Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr5
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: 39371879
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2227820 characters in sequence are not A, C, G, or T
File 11 of 103
Found at i:4277148 original size:32 final size:33
Alignment explanation
Indices: 4277104--4277174 Score: 110
Period size: 32 Copynumber: 2.2 Consensus size: 33
4277094 TAGAAGAAAC
*
4277104 TATGACA-CTCAAAACCTTGGTCTAGCCTTACA
1 TATGACATTTCAAAACCTTGGTCTAGCCTTACA
*
4277136 -ATGACATTTCAAAACCTTGGTCTAGCCTTATA
1 TATGACATTTCAAAACCTTGGTCTAGCCTTACA
4277168 TATGACA
1 TATGACA
4277175 GTCTTCAATT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
31 6 0.17
32 23 0.66
33 6 0.17
ACGTcount: A:0.32, C:0.24, G:0.13, T:0.31
Consensus pattern (33 bp):
TATGACATTTCAAAACCTTGGTCTAGCCTTACA
Found at i:4287085 original size:2 final size:2
Alignment explanation
Indices: 4287078--4287110 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
4287068 NNNNNNNNNN
4287078 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4287111 ACATATTGTA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4287389 original size:6 final size:6
Alignment explanation
Indices: 4287378--4287402 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
4287368 AGACGCCAGG
4287378 GTTTAT GTTTAT GTTTAT GTTTAT G
1 GTTTAT GTTTAT GTTTAT GTTTAT G
4287403 ATCTTCTCTC
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:0.20, T:0.64
Consensus pattern (6 bp):
GTTTAT
Found at i:4293167 original size:3 final size:3
Alignment explanation
Indices: 4293159--4293208 Score: 57
Period size: 3 Copynumber: 16.7 Consensus size: 3
4293149 TGACGAAGAG
* * *
4293159 GAT GAT GAT GAT GAT GAT GACT -CT GAT GAT GAT GAG GAT GAG GAT
1 GAT GAT GAT GAT GAT GAT GA-T GAT GAT GAT GAT GAT GAT GAT GAT
4293204 GAT GA
1 GAT GA
4293209 AGAGGCCATG
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
2 1 0.03
3 37 0.95
4 1 0.03
ACGTcount: A:0.32, C:0.04, G:0.36, T:0.28
Consensus pattern (3 bp):
GAT
Found at i:4303812 original size:14 final size:14
Alignment explanation
Indices: 4303774--4303815 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
4303764 AAATATTAAA
*
4303774 ATTTTCAAAAAAAT
1 ATTTTCAAAAAATT
4303788 A-TTT-AAAAAATT
1 ATTTTCAAAAAATT
*
4303800 ATTTTCAACAAATT
1 ATTTTCAAAAAATT
4303814 AT
1 AT
4303816 ATTAAAGACT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
12 8 0.33
13 6 0.25
14 10 0.42
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.40
Consensus pattern (14 bp):
ATTTTCAAAAAATT
Found at i:4315032 original size:19 final size:19
Alignment explanation
Indices: 4315008--4315046 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
4314998 TTGACATAAT
* *
4315008 ATTTAAAATAATTTAAATA
1 ATTTAAAAAAATTCAAATA
4315027 ATTTAAAAAAATTCAAATA
1 ATTTAAAAAAATTCAAATA
4315046 A
1 A
4315047 ACTCTTATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.36
Consensus pattern (19 bp):
ATTTAAAAAAATTCAAATA
Found at i:4324720 original size:20 final size:20
Alignment explanation
Indices: 4324695--4324733 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
4324685 TTTTGTGTAA
4324695 AATATT-TTATTAAAAAATTT
1 AATATTATT-TTAAAAAATTT
*
4324715 AATATTATTTTAATAAATT
1 AATATTATTTTAAAAAATT
4324734 ATCAAAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
AATATTATTTTAAAAAATTT
Found at i:4327740 original size:16 final size:17
Alignment explanation
Indices: 4327707--4327740 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
4327697 TATAACTTAT
4327707 AATTTTTCATTTTAAAA
1 AATTTTTCATTTTAAAA
4327724 AATTTTTC-TTATTAAAA
1 AATTTTTCATT-TTAAAA
4327741 TAAAATTCTC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 2 0.12
17 14 0.88
ACGTcount: A:0.41, C:0.06, G:0.00, T:0.53
Consensus pattern (17 bp):
AATTTTTCATTTTAAAA
Found at i:4328140 original size:30 final size:30
Alignment explanation
Indices: 4328079--4328173 Score: 104
Period size: 30 Copynumber: 3.2 Consensus size: 30
4328069 GTAAAAAAAA
* * *
4328079 TTATTTGACTCAAAATAAAAGTACAATGAC
1 TTATTTGACTCAAAATAAAAATATAAAGAC
4328109 TTATTTGACTCAAAATAAAAATATAAAGAC
1 TTATTTGACTCAAAATAAAAATATAAAGAC
* * * *
4328139 TTGA-TTGA-TCATAATAAACATATAAAAAT
1 TT-ATTTGACTCAAAATAAAAATATAAAGAC
4328168 TTATTT
1 TTATTT
4328174 AAATTTTTAT
Statistics
Matches: 56, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
28 1 0.02
29 21 0.38
30 33 0.59
31 1 0.02
ACGTcount: A:0.48, C:0.09, G:0.07, T:0.35
Consensus pattern (30 bp):
TTATTTGACTCAAAATAAAAATATAAAGAC
Found at i:4333949 original size:33 final size:33
Alignment explanation
Indices: 4333876--4333953 Score: 122
Period size: 33 Copynumber: 2.4 Consensus size: 33
4333866 GACACTGATA
*
4333876 TAGTATGTTAATATATTATAATTGATGATGATG
1 TAGTATGTTAATATATTATAATTGATGATGACG
*
4333909 TAGTATGTTGATATATTATAATTGATGATGACG
1 TAGTATGTTAATATATTATAATTGATGATGACG
4333942 T-GATATGTTAAT
1 TAG-TATGTTAAT
4333954 TTGATATGAT
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
32 1 0.02
33 40 0.98
ACGTcount: A:0.35, C:0.01, G:0.19, T:0.45
Consensus pattern (33 bp):
TAGTATGTTAATATATTATAATTGATGATGACG
Found at i:4338692 original size:2 final size:2
Alignment explanation
Indices: 4338685--4338774 Score: 117
Period size: 2 Copynumber: 42.5 Consensus size: 2
4338675 TTTATAAACT
4338685 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
* *
4338727 GA GA GA GA GA GA GA CGTA GTA GTA GTA GT NA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA -G-A G-A G-A G-A GA GA GA GA GA GA GA GA GA
4338772 GA G
1 GA G
4338775 GGCACATTTA
Statistics
Matches: 82, Mismatches: 4, Indels: 4
0.91 0.04 0.04
Matches are distributed among these distances:
2 70 0.85
3 11 0.13
4 1 0.01
ACGTcount: A:0.46, C:0.01, G:0.47, T:0.06
Consensus pattern (2 bp):
GA
Found at i:4343327 original size:32 final size:31
Alignment explanation
Indices: 4343258--4343344 Score: 99
Period size: 32 Copynumber: 2.8 Consensus size: 31
4343248 TTAAAAAAAA
*
4343258 ATACGT-AACCATATAC-AAGAA-AAGAAACT
1 ATACGTGAA-CATGTACAAAGAAGAAGAAACT
*
4343287 GTACGTGAACATGTACAATAGAAGAAGAAACT
1 ATACGTGAACATGTACAA-AGAAGAAGAAACT
*
4343319 ATATGTGAACATGTACAAAGGAAGAA
1 ATACGTGAACATGTACAAA-GAAGAA
4343345 AGTGTATATG
Statistics
Matches: 49, Mismatches: 4, Indels: 7
0.82 0.07 0.12
Matches are distributed among these distances:
29 11 0.22
30 3 0.06
31 5 0.10
32 30 0.61
ACGTcount: A:0.51, C:0.13, G:0.18, T:0.18
Consensus pattern (31 bp):
ATACGTGAACATGTACAAAGAAGAAGAAACT
Found at i:4343356 original size:29 final size:31
Alignment explanation
Indices: 4343292--4343356 Score: 80
Period size: 29 Copynumber: 2.1 Consensus size: 31
4343282 AAACTGTACG
*
4343292 TGAACATGTACAATAGAAGAAGAAACTATATG
1 TGAACATGTACAATAG-AGAAGAAACTATATA
* *
4343324 TGAACATGTACAA-AG-GAAGAAAGTGTATA
1 TGAACATGTACAATAGAGAAGAAACTATATA
4343353 TGAA
1 TGAA
4343357 TAGGTACACG
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
29 15 0.50
31 2 0.07
32 13 0.43
ACGTcount: A:0.49, C:0.08, G:0.22, T:0.22
Consensus pattern (31 bp):
TGAACATGTACAATAGAGAAGAAACTATATA
Found at i:4343741 original size:11 final size:11
Alignment explanation
Indices: 4343721--4343750 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
4343711 GGTGCAATGA
4343721 AAAAAGAGAAAG
1 AAAAA-AGAAAG
4343733 AAAAAAGAAAG
1 AAAAAAGAAAG
4343744 AAAAAAG
1 AAAAAAG
4343751 GAGAATAGCT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 13 0.72
12 5 0.28
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (11 bp):
AAAAAAGAAAG
Found at i:4343953 original size:22 final size:20
Alignment explanation
Indices: 4343906--4343956 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 20
4343896 GGGTGGAACC
4343906 AGAGAAA-AAACGAAAAGAA
1 AGAGAAAGAAACGAAAAGAA
*
4343925 ATA-AAAGAAACTGAAGAAGAA
1 AGAGAAAGAAAC-GAA-AAGAA
4343946 AGAGAAAGAAA
1 AGAGAAAGAAA
4343957 ATGGAGTGGG
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
18 3 0.12
19 6 0.23
20 3 0.12
21 7 0.27
22 7 0.27
ACGTcount: A:0.71, C:0.04, G:0.22, T:0.04
Consensus pattern (20 bp):
AGAGAAAGAAACGAAAAGAA
Found at i:4344159 original size:23 final size:23
Alignment explanation
Indices: 4344120--4344163 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
4344110 AAATAAGTAA
*
4344120 TTAATATTAATTGATTAATTATT
1 TTAATATTAATTAATTAATTATT
4344143 TTAA-ATTAATTTAATTAATTA
1 TTAATATTAA-TTAATTAATTA
4344164 ACTAATATAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (23 bp):
TTAATATTAATTAATTAATTATT
Found at i:4345331 original size:29 final size:29
Alignment explanation
Indices: 4345247--4345333 Score: 77
Period size: 29 Copynumber: 3.0 Consensus size: 29
4345237 TATTTGACTT
** * *
4345247 AAAATAAAAAAATAAAGACTTATTTGACTC
1 AAAATAAAAGTATAAAGACTTAATTGA-AC
* *
4345277 AAAATAAAAGTA-AAAGGGCTTGATTGAAC
1 AAAATAAAAGTATAAA-GACTTAATTGAAC
* *
4345306 GAAGTAAAAGTATAAAGACTTAATTGAA
1 AAAATAAAAGTATAAAGACTTAATTGAA
4345334 TTTTCTTGAA
Statistics
Matches: 45, Mismatches: 10, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
29 24 0.53
30 21 0.47
ACGTcount: A:0.54, C:0.07, G:0.15, T:0.24
Consensus pattern (29 bp):
AAAATAAAAGTATAAAGACTTAATTGAAC
Found at i:4345939 original size:21 final size:24
Alignment explanation
Indices: 4345896--4345941 Score: 62
Period size: 22 Copynumber: 2.0 Consensus size: 24
4345886 CCTTGATTGC
4345896 TTTCTTTCATTTTTTCTTAAATTT
1 TTTCTTTCATTTTTTCTTAAATTT
*
4345920 TTTC-TTC-TTTTTTGTT-AATTT
1 TTTCTTTCATTTTTTCTTAAATTT
4345941 T
1 T
4345942 CGCATAAACT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 6 0.29
22 8 0.38
23 3 0.14
24 4 0.19
ACGTcount: A:0.13, C:0.11, G:0.02, T:0.74
Consensus pattern (24 bp):
TTTCTTTCATTTTTTCTTAAATTT
Found at i:4349903 original size:67 final size:67
Alignment explanation
