Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 390 of 410
Found at i:118379824 original size:10 final size:10
Alignment explanation
Indices: 118379811--118379847 Score: 65
Period size: 10 Copynumber: 3.7 Consensus size: 10
118379801 TACTTTTTAG
118379811 AATTTTTATA
1 AATTTTTATA
118379821 AATTTTTATA
1 AATTTTTATA
*
118379831 AATTTTTCTA
1 AATTTTTATA
118379841 AATTTTT
1 AATTTTT
118379848 GTTTTCCTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 26 1.00
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (10 bp):
AATTTTTATA
Found at i:118381007 original size:137 final size:136
Alignment explanation
Indices: 118380762--118381047 Score: 536
Period size: 137 Copynumber: 2.1 Consensus size: 136
118380752 CATTGGGCCT
**
118380762 AAGCCCATTCAGGTAACAGTGATACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGATACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
118380827 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
118380892 ATATGC
131 ATATGC
*
118380898 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTTCAGATTACAATAAACTGGGCCT
1 AAGCCCATTTGGGTAACAGTGATACTGGGCCAGAGCCC-TTTTCAGATTACAATAAACTGGGCCT
118380963 TAGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAA
65 TAGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAA
118381028 CATATGC
130 CATATGC
118381035 AAGCCCATTTGGG
1 AAGCCCATTTGGG
118381048 GAGACTACTC
Statistics
Matches: 146, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
136 35 0.24
137 111 0.76
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (136 bp):
AAGCCCATTTGGGTAACAGTGATACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
ATATGC
Found at i:118382872 original size:26 final size:26
Alignment explanation
Indices: 118382840--118382944 Score: 183
Period size: 26 Copynumber: 4.0 Consensus size: 26
118382830 AATGCCCATT
*
118382840 ATGGAACATTTACCTAAACCATTATC
1 ATGGAACATTTACCTAACCCATTATC
118382866 ATGGAACATTTACCTAACCCATTATC
1 ATGGAACATTTACCTAACCCATTATC
* *
118382892 ATGGAATATTTACCTAATCCATTATC
1 ATGGAACATTTACCTAACCCATTATC
118382918 ATGGAACATTTACCTAACCCATTATC
1 ATGGAACATTTACCTAACCCATTATC
118382944 A
1 A
118382945 ATTTGTACCA
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 74 1.00
ACGTcount: A:0.36, C:0.24, G:0.08, T:0.32
Consensus pattern (26 bp):
ATGGAACATTTACCTAACCCATTATC
Found at i:118402713 original size:32 final size:32
Alignment explanation
Indices: 118402674--118402737 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
118402664 TGTACTACTT
118402674 AACCATTGACAGAATTTAGTTTCGGAGTGTAA
1 AACCATTGACAGAATTTAGTTTCGGAGTGTAA
118402706 AACCATTGACAGAATTTAGTTTCGGAGTGTAA
1 AACCATTGACAGAATTTAGTTTCGGAGTGTAA
118402738 CGAAAATATG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.34, C:0.12, G:0.22, T:0.31
Consensus pattern (32 bp):
AACCATTGACAGAATTTAGTTTCGGAGTGTAA
Found at i:118408287 original size:10 final size:9
Alignment explanation
Indices: 118408231--118408289 Score: 66
Period size: 9 Copynumber: 6.6 Consensus size: 9
118408221 CTTTTTTTAT
118408231 TTTTTAAAA
1 TTTTTAAAA
118408240 TTTTTAAAA
1 TTTTTAAAA
*
118408249 TTTTTTAAA
1 TTTTTAAAA
* *
118408258 TTTATATAA
1 TTTTTAAAA
*
118408267 TTTTTAATA
1 TTTTTAAAA
118408276 -TTTTAAAA
1 TTTTTAAAA
118408284 TATTTT
1 T-TTTT
118408290 TTTATAAATT
Statistics
Matches: 40, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
8 7 0.17
9 29 0.73
10 4 0.10
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (9 bp):
TTTTTAAAA
Found at i:118417920 original size:4 final size:4
Alignment explanation
Indices: 118417911--118417947 Score: 67
Period size: 4 Copynumber: 9.5 Consensus size: 4
118417901 AGCAAACGTG
118417911 AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA A-AA AG
1 AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA AG
118417948 GGAAATTTGA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 3 0.09
4 29 0.91
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (4 bp):
AGAA
Found at i:118420377 original size:18 final size:18
Alignment explanation
Indices: 118420350--118420519 Score: 121
Period size: 18 Copynumber: 9.4 Consensus size: 18
118420340 AATTGATCGG
*
118420350 TTATCCAGTAACAGTCAA
1 TTATTCAGTAACAGTCAA
* *
118420368 TTATTTAGTAA-AATCAGA
1 TTATTCAGTAACAGTCA-A
* * *
118420386 -TATTCAATAACAATTAA
1 TTATTCAGTAACAGTCAA
* *
118420403 GTTATTTAGTAACAGTCAT
1 -TTATTCAGTAACAGTCAA
* * *
118420422 TTATTCAGTGACAATCAG
1 TTATTCAGTAACAGTCAA
* *
118420440 TTATTCAGTAA-TGATCAT
1 TTATTCAGTAACAG-TCAA
* * * *
118420458 TTATTCAATAATATTCAG
1 TTATTCAGTAACAGTCAA
*
118420476 TTATTCAGTAACAGTCTA
1 TTATTCAGTAACAGTCAA
*
118420494 TTATCCAGTAACAGTCAA
1 TTATTCAGTAACAGTCAA
118420512 TTATTCAG
1 TTATTCAG
118420520 AAATAATCAG
Statistics
Matches: 115, Mismatches: 31, Indels: 12
0.73 0.20 0.08
Matches are distributed among these distances:
17 13 0.11
18 90 0.78
19 12 0.10
ACGTcount: A:0.38, C:0.14, G:0.11, T:0.38
Consensus pattern (18 bp):
TTATTCAGTAACAGTCAA
Found at i:118420503 original size:54 final size:54
Alignment explanation
Indices: 118420422--118420534 Score: 124
Period size: 54 Copynumber: 2.1 Consensus size: 54
118420412 TAACAGTCAT
* * * * *
118420422 TTATTCAGTGACAATCAGTTATTCAGTAA-TGATCATTTATTCA-ATAATATTCAG
1 TTATTCAGTAACAATCAGTTATCCAGTAACAG-TCAATTATTCAGA-AATAATCAG
*
118420476 TTATTCAGTAACAGTCTA-TTATCCAGTAACAGTCAATTATTCAGAAATAATCAG
1 TTATTCAGTAACAATC-AGTTATCCAGTAACAGTCAATTATTCAGAAATAATCAG
118420530 TTATT
1 TTATT
118420535 TTATACCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
54 47 0.94
55 3 0.06
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.39
Consensus pattern (54 bp):
TTATTCAGTAACAATCAGTTATCCAGTAACAGTCAATTATTCAGAAATAATCAG
Found at i:118420709 original size:6 final size:6
Alignment explanation
Indices: 118420698--118420722 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
118420688 AAAAATCCGG
118420698 AACAGT AACAGT AACAGT AACAGT A
1 AACAGT AACAGT AACAGT AACAGT A
118420723 TTCAACACAC
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:0.52, C:0.16, G:0.16, T:0.16
Consensus pattern (6 bp):
AACAGT
Found at i:118420776 original size:45 final size:45
Alignment explanation
Indices: 118420703--118420812 Score: 157
Period size: 45 Copynumber: 2.4 Consensus size: 45
118420693 TCCGGAACAG
*
118420703 TAACAGTAACAGTAACAGTATTCAACACACAAAGTGCTGAATCGA
1 TAACAGTAACAGTAACAGTATTCAACACACAAAGTGCCGAATCGA
* * * *
118420748 TAACGGTAACAGTAACAGTATTCGACACACAATGTGCCGAATTGA
1 TAACAGTAACAGTAACAGTATTCAACACACAAAGTGCCGAATCGA
* *
118420793 TAACAGTAGCGGTAACAGTA
1 TAACAGTAACAGTAACAGTA
118420813 ACAGTAGTCA
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 57 1.00
ACGTcount: A:0.41, C:0.19, G:0.19, T:0.21
Consensus pattern (45 bp):
TAACAGTAACAGTAACAGTATTCAACACACAAAGTGCCGAATCGA
Found at i:118420806 original size:51 final size:50
Alignment explanation
Indices: 118420698--118420835 Score: 144
Period size: 45 Copynumber: 2.8 Consensus size: 50
118420688 AAAAATCCGG
* *
118420698 AACAGTAACAGTAACAGTAACAGTATTCAACACACAAAGTGCTGAATCGAT
1 AACAGT-ACGGTAACAGTAACAGTATTCAACACACAAAGTGCCGAATCGAT
* * *
118420749 ---A--ACGGTAACAGTAACAGTATTCGACACACAATGTGCCGAATTGAT
1 AACAGTACGGTAACAGTAACAGTATTCAACACACAAAGTGCCGAATCGAT
* * *
118420794 AACAGTAGCGGTAACAGTAACAGTAGTCAGCACA-TAAGTGCC
1 AACAGTA-CGGTAACAGTAACAGTATTCAACACACAAAGTGCC
118420836 TGATCAGTAA
Statistics
Matches: 71, Mismatches: 10, Indels: 13
0.76 0.11 0.14
Matches are distributed among these distances:
45 39 0.55
48 2 0.03
50 7 0.10
51 23 0.32
ACGTcount: A:0.41, C:0.20, G:0.20, T:0.20
Consensus pattern (50 bp):
AACAGTACGGTAACAGTAACAGTATTCAACACACAAAGTGCCGAATCGAT
Found at i:118424918 original size:26 final size:26
Alignment explanation
Indices: 118424856--118424928 Score: 78
Period size: 26 Copynumber: 2.8 Consensus size: 26
