Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 ID=Chr09-JGI_221_v2.0
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: 70713020
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1142373 characters in sequence are not A, C, G, or T
File 187 of 226
Found at i:59470414 original size:50 final size:50
Alignment explanation
Indices: 59470144--59470475 Score: 373
Period size: 51 Copynumber: 6.6 Consensus size: 50
59470134 TATCGATGAA
* * * *
59470144 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTATTGATAAATA-ATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACTG-TAAA-ACTTGGT
* * * * * *
59470195 CACATGTGTAGTACTAAGTGAAGGCTACAATGTGTACCG-AAAAGCTTTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACTGTAAAA-C-TTGGT
* * ***
59470246 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGGTAAATGATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAA-CTGTAAAACTTGGT
* * * *
59470297 CACATGTGTAGTACTAAGTGAAGGCTACTATGTGTACTG-AAAAGCTTTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACTGTAAAA-C-TTGGT
*
59470348 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACTGTAAAACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACTGTAAAACTTGGT
* * *
59470398 CACGTATGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACTGTAAAACTTGGT
59470448 CACGTGTGTAGTACTATGTGAAGGCTAC
1 CACGTGTGTAGTACTATGTGAAGGCTAC
59470476 ACTACACCAA
Statistics
Matches: 238, Mismatches: 35, Indels: 17
0.82 0.12 0.06
Matches are distributed among these distances:
48 1 0.00
49 6 0.03
50 81 0.34
51 141 0.59
52 6 0.03
53 3 0.01
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (50 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACTGTAAAACTTGGT
Found at i:59470656 original size:41 final size:41
Alignment explanation
Indices: 59470601--59470832 Score: 392
Period size: 41 Copynumber: 5.6 Consensus size: 41
59470591 AAAATGAGCA
*
59470601 TTAGCGGCGATTTTGAAGAAGCGCCGCTAATGCTCAGGGCT
1 TTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCAGGGCT
* *
59470642 TTAGCGGCATTTTTGAAGAAGCGCCGCTAATGCTTAGGGCT
1 TTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCAGGGCT
*
59470683 TTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCAGGGAT
1 TTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCAGGGCT
*
59470724 TTAGCGGCGTTTTTGAAGAAGCGACGCTAATGCTCAGGGCT
1 TTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCAGGGCT
*
59470765 TTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCAGGGAT
1 TTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCAGGGCT
*
59470806 TTAGCGGCGTTTTTTGGAGAAGCGCCG
1 TTAGCGGCG-TTTTTGAAGAAGCGCCG
59470833 AAAAAACATT
Statistics
Matches: 179, Mismatches: 11, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
41 163 0.91
42 16 0.09
ACGTcount: A:0.21, C:0.20, G:0.32, T:0.27
Consensus pattern (41 bp):
TTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCAGGGCT
Found at i:59470978 original size:11 final size:11
Alignment explanation
Indices: 59470964--59470988 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
59470954 ATAATTTGAA
59470964 AAATATTTGTT
1 AAATATTTGTT
59470975 AAATATTTGTT
1 AAATATTTGTT
59470986 AAA
1 AAA
59470989 AATGGAAAAA
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:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (11 bp):
AAATATTTGTT
Found at i:59471254 original size:14 final size:14
Alignment explanation
Indices: 59471223--59471262 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
59471213 AAGGTTTATA
*
59471223 GATTATGGAATTAGG
1 GATTATGG-ATTAAG
59471238 GATTATGGATTAAG
1 GATTATGGATTAAG
*
59471252 GATTAGGGATT
1 GATTATGGATT
59471263 CTAGTTTAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 15 0.65
15 8 0.35
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.35
Consensus pattern (14 bp):
GATTATGGATTAAG
Found at i:59471271 original size:21 final size:21
Alignment explanation
Indices: 59471218--59471273 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 21
59471208 ATTTTAAGGT
*
59471218 TTATAGATTATGGAATTAGGGA
1 TTATAGATTAAGG-ATTAGGGA
*
59471240 TTATGGATTAAGGATTAGGGA
1 TTATAGATTAAGGATTAGGGA
* *
59471261 TTCTAGTTTAAGG
1 TTATAGATTAAGG
59471274 GTTGTGATTT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
21 18 0.62
22 11 0.38
ACGTcount: A:0.32, C:0.02, G:0.29, T:0.38
Consensus pattern (21 bp):
TTATAGATTAAGGATTAGGGA
Found at i:59471324 original size:21 final size:21
Alignment explanation
Indices: 59471282--59471326 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
59471272 GGGTTGTGAT
* * * *
59471282 TTAGGGGTTCGAGGTTATGAG
1 TTAGAGGTTAGAGATTAAGAG
59471303 TTAGAGGTTAGAGATTAAGAG
1 TTAGAGGTTAGAGATTAAGAG
59471324 TTA
1 TTA
59471327 TAAATTTAGG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.29, C:0.02, G:0.36, T:0.33
Consensus pattern (21 bp):
TTAGAGGTTAGAGATTAAGAG
Found at i:59471423 original size:61 final size:63
Alignment explanation
Indices: 59471356--59471477 Score: 203
Period size: 61 Copynumber: 2.0 Consensus size: 63
59471346 TTCGGTGTCA
* *
59471356 GGTTAGGGTTTAGGGTTTAGATTAATTAGTGTGTTTTAA-TT-TATATTAAATAAGGTTTAGG
1 GGTTAGGGTTTAGGGTATAGATTAATCAGTGTGTTTTAAGTTATATATTAAATAAGGTTTAGG
*
59471417 GGTTAGGGTTTAGGGTATAGATTAATCAGTGTTTTTTAAGTTATATATTAAATAAGGTTTA
1 GGTTAGGGTTTAGGGTATAGATTAATCAGTGTGTTTTAAGTTATATATTAAATAAGGTTTA
59471478 AGGCTTTGTA
Statistics
Matches: 56, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
61 36 0.64
62 2 0.04
63 18 0.32
ACGTcount: A:0.30, C:0.01, G:0.25, T:0.45
Consensus pattern (63 bp):
GGTTAGGGTTTAGGGTATAGATTAATCAGTGTGTTTTAAGTTATATATTAAATAAGGTTTAGG
Found at i:59476070 original size:20 final size:19
Alignment explanation
Indices: 59476026--59476072 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 19
59476016 AAAAATAAAA
59476026 TAAAATAAAATATTTATCAT
1 TAAAAT-AAATATTTATCAT
*
59476046 AAAAATAAATA-TTATTCAAT
1 TAAAATAAATATTTA-TC-AT
59476066 TAAAATA
1 TAAAATA
59476073 TATTTTTTCA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
18 3 0.13
19 7 0.30
20 13 0.57
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (19 bp):
TAAAATAAATATTTATCAT
Found at i:59476165 original size:42 final size:43
Alignment explanation
Indices: 59476114--59476210 Score: 99
Period size: 43 Copynumber: 2.3 Consensus size: 43
59476104 TGCGAGAAGC
* * * * *
59476114 GCCGTTAAAGGTTTAT-TCTTTAGCGGCGCTTGTGATACAATT
1 GCCGCTAAAGGTTTATGTCTTTAACGGCGCTTGTGAGAAAAGT
* * *
59476156 GCCGCTAAA-GATTATGGTCTTTAACGGCGTTTGTGGGAAAAGT
1 GCCGCTAAAGGTTTAT-GTCTTTAACGGCGCTTGTGAGAAAAGT
59476199 GCCGCTAAAGGT
1 GCCGCTAAAGGT
59476211 CATGGAAAGC
Statistics
Matches: 43, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
41 5 0.12
42 8 0.19
43 29 0.67
44 1 0.02
ACGTcount: A:0.24, C:0.16, G:0.28, T:0.32
Consensus pattern (43 bp):
GCCGCTAAAGGTTTATGTCTTTAACGGCGCTTGTGAGAAAAGT
Found at i:59476228 original size:22 final size:22
Alignment explanation
Indices: 59476194--59476237 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
59476184 GTTTGTGGGA
* *
59476194 AAAGTGCCGCTAAAGGTCATGG
1 AAAGCGCCACTAAAGGTCATGG
*
59476216 AAAGCGCCACTAAAGTTCATGG
1 AAAGCGCCACTAAAGGTCATGG
59476238 TCTTTAGTAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.34, C:0.20, G:0.27, T:0.18
Consensus pattern (22 bp):
AAAGCGCCACTAAAGGTCATGG
Found at i:59476334 original size:43 final size:43
Alignment explanation
Indices: 59476216--59476372 Score: 143
Period size: 43 Copynumber: 3.8 Consensus size: 43
59476206 AAGGTCATGG
* * ** *
59476216 AAAGCGCCACTAAAGTTCATGGTCTTTAGTAGCGTTAGTGGGA
1 AAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTAGTGGAA
* *
59476259 AAAGCGCCGCTAAAAGTCATAGTCTTTAGCGGCGCTT-GTGGAA
1 AAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCG-TTAGTGGAA
* *
59476302 AAAGTGCCGCTAAAGGTCATGGTCTTT--C-GCG---G-CG-A
1 AAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTAGTGGAA
* *
59476337 AAAGCGCCGTTAAAGTTCATGGTCTTTAGCGGCGTT
1 AAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTT
59476373 TATTTCTAAA
Statistics
Matches: 94, Mismatches: 14, Indels: 15
0.76 0.11 0.12
Matches are distributed among these distances:
35 25 0.27
36 1 0.01
37 2 0.02
38 3 0.03
40 3 0.03
41 1 0.01
43 57 0.61
44 2 0.02
ACGTcount: A:0.25, C:0.20, G:0.29, T:0.26
Consensus pattern (43 bp):
AAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTAGTGGAA
Found at i:59476351 original size:35 final size:35
Alignment explanation
Indices: 59476301--59476370 Score: 104
Period size: 35 Copynumber: 2.0 Consensus size: 35
59476291 CGCTTGTGGA
* *
59476301 AAAAGTGCCGCTAAAGGTCATGGTCTTTCGCGGCG
1 AAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCG
* *
59476336 AAAAGCGCCGTTAAAGTTCATGGTCTTTAGCGGCG
1 AAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCG
59476371 TTTATTTCTA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.24, C:0.21, G:0.30, T:0.24
Consensus pattern (35 bp):
AAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCG
Found at i:59484044 original size:51 final size:50
Alignment explanation
Indices: 59483968--59484254 Score: 247
Period size: 51 Copynumber: 5.7 Consensus size: 50
59483958 TATCGATGAA
* * * * *
59483968 CACGTGTGTACTACTGTGTGAAGGCTACAATGTGTACCGAGAAGCTTTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGA-AAGCTTTGGT
* * * * *
59484019 CACGTGTGTAGTATTGTGTGAAGGCTACTACGTGAATCGATAA-ATGATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGA-AAGCT-TTGGT
* * * * *
59484070 CACATGTGTTGTACTAAGTGAAGGCTACTATGTGTACCGAAAAGCTTTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-AAAGCTTTGGT
* * * *
59484121 CACGTATGTAGTACTATGTGAAGACTACTACGTGAACCGTAAAAC-TTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-AAAGCTTTGGT
* * * * * *
59484171 CACATATGTAGTATTATGTGAAGGCTACTACGTGAATCGTAAAAC-TTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-AAAGCTTTGGT
* * *
59484221 CATGTGTGTAGTACTATATGATGGCTACTACGTG
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTG
59484255 TATCGAATGA
Statistics
Matches: 194, Mismatches: 39, Indels: 7
0.81 0.16 0.03
Matches are distributed among these distances:
50 79 0.41
51 113 0.58
52 2 0.01
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.31
Consensus pattern (50 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGAAAGCTTTGGT
Found at i:59484125 original size:102 final size:102
Alignment explanation
Indices: 59483985--59484260 Score: 315
Period size: 102 Copynumber: 2.7 Consensus size: 102
59483975 GTACTACTGT
* * * *
59483985 GTGAAGGCTACAATGTGTACCGAGAAGCTTTGGTCACGTGTGTAGTATTGTGTGAAGGCTACTAC
1 GTGAAGGCTACTATGTGTACCGAAAAGCTTTGGTCACGTGTGTAGTACTATGTGAAGGCTACTAC
** * * *
59484050 GTGAATCGATAAATGATGGTCACATGTGTTGTACTAA
66 GTGAATCGATAAAACATGATCACATATGTAGTACTAA
* *
59484087 GTGAAGGCTACTATGTGTACCGAAAAGCTTTGGTCACGTATGTAGTACTATGTGAAGACTACTAC
1 GTGAAGGCTACTATGTGTACCGAAAAGCTTTGGTCACGTGTGTAGTACTATGTGAAGGCTACTAC
* * * *
59484152 GTGAACCG-TAAAACTTGATCACATATGTAGTATTAT
66 GTGAATCGATAAAACATGATCACATATGTAGTACTAA
* * * * * * *
59484188 GTGAAGGCTACTACGTGAATCGTAAAA-C-TTGATCATGTGTGTAGTACTATATGATGGCTACTA
1 GTGAAGGCTACTATGTGTACCG-AAAAGCTTTGGTCACGTGTGTAGTACTATGTGAAGGCTACTA
*