Indices: 4349813--4349972 Score: 207
Period size: 67 Copynumber: 2.4 Consensus size: 67
4349803 TTACACTAGT
* * * * * *
4349813 TTTTCTCGGGCTTAACTATAACCCAAAGTGGTTTTTTAAATGCTCAACCACAACATCT-C-ACAA
1 TTTTCACGGGCTCAACCAAAACCCAAAGTGGTTTTTCAAAGGCTCAACCACAAC--CTACAACAA
4349876 TGAA
64 TGAA
4349880 TTTTCACGGGCTCAACCAAAACCCAAAGTGGTTTTTCAAAGGCTCAACCACAACCTACAACAATG
1 TTTTCACGGGCTCAACCAAAACCCAAAGTGGTTTTTCAAAGGCTCAACCACAACCTACAACAATG
**
4349945 GT
66 AA
*
4349947 TTTTCACGGGATCAACCAAAACCCAA
1 TTTTCACGGGCTCAACCAAAACCCAA
4349973 CAACTAACTT
Statistics
Matches: 82, Mismatches: 9, Indels: 4
0.86 0.09 0.04
Matches are distributed among these distances:
65 2 0.02
66 1 0.01
67 79 0.96
ACGTcount: A:0.34, C:0.27, G:0.13, T:0.26
Consensus pattern (67 bp):
TTTTCACGGGCTCAACCAAAACCCAAAGTGGTTTTTCAAAGGCTCAACCACAACCTACAACAATG
AA
Found at i:4349952 original size:35 final size:34
Alignment explanation
Indices: 4349841--4349975 Score: 107
Period size: 35 Copynumber: 4.0 Consensus size: 34
4349831 TAACCCAAAG
* *
4349841 TGGTTTTTTAAATGCTCAACCACAACATCTC-ACAA
1 TGGTTTTTCAAAGGCTCAACCACAAC--CTCAACAA
** ** * *
4349876 TGAATTTTCACGGGCTCAACCAAAACC-CAA-AG
1 TGGTTTTTCAAAGGCTCAACCACAACCTCAACAA
4349908 TGGTTTTTCAAAGGCTCAACCACAACCTACAACAA
1 TGGTTTTTCAAAGGCTCAACCACAACCT-CAACAA
** * *
4349943 TGGTTTTTCACGGGATCAACCAAAACC-CAACAA
1 TGGTTTTTCAAAGGCTCAACCACAACCTCAACAA
4349976 CTAACTTTTC
Statistics
Matches: 78, Mismatches: 18, Indels: 10
0.74 0.17 0.09
Matches are distributed among these distances:
32 24 0.31
33 8 0.10
34 3 0.04
35 43 0.55
ACGTcount: A:0.36, C:0.27, G:0.13, T:0.24
Consensus pattern (34 bp):
TGGTTTTTCAAAGGCTCAACCACAACCTCAACAA
Found at i:4356783 original size:317 final size:316
Alignment explanation
Indices: 4356208--4356840 Score: 1178
Period size: 317 Copynumber: 2.0 Consensus size: 316
4356198 CAAAATTGTT
* * *
4356208 TTTTCAACTCCAATTGTAGATTTTCAAAATCTGTTTTTGAATGTTCTAATTCAATTTGCAAAAAA
1 TTTTCAACCCCAATTGTAGATTTTCAAAATCTGTTTTTGAATGTTCTAACTCAACTTGCAAAAAA
4356273 TTTCTTTGCTCAAAAACATAGTTGAAATCATGTCTTATCTTTTCCAAATCATTTTCAAGAGATGC
66 TTTCTTTGCTCAAAAACATAGTTGAAATCATGTCTTATCTTTTCCAAATCATTTTCAAGAGATGC
4356338 AGCTTTTCTTTTCAAAGTTTTACATTTTGATGCAAGCTTTTCAAACTCATCATAGAGACATTCAT
131 AGCTTTTCTTTTCAAAGTTTTACATTTTGATGCAAGCTTTTCAAACTCATCATAGAGACATTCAT
*
4356403 ATTCATCTTGCAGCTCATCAATTGAAATATCACAAGAAGTAGAAGACACCTCGGATTCATCATCT
196 ATTCATCTTGAAGCTCATCAATTGAAATATCACAAGAAGTAGAAGACACCTCGGATTCATCATCT
4356468 CTGGCCATCAAGCACAAGTTTGATCTTTCTTCCATTTTTTCATTTAATAAACTTTA
261 CTGGCCATCAAGCACAAGTTTGATCTTTCTTCCATTTTTTCATTTAATAAACTTTA
*
4356524 NTTTTCAACCCCAATTGTAGATTTTCAAAATCTGTTTTTGAATGTTCTAACTCAACTTGCAAGAA
1 -TTTTCAACCCCAATTGTAGATTTTCAAAATCTGTTTTTGAATGTTCTAACTCAACTTGCAAAAA
4356589 ATTTCTTTGCTCAAAAACATAGTTGAAATCATGTCTTATCTTTTCCAAA-CATTTTCAAGAGATG
65 ATTTCTTTGCTCAAAAACATAGTTGAAATCATGTCTTATCTTTTCCAAATCATTTTCAAGAGATG
4356653 CAGCTTTTCTTTTCAAAGTTTTACATTTTGATGCAAGCTTTTCAAACCTCATCATAGAGACATTC
130 CAGCTTTTCTTTTCAAAGTTTTACATTTTGATGCAAGCTTTTCAAA-CTCATCATAGAGACATTC
* *
4356718 ATATTCTTCTTTAAGCTCATCAATTGAAATATCACAAGAAGTAGAAGACACCTCGGATTCATCAT
194 ATATTCATCTTGAAGCTCATCAATTGAAATATCACAAGAAGTAGAAGACACCTCGGATTCATCAT
4356783 CTCTGGCCATCAAGCACAAGTTTGATCTTTCTTCCATTTTTTCATTTAATAAACTTTA
259 CTCTGGCCATCAAGCACAAGTTTGATCTTTCTTCCATTTTTTCATTTAATAAACTTTA
4356841 AATTTTATTT
Statistics
Matches: 308, Mismatches: 7, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
316 61 0.20
317 247 0.80
ACGTcount: A:0.31, C:0.19, G:0.11, T:0.39
Consensus pattern (316 bp):
TTTTCAACCCCAATTGTAGATTTTCAAAATCTGTTTTTGAATGTTCTAACTCAACTTGCAAAAAA
TTTCTTTGCTCAAAAACATAGTTGAAATCATGTCTTATCTTTTCCAAATCATTTTCAAGAGATGC
AGCTTTTCTTTTCAAAGTTTTACATTTTGATGCAAGCTTTTCAAACTCATCATAGAGACATTCAT
ATTCATCTTGAAGCTCATCAATTGAAATATCACAAGAAGTAGAAGACACCTCGGATTCATCATCT
CTGGCCATCAAGCACAAGTTTGATCTTTCTTCCATTTTTTCATTTAATAAACTTTA
Found at i:4358015 original size:32 final size:32
Alignment explanation
Indices: 4357970--4358121 Score: 142
Period size: 35 Copynumber: 4.6 Consensus size: 32
4357960 GTTTTTCTCG
* *
4357970 GGCTTAACTATAACCCAAAATGGTTTTTCAAA
1 GGCTCAACCATAACCCAAAATGGTTTTTCAAA
* **
4358002 GGCTCAACCATAACCTTTCACAATGGTTTTTCACG
1 GGCTCAACCATAACC---CAAAATGGTTTTTCAAA
* * *
4358037 GGCTCAACCAAAATCCAAAGTGGTTTTTCAAA
1 GGCTCAACCATAACCCAAAATGGTTTTTCAAA
**
4358069 GGCTCAACCATAACCTACAACAATGGTTTTTCATG
1 GGCTCAACCATAACC--CAA-AATGGTTTTTCAAA
* *
4358104 GGATCAACCAAAACCCAA
1 GGCTCAACCATAACCCAA
4358122 CAACTAACTT
Statistics
Matches: 96, Mismatches: 18, Indels: 11
0.77 0.14 0.09
Matches are distributed among these distances:
32 39 0.41
33 3 0.03
34 3 0.03
35 51 0.53
ACGTcount: A:0.35, C:0.25, G:0.14, T:0.26
Consensus pattern (32 bp):
GGCTCAACCATAACCCAAAATGGTTTTTCAAA
Found at i:4358031 original size:67 final size:67
Alignment explanation
Indices: 4357933--4358121 Score: 236
Period size: 67 Copynumber: 2.8 Consensus size: 67
4357923 TGGCTTTTAC
* * * * * * * * *
4357933 AAGGCTCAGCCAAAACCTTTTACACTAGTTTTTCTCGGGCTTAACTATAACCCAAAATGGTTTTT
1 AAGGCTCAACCATAACCTTTCACAATGGTTTTTCACGGGCTCAACCAAAACCCAAAATGGTTTTT
4357998 CA
66 CA
* *
4358000 AAGGCTCAACCATAACCTTTCACAATGGTTTTTCACGGGCTCAACCAAAATCCAAAGTGGTTTTT
1 AAGGCTCAACCATAACCTTTCACAATGGTTTTTCACGGGCTCAACCAAAACCCAAAATGGTTTTT
4358065 CA
66 CA
* * *
4358067 AAGGCTCAACCATAACC-TACAACAATGGTTTTTCATGGGATCAACCAAAACCCAA
1 AAGGCTCAACCATAACCTTTC-ACAATGGTTTTTCACGGGCTCAACCAAAACCCAA
4358122 CAACTAACTT
Statistics
Matches: 106, Mismatches: 15, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
66 2 0.02
67 104 0.98
ACGTcount: A:0.33, C:0.25, G:0.14, T:0.28
Consensus pattern (67 bp):
AAGGCTCAACCATAACCTTTCACAATGGTTTTTCACGGGCTCAACCAAAACCCAAAATGGTTTTT
CA
Found at i:4359684 original size:16 final size:18
Alignment explanation
Indices: 4359637--4359686 Score: 59
Period size: 19 Copynumber: 2.8 Consensus size: 18
4359627 GTAAATAAAC
* *
4359637 ATAAAATTAAAATAAATTA
1 ATAAAAATAAACT-AATTA
4359656 ATAAAAATAAACTAATT-
1 ATAAAAATAAACTAATTA
4359673 ATAAAAAT-AACTAA
1 ATAAAAATAAACTAA
4359687 AAATGACTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
16 6 0.21
17 8 0.28
18 4 0.14
19 11 0.38
ACGTcount: A:0.68, C:0.04, G:0.00, T:0.28
Consensus pattern (18 bp):
ATAAAAATAAACTAATTA
Found at i:4360400 original size:27 final size:27
Alignment explanation
Indices: 4360344--4360400 Score: 71
Period size: 28 Copynumber: 2.1 Consensus size: 27
4360334 ATTATTTCAA
* *
4360344 ACATAGGGGTAAAATAGTCATTTTGCC
1 ACATAGGGGTAAAATAGTAATTTTGAC
*
4360371 ACATCAGGGGTAAAATTGTAATTTT-AC
1 ACAT-AGGGGTAAAATAGTAATTTTGAC
4360398 ACA
1 ACA
4360401 CCCAACACTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
27 8 0.31
28 18 0.69
ACGTcount: A:0.37, C:0.14, G:0.19, T:0.30
Consensus pattern (27 bp):
ACATAGGGGTAAAATAGTAATTTTGAC
Found at i:4362589 original size:11 final size:12
Alignment explanation
Indices: 4362557--4362589 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
4362547 TTATAAGAAA
4362557 ATAAAATATTTT
1 ATAAAATATTTT
4362569 ATAAAATATTTT
1 ATAAAATATTTT
*
4362581 -TATAATATT
1 ATAAAATATT
4362590 CAAATAGGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 8 0.40
12 12 0.60
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
ATAAAATATTTT
Found at i:4364727 original size:27 final size:28
Alignment explanation
Indices: 4364697--4364771 Score: 95
Period size: 27 Copynumber: 2.8 Consensus size: 28
4364687 ATATTTCCTT
*
4364697 AATGAAGGAAATCCT-ATGATTTACGAA
1 AATGGAGGAAATCCTCATGATTTACGAA
*
4364724 AATGGAGGAAAT-CTCATGATTTACGGA
1 AATGGAGGAAATCCTCATGATTTACGAA
*
4364751 AATGGAGAAAATCC-CAT-ATTT
1 AATGGAGGAAATCCTCATGATTT
4364772 TCCACATTTC
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
26 6 0.14
27 36 0.84
28 1 0.02
ACGTcount: A:0.41, C:0.12, G:0.20, T:0.27
Consensus pattern (28 bp):
AATGGAGGAAATCCTCATGATTTACGAA
Found at i:4365578 original size:7 final size:7
Alignment explanation
Indices: 4365566--4365672 Score: 72
Period size: 7 Copynumber: 14.1 Consensus size: 7
4365556 ACACCTATTT
4365566 TAAAAAA
1 TAAAAAA
4365573 TAAAAAA
1 TAAAAAA
*
4365580 TAAATAA
1 TAAAAAA
*
4365587 TAACAAA
1 TAAAAAA
* *
4365594 TAATAAT
1 TAAAAAA
4365601 TAAAAAAA
1 T-AAAAAA
*
4365609 GCCAAAAAA
1 --TAAAAAA
4365618 TAAAAAAA
1 T-AAAAAA
*
4365626 TTAATAAGA
1 -TAA-AAAA
4365635 -AAAAAA
1 TAAAAAA
4365641 TAAAAAAA
1 T-AAAAAA
4365649 TAAAAAAAA
1 T--AAAAAA
4365658 TAAAAAA
1 TAAAAAA
4365665 TAAAAAA
1 TAAAAAA
4365672 T
1 T
4365673 GATGAATGAA
Statistics
Matches: 80, Mismatches: 11, Indels: 18
0.73 0.10 0.17
Matches are distributed among these distances:
6 3 0.04
7 40 0.50
8 19 0.24
9 18 0.22
ACGTcount: A:0.79, C:0.03, G:0.02, T:0.17
Consensus pattern (7 bp):
TAAAAAA
Found at i:4365623 original size:8 final size:8
Alignment explanation
Indices: 4365612--4365671 Score: 70
Period size: 8 Copynumber: 7.6 Consensus size: 8
4365602 AAAAAAAGCC
4365612 AAAAAATA
1 AAAAAATA
4365620 AAAAAAT-
1 AAAAAATA
* * *
4365627 TAATAAGA
1 AAAAAATA
4365635 AAAAAATA
1 AAAAAATA
4365643 AAAAAATA
1 AAAAAATA
4365651 AAAAAA-A
1 AAAAAATA
4365658 TAAAAAATA
1 -AAAAAATA
4365667 AAAAA
1 AAAAA
4365672 TGATGAATGA
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
7 5 0.12
8 37 0.86
9 1 0.02
ACGTcount: A:0.85, C:0.00, G:0.02, T:0.13
Consensus pattern (8 bp):
AAAAAATA
Found at i:4365642 original size:23 final size:24
Alignment explanation
Indices: 4365567--4365671 Score: 63
Period size: 23 Copynumber: 4.2 Consensus size: 24
4365557 CACCTATTTT
*
4365567 AAAAAATAAAAAATAAATAATAACAA
1 AAAAAATAAAAAATAAA-AA-AATAA
*
4365593 ATAATAATTAAAAAA-AGCCAAAAAAT-A
1 A-AA-AAATAAAAAATA---AAAAAATAA
* * *
4365620 AAAAAATTAATAAGAAAAAAAT-A
1 AAAAAATAAAAAATAAAAAAATAA
*
4365643 AAAAAATAAAAAAAATAAAAAATAA
1 AAAAAATAAAAAATA-AAAAAATAA