118424846 TTCATTCTAT
* *
118424856 TTTCACTTCTTATTTCAATATCTCAG
1 TTTCACTTCATATTTCAATATCTCAA
*
118424882 TTTCAATTCATATTTCAAT-TCAT-AA
1 TTTCACTTCATATTTCAATATC-TCAA
118424907 TTTCACTCTCATACTTTCAATA
1 TTTCACT-TCATA-TTTCAATA
118424929 GTTCAATCGA
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
25 9 0.23
26 23 0.59
27 7 0.18
ACGTcount: A:0.29, C:0.22, G:0.01, T:0.48
Consensus pattern (26 bp):
TTTCACTTCATATTTCAATATCTCAA
Found at i:118424924 original size:14 final size:12
Alignment explanation
Indices: 118424882--118424927 Score: 56
Period size: 12 Copynumber: 3.6 Consensus size: 12
118424872 AATATCTCAG
118424882 TTTCAATTCATA
1 TTTCAATTCATA
118424894 TTTCAATTCATAA
1 TTTCAATTCAT-A
*
118424907 TTTCACTCTCATA
1 TTTCAAT-TCATA
118424920 CTTTCAAT
1 -TTTCAAT
118424928 AGTTCAATCG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
12 11 0.38
13 8 0.28
14 10 0.34
ACGTcount: A:0.30, C:0.22, G:0.00, T:0.48
Consensus pattern (12 bp):
TTTCAATTCATA
Found at i:118426864 original size:23 final size:24
Alignment explanation
Indices: 118426808--118426866 Score: 68
Period size: 25 Copynumber: 2.5 Consensus size: 24
118426798 AAATAAATTA
* *
118426808 TTTTATAACAACTGTACATATATC
1 TTTTATTACAAATGTACATATATC
118426832 TATTTATTACAAATGTACCA-ATAT-
1 T-TTTATTACAAATGTA-CATATATC
118426856 TTTTATTACAA
1 TTTTATTACAA
118426867 TTGTCATTAC
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
23 10 0.32
24 2 0.06
25 17 0.55
26 2 0.06
ACGTcount: A:0.39, C:0.14, G:0.03, T:0.44
Consensus pattern (24 bp):
TTTTATTACAAATGTACATATATC
Found at i:118427092 original size:3 final size:3
Alignment explanation
Indices: 118427084--118427164 Score: 103
Period size: 3 Copynumber: 27.7 Consensus size: 3
118427074 AATTTATTTT
118427084 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT- ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * *
118427131 AT- ATA GTT ATA ATA ATA CTA CTA ATA ATA GTA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
118427165 TAAATCTACT
Statistics
Matches: 68, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
2 4 0.06
3 64 0.94
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.36
Consensus pattern (3 bp):
ATA
Found at i:118427122 original size:26 final size:26
Alignment explanation
Indices: 118427087--118427164 Score: 104
Period size: 26 Copynumber: 3.0 Consensus size: 26
118427077 TTATTTTATA
118427087 ATAATAATAATAATAATAATAATAAT
1 ATAATAATAATAATAATAATAATAAT
*
118427113 ATAATAATAATAATAATAAT-ATAGTT
1 ATAATAATAATAATAATAATAATA-AT
* * *
118427139 ATAATAATACTACTAATAATAGTAAT
1 ATAATAATAATAATAATAATAATAAT
118427165 TAAATCTACT
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
25 3 0.07
26 40 0.89
27 2 0.04
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.36
Consensus pattern (26 bp):
ATAATAATAATAATAATAATAATAAT
Found at i:118427849 original size:15 final size:16
Alignment explanation
Indices: 118427831--118427860 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
118427821 AAAATTAGCC
118427831 TTAAA-AAAACATGAA
1 TTAAAGAAAACATGAA
118427846 TTAAAGAAAACATGA
1 TTAAAGAAAACATGA
118427861 GACGCTTTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.63, C:0.07, G:0.10, T:0.20
Consensus pattern (16 bp):
TTAAAGAAAACATGAA
Found at i:118429935 original size:35 final size:36
Alignment explanation
Indices: 118429903--118429970 Score: 93
Period size: 36 Copynumber: 1.9 Consensus size: 36
118429893 GAATCTACGG
* *
118429903 AGCGGCATCATA-AAAATGATCTGCTAGCTCTACAA
1 AGCGACATCATAGAAAAAGATCTGCTAGCTCTACAA
* *
118429938 AGCGACATCCTAGAAAAAGATTTGCTAGCTCTA
1 AGCGACATCATAGAAAAAGATCTGCTAGCTCTA
118429971 TGAAGTGACA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
35 10 0.36
36 18 0.64
ACGTcount: A:0.37, C:0.22, G:0.18, T:0.24
Consensus pattern (36 bp):
AGCGACATCATAGAAAAAGATCTGCTAGCTCTACAA
Found at i:118431387 original size:22 final size:22
Alignment explanation
Indices: 118431357--118431407 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
118431347 CTTATAGGCT
* *
118431357 ATTTAGTTCCAGAATCCTTTTGA
1 ATTT-GTTCCAAAATCCTTGTGA
*
118431380 ATTTGTTCTAAAATCCTTGTGA
1 ATTTGTTCCAAAATCCTTGTGA
118431402 ATTTGT
1 ATTTGT
118431408 AATTAAGCAG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
22 21 0.84
23 4 0.16
ACGTcount: A:0.25, C:0.14, G:0.14, T:0.47
Consensus pattern (22 bp):
ATTTGTTCCAAAATCCTTGTGA
Found at i:118432067 original size:40 final size:40
Alignment explanation
Indices: 118432023--118432098 Score: 143
Period size: 40 Copynumber: 1.9 Consensus size: 40
118432013 AAAGAATTTC
*
118432023 AACTATATTTATTTAAAGGAAGAAAAATTTACTAATTTTT
1 AACTATATTTACTTAAAGGAAGAAAAATTTACTAATTTTT
118432063 AACTATATTTACTTAAAGGAAGAAAAATTTACTAAT
1 AACTATATTTACTTAAAGGAAGAAAAATTTACTAAT
118432099 ATTAAAAATT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.47, C:0.07, G:0.08, T:0.38
Consensus pattern (40 bp):
AACTATATTTACTTAAAGGAAGAAAAATTTACTAATTTTT
Found at i:118437091 original size:21 final size:22
Alignment explanation
Indices: 118437067--118437110 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
118437057 CCCAAAATTA
* *
118437067 ATTACCCTT-AACCCGTAACCC
1 ATTACACTTAAACCCATAACCC
118437088 ATTACACTTAAACCCATAACCC
1 ATTACACTTAAACCCATAACCC
118437110 A
1 A
118437111 ATACTTAAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.36, C:0.39, G:0.02, T:0.23
Consensus pattern (22 bp):
ATTACACTTAAACCCATAACCC
Found at i:118437650 original size:12 final size:12
Alignment explanation
Indices: 118437633--118437661 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
118437623 GTGAATAAAG
118437633 AAGATAAATGGA
1 AAGATAAATGGA
118437645 AAGAT-AATGGA
1 AAGATAAATGGA
118437656 AAGATA
1 AAGATA
118437662 GAACGTGGCG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.69
12 5 0.31
ACGTcount: A:0.59, C:0.00, G:0.24, T:0.17
Consensus pattern (12 bp):
AAGATAAATGGA
Found at i:118443011 original size:35 final size:35
Alignment explanation
Indices: 118442984--118443149 Score: 172
Period size: 35 Copynumber: 4.6 Consensus size: 35
118442974 CATGGTAAAG
*
118442984 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
*
118443019 TGTGAAATGTAGGTATGGTATTATCCATACTGAGC
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
*
118443054 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGT
1 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGC
** * * * *
118443094 TAAGAAATGTAGGTATGGCAT-TTCCCATACCGAGT
1 TGTGAAATGTAGGTATGGTATCAT-CCATACTGAGC
**
118443129 TGAAAAATGTAGGTATGGTAT
1 TGTGAAATGTAGGTATGGTAT
118443150 TTGAATGAGG
Statistics
Matches: 113, Mismatches: 12, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
34 1 0.01
35 79 0.70
37 2 0.02
38 3 0.03
40 28 0.25
ACGTcount: A:0.31, C:0.11, G:0.25, T:0.33
Consensus pattern (35 bp):
TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
Found at i:118443103 original size:75 final size:73
Alignment explanation
Indices: 118442984--118443150 Score: 216
Period size: 75 Copynumber: 2.3 Consensus size: 73
118442974 CATGGTAAAG
** *
118442984 TGTGAAATGTAGGTATGG---TATCATCCATACTGAGTTGTGAAATGTAGGTATGGTATTAT-CC
1 TGTGAAATGTAGGTATGGTATTATCATCCATACTGAGTTAAGAAATGTAGGTATGGCATT-TCCC
*
118443045 ATACTGAGC
65 ATACCGAGC
118443054 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
1 TGTGAAATGTAGGTATGGTATTATC--ATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
*
118443119 CATACCGAGT
64 CATACCGAGC
**
118443129 TGAAAAATGTAGGTATGGTATT
1 TGTGAAATGTAGGTATGGTATT
118443151 TGAATGAGGA
Statistics
Matches: 84, Mismatches: 7, Indels: 7
0.86 0.07 0.07
Matches are distributed among these distances:
70 18 0.21
73 4 0.05
74 1 0.01
75 61 0.73
ACGTcount: A:0.31, C:0.11, G:0.25, T:0.34
Consensus pattern (73 bp):
TGTGAAATGTAGGTATGGTATTATCATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCCCA
TACCGAGC
Found at i:118446796 original size:12 final size:12
Alignment explanation
Indices: 118446781--118446809 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
118446771 GTGAATAAAG
118446781 AAGATAAATGGA
1 AAGATAAATGGA
118446793 AAGAT-AATGGA
1 AAGATAAATGGA
118446804 AAGATA
1 AAGATA
118446810 GAACGTGGCG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.69
12 5 0.31
ACGTcount: A:0.59, C:0.00, G:0.24, T:0.17
Consensus pattern (12 bp):
AAGATAAATGGA
Found at i:118453768 original size:19 final size:18
Alignment explanation
Indices: 118453744--118453786 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
118453734 TAAAAGAATT
118453744 ATTTTTA-AATATCTTTACA
1 ATTTTTATAATA--TTTACA
118453763 ATTTTTTATAATATTTACA
1 A-TTTTTATAATATTTACA
118453782 ATTTT
1 ATTTT
118453787 CTTTTACGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
18 4 0.18
19 8 0.36
20 6 0.27
21 4 0.18
ACGTcount: A:0.35, C:0.07, G:0.00, T:0.58
Consensus pattern (18 bp):
ATTTTTATAATATTTACA
Found at i:118455097 original size:23 final size:23
Alignment explanation
Indices: 118455070--118455120 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
118455060 TGGGCTTCAA
*
118455070 TTTTTAATTTGGTACCTGAGTTT
1 TTTTTAATTTGATACCTGAGTTT
*
118455093 TTTTTAATTTGATACTTGAGTTT
1 TTTTTAATTTGATACCTGAGTTT
*
118455116 GTTTT
1 TTTTT
118455121 GACCCAAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.18, C:0.06, G:0.16, T:0.61
Consensus pattern (23 bp):
TTTTTAATTTGATACCTGAGTTT
Found at i:118456270 original size:8 final size:8
Alignment explanation
Indices: 118456257--118456285 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
118456247 TGAGGTCTTT
118456257 TTTTTTTC
1 TTTTTTTC
118456265 TTTTTTTC
1 TTTTTTTC
118456273 TTTTTTT-
1 TTTTTTTC
118456280 TTTTTT
1 TTTTTT
118456286 GTAGGAGAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
7 6 0.29
8 15 0.71
ACGTcount: A:0.00, C:0.07, G:0.00, T:0.93
Consensus pattern (8 bp):
TTTTTTTC
Found at i:118462025 original size:14 final size:14
Alignment explanation
Indices: 118462003--118462066 Score: 62
Period size: 16 Copynumber: 4.6 Consensus size: 14
118461993 GATGATACAT
118462003 ATATATATATAAAC
1 ATATATATATAAAC
*
118462017 --ATGTATAT-AAC
1 ATATATATATAAAC
*
118462028 ATACATATATAAAC
1 ATATATATATAAAC
*
118462042 ATATATATACATATAC
1 ATATATAT--ATAAAC
118462058 ATATATATA
1 ATATATATA
118462067 AATAAATCAA
Statistics
Matches: 40, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
11 3 0.08
12 7 0.17
13 6 0.15
14 11 0.28
16 13 0.32
ACGTcount: A:0.53, C:0.09, G:0.02, T:0.36
Consensus pattern (14 bp):
ATATATATATAAAC
Found at i:118462065 original size:10 final size:10
Alignment explanation
Indices: 118462028--118462066 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
118462018 TGTATATAAC
118462028 ATACATATAT
1 ATACATATAT
*
118462038 AAACATATAT
1 ATACATATAT
*
118462048 ATACATATAC
1 ATACATATAT
*
118462058 ATATATATA
1 ATACATATA
118462067 AATAAATCAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.54, C:0.10, G:0.00, T:0.36
Consensus pattern (10 bp):
ATACATATAT
Found at i:118473940 original size:15 final size:15
Alignment explanation
Indices: 118473916--118473946 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
118473906 AATATACTAT
118473916 AGAATAAACTAATTC
1 AGAATAAACTAATTC
*
118473931 AGAATGAACTAATTC
1 AGAATAAACTAATTC
118473946 A
1 A
118473947 ATCTTTATAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.52, C:0.13, G:0.10, T:0.26
Consensus pattern (15 bp):
AGAATAAACTAATTC
Found at i:118482020 original size:15 final size:15
Alignment explanation
Indices: 118482000--118482051 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
118481990 ACTACAAACC
118482000 ATTTATTATTAATAT
1 ATTTATTATTAATAT
*
118482015 ATTTATAATTGTAATAAAT
1 ATTTATTA-T-TAAT--AT
*
118482034 ATTTATTATTAAAAT
1 ATTTATTATTAATAT
118482049 ATT
1 ATT
118482052 AATATTGAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 12 0.40
16 1 0.03
17 7 0.23
18 1 0.03
19 9 0.30
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
ATTTATTATTAATAT
Found at i:118485521 original size:8 final size:8
Alignment explanation
Indices: 118485503--118485538 Score: 58
Period size: 8 Copynumber: 4.8 Consensus size: 8
118485493 GACGGTCATG
118485503 ATATA-GT
1 ATATATGT
118485510 ATATATGT
1 ATATATGT
118485518 ATATATGT
1 ATATATGT
118485526 ATATATGT
1 ATATATGT
118485534 -TATAT
1 ATATAT
118485539 AATAATAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
7 10 0.36
8 18 0.64
ACGTcount: A:0.39, C:0.00, G:0.11, T:0.50
Consensus pattern (8 bp):
ATATATGT
Found at i:118498230 original size:40 final size:40
Alignment explanation
Indices: 118498185--118498314 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
118498175 CGGAATACAA
118498185 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* ** *
118498225 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
118498265 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
118498305 CCGGATATAA
1 CCGGATATAA
118498315 TTTCCAGCAT
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 3 0.04
40 73 0.96
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:118498329 original size:40 final size:40
Alignment explanation
Indices: 118498185--118498348 Score: 145
Period size: 40 Copynumber: 4.1 Consensus size: 40
118498175 CGGAATACAA
* **
118498185 CCGGATATAACCACGTGCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCACCAGCAC-AATTGCCTTCGGGTCTTAGC
* *
118498225 CCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-CAGCAC-AATTGCCTTCGGGTCTTAGC
* ** * *
118498265 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
** * * *
118498305 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
118498345 CCGG
1 CCGG
118498349 GTATCATTCA
Statistics
Matches: 100, Mismatches: 21, Indels: 6
0.79 0.17 0.05
Matches are distributed among these distances:
39 2 0.02
40 98 0.98
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.25
Consensus pattern (40 bp):
CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
Found at i:118501607 original size:16 final size:16
Alignment explanation
Indices: 118501576--118501612 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
118501566 ATGTGAAGAA
118501576 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
118501592 TATT-TTTAAAATTTAT
1 TATTATTTAAAA-TTAT
118501608 TATTA
1 TATTA
118501613 AAATAAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:118501646 original size:20 final size:18
Alignment explanation
Indices: 118501608--118501654 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 18
118501598 TAAAATTTAT
118501608 TATTAAAATAAATTTAAAA
1 TATT-AAATAAATTTAAAA
118501627 TATTAAATAAATTATTAAAA
1 TATTAAATAAA-T-TTAAAA
*
118501647 TAATAAAT
1 TATTAAAT
118501655 TATGTTAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
18 7 0.28
19 5 0.20
20 13 0.52
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
TATTAAATAAATTTAAAA
Found at i:118505774 original size:26 final size:26
Alignment explanation
Indices: 118505744--118505794 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
118505734 ATGTTCATGC
*
118505744 TATTTTTTCAT-ATATTTAAAATATTA
1 TATTTTTT-ATAAAATTTAAAATATTA
*
118505770 TATTTTTTATAAAATTTAACATATT
1 TATTTTTTATAAAATTTAAAATATT
118505795 GATTATTGGC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 2 0.09
26 20 0.91
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (26 bp):
TATTTTTTATAAAATTTAAAATATTA
Found at i:118506328 original size:2 final size:2
Alignment explanation
Indices: 118506316--118506346 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
118506306 ATAATTAAAG
*
118506316 TA TA CA 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 T
