -A-TA ATA
* * ** * * *
88431609 ATA ATA AT- ATG TTA ATA ACC AGA ATA TTA ATA ATA ACA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* *
88431656 ATA GA-A ATA ATA GTA TTA ATA ATA
1 ATA -ATA ATA ATA ATA ATA ATA ATA
88431680 TTAGGAATGA
Statistics
Matches: 85, Mismatches: 23, Indels: 16
0.69 0.19 0.13
Matches are distributed among these distances:
2 4 0.05
3 74 0.87
4 5 0.06
5 2 0.02
ACGTcount: A:0.58, C:0.05, G:0.06, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:88432311 original size:20 final size:21
Alignment explanation
Indices: 88432279--88432322 Score: 81
Period size: 20 Copynumber: 2.1 Consensus size: 21
88432269 GGAAAAGGTA
88432279 ATTTTTATATATATATTTTTT
1 ATTTTTATATATATATTTTTT
88432300 ATTTTTAT-TATATATTTTTT
1 ATTTTTATATATATATTTTTT
88432320 ATT
1 ATT
88432323 ATGTTTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 15 0.65
21 8 0.35
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (21 bp):
ATTTTTATATATATATTTTTT
Found at i:88432330 original size:13 final size:14
Alignment explanation
Indices: 88432301--88432333 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
88432291 ATATTTTTTA
88432301 TTTTTATTATATAT
1 TTTTTATTATATAT
*
88432315 TTTTTATTATGT-T
1 TTTTTATTATATAT
88432328 TTTTTA
1 TTTTTA
88432334 GTTTACATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 7 0.39
14 11 0.61
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (14 bp):
TTTTTATTATATAT
Found at i:88433979 original size:11 final size:11
Alignment explanation
Indices: 88433957--88433985 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
88433947 TTATCTTCAC
88433957 TTTCTT-CTTA
1 TTTCTTACTTA
88433967 TTTCTTACTTA
1 TTTCTTACTTA
88433978 TTTCTTAC
1 TTTCTTAC
88433986 CCACAACATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 6 0.33
11 12 0.67
ACGTcount: A:0.14, C:0.21, G:0.00, T:0.66
Consensus pattern (11 bp):
TTTCTTACTTA
Found at i:88438530 original size:23 final size:23
Alignment explanation
Indices: 88438504--88438570 Score: 59
Period size: 22 Copynumber: 2.9 Consensus size: 23
88438494 TTTCTCTCAC
88438504 TTTATTTATTTTTAAAATTTTTA
1 TTTATTTATTTTTAAAATTTTTA
* *
88438527 TTTACTTT-TATTT-AATTTTTTA
1 TTTA-TTTATTTTTAAAATTTTTA
*
88438549 TTT-TATAATTTTCTAAAATTTT
1 TTTAT-TTATTTT-TAAAATTTT
88438571 AAAAATAATT
Statistics
Matches: 34, Mismatches: 5, Indels: 9
0.71 0.10 0.19
Matches are distributed among these distances:
20 1 0.03
21 1 0.03
22 14 0.41
23 9 0.26
24 9 0.26
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (23 bp):
TTTATTTATTTTTAAAATTTTTA
Found at i:88441456 original size:9 final size:8
Alignment explanation
Indices: 88441433--88441483 Score: 50
Period size: 8 Copynumber: 6.1 Consensus size: 8
88441423 TTGACCGTGC
*
88441433 AGTGAAGC
1 AGTGAAGA
88441441 AGTGAAGA
1 AGTGAAGA
88441449 ATGTGAAGCA
1 A-GTGAAG-A
88441459 A-TGAAGA
1 AGTGAAGA
*
88441466 ATGTGAAGT
1 A-GTGAAGA
88441475 AGTGAAGA
1 AGTGAAGA
88441483 A
1 A
88441484 AGAAAGAAGA