59484251 CGTGTATCGA
65 CGTGAATCGA
59484261 ATGATAAAAG
Statistics
Matches: 146, Mismatches: 26, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
100 36 0.25
101 40 0.27
102 70 0.48
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.31
Consensus pattern (102 bp):
GTGAAGGCTACTATGTGTACCGAAAAGCTTTGGTCACGTGTGTAGTACTATGTGAAGGCTACTAC
GTGAATCGATAAAACATGATCACATATGTAGTACTAA
Found at i:59484189 original size:50 final size:50
Alignment explanation
Indices: 59484025--59484254 Score: 228
Period size: 50 Copynumber: 4.6 Consensus size: 50
59484015 TGGTCACGTG
* * * *** * *
59484025 TGTAGTATTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATG
1 TGTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAAACTTGATCACATA
* * * * * *
59484076 TGTTGTACTAAGTGAAGGCTACTATGTGTACCG-AAAAGCTTTGGTCACGTA
1 TGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAA-C-TTGATCACATA
*
59484127 TGTAGTACTATGTGAAGACTACTACGTGAACCGTAAAACTTGATCACATA
1 TGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGATCACATA
* * ** *
59484177 TGTAGTATTATGTGAAGGCTACTACGTGAATCGTAAAACTTGATCATGTG
1 TGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGATCACATA
* *
59484227 TGTAGTACTATATGATGGCTACTACGTG
1 TGTAGTACTATGTGAAGGCTACTACGTG
59484255 TATCGAATGA
Statistics
Matches: 148, Mismatches: 28, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
49 3 0.02
50 78 0.53
51 63 0.43
52 4 0.03
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.32
Consensus pattern (50 bp):
TGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGATCACATA
Found at i:59485656 original size:25 final size:24
Alignment explanation
Indices: 59485628--59485814 Score: 119
Period size: 25 Copynumber: 7.5 Consensus size: 24
59485618 TACAATATGA
*
59485628 CACAAGGGCTTTTCGTAAGATTAGC
1 CACAAAGGCTTTTC-TAAGATTAGC
*
59485653 CACAAAGGCTTTTCATAAGAATAGC
1 CACAAAGGCTTTTC-TAAGATTAGC
* * *
59485678 CACAAAAGC-TTTCTAGACAGTACGC
1 CACAAAGGCTTTTCTA-AGATTA-GC
* *
59485703 CACAAAGGCTTTCCTTAAGATTAGT
1 CACAAAGGCTTTTC-TAAGATTAGC
* *
59485728 CACAAAGGC-TTTCCAGAGAATA-C
1 CACAAAGGCTTTTCTA-AGATTAGC
* * * * *
59485751 ACTACAAAGACTTTCCAAACAATACGC
1 -C-ACAAAGGCTTTTCTAAGATTA-GC
*
59485778 CACAAAGTCTTTTCATAAGATTAGC
1 CACAAAGGCTTTTC-TAAGATTAGC
*
59485803 CACAAAAGCTTT
1 CACAAAGGCTTT
59485815 CTAGATAATT
Statistics
Matches: 125, Mismatches: 26, Indels: 22
0.72 0.15 0.13
Matches are distributed among these distances:
23 3 0.02
24 17 0.14
25 85 0.68
26 17 0.14
27 3 0.02
ACGTcount: A:0.37, C:0.24, G:0.15, T:0.25
Consensus pattern (24 bp):
CACAAAGGCTTTTCTAAGATTAGC
Found at i:59485734 original size:75 final size:75
Alignment explanation
Indices: 59485611--59485815 Score: 227
Period size: 75 Copynumber: 2.7 Consensus size: 75
59485601 ATCATACAGT
* * * * * *
59485611 CTTTCCATACAATATGACACAAGGGCTTTTCGTAAGATTAGCCACAAAGGCTTTTCATAAGAATA
1 CTTTCCAAACAATACGCCACAAAGGCTTTTCATAAGATTAGCCACAAAGGCTTTCCA-AAGAATA
59485676 GC-C-ACAAA-A
65 -CACTACAAAGA
* * * * * * *
59485685 GCTTTCTAGACAGTACGCCACAAAGGCTTTCCTTAAGATTAGTCACAAAGGCTTTCCAGAGAATA
1 -CTTTCCAAACAATACGCCACAAAGGCTTTTCATAAGATTAGCCACAAAGGCTTTCCAAAGAATA
59485750 CACTACAAAGA
65 CACTACAAAGA
* *
59485761 CTTTCCAAACAATACGCCACAAAGTCTTTTCATAAGATTAGCCACAAAAGCTTTC
1 CTTTCCAAACAATACGCCACAAAGGCTTTTCATAAGATTAGCCACAAAGGCTTTC
59485816 TAGATAATTC
Statistics
Matches: 108, Mismatches: 19, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
73 1 0.01
74 7 0.06
75 99 0.92
76 1 0.01
ACGTcount: A:0.37, C:0.24, G:0.14, T:0.25
Consensus pattern (75 bp):
CTTTCCAAACAATACGCCACAAAGGCTTTTCATAAGATTAGCCACAAAGGCTTTCCAAAGAATAC
ACTACAAAGA
Found at i:59485758 original size:50 final size:50
Alignment explanation
Indices: 59485652--59485783 Score: 140
Period size: 50 Copynumber: 2.6 Consensus size: 50
59485642 GTAAGATTAG
* * * *
59485652 CCACAAAGGCTTTTCATAAGAATAGCCACAAAAGCTTTCTAGACAGTACG
1 CCACAAAGGCTTTCCATAAGAATAGCCACAAAAGCTTTCCAGACAATACA
* * * * *
59485702 CCACAAAGGCTTTCCTTAAGATTAGTCACAAAGGCTTTCCAGAGAATACA
1 CCACAAAGGCTTTCCATAAGAATAGCCACAAAAGCTTTCCAGACAATACA
* * *
59485752 CTACAAAGACTTTCCA-AACAATACGCCACAAA
1 CCACAAAGGCTTTCCATAAGAATA-GCCACAAA
59485784 GTCTTTTCAT
Statistics
Matches: 66, Mismatches: 15, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
49 5 0.08
50 61 0.92
ACGTcount: A:0.39, C:0.26, G:0.14, T:0.21
Consensus pattern (50 bp):
CCACAAAGGCTTTCCATAAGAATAGCCACAAAAGCTTTCCAGACAATACA
Found at i:59489902 original size:21 final size:21
Alignment explanation
Indices: 59489878--59489922 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
59489868 TTCTTGTTGT
59489878 CTCTACTGCCCTTGCTGCTGC
1 CTCTACTGCCCTTGCTGCTGC
** * *
59489899 CTCTGTTTCCCTTGCTGTTGC
1 CTCTACTGCCCTTGCTGCTGC
59489920 CTC
1 CTC
59489923 CACTTTAAGT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.02, C:0.40, G:0.18, T:0.40
Consensus pattern (21 bp):
CTCTACTGCCCTTGCTGCTGC
Found at i:59492206 original size:25 final size:25
Alignment explanation
Indices: 59492152--59492223 Score: 76
Period size: 25 Copynumber: 3.0 Consensus size: 25
59492142 AGCACTCTCT
* *
59492152 CGAGCCATATAACAGGATGCTCATG
1 CGAGCCATATAACAGGAAGCTCATC
* *
59492177 TGAGCCATATAACAGGAAGCTTATC
1 CGAGCCATATAACAGGAAGCTCATC
* *
59492202 CGAG-CA-ATAATAGGAAACTCAT
1 CGAGCCATATAACAGGAAGCTCAT
59492224 AAGAGTTTAA
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
23 13 0.33
24 2 0.05
25 24 0.62
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.21
Consensus pattern (25 bp):
CGAGCCATATAACAGGAAGCTCATC
Found at i:59492354 original size:25 final size:24
Alignment explanation
Indices: 59492320--59492372 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 24
59492310 AAGTTCAAGT
59492320 GAGCCATATCAGGA-ATCTCACAAA
1 GAGCCATATCAGGACA-CTCACAAA
*
59492344 GAGCCTATATCAGGACACTCATAAA
1 GAGCC-ATATCAGGACACTCACAAA
59492369 GAGC
1 GAGC
59492373 TGCGGTATGT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 5 0.19
25 20 0.77
26 1 0.04
ACGTcount: A:0.40, C:0.25, G:0.19, T:0.17
Consensus pattern (24 bp):
GAGCCATATCAGGACACTCACAAA
Found at i:59499505 original size:25 final size:25
Alignment explanation
Indices: 59499474--59499529 Score: 103
Period size: 25 Copynumber: 2.2 Consensus size: 25
59499464 CGTATGGGAA
*
59499474 GGAAAAAACTAAGTTAGGGATTTGG
1 GGAAAAAACTAAGTTAAGGATTTGG
59499499 GGAAAAAACTAAGTTAAGGATTTGG
1 GGAAAAAACTAAGTTAAGGATTTGG
59499524 GGAAAA
1 GGAAAA
59499530 CAATTTGAAG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.45, C:0.04, G:0.30, T:0.21
Consensus pattern (25 bp):
GGAAAAAACTAAGTTAAGGATTTGG
Found at i:59499737 original size:40 final size:40
Alignment explanation
Indices: 59499623--59499738 Score: 94
Period size: 42 Copynumber: 2.8 Consensus size: 40
59499613 TAGGCGAAAC
* * *
59499623 GCTGCTATTGCTTTACCTTTAGTGGCATTTGTGAGAAAAAT
1 GCTGCTATT-CTTTACCTTTTGTGGCATTTATGACAAAAAT
* * *
59499664 GCCGCTATCGTTTTTAACCTTTT-TCAG-AGTTTATG-CAAAAAT
1 GCTGCTAT--TCTTT-ACCTTTTGT-GGCA-TTTATGACAAAAAT
59499706 GCTGCTATTACTTTACCTTTTGTGGCATTTATG
1 GCTGCTATT-CTTTACCTTTTGTGGCATTTATG
59499739 GGAAAAACAC
Statistics
Matches: 58, Mismatches: 9, Indels: 17
0.69 0.11 0.20
Matches are distributed among these distances:
40 15 0.26
41 12 0.21
42 18 0.31
43 13 0.22
ACGTcount: A:0.22, C:0.17, G:0.18, T:0.42
Consensus pattern (40 bp):
GCTGCTATTCTTTACCTTTTGTGGCATTTATGACAAAAAT
Found at i:59501962 original size:6 final size:6
Alignment explanation
Indices: 59501951--59501980 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
59501941 ATTATGCGAG
*
59501951 AAATAA AAATAA AATTAA AAATAA AAATAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA
59501981 CCTATAAAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (6 bp):
AAATAA
Found at i:59503148 original size:23 final size:23
Alignment explanation
Indices: 59503121--59503166 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
59503111 GACGGTTGGT
59503121 GGCTTT-GGGGAGTTGAGGGTTGC
1 GGCTTTAGGGGAGTTG-GGGTTGC
* *
59503144 GGCTTTAGGTGCGTTGGGGTTGC
1 GGCTTTAGGGGAGTTGGGGTTGC
59503167 AACAATTTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 13 0.65
24 7 0.35
ACGTcount: A:0.07, C:0.11, G:0.50, T:0.33
Consensus pattern (23 bp):
GGCTTTAGGGGAGTTGGGGTTGC
Found at i:59506154 original size:74 final size:74
Alignment explanation
Indices: 59505945--59506179 Score: 196
Period size: 73 Copynumber: 3.2 Consensus size: 74
59505935 TATGTTTTAT
* * *
59505945 TTTAGTGGCGTTTGTTTGGAAACACCACAAGCTTGAGTTAAATGTTGGGGAAACGACATCG-TTT
1 TTTAGTGGCGTTTGTTTGGAAACGCCACAAGCTTGAGTTAAATGTTAGGGAAATGACATCGTTTT
*
59506009 GATCTTATA
66 GATCTGATA
* *** * ** * ** ***
59506018 TTTAGTGGCTCTTTACAT-GAAACGCCGCAAAATTGTA-TT-TATGTTTATCGAAATGTTGTCGT
1 TTTAGTGGC-GTTTGTTTGGAAACGCCACAAGCTTG-AGTTAAATG-TTAGGGAAATGACATCGT
*
59506080 TTTG-TCAATGGTA
63 TTTGATC--TGATA
59506093 -TTAGTGGCGTTTGTTTGGAAACGCCACAAGCTTGAGTTAAATGTTAGGGAAATGACATCG-TTT
1 TTTAGTGGCGTTTGTTTGGAAACGCCACAAGCTTGAGTTAAATGTTAGGGAAATGACATCGTTTT
*
59506156 GATCTTATA
66 GATCTGATA
59506165 TTTAGTGGCGCTTTG
1 TTTAGTGGCG-TTTG
59506180 CTTAAAACGC
Statistics
Matches: 117, Mismatches: 33, Indels: 23
0.68 0.19 0.13
Matches are distributed among these distances:
72 6 0.05
73 54 0.46
74 51 0.44
75 6 0.05
ACGTcount: A:0.26, C:0.13, G:0.24, T:0.37
Consensus pattern (74 bp):
TTTAGTGGCGTTTGTTTGGAAACGCCACAAGCTTGAGTTAAATGTTAGGGAAATGACATCGTTTT
GATCTGATA
Found at i:59506228 original size:147 final size:147
Alignment explanation
Indices: 59505946--59506358 Score: 421
Period size: 147 Copynumber: 2.8 Consensus size: 147
59505936 ATGTTTTATT
*
59505946 TTAGTGGCGTTTGTTTGGAAACACCACAAGCTTGAGTTAAATGTTGGGGAAACGACATCGTTTGA
1 TTAGTGGCGTTTGTTTGGAAACACCACAAGCTTGAGTTAAATGTTAGGGAAACGACATCGTTTGA
* * ** ** * *
59506011 TCTTATATTTAGTGGCTCTTTACATGAAACGCCGCAAAATTGTATTTATGTTTATCGAAATGTTG
66 TCTTATATTTAGTGGCGCTTTACATAAAACGCCGCAAAATTGTATTTACATTTATAAAAACGCTG
* *
59506076 TCGTTTTGTCAATGGTA
131 CCGTTTTGTAAATGGTA
* *
59506093 TTAGTGGCGTTTGTTTGGAAACGCCACAAGCTTGAGTTAAATGTTAGGGAAATGACATCGTTTGA
1 TTAGTGGCGTTTGTTTGGAAACACCACAAGCTTGAGTTAAATGTTAGGGAAACGACATCGTTTGA
* * *
59506158 TCTTATATTTAGTGGCGCTTTGCTTAAAACGCCGCAACA-T-TATTCTAACATTTATAAAAACGC
66 TCTTATATTTAGTGGCGCTTTACATAAAACGCCGCAAAATTGTATT-T-ACATTTATAAAAACGC
* *
59506221 TGCCGTTTTTTAAATGTTA
129 TGCCGTTTTGTAAATGGTA
** * * * * * * * *
59506240 TTAGTGGCGATTT-TTT-TTAACCCCACGAGTTTGAGGTAAGTATT-GATGAAGCGAC-TGCGTT
1 TTAGTGGCG-TTTGTTTGGAAACACCACAAGCTTGAGTTAAATGTTAG-GGAAACGACAT-CG-T
* *
59506301 TTGAT-TTATAGTTAGTGGCGCTTTA-ATTAAAACGCCGCAAAAATGT-TTTAACATTTAT
62 TTGATCTTATATTTAGTGGCGCTTTACA-TAAAACGCCGCAAAATTGTATTT-ACATTTAT
59506359 CGATACGAGG
Statistics
Matches: 224, Mismatches: 33, Indels: 19
0.81 0.12 0.07
Matches are distributed among these distances:
145 6 0.03
146 72 0.32
147 142 0.63
148 4 0.02
ACGTcount: A:0.28, C:0.14, G:0.21, T:0.37
Consensus pattern (147 bp):
TTAGTGGCGTTTGTTTGGAAACACCACAAGCTTGAGTTAAATGTTAGGGAAACGACATCGTTTGA
TCTTATATTTAGTGGCGCTTTACATAAAACGCCGCAAAATTGTATTTACATTTATAAAAACGCTG
CCGTTTTGTAAATGGTA
Found at i:59506641 original size:19 final size:19
Alignment explanation
Indices: 59506619--59506663 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