118506347 TTATGATTTG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:118509249 original size:21 final size:21
Alignment explanation
Indices: 118509209--118509254 Score: 51
Period size: 22 Copynumber: 2.1 Consensus size: 21
118509199 TTTATGTATC
118509209 ATTATATTAAATTATTT-AAAT
1 ATTATATTAAA-TATTTAAAAT
118509230 ATTATATTTAAA-ATTCTAAAAT
1 ATTATA-TTAAATATT-TAAAAT
118509252 ATT
1 ATT
118509255 TCATGTATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
20 3 0.14
21 7 0.32
22 12 0.55
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (21 bp):
ATTATATTAAATATTTAAAAT
Found at i:118509550 original size:3 final size:3
Alignment explanation
Indices: 118509542--118509717 Score: 298
Period size: 3 Copynumber: 57.7 Consensus size: 3
118509532 ATCAAGATAA
118509542 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
*
118509590 AAG AAG AAG AAG AAG AAG AAG GAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
*
118509638 AAG AGG AAG AAG AAG AAG AAGG AAG AAG AAG AAGG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AA-G AAG AAG AAG AA-G AAG AAG AAG AAG
*
118509685 AAGG AAG AAG AAG AAG AAG AAG AAG ATG AAG AA
1 AA-G AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
118509718 TGCCACATCA
Statistics
Matches: 164, Mismatches: 6, Indels: 6
0.93 0.03 0.03
Matches are distributed among these distances:
3 155 0.95
4 9 0.05
ACGTcount: A:0.64, C:0.00, G:0.35, T:0.01
Consensus pattern (3 bp):
AAG
Found at i:118510478 original size:23 final size:23
Alignment explanation
Indices: 118510452--118510503 Score: 97
Period size: 23 Copynumber: 2.3 Consensus size: 23
118510442 ATTTTTAATA
118510452 TGGAATTCAATAAATATTTATTT
1 TGGAATTCAATAAATATTTATTT
118510475 TGGAATTCAATAAATATTTATTT
1 TGGAATTCAATAAATATTTATTT
118510498 T-GAATT
1 TGGAATT
118510504 ATGGAAGTTG
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 5 0.17
23 24 0.83
ACGTcount: A:0.38, C:0.04, G:0.10, T:0.48
Consensus pattern (23 bp):
TGGAATTCAATAAATATTTATTT
Found at i:118510665 original size:35 final size:33
Alignment explanation
Indices: 118510604--118510678 Score: 82
Period size: 35 Copynumber: 2.2 Consensus size: 33
118510594 TTTTAGATTT
118510604 TATATTAAAAAATATTAAATAAAAAATCATAAAAA
1 TATATTAAAAAATATTAAATAAAAAAT-A-AAAAA
* * *
118510639 TATATTTAACAATATTTAAA-ATAAAATAAAAAA
1 TATATTAAAAAATA-TTAAATAAAAAATAAAAAA
118510672 TA-ATTAA
1 TATATTAA
118510679 TTTAAATTCA
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
32 4 0.11
33 7 0.20
34 1 0.03
35 18 0.51
36 5 0.14
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (33 bp):
TATATTAAAAAATATTAAATAAAAAATAAAAAA
Found at i:118535795 original size:6 final size:6
Alignment explanation
Indices: 118535780--118535815 Score: 63
Period size: 6 Copynumber: 5.8 Consensus size: 6
118535770 TGTATTCAAA
118535780 TTTATAT TTTATT TTTATT TTTATT TTTATT TTTAT
1 TTTAT-T TTTATT TTTATT TTTATT TTTATT TTTAT
118535816 GATCATAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 24 0.83
7 5 0.17
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (6 bp):
TTTATT
Found at i:118537651 original size:19 final size:19
Alignment explanation
Indices: 118537627--118537666 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
118537617 GAAAACGAAA
118537627 GTTAGCTTATTTAGGTCAT
1 GTTAGCTTATTTAGGTCAT
118537646 GTTAGCTTATTTAGGTCAT
1 GTTAGCTTATTTAGGTCAT
118537665 GT
1 GT
118537667 CTTGGTTATG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.20, C:0.10, G:0.23, T:0.47
Consensus pattern (19 bp):
GTTAGCTTATTTAGGTCAT
Found at i:118541659 original size:26 final size:26
Alignment explanation
Indices: 118541573--118541659 Score: 77
Period size: 26 Copynumber: 3.2 Consensus size: 26
118541563 ATATGATTAA
118541573 ATTTAAAATAAAATTTAAAATTTTAATACAT
1 ATTTAAAAT-AAATTTAAAA--TTAA-AC-T
* * *
118541604 ATTTAAATTAAATTT-AAATTGATAGT
1 ATTTAAAATAAATTTAAAATT-AAACT
*
118541630 ATTTAAAATAAATTTAAAATTAAACC
1 ATTTAAAATAAATTTAAAATTAAACT
118541656 ATTT
1 ATTT
118541660 TTCGTGATTT
Statistics
Matches: 47, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
26 21 0.45
27 8 0.17
28 1 0.02
29 3 0.06
30 6 0.13
31 8 0.17
ACGTcount: A:0.52, C:0.03, G:0.02, T:0.43
Consensus pattern (26 bp):
ATTTAAAATAAATTTAAAATTAAACT
Found at i:118548547 original size:47 final size:47
Alignment explanation
Indices: 118548414--118548584 Score: 175
Period size: 47 Copynumber: 3.6 Consensus size: 47
118548404 ATAGTAAAAC
* * * * *
118548414 TATGGTCTTGCACA-TAGTCACATATCACATACCGAGGCCATAGCCCAGC
1 TATGGTCTTACACAGGAG-CACATATCAC--ACCGATGCCATATCCCAGA
* * *
118548463 CATGGTCTTACAC-GGATCACATATCACACTGATGCCATATCCCAGA
1 TATGGTCTTACACAGGAGCACATATCACACCGATGCCATATCCCAGA
* * * *
118548509 TATGGTCTTATACAGTAGCACATATCACACCAATGCCATATCCCGGA
1 TATGGTCTTACACAGGAGCACATATCACACCGATGCCATATCCCAGA
* *
118548556 TATGGTCTTATACGGGAGCACATATCACA
1 TATGGTCTTACACAGGAGCACATATCACA
118548585 TCTCTCCGAA
Statistics
Matches: 103, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
46 26 0.25
47 55 0.53
48 10 0.10
49 12 0.12
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (47 bp):
TATGGTCTTACACAGGAGCACATATCACACCGATGCCATATCCCAGA
Found at i:118551752 original size:16 final size:16
Alignment explanation
Indices: 118551716--118551759 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
118551706 GACTTTTATT
*
118551716 AATAATATAAAGAAAC
1 AATAATAAAAAGAAAC
* *
118551732 CATAATAAAAAGAATC
1 AATAATAAAAAGAAAC
118551748 AATAACTAAAAA
1 AATAA-TAAAAA
118551760 AGTCATAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
16 17 0.74
17 6 0.26
ACGTcount: A:0.68, C:0.09, G:0.05, T:0.18
Consensus pattern (16 bp):
AATAATAAAAAGAAAC
Found at i:118552480 original size:29 final size:29
Alignment explanation
Indices: 118552439--118552495 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
118552429 TAAATGTCTA
118552439 TTTTCGTAATTAATT-TATTTTTCATATTT
1 TTTTCGTAATTAATTGT-TTTTTCATATTT
* *
118552468 TTTTTGTAGTTAATTGTTTTTTCATATT
1 TTTTCGTAATTAATTGTTTTTTCATATT
118552496 ATTTAGGTGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 24 0.96
30 1 0.04
ACGTcount: A:0.21, C:0.05, G:0.07, T:0.67
Consensus pattern (29 bp):
TTTTCGTAATTAATTGTTTTTTCATATTT
Found at i:118554694 original size:13 final size:13
Alignment explanation
Indices: 118554661--118554707 Score: 53
Period size: 13 Copynumber: 3.7 Consensus size: 13
118554651 TTATGTGTAA
118554661 TTTATATTATTTT
1 TTTATATTATTTT
**
118554674 GGTA-ATTATTTT
1 TTTATATTATTTT
118554686 TTTATATTATTTT
1 TTTATATTATTTT
118554699 ATTT-TATTA
1 -TTTATATTA
118554708 AAAAAAATTA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
12 10 0.36
13 15 0.54
14 3 0.11
ACGTcount: A:0.26, C:0.00, G:0.04, T:0.70
Consensus pattern (13 bp):
TTTATATTATTTT
Found at i:118555455 original size:28 final size:28
Alignment explanation
Indices: 118555415--118555469 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
118555405 ATAAATAACC
*
118555415 TATAAAATATTAATAATATTATTCAAAT
1 TATAAAATATTAATAATAATATTCAAAT
*
118555443 TATAATAAT-TTAATATTAATATTCAAA
1 TATAA-AATATTAATAATAATATTCAAA
118555470 CTTTGTATTG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 21 0.88
29 3 0.12
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.44
Consensus pattern (28 bp):
TATAAAATATTAATAATAATATTCAAAT
Found at i:118557506 original size:183 final size:183
Alignment explanation
Indices: 118557190--118557743 Score: 932
Period size: 183 Copynumber: 3.0 Consensus size: 183
118557180 CTTTAATGGT
* * * * *
118557190 ACAAATGCCGGTAATGAGACGGTTCACGATGATGAGATCTTCGAAGGGAAAGACATAGATACTGA
1 ACAAA-GCCGGTAATGAGACAGCTCATGATGATGAGATCTTTGAAGGGAGAGACATAGATACTGA
*
118557255 TGTTATAACAGAAGCAGATGTGGGGTTGAATAAATCTTCTACATTCGATGAAGGTACAAAAGCTT
65 TGTTATAACAGAAGCAGATGTGGGCTTGAATAAATCTTCTACATTCGATGAAGGTACAAAAGCTT
*
118557320 GGAAGGAGTCTTCTACTGCTGAACCGGTAGAGTTAAATAAGAATTCAACAGTGG