4365668 AAAA
1 AAAA
4365672 TGATGAATGA
Statistics
Matches: 63, Mismatches: 8, Indels: 17
0.72 0.09 0.19
Matches are distributed among these distances:
23 20 0.32
24 7 0.11
25 12 0.19
26 4 0.06
27 5 0.08
28 11 0.17
29 2 0.03
30 2 0.03
ACGTcount: A:0.80, C:0.03, G:0.02, T:0.15
Consensus pattern (24 bp):
AAAAAATAAAAAATAAAAAAATAA
Found at i:4365654 original size:17 final size:16
Alignment explanation
Indices: 4365566--4365671 Score: 72
Period size: 16 Copynumber: 6.4 Consensus size: 16
4365556 ACACCTATTT
*
4365566 TAAAAAATAAAAAATAAA
1 TAAAAAA-AATAAA-AAA
* * *
4365584 TAATAACAAATAATAAT
1 TAA-AAAAAATAAAAAA
**
4365601 TAAAAAAAGCCAAAAAA
1 TAAAAAAA-ATAAAAAA
* *
4365618 T-AAAAAAATTAATAA
1 TAAAAAAAATAAAAAA
*
4365633 -GAAAAAAATAAAAAAA
1 TAAAAAAAAT-AAAAAA
4365649 TAAAAAAAATAAAAAA
1 TAAAAAAAATAAAAAA
4365665 TAAAAAA
1 TAAAAAA
4365672 TGATGAATGA
Statistics
Matches: 67, Mismatches: 16, Indels: 12
0.71 0.17 0.13
Matches are distributed among these distances:
15 12 0.18
16 27 0.40
17 18 0.27
18 7 0.10
19 3 0.04
ACGTcount: A:0.79, C:0.03, G:0.02, T:0.16
Consensus pattern (16 bp):
TAAAAAAAATAAAAAA
Found at i:4365671 original size:9 final size:9
Alignment explanation
Indices: 4365634--4365664 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
4365624 AATTAATAAG
4365634 AAAAAAAT-
1 AAAAAAATA
4365642 AAAAAAATA
1 AAAAAAATA
4365651 AAAAAAATA
1 AAAAAAATA
4365660 AAAAA
1 AAAAA
4365665 TAAAAAATGA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 8 0.36
9 14 0.64
ACGTcount: A:0.90, C:0.00, G:0.00, T:0.10
Consensus pattern (9 bp):
AAAAAAATA
Found at i:4365903 original size:1 final size:1
Alignment explanation
Indices: 4365899--4365927 Score: 58
Period size: 1 Copynumber: 29.0 Consensus size: 1
4365889 TAAAAAAAAA
4365899 GGGGGGGGGGGGGGGGGGGGGGGGGGGGG
1 GGGGGGGGGGGGGGGGGGGGGGGGGGGGG
4365928 ATGGGGNNNN
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 28 1.00
ACGTcount: A:0.00, C:0.00, G:1.00, T:0.00
Consensus pattern (1 bp):
G
Found at i:4374538 original size:26 final size:26
Alignment explanation
Indices: 4374509--4374561 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
4374499 TGACACCACC
4374509 TGCTTATTACAATGTGCCACCCCCAA
1 TGCTTATTACAATGTGCCACCCCCAA
4374535 TGCTTATTACAATGTGCCACCCCCAA
1 TGCTTATTACAATGTGCCACCCCCAA
4374561 T
1 T
4374562 AGGCCATCAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.26, C:0.34, G:0.11, T:0.28
Consensus pattern (26 bp):
TGCTTATTACAATGTGCCACCCCCAA
Found at i:4382763 original size:62 final size:62
Alignment explanation
Indices: 4382476--4383150 Score: 837
Period size: 62 Copynumber: 10.9 Consensus size: 62
4382466 CATTTGTGAA
* * * * *
4382476 TTAAATCGAACCT-ATTTGTGAGATGGGTCGAGCCTAGGTCCAGTCTATGAATTTTAATTTTTT
1 TTAAATCGAACCTGTTTTGTGAGATAGGTCGAGCCTAGGTCAAGTCTAGGAATTTCAA--TTTT
*
4382539 CTTAAATCGAACCTGTTTTGTGAGATAAGTCGAGCCTAGG-CAAGTCTAGGAATTTCAATTTTTT
1 -TTAAATCGAACCTGTTTTGTGAGATAGGTCGAGCCTAGGTCAAGTCTAGGAATTTCAA--TTTT
**
4382603 TTAAATTAAACCTGTTTTGTGAGATAGGTCGAGCCTAGGTCAAGTCTAGGAATTTCAATTTTTT
1 TTAAATCGAACCTGTTTTGTGAGATAGGTCGAGCCTAGGTCAAGTCTAGGAATTTCAA--TTTT
* * * * * *
4382667 TTAAATCGAATCTATTTTCTAAGATAGGTTGAGCCTAGGTCAAGTCTAGGAATTTCAATTCT
1 TTAAATCGAACCTGTTTTGTGAGATAGGTCGAGCCTAGGTCAAGTCTAGGAATTTCAATTTT
*
4382729 TTAAATCGAACTTGTTTTGTGAGATAGGTCGAGCCTAGGTCAAGTCTAGGAATTTCAATTTT
1 TTAAATCGAACCTGTTTTGTGAGATAGGTCGAGCCTAGGTCAAGTCTAGGAATTTCAATTTT
*
4382791 TTAAATCGAACCTGTTTTCG-GAGATAGGTCGAGCCTAGGTCAAGTCTAGGAATTTCAATTCT
1 TTAAATCGAACCTGTTTT-GTGAGATAGGTCGAGCCTAGGTCAAGTCTAGGAATTTCAATTTT
* * * * *
4382853 TTAAATCGAAACTGTTTTGTGAGATAGGTCCAACGTAGGACAAGTCTAGGAATTTCAATTTTT
1 TTAAATCGAACCTGTTTTGTGAGATAGGTCGAGCCTAGGTCAAGTCTAGGAATTTCAA-TTTT
* * * * *
4382916 TTAAATTGAACTTGTTTTGTGAGATGGGTCGAGCTTAGGTCAAGTCTAGGAATTTTAATTTT
1 TTAAATCGAACCTGTTTTGTGAGATAGGTCGAGCCTAGGTCAAGTCTAGGAATTTCAATTTT
* * * * * *
4382978 TT-TATCGAACATGTTTTGTGAGATAGGTCGAGTCTAGGTCAAGTCTAAGAATTTCAACTCT
1 TTAAATCGAACCTGTTTTGTGAGATAGGTCGAGCCTAGGTCAAGTCTAGGAATTTCAATTTT
* * *
4383039 TTAAGTCGAACCTG--TTGTGAGGTAGGTCGAGCCTAGATCAAGTCTAGGAATTTCAA-TTT
1 TTAAATCGAACCTGTTTTGTGAGATAGGTCGAGCCTAGGTCAAGTCTAGGAATTTCAATTTT
* * * * * *
4383098 TTAAGTCGAACATG-TTT-TGAGATAGGTCGAGTCTAGATCAAGTTTAGAAATTT
1 TTAAATCGAACCTGTTTTGTGAGATAGGTCGAGCCTAGGTCAAGTCTAGGAATTT
4383151 TCGTTTTTTT
Statistics
Matches: 540, Mismatches: 64, Indels: 19
0.87 0.10 0.03
Matches are distributed among these distances:
59 47 0.09
60 40 0.07
61 52 0.10
62 181 0.34
63 89 0.16
64 109 0.20
65 22 0.04
ACGTcount: A:0.28, C:0.13, G:0.22, T:0.37
Consensus pattern (62 bp):
TTAAATCGAACCTGTTTTGTGAGATAGGTCGAGCCTAGGTCAAGTCTAGGAATTTCAATTTT
Found at i:4383436 original size:30 final size:29
Alignment explanation
Indices: 4383401--4383487 Score: 88
Period size: 30 Copynumber: 2.9 Consensus size: 29
4383391 CATCTATTTC
4383401 AAAAAATAAAAAATAATAAAATATAATTAA-
1 AAAAAATAAAAAATAA-AAAATATAA-TAAG
*
4383431 AAAAAAGCCAAAAAATAAAAAA-ATTAATAAG
1 AAAAAA--TAAAAAATAAAAAATA-TAATAAG
*
4383462 AAATAAATAAAAAATAAAAAAAATAA
1 AAA-AAATAAAAAATAAAAAATATAA
4383488 AAAAATGATG
Statistics
Matches: 49, Mismatches: 2, Indels: 12
0.78 0.03 0.19
Matches are distributed among these distances:
30 26 0.53
31 11 0.22
32 12 0.24
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.17
Consensus pattern (29 bp):
AAAAAATAAAAAATAAAAAATATAATAAG
Found at i:4383474 original size:39 final size:40
Alignment explanation
Indices: 4383400--4383493 Score: 108
Period size: 39 Copynumber: 2.4 Consensus size: 40
4383390 ACATCTATTT
*
4383400 CAAAAAAT-AAAAAA-TAATAAAATATAATTAAAAAAAAGC
1 CAAAAAATAAAAAAATTAATAAAATATAA-TAAAAAAAAGA
*
4383439 CAAAAAATAAAAAAATTAATAAGAA-ATAAATAAAAAATA-A
1 CAAAAAATAAAAAAATTAATAA-AATAT-AATAAAAAAAAGA
4383479 -AAAAAATAAAAAAAT
1 CAAAAAATAAAAAAAT
4383494 GATGAATGAA
Statistics
Matches: 49, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
39 23 0.47
40 6 0.12
41 16 0.33
42 4 0.08
ACGTcount: A:0.78, C:0.03, G:0.02, T:0.17
Consensus pattern (40 bp):
CAAAAAATAAAAAAATTAATAAAATATAATAAAAAAAAGA
Found at i:4383915 original size:18 final size:18
Alignment explanation
Indices: 4383881--4383928 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
4383871 ACCCTAGCCA
*
4383881 CAATAAAAAAATCAAAAT
1 CAATAAAAAAATAAAAAT
* *
4383899 CAATCAAAAAATAAAAAAG
1 CAATAAAAAAAT-AAAAAT
4383918 C-ATAAAAAAAT
1 CAATAAAAAAAT
4383929 TAGTGTTTTA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
18 20 0.80
19 5 0.20
ACGTcount: A:0.73, C:0.10, G:0.02, T:0.15
Consensus pattern (18 bp):
CAATAAAAAAATAAAAAT
Found at i:4384597 original size:23 final size:23
Alignment explanation
Indices: 4384571--4384616 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
4384561 GATACTTGTA
* * *
4384571 AATATAATATATATATATAAAAT
1 AATATAATACAAATATAAAAAAT
*
4384594 AATATGATACAAATATAAAAAAT
1 AATATAATACAAATATAAAAAAT
4384617 TATAAGAAAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (23 bp):
AATATAATACAAATATAAAAAAT
Found at i:4385022 original size:15 final size:15
Alignment explanation
Indices: 4384996--4385034 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
4384986 AATAGAAAAC
4384996 AAAA-AAAT-ATAAA
1 AAAATAAATAATAAA
*
4385009 AAAATAAATAATAAT
1 AAAATAAATAATAAA
4385024 AAAATAAATAA
1 AAAATAAATAA
4385035 ATAATCCATG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 4 0.17
14 4 0.17
15 15 0.65
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (15 bp):
AAAATAAATAATAAA
Found at i:4385034 original size:19 final size:18
Alignment explanation
Indices: 4385004--4385039 Score: 63
Period size: 19 Copynumber: 1.9 Consensus size: 18
4384994 ACAAAAAAAT
4385004 ATAAAAAAATAAATAATA
1 ATAAAAAAATAAATAATA
4385022 ATAAAATAAATAAATAAT
1 ATAAAA-AAATAAATAAT
4385040 CCATGAAAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (18 bp):
ATAAAAAAATAAATAATA
Found at i:4387390 original size:21 final size:21
Alignment explanation
Indices: 4387361--4387400 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
4387351 AAGACTGGGT
* *
4387361 TTTAGATAATATATTTAATAC
1 TTTAAATAATATATCTAATAC
4387382 TTTAAATAATATATCTAAT
1 TTTAAATAATATATCTAAT
4387401 GCTGTGACTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.45, C:0.05, G:0.03, T:0.47
Consensus pattern (21 bp):
TTTAAATAATATATCTAATAC
Found at i:4389205 original size:31 final size:30
Alignment explanation
Indices: 4389162--4389270 Score: 130
Period size: 31 Copynumber: 3.5 Consensus size: 30
4389152 CTGTCAGCGT
* * **
4389162 TGGCGTGTTACAACATTTGACTTGATACACA
1 TGGCATGTTACAACATTTTACTT-ATATGCA
*
4389193 TGGCATGTTACAACATTTTATGTTATATGCA
1 TGGCATGTTACAACATTTTA-CTTATATGCA
4389224 TGG-AGTGTTACAACATTTTACGTTATATGCA
1 TGGCA-TGTTACAACATTTTAC-TTATATGCA
4389255 TGGCATGTTACAACAT
1 TGGCATGTTACAACAT
4389271 GATTGACAAA
Statistics
Matches: 68, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
30 1 0.01
31 64 0.94
32 3 0.04
ACGTcount: A:0.29, C:0.16, G:0.18, T:0.37
Consensus pattern (30 bp):
TGGCATGTTACAACATTTTACTTATATGCA
Found at i:4389995 original size:21 final size:21
Alignment explanation
Indices: 4389950--4389995 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
4389940 TGAGACACTT
* * *
4389950 GAGGGTGACACTGCGACGTTG
1 GAGGGTGACACTACGACGCTC
4389971 GAGGGTGACACTACGACGCTC
1 GAGGGTGACACTACGACGCTC
4389992 GAGG
1 GAGG
4389996 ATCATACTAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.22, C:0.22, G:0.41, T:0.15
Consensus pattern (21 bp):
GAGGGTGACACTACGACGCTC
Found at i:4393341 original size:118 final size:116
Alignment explanation
Indices: 4393133--4393497 Score: 523
Period size: 118 Copynumber: 3.1 Consensus size: 116
4393123 ACATCTTGTG
*
4393133 GTGACACGCTGAGTGCATGCAGATTTTTGTGGTGACACGATGACTTCTTGCAGTATTGTGGGGTG