59506609 TTCTTTCTCC
*
59506619 CCCCAAATCCCTAAAATCT
1 CCCCAAATCCCTAAAAGCT
* *
59506638 CCCCTAATCCCTAACAGCT
1 CCCCAAATCCCTAAAAGCT
59506657 CCCCAAA
1 CCCCAAA
59506664 CCCGACCACC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.33, C:0.47, G:0.02, T:0.18
Consensus pattern (19 bp):
CCCCAAATCCCTAAAAGCT
Found at i:59506782 original size:5 final size:6
Alignment explanation
Indices: 59506765--59506789 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
59506755 AGCAACTAAC
59506765 TATTTT TATTTT TATTTT TATTTT T
1 TATTTT TATTTT TATTTT TATTTT T
59506790 TCCGTTCCTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TATTTT
Found at i:59513660 original size:21 final size:21
Alignment explanation
Indices: 59513635--59513700 Score: 87
Period size: 21 Copynumber: 3.1 Consensus size: 21
59513625 CAGCAACTTA
* *
59513635 AAGCAGAGGCGGCAGCGAGGG
1 AAGCAGAGGCCGCAGCGAGAG
** *
59513656 AAGCAGAGGCTACAACGAGAG
1 AAGCAGAGGCCGCAGCGAGAG
59513677 AAGCAGAGGCCGCAGCGAGAG
1 AAGCAGAGGCCGCAGCGAGAG
59513698 AAG
1 AAG
59513701 TAGCGAGAGA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.36, C:0.20, G:0.42, T:0.02
Consensus pattern (21 bp):
AAGCAGAGGCCGCAGCGAGAG
Found at i:59514206 original size:42 final size:43
Alignment explanation
Indices: 59514134--59514226 Score: 125
Period size: 42 Copynumber: 2.2 Consensus size: 43
59514124 TCAAAACAGT
* * *
59514134 GGCGTTTGTGAAATAAGCGCCACTAAAGAACACTACTTTTAGC
1 GGCGTTTTTGAAAGAAGCGCCACTAAAGAACACTACTTTTAGA
* * *
59514177 GGCGTTTTTG-AAGAAGCGCCGCTATAGAACATTACTTTTAGA
1 GGCGTTTTTGAAAGAAGCGCCACTAAAGAACACTACTTTTAGA
59514219 GGCGTTTT
1 GGCGTTTT
59514227 CTTCCAAAGC
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
42 35 0.80
43 9 0.20
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.30
Consensus pattern (43 bp):
GGCGTTTTTGAAAGAAGCGCCACTAAAGAACACTACTTTTAGA
Found at i:59514473 original size:42 final size:42
Alignment explanation
Indices: 59514147--59514494 Score: 411
Period size: 42 Copynumber: 8.2 Consensus size: 42
59514137 GTTTGTGAAA
* ***
59514147 TAAGCGCCACTAAAGAACACT-A-CTTTTAGCGGCGTTTTTGAA
1 TAAGCGCCGCTAAAGAACA-TGATC-TTTAGCGGCGTTTTTTTC
* * * * *
59514189 GAAGCGCCGCTATAGAACATTA-CTTTTAGAGGCGTTTTCTTCC
1 TAAGCGCCGCTAAAGAACATGATC-TTTAGCGGCGTTTT-TTTC
* **
59514232 AAAGCGCCGCTAAAGAACATGAGT-TTTAGCGGTATTTTTTTC
1 TAAGCGCCGCTAAAGAACATGA-TCTTTAGCGGCGTTTTTTTC
*
59514274 TAAGCGCCGCTAAAGAACATGATCTTTAGGGGCGTTTTTTT-
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTC
*
59514315 TAAGCGCCGCTAAAGAACATGATCTTTAGGGGCGTTTTTTTTC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCG-TTTTTTTC
* * *
59514358 TAAGCACCGCTAAAGAATATTATCTTTAGCGGCGTTTTTTT-
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTC
*
59514399 TAAGCGCCGCTAAAGAACATGATCTTCAGCGGCGTTTTTTTC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTC
*
59514441 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTCTTTATG
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTT-TTT-TC
59514485 TAAGCGCCGC
1 TAAGCGCCGC
59514495 AATAGTTAGC
Statistics
Matches: 268, Mismatches: 28, Indels: 18
0.85 0.09 0.06
Matches are distributed among these distances:
41 73 0.27
42 120 0.45
43 64 0.24
44 11 0.04
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.32
Consensus pattern (42 bp):
TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTC
Found at i:59514602 original size:22 final size:22
Alignment explanation
Indices: 59514571--59514613 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
59514561 TAGTGGCGTT
* * *
59514571 AAAAAGCGCCGCTAAAGACCTA
1 AAAAAACGCCACTAAAAACCTA
59514593 AAAAAACGCCACTAAAAACCT
1 AAAAAACGCCACTAAAAACCT
59514614 GTTCTGCTGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.51, C:0.28, G:0.12, T:0.09
Consensus pattern (22 bp):
AAAAAACGCCACTAAAAACCTA
Found at i:59515452 original size:2 final size:2
Alignment explanation
Indices: 59515445--59515470 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
59515435 AATCTTGTTC
59515445 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
59515471 GTAAACAGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:59516782 original size:27 final size:26
Alignment explanation
Indices: 59516734--59516801 Score: 66
Period size: 27 Copynumber: 2.5 Consensus size: 26
59516724 TGGAGGGTTT
* *
59516734 CTGATTGGCTGCACTAAAGGTGCCATA
1 CTGATTGGCGGCACCAAAGGTGCCA-A
* *
59516761 CTGATTGGCGGCACCGATGGTGCCAA
1 CTGATTGGCGGCACCAAAGGTGCCAA
59516787 -TGAGGTTGGCGGCAC
1 CTGA--TTGGCGGCAC
59516802 TGCCCTTATA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
25 3 0.09
26 1 0.03
27 31 0.89
ACGTcount: A:0.21, C:0.24, G:0.34, T:0.22
Consensus pattern (26 bp):
CTGATTGGCGGCACCAAAGGTGCCAA
Found at i:59516867 original size:10 final size:10
Alignment explanation
Indices: 59516852--59516979 Score: 69
Period size: 10 Copynumber: 13.3 Consensus size: 10
59516842 GAAGGAGAGG
59516852 GAAAGAAGAA
1 GAAAGAAGAA
59516862 GAAAG-A-AA
1 GAAAGAAGAA
59516870 GAAAGAA-AA
1 GAAAGAAGAA
* *
59516879 TGAGAGGA-AA
1 -GAAAGAAGAA
59516889 GAAAGAAAGAA
1 GAAAG-AAGAA
59516900 -AAAGAAGAA
1 GAAAGAAGAA
* *
59516909 -AAGGAA-AG
1 GAAAGAAGAA
*
59516917 GAAAGGAGAA
1 GAAAGAAGAA
*
59516927 G-AATAAGAA
1 GAAAGAAGAA
*
59516936 GAAAAAAGAAA
1 GAAAGAAG-AA
59516947 GAAA-AAGAA
1 GAAAGAAGAA
59516956 GGAAAGAA-AA
1 -GAAAGAAGAA
*
59516966 GGAAAGGAGAA
1 -GAAAGAAGAA
59516977 GAA
1 GAA
59516980 GAGGGAAGGA
Statistics
Matches: 94, Mismatches: 13, Indels: 22
0.73 0.10 0.17
Matches are distributed among these distances:
8 8 0.09
9 31 0.33
10 43 0.46
11 12 0.13
ACGTcount: A:0.69, C:0.00, G:0.30, T:0.02
Consensus pattern (10 bp):
GAAAGAAGAA
Found at i:59516869 original size:4 final size:4
Alignment explanation
Indices: 59516852--59516964 Score: 58
Period size: 4 Copynumber: 27.0 Consensus size: 4
59516842 GAAGGAGAGG
*
59516852 GAAA G-AA G-AA GAAA GAAA GAAA GAAAA TGAGAG GAAA GAAA GAAA GAAA
1 GAAA GAAA GAAA GAAA GAAA GAAA G-AAA -GA-AA GAAA GAAA GAAA GAAA
*
59516901 AAGAA GAAAA GGAAA GGAAA GGAGAA GAATA -AGAA GAAA -AAA GAAA G-AA
1 GA-AA G-AAA -GAAA -GAAA -GA-AA GAA-A GA-AA GAAA GAAA GAAA GAAA
*
59516950 -AAA GAAG GAAA GAAA
1 GAAA GAAA GAAA GAAA
59516965 AGGAAAGGAG
Statistics
Matches: 89, Mismatches: 6, Indels: 28
0.72 0.05 0.23
Matches are distributed among these distances:
3 13 0.15
4 44 0.49
5 26 0.29
6 6 0.07
ACGTcount: A:0.70, C:0.00, G:0.28, T:0.02
Consensus pattern (4 bp):
GAAA
Found at i:59516888 original size:23 final size:23
Alignment explanation
Indices: 59516853--59516964 Score: 97
Period size: 23 Copynumber: 4.7 Consensus size: 23
59516843 AAGGAGAGGG
*
59516853 AAAGAAGAAGAAAGAAAGAAAGAA
1 AAAG-AGAGGAAAGAAAGAAAGAA
*
59516877 AATGAGAGGAAAGAAAGAAAGAA
1 AAAGAGAGGAAAGAAAGAAAGAA
59516900 AAAGAAGAAAAGGAAAGGAAAGGAGAAGAA
1 AAAG-AG---AGGAAA-GAAA-GA-AAGAA
*
59516930 TAAGA-A-GAAA-AAAGAAAGAA
1 AAAGAGAGGAAAGAAAGAAAGAA
59516950 AAAGA-AGGAAAGAAA
1 AAAGAGAGGAAAGAAA
59516965 AGGAAAGGAG
Statistics
Matches: 74, Mismatches: 5, Indels: 20
0.75 0.05 0.20
Matches are distributed among these distances:
20 10 0.14
21 6 0.08
22 6 0.08
23 21 0.28
24 9 0.12
25 1 0.01
27 6 0.08
28 4 0.05
29 3 0.04
30 8 0.11
ACGTcount: A:0.71, C:0.00, G:0.28, T:0.02
Consensus pattern (23 bp):
AAAGAGAGGAAAGAAAGAAAGAA
Found at i:59516904 original size:37 final size:36
Alignment explanation
Indices: 59516852--59516964 Score: 117
Period size: 37 Copynumber: 3.1 Consensus size: 36
59516842 GAAGGAGAGG
*
59516852 GAAAGAAGAAGAAAGAAAGAAAGAAAATGAGAGGAAA
1 GAAAGAAGAAGAAAGAAAGAAAGAAAAAGA-AGGAAA
* *
59516889 GAAAGAAAGAA-AAAG-AAGAAAAGGAAAGGAAAGGAGAA
1 GAAAG-AAGAAGAAAGAAAG-AAAGAAAAAG-AAGGA-AA
*
59516927 G-AATAAGAAGAAA-AAAGAAAGAAAAAGAAGGAAA
1 GAAAGAAGAAGAAAGAAAGAAAGAAAAAGAAGGAAA
59516961 GAAA
1 GAAA
59516965 AGGAAAGGAG
Statistics
Matches: 64, Mismatches: 5, Indels: 16
0.75 0.06 0.19
Matches are distributed among these distances:
34 3 0.05
35 7 0.11
36 16 0.25
37 29 0.45
38 9 0.14
ACGTcount: A:0.70, C:0.00, G:0.28, T:0.02
Consensus pattern (36 bp):
GAAAGAAGAAGAAAGAAAGAAAGAAAAAGAAGGAAA
Found at i:59516988 original size:16 final size:15
Alignment explanation
Indices: 59516943--59516996 Score: 56
Period size: 16 Copynumber: 3.6 Consensus size: 15
59516933 GAAGAAAAAA
*
59516943 GAAAGAAAA-AGAAG
1 GAAAGAAAAGGGAAG
*
59516957 GAAAGAAAAGGAAAG
1 GAAAGAAAAGGGAAG
*
59516972 GAGAAGAAGAGGGAAG
1 GA-AAGAAAAGGGAAG
*
59516988 GAAGGAAAA
1 GAAAGAAAA
59516997 AAAAAGTATT
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
14 9 0.28
15 10 0.31
16 13 0.41
ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (15 bp):
GAAAGAAAAGGGAAG
Found at i:59516997 original size:55 final size:50
Alignment explanation
Indices: 59516885--59516981 Score: 158
Period size: 50 Copynumber: 1.9 Consensus size: 50
59516875 AAAATGAGAG
* *
59516885 GAAAGAAAGAAAGAAAAAGAAGAAAAGGAAAGGAAAGGAGAAGAATAAGAA
1 GAAA-AAAGAAAGAAAAAGAAGAAAAGAAAAGGAAAGGAGAAGAAGAAGAA
*
59516936 GAAAAAAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAAGAAGA
1 GAAAAAAGAAAGAAAAAGAAGAAAAGAAAAGGAAAGGAGAAGAAGA
59516982 GGGAAGGAAG
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
50 39 0.91
51 4 0.09
ACGTcount: A:0.69, C:0.00, G:0.30, T:0.01
Consensus pattern (50 bp):
GAAAAAAGAAAGAAAAAGAAGAAAAGAAAAGGAAAGGAGAAGAAGAAGAA
Found at i:59519996 original size:11 final size:11
Alignment explanation
Indices: 59519980--59520004 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
59519970 TATAACTTAG
59519980 TTTGGATACAA
1 TTTGGATACAA
59519991 TTTGGATACAA
1 TTTGGATACAA
59520002 TTT
1 TTT
59520005 AAGAATAAGC
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:0.32, C:0.08, G:0.16, T:0.44
Consensus pattern (11 bp):
TTTGGATACAA
Found at i:59523130 original size:3 final size:3
Alignment explanation
Indices: 59523122--59523162 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
59523112 TCTTAATACT
59523122 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
59523163 TAATAATAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.68, C:0.32, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:59523310 original size:13 final size:13
Alignment explanation
Indices: 59523292--59523316 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
59523282 AAAAATACCT
59523292 TCTTTTTCTCTTC
1 TCTTTTTCTCTTC
59523305 TCTTTTTCTCTT
1 TCTTTTTCTCTT
59523317 TTTCTCTTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (13 bp):
TCTTTTTCTCTTC
Found at i:59523313 original size:8 final size:8
Alignment explanation
Indices: 59523302--59523327 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
59523292 TCTTTTTCTC
59523302 TTCTCTTT
1 TTCTCTTT
59523310 TTCTCTTT
1 TTCTCTTT
59523318 TTCTCTTT
1 TTCTCTTT
59523326 TT
1 TT
59523328 TCCACAGCAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (8 bp):
TTCTCTTT
Found at i:59523457 original size:27 final size:27
Alignment explanation
Indices: 59523417--59523505 Score: 110
Period size: 27 Copynumber: 3.3 Consensus size: 27
59523407 AGTAGTCCCA
*
59523417 CCAATCAGTATGGCACCATTGGTGCTG
1 CCAATCAGTATGGCACCATTGGTGCAG
*
59523444 CCAACCTCA-T-TGGCACCATCGGTGCAG