130 GGAAGGAGTCTTCAACTGCTGAACCGGTAGAGTTAAATAAGAATTCAACAGTGG
118557374 ACAAAGCCGGTAATGAGACAGCTCATGATGATGAGATCTTTGAAGGGAGAGACATAGATACTGAT
1 ACAAAGCCGGTAATGAGACAGCTCATGATGATGAGATCTTTGAAGGGAGAGACATAGATACTGAT
* *
118557439 GTTATAACAGAAGCAGATGTGGGCTTGAATAAATCTTCTACATTCGATGAAGGTACCAAACCTTG
66 GTTATAACAGAAGCAGATGTGGGCTTGAATAAATCTTCTACATTCGATGAAGGTACAAAAGCTTG
118557504 GAAGGAGTCTTCAACTGCTGAACCGGTAGAGTTAAATAAGAATTCAACAGTGG
131 GAAGGAGTCTTCAACTGCTGAACCGGTAGAGTTAAATAAGAATTCAACAGTGG
118557557 ACAACA-CCGGTAATGAGACAGCTCATGATGATGAGATCTTTGAAGGGAGAGACATAGATACTGA
1 ACAA-AGCCGGTAATGAGACAGCTCATGATGATGAGATCTTTGAAGGGAGAGACATAGATACTGA
**
118557621 TGTTATAACAGAAGCAGATGTGGGCTTGAATAAATCTTCTACATTCGATGAAGGTACTGAAGCTC
65 TGTTATAACAGAAGCAGATGTGGGCTTGAATAAATCTTCTACATTCGATGAAGGTACAAAAGCT-
* * * *
118557686 T-GAAGGAGTCTTCAACTGCTGAACTGGCAGAGTTAAATAAGAATTCGACAGTGA
129 TGGAAGGAGTCTTCAACTGCTGAACCGGTAGAGTTAAATAAGAATTCAACAGTGG
118557740 ACAA
1 ACAA
118557744 TGCTGAAAGT
Statistics
Matches: 352, Mismatches: 16, Indels: 5
0.94 0.04 0.01
Matches are distributed among these distances:
183 345 0.98
184 7 0.02
ACGTcount: A:0.36, C:0.15, G:0.25, T:0.24
Consensus pattern (183 bp):
ACAAAGCCGGTAATGAGACAGCTCATGATGATGAGATCTTTGAAGGGAGAGACATAGATACTGAT
GTTATAACAGAAGCAGATGTGGGCTTGAATAAATCTTCTACATTCGATGAAGGTACAAAAGCTTG
GAAGGAGTCTTCAACTGCTGAACCGGTAGAGTTAAATAAGAATTCAACAGTGG
Found at i:118560716 original size:32 final size:32
Alignment explanation
Indices: 118560675--118560737 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
118560665 TCTTTTTACA
118560675 CCCTTTTTTAGTTTACTAAATACAAATTAACG
1 CCCTTTTTTAGTTTACTAAATACAAATTAACG
118560707 CCCTTTTTTAGTTTACTAAATACAAATTAAC
1 CCCTTTTTTAGTTTACTAAATACAAATTAAC
118560738 TAAATTAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.35, C:0.19, G:0.05, T:0.41
Consensus pattern (32 bp):
CCCTTTTTTAGTTTACTAAATACAAATTAACG
Found at i:118561667 original size:30 final size:30
Alignment explanation
Indices: 118561631--118561693 Score: 92
Period size: 30 Copynumber: 2.1 Consensus size: 30
118561621 ACTTAACAAG
118561631 CAAATGCCTCTAAAATAATATA-AAAATTAA
1 CAAATGCCTCTAAAATAATA-ACAAAATTAA
* *
118561661 CAAATGCCTTTCAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
118561691 CAA
1 CAA
118561694 TAAAATAAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 1 0.03
30 29 0.97
ACGTcount: A:0.56, C:0.16, G:0.03, T:0.25
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAATAACAAAATTAA
Found at i:118563506 original size:2 final size:2
Alignment explanation
Indices: 118563501--118563535 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
118563491 TAAAAGCAAC
*
118563501 AT AT AT AT AT AT AT AT AT AT AT AT AT AG AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
118563536 CAAAATACAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (2 bp):
AT
Found at i:118564183 original size:3 final size:3
Alignment explanation
Indices: 118564128--118564165 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
118564118 TCCCAAAAAT
118564128 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
118564166 GTAACTATCG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:118564418 original size:12 final size:12
Alignment explanation
Indices: 118564388--118564427 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
118564378 TGTATTATTG
*
118564388 TTATTAGTGCTA
1 TTATTATTGCTA
118564400 TTTATTATTGCTA
1 -TTATTATTGCTA
*
118564413 TTATTATTACTA
1 TTATTATTGCTA
118564425 TTA
1 TTA
118564428 CTTTTATTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
12 14 0.56
13 11 0.44
ACGTcount: A:0.28, C:0.07, G:0.07, T:0.57
Consensus pattern (12 bp):
TTATTATTGCTA
Found at i:118564438 original size:28 final size:27
Alignment explanation
Indices: 118564407--118564459 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
118564397 CTATTTATTA
*
118564407 TTGCTATTATTATTACTATTACTTTTAT
1 TTGCCATTATTATTACTATTA-TTTTAT
*
118564435 TTGCCATTATTATTATTATTATTTT
1 TTGCCATTATTATTACTATTATTTT
118564460 CTACTACTAC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 4 0.17
28 19 0.83
ACGTcount: A:0.25, C:0.09, G:0.04, T:0.62
Consensus pattern (27 bp):
TTGCCATTATTATTACTATTATTTTAT
Found at i:118564506 original size:12 final size:12
Alignment explanation
Indices: 118564476--118564517 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
118564466 CTACTGCCGT
118564476 TATTATTAATAC
1 TATTATTAATAC
*
118564488 TAATATTAATA-
1 TATTATTAATAC
*
118564499 TATTTATTATTAC
1 TA-TTATTAATAC
118564512 TATTAT
1 TATTAT
118564518 CACCACTAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
11 2 0.08
12 21 0.84
13 2 0.08
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (12 bp):
TATTATTAATAC
Found at i:118564603 original size:3 final size:3
Alignment explanation
Indices: 118564583--118564807 Score: 187
Period size: 3 Copynumber: 75.0 Consensus size: 3
118564573 TAACGTTTTC
* * * *
118564583 ATT ATC ATT ATC ATT ATT ATT AAT -TT ATT ATT -GT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* **
118564629 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT TTT ACC A-T ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
**
118564676 ATT ATT -TCCT ATT -TT -TT ATAT ATT ATT ATT GA-T ATT AAC ATAT
1 ATT ATT AT--T ATT ATT ATT AT-T ATT ATT ATT -ATT ATT ATT AT-T
* * * * *
118564719 ATT ATT ATT AGTGT ACT ATT ATT TTCT ATT ATT -TT ATT ACT AAT ATC
1 ATT ATT ATT A-T-T ATT ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT
*
118564766 ACT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
118564808 GTAATTACTA
Statistics
Matches: 179, Mismatches: 28, Indels: 30
0.76 0.12 0.13
Matches are distributed among these distances:
2 11 0.06
3 155 0.87
4 10 0.06
5 3 0.02
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:118564895 original size:17 final size:16
Alignment explanation
Indices: 118564873--118564911 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
118564863 CTCATCTATA
118564873 ATATTTC-TTATCTATTT
1 ATATTTCATTAT-TA-TT
118564890 ATATTTCATTATTATT
1 ATATTTCATTATTATT
118564906 ATATTT
1 ATATTT
118564912 TAGATACTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 8 0.38
17 9 0.43
18 4 0.19
ACGTcount: A:0.28, C:0.08, G:0.00, T:0.64
Consensus pattern (16 bp):
ATATTTCATTATTATT
Found at i:118565010 original size:2 final size:2
Alignment explanation
Indices: 118565003--118565031 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
118564993 TATTATTAAC
118565003 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
118565032 CATGTGTATT
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:118566168 original size:120 final size:119
Alignment explanation
Indices: 118565930--118566162 Score: 304
Period size: 120 Copynumber: 1.9 Consensus size: 119
118565920 TAAATCGAAT
* * *
118565930 AAAAAAAAGCCCAGTACAGTAGGGCACGTTTTTTAAAATGATTAAGTATAGAAAATTGTCCTTAT
1 AAAAAAAAACCCAATACAGTAGGGCACGTTTTTTAAAACGATTAAGTATAGAAAATTGTCCTTAT
* * * * * * * *
118565995 TAAAAACTATTTGGGAATAAAATGTTGAATAAAATACTTAAATCGAATATAAAA
66 TAAAAACAAGTTGAGAATAAAATATGGAATAAAAGAATTAAAACGAATATAAAA
* *
118566049 AAAAAACAAACCCAATACGGTAGGGCACGTTTTTTAAAACGATTAAGTATAGAAAATTGTCTTTA
1 AAAAAA-AAACCCAATACAGTAGGGCACGTTTTTTAAAACGATTAAGTATAGAAAATTGTCCTTA
* *
118566114 TGTTAAAAACAAGTTGAGAATACATTATGGAATAAAAGAATTAAAACGA
65 --TTAAAAACAAGTTGAGAATAAAATATGGAATAAAAGAATTAAAACGA
118566163 TTAAAATTTG
Statistics
Matches: 96, Mismatches: 15, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
119 6 0.06
120 53 0.55
122 37 0.39
ACGTcount: A:0.47, C:0.10, G:0.15, T:0.28
Consensus pattern (119 bp):
AAAAAAAAACCCAATACAGTAGGGCACGTTTTTTAAAACGATTAAGTATAGAAAATTGTCCTTAT
TAAAAACAAGTTGAGAATAAAATATGGAATAAAAGAATTAAAACGAATATAAAA
Found at i:118566431 original size:22 final size:22