1 GTGACACGCTGAGTGCATGCAAATTTTTGTGGTGACACGATGACTTCTTGCAGTATTGTGGGGTG
* * * *
4393198 ACATGGCACGCCCCATCTTGTGGTGACACGCTGAGTAGAAGTAGATAGTTGGC
66 ACATGGCATGCCCCA-CTTGTGGTGACACGTTGAGT-GAAGCAGATACTTGGC
* * *
4393251 GTGACACGCTGAGTGCATGCAAATTTTTATGGTGACACGCTGACTTCTTGCAATATTGTGGGGTG
1 GTGACACGCTGAGTGCATGCAAATTTTTGTGGTGACACGATGACTTCTTGCAGTATTGTGGGGTG
* *
4393316 ACATGACATGCCCCACCTTGTGGTGACATGTTGAGTGGAAGCAGATACTTGGC
66 ACATGGCATGCCCCA-CTTGTGGTGACACGTTGAGT-GAAGCAGATACTTGGC
* * *
4393369 GTGACATGCTGAGTGCATGCAAATTTTTGTGGTGACACGTTGACTTCTTGTAGTATTGTGGGGTG
1 GTGACACGCTGAGTGCATGCAAATTTTTGTGGTGACACGATGACTTCTTGCAGTATTGTGGGGTG
* * * *
4393434 ACACGGCATGCCCCAATTATGGTGACACGTTGAGTGAAAGCAGATACTTGGT
66 ACATGGCATGCCCCACTTGTGGTGACACGTTGAGTG-AAGCAGATACTTGGC
*
4393486 GTTACACGCTGA
1 GTGACACGCTGA
4393498 CTTGTTTCAG
Statistics
Matches: 221, Mismatches: 25, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
116 1 0.00
117 41 0.19
118 179 0.81
ACGTcount: A:0.22, C:0.18, G:0.30, T:0.29
Consensus pattern (116 bp):
GTGACACGCTGAGTGCATGCAAATTTTTGTGGTGACACGATGACTTCTTGCAGTATTGTGGGGTG
ACATGGCATGCCCCACTTGTGGTGACACGTTGAGTGAAGCAGATACTTGGC
Found at i:4393404 original size:31 final size:31
Alignment explanation
Indices: 4393332--4393405 Score: 78
Period size: 31 Copynumber: 2.4 Consensus size: 31
4393322 CATGCCCCAC
* * *
4393332 CTTGTGGTGACATGTTGAGTGGAAGCAGATA
1 CTTGTGGTGACATGCTGAGTGCAAGCAAATA
* *
4393363 CTTG-GCGTGACATGCTGAGTGCATGCAAATT
1 CTTGTG-GTGACATGCTGAGTGCAAGCAAATA
*
4393394 TTTGTGGTGACA
1 CTTGTGGTGACA
4393406 CGTTGACTTC
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
30 1 0.03
31 33 0.94
32 1 0.03
ACGTcount: A:0.23, C:0.14, G:0.32, T:0.31
Consensus pattern (31 bp):
CTTGTGGTGACATGCTGAGTGCAAGCAAATA
Found at i:4397406 original size:31 final size:31
Alignment explanation
Indices: 4397363--4397436 Score: 105
Period size: 31 Copynumber: 2.4 Consensus size: 31
4397353 GTTAACCCAT
4397363 AATATTGTAACACGCCATGCATAT-AACGTAA
1 AATATTGTAACACGCCATGCATATCAA-GTAA
* * *
4397394 AATATTGCAACACGCCATGCGTATCAAGTCA
1 AATATTGTAACACGCCATGCATATCAAGTAA
4397425 AATATTGTAACA
1 AATATTGTAACA
4397437 TGCTAATGTT
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
31 36 0.95
32 2 0.05
ACGTcount: A:0.41, C:0.20, G:0.14, T:0.26
Consensus pattern (31 bp):
AATATTGTAACACGCCATGCATATCAAGTAA
Found at i:4398253 original size:94 final size:93
Alignment explanation
Indices: 4398122--4398518 Score: 422
Period size: 94 Copynumber: 4.2 Consensus size: 93
4398112 TGTCATGGAT
* * * * * * * *
4398122 CTCCATGGAGTCTGACAAACTCTTAATCCTGCCATGTCACAAATTCCCTTCATGGCATCTCACAA
1 CTCCATGGCGTGTCACAAACTCTGAATCCTGACATGTCACAGATTCCCTCCATGGCATGTCACAA
* *
4398187 AGTCTTAACCCTGTCGTGTCACAAATTCC
66 ACTCTGAACCCTG-CGTGTCACAAATTCC
* * * * * *
4398216 CTGCATGGCGTGTCACAAACTCTGAATGCTGACATGTCATAGATTCCCTTCATGTCGTGTCACAA
1 CTCCATGGCGTGTCACAAACTCTGAATCCTGACATGTCACAGATTCCCTCCATGGCATGTCACAA
* *
4398281 ACTCTGAACACTAGCGTGTCACAGATTCC
66 ACTCTGAACCCT-GCGTGTCACAAATTCC
* * * * * *
4398310 CTCCATGGCATGTCATAAACTCTGAA-CACTAACTTGTCACAGATTCCCTCCATGTCGTGTCACA
1 CTCCATGGCGTGTCACAAACTCTGAATC-CTGACATGTCACAGATTCCCTCCATGGCATGTCACA
** *
4398374 AACTCTGAATGCTGGCATGTCACAAATTCC
65 AACTCTGAACCCT-GCGTGTCACAAATTCC
* *
4398404 CTCCATGGCGTGTCACAAACTTTGAA-CCTTG-CAGTGTCACAGATTCCCTCCATGGCATGTCAT
1 CTCCATGGCGTGTCACAAACTCTGAATCC-TGACA-TGTCACAGATTCCCTCCATGGCATGTCAC
* *
4398467 AAACTTTGAACCCTGCAGTGTCACAGATTCC
64 AAACTCTGAACCCTGC-GTGTCACAAATTCC
*
4398498 CTCCATGGTGTGTCACAAACT
1 CTCCATGGCGTGTCACAAACT
4398519 TTAAACCCTG
Statistics
Matches: 255, Mismatches: 43, Indels: 10
0.83 0.14 0.03
Matches are distributed among these distances:
93 4 0.02
94 250 0.98
95 1 0.00
ACGTcount: A:0.26, C:0.30, G:0.16, T:0.28
Consensus pattern (93 bp):
CTCCATGGCGTGTCACAAACTCTGAATCCTGACATGTCACAGATTCCCTCCATGGCATGTCACAA
ACTCTGAACCCTGCGTGTCACAAATTCC
Found at i:4398309 original size:141 final size:140
Alignment explanation
Indices: 4398122--4398518 Score: 487
Period size: 141 Copynumber: 2.8 Consensus size: 140
4398112 TGTCATGGAT
* * * * * * * *
4398122 CTCCATGGAGTCTGACAAACTCTTAATCCT-GCCA-TGTCACAAATTCCCTTCATGGCATCTCAC
1 CTCCATGGCGTGTCACAAACTCTGAA-CCTAG-CAGTGTCACAGATTCCCTCCATGGCATGTCAT
* * *
4398185 AAAGTCTTAACCCTGTCGTGTCACAAATTCCCTGCATGGCGTGTCACAAACTCTGAATGCTGACA
64 AAACTCTTAACCCTG-CGTGTCACAGATTCCCTCCATGGCGTGTCACAAACTCTGAATGCTGACA
* *
4398250 TGTCATAGATTCC
128 TGTCACAAATTCC
* *
4398263 CTTCATGTCGTGTCACAAACTCTGAACACTAGC-GTGTCACAGATTCCCTCCATGGCATGTCATA
1 CTCCATGGCGTGTCACAAACTCTGAAC-CTAGCAGTGTCACAGATTCCCTCCATGGCATGTCATA
* * * * * *
4398327 AACTCTGAACACTAACTTGTCACAGATTCCCTCCATGTCGTGTCACAAACTCTGAATGCTGGCAT
65 AACTCTTAACCCT-GCGTGTCACAGATTCCCTCCATGGCGTGTCACAAACTCTGAATGCTGACAT
4398392 GTCACAAATTCC
129 GTCACAAATTCC
* *
4398404 CTCCATGGCGTGTCACAAACTTTGAACCTTGCAGTGTCACAGATTCCCTCCATGGCATGTCATAA
1 CTCCATGGCGTGTCACAAACTCTGAACCTAGCAGTGTCACAGATTCCCTCCATGGCATGTCATAA
*
4398469 ACT-TTGAACCCTGCAGTGTCACAGATTCCCTCCATGGTGTGTCACAAACT
66 ACTCTT-AACCCTGC-GTGTCACAGATTCCCTCCATGGCGTGTCACAAACT
4398519 TTAAACCCTG
Statistics
Matches: 218, Mismatches: 31, Indels: 14
0.83 0.12 0.05
Matches are distributed among these distances:
140 7 0.03
141 210 0.96
142 1 0.00
ACGTcount: A:0.26, C:0.30, G:0.16, T:0.28
Consensus pattern (140 bp):
CTCCATGGCGTGTCACAAACTCTGAACCTAGCAGTGTCACAGATTCCCTCCATGGCATGTCATAA
ACTCTTAACCCTGCGTGTCACAGATTCCCTCCATGGCGTGTCACAAACTCTGAATGCTGACATGT
CACAAATTCC
Found at i:4398561 original size:47 final size:47
Alignment explanation
Indices: 4398122--4398545 Score: 378
Period size: 47 Copynumber: 9.0 Consensus size: 47
4398112 TGTCATGGAT
* * * * *
4398122 CTCCATGGAGTCTGACAAACTCTT-AATCCTGCCA-TGTCACAAATTCC
1 CTCCATGGCGTGTCACAAACT-TTGAACCCTG-CAGTGTCACAGATTCC
* * * * *
4398169 CTTCATGGCATCTCACAAAGTCTT-AACCCTGTC-GTGTCACAAATTCC
1 CTCCATGGCGTGTCACAAACT-TTGAACCCTG-CAGTGTCACAGATTCC
* * ** *
4398216 CTGCATGGCGTGTCACAAACTCTGAATGCTGACA-TGTCATAGATTCC
1 CTCCATGGCGTGTCACAAACTTTGAACCCTG-CAGTGTCACAGATTCC
* * * *
4398263 CTTCATGTCGTGTCACAAACTCTGAACACTAGC-GTGTCACAGATTCC
1 CTCCATGGCGTGTCACAAACTTTGAACCCT-GCAGTGTCACAGATTCC
* * * * * *
4398310 CTCCATGGCATGTCATAAACTCTGAACACT-AACTTGTCACAGATTCC
1 CTCCATGGCGTGTCACAAACTTTGAACCCTGCA-GTGTCACAGATTCC
* * ** *
4398357 CTCCATGTCGTGTCACAAACTCTGAATGCTGGCA-TGTCACAAATTCC
1 CTCCATGGCGTGTCACAAACTTTGAACCCT-GCAGTGTCACAGATTCC
*
4398404 CTCCATGGCGTGTCACAAACTTTGAACCTTGCAGTGTCACAGATTCC
1 CTCCATGGCGTGTCACAAACTTTGAACCCTGCAGTGTCACAGATTCC
* *
4398451 CTCCATGGCATGTCATAAACTTTGAACCCTGCAGTGTCACAGATTCC
1 CTCCATGGCGTGTCACAAACTTTGAACCCTGCAGTGTCACAGATTCC
* * ** *
4398498 CTCCATGGTGTGTCACAAACTTTAAACCCTGTTGTGTCACACATTCC
1 CTCCATGGCGTGTCACAAACTTTGAACCCTGCAGTGTCACAGATTCC
4398545 C
1 C
4398546 AACATGTCGT
Statistics
Matches: 316, Mismatches: 51, Indels: 20
0.82 0.13 0.05
Matches are distributed among these distances:
46 4 0.01
47 310 0.98
48 1 0.00
49 1 0.00
ACGTcount: A:0.26, C:0.30, G:0.16, T:0.28
Consensus pattern (47 bp):
CTCCATGGCGTGTCACAAACTTTGAACCCTGCAGTGTCACAGATTCC
Found at i:4399170 original size:7 final size:7
Alignment explanation
Indices: 4399150--4399184 Score: 56
Period size: 7 Copynumber: 5.3 Consensus size: 7
4399140 ATAATAATGA
4399150 AATAAA-
1 AATAAAT
4399156 AA-AAAT
1 AATAAAT
4399162 AATAAAT
1 AATAAAT
4399169 AATAAAT
1 AATAAAT
4399176 AATAAAT
1 AATAAAT
4399183 AA
1 AA
4399185 ATTTAAAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
5 3 0.11
6 4 0.15
7 20 0.74
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (7 bp):
AATAAAT
Found at i:4399202 original size:11 final size:11
Alignment explanation
Indices: 4399137--4399203 Score: 54
Period size: 11 Copynumber: 6.4 Consensus size: 11
4399127 CTATTTAAAA
4399137 AAAATAATAAT
1 AAAATAATAAT
*
4399148 GAAATAA-AA-
1 AAAATAATAAT
4399157 AAAATAATAA-
1 AAAATAATAAT
*
4399167 ATAATAAATAAT
1 AAAAT-AATAAT
*
4399179 -AAATAA-ATTT
1 AAAATAATA-AT
4399189 AAAATAATAAT
1 AAAATAATAAT
4399200 AAAA
1 AAAA
4399204 AACAAAAAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 12
0.71 0.10 0.19
Matches are distributed among these distances:
9 7 0.16
10 11 0.25
11 25 0.57
12 1 0.02
ACGTcount: A:0.73, C:0.00, G:0.01, T:0.25
Consensus pattern (11 bp):
AAAATAATAAT
Found at i:4399562 original size:10 final size:10
Alignment explanation
Indices: 4399547--4399576 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
4399537 CAATAGCCAT
4399547 AAAAAATATA
1 AAAAAATATA
*
4399557 AAAAAATAAA
1 AAAAAATATA
4399567 AAAAAATATA
1 AAAAAATATA
4399577 CACAATGGAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (10 bp):
AAAAAATATA
Found at i:4399653 original size:32 final size:31
Alignment explanation
Indices: 4399612--4399672 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 31
4399602 GAGTAATTTT
4399612 GAGATTTTATTTTTAT-TTTGGTTTCTAGGGG
1 GAGATTTTATTTTT-TGTTTGGTTTCTAGGGG
*
4399643 GAGATCTTTATTTTTTGTTTGGTTTTTAGG
1 GAGAT-TTTATTTTTTGTTTGGTTTCTAGG
4399673 TTGAAGTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
31 6 0.22
32 21 0.78
ACGTcount: A:0.15, C:0.03, G:0.25, T:0.57
Consensus pattern (31 bp):
GAGATTTTATTTTTTGTTTGGTTTCTAGGGG
Found at i:4399854 original size:25 final size:25
Alignment explanation
Indices: 4399816--4399875 Score: 77
Period size: 25 Copynumber: 2.4 Consensus size: 25
4399806 AGACAAAAAG
*
4399816 AAAGAAAGAGGAAGAAGAAGGAGAA-A
1 AAAGAAA-AAGAAGAA-AAGGAGAAGA
*
4399842 AAAGAAAAAGAAGAAAGGGAGAAGA
1 AAAGAAAAAGAAGAAAAGGAGAAGA
4399867 AAAGAAAAA
1 AAAGAAAAA
4399876 ATAGCACCAA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
24 7 0.23
25 17 0.55
26 7 0.23
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (25 bp):
AAAGAAAAAGAAGAAAAGGAGAAGA
Found at i:4400212 original size:5 final size:5
Alignment explanation