1 CCAA--TCAGTATGGCACCATTGGTGCAG
* *
59523471 CCAATCAGTATGGCACCTTTGGTGCCG
1 CCAATCAGTATGGCACCATTGGTGCAG
59523498 CCAATCAG
1 CCAATCAG
59523506 AAACCCTCCA
Statistics
Matches: 53, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
25 3 0.06
26 1 0.02
27 45 0.85
28 1 0.02
29 3 0.06
ACGTcount: A:0.22, C:0.31, G:0.24, T:0.22
Consensus pattern (27 bp):
CCAATCAGTATGGCACCATTGGTGCAG
Found at i:59524305 original size:43 final size:43
Alignment explanation
Indices: 59524248--59524519 Score: 325
Period size: 43 Copynumber: 6.3 Consensus size: 43
59524238 CGCGAGTTAT
* *
59524248 ACAAAAAATGCCACTATAGATCGTGGTCTTTAGCGGCGCTTAT
1 ACAAAAAACGCCACTATAGATCGTGGTCTTTAGCGGCGCTTAG
* *
59524291 ACAAAAAACACCACTATAGATCGTGGTCTTTAGCGGCGCTTAT
1 ACAAAAAACGCCACTATAGATCGTGGTCTTTAGCGGCGCTTAG
* *
59524334 ACAAAAAACGCCACTATAGATCGTGGTCTTTAGCGGCGTTTGG
1 ACAAAAAACGCCACTATAGATCGTGGTCTTTAGCGGCGCTTAG
* * *
59524377 ACAAAAAACGCCACTATAGA-CTATGGTCTTCAGCGGCGCTTGG
1 ACAAAAAACGCCACTATAGATC-GTGGTCTTTAGCGGCGCTTAG
* *
59524420 ACAAAAAATGCCACTATAGA-CGATGGTCTTCAGCGGCGCTTAGG
1 ACAAAAAACGCCACTATAGATCG-TGGTCTTTAGCGGCGCTTA-G
* * ** *
59524464 CAAAAAAAAGGCCACTATAGGCCGTGTTCTTTAGCGGCGCTTA-
1 -ACAAAAAACGCCACTATAGATCGTGGTCTTTAGCGGCGCTTAG
*
59524507 CCAAAAAAACGCC
1 AC-AAAAAACGCC
59524520 GCTAATTTTG
Statistics
Matches: 203, Mismatches: 20, Indels: 12
0.86 0.09 0.05
Matches are distributed among these distances:
42 1 0.00
43 165 0.81
44 1 0.00
45 34 0.17
46 2 0.01
ACGTcount: A:0.32, C:0.24, G:0.22, T:0.23
Consensus pattern (43 bp):
ACAAAAAACGCCACTATAGATCGTGGTCTTTAGCGGCGCTTAG
Found at i:59524856 original size:21 final size:21
Alignment explanation
Indices: 59524830--59524883 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
59524820 GCTGTTCTGC
*
59524830 TTCCCTCGTTGCAGCCTCTAA
1 TTCCCTCGCTGCAGCCTCTAA
*
59524851 TTCCCTCGCTGCAGCCTCTAC
1 TTCCCTCGCTGCAGCCTCTAA
*
59524872 TTCTCTCGCTGC
1 TTCCCTCGCTGC
59524884 TGCATCTGCT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.09, C:0.43, G:0.15, T:0.33
Consensus pattern (21 bp):
TTCCCTCGCTGCAGCCTCTAA
Found at i:59524946 original size:87 final size:87
Alignment explanation
Indices: 59524855--59525032 Score: 243
Period size: 87 Copynumber: 2.0 Consensus size: 87
59524845 CTCTAATTCC
* * *
59524855 CTCGCTGCAGCCTCTACTTCTCTCGCTGCTGCATCTGCTTTAAGCTGCT-GCTGGAGTTCTTCAT
1 CTCGCTGCAGCCTCTACTTCTCTCACTGCCGCATCTACTTTAAGCTG-TAGCTGGAGTTCTTCAT
59524919 A-CTTTCGTTGAACCTCAGCTTCT
65 ATCTTT-GTTGAACCTCAGCTTCT
* * * *
59524942 CTCGCTGCTGCCTCTGCTTCTCTCATTGCCGCATCTACTTTAAGTTGTAGCTGGAGTTCTTCATA
1 CTCGCTGCAGCCTCTACTTCTCTCACTGCCGCATCTACTTTAAGCTGTAGCTGGAGTTCTTCATA
* *
59525007 TCTTTTTTGAACCTTAGCTTCT
66 TCTTTGTTGAACCTCAGCTTCT
59525029 CTCG
1 CTCG
59525033 ATGTCGCCTC
Statistics
Matches: 80, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
86 1 0.01
87 75 0.94
88 4 0.05
ACGTcount: A:0.13, C:0.30, G:0.17, T:0.39
Consensus pattern (87 bp):
CTCGCTGCAGCCTCTACTTCTCTCACTGCCGCATCTACTTTAAGCTGTAGCTGGAGTTCTTCATA
TCTTTGTTGAACCTCAGCTTCT
Found at i:59533286 original size:9 final size:9
Alignment explanation
Indices: 59533247--59533576 Score: 270
Period size: 9 Copynumber: 38.8 Consensus size: 9
59533237 TATGTATTAA
*
59533247 GTAAATTAT
1 GTAAGTTAT
59533256 GTAAGTTAT
1 GTAAGTTAT
*
59533265 GTATGTGTA-
1 GTAAGT-TAT
59533274 -TAAGTTAT
1 GTAAGTTAT
*
59533282 GTAAGTCAT
1 GTAAGTTAT
*
59533291 GT-A-TTAA
1 GTAAGTTAT
*
59533298 GTAAGCTAT
1 GTAAGTTAT
**
59533307 GTAAGTCGT
1 GTAAGTTAT
59533316 GT-A-TTAT
1 GTAAGTTAT
*
59533323 GTAACTTAT
1 GTAAGTTAT
59533332 GTAAGTTAT
1 GTAAGTTAT
*** *
59533341 ACCAGTAAT
1 GTAAGTTAT
*
59533350 GTATGTTAT
1 GTAAGTTAT
59533359 GTAAG-T-T
1 GTAAGTTAT
59533366 GTAAGTTAT
1 GTAAGTTAT
59533375 GT-A-TTAT
1 GTAAGTTAT
*
59533382 GTAACTTAT
1 GTAAGTTAT
59533391 GTAAGTTAT
1 GTAAGTTAT
* *
59533400 -CAAATTAAT
1 GTAAGTT-AT
*
59533409 GTATGTTAT
1 GTAAGTTAT
59533418 GTAAG-T-T
1 GTAAGTTAT
59533425 GTAAGTTAT
1 GTAAGTTAT
59533434 GTAAGTTAT
1 GTAAGTTAT
59533443 GTAAGTTAT
1 GTAAGTTAT
59533452 GT-A-TTAT
1 GTAAGTTAT
*
59533459 GTAGGTTAT
1 GTAAGTTAT
59533468 GTAAGTTAT
1 GTAAGTTAT
59533477 GTAAGTTAT
1 GTAAGTTAT
*
59533486 GT-A-TTTT
1 GTAAGTTAT
*
59533493 GTAGGTTAT
1 GTAAGTTAT
*
59533502 GTAAGTTGT
1 GTAAGTTAT
*
59533511 GTAAGATAT
1 GTAAGTTAT
*
59533520 TTAAGTTAT
1 GTAAGTTAT
*
59533529 GTAAGTTTT
1 GTAAGTTAT
59533538 GT-A-TTAT
1 GTAAGTTAT
59533545 GTAAGTTAT
1 GTAAGTTAT
*
59533554 GTATGTTAT
1 GTAAGTTAT
59533563 GT-A-TTAT
1 GTAAGTTAT
59533570 GTAAGTT
1 GTAAGTT
59533577 TATATAAAAA
Statistics
Matches: 251, Mismatches: 47, Indels: 46
0.73 0.14 0.13
Matches are distributed among these distances:
7 50 0.20
8 23 0.09
9 173 0.69
10 5 0.02
ACGTcount: A:0.31, C:0.02, G:0.21, T:0.46
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:59533308 original size:25 final size:25
Alignment explanation
Indices: 59533238--59533337 Score: 96
Period size: 25 Copynumber: 4.0 Consensus size: 25
59533228 TACATAATTT
** *
59533238 ATGTATTAAGTAAATTATGTAAGTT
1 ATGTATTAAGTAAGCTATGTAAGTC
* *
59533263 ATGTATGTGTA-TAAGTTATGTAAGTC
1 ATGTAT-T-AAGTAAGCTATGTAAGTC
59533289 ATGTATTAAGTAAGCTATGTAAGTC
1 ATGTATTAAGTAAGCTATGTAAGTC
* *
59533314 GTGTATTATGTAA-CTTATGTAAGT
1 ATGTATTAAGTAAGC-TATGTAAGT
59533338 TATACCAGTA
Statistics
Matches: 64, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
24 2 0.03
25 41 0.64
26 20 0.31
27 1 0.02
ACGTcount: A:0.34, C:0.04, G:0.20, T:0.42
Consensus pattern (25 bp):
ATGTATTAAGTAAGCTATGTAAGTC
Found at i:59533319 original size:51 final size:50
Alignment explanation
Indices: 59533238--59533337 Score: 128
Period size: 51 Copynumber: 2.0 Consensus size: 50
59533228 TACATAATTT
* * * *
59533238 ATGTATTAAGTAAATTATGTAAGTTATGTATGTGTATAAGTTATGTAAGTC
1 ATGTATTAAGTAAACTATGTAAGTCATGTAT-TATATAACTTATGTAAGTC
* * *
59533289 ATGTATTAAGTAAGCTATGTAAGTCGTGTATTATGTAACTTATGTAAGT
1 ATGTATTAAGTAAACTATGTAAGTCATGTATTATATAACTTATGTAAGT
59533338 TATACCAGTA
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
50 15 0.36
51 27 0.64
ACGTcount: A:0.34, C:0.04, G:0.20, T:0.42
Consensus pattern (50 bp):
ATGTATTAAGTAAACTATGTAAGTCATGTATTATATAACTTATGTAAGTC
Found at i:59533409 original size:59 final size:58
Alignment explanation
Indices: 59533306--59533508 Score: 224
Period size: 59 Copynumber: 3.6 Consensus size: 58
59533296 AAGTAAGCTA
** * *
59533306 TGTAAGTCGTGTATTATGTAACTTATGTAAGTTATACCAGTAATGTATGTTATGTAAGT
1 TGTAAGTTATGTATTATGTAACTTATGTAAGTTATA-AATTAATGTATGTTATGTAAGT
59533365 TGTAAGTTATGTATTATGTAACTTATGTAAGTTATCAAATTAATGTATGTTATGTAAGT
1 TGTAAGTTATGTATTATGTAACTTATGTAAGTTAT-AAATTAATGTATGTTATGTAAGT
** *
59533424 TGTAAGTTATGTA--A-G----TTATGTAAGTTATGTATT-ATGTAGGTTATGTAAGTT
1 TGTAAGTTATGTATTATGTAACTTATGTAAGTTATAAATTAATGTATGTTATGTAAG-T
* **
59533475 ATGTAAGTTATGTATTTTGTAGGTTATGTAAGTT
1 -TGTAAGTTATGTATTATGTAACTTATGTAAGTT
59533509 GTGTAAGATA
Statistics
Matches: 126, Mismatches: 8, Indels: 20
0.82 0.05 0.13
Matches are distributed among these distances:
50 15 0.12
51 4 0.03
52 26 0.21
55 1 0.01
56 1 0.01
57 1 0.01
59 77 0.61
60 1 0.01
ACGTcount: A:0.31, C:0.03, G:0.21, T:0.46
Consensus pattern (58 bp):
TGTAAGTTATGTATTATGTAACTTATGTAAGTTATAAATTAATGTATGTTATGTAAGT
Found at i:59533417 original size:43 final size:42
Alignment explanation
Indices: 59533369--59533563 Score: 156
Period size: 43 Copynumber: 4.8 Consensus size: 42
59533359 GTAAGTTGTA
* *
59533369 AGTTATGTATTATGTAACTTATGTAAGTTAT-CAAATTA-AT
1 AGTTATGTATTATGTAAGTTATGTAAGTTATGCAAATTATGT
* *
59533409 -G-TATG--TTATGTAAG-T-TGTAAGTTATGTAAGTTATGT
1 AGTTATGTATTATGTAAGTTATGTAAGTTATGCAAATTATGT
* * *
59533445 AAGTTATGTATTATGTAGGTTATGTAAGTTATGTAAGTTATGT
1 -AGTTATGTATTATGTAAGTTATGTAAGTTATGCAAATTATGT
* * * ** *
59533488 A-TTTTGTAGGTTATGTAAGTTGTGTAAGATATTTAAGTTATGT
1 AGTTATGTA--TTATGTAAGTTATGTAAGTTATGCAAATTATGT
* *
59533531 AAGTTTTGTATTATGTAAGTTATGTATGTTATG
1 -AGTTATGTATTATGTAAGTTATGTAAGTTATG
59533564 TATTATGTAA
Statistics
Matches: 128, Mismatches: 14, Indels: 23
0.78 0.08 0.14
Matches are distributed among these distances:
34 10 0.08
35 6 0.05
36 9 0.07
38 5 0.04
39 5 0.04
41 14 0.11
42 2 0.02
43 69 0.54
44 1 0.01
45 7 0.05
ACGTcount: A:0.30, C:0.01, G:0.21, T:0.48
Consensus pattern (42 bp):
AGTTATGTATTATGTAAGTTATGTAAGTTATGCAAATTATGT
Found at i:59533445 original size:34 final size:36
Alignment explanation
Indices: 59533247--59533576 Score: 270
Period size: 34 Copynumber: 9.7 Consensus size: 36
59533237 TATGTATTAA
* *
59533247 GTAAATTATGTAAGTTATGTATGTGTA--TAAGTTAT
1 GTAAGTTATGTAAGTTATGTAAGT-TATGTAAGTTAT
* * * **
59533282 GTAAGTCATGT-A-TTAAGTAAGCTATGTAAGTCGT
1 GTAAGTTATGTAAGTTATGTAAGTTATGTAAGTTAT
* *** *
59533316 GT-A-TTATGTAACTTATGTAAGTTATACCAGTAAT
1 GTAAGTTATGTAAGTTATGTAAGTTATGTAAGTTAT
*
59533350 GTATGTTATGTAAG-T-TGTAAGTTATGT-A-TTAT
1 GTAAGTTATGTAAGTTATGTAAGTTATGTAAGTTAT
* * * *
59533382 GTAACTTATGTAAGTTAT-CAAATTAATGTATGTTAT
1 GTAAGTTATGTAAGTTATGTAAGTT-ATGTAAGTTAT
59533418 GTAAG-T-TGTAAGTTATGTAAGTTATGTAAGTTAT
1 GTAAGTTATGTAAGTTATGTAAGTTATGTAAGTTAT
*
59533452 GT-A-TTATGTAGGTTATGTAAGTTATGTAAGTTAT
1 GTAAGTTATGTAAGTTATGTAAGTTATGTAAGTTAT
* * * *
59533486 GT-A-TTTTGTAGGTTATGTAAGTTGTGTAAGATAT
1 GTAAGTTATGTAAGTTATGTAAGTTATGTAAGTTAT
* *
59533520 TTAAGTTATGTAAGTTTTGT-A-TTATGTAAGTTAT
1 GTAAGTTATGTAAGTTATGTAAGTTATGTAAGTTAT
*
59533554 GTATGTTATGT-A-TTATGTAAGTT
1 GTAAGTTATGTAAGTTATGTAAGTT
59533577 TATATAAAAA
Statistics
Matches: 235, Mismatches: 42, Indels: 37
0.75 0.13 0.12
Matches are distributed among these distances:
32 27 0.11
33 19 0.08
34 144 0.61
35 17 0.07
36 28 0.12
ACGTcount: A:0.31, C:0.02, G:0.21, T:0.46
Consensus pattern (36 bp):
GTAAGTTATGTAAGTTATGTAAGTTATGTAAGTTAT
Found at i:59533763 original size:19 final size:20
Alignment explanation
Indices: 59533741--59533787 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
59533731 TTTTTCAAGT
* *
59533741 ATATATAAAATTTTA-ATAA
1 ATATATAAAACTGTATATAA
59533760 ATATATTAAAACTGTATATAA
1 ATATA-TAAAACTGTATATAA
59533781 ATATATA
1 ATATATA
59533788 TATCAAAGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 5 0.21
20 10 0.42
21 9 0.38
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.40
Consensus pattern (20 bp):
ATATATAAAACTGTATATAA
Found at i:59535734 original size:11 final size:11
Alignment explanation
Indices: 59535718--59535744 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
59535708 TTACTCAACC
59535718 AGTAATATGAA
1 AGTAATATGAA
59535729 AGTAATATGAA
1 AGTAATATGAA
59535740 AGTAA
1 AGTAA
59535745 ATTAAACAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.19, T:0.26
Consensus pattern (11 bp):
AGTAATATGAA
Found at i:59536647 original size:18 final size:18
Alignment explanation
Indices: 59536626--59536662 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
59536616 ATATATATAT
*
59536626 ATATCCATAAATATTAAA
1 ATATCCATAAATATCAAA
*
59536644 ATATCCATATATATCAAA
1 ATATCCATAAATATCAAA
59536662 A
1 A
59536663 AATATATCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.54, C:0.14, G:0.00, T:0.32
Consensus pattern (18 bp):
ATATCCATAAATATCAAA
Found at i:59537959 original size:15 final size:15
Alignment explanation