Alignment explanation
Indices: 118566396--118566437 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
118566386 GATAAAAGTG
118566396 AAAATTAAAATAATAACTATACT
1 AAAATTAAAATAATAA-TATACT
*
118566419 AAAA-TAACATAATAATATA
1 AAAATTAAAATAATAATATA
118566438 GTATGTAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
22 10 0.56
23 4 0.22
ACGTcount: A:0.64, C:0.07, G:0.00, T:0.29
Consensus pattern (22 bp):
AAAATTAAAATAATAATATACT
Found at i:118566705 original size:13 final size:13
Alignment explanation
Indices: 118566687--118566726 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
118566677 GACTAATAAA
118566687 AAATAGTAAAAAT
1 AAATAGTAAAAAT
118566700 AAATAGTAAAAAT
1 AAATAGTAAAAAT
118566713 -AATAG-AAATAAT
1 AAATAGTAAA-AAT
118566725 AA
1 AA
118566727 TAATATAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 3 0.12
12 8 0.32
13 14 0.56
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.23
Consensus pattern (13 bp):
AAATAGTAAAAAT
Found at i:118566716 original size:12 final size:12
Alignment explanation
Indices: 118566684--118566728 Score: 58
Period size: 12 Copynumber: 3.8 Consensus size: 12
118566674 AATGACTAAT
118566684 AAAA-AATAGTA
1 AAAATAATAGTA
118566695 AAAATAAATAGTA
1 AAAAT-AATAGTA
118566708 AAAATAATAG-A
1 AAAATAATAGTA
118566719 AATAATAATA
1 AA-AATAATA
118566729 ATATAATAGT
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
11 7 0.23
12 12 0.39
13 12 0.39
ACGTcount: A:0.71, C:0.00, G:0.07, T:0.22
Consensus pattern (12 bp):
AAAATAATAGTA
Found at i:118566809 original size:18 final size:17
Alignment explanation
Indices: 118566786--118566828 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
118566776 ATAAACAAAT
*
118566786 AATAATAATAATAATGTG
1 AATAATAATAAT-AGGTG
118566804 AATAAT-ATAATAGGTG
1 AATAATAATAATAGGTG
118566820 AAT-ATAATA
1 AATAATAATA
118566829 TTTTAAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
15 2 0.09
16 10 0.43
17 5 0.22
18 6 0.26
ACGTcount: A:0.56, C:0.00, G:0.12, T:0.33
Consensus pattern (17 bp):
AATAATAATAATAGGTG
Found at i:118568321 original size:44 final size:44
Alignment explanation
Indices: 118568140--118568409 Score: 149
Period size: 44 Copynumber: 6.0 Consensus size: 44
118568130 AAGGTTTGGT
* * *
118568140 ATCTTCGATCTGCTCCACTACTGCTTAAGAAGATAAGATCTGCT-
1 ATCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTG-TA
* * * * *
118568184 ATCTTCAGTCTGCTTCGCTGC-GACTTCAGGGAGATAAGATTTGTA
1 ATCTTCAATCTGCTCCACTACTG-CTT-AGGGAGATAAGATCTGTA
* * ** * * *
118568229 A-CTTCAACCTGCT-CTCTACAACTTCAGAGG-GATAAGGTTTGTT
1 ATCTTCAATCTGCTCCACTACTGCTT-AG-GGAGATAAGATCTGTA
*
118568272 GTCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTA
1 ATCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTA
*** * * *
118568316 ATCTTCGGCCTGTTACC-CTACTGCTTAGGGAGTTAA-AGCCTGTTCA
1 ATCTTCAATCTGCT-CCACTACTGCTTAGGGAGATAAGA-TCTG-T-A
* * * * *
118568362 TTGTCTTCGATCTGCTCTACTACAGCTTAGGGAGATAAGATTTGTA
1 --ATCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTA
118568408 AT
1 AT
118568410 TTTTTAGCCT
Statistics
Matches: 170, Mismatches: 40, Indels: 32
0.70 0.17 0.13
Matches are distributed among these distances:
43 25 0.15
44 86 0.51
45 25 0.15
46 2 0.01
47 2 0.01
48 29 0.17
49 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.33
Consensus pattern (44 bp):
ATCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTA
Found at i:118568384 original size:92 final size:93
Alignment explanation
Indices: 118568270--118568447 Score: 261
Period size: 92 Copynumber: 1.9 Consensus size: 93
118568260 ATAAGGTTTG
* * *
118568270 TTGTCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAA-TCTTCGGCCTGTTACCC
1 TTGTCTTCAATCTGCTCCACTACAGCTTAGGGAGATAAGATCTGTAATTCTTCAGCCTATTACCC
118568334 TACTGCTTA-GGGAGTTAAAGCCTGTTCA
66 TACTGCTTAGGGGA-TTAAAGCCTGTTCA
* * * * *
118568362 TTGTCTTCGATCTGCTCTACTACAGCTTAGGGAGATAAGATTTGTAATTTTTTAGCCTATTACCC
1 TTGTCTTCAATCTGCTCCACTACAGCTTAGGGAGATAAGATCTGTAATTCTTCAGCCTATTACCC
118568427 TACTGCTTAGGGGATTAAAGC
66 TACTGCTTAGGGGATTAAAGC
118568448 TAGTGGCTTG
Statistics
Matches: 76, Mismatches: 8, Indels: 3
0.87 0.09 0.03
Matches are distributed among these distances:
92 43 0.57
93 29 0.38
94 4 0.05
ACGTcount: A:0.23, C:0.21, G:0.20, T:0.35
Consensus pattern (93 bp):
TTGTCTTCAATCTGCTCCACTACAGCTTAGGGAGATAAGATCTGTAATTCTTCAGCCTATTACCC
TACTGCTTAGGGGATTAAAGCCTGTTCA
Found at i:118576765 original size:19 final size:20
Alignment explanation
Indices: 118576723--118576769 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
118576713 TACGAAATTT
* *
118576723 AATGCATATGATATGATATA
1 AATGCAAATGATATGAGATA
*
118576743 AATGCAAATG-TATGAGATG
1 AATGCAAATGATATGAGATA
118576762 AATGCAAA
1 AATGCAAA
118576770 AAAGAAGACG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
19 15 0.62
20 9 0.38
ACGTcount: A:0.47, C:0.06, G:0.19, T:0.28
Consensus pattern (20 bp):
AATGCAAATGATATGAGATA
Found at i:118578723 original size:15 final size:15
Alignment explanation
Indices: 118578703--118578759 Score: 89
Period size: 15 Copynumber: 3.9 Consensus size: 15
118578693 CGATGAATTT
118578703 ATTGAATTTATATTG
1 ATTGAATTTATATTG
* *
118578718 ATTGAAATTATTTTG
1 ATTGAATTTATATTG
118578733 ATTGAATTTATATTG
1 ATTGAATTTATATTG
118578748 ATTGAA-TTATAT
1 ATTGAATTTATAT
118578760 AATATATATG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
14 6 0.16
15 32 0.84
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (15 bp):
ATTGAATTTATATTG
Found at i:118579192 original size:21 final size:23
Alignment explanation
Indices: 118579131--118579196 Score: 82
Period size: 23 Copynumber: 3.0 Consensus size: 23
118579121 GCTTTATCGA
118579131 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCACTTTATGTGTCGTATT
* ** *
118579154 TCAGGCACCTCGTATGTCGT-TT
1 TCAGGCACTTTATGTGTCGTATT
118579176 T-AGGCACTTTATGTGTCGTAT
1 TCAGGCACTTTATGTGTCGTAT
118579197 ACTGATCAGG
Statistics
Matches: 34, Mismatches: 8, Indels: 3
0.76 0.18 0.07
Matches are distributed among these distances:
21 14 0.41
22 4 0.12
23 16 0.47
ACGTcount: A:0.17, C:0.20, G:0.23, T:0.41
Consensus pattern (23 bp):
TCAGGCACTTTATGTGTCGTATT
Found at i:118583761 original size:46 final size:48
Alignment explanation
Indices: 118583662--118583754 Score: 111
Period size: 46 Copynumber: 2.0 Consensus size: 48
118583652 ATCAATATAA
*
118583662 ATAAAAAAATAATAAATATAGAGAAAATTAGCAATAGCAATAATAATG
1 ATAAAAAAATAATAAATATAGAGAAAATTAGCAATAACAATAATAATG
* * * *
118583710 ATAAAAATATAAT-AATAT-GA-TAAATATAGCAATAATAATATTAAT
1 ATAAAAAAATAATAAATATAGAGAAAAT-TAGCAATAACAATAATAAT
118583755 AGTAAAATAA
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
45 4 0.10
46 18 0.46
47 5 0.13
48 12 0.31
ACGTcount: A:0.61, C:0.03, G:0.08, T:0.28
Consensus pattern (48 bp):
ATAAAAAAATAATAAATATAGAGAAAATTAGCAATAACAATAATAATG
Found at i:118583858 original size:22 final size:22
Alignment explanation
Indices: 118583823--118583864 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
118583813 GATAAAAGTG
118583823 AAAATTAAAATAATAACTATACT
1 AAAATTAAAATAATAA-TATACT
*
118583846 AAAA-TAACATAATAATATA
1 AAAATTAAAATAATAATATA
118583865 GTATGTAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
22 10 0.56
23 4 0.22
ACGTcount: A:0.64, C:0.07, G:0.00, T:0.29
Consensus pattern (22 bp):
AAAATTAAAATAATAATATACT
Found at i:118584132 original size:13 final size:13
Alignment explanation
Indices: 118584114--118584153 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
118584104 GACTAATAAA
118584114 AAATAGTAAAAAT
1 AAATAGTAAAAAT
118584127 AAATAGTAAAAAT
1 AAATAGTAAAAAT
118584140 -AATAG-AAATAAT
1 AAATAGTAAA-AAT
118584152 AA
1 AA
118584154 TAATATAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 3 0.12
12 8 0.32
13 14 0.56
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.23
Consensus pattern (13 bp):