Indices: 4400189--4400225 Score: 51
Period size: 5 Copynumber: 7.6 Consensus size: 5
4400179 AAAAGTTAAT
4400189 AAAT- AAAT- AAATGA AAATA AAATA AAATA AAATA AAA
1 AAATA AAATA AAAT-A AAATA AAATA AAATA AAATA AAA
4400226 AGAATAGGAC
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
4 8 0.26
5 19 0.61
6 4 0.13
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.19
Consensus pattern (5 bp):
AAATA
Found at i:4400492 original size:3 final size:3
Alignment explanation
Indices: 4400484--4400523 Score: 53
Period size: 3 Copynumber: 13.3 Consensus size: 3
4400474 AAGTAATGAG
* * *
4400484 AAT AAT AAT TAT ATT AAC AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
4400524 CAAAGAGGAA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:4401270 original size:17 final size:17
Alignment explanation
Indices: 4401248--4401282 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
4401238 ATAAAAGATT
4401248 AAAATAAAAAAATAATA
1 AAAATAAAAAAATAATA
*
4401265 AAAATAAATAAATAATA
1 AAAATAAAAAAATAATA
4401282 A
1 A
4401283 TTAAGAAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (17 bp):
AAAATAAAAAAATAATA
Found at i:4403137 original size:2 final size:2
Alignment explanation
Indices: 4403130--4403158 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
4403120 CNATATTAAC
4403130 AT AT AT AT AT AT AT A- AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4403159 TATTGACATT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4403150 original size:13 final size:13
Alignment explanation
Indices: 4403132--4403157 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4403122 ATATTAACAT
4403132 ATATATATATATA
1 ATATATATATATA
4403145 ATATATATATATA
1 ATATATATATATA
4403158 TTATTGACAT
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:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
ATATATATATATA
Found at i:4403150 original size:15 final size:15
Alignment explanation
Indices: 4403130--4403158 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
4403120 CNATATTAAC
4403130 ATATATATATATATA
1 ATATATATATATATA
4403145 ATATATATATATAT
1 ATATATATATATAT
4403159 TATTGACATT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATATATATATATATA
Found at i:4403942 original size:62 final size:65
Alignment explanation
Indices: 4403842--4403966 Score: 166
Period size: 62 Copynumber: 2.0 Consensus size: 65
4403832 GAGGACGGCA
** * * *
4403842 AATCATTTTATTTTATTTTTTTGTTCCATTTGCGTCCAAGGAAAAGACAAGAAGAATAGGAAGCG
1 AATCATTTTAGGTTATTTTTTTGTTCCATTTGCATCCAACGAAAAGACAAGAACAATAGGAAGCG
* *
4403907 AATCATTTTAGGTT-TTTTTTT-TT-CATTTGTATCCAACGAAAGGACAAGAACAATAGGAAG
1 AATCATTTTAGGTTATTTTTTTGTTCCATTTGCATCCAACGAAAAGACAAGAACAATAGGAAG
4403967 ATATGGACAG
Statistics
Matches: 53, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
62 32 0.60
63 2 0.04
64 7 0.13
65 12 0.23
ACGTcount: A:0.34, C:0.12, G:0.18, T:0.36
Consensus pattern (65 bp):
AATCATTTTAGGTTATTTTTTTGTTCCATTTGCATCCAACGAAAAGACAAGAACAATAGGAAGCG
Found at i:4411114 original size:37 final size:37
Alignment explanation
Indices: 4411012--4411131 Score: 163
Period size: 37 Copynumber: 3.3 Consensus size: 37
4411002 TGATGATGGG
* * * *
4411012 TGATGATGTTGAGGTGGGCAAGTAGGGAGTGCACACA
1 TGATGATGATGAAGTGTGCGAGTAGGGAGTGCACACA
*
4411049 TGATGATGAT--AGTGTGTGAGTAGGGAGTGCACACA
1 TGATGATGATGAAGTGTGCGAGTAGGGAGTGCACACA
* *
4411084 TGATGATGATGAAGTGTGCGAGTAGAGAGTGCACAAA
1 TGATGATGATGAAGTGTGCGAGTAGGGAGTGCACACA
4411121 TGATGATGATG
1 TGATGATGATG
4411132 TGTGTGTGTG
Statistics
Matches: 73, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
35 31 0.42
37 42 0.58
ACGTcount: A:0.30, C:0.08, G:0.38, T:0.24
Consensus pattern (37 bp):
TGATGATGATGAAGTGTGCGAGTAGGGAGTGCACACA
Found at i:4418762 original size:40 final size:37
Alignment explanation
Indices: 4418672--4418777 Score: 122
Period size: 38 Copynumber: 2.7 Consensus size: 37
4418662 ATAGTGCCCG
* *
4418672 TGTGCACGATGTGGTGGGATGTACACGATGGCACTGAT
1 TGTGCACGATGTGG-GGGATGTACATGATGGCACGGAT
* * *
4418710 TGTGCACAATGTGGGGGAATGCACATGATGGCACCGGCT
1 TGTGCACGATGTGGGGG-ATGTACATGATGGCA-CGGAT
4418749 ATGTGCACGATGTGGGGGGATGTACATGA
1 -TGTGCACGATGT-GGGGGATGTACATGA
4418778 GCCGGGTGTG
Statistics
Matches: 57, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
37 3 0.05
38 26 0.46
39 3 0.05
40 20 0.35
41 5 0.09
ACGTcount: A:0.23, C:0.16, G:0.38, T:0.24
Consensus pattern (37 bp):
TGTGCACGATGTGGGGGATGTACATGATGGCACGGAT
Found at i:4426778 original size:18 final size:18
Alignment explanation
Indices: 4426755--4426794 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
4426745 TGTCGGTCAC
4426755 CTTTCTTTCCTTCTTCTT
1 CTTTCTTTCCTTCTTCTT
*
4426773 CTTTCTTTTCTTCTTCTT
1 CTTTCTTTCCTTCTTCTT
4426791 CTTT
1 CTTT
4426795 GGTCGGCCAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (18 bp):
CTTTCTTTCCTTCTTCTT
Found at i:4426785 original size:15 final size:14
Alignment explanation
Indices: 4426765--4426794 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
4426755 CTTTCTTTCC
4426765 TTCTTCTTCTTTCTT
1 TTCTTCTTC-TTCTT
4426780 TTCTTCTTCTTCTT
1 TTCTTCTTCTTCTT
4426794 T
1 T
4426795 GGTCGGCCAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (14 bp):
TTCTTCTTCTTCTT
Found at i:4431187 original size:6 final size:6
Alignment explanation
Indices: 4431179--4431212 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
4431169 AAAAAAAAAT
* *
4431179 AATAAT AATAAC AATAAT AATAAC AATAAC AATA
1 AATAAC AATAAC AATAAC AATAAC AATAAC AATA
4431213 TAAAATGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.68, C:0.09, G:0.00, T:0.24
Consensus pattern (6 bp):
AATAAC
Found at i:4431196 original size:12 final size:12
Alignment explanation
Indices: 4431179--4431212 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
4431169 AAAAAAAAAT
4431179 AATAATAATAAC
1 AATAATAATAAC
4431191 AATAATAATAAC
1 AATAATAATAAC
*
4431203 AATAACAATA
1 AATAATAATA
4431213 TAAAATGAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.68, C:0.09, G:0.00, T:0.24
Consensus pattern (12 bp):
AATAATAATAAC
Found at i:4440392 original size:26 final size:26
Alignment explanation
Indices: 4440361--4440412 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
4440351 ACACTAGCCT
*
4440361 TTGAGTCGGATCCTAGGCTTTCTTTG
1 TTGAGTCAGATCCTAGGCTTTCTTTG
*
4440387 TTGAGTCAGATCCTAGGCTTTTTTTG
1 TTGAGTCAGATCCTAGGCTTTCTTTG
4440413 CCAGGTTCCT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.13, C:0.17, G:0.25, T:0.44
Consensus pattern (26 bp):
TTGAGTCAGATCCTAGGCTTTCTTTG
Found at i:4451025 original size:23 final size:23
Alignment explanation
Indices: 4450999--4451071 Score: 112
Period size: 23 Copynumber: 3.2 Consensus size: 23
4450989 ATGCCTAAGT
*
4450999 ATATTTGG-TTTATATGCCTTAAC
1 ATATTTGGATTT-CATGCCTTAAC
4451022 ATATTTGGATTTCATGCCTTAAC
1 ATATTTGGATTTCATGCCTTAAC
*
4451045 ATATTTGGATTTCATGCCTTAGC
1 ATATTTGGATTTCATGCCTTAAC
4451068 ATAT
1 ATAT
4451072 GTGCTTATAC
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
23 44 0.94
24 3 0.06
ACGTcount: A:0.26, C:0.15, G:0.14, T:0.45
Consensus pattern (23 bp):
ATATTTGGATTTCATGCCTTAAC
Found at i:4469289 original size:20 final size:21
Alignment explanation
Indices: 4469251--4469289 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
4469241 TCTTAGATTC
*
4469251 TTTTTATTTTTCATTTTTGGG
1 TTTTTATTTTTCATATTTGGG
*
4469272 TTTTT-TTTTTCCTATTTG
1 TTTTTATTTTTCATATTTG
4469290 ATACTAAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.08, C:0.08, G:0.10, T:0.74
Consensus pattern (21 bp):
TTTTTATTTTTCATATTTGGG
Found at i:4469491 original size:15 final size:15
Alignment explanation
Indices: 4469471--4469512 Score: 84
Period size: 15 Copynumber: 2.8 Consensus size: 15
4469461 TGTTAAAACT
4469471 AAAGAAAAAATTAAG
1 AAAGAAAAAATTAAG
4469486 AAAGAAAAAATTAAG
1 AAAGAAAAAATTAAG
4469501 AAAGAAAAAATT
1 AAAGAAAAAATT
4469513 GTTTGTAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.74, C:0.00, G:0.12, T:0.14
Consensus pattern (15 bp):
AAAGAAAAAATTAAG
Found at i:4482949 original size:16 final size:18
Alignment explanation
Indices: 4482919--4482951 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
4482909 ATTATATAAT
4482919 AAAATGAAAATATTTTAA
1 AAAATGAAAATATTTTAA
4482937 AAAAT-AAAA-ATTTTA
1 AAAATGAAAATATTTTA
4482952 TTTACACCTG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 4 0.27
18 5 0.33
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (18 bp):
AAAATGAAAATATTTTAA
Found at i:4488051 original size:2 final size:2
Alignment explanation
Indices: 4488046--4488074 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
4488036 TTATAAAACA
4488046 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4488075 ATGACTTGTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4489038 original size:6 final size:7
Alignment explanation
Indices: 4489025--4489050 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
4489015 AGTTAATGTT
4489025 AATAAAA
1 AATAAAA
4489032 AATAAAA
1 AATAAAA
4489039 AATAAAA
1 AATAAAA
4489046 AATAA
1 AATAA
4489051 TCAATATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (7 bp):
AATAAAA
Found at i:4510507 original size:12 final size:13
Alignment explanation
Indices: 4510477--4510509 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
4510467 AATAATCAAA
*
4510477 ATAATTTATTTCT
1 ATAATTTTTTTCT
4510490 ATAATTTTTTTC-
1 ATAATTTTTTTCT
4510502 ATAATTTT
1 ATAATTTT
4510510 ATTAATTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 8 0.42
13 11 0.58
ACGTcount: A:0.30, C:0.06, G:0.00, T:0.64
Consensus pattern (13 bp):
ATAATTTTTTTCT
Found at i:4526946 original size:28 final size:27
Alignment explanation
Indices: 4526888--4526955 Score: 84
Period size: 28 Copynumber: 2.4 Consensus size: 27