Indices: 59537939--59537976 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
59537929 ACTGTTGAAA
59537939 CCCTAAATCTCAAAC
1 CCCTAAATCTCAAAC
* *
59537954 CCCTAAACCTCTAAC
1 CCCTAAATCTCAAAC
59537969 CCCTAAAT
1 CCCTAAAT
59537977 TAACCTTAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.37, C:0.42, G:0.00, T:0.21
Consensus pattern (15 bp):
CCCTAAATCTCAAAC
Found at i:59538551 original size:41 final size:40
Alignment explanation
Indices: 59538500--59538819 Score: 298
Period size: 41 Copynumber: 7.8 Consensus size: 40
59538490 GGTAAATGCG
* *
59538500 TTAGCGGCGCTTAGATACAAACGCCGCTAAAGGCCGGAGAA
1 TTAGCGGCGCTCAGATAAAAACGCCGCTAAAGGCC-GAGAA
** * * * *
59538541 TTAGTAGCGCTCAGATAAAAACGTCACTAAAGATCCGAGCA
1 TTAGCGGCGCTCAGATAAAAACGCCGCTAAAG-GCCGAGAA
* * * *
59538582 TTAGCGGCGCTTAGACAAAAACGCCGCTAAATGCCAGAGTA
1 TTAGCGGCGCTCAGATAAAAACGCCGCTAAAGGCC-GAGAA
* * * *
59538623 TTAGTGGCGCTCAGATAAAAACGCCACTAAAGATCCGAGCA
1 TTAGCGGCGCTCAGATAAAAACGCCGCTAAAG-GCCGAGAA
* * * **
59538664 TTAGTGGCGCTCAGAGAAAATCGCCGCTAAAGGCCAGAGGT
1 TTAGCGGCGCTCAGATAAAAACGCCGCTAAAGGCC-GAGAA
* * * *
59538705 TTAGCGGCGTTCATATAAAAACGCCGCTAAAGATCGGAGAA
1 TTAGCGGCGCTCAGATAAAAACGCCGCTAAAG-GCCGAGAA
* ** *
59538746 TTAGCGGCGCTCAGATAAAAACGCCACTAAAGATTCGAGCA
1 TTAGCGGCGCTCAGATAAAAACGCCGCTAAAG-GCCGAGAA
* *
59538787 TTAGCGGCGCACAAATAAAAACGCCGCTAAAGG
1 TTAGCGGCGCTCAGATAAAAACGCCGCTAAAGG
59538820 TTTAAAAATC
Statistics
Matches: 225, Mismatches: 49, Indels: 11
0.79 0.17 0.04
Matches are distributed among these distances:
40 4 0.02
41 216 0.96
42 5 0.02
ACGTcount: A:0.35, C:0.23, G:0.25, T:0.17
Consensus pattern (40 bp):
TTAGCGGCGCTCAGATAAAAACGCCGCTAAAGGCCGAGAA
Found at i:59538595 original size:82 final size:82
Alignment explanation
Indices: 59538500--59538818 Score: 370
Period size: 82 Copynumber: 3.9 Consensus size: 82
59538490 GGTAAATGCG
* * * * *
59538500 TTAGCGGCGCTTAGATACAAACGCCGCTAAAGGCCGGAGAATTAGTAGCGCTCAGATAAAAACGT
1 TTAGCGGCGCTCAGATAAAAACGCCGCTAAAGGCCAGAGAATTAGTGGCGCTCAGATAAAAACGC
59538565 CACTAAAGATCCGAGCA
66 CACTAAAGATCCGAGCA
* * * *
59538582 TTAGCGGCGCTTAGACAAAAACGCCGCTAAATGCCAGAGTATTAGTGGCGCTCAGATAAAAACGC
1 TTAGCGGCGCTCAGATAAAAACGCCGCTAAAGGCCAGAGAATTAGTGGCGCTCAGATAAAAACGC
59538647 CACTAAAGATCCGAGCA
66 CACTAAAGATCCGAGCA
* * * ** * * *
59538664 TTAGTGGCGCTCAGAGAAAATCGCCGCTAAAGGCCAGAGGTTTAGCGGCGTTCATATAAAAACGC
1 TTAGCGGCGCTCAGATAAAAACGCCGCTAAAGGCCAGAGAATTAGTGGCGCTCAGATAAAAACGC
* * *
59538729 CGCTAAAGATCGGAGAA
66 CACTAAAGATCCGAGCA
* ** * * * *
59538746 TTAGCGGCGCTCAGATAAAAACGCCACTAAAGATTC-GAGCATTAGCGGCGCACAAATAAAAACG
1 TTAGCGGCGCTCAGATAAAAACGCCGCTAAAG-GCCAGAGAATTAGTGGCGCTCAGATAAAAACG
*
59538810 CCGCTAAAG
65 CCACTAAAG
59538819 GTTTAAAAAT
Statistics
Matches: 205, Mismatches: 31, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
82 204 1.00
83 1 0.00
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.17
Consensus pattern (82 bp):
TTAGCGGCGCTCAGATAAAAACGCCGCTAAAGGCCAGAGAATTAGTGGCGCTCAGATAAAAACGC
CACTAAAGATCCGAGCA
Found at i:59538677 original size:123 final size:122
Alignment explanation
Indices: 59538458--59538819 Score: 379
Period size: 123 Copynumber: 2.9 Consensus size: 122
59538448 TTTTGTTACT
* * ** * ** * *
59538458 ATTAGCGGCGCTTCGGCAAAAACGCCGCTAAAGGTAAATGCGTTAGCGGCGCTTAGATACAAACG
1 ATTAGCGGCGCTTAGACAAAAACGCCGCTAAAGCCAGA-GAATTAGCGGCGCTCAGATAAAAACG
* * * * * * *
59538523 CCGCTAAAG-GCCGGAGAATTAGTAGCGCTCAGATAAAAACGTCACTAAAGATCC-GAGC
65 CCACTAAAGATCC-GAGCATTAGTGGCGCTCAGATAAAAACGCCGCTAAAG-GCCAGAGC
* *
59538581 ATTAGCGGCGCTTAGACAAAAACGCCGCTAAATGCCAGAGTATTAGTGGCGCTCAGATAAAAACG
1 ATTAGCGGCGCTTAGACAAAAACGCCGCTAAA-GCCAGAGAATTAGCGGCGCTCAGATAAAAACG
* * *
59538646 CCACTAAAGATCCGAGCATTAGTGGCGCTCAGAGAAAATCGCCGCTAAAGGCCAGAGG
65 CCACTAAAGATCCGAGCATTAGTGGCGCTCAGATAAAAACGCCGCTAAAGGCCAGAGC
* * * * *
59538704 TTTAGCGGCG-TTCATATAAAAACGCCGCTAAAGATCGGAGAATTAGCGGCGCTCAGATAAAAAC
1 ATTAGCGGCGCTT-AGACAAAAACGCCGCTAAAG-CCAGAGAATTAGCGGCGCTCAGATAAAAAC
* * * *
59538768 GCCACTAAAGATTCGAGCATTAGCGGCGCACAAATAAAAACGCCGCTAAAGG
64 GCCACTAAAGATCCGAGCATTAGTGGCGCTCAGATAAAAACGCCGCTAAAGG
59538820 TTTAAAAATC
Statistics
Matches: 201, Mismatches: 33, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
122 5 0.02
123 191 0.95
124 5 0.02
ACGTcount: A:0.35, C:0.23, G:0.25, T:0.17
Consensus pattern (122 bp):
ATTAGCGGCGCTTAGACAAAAACGCCGCTAAAGCCAGAGAATTAGCGGCGCTCAGATAAAAACGC
CACTAAAGATCCGAGCATTAGTGGCGCTCAGATAAAAACGCCGCTAAAGGCCAGAGC
Found at i:59539482 original size:72 final size:70
Alignment explanation
Indices: 59539400--59539544 Score: 272
Period size: 72 Copynumber: 2.0 Consensus size: 70
59539390 GAATTTTGAT
59539400 TTGTTGATAAAATAAATGAATGAAATTGAAAGAAAAAGAAAAAATTGTAGATTATTCTGCAAGGG
1 TTGTTGATAAAATAAATGAATGAAATTGAAAGAAAAAG--AAAATTGTAGATTATTCTGCAAGGG
59539465 GGAAAGG
64 GGAAAGG
59539472 TTGTTGATAAAATAAATGAATGAAATTGAAAGAAAAAGAAAATTGTAGATTATTCTGCAAGGGGG
1 TTGTTGATAAAATAAATGAATGAAATTGAAAGAAAAAGAAAATTGTAGATTATTCTGCAAGGGGG
59539537 AAAGG
66 AAAGG
59539542 TTG
1 TTG
59539545 AACGACAGCA
Statistics
Matches: 73, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
70 35 0.48
72 38 0.52
ACGTcount: A:0.47, C:0.03, G:0.24, T:0.26
Consensus pattern (70 bp):
TTGTTGATAAAATAAATGAATGAAATTGAAAGAAAAAGAAAATTGTAGATTATTCTGCAAGGGGG
AAAGG
Found at i:59543018 original size:14 final size:14
Alignment explanation
Indices: 59542982--59543015 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
59542972 TCATCATTTG
59542982 CCTATAACCAAAAC
1 CCTATAACCAAAAC
59542996 CCTATAACCAAAAC
1 CCTATAACCAAAAC
59543010 CC-ATAA
1 CCTATAA
59543016 ACCCATACCA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 4 0.20
14 16 0.80
ACGTcount: A:0.50, C:0.35, G:0.00, T:0.15
Consensus pattern (14 bp):
CCTATAACCAAAAC
Found at i:59553282 original size:38 final size:39
Alignment explanation
Indices: 59553230--59553344 Score: 160
Period size: 38 Copynumber: 3.0 Consensus size: 39
59553220 TAATTTAGTT
*
59553230 TGAGTCTTTAATTATGTCATAATTTGAACATCATTAATA
1 TGAGTATTTAATTATGTCATAATTTGAACATCATTAATA
* *
59553269 TGAGT-TTTAATTATGTCATAATCTGAATATCATTAATA
1 TGAGTATTTAATTATGTCATAATTTGAACATCATTAATA
* * * *
59553307 AGAGTATTTAATTATGTCATAGTTTGGACATCTTTAAT
1 TGAGTATTTAATTATGTCATAATTTGAACATCATTAAT
59553345 CCATGTTTTT
Statistics
Matches: 67, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
38 35 0.52
39 32 0.48
ACGTcount: A:0.35, C:0.09, G:0.12, T:0.44
Consensus pattern (39 bp):
TGAGTATTTAATTATGTCATAATTTGAACATCATTAATA
Found at i:59553356 original size:39 final size:37
Alignment explanation
Indices: 59553236--59553356 Score: 125
Period size: 39 Copynumber: 3.1 Consensus size: 37
59553226 AGTTTGAGTC
*
59553236 TTTAATTATGTCATAATTTGAACATCATTAATATGAGT
1 TTTAATTATGTCATAATTTGAACATCATTAATATG-TT
* * * *
59553274 TTTAATTATGTCATAATCTGAATATCATTAATAAGAGTA
1 TTTAATTATGTCATAATTTGAACATCATTAAT-A-TGTT
* * *
59553313 TTTAATTATGTCATAGTTTGGACATCTTTAATCCATGTT
1 TTTAATTATGTCATAATTTGAACATCATTAAT--ATGTT
59553352 TTTAA
1 TTTAA
59553357 GTGTGTTTAA
Statistics
Matches: 67, Mismatches: 13, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
38 30 0.45
39 35 0.52
40 2 0.03
ACGTcount: A:0.35, C:0.09, G:0.11, T:0.45
Consensus pattern (37 bp):
TTTAATTATGTCATAATTTGAACATCATTAATATGTT
Found at i:59561069 original size:15 final size:15
Alignment explanation
Indices: 59561045--59561076 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
59561035 TATGCATGCA
*
59561045 AAATATAAAAGACAT
1 AAATACAAAAGACAT
59561060 AAATACAAAAGACAT
1 AAATACAAAAGACAT
59561075 AA
1 AA
59561077 TAGTGAAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.69, C:0.09, G:0.06, T:0.16
Consensus pattern (15 bp):
AAATACAAAAGACAT
Found at i:59562385 original size:207 final size:206
Alignment explanation
Indices: 59562023--59562426 Score: 621
Period size: 207 Copynumber: 2.0 Consensus size: 206
59562013 GATAGTTGGT
* * * *
59562023 ATGTAAGTGTATACAAAAATTGTAGTGGTATCCGCCTGAGGTAGAAGAAAGTGGTCTAAAAAGGA
1 ATGTAACTGTATACAAAAACTGTAGTGGTATCCGCCCGAGGTAGAAGAAAGTGGTCTAAAAAGAA
*
59562088 TAATTGGCACACAGATGTTCATTAATCATAATCAATATTCGCCAAGGTATATTTTGGATTAAAGC
66 TAATTGGCACACAGATGTTCATTAATCATAATCAATATCCGCCAAGGTATATTTTGGATTAAAGC
*
59562153 TCATTAAGTTCTCCTGAACTTACAAAAAAAATTATATTTATGTTTCAAGTAA-AGTGGGATGTAT
131 TCATTAAGTTCTCCTGAACTTAC-AAAAAAATTATATTTATGTTTCAAGTAAGA-TGAGATGTAT
59562217 TGCGCCGGGTGGC
194 TGCGCCGGGTGGC
* * *
59562230 ATGTAACTGTATACCAAAACTGTAGTGGTATCTGCCCGAGGTAGAAGAAAGTGGTCTAAAAATAA
1 ATGTAACTGTATACAAAAACTGTAGTGGTATCCGCCCGAGGTAGAAGAAAGTGGTCTAAAAAGAA
* ** *
59562295 TAGTTGGTGCACAGATGTTCATTAGTCATAATCAATATCCGCCAAGGTATATTTTGGATTAAAGC
66 TAATTGGCACACAGATGTTCATTAATCATAATCAATATCCGCCAAGGTATATTTTGGATTAAAGC
* ** * *
59562360 TCATTAAGTTCTCTTGAACTTACAAAAATGTTATATTTATGTTTTAGGTAAGATGAGATGTATTG
131 TCATTAAGTTCTCCTGAACTTACAAAAAAATTATATTTATGTTTCAAGTAAGATGAGATGTATTG
59562425 CG
196 CG
59562427 TCAGGAGGGA
Statistics
Matches: 178, Mismatches: 18, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
206 37 0.21
207 141 0.79
ACGTcount: A:0.34, C:0.13, G:0.21, T:0.32
Consensus pattern (206 bp):
ATGTAACTGTATACAAAAACTGTAGTGGTATCCGCCCGAGGTAGAAGAAAGTGGTCTAAAAAGAA
TAATTGGCACACAGATGTTCATTAATCATAATCAATATCCGCCAAGGTATATTTTGGATTAAAGC
TCATTAAGTTCTCCTGAACTTACAAAAAAATTATATTTATGTTTCAAGTAAGATGAGATGTATTG
CGCCGGGTGGC
Found at i:59579270 original size:18 final size:18
Alignment explanation
Indices: 59579234--59579276 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
59579224 TAGATTCAGT
*
59579234 TACAGATGCAGATATAGA
1 TACAGATGCAGATACAGA
* *
59579252 TACAGATTCAGTTACAGA
1 TACAGATGCAGATACAGA
*
59579270 TGCAGAT
1 TACAGAT
59579277 ACATGTACAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.40, C:0.14, G:0.21, T:0.26
Consensus pattern (18 bp):
TACAGATGCAGATACAGA
Found at i:59579291 original size:30 final size:29
Alignment explanation
Indices: 59579164--59579292 Score: 136
Period size: 30 Copynumber: 4.3 Consensus size: 29
59579154 AGTACAACAG
*
59579164 ACAGA-TCAGTTACAGATGCAGATATCGGT
1 ACAGATTCAGTTACAGATGCAGATA-CTGT
* * * *
59579193 TCAGATTCGGTTACTGATGCAGATACTAAT
1 ACAGATTCAGTTACAGATGCAGATACT-GT
*
59579223 ATAGATTCAGTTACAGATGCAGATA-TAGAT
1 ACAGATTCAGTTACAGATGCAGATACT-G-T
59579253 ACAGATTCAGTTACAGATGCAGATACATGT
1 ACAGATTCAGTTACAGATGCAGATAC-TGT
*
59579283 ACAAATTCAG
1 ACAGATTCAG
59579293 ATCTTACTCT
Statistics
Matches: 83, Mismatches: 12, Indels: 9
0.80 0.12 0.09
Matches are distributed among these distances:
29 7 0.08
30 74 0.89
31 1 0.01
32 1 0.01
ACGTcount: A:0.36, C:0.16, G:0.20, T:0.28
Consensus pattern (29 bp):
ACAGATTCAGTTACAGATGCAGATACTGT
Found at i:59579291 original size:60 final size:60
Alignment explanation
Indices: 59579169--59579292 Score: 160
Period size: 60 Copynumber: 2.1 Consensus size: 60
59579159 AACAGACAGA
* * * * * * *
59579169 TCAGTTACAGATGCAGATATCGGTTCAGATTCGGTTACTGATGCAGATACTAATATAGAT
1 TCAGTTACAGATGCAGATATAGATACAGATTCAGTTACAGATGCAGATACTAATACAAAT
*
59579229 TCAGTTACAGATGCAGATATAGATACAGATTCAGTTACAGATGCAGATAC-ATGTACAAAT
1 TCAGTTACAGATGCAGATATAGATACAGATTCAGTTACAGATGCAGATACTA-ATACAAAT
59579289 TCAG
1 TCAG
59579293 ATCTTACTCT