AAATAGTAAAAAT
Found at i:118584143 original size:12 final size:12
Alignment explanation
Indices: 118584111--118584155 Score: 58
Period size: 12 Copynumber: 3.8 Consensus size: 12
118584101 AATGACTAAT
118584111 AAAA-AATAGTA
1 AAAATAATAGTA
118584122 AAAATAAATAGTA
1 AAAAT-AATAGTA
118584135 AAAATAATAG-A
1 AAAATAATAGTA
118584146 AATAATAATA
1 AA-AATAATA
118584156 ATATAATAGT
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
11 7 0.23
12 12 0.39
13 12 0.39
ACGTcount: A:0.71, C:0.00, G:0.07, T:0.22
Consensus pattern (12 bp):
AAAATAATAGTA
Found at i:118584238 original size:18 final size:17
Alignment explanation
Indices: 118584215--118584257 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
118584205 AACAAAAAAT
*
118584215 AATAATAATAATAATGTG
1 AATAATAATAAT-AGGTG
118584233 AATAAT-ATAATAGGTG
1 AATAATAATAATAGGTG
118584249 AAT-ATAATA
1 AATAATAATA
118584258 TTTTAAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
15 2 0.09
16 10 0.43
17 5 0.22
18 6 0.26
ACGTcount: A:0.56, C:0.00, G:0.12, T:0.33
Consensus pattern (17 bp):
AATAATAATAATAGGTG
Found at i:118594913 original size:18 final size:19
Alignment explanation
Indices: 118594872--118594916 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
118594862 TAAAAAATTA
** *
118594872 AAAAAAATAAAAATTTGTT
1 AAAAAAATAAAAAGCTGGT
118594891 AAAAAAATAAAAAGCTGGT
1 AAAAAAATAAAAAGCTGGT
118594910 AAAAAAA
1 AAAAAAA
118594917 GTGACGGAGG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.69, C:0.02, G:0.09, T:0.20
Consensus pattern (19 bp):
AAAAAAATAAAAAGCTGGT
Found at i:118595066 original size:25 final size:25
Alignment explanation
Indices: 118595034--118595100 Score: 68
Period size: 25 Copynumber: 2.7 Consensus size: 25
118595024 CTATTAGATT
*
118595034 TTTTTCTCTTCTCTTTCTCCTTC-C
1 TTTTTCTCTTCTCTTTCTCATTCTC
*
118595058 TTCTTTCTC-TCTATTCTCTCATTCTC
1 TT-TTTCTCTTCTCTT-TCTCATTCTC
*
118595084 TTTTTCT-TTTTCTTTCT
1 TTTTTCTCTTCTCTTTCT
118595101 TCTTTTTCCC
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
24 10 0.29
25 22 0.63
26 3 0.09
ACGTcount: A:0.03, C:0.31, G:0.00, T:0.66
Consensus pattern (25 bp):
TTTTTCTCTTCTCTTTCTCATTCTC
Found at i:118595158 original size:18 final size:18
Alignment explanation
Indices: 118595130--118595172 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
118595120 CCACCCTCTC
118595130 CTTCTTC-TTCTCCTTCT
1 CTTCTTCTTTCTCCTTCT
* **
118595147 CTTTTTCTTTCTTTTTCT
1 CTTCTTCTTTCTCCTTCT
118595165 CTTCTTCT
1 CTTCTTCT
118595173 CCCTGCTTCT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 6 0.29
18 15 0.71
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (18 bp):
CTTCTTCTTTCTCCTTCT
Found at i:118595374 original size:21 final size:22
Alignment explanation
Indices: 118595348--118595388 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
118595338 CCTCCATCAC
*
118595348 TTTTTTTTACCAA-TTTTTTGG
1 TTTTTTTTAACAACTTTTTTGG
118595369 TTTTTTTTAACAACTTTTTT
1 TTTTTTTTAACAACTTTTTT
118595389 TTTTAATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.17, C:0.10, G:0.05, T:0.68
Consensus pattern (22 bp):
TTTTTTTTAACAACTTTTTTGG
Found at i:118595386 original size:22 final size:21
Alignment explanation
Indices: 118595348--118595411 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 21
118595338 CCTCCATCAC
*
118595348 TTTTTTTTACCAATTTTTTGG
1 TTTTTTTTAACAATTTTTTGG
118595369 TTTTTTTTAACAACTTTTTT--
1 TTTTTTTTAACAA-TTTTTTGG
118595389 TTTTAATTTTAACATATTTTTTG
1 TTTT--TTTTAACA-ATTTTTTG
118595412 TCAGATTTTG
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
20 4 0.11
21 12 0.32
22 20 0.54
23 1 0.03
ACGTcount: A:0.20, C:0.08, G:0.05, T:0.67
Consensus pattern (21 bp):
TTTTTTTTAACAATTTTTTGG
Found at i:118595663 original size:20 final size:20
Alignment explanation
Indices: 118595635--118595673 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
118595625 ACCACATATC
* *
118595635 AAAATTTTTAATGCTATACT
1 AAAACTTTTAACGCTATACT
118595655 AAAACTTTTAACGCTATAC
1 AAAACTTTTAACGCTATAC
118595674 CAATACTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.41, C:0.15, G:0.05, T:0.38
Consensus pattern (20 bp):
AAAACTTTTAACGCTATACT
Found at i:118597368 original size:12 final size:13
Alignment explanation
Indices: 118597346--118597376 Score: 55
Period size: 12 Copynumber: 2.5 Consensus size: 13
118597336 TGAATTATTC
118597346 AAATCTTCTTTTA
1 AAATCTTCTTTTA
118597359 AAAT-TTCTTTTA
1 AAATCTTCTTTTA
118597371 AAATCT
1 AAATCT
118597377 GGAATACTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
12 12 0.71
13 5 0.29
ACGTcount: A:0.35, C:0.13, G:0.00, T:0.52
Consensus pattern (13 bp):
AAATCTTCTTTTA
Found at i:118599590 original size:19 final size:19
Alignment explanation
Indices: 118599568--118599623 Score: 61
Period size: 19 Copynumber: 3.3 Consensus size: 19
118599558 GGATACATTG
118599568 AATAAAATCTTTATACTTA
1 AATAAAATCTTTATACTTA
*
118599587 AATAAAA----TACA-TTA
1 AATAAAATCTTTATACTTA
118599601 AA-AAAATCTTTATACTTA
1 AATAAAATCTTTATACTTA
118599619 AATAA
1 AATAA
118599624 CACTAAGATA
Statistics
Matches: 29, Mismatches: 2, Indels: 12
0.67 0.05 0.28
Matches are distributed among these distances:
13 4 0.14
14 5 0.17
15 3 0.10
17 3 0.10
18 5 0.17
19 9 0.31
ACGTcount: A:0.55, C:0.09, G:0.00, T:0.36
Consensus pattern (19 bp):
AATAAAATCTTTATACTTA
Found at i:118599609 original size:32 final size:33
Alignment explanation
Indices: 118599560--118599623 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 33
118599550 AACAAATTGG
*
118599560 ATACATTGAATAAAATCTTTATACTTAAATAAA
1 ATACATTGAAAAAAATCTTTATACTTAAATAAA
118599593 ATACATT-AAAAAAATCTTTATACTTAAATAA
1 ATACATTGAAAAAAATCTTTATACTTAAATAA
118599624 CACTAAGATA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 23 0.77
33 7 0.23
ACGTcount: A:0.53, C:0.09, G:0.02, T:0.36
Consensus pattern (33 bp):
ATACATTGAAAAAAATCTTTATACTTAAATAAA
Found at i:118600312 original size:13 final size:13
Alignment explanation
Indices: 118600294--118600320 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
118600284 AAAAAGTGAA
118600294 AGGGTACCGCCTG
1 AGGGTACCGCCTG
118600307 AGGGTACCGCCTG
1 AGGGTACCGCCTG
118600320 A
1 A
118600321 CAGAGTGGCG
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:0.19, C:0.30, G:0.37, T:0.15
Consensus pattern (13 bp):
AGGGTACCGCCTG
Found at i:118600700 original size:28 final size:27
Alignment explanation
Indices: 118600646--118600697 Score: 70
Period size: 28 Copynumber: 1.9 Consensus size: 27
118600636 AAACTATAAA
118600646 TTAAGGGCTTATTTAACTAAAAAATAGG
1 TTAAGGGCTTATTTAAC-AAAAAATAGG
* *
118600674 TTAAGGGCTTGTTTAA-AAATAATA
1 TTAAGGGCTTATTTAACAAAAAATA
118600698 TAGTGAGTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 7 0.32
28 15 0.68
ACGTcount: A:0.42, C:0.06, G:0.17, T:0.35
Consensus pattern (27 bp):
TTAAGGGCTTATTTAACAAAAAATAGG
Found at i:118601820 original size:25 final size:25
Alignment explanation
Indices: 118601759--118601818 Score: 79
Period size: 25 Copynumber: 2.4 Consensus size: 25
118601749 TATTTCATGC
*
118601759 TAATTTTTAAATATTTTATATTTTT
1 TAATTTTTAAATATTTTATATTTTA
*
118601784 TAACTTTTAAATATTTT-TAATTTTA
1 TAATTTTTAAATATTTTAT-ATTTTA
118601809 T-ATTTTTAAA
1 TAATTTTTAAA
118601819 ATTATCTGTT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
24 9 0.29
25 22 0.71
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (25 bp):
TAATTTTTAAATATTTTATATTTTA
Found at i:118601821 original size:16 final size:16
Alignment explanation
Indices: 118601761--118601821 Score: 63
Period size: 16 Copynumber: 3.8 Consensus size: 16
118601751 TTTCATGCTA
118601761 ATTTTTAAATATTTTAT
1 ATTTTTAAA-ATTTTAT
* *
118601778 ATTTTTTAACTTTTAAAT
1 ATTTTTAAAATTTT--AT
118601796 ATTTTT--AATTTTAT
1 ATTTTTAAAATTTTAT
118601810 ATTTTTAAAATT
1 ATTTTTAAAATT
118601822 ATCTGTTGAC