4526878 AAAGGTATGA
*
4526888 CGTGTAAGAAAATAGAAATTAGTTAAAG
1 CGTGTAACAAAATAGAAATTAG-TAAAG
*
4526916 CGTTTAACAAAATAGAAATTA-TAAAGGG
1 CGTGTAACAAAATAGAAATTAGTAAA--G
4526944 CGTGTAACAAAA
1 CGTGTAACAAAA
4526956 GAAATATGTT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
26 4 0.11
28 31 0.89
ACGTcount: A:0.50, C:0.07, G:0.19, T:0.24
Consensus pattern (27 bp):
CGTGTAACAAAATAGAAATTAGTAAAG
Found at i:4527263 original size:28 final size:28
Alignment explanation
Indices: 4527230--4527364 Score: 119
Period size: 28 Copynumber: 4.8 Consensus size: 28
4527220 TTAAAGGTAT
*
4527230 GGCGTGTAAAAAAATAGAAATCAGTTG-
1 GGCGTGTAACAAAATAGAAATCAGTTGA
*
4527257 GGACGTGTAACAAAATAGAAATTAGTTGA
1 GG-CGTGTAACAAAATAGAAATCAGTTGA
* * **
4527286 GGCATGTAACAAAATAGAAATTAGTCAA
1 GGCGTGTAACAAAATAGAAATCAGTTGA
* * * **
4527314 GGCATGTAGCAAAAATAGAAATTAGTCAA
1 GGCGTGTAAC-AAAATAGAAATCAGTTGA
* *
4527343 GGCATGTAGCAAAAATAGAAAT
1 GGCGTGTAAC-AAAATAGAAAT
4527365 TATACAGGGC
Statistics
Matches: 99, Mismatches: 6, Indels: 4
0.91 0.06 0.04
Matches are distributed among these distances:
27 2 0.02
28 55 0.56
29 42 0.42
ACGTcount: A:0.47, C:0.09, G:0.22, T:0.21
Consensus pattern (28 bp):
GGCGTGTAACAAAATAGAAATCAGTTGA
Found at i:4527379 original size:29 final size:29
Alignment explanation
Indices: 4527268--4527366 Score: 164
Period size: 29 Copynumber: 3.4 Consensus size: 29
4527258 GACGTGTAAC
** *
4527268 AAAATAGAAATTAGTTGAGGCATGTAAC-
1 AAAATAGAAATTAGTCAAGGCATGTAGCA
4527296 AAAATAGAAATTAGTCAAGGCATGTAGCA
1 AAAATAGAAATTAGTCAAGGCATGTAGCA
4527325 AAAATAGAAATTAGTCAAGGCATGTAGCA
1 AAAATAGAAATTAGTCAAGGCATGTAGCA
4527354 AAAATAGAAATTA
1 AAAATAGAAATTA
4527367 TACAGGGCGT
Statistics
Matches: 67, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
28 25 0.37
29 42 0.63
ACGTcount: A:0.51, C:0.08, G:0.19, T:0.22
Consensus pattern (29 bp):
AAAATAGAAATTAGTCAAGGCATGTAGCA
Found at i:4527387 original size:57 final size:56
Alignment explanation
Indices: 4527234--4527394 Score: 164
Period size: 57 Copynumber: 2.8 Consensus size: 56
4527224 AGGTATGGCG
* * ** **
4527234 TGTAAAAAAATAGAAATCAGT-TGGGACGTGTAACAAAATAGAAATTAGTTGAGGCA
1 TGTAACAAAATAGAAATTAGTCAAGG-CGTGTAACAAAATAGAAATTAGTCAAGGCA
* *
4527290 TGTAACAAAATAGAAATTAGTCAAGGCATGTAGCAAAAATAGAAATTAGTCAAGGCA
1 TGTAACAAAATAGAAATTAGTCAAGGCGTGTAAC-AAAATAGAAATTAGTCAAGGCA
* * * *
4527347 TGTAGCAAAAATAGAAATTA-TACAGGGCGTGTAACGAAATATAAATTA
1 TGTAAC-AAAATAGAAATTAGT-CAAGGCGTGTAACAAAATAGAAATTA
4527395 TAAAATGTGT
Statistics
Matches: 87, Mismatches: 14, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
56 25 0.29
57 39 0.45
58 23 0.26
ACGTcount: A:0.48, C:0.09, G:0.20, T:0.23
Consensus pattern (56 bp):
TGTAACAAAATAGAAATTAGTCAAGGCGTGTAACAAAATAGAAATTAGTCAAGGCA
Found at i:4529149 original size:49 final size:49
Alignment explanation
Indices: 4529078--4529246 Score: 257
Period size: 49 Copynumber: 3.4 Consensus size: 49
4529068 TAATCTTGTG
* *
4529078 TGATGATGATGACCCGGCTATGTGCGAGTAGGGAGTGCGCATAGGCCGA
1 TGATGATGATGATCCGGCTATGTGCGAGTAGGGAGTGCGCATAGGTCGA
* * * * *
4529127 TGATAATGATAATCCGGGTATGTGCGAGTAGGGAGTGCTCATAGGTTGA
1 TGATGATGATGATCCGGCTATGTGCGAGTAGGGAGTGCGCATAGGTCGA
* *
4529176 TGATGATGATGACCCGGTTATGTGCGAGTAGGGAGTGCGCATAGGTCGA
1 TGATGATGATGATCCGGCTATGTGCGAGTAGGGAGTGCGCATAGGTCGA
4529225 TGATGATGATGATCCGGCTATG
1 TGATGATGATGATCCGGCTATG
4529247 ATGATGAATG
Statistics
Matches: 105, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
49 105 1.00
ACGTcount: A:0.24, C:0.14, G:0.37, T:0.25
Consensus pattern (49 bp):
TGATGATGATGATCCGGCTATGTGCGAGTAGGGAGTGCGCATAGGTCGA
Found at i:4530794 original size:13 final size:14
Alignment explanation
Indices: 4530776--4530805 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
4530766 AATTAAATTT
4530776 AAATTTAAAAAC-A
1 AAATTTAAAAACTA
4530789 AAATTTAAAAACTA
1 AAATTTAAAAACTA
4530803 AAA
1 AAA
4530806 CTACTCTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.75
14 4 0.25
ACGTcount: A:0.70, C:0.07, G:0.00, T:0.23
Consensus pattern (14 bp):
AAATTTAAAAACTA
Found at i:4537238 original size:33 final size:33
Alignment explanation
Indices: 4537167--4537340 Score: 161
Period size: 33 Copynumber: 5.2 Consensus size: 33
4537157 AACGACACTT
* * * *
4537167 ACCCAAACTTTACCCTCTCTAACCGGCGGCAACTA
1 ACCCAAACTTTA-TC-CTCTAACCGACGGCACCAA
*
4537202 ACCCAAACTTTATCCTCTAACCGATGGCACCAA
1 ACCCAAACTTTATCCTCTAACCGACGGCACCAA
** * * * *
4537235 ACCCAGGCTTTACTACCCTCTAACCAACGGTAACTA
1 ACCCAAACTTTA-T--CCTCTAACCGACGGCACCAA
*
4537271 ACCCAAACTTTATCCTCTAACTGACGGCACCAA
1 ACCCAAACTTTATCCTCTAACCGACGGCACCAA
* **
4537304 A-CCAAACTTTATCCTCTAACTGGTGGCACCAA
1 ACCCAAACTTTATCCTCTAACCGACGGCACCAA
4537336 ACCCA
1 ACCCA
4537341 GGCTTTCCTA
Statistics
Matches: 114, Mismatches: 21, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
32 30 0.26
33 44 0.39
34 2 0.02
35 13 0.11
36 25 0.22
ACGTcount: A:0.32, C:0.37, G:0.10, T:0.21
Consensus pattern (33 bp):
ACCCAAACTTTATCCTCTAACCGACGGCACCAA
Found at i:4537312 original size:32 final size:32
Alignment explanation
Indices: 4537169--4537338 Score: 133
Period size: 32 Copynumber: 5.1 Consensus size: 32
4537159 CGACACTTAC
* * * *
4537169 CCAAACTTTACCCTCTCTAACCGGCGGCAACTAAC
1 CCAAACTTTA-TC-CTCTAACCGACGGC-ACCAAA
*
4537204 CCAAACTTTATCCTCTAACCGATGGCACCAAA
1 CCAAACTTTATCCTCTAACCGACGGCACCAAA
** * * * *
4537236 CCCAGGCTTTACTACCCTCTAACCAACGGTAACTAAC
1 -CCAAACTTTA-T--CCTCTAACCGACGG-CACCAAA
*
4537273 CCAAACTTTATCCTCTAACTGACGGCACCAAA
1 CCAAACTTTATCCTCTAACCGACGGCACCAAA
* **
4537305 CCAAACTTTATCCTCTAACTGGTGGCACCAAA
1 CCAAACTTTATCCTCTAACCGACGGCACCAAA
4537337 CC
1 CC
4537339 CAGGCTTTCC
Statistics
Matches: 109, Mismatches: 21, Indels: 13
0.76 0.15 0.09
Matches are distributed among these distances:
32 40 0.37
33 32 0.29
34 2 0.02
35 11 0.10
36 20 0.18
37 4 0.04
ACGTcount: A:0.31, C:0.36, G:0.11, T:0.22
Consensus pattern (32 bp):
CCAAACTTTATCCTCTAACCGACGGCACCAAA
Found at i:4537314 original size:101 final size:104
Alignment explanation
Indices: 4537167--4537363 Score: 292
Period size: 101 Copynumber: 1.9 Consensus size: 104
4537157 AACGACACTT
* * *
4537167 ACCCAAACTTTACCCTCTCTAACCGGCGGCAACTAACCCAAACTTTATCCTCTAACCGATGGCAC
1 ACCCAAACTTTACCCTCTCTAACCGACGGCAACCAAACCAAACTTTATCCTCTAACCGATGGCAC
4537232 CAAACCCAGGCTTTACTACCCTCTAACCAACGGTAACTA
66 CAAACCCAGGCTTTACTACCCTCTAACCAACGGTAACTA
* * * *
4537271 ACCCAAACTTTA-TC-CTCTAACTGACGGC-ACCAAACCAAACTTTATCCTCTAACTGGTGGCAC
1 ACCCAAACTTTACCCTCTCTAACCGACGGCAACCAAACCAAACTTTATCCTCTAACCGATGGCAC
* *
4537333 CAAACCCAGGCTTTCCTACCCTTTAACCAAC
66 CAAACCCAGGCTTTACTACCCTCTAACCAAC
4537364 AGCACCCTTC
Statistics
Matches: 84, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
101 59 0.70
102 12 0.14
103 1 0.01
104 12 0.14
ACGTcount: A:0.30, C:0.37, G:0.10, T:0.22
Consensus pattern (104 bp):
ACCCAAACTTTACCCTCTCTAACCGACGGCAACCAAACCAAACTTTATCCTCTAACCGATGGCAC
CAAACCCAGGCTTTACTACCCTCTAACCAACGGTAACTA
Found at i:4538633 original size:27 final size:26
Alignment explanation
Indices: 4538572--4538652 Score: 72
Period size: 27 Copynumber: 3.0 Consensus size: 26
4538562 CCATGTGCAT
*
4538572 AATAATTATGCTACACGTCATTTTCA
1 AATAAATATGCTACACGTCATTTTCA
* **
4538598 AAAACAATATGCTACACGTGGTTTTCGA
1 AATA-AATATGCTACACGTCATTTTC-A
* * *
4538626 AATAAATATTTCTACATGCCATTTTCA
1 AATAAATA-TGCTACACGTCATTTTCA
4538653 CAAATTTTGC
Statistics
Matches: 42, Mismatches: 10, Indels: 5
0.74 0.18 0.09
Matches are distributed among these distances:
26 3 0.07
27 23 0.55
28 16 0.38
ACGTcount: A:0.36, C:0.19, G:0.10, T:0.36
Consensus pattern (26 bp):
AATAAATATGCTACACGTCATTTTCA
Found at i:4539899 original size:43 final size:43
Alignment explanation
Indices: 4539819--4539902 Score: 105
Period size: 43 Copynumber: 2.0 Consensus size: 43
4539809 TTTAAAAATC
* * * *
4539819 AAAATTTTAATTGCATTGAATGATTTCATTAAAAATATTTTTA
1 AAAATTTTAATAGCATTGAATAATTTAAATAAAAATATTTTTA
* **
4539862 AAAATTTTAATAGTATTGAATAATTTAAATATTAATATTTT
1 AAAATTTTAATAGCATTGAATAATTTAAATAAAAATATTTT
4539903 AAGTTAAATA
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
43 34 1.00
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.48
Consensus pattern (43 bp):
AAAATTTTAATAGCATTGAATAATTTAAATAAAAATATTTTTA
Found at i:4539903 original size:15 final size:18
Alignment explanation
Indices: 4539865--4539904 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 18
4539855 ATTTTTAAAA
4539865 ATTTTAATAGTATTGAAT
1 ATTTTAATAGTATTGAAT
*
4539883 AATTTAA-A-TATT-AAT
1 ATTTTAATAGTATTGAAT
4539898 ATTTTAA
1 ATTTTAA
4539905 GTTAAATATC
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
15 9 0.45
16 4 0.20
17 1 0.05
18 6 0.30
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (18 bp):
ATTTTAATAGTATTGAAT
Found at i:4540782 original size:29 final size:29
Alignment explanation
Indices: 4540725--4540793 Score: 95
Period size: 30 Copynumber: 2.3 Consensus size: 29
4540715 TTGCAGGGAC
* *
4540725 AAAACTATAAAATTTTTAAAAAATAAAGA
1 AAAATTATAAAATTTTAAAAAAATAAAGA
4540754 TAAAATTATAAAATTTTAAAAAAAT-AAGA
1 -AAAATTATAAAATTTTAAAAAAATAAAGA
4540783 AAAAGTTATAA
1 AAAA-TTATAA
4540794 GATTATAATA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
28 4 0.11
29 10 0.28
30 22 0.61
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.29
Consensus pattern (29 bp):
AAAATTATAAAATTTTAAAAAAATAAAGA
Found at i:4540998 original size:30 final size:30
Alignment explanation
Indices: 4540957--4541013 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
4540947 TGGTCATGTA
* *
4540957 AATTGAGAGTATTTTGGTAATTTTACTTTG
1 AATTGAAAGTATTTTGATAATTTTACTTTG
4540987 AATTGAAAGTATTTTGATAATTTTACT
1 AATTGAAAGTATTTTGATAATTTTACT
4541014 AGGTAAGAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.32, C:0.04, G:0.16, T:0.49