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
59 1 0.02
60 54 0.98
ACGTcount: A:0.35, C:0.15, G:0.20, T:0.29
Consensus pattern (60 bp):
TCAGTTACAGATGCAGATATAGATACAGATTCAGTTACAGATGCAGATACTAATACAAAT
Found at i:59579427 original size:22 final size:21
Alignment explanation
Indices: 59579402--59579452 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 21
59579392 TGTCACTTTT
59579402 CAGAATAGCGCAGTCAAGCTGC
1 CAGAATAGCGCAGT-AAGCTGC
* *
59579424 CAGAAATAGTGCAGTAATCTGC
1 CAG-AATAGCGCAGTAAGCTGC
59579446 CAGAATA
1 CAGAATA
59579453 AGATAAGTGT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
21 4 0.15
22 12 0.46
23 10 0.38
ACGTcount: A:0.37, C:0.22, G:0.24, T:0.18
Consensus pattern (21 bp):
CAGAATAGCGCAGTAAGCTGC
Found at i:59581424 original size:15 final size:15
Alignment explanation
Indices: 59581404--59581432 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
59581394 TAATAGGGAA
59581404 ATGAATGAGAGAATG
1 ATGAATGAGAGAATG
59581419 ATGAATGAGAGAAT
1 ATGAATGAGAGAAT
59581433 AAATAAGAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.31, T:0.21
Consensus pattern (15 bp):
ATGAATGAGAGAATG
Found at i:59583910 original size:30 final size:31
Alignment explanation
Indices: 59583874--59583932 Score: 102
Period size: 30 Copynumber: 1.9 Consensus size: 31
59583864 ACCTTTTTAC
*
59583874 TTTCCCCCAATACTTTTACTCCT-TCCCACT
1 TTTCCCCCAAAACTTTTACTCCTCTCCCACT
59583904 TTTCCCCCAAAACTTTTACTCCTCTCCCA
1 TTTCCCCCAAAACTTTTACTCCTCTCCCA
59583933 GCCCACCCCC
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
30 22 0.81
31 5 0.19
ACGTcount: A:0.19, C:0.44, G:0.00, T:0.37
Consensus pattern (31 bp):
TTTCCCCCAAAACTTTTACTCCTCTCCCACT
Found at i:59583942 original size:31 final size:30
Alignment explanation
Indices: 59583877--59583943 Score: 73
Period size: 30 Copynumber: 2.2 Consensus size: 30
59583867 TTTTTACTTT
* ***
59583877 CCCCCAATACTTTTACTCCTTCCCACTTTT
1 CCCCCAAAACTTTTACTCCTTCCCACTCCA
59583907 CCCCCAAAACTTTTACTCCTCTCCCAGC-CCA
1 CCCCCAAAACTTTTACTCCT-TCCCA-CTCCA
59583938 CCCCCA
1 CCCCCA
59583944 TCTACCCCAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
30 19 0.61
31 11 0.35
32 1 0.03
ACGTcount: A:0.19, C:0.51, G:0.01, T:0.28
Consensus pattern (30 bp):
CCCCCAAAACTTTTACTCCTTCCCACTCCA
Found at i:59590298 original size:210 final size:210
Alignment explanation
Indices: 59589936--59590354 Score: 838
Period size: 210 Copynumber: 2.0 Consensus size: 210
59589926 TTGTATTACC
59589936 GGGAATTTTGGTGCCAAGTTTTCATTTTCTATCCCCCATCATACTCATCAATTGGCTCATCTGAT
1 GGGAATTTTGGTGCCAAGTTTTCATTTTCTATCCCCCATCATACTCATCAATTGGCTCATCTGAT
59590001 CTTCTACCTAGTCAATGTTTTCGTTGTATTAGTGCACTCAGGCTGCACTTGTTTTACTTTAGTTC
66 CTTCTACCTAGTCAATGTTTTCGTTGTATTAGTGCACTCAGGCTGCACTTGTTTTACTTTAGTTC
59590066 TCATTGACTGCATCTCCTCCTCGATTTGATCCAAGTGTTGACCACATACAGTACACTAATTTTAG
131 TCATTGACTGCATCTCCTCCTCGATTTGATCCAAGTGTTGACCACATACAGTACACTAATTTTAG
59590131 TTGGCTCTTTCCTAT
196 TTGGCTCTTTCCTAT
59590146 GGGAATTTTGGTGCCAAGTTTTCATTTTCTATCCCCCATCATACTCATCAATTGGCTCATCTGAT
1 GGGAATTTTGGTGCCAAGTTTTCATTTTCTATCCCCCATCATACTCATCAATTGGCTCATCTGAT
59590211 CTTCTACCTAGTCAATGTTTTCGTTGTATTAGTGCACTCAGGCTGCACTTGTTTTACTTTAGTTC
66 CTTCTACCTAGTCAATGTTTTCGTTGTATTAGTGCACTCAGGCTGCACTTGTTTTACTTTAGTTC
59590276 TCATTGACTGCATCTCCTCCTCGATTTGATCCAAGTGTTGACCACATACAGTACACTAATTTTAG
131 TCATTGACTGCATCTCCTCCTCGATTTGATCCAAGTGTTGACCACATACAGTACACTAATTTTAG
59590341 TTGGCTCTTTCCTA
196 TTGGCTCTTTCCTA
59590355 AGGCTTTTGT
Statistics
Matches: 209, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
210 209 1.00
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.40
Consensus pattern (210 bp):
GGGAATTTTGGTGCCAAGTTTTCATTTTCTATCCCCCATCATACTCATCAATTGGCTCATCTGAT
CTTCTACCTAGTCAATGTTTTCGTTGTATTAGTGCACTCAGGCTGCACTTGTTTTACTTTAGTTC
TCATTGACTGCATCTCCTCCTCGATTTGATCCAAGTGTTGACCACATACAGTACACTAATTTTAG
TTGGCTCTTTCCTAT
Found at i:59595945 original size:19 final size:20
Alignment explanation
Indices: 59595923--59596003 Score: 66
Period size: 19 Copynumber: 4.2 Consensus size: 20
59595913 TGCATGGAGC
59595923 GCATAC-TGGCACAT-AAGCT
1 GCATACTTGGCACATGAAG-T
59595942 GCAT-CTTGGCACATGAAGT
1 GCATACTTGGCACATGAAGT
*
59595961 GCATA-TTGG-AGCATGAAGA
1 GCATACTTGGCA-CATGAAGT
* * *
59595980 GCGT-CTTAGCACATAAAGT
1 GCATACTTGGCACATGAAGT
59595999 GCATA
1 GCATA
59596004 AAATCGTACA
Statistics
Matches: 49, Mismatches: 6, Indels: 13
0.72 0.09 0.19
Matches are distributed among these distances:
18 2 0.04
19 43 0.88
20 4 0.08
ACGTcount: A:0.32, C:0.20, G:0.25, T:0.23
Consensus pattern (20 bp):
GCATACTTGGCACATGAAGT
Found at i:59597672 original size:19 final size:19
Alignment explanation
Indices: 59597650--59597686 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
59597640 AAAAACATAT
59597650 AAATTGCAAAAATTATAAC
1 AAATTGCAAAAATTATAAC
*
59597669 AAATTGTAAAAATTATAA
1 AAATTGCAAAAATTATAA
59597687 AGAGTTATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.59, C:0.05, G:0.05, T:0.30
Consensus pattern (19 bp):
AAATTGCAAAAATTATAAC
Found at i:59597715 original size:21 final size:21
Alignment explanation
Indices: 59597675--59597716 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
59597665 TAACAAATTG
* * *
59597675 TAAAAATTATAAAGAGTTATT
1 TAAAAACTATAAAAAATTATT
59597696 TAAAAACTATAAAAAATTATT
1 TAAAAACTATAAAAAATTATT
59597717 AAACATATTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.57, C:0.02, G:0.05, T:0.36
Consensus pattern (21 bp):
TAAAAACTATAAAAAATTATT
Found at i:59598137 original size:19 final size:19
Alignment explanation
Indices: 59598110--59598223 Score: 68
Period size: 19 Copynumber: 5.9 Consensus size: 19
59598100 TTTAAAAAAA
* *
59598110 ATAATTTTTGTAATTTTTT
1 ATAACTTTTATAATTTTTT
*
59598129 ATAACTTTTATAATGTTTT
1 ATAACTTTTATAATTTTTT
** * *
59598148 -GCACTTTTACATTTTTTTT
1 ATAACTTTTATA-ATTTTTT
* * *
59598167 ATAAATTTCACAATTTTTT
1 ATAACTTTTATAATTTTTT
* * *
59598186 ATAGCTTTTGTAATTTTTAA
1 ATAACTTTTATAATTTTT-T
* *
59598206 ATAATTTTTATGATTTTT
1 ATAACTTTTATAATTTTT
59598224 CATATGTTAT
Statistics
Matches: 69, Mismatches: 23, Indels: 5
0.71 0.24 0.05
Matches are distributed among these distances:
18 8 0.12
19 40 0.58
20 21 0.30
ACGTcount: A:0.28, C:0.06, G:0.05, T:0.61
Consensus pattern (19 bp):
ATAACTTTTATAATTTTTT
Found at i:59602395 original size:10 final size:11
Alignment explanation
Indices: 59602371--59602397 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
59602361 TGTCCTCAAG
59602371 AAAACTAAATA
1 AAAACTAAATA
59602382 AAAACTAAATA
1 AAAACTAAATA
59602393 AAAAC
1 AAAAC
59602398 CAAAAACAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.74, C:0.11, G:0.00, T:0.15
Consensus pattern (11 bp):
AAAACTAAATA
Found at i:59606776 original size:11 final size:11
Alignment explanation
Indices: 59606757--59606819 Score: 58
Period size: 11 Copynumber: 5.6 Consensus size: 11
59606747 TATATAAGTA
*
59606757 ATTATTATTTT
1 ATTAATATTTT
59606768 ATTAATATTTT
1 ATTAATATTTT
*
59606779 GATTTGATA-TTT
1 -A-TTAATATTTT
*
59606791 ATTTATATTTT
1 ATTAATATTTT
59606802 ATTAAT-TTTT
1 ATTAATATTTT
59606812 ACTTAATA
1 A-TTAATA
59606820 CATAAGGAAG
Statistics
Matches: 43, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
10 10 0.23
11 24 0.56
12 4 0.09
13 5 0.12
ACGTcount: A:0.32, C:0.02, G:0.03, T:0.63
Consensus pattern (11 bp):
ATTAATATTTT
Found at i:59607541 original size:22 final size:22
Alignment explanation
Indices: 59607501--59607557 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
59607491 GAAATTTTAG
* *
59607501 AGCGCTTACCGTCTT-GCACTTT
1 AGCGCTTACTGT-TTCGCACTTC
*
59607523 AGCGCTTATTGTTTCGCACTTC
1 AGCGCTTACTGTTTCGCACTTC
*
59607545 AGTGCTTACTGTT
1 AGCGCTTACTGTT
59607558 CTACACTTCG
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
21 2 0.07
22 27 0.93
ACGTcount: A:0.14, C:0.26, G:0.19, T:0.40
Consensus pattern (22 bp):
AGCGCTTACTGTTTCGCACTTC
Found at i:59607586 original size:22 final size:23
Alignment explanation
Indices: 59607538--59607586 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 23
59607528 TTATTGTTTC
* *
59607538 GCACTTCAGTGCTTACTGTTCTA
1 GCACTTCAGTGCCTACTATTCTA
*
59607561 -CACTTCGGTGCCTACTATTC-A
1 GCACTTCAGTGCCTACTATTCTA
59607582 GCACT
1 GCACT
59607587 ATAGTGTCCA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
21 1 0.05
22 21 0.95
ACGTcount: A:0.18, C:0.31, G:0.16, T:0.35
Consensus pattern (23 bp):
GCACTTCAGTGCCTACTATTCTA
Found at i:59629019 original size:42 final size:43
Alignment explanation
Indices: 59628938--59629088 Score: 160
Period size: 43 Copynumber: 3.5 Consensus size: 43
59628928 TCACAGACGA
* * ** * *
59628938 GGTCTTACATGTAATCCAATATCGATGCCACTGTCCCAGACAA
1 GGTCTTACACGAAATCTTATATCGATGCCAATGTCCCAGACAT
* *
59628981 GGTCTTACACGAAATCTTATA-CGATGTCGATGTCCCAGACAT
1 GGTCTTACACGAAATCTTATATCGATGCCAATGTCCCAGACAT
* * **
59629023 GGTCTTACACGTAAATCTTAAATCGATGCCAACGTCCCAGATGT
1 GGTCTTACACG-AAATCTTATATCGATGCCAATGTCCCAGACAT
* *
59629067 GGTCTTACACGATATCATATAT
1 GGTCTTACACGAAATCTTATAT
59629089 TAGATTTCCT
Statistics
Matches: 89, Mismatches: 17, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
42 28 0.31
43 34 0.38
44 27 0.30
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (43 bp):
GGTCTTACACGAAATCTTATATCGATGCCAATGTCCCAGACAT
Found at i:59630176 original size:13 final size:13
Alignment explanation
Indices: 59630158--59630184 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
59630148 CACAAACGAT
59630158 AAAATTTTCACAC
1 AAAATTTTCACAC
59630171 AAAATTTTCACAC
1 AAAATTTTCACAC
59630184 A
1 A
59630185 TATAAATTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.22, G:0.00, T:0.30
Consensus pattern (13 bp):
AAAATTTTCACAC
Found at i:59634770 original size:42 final size:41
Alignment explanation
Indices: 59634715--59634850 Score: 148
Period size: 41 Copynumber: 3.2 Consensus size: 41
59634705 TATGAAATAA
*
59634715 AAAAAGAAGTGAAATTAATAAGTTGTTATTTTAAATTTTATAAG
1 AAAAA-AA-TGAAATTAATAAGTT-TTATTTTAAATTTTAAAAG
* * *
59634759 AAACAAATGAAATTAATAAGTTTTTTATTTAAA-TTTAGAAG
1 AAAAAAATGAAATTAATAAGTTTTAT-TTTAAATTTTAAAAG
* * *
59634800 AAAAAAAAGAAATTAATTAGTTTTTAATTTAAATTTTGAAAAG
1 AAAAAAATGAAATTAATAAG-TTTTATTTTAAATTTT-AAAAG
59634843 AAAAAAAT
1 AAAAAAAT
59634851 ATTTTTGGAC
Statistics
Matches: 78, Mismatches: 10, Indels: 9
0.80 0.10 0.09
Matches are distributed among these distances:
41 33 0.42
42 28 0.36
43 13 0.17
44 4 0.05
ACGTcount: A:0.52, C:0.01, G:0.10, T:0.37
Consensus pattern (41 bp):
AAAAAAATGAAATTAATAAGTTTTATTTTAAATTTTAAAAG
Found at i:59641566 original size:42 final size:43
Alignment explanation
Indices: 59641470--59641591 Score: 128
Period size: 43 Copynumber: 2.9 Consensus size: 43
59641460 AGCTCGTACA
* **
59641470 ATGCCTAC-GTCCCAGAC-GAGGTTTTACATGTAAA-CCAATAGCG
1 ATGCC-ACTGTCCCAGACAG-GGTCTTACATGTAAATCTTATA-CG
*
59641513 ATGCCACTGTCCCAGACAGGGTCTTACTTG-AAATCTTATACG
1 ATGCCACTGTCCCAGACAGGGTCTTACATGTAAATCTTATACG
*
59641555 ATGCCGA-TGTCCCAGACATGGTCTTACATGTAAATCT
1 ATGCC-ACTGTCCCAGACAGGGTCTTACATGTAAATCT
59641592 CAAATCGATG
Statistics
Matches: 68, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
42 33 0.49
43 34 0.50
44 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.27