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
7 2 0.06
8 20 0.56
9 12 0.33
10 2 0.06
ACGTcount: A:0.45, C:0.04, G:0.33, T:0.18
Consensus pattern (8 bp):
AGTGAAGA
Found at i:88441456 original size:17 final size:17
Alignment explanation
Indices: 88441434--88441483 Score: 82
Period size: 17 Copynumber: 2.9 Consensus size: 17
88441424 TGACCGTGCA
88441434 GTGAAGCAGTGAAGAAT
1 GTGAAGCAGTGAAGAAT
*
88441451 GTGAAGCAATGAAGAAT
1 GTGAAGCAGTGAAGAAT
*
88441468 GTGAAGTAGTGAAGAA
1 GTGAAGCAGTGAAGAA
88441484 AGAAAGAAGA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 30 1.00
ACGTcount: A:0.44, C:0.04, G:0.34, T:0.18
Consensus pattern (17 bp):
GTGAAGCAGTGAAGAAT
Found at i:88441642 original size:42 final size:41
Alignment explanation
Indices: 88441596--88441674 Score: 99
Period size: 42 Copynumber: 1.9 Consensus size: 41
88441586 AATTAATTTA
88441596 TTAATAAT-TTAAGATTATATATT-CTAAATTATTTTGTTTAGT
1 TTAATAATGTTAA-ATT-TATATTGCTAAA-TATTTTGTTTAGT
* *
88441638 TTAATAATGTTAAATTTATTTTGTTAAATATTTTGTT
1 TTAATAATGTTAAATTTATATTGCTAAATATTTTGTT
88441675 ATAAATAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
41 14 0.42
42 15 0.45
43 4 0.12
ACGTcount: A:0.34, C:0.01, G:0.08, T:0.57
Consensus pattern (41 bp):
TTAATAATGTTAAATTTATATTGCTAAATATTTTGTTTAGT
Found at i:88448516 original size:22 final size:20
Alignment explanation
Indices: 88448498--88448555 Score: 80
Period size: 20 Copynumber: 2.8 Consensus size: 20
88448488 AATATAATAC
88448498 AAAAAAATAATTTACATAAA
1 AAAAAAATAATTTACATAAA
* *
88448518 AATAAAGTAATTTACATAAA
1 AAAAAAATAATTTACATAAA
88448538 AAAATAAAGTAATTTACA
1 AAAA-AAA-TAATTTACA
88448556 ATACAAAACC
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
20 21 0.66
21 2 0.06
22 9 0.28
ACGTcount: A:0.64, C:0.05, G:0.03, T:0.28
Consensus pattern (20 bp):
AAAAAAATAATTTACATAAA
Found at i:88448563 original size:22 final size:21
Alignment explanation
Indices: 88448494--88448563 Score: 92
Period size: 22 Copynumber: 3.4 Consensus size: 21
88448484 GATAAATATA
88448494 ATACAAAA-AAA-TAATTTAC
1 ATACAAAATAAAGTAATTTAC
88448513 ATA-AAAATAAAGTAATTTAC
1 ATACAAAATAAAGTAATTTAC
*
88448533 ATAAAAAAATAAAGTAATTTAC
1 AT-ACAAAATAAAGTAATTTAC
88448555 AATACAAAA
1 -ATACAAAA
88448564 CCCTTTAAAA
Statistics
Matches: 45, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
18 4 0.09
19 6 0.13
20 10 0.22
21 1 0.02
22 22 0.49
23 2 0.04
ACGTcount: A:0.64, C:0.07, G:0.03, T:0.26
Consensus pattern (21 bp):
ATACAAAATAAAGTAATTTAC
Found at i:88450919 original size:16 final size:17
Alignment explanation
Indices: 88450882--88450928 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
88450872 AAAAATTTAT
*
88450882 CAAATAATTCTAAATTA
1 CAAATAATTATAAATTA
88450899 CAAATAATT-TAAATGTA
1 CAAATAATTATAAAT-TA
88450916 -AAATAATTATAAA
1 CAAATAATTATAAA
88450929 AATTTACTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
16 13 0.46
17 15 0.54
ACGTcount: A:0.57, C:0.06, G:0.02, T:0.34
Consensus pattern (17 bp):
CAAATAATTATAAATTA
Done.