Consensus pattern (30 bp):
AATTGAAAGTATTTTGATAATTTTACTTTG
Found at i:4543832 original size:31 final size:28
Alignment explanation
Indices: 4543778--4543848 Score: 97
Period size: 31 Copynumber: 2.4 Consensus size: 28
4543768 ATTTTATTTT
4543778 ATTTAATTTTTTATTTAAAATCAAAATA
1 ATTTAATTTTTTATTTAAAATCAAAATA
**
4543806 ATTTAATTTTTTAATTTTAAAAATCAAGCTA
1 ATTTAATTTTTT-A-TTT-AAAATCAAAATA
4543837 ATTTAATTTTTT
1 ATTTAATTTTTT
4543849 TTAACAATAT
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
28 12 0.32
29 1 0.03
30 3 0.08
31 22 0.58
ACGTcount: A:0.41, C:0.04, G:0.01, T:0.54
Consensus pattern (28 bp):
ATTTAATTTTTTATTTAAAATCAAAATA
Found at i:4547886 original size:23 final size:23
Alignment explanation
Indices: 4547856--4547909 Score: 99
Period size: 23 Copynumber: 2.3 Consensus size: 23
4547846 CAAGGTATTC
*
4547856 ATGTAAATATAATATGTCATTTA
1 ATGTAAATATAACATGTCATTTA
4547879 ATGTAAATATAACATGTCATTTA
1 ATGTAAATATAACATGTCATTTA
4547902 ATGTAAAT
1 ATGTAAAT
4547910 CACCTATGAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.44, C:0.06, G:0.09, T:0.41
Consensus pattern (23 bp):
ATGTAAATATAACATGTCATTTA
Found at i:4551967 original size:33 final size:32
Alignment explanation
Indices: 4551912--4551994 Score: 121
Period size: 33 Copynumber: 2.5 Consensus size: 32
4551902 GAAAAAAATT
*
4551912 AAAATAAAATATATAATATATAAAATTATATTAA
1 AAAATAAAATA-A-AATATATAAAATTATAATAA
*
4551946 AAAATAAAACTAAAATATATAAGATTATAATAA
1 AAAATAAAA-TAAAATATATAAAATTATAATAA
4551979 AAAATAAAATAAAATA
1 AAAATAAAATAAAATA
4551995 AAATATATGA
Statistics
Matches: 46, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
32 7 0.15
33 27 0.59
34 10 0.22
35 2 0.04
ACGTcount: A:0.69, C:0.01, G:0.01, T:0.29
Consensus pattern (32 bp):
AAAATAAAATAAAATATATAAAATTATAATAA
Found at i:4552234 original size:15 final size:15
Alignment explanation
Indices: 4552214--4552276 Score: 54
Period size: 15 Copynumber: 4.2 Consensus size: 15
4552204 CAATATTATC
*
4552214 TTATTTATAATCACA
1 TTATTTACAATCACA
* *
4552229 TTATTTGCAATTACA
1 TTATTTACAATCACA
* *
4552244 TTACTTACAATCATA
1 TTATTTACAATCACA
* * *
4552259 TTGTATATAATCACA
1 TTATTTACAATCACA
4552274 TTA
1 TTA
4552277 CATTATAAAG
Statistics
Matches: 35, Mismatches: 13, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
15 35 1.00
ACGTcount: A:0.38, C:0.14, G:0.03, T:0.44
Consensus pattern (15 bp):
TTATTTACAATCACA
Found at i:4552893 original size:122 final size:121
Alignment explanation
Indices: 4552674--4552900 Score: 321
Period size: 122 Copynumber: 1.9 Consensus size: 121
4552664 AATCAAGTCA
* *
4552674 ATCAAACTTAAATTAATTTAAACTCGAATTTAATCAAAAATCCATTTGTCAAAAAATTATAATGA
1 ATCAAACTTAAATTAATTTAAACTCGAACTTAATCAAAAATCCATCTGTCAAAAAATTATAATGA
* * *
4552739 AGTGGGCTTTTCTTGATAAAAACTATTTGAGATCCAATTCGCTTTTCGAAAATATAT
66 AGTGGGCTTCTATTGATAAAAACTATTCGAGATCC-ATTCGCTTTTCGAAAATATAT
* * * * *
4552796 ATCAAATTTATATTAATTTAAACTCGAACTTAATCAAAAATTCATCTGTTAAAAAATTCTAAT-A
1 ATCAAACTTAAATTAATTTAAACTCGAACTTAATCAAAAATCCATCTGTCAAAAAATTATAATGA
**
4552860 AGATGGGCTTCTATTGATAGGAACTATTCGAGATCCATTCG
66 AG-TGGGCTTCTATTGATAAAAACTATTCGAGATCCATTCG
4552901 AGATCCAGTT
Statistics
Matches: 92, Mismatches: 12, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
121 8 0.09
122 84 0.91
ACGTcount: A:0.40, C:0.14, G:0.11, T:0.36
Consensus pattern (121 bp):
ATCAAACTTAAATTAATTTAAACTCGAACTTAATCAAAAATCCATCTGTCAAAAAATTATAATGA
AGTGGGCTTCTATTGATAAAAACTATTCGAGATCCATTCGCTTTTCGAAAATATAT
Found at i:4557848 original size:114 final size:114
Alignment explanation
Indices: 4557709--4557940 Score: 333
Period size: 114 Copynumber: 2.0 Consensus size: 114
4557699 AGCTCTTGAT
* *
4557709 ATTCTTACTTCTCAAAGGATTGTTGATAGTTAAGAAAA-AAGAGGAAGAAAATACCCTATCAATT
1 ATTCTTACTTCTCAAAGGATTGTTGATAGTTAAGAAAAGAA-AAGAAGAAAAGACCCTATCAATT
* * * **
4557773 TTTAGGGTTTGAAAAGGTAGGCTGATTTTTAAGGTTTAAGGTATTGTGCTG
65 TCTAGGGTTTGAAAAGGTAAGCTGATATCCAAGG-TTAAGGTATTGTGCTG
* ** *
4557824 ATTCTT-CTTCTTAAAGGATTGTTGATAGTTAAGAAAAGAAAAGAAGAAAAGACTTTGTCAATTT
1 ATTCTTACTTCTCAAAGGATTGTTGATAGTTAAGAAAAGAAAAGAAGAAAAGACCCTATCAATTT
4557888 CTAGGGTTTGAAAAGGTAAGCTGATATCCAAGGTTAAGGTATTGTGCTG
66 CTAGGGTTTGAAAAGGTAAGCTGATATCCAAGGTTAAGGTATTGTGCTG
4557937 ATTC
1 ATTC
4557941 ATTTTCTCTC
Statistics
Matches: 105, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
113 20 0.19
114 77 0.73
115 8 0.08
ACGTcount: A:0.34, C:0.09, G:0.22, T:0.34
Consensus pattern (114 bp):
ATTCTTACTTCTCAAAGGATTGTTGATAGTTAAGAAAAGAAAAGAAGAAAAGACCCTATCAATTT
CTAGGGTTTGAAAAGGTAAGCTGATATCCAAGGTTAAGGTATTGTGCTG
Found at i:4558990 original size:59 final size:58
Alignment explanation
Indices: 4558918--4559030 Score: 183
Period size: 59 Copynumber: 1.9 Consensus size: 58
4558908 CTATAATTAA
4558918 ATAATATTATCACCAAAATACAAACAT-ATTTTATTATAATTTAATAATTATTTTTATT
1 ATAATATTATCACCAAAATACAAACATAATTTTATTATAATTTAATAA-TATTTTTATT
* *
4558976 ANTAATATTTTCACCAAAATACAAACATAATTTTATTATATTTTAATAATATTTT
1 A-TAATATTATCACCAAAATACAAACATAATTTTATTATAATTTAATAATATTTT
4559031 GTACTAGAAG
Statistics
Matches: 51, Mismatches: 2, Indels: 3
0.91 0.04 0.05
Matches are distributed among these distances:
58 1 0.02
59 31 0.61
60 19 0.37
ACGTcount: A:0.44, C:0.09, G:0.00, T:0.46
Consensus pattern (58 bp):
ATAATATTATCACCAAAATACAAACATAATTTTATTATAATTTAATAATATTTTTATT
Found at i:4559179 original size:34 final size:34
Alignment explanation
Indices: 4559090--4559197 Score: 118
Period size: 34 Copynumber: 3.3 Consensus size: 34
4559080 TTAAAAGACA
*
4559090 AAAT-ATACTCTTCATTAAATTTA-AATAATACT
1 AAATAATAATCTTCATTAAATTTATAATAATACT
*
4559122 AAATAATAATCTTCATTAAATTTATAATAATATT
1 AAATAATAATCTTCATTAAATTTATAATAATACT
* ** *
4559156 AAATAATATTCTTTGTTACATTTAT--T-ATACT
1 AAATAATAATCTTCATTAAATTTATAATAATACT
4559187 CAAATAATAAT
1 -AAATAATAAT
4559198 ATTAAATAAT
Statistics
Matches: 65, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
31 4 0.06
32 14 0.22
33 18 0.28
34 29 0.45
ACGTcount: A:0.46, C:0.09, G:0.01, T:0.44
Consensus pattern (34 bp):
AAATAATAATCTTCATTAAATTTATAATAATACT
Found at i:4559199 original size:45 final size:46
Alignment explanation
Indices: 4559145--4559247 Score: 136
Period size: 45 Copynumber: 2.3 Consensus size: 46
4559135 CATTAAATTT
* * * *
4559145 ATAATAATATTAAATAATATTCTTTGTTACATTTATTATA-CTCAA
1 ATAATAATATTAAATAATAATCTTTATAACATTTATTATAGCTAAA
* *
4559190 ATAATAATATTAAATAATAATCTTTATAATATTTATTATAGTTAAA
1 ATAATAATATTAAATAATAATCTTTATAACATTTATTATAGCTAAA
*
4559236 ATAATATTATTA
1 ATAATAATATTA
4559248 TATTAAATAA
Statistics
Matches: 50, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
45 36 0.72
46 14 0.28
ACGTcount: A:0.47, C:0.05, G:0.02, T:0.47
Consensus pattern (46 bp):
ATAATAATATTAAATAATAATCTTTATAACATTTATTATAGCTAAA
Found at i:4559255 original size:18 final size:20
Alignment explanation
Indices: 4559215--4559261 Score: 71
Period size: 18 Copynumber: 2.4 Consensus size: 20
4559205 AATAATCTTT
4559215 ATAATATTTATTATAGTTAAA
1 ATAATA-TTATTATAGTTAAA
4559236 ATAATATTATTATA-TT-AA
1 ATAATATTATTATAGTTAAA
4559254 ATAATATT
1 ATAATATT
4559262 TAACTATATG
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
18 10 0.38
19 2 0.08
20 8 0.31
21 6 0.23
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (20 bp):
ATAATATTATTATAGTTAAA
Found at i:4562297 original size:84 final size:84
Alignment explanation
Indices: 4562150--4562312 Score: 213
Period size: 84 Copynumber: 1.9 Consensus size: 84
4562140 TTTGCTTTAT
*
4562150 AAATTTTAGGAAAAAGAAGAACATCGAATTTCCTTTACAGATTCAAGAGAAGAGAAAAGAAAGAT
1 AAATTTTAGGAAAAAGAAGAACATCGAATTTCCTTTACAAATTCAAGAGAAGAGAAAAGAAAGAT
*
4562215 TTGACTTTTTTTTAAAAAA
66 TTGACTTTCTTTTAAAAAA
* * ** * * *
4562234 AAATTTTA-GAAAGAGAAGAGCATC-AGATTTCCTTTACAAATTTTAGGGAGAGAGAAGATAAAG
1 AAATTTTAGGAAAAAGAAGAACATCGA-ATTTCCTTTACAAATTCAAGAGA-AGAGAAAAGAAAG
4562297 ATTTGACTTTCTTTTA
64 ATTTGACTTTCTTTTA
4562313 TTATATATGG
Statistics
Matches: 68, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
82 1 0.01
83 33 0.49
84 34 0.50
ACGTcount: A:0.44, C:0.09, G:0.17, T:0.31
Consensus pattern (84 bp):
AAATTTTAGGAAAAAGAAGAACATCGAATTTCCTTTACAAATTCAAGAGAAGAGAAAAGAAAGAT
TTGACTTTCTTTTAAAAAA
Found at i:4566018 original size:12 final size:13
Alignment explanation
Indices: 4565995--4566035 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
4565985 AATTCTTAGG
4565995 TTTTGAAGT-TTTT
1 TTTTGAA-TATTTT
4566008 TTTT-AAT-TTTT
1 TTTTGAATATTTT
4566019 TTTTGAATATTTT
1 TTTTGAATATTTT
4566032 TTTT
1 TTTT
4566036 CCGCGAGTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
11 9 0.35
12 5 0.19
13 12 0.46
ACGTcount: A:0.17, C:0.00, G:0.07, T:0.76
Consensus pattern (13 bp):
TTTTGAATATTTT
Found at i:4571013 original size:21 final size:21
Alignment explanation
Indices: 4570989--4571028 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
4570979 TGATGTCCTC
*
4570989 TCATCTCAAAATTCTGTGGTT
1 TCATCTCAAAACTCTGTGGTT
*
4571010 TCATCTGAAAACTCTGTGG
1 TCATCTCAAAACTCTGTGG
4571029 ATCTTTCATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.20, G:0.17, T:0.38
Consensus pattern (21 bp):
TCATCTCAAAACTCTGTGGTT
Found at i:4586539 original size:16 final size:16
Alignment explanation
Indices: 4586503--4586553 Score: 75
Period size: 16 Copynumber: 3.1 Consensus size: 16
4586493 CCTGGTGCTC
4586503 CCCTCTTTTAGGGAGCA
1 CCCTCTTTTA-GGAGCA
* *
4586520 CCCTCCTTTAGGAACA
1 CCCTCTTTTAGGAGCA
4586536 CCCTCTTTTAGGAGCA
1 CCCTCTTTTAGGAGCA
4586552 CC
1 CC
4586554 GATCGATGCT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
16 21 0.70
17 9 0.30
ACGTcount: A:0.20, C:0.35, G:0.18, T:0.27
Consensus pattern (16 bp):
CCCTCTTTTAGGAGCA
Found at i:4591878 original size:13 final size:13
Alignment explanation