Consensus pattern (43 bp):
ATGCCACTGTCCCAGACAGGGTCTTACATGTAAATCTTATACG
Found at i:59649100 original size:33 final size:36
Alignment explanation
Indices: 59648997--59649108 Score: 121
Period size: 33 Copynumber: 3.2 Consensus size: 36
59648987 AACTATAAAG
*
59648997 GCCGAATGC--ACATAT-T-CACTATTACCCACCTAT
1 GCCGAATGCATACATATATACACTA-TATCCACCTAT
* *
59649030 GCCGAATGCATACATATATACACTTATATCTATCTAT
1 GCCGAATGCATACATATATACAC-TATATCCACCTAT
*
59649067 GCCGAATGCATACA-A-ATATA-TATATCCACCTAT
1 GCCGAATGCATACATATATACACTATATCCACCTAT
59649100 GCCGAATGC
1 GCCGAATGC
59649109 CTAAATATGC
Statistics
Matches: 68, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
33 29 0.43
35 10 0.15
36 2 0.03
37 25 0.37
38 2 0.03
ACGTcount: A:0.34, C:0.27, G:0.11, T:0.29
Consensus pattern (36 bp):
GCCGAATGCATACATATATACACTATATCCACCTAT
Found at i:59656653 original size:33 final size:36
Alignment explanation
Indices: 59656550--59656661 Score: 121
Period size: 33 Copynumber: 3.2 Consensus size: 36
59656540 AACTATAAAG
*
59656550 GCCGAATGC--ACATAT-T-CACTATTACCCACCTAT
1 GCCGAATGCATACATATATACACTA-TATCCACCTAT
* *
59656583 GCCGAATGCATACATATATACACTTATATCTATCTAT
1 GCCGAATGCATACATATATACAC-TATATCCACCTAT
*
59656620 GCCGAATGCATACA-A-ATATA-TATATCCACCTAT
1 GCCGAATGCATACATATATACACTATATCCACCTAT
59656653 GCCGAATGC
1 GCCGAATGC
59656662 CTAAATATGC
Statistics
Matches: 68, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
33 29 0.43
35 10 0.15
36 2 0.03
37 25 0.37
38 2 0.03
ACGTcount: A:0.34, C:0.27, G:0.11, T:0.29
Consensus pattern (36 bp):
GCCGAATGCATACATATATACACTATATCCACCTAT
Found at i:59656904 original size:41 final size:41
Alignment explanation
Indices: 59656854--59657063 Score: 348
Period size: 41 Copynumber: 5.1 Consensus size: 41
59656844 AATTCATCAT
*
59656854 ATTCGGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
*
59656895 ATTCAGATCACTGGCACTTAGCCTGCTAGGCTTATAGCCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
* * *
59656936 ATTCAGATCACCGGCACGTAGCCTGCTAGGTTTATAACCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
*
59656977 ATTCATATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
* *
59657018 ATTCAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
59657059 ATTCA
1 ATTCA
59657064 ATTCATCAAT
Statistics
Matches: 156, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 156 1.00
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.29
Consensus pattern (41 bp):
ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
Found at i:59657317 original size:21 final size:20
Alignment explanation
Indices: 59657291--59657339 Score: 73
Period size: 21 Copynumber: 2.5 Consensus size: 20
59657281 CCACATATAT
59657291 ATATATATATATATTACACAC
1 ATATATATATATATT-CACAC
*
59657312 ATATATATATATATTCGCAC
1 ATATATATATATATTCACAC
59657332 AT-TATATA
1 ATATATATA
59657340 AACACAACCA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 6 0.22
20 6 0.22
21 15 0.56
ACGTcount: A:0.45, C:0.12, G:0.02, T:0.41
Consensus pattern (20 bp):
ATATATATATATATTCACAC
Found at i:59673066 original size:26 final size:26
Alignment explanation
Indices: 59673026--59673120 Score: 174
Period size: 26 Copynumber: 3.7 Consensus size: 26
59673016 TTTTATCCCT
*
59673026 ATTTTA-CCCTAGTAAAAGTTTAACG
1 ATTTTACCCCTAGTAAAACTTTAACG
59673051 ATTTTACCCCTAGTAAAACTTTAACG
1 ATTTTACCCCTAGTAAAACTTTAACG
59673077 ATTTTACCCCTAGTAAAACTTTAACG
1 ATTTTACCCCTAGTAAAACTTTAACG
59673103 ATTTTACCCCTAGTAAAA
1 ATTTTACCCCTAGTAAAA
59673121 TTTTGACAAG
Statistics
Matches: 68, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
25 6 0.09
26 62 0.91
ACGTcount: A:0.36, C:0.21, G:0.08, T:0.35
Consensus pattern (26 bp):
ATTTTACCCCTAGTAAAACTTTAACG
Found at i:59673142 original size:52 final size:52
Alignment explanation
Indices: 59673028--59673143 Score: 162
Period size: 52 Copynumber: 2.2 Consensus size: 52
59673018 TTATCCCTAT
* * *
59673028 TTTA-CCCTAGTAAAAGTTTAACGATTTTACCCCTAGTAAAACTTTAACGAT
1 TTTACCCCTAGTAAAACTTTAACGATTTTACCCCTAGTAAAACTTTAACAAG
* *
59673079 TTTACCCCTAGTAAAACTTTAACGATTTTACCCCTAGTAAAATTTTGACAAG
1 TTTACCCCTAGTAAAACTTTAACGATTTTACCCCTAGTAAAACTTTAACAAG
* *
59673131 TTTGCCTCTAGTA
1 TTTACCCCTAGTA
59673144 GAATTTTGAG
Statistics
Matches: 57, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
51 4 0.07
52 53 0.93
ACGTcount: A:0.33, C:0.21, G:0.10, T:0.36
Consensus pattern (52 bp):
TTTACCCCTAGTAAAACTTTAACGATTTTACCCCTAGTAAAACTTTAACAAG
Found at i:59677721 original size:29 final size:28
Alignment explanation
Indices: 59677656--59677759 Score: 104
Period size: 29 Copynumber: 3.6 Consensus size: 28
59677646 TTTAGAATGC
* * * *
59677656 GCCACTAAGTCATTCCTTTTTAGAGA-TA
1 GCCACAAAGGCATTCC-TTCTAGAGATTT
59677684 GCCACAAAGGC-TTCCATGTCTAGAGATTT
1 GCCACAAAGGCATTCC-T-TCTAGAGATTT
* *
59677713 GTCACAAAGGCATTTCCTTCTAGAGGTTT
1 GCCACAAAGGCA-TTCCTTCTAGAGATTT
59677742 GCCACAAAGGCATTCCTT
1 GCCACAAAGGCATTCCTT
59677760 AACATTCAAT
Statistics
Matches: 64, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
27 5 0.08
28 22 0.34
29 32 0.50
30 1 0.02
31 4 0.06
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (28 bp):
GCCACAAAGGCATTCCTTCTAGAGATTT
Found at i:59678022 original size:53 final size:53
Alignment explanation
Indices: 59677935--59678040 Score: 142
Period size: 53 Copynumber: 2.0 Consensus size: 53
59677925 TTAATTTTTC
*
59677935 CCATATGATGTCATAACCCACCAATTACGATCTTACACAATATGGTATTCTTT
1 CCATATGATGCCATAACCCACCAATTACGATCTTACACAATATGGTATTCTTT
* * ** *
59677988 CCATATGATGCCATAACCCA-CAAGTTATGGTCTTACATGATATGGTCTTCTTT
1 CCATATGATGCCATAACCCACCAA-TTACGATCTTACACAATATGGTATTCTTT
59678041 AGTGTCATGG
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
52 3 0.07
53 43 0.93
ACGTcount: A:0.29, C:0.24, G:0.12, T:0.35
Consensus pattern (53 bp):
CCATATGATGCCATAACCCACCAATTACGATCTTACACAATATGGTATTCTTT
Found at i:59682047 original size:13 final size:13
Alignment explanation
Indices: 59682029--59682054 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
59682019 TAAACTATCC
59682029 TTTTTTTTTCATT
1 TTTTTTTTTCATT
59682042 TTTTTTTTTCATT
1 TTTTTTTTTCATT
59682055 CTCTTCTCAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.08, C:0.08, G:0.00, T:0.85
Consensus pattern (13 bp):
TTTTTTTTTCATT
Found at i:59682081 original size:170 final size:166
Alignment explanation
Indices: 59681818--59682189 Score: 594
Period size: 170 Copynumber: 2.2 Consensus size: 166
59681808 ATTTTTTTCG
*
59681818 TTTTGAACAATTT-A--TTTTTTTTCTTTTATGTTCTTTATACTATCCTCTTTTTTCTTTTTTTT
1 TTTTGAACAATTTAATTTTTTTTTTCTTTTATGTTCTTTAAACTATCCTCTTTTTTCTTTTTTTT
59681880 TCATTCTCTTCTCATTCTCCCTCAGTTTTCCTC-CTATCTTCATTTCTTTTAACGTAGTTTTTCT
66 TCATTCTCTTCTCATTCTCCCTCAGTTTTCCTCTC-ATCTTCATTTCTTTTAACGTAGTTTTTCT
59681944 AAGTTTTCCATTTGTTAAAACTAGTCCCTATACTTTT
130 AAGTTTTCCATTTGTTAAAACTAGTCCCTATACTTTT
*
59681981 TTTTGAACAATTTAATTTTTTTTTTCTTTTATGTTCTTTAAACTATCCTTTTTTTTTCATTTTTT
1 TTTTGAACAATTTAATTTTTTTTTTCTTTTATGTTCTTTAAACTATCC-TCTTTTTTC---TTTT
**
59682046 TTTTTCATTCTCTTCTCATTCTTTCTCAGTTTTCCTCTCATCTTCATTTCTTTTAACGTAGTTTT
62 TTTTTCATTCTCTTCTCATTCTCCCTCAGTTTTCCTCTCATCTTCATTTCTTTTAACGTAGTTTT
59682111 TCTAAGTTTTCCATTTGTTAAAACTAGTCCCTATACTTTT
127 TCTAAGTTTTCCATTTGTTAAAACTAGTCCCTATACTTTT
* *
59682151 TTTTGAACAATCTAATTTTTTTTCTT-TTGTAT-TTCTTTA
1 TTTTGAACAATTTAATTTTTTTT-TTCTTTTATGTTCTTTA
59682190 TTTTCTTTTT
Statistics
Matches: 194, Mismatches: 6, Indels: 12
0.92 0.03 0.06
Matches are distributed among these distances:
163 13 0.07
164 1 0.01
166 30 0.15
167 8 0.04
169 7 0.04
170 132 0.68
171 3 0.02
ACGTcount: A:0.17, C:0.19, G:0.05, T:0.59
Consensus pattern (166 bp):
TTTTGAACAATTTAATTTTTTTTTTCTTTTATGTTCTTTAAACTATCCTCTTTTTTCTTTTTTTT
TCATTCTCTTCTCATTCTCCCTCAGTTTTCCTCTCATCTTCATTTCTTTTAACGTAGTTTTTCTA
AGTTTTCCATTTGTTAAAACTAGTCCCTATACTTTT
Found at i:59682891 original size:31 final size:29
Alignment explanation
Indices: 59682853--59682929 Score: 93
Period size: 29 Copynumber: 2.6 Consensus size: 29
59682843 TTAACGGCTT
* *
59682853 AGTGACTAAAATGTTACAACTCGTT-AATGTA
1 AGTGACTAAAATGTAAC-A-T-GTTAAATATA
*
59682884 AGTGACTAAAATGTAACATTTTAAATATA
1 AGTGACTAAAATGTAACATGTTAAATATA
59682913 AGTGACTAAAATGTAAC
1 AGTGACTAAAATGTAAC
59682930 CTTAAGTAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
28 2 0.05
29 23 0.55
30 1 0.02
31 16 0.38
ACGTcount: A:0.44, C:0.10, G:0.14, T:0.31
Consensus pattern (29 bp):
AGTGACTAAAATGTAACATGTTAAATATA
Found at i:59683138 original size:24 final size:23
Alignment explanation
Indices: 59683109--59683156 Score: 62
Period size: 22 Copynumber: 2.0 Consensus size: 23
59683099 ATCATTCATT
*
59683109 TCAAATAATAAGTATTTATAT-TAA
1 TCAAATAA-AA-TATATATATATAA
59683133 TCAAATAAAATATATATATATAA
1 TCAAATAAAATATATATATATAA
59683156 T
1 T
59683157 TAATTTAAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 8 0.36
23 6 0.27
24 8 0.36
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.40
Consensus pattern (23 bp):
TCAAATAAAATATATATATATAA
Found at i:59689340 original size:26 final size:26
Alignment explanation
Indices: 59689304--59689354 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
59689294 TTGAATAAAA
59689304 AGGGGTCGCTAAGTGCAGATTCCCCG
1 AGGGGTCGCTAAGTGCAGATTCCCCG
* *
59689330 AGGGGTTGCTAAGTGCTGATTCCCC
1 AGGGGTCGCTAAGTGCAGATTCCCC
59689355 AAATTATTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.18, C:0.25, G:0.33, T:0.24
Consensus pattern (26 bp):
AGGGGTCGCTAAGTGCAGATTCCCCG
Found at i:59689431 original size:43 final size:43
Alignment explanation
Indices: 59689333--59689559 Score: 234
Period size: 43 Copynumber: 5.4 Consensus size: 43
59689323 TTCCCCGAGG
** * * *
59689333 GGTTGCTAAGTGCTGATTCCCCAAATTATTGACTCT-AAAGGT
1 GGTTGCTAAGTGCTGATTCCCCGTATCATTGATTGTGAAAGGT
* * *
59689375 GGTTGCTAAGTGCTAATTCCACCGTATCTTTTATTGTGAAAGG-
1 GGTTGCTAAGTGCTGATTCC-CCGTATCATTGATTGTGAAAGGT
* * * *
59689418 GGTTGCTACGTGCTGATTCCCCGTATCATTGAATAT-ATAGGT
1 GGTTGCTAAGTGCTGATTCCCCGTATCATTGATTGTGAAAGGT
* *
59689460 GGTTGCTAAGTGTTGATTCCACCGTATCCTTGATTGTGAAAGG-
1 GGTTGCTAAGTGCTGATTCC-CCGTATCATTGATTGTGAAAGGT
* *
59689503 GGTTGCTATGTGCTGATTCCCCGTATCACTGAATT-T--AAGGT
1 GGTTGCTAAGTGCTGATTCCCCGTATCATTG-ATTGTGAAAGGT
59689544 GGTTGCTAAGTGCTGA
1 GGTTGCTAAGTGCTGA
59689560 ATCCACCGAG
Statistics
Matches: 152, Mismatches: 26, Indels: 15
0.79 0.13 0.08
Matches are distributed among these distances:
40 4 0.03
41 19 0.12
42 59 0.39
43 61 0.40
44 9 0.06
ACGTcount: A:0.22, C:0.18, G:0.25, T:0.35
Consensus pattern (43 bp):
GGTTGCTAAGTGCTGATTCCCCGTATCATTGATTGTGAAAGGT
Found at i:59689464 original size:42 final size:42
Alignment explanation
Indices: 59689333--59689559 Score: 235
Period size: 42 Copynumber: 5.4 Consensus size: 42
59689323 TTCCCCGAGG
** * * *
59689333 GGTTGCTAAGTGCTGATTCCCCAAATTATTGACTCTAAAGGT
1 GGTTGCTAAGTGCTGATTCCCCGTATCATTGAATGTAAAGGT
* * * *
59689375 GGTTGCTAAGTGCTAATTCCACCGTATCTTTTATTGTGAAAGG-
1 GGTTGCTAAGTGCTGATTCC-CCGTATCATTGAATGT-AAAGGT
* * *
59689418 GGTTGCTACGTGCTGATTCCCCGTATCATTGAATATATAGGT
1 GGTTGCTAAGTGCTGATTCCCCGTATCATTGAATGTAAAGGT
* * *
59689460 GGTTGCTAAGTGTTGATTCCACCGTATCCTTGATTGTGAAAGG-