Indices: 4591860--4591884 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4591850 GGAAAATGAG
4591860 ATTTTATAAAATA
1 ATTTTATAAAATA
4591873 ATTTTATAAAAT
1 ATTTTATAAAAT
4591885 TTTTGAAAAT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
ATTTTATAAAATA
Found at i:4593050 original size:15 final size:14
Alignment explanation
Indices: 4593027--4593069 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
4593017 GATCAAAGAA
4593027 TTTGGTTTTAAAGC
1 TTTGGTTTTAAAGC
*
4593041 TTTGGATTTTAAAGTT
1 TTTGG-TTTTAAAG-C
*
4593057 TTTAGTTTTAAAG
1 TTTGGTTTTAAAG
4593070 TTGTTTTAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 5 0.20
15 16 0.64
16 4 0.16
ACGTcount: A:0.26, C:0.02, G:0.19, T:0.53
Consensus pattern (14 bp):
TTTGGTTTTAAAGC
Found at i:4607001 original size:72 final size:74
Alignment explanation
Indices: 4606816--4607008 Score: 223
Period size: 73 Copynumber: 2.7 Consensus size: 74
4606806 TCAAATTGCA
* ** * **
4606816 GACAAAGAGC-CCTTAGTCGACTAACTTTCTTCTTGGTCGACTAAGTTGGTTTTGTCTTCTGGTC
1 GACAAAGAGCATCTTAGTCGACTAACTCACATCTTGGTCGACTAAGTTGGTTTTGTCTTCAAGTC
4606880 ACAGATTCT
66 ACAGATTCT
* ** *
4606889 GGCAAAGAGCAT-TTAGTCGACTAACTCATGTCTTGGTCGACTAAGTTGGTTTTGTCTTGAAGTC
1 GACAAAGAGCATCTTAGTCGACTAACTCACATCTTGGTCGACTAAGTTGGTTTTGTCTTCAAGTC
*
4606953 -CAGATTTT
66 ACAGATTCT
* * * *
4606961 GAC-AATAGCTTCTTAGTCGACTAACTCGCATCTTGATCGACTAAGTTG
1 GACAAAGAGCATCTTAGTCGACTAACTCACATCTTGGTCGACTAAGTTG
4607009 TTTCTGTTTC
Statistics
Matches: 101, Mismatches: 17, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
71 6 0.06
72 41 0.41
73 54 0.53
ACGTcount: A:0.23, C:0.20, G:0.21, T:0.35
Consensus pattern (74 bp):
GACAAAGAGCATCTTAGTCGACTAACTCACATCTTGGTCGACTAAGTTGGTTTTGTCTTCAAGTC
ACAGATTCT
Found at i:4610458 original size:11 final size:11
Alignment explanation
Indices: 4610442--4610476 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
4610432 ACTTCTCCTT
4610442 TTTTGTTTTTG
1 TTTTGTTTTTG
*
4610453 TTTTGTGTTTG
1 TTTTGTTTTTG
*
4610464 TTTTTTTTTTG
1 TTTTGTTTTTG
4610475 TT
1 TT
4610477 ATTATGGCTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.00, C:0.00, G:0.17, T:0.83
Consensus pattern (11 bp):
TTTTGTTTTTG
Found at i:4610465 original size:17 final size:17
Alignment explanation
Indices: 4610443--4610475 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
4610433 CTTCTCCTTT
4610443 TTTGTTTTTGTTTTGTG
1 TTTGTTTTTGTTTTGTG
*
4610460 TTTGTTTTTTTTTTGT
1 TTTGTTTTTGTTTTGT
4610476 TATTATGGCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.00, C:0.00, G:0.18, T:0.82
Consensus pattern (17 bp):
TTTGTTTTTGTTTTGTG
Found at i:4610744 original size:12 final size:12
Alignment explanation
Indices: 4610716--4610751 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
4610706 TCTATCTTTT
*
4610716 TTTTATTTAATTA
1 TTTTATTTTA-TA
4610729 TTTTATTTTATA
1 TTTTATTTTATA
4610741 TTTTATTTTAT
1 TTTTATTTTAT
4610752 TATATTTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 13 0.59
13 9 0.41
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (12 bp):
TTTTATTTTATA
Found at i:4610766 original size:17 final size:17
Alignment explanation
Indices: 4610726--4610765 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
4610716 TTTTATTTAA
*
4610726 TTATTTTATTTTATATT
1 TTATTTTATTATATATT
4610743 TTATTTTATTATAT-TT
1 TTATTTTATTATATATT
4610759 TTATTTT
1 TTATTTT
4610766 TTGAGGTGTC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 9 0.41
17 13 0.59
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.78
Consensus pattern (17 bp):
TTATTTTATTATATATT
Found at i:4610926 original size:23 final size:23
Alignment explanation
Indices: 4610900--4610961 Score: 115
Period size: 23 Copynumber: 2.7 Consensus size: 23
4610890 CAGTGTTATC
4610900 CAGTGAAGCAACACTACCTTTTG
1 CAGTGAAGCAACACTACCTTTTG
4610923 CAGTGAAGCAACACTACCTTTTG
1 CAGTGAAGCAACACTACCTTTTG
4610946 CAGTGAAGTCAACACT
1 CAGTGAAG-CAACACT
4610962 GCATCACTAG
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
23 31 0.82
24 7 0.18
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.24
Consensus pattern (23 bp):
CAGTGAAGCAACACTACCTTTTG
Found at i:4615740 original size:190 final size:190
Alignment explanation
Indices: 4615395--4615776 Score: 622
Period size: 190 Copynumber: 2.0 Consensus size: 190
4615385 GGTCTCCAAA
* * *
4615395 TAGTGTAAGTCGTCTCGCATTTTACCCACTCCAATCAGTGTCATCAATGGTAAGTCCTGTATTGC
1 TAGTATAAGTCGTCTCACATTTTACCCACTCCAATCAGTGTCATCAATGGTAAGTCCTGTATTAC
4615460 ACAAACATTCGACCAAAAAATTAGTGCAAAATCCAAGTCTTTTGTCAATTTGCTTACTAACATCA
66 ACAAACATTCGACCAAAAAATTAGTGCAAAATCCAAGTCTTTTGTCAATTTGCTTACTAACATCA
* *
4615525 AGTTAGAACAAAAATCAAGAACTCAAAGAACACTTTCTAGAATAAGCTTTTTTTGTAGAT
131 AGTTAGAACAAAAATCAAAAACTCAAAGAACACTTTCTAGAATAAGCTTTTTTTATAGAT
* * *
4615585 TAGTATAAGTTGTCTCACATTTTACCCATTCCAATCGGTGTCATCAATGGTAAGTCCTGTATTAC
1 TAGTATAAGTCGTCTCACATTTTACCCACTCCAATCAGTGTCATCAATGGTAAGTCCTGTATTAC
* * ** *
4615650 ACAAACATTTGACCAAAAAATTAGTGCACAATTTAAGT-TCTTTGTCAATTTGCTTACTGACATC
66 ACAAACATTCGACCAAAAAATTAGTGCAAAATCCAAGTCT-TTTGTCAATTTGCTTACTAACATC
*
4615714 AAGTTAGAACAAGAATCAAAAACTCAAAGAACACTTTCTAGAATAAGCTTTTTTTATAGAT
130 AAGTTAGAACAAAAATCAAAAACTCAAAGAACACTTTCTAGAATAAGCTTTTTTTATAGAT
4615775 TA
1 TA
4615777 ATAATCCTTA
Statistics
Matches: 177, Mismatches: 14, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
189 1 0.01
190 176 0.99
ACGTcount: A:0.36, C:0.19, G:0.13, T:0.32
Consensus pattern (190 bp):
TAGTATAAGTCGTCTCACATTTTACCCACTCCAATCAGTGTCATCAATGGTAAGTCCTGTATTAC
ACAAACATTCGACCAAAAAATTAGTGCAAAATCCAAGTCTTTTGTCAATTTGCTTACTAACATCA
AGTTAGAACAAAAATCAAAAACTCAAAGAACACTTTCTAGAATAAGCTTTTTTTATAGAT
Found at i:4618015 original size:36 final size:35
Alignment explanation
Indices: 4617963--4618062 Score: 137
Period size: 36 Copynumber: 2.8 Consensus size: 35
4617953 TTAAAGAATC
*
4617963 TTGCTTTTTAACGGGATCAAGCGATAACCCTTACAA
1 TTGCTTTTTAACGGGATCAAGCGATAACCCTAAC-A
*
4617999 TTGCTTTTTAAAGGGATCAAGCGATAACCCTAACA
1 TTGCTTTTTAACGGGATCAAGCGATAACCCTAACA
** *
4618034 CCGACTTTTTAACGGGATCAAGTGATAAC
1 TTG-CTTTTTAACGGGATCAAGCGATAAC
4618063 TCACACTAAC
Statistics
Matches: 57, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
35 2 0.04
36 55 0.96
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.29
Consensus pattern (35 bp):
TTGCTTTTTAACGGGATCAAGCGATAACCCTAACA
Found at i:4619656 original size:2 final size:2
Alignment explanation
Indices: 4619649--4619682 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
4619639 CCAAGAATGC
4619649 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
4619683 TATATATATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:4621959 original size:21 final size:19
Alignment explanation
Indices: 4621928--4621968 Score: 55
Period size: 21 Copynumber: 2.1 Consensus size: 19
4621918 ACATATTGAG
4621928 TAGTTAATTTAAATTATTT
1 TAGTTAATTTAAATTATTT
*
4621947 TAGTTAAATTTTATATTATTT
1 TAGTT-AA-TTTAAATTATTT
4621968 T
1 T
4621969 GTTTTAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 5 0.26
20 2 0.11
21 12 0.63
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (19 bp):
TAGTTAATTTAAATTATTT
Found at i:4627585 original size:139 final size:138
Alignment explanation
Indices: 4627416--4627692 Score: 491
Period size: 139 Copynumber: 2.0 Consensus size: 138
4627406 TGAAAATTCC
4627416 CATTATTTTTCTAGGCTCATAATTCATCATTATTCATCATAATTCCTCAAATAAACATCAAGATC
1 CATTATTTTTCTAGGCTCATAATTCATCATTATTCATCATAATTCCTCAAATAAACATCAAGATC
* *
4627481 AGCAACCAATATTCCCCTAGAAAATTCGGTATAATGGGTTTCAATAGGAAAAAATTATTTCTCTA
66 AGCAACCAATATTCCCCTAGAAAATTCAGCATAATGGGTTTCAATAGGAAAAAATTATTTCTCTA
4627546 ACTTATTT
131 ACTTATTT
4627554 NCATTATTTTTCTAGGCTCATAATTCATCATTATTCATCATAATTCCTCAAATAAACATCAAGAT
1 -CATTATTTTTCTAGGCTCATAATTCATCATTATTCATCATAATTCCTCAAATAAACATCAAGAT
* * *
4627619 CAGCAGCCAATATTCCCCTAGAAAATTCAGCATAATGGGTTTCAATGGGAGAAAATTATTTCTCT
65 CAGCAACCAATATTCCCCTAGAAAATTCAGCATAATGGGTTTCAATAGGAAAAAATTATTTCTCT
*
4627684 AGCTTATTT
130 AACTTATTT
4627693 TTGCTATATT
Statistics
Matches: 132, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
139 132 1.00
ACGTcount: A:0.35, C:0.19, G:0.10, T:0.36
Consensus pattern (138 bp):
CATTATTTTTCTAGGCTCATAATTCATCATTATTCATCATAATTCCTCAAATAAACATCAAGATC
AGCAACCAATATTCCCCTAGAAAATTCAGCATAATGGGTTTCAATAGGAAAAAATTATTTCTCTA
ACTTATTT
Found at i:4628440 original size:19 final size:19
Alignment explanation
Indices: 4628416--4628453 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
4628406 CTACCAAACC
*
4628416 CTCAAATTATACTCCAATA
1 CTCAAATCATACTCCAATA
4628435 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
4628454 AGTTAAATGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.42, C:0.29, G:0.00, T:0.29
Consensus pattern (19 bp):
CTCAAATCATACTCCAATA
Found at i:4629357 original size:21 final size:19
Alignment explanation
Indices: 4629321--4629361 Score: 55
Period size: 21 Copynumber: 2.1 Consensus size: 19
4629311 ACATGTTGAG
4629321 TAGTTAATTTAAGTTATTT
1 TAGTTAATTTAAGTTATTT
*
4629340 TAGTTAAATTTTATGTTATTT
1 TAGTT-AA-TTTAAGTTATTT
4629361 T
1 T
4629362 GTTTTATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 5 0.26
20 2 0.11
21 12 0.63
ACGTcount: A:0.29, C:0.00, G:0.10, T:0.61
Consensus pattern (19 bp):
TAGTTAATTTAAGTTATTT
Found at i:4632060 original size:27 final size:27
Alignment explanation
Indices: 4632030--4632086 Score: 96
Period size: 27 Copynumber: 2.1 Consensus size: 27
4632020 ATAGGATAGG
*
4632030 GATATACCTATAGGCCTTATGTAACCA
1 GATATACCTATAAGCCTTATGTAACCA
*
4632057 GATATACCTATAAGCCTTATGTAACTA
1 GATATACCTATAAGCCTTATGTAACCA
4632084 GAT
1 GAT
4632087 TAGAGCTTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.35, C:0.19, G:0.14, T:0.32
Consensus pattern (27 bp):
GATATACCTATAAGCCTTATGTAACCA
Done.