1 GGTTGCTAAGTGCTGATTCC-CCGTATCATTGAATGT-AAAGGT
* * *
59689503 GGTTGCTATGTGCTGATTCCCCGTATCACTGAAT-TTAAGGT
1 GGTTGCTAAGTGCTGATTCCCCGTATCATTGAATGTAAAGGT
59689544 GGTTGCTAAGTGCTGA
1 GGTTGCTAAGTGCTGA
59689560 ATCCACCGAG
Statistics
Matches: 151, Mismatches: 28, Indels: 13
0.79 0.15 0.07
Matches are distributed among these distances:
40 4 0.03
41 20 0.13
42 60 0.40
43 58 0.38
44 9 0.06
ACGTcount: A:0.22, C:0.18, G:0.25, T:0.35
Consensus pattern (42 bp):
GGTTGCTAAGTGCTGATTCCCCGTATCATTGAATGTAAAGGT
Found at i:59689479 original size:85 final size:84
Alignment explanation
Indices: 59689330--59689567 Score: 332
Period size: 85 Copynumber: 2.8 Consensus size: 84
59689320 AGATTCCCCG
** * * * *
59689330 AGGGGTTGCTAAGTGCTGATTCCCCAAATTATTGACTCTAAAGGTGGTTGCTAAGTGCTAATTCC
1 AGGGGTTGCTAAGTGCTGATTCCCCGTATCATTGAATAT-AAGGTGGTTGCTAAGTGCTGATTCC
* *
59689395 ACCGTATCTTTTATTGTGAA
65 ACCGTATCCTTGATTGTGAA
* *
59689415 AGGGGTTGCTACGTGCTGATTCCCCGTATCATTGAATATATAGGTGGTTGCTAAGTGTTGATTCC
1 AGGGGTTGCTAAGTGCTGATTCCCCGTATCATTGAATATA-AGGTGGTTGCTAAGTGCTGATTCC
59689480 ACCGTATCCTTGATTGTGAA
65 ACCGTATCCTTGATTGTGAA
* * * *
59689500 AGGGGTTGCTATGTGCTGATTCCCCGTATCACTGAATTTAAGGTGGTTGCTAAGTGCTGAATCCA
1 AGGGGTTGCTAAGTGCTGATTCCCCGTATCATTGAATATAAGGTGGTTGCTAAGTGCTGATTCCA
59689565 CCG
66 CCG
59689568 AGTAACAGAT
Statistics
Matches: 137, Mismatches: 15, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
84 27 0.20
85 110 0.80
ACGTcount: A:0.22, C:0.18, G:0.25, T:0.34
Consensus pattern (84 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGTATCATTGAATATAAGGTGGTTGCTAAGTGCTGATTCCA
CCGTATCCTTGATTGTGAA
Found at i:59691886 original size:16 final size:16
Alignment explanation
Indices: 59691865--59691897 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
59691855 AATATATATA
59691865 TTAAGTTTTTTATGTT
1 TTAAGTTTTTTATGTT
59691881 TTAAGTTTTTTATGTT
1 TTAAGTTTTTTATGTT
59691897 T
1 T
59691898 AAAAAATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.18, C:0.00, G:0.12, T:0.70
Consensus pattern (16 bp):
TTAAGTTTTTTATGTT
Found at i:59691936 original size:45 final size:46
Alignment explanation
Indices: 59691854--59691941 Score: 119
Period size: 47 Copynumber: 1.9 Consensus size: 46
59691844 AAAATATATT
59691854 AAATATATATATTAAGTTTTTTATGTTTTAAGTTTTTTATGTTTAAA
1 AAATATATATATTAAGTTTTTTATGTTTTAAGTTTTTTA-GTTTAAA
**
59691901 AAATATATAT-TTATTTATTTTTATG-TTTAAG-TTTTTAGTTT
1 AAATATATATATTAAGT-TTTTTATGTTTTAAGTTTTTTAGTTT
59691942 TAGTTTTCAA
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
44 4 0.11
45 6 0.16
46 10 0.26
47 18 0.47
ACGTcount: A:0.32, C:0.00, G:0.08, T:0.60
Consensus pattern (46 bp):
AAATATATATATTAAGTTTTTTATGTTTTAAGTTTTTTAGTTTAAA
Found at i:59691993 original size:20 final size:20
Alignment explanation
Indices: 59691970--59692010 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
59691960 CCCCTGACAG
*
59691970 TTTAAGTTTTCAATTTTATT
1 TTTAAGTTTTCAATTTCATT
* *
59691990 TTTATGTTTTTAATTTCATT
1 TTTAAGTTTTCAATTTCATT
59692010 T
1 T
59692011 CCCCGACATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.22, C:0.05, G:0.05, T:0.68
Consensus pattern (20 bp):
TTTAAGTTTTCAATTTCATT
Found at i:59692375 original size:16 final size:16
Alignment explanation
Indices: 59692354--59692392 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
59692344 ATTTTGTTAC
*
59692354 AACAATTAATATAATT
1 AACAATTAATACAATT
59692370 AACAATTAATACAATT
1 AACAATTAATACAATT
*
59692386 AATAATT
1 AACAATT
59692393 TGATAATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.36
Consensus pattern (16 bp):
AACAATTAATACAATT
Found at i:59692503 original size:16 final size:16
Alignment explanation
Indices: 59692462--59692503 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
59692452 AATAATTTGA
**
59692462 TAATTTTACGAACAAT
1 TAATTTTAATAACAAT
59692478 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
*
59692494 TAGTTTTAAT
1 TAATTTTAAT
59692504 TTTATCAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.43, C:0.07, G:0.05, T:0.45
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:59693486 original size:153 final size:153
Alignment explanation
Indices: 59692844--59693663 Score: 1213
Period size: 154 Copynumber: 5.3 Consensus size: 153
59692834 TTTAGTGTGT
* *
59692844 TTTTTATTGAAAGCAATAAAATTCGGTAAAAAAATACGAACAAAGGGCCGAAATAAGGGTTTCTT
1 TTTTTATTAAAAGTAATAAAA-TCGG-AAAAAAATACGAACAAAGGGCCGAAATAAGGGTTT-TT
* *
59692909 TTTAAATTTAAATAAAACACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATTTA
63 TTTAAATTTAAATAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTA
*
59692974 AAATAATAGAATACGAAAATAATATA
128 AAATAATAAAATACGAAAATAATATA
* * * *
59693000 TTTTTATTGAAAGTAATAAAATCCGAAAAAAATACGAATAAAGGGTCGAAATAAGGG-TTTTTTT
1 TTTTTATTAAAAGTAATAAAATCGGAAAAAAATACGAACAAAGGGCCGAAATAAGGGTTTTTTTT
*
59693064 AAATTTAAATAAAAAACACACTAAATGAATAAATTTCAAACATAATGTACTAAAATAATGTAAAA
66 AAATTTAAATAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAAAA
59693129 TAATAAAATTA-GAAAATAATATA
131 TAATAAAA-TACGAAAATAATATA
* *
59693152 -TTTT-TTAAAAGTAATAAAATCCGGAAAAAAATACGAACAAATGGCCGAAATAATGGTTTTTTT
1 TTTTTATTAAAAGTAATAAAAT-CGGAAAAAAATACGAACAAAGGGCCGAAATAAGGGTTTTTTT
* ** * * * *
59693215 AAAATTTATTTCAAAAACACAGTAAATTAATACATTTCAAATATAATGTACTAAAATAATGTAAA
65 TAAATTTAAATAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAAA
59693280 ATAATAAAATACGAAAATAATATA
130 ATAATAAAATACGAAAATAATATA
** *
59693304 TTTTTATTGGAAGTAATAAAATCCGGAAAAAAATACTAACAAAGGGCCGAAATAAGGGTTTTTTT
1 TTTTTATTAAAAGTAATAAAAT-CGGAAAAAAATACGAACAAAGGGCCGAAATAAGGGTTTTTTT
** * *
59693369 TAAATTTATTTAAAAAACACAGTAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAA
65 TAAATTTAAATAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAAA
59693434 ATAATAAAATACGAAAATAATATA
130 ATAATAAAATACGAAAATAATATA
* * *
59693458 TTTTTATTAAAAGTAATAAAATCTGAAAAAAATACGAACAAAGGGCCGAAATAAGGATTTTTTTA
1 TTTTTATTAAAAGTAATAAAATCGGAAAAAAATACGAACAAAGGGCCGAAATAAGGGTTTTTTTT
*
59693523 AAATTTAAATAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATTTAAAA
66 AAATTTAAATAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAAAA
*
59693588 TAATAAAATTA-GAAAATAGTATA
131 TAATAAAA-TACGAAAATAATATA
* *
59693611 -TTTT-TTAAAAGTAATAAAACTCGAGAAAAAAATACGAATAAAGGGCCAAAATA
1 TTTTTATTAAAAGTAATAAAA-TCG-GAAAAAAATACGAACAAAGGGCCGAAATA
59693664 CGAACAATTG
Statistics
Matches: 610, Mismatches: 45, Indels: 21
0.90 0.07 0.03
Matches are distributed among these distances:
150 15 0.02
151 51 0.08
152 176 0.29
153 153 0.25
154 192 0.31
155 3 0.00
156 20 0.03
ACGTcount: A:0.52, C:0.08, G:0.10, T:0.29
Consensus pattern (153 bp):
TTTTTATTAAAAGTAATAAAATCGGAAAAAAATACGAACAAAGGGCCGAAATAAGGGTTTTTTTT
AAATTTAAATAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAAAA
TAATAAAATACGAAAATAATATA
Found at i:59701453 original size:2 final size:2
Alignment explanation
Indices: 59701446--59701478 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
59701436 ATTCATCTAC
59701446 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
59701479 TCATATAGTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:59702624 original size:2 final size:2
Alignment explanation
Indices: 59702617--59702646 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
59702607 TGGGAGGATC
59702617 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
59702647 TTTCATCTTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:59702700 original size:11 final size:11
Alignment explanation
Indices: 59702681--59702725 Score: 54
Period size: 11 Copynumber: 3.9 Consensus size: 11
59702671 TAGCTATTTA
59702681 TAATAAAATAT
1 TAATAAAATAT
*
59702692 TAGTAAAATAT
1 TAATAAAATAT
*
59702703 CTCATTAAAATAT
1 -T-AATAAAATAT
59702716 TAATAAAATA
1 TAATAAAATA
59702726 ATATTTATCT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
11 18 0.62
12 2 0.07
13 9 0.31
ACGTcount: A:0.58, C:0.04, G:0.02, T:0.36
Consensus pattern (11 bp):
TAATAAAATAT
Found at i:59704483 original size:25 final size:25
Alignment explanation
Indices: 59704455--59704504 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
59704445 AAAAGAATAG
* *
59704455 AAAATAAAAAAGAAAAAAAGTTAAA
1 AAAACAAAAAACAAAAAAAGTTAAA
* *
59704480 AAAACATAAAACAAAAAAATTTAAA
1 AAAACAAAAAACAAAAAAAGTTAAA
59704505 TTACTCAAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.78, C:0.04, G:0.04, T:0.14
Consensus pattern (25 bp):
AAAACAAAAAACAAAAAAAGTTAAA
Found at i:59704718 original size:21 final size:20
Alignment explanation
Indices: 59704681--59704719 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
59704671 ATAATATTTT
*
59704681 AAATATAAATAATTAAAATA
1 AAATATAAATAAATAAAATA
*
59704701 AAATATGAGATAAATAAAA
1 AAATAT-AAATAAATAAAA
59704720 ATAACTATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 6 0.38
21 10 0.62
ACGTcount: A:0.69, C:0.00, G:0.05, T:0.26
Consensus pattern (20 bp):
AAATATAAATAAATAAAATA
Found at i:59708192 original size:3 final size:3
Alignment explanation
Indices: 59708184--59708223 Score: 62
Period size: 3 Copynumber: 13.3 Consensus size: 3
59708174 TCCGAACTTT
* *
59708184 CAG CAG CAG CAG CAG CAG CAG CAC CAG CAG CAC CAG CAG C
1 CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG C
59708224 GGGCACAACT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.40, G:0.28, T:0.00
Consensus pattern (3 bp):
CAG
Found at i:59714986 original size:11 final size:12
Alignment explanation
Indices: 59714957--59714989 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
59714947 TTCAGCTTGG
*
59714957 ATGCTGGTCTGC
1 ATGCTGGTTTGC
59714969 ATGCTGGTTTGC
1 ATGCTGGTTTGC
59714981 -TGCTGGTTT
1 ATGCTGGTTT
59714990 CCTGTTGCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 9 0.45
12 11 0.55
ACGTcount: A:0.06, C:0.18, G:0.33, T:0.42
Consensus pattern (12 bp):
ATGCTGGTTTGC
Found at i:59717530 original size:13 final size:13
Alignment explanation
Indices: 59717512--59717536 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
59717502 TTGAGTACCA
59717512 AAAAAAATTAAGC
1 AAAAAAATTAAGC
59717525 AAAAAAATTAAG
1 AAAAAAATTAAG
59717537 GGTTCATTGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.72, C:0.04, G:0.08, T:0.16
Consensus pattern (13 bp):
AAAAAAATTAAGC
Found at i:59717875 original size:12 final size:12
Alignment explanation
Indices: 59717858--59717890 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
59717848 GCTTGGAACC
59717858 ACCGATTTTTTT
1 ACCGATTTTTTT
59717870 ACCGATTTTTTT
1 ACCGATTTTTTT
*
59717882 ATCGATTTT
1 ACCGATTTT
59717891 AGTGAGAACG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.18, C:0.15, G:0.09, T:0.58
Consensus pattern (12 bp):
ACCGATTTTTTT
Found at i:59718125 original size:6 final size:6
Alignment explanation
Indices: 59718114--59718157 Score: 61
Period size: 6 Copynumber: 7.2 Consensus size: 6
59718104 TTTGCAACCC
* *
59718114 AAGGGG AAGGGG AAAGGG AAGGGG AAGGGG AAGAGGA AAGGGG A
1 AAGGGG AAGGGG AAGGGG AAGGGG AAGGGG AAG-GGG AAGGGG A
59718158 GAAGAAGGGT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
6 28 0.85
7 5 0.15
ACGTcount: A:0.41, C:0.00, G:0.59, T:0.00
Consensus pattern (6 bp):
AAGGGG
Done.