Statistics
Matches: 37, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
14 8 0.22
16 13 0.35
17 8 0.22
18 8 0.22
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (16 bp):
ATTTTTAAAATTTTAT
Found at i:118603142 original size:20 final size:21
Alignment explanation
Indices: 118603117--118603156 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
118603107 GGTTTATAAA
118603117 TAAATACTAA-TAATT-TTATT
1 TAAATA-TAATTAATTATTATT
118603137 TAAATATAATTAATTATTAT
1 TAAATATAATTAATTATTAT
118603157 AAATAAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 3 0.17
20 11 0.61
21 4 0.22
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (21 bp):
TAAATATAATTAATTATTATT
Found at i:118613162 original size:50 final size:50
Alignment explanation
Indices: 118613087--118613184 Score: 187
Period size: 50 Copynumber: 2.0 Consensus size: 50
118613077 TTATAGCAAA
118613087 CAGTTCAAATCATCAACATTCGAATTTAAAACCATGTGTACATTACCAAG
1 CAGTTCAAATCATCAACATTCGAATTTAAAACCATGTGTACATTACCAAG
*
118613137 CAGTTCAAATCATCAACATTCGAATTTAAAACTATGTGTACATTACCA
1 CAGTTCAAATCATCAACATTCGAATTTAAAACCATGTGTACATTACCA
118613185 CTATATCAAA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 47 1.00
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (50 bp):
CAGTTCAAATCATCAACATTCGAATTTAAAACCATGTGTACATTACCAAG
Found at i:118615345 original size:27 final size:27
Alignment explanation
Indices: 118615307--118615359 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
118615297 GCTTTCGAGA
*
118615307 AAGTAAATAATAGATATTTATTTAGAC
1 AAGTAAATAATAAATATTTATTTAGAC
*
118615334 AAGTAAATAATAAATCTTTATTTAGA
1 AAGTAAATAATAAATATTTATTTAGA
118615360 TAATTCTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.49, C:0.04, G:0.09, T:0.38
Consensus pattern (27 bp):
AAGTAAATAATAAATATTTATTTAGAC
Found at i:118616383 original size:21 final size:21
Alignment explanation
Indices: 118616330--118616384 Score: 83
Period size: 21 Copynumber: 2.6 Consensus size: 21
118616320 ACCGCTATTT
* *
118616330 CTAATCTCACCACTACAGTAT
1 CTAATCTCACCGCTACAGTAA
*
118616351 CCAATCTCACCGCTACAGTAA
1 CTAATCTCACCGCTACAGTAA
118616372 CTAATCTCACCGC
1 CTAATCTCACCGC
118616385 CACCGCTGTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.31, C:0.38, G:0.07, T:0.24
Consensus pattern (21 bp):
CTAATCTCACCGCTACAGTAA
Found at i:118631271 original size:13 final size:13
Alignment explanation
Indices: 118631255--118631282 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
118631245 AGTAATTAAC
118631255 TTCAAAATATGAT
1 TTCAAAATATGAT
118631268 TTCAAAATATGAT
1 TTCAAAATATGAT
118631281 TT
1 TT
118631283 ACTCTAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.43
Consensus pattern (13 bp):
TTCAAAATATGAT
Found at i:118635944 original size:25 final size:23
Alignment explanation
Indices: 118635899--118635942 Score: 72
Period size: 23 Copynumber: 1.9 Consensus size: 23
118635889 AAAATAGATA
118635899 GAATTTTTCTTCAATGAAAAAGT
1 GAATTTTTCTTCAATGAAAAAGT
118635922 GAATATTTT-TTCAATGAAAAA
1 GAAT-TTTTCTTCAATGAAAAA
118635943 AATGTAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 16 0.80
24 4 0.20
ACGTcount: A:0.43, C:0.07, G:0.11, T:0.39
Consensus pattern (23 bp):
GAATTTTTCTTCAATGAAAAAGT
Found at i:118641156 original size:46 final size:46
Alignment explanation
Indices: 118641101--118641192 Score: 184
Period size: 46 Copynumber: 2.0 Consensus size: 46
118641091 AAGAAAAAGA
118641101 AAACCAAGCTAAAGCACCATGAGGAAAATTAAAGCATCCTTACCGT
1 AAACCAAGCTAAAGCACCATGAGGAAAATTAAAGCATCCTTACCGT
118641147 AAACCAAGCTAAAGCACCATGAGGAAAATTAAAGCATCCTTACCGT
1 AAACCAAGCTAAAGCACCATGAGGAAAATTAAAGCATCCTTACCGT
118641193 CATTACCAAA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.43, C:0.24, G:0.15, T:0.17
Consensus pattern (46 bp):
AAACCAAGCTAAAGCACCATGAGGAAAATTAAAGCATCCTTACCGT
Found at i:118644184 original size:23 final size:22
Alignment explanation
Indices: 118644157--118644201 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
118644147 GATATTCGAA
118644157 TTTGTTAAATATTTAAATTTAAT
1 TTTGTTAAA-ATTTAAATTTAAT
**
118644180 TTTGTTAAAATTTTGATTTAAT
1 TTTGTTAAAATTTAAATTTAAT
118644202 GATAAGGTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 11 0.55
23 9 0.45
ACGTcount: A:0.36, C:0.00, G:0.07, T:0.58
Consensus pattern (22 bp):
TTTGTTAAAATTTAAATTTAAT
Found at i:118645105 original size:14 final size:15
Alignment explanation
Indices: 118645057--118645107 Score: 50
Period size: 16 Copynumber: 3.4 Consensus size: 15
118645047 TATAACTAGA
*
118645057 ATAAATAAATATATT
1 ATAATTAAATATATT
* * *
118645072 AAAATTAAACATGCTT
1 ATAATTAAATAT-ATT
118645088 ATAATTAAATAT-TT
1 ATAATTAAATATATT
118645102 ATAATT
1 ATAATT
118645108 TTGAAAAGTT
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
14 8 0.28
15 9 0.31
16 12 0.41
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.41
Consensus pattern (15 bp):
ATAATTAAATATATT
Found at i:118647551 original size:9 final size:9
Alignment explanation
Indices: 118647533--118647567 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
118647523 TGCAGCAGTT
*
118647533 GCTGCTGCG
1 GCTGCAGCG
118647542 GCTGCAGCG
1 GCTGCAGCG
*
118647551 GCTGCTGCG
1 GCTGCAGCG
118647560 GCTGCAGC
1 GCTGCAGC
118647568 TGATGCAGCT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.06, C:0.34, G:0.43, T:0.17
Consensus pattern (9 bp):
GCTGCAGCG
Found at i:118647554 original size:18 final size:18
Alignment explanation
Indices: 118647533--118647567 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
118647523 TGCAGCAGTT
118647533 GCTGCTGCGGCTGCAGCG
1 GCTGCTGCGGCTGCAGCG
118647551 GCTGCTGCGGCTGCAGC
1 GCTGCTGCGGCTGCAGC
118647568 TGATGCAGCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.06, C:0.34, G:0.43, T:0.17
Consensus pattern (18 bp):
GCTGCTGCGGCTGCAGCG
Found at i:118652990 original size:16 final size:16
Alignment explanation
Indices: 118652969--118653005 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
118652959 ATGTGAATAA
118652969 TATTATTTAAAA-TTAT
1 TATTA-TTAAAATTTAT
118652985 TATTATTAAAATTTAT
1 TATTATTAAAATTTAT
118653001 TATTA
1 TATTA
118653006 AAATAAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
TATTATTAAAATTTAT
Found at i:118653057 original size:22 final size:22
Alignment explanation
Indices: 118653017--118653074 Score: 68
Period size: 22 Copynumber: 2.8 Consensus size: 22
118653007 AATAAAATTG
*
118653017 AAATATTAAA-TA-ATTTATTA
1 AAATAATAAATTATATTTATTA
118653037 AAATAATAAATTATATTTATTA
1 AAATAATAAATTATATTTATTA
* *
118653059 TATTAATAAATT-TATT
1 AAATAATAAATTATATT
118653075 ATATGAATAA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 9 0.27
21 6 0.18
22 18 0.55
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
AAATAATAAATTATATTTATTA
Found at i:118653073 original size:17 final size:17
Alignment explanation
Indices: 118653051--118653086 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
118653041 AATAAATTAT
*
118653051 ATTTATTATATTAATAA
1 ATTTATTATATGAATAA
118653068 ATTTATTATATGAATAA
1 ATTTATTATATGAATAA
118653085 AT
1 AT
118653087 ATAAATAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (17 bp):
ATTTATTATATGAATAA
Found at i:118653904 original size:15 final size:15
Alignment explanation
Indices: 118653884--118653914 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
118653874 ATTATATAAT
118653884 ATATAAAATAATATA
1 ATATAAAATAATATA
*
118653899 ATATAAAATATTATA
1 ATATAAAATAATATA
118653914 A
1 A
118653915 ACTTAAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (15 bp):
ATATAAAATAATATA
Found at i:118654020 original size:19 final size:19
Alignment explanation
Indices: 118653998--118654035 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
118653988 TAATTTTTTG
*
118653998 TCTAA-ATTTATTTTTTAAA
1 TCTAATATTT-TTATTTAAA
118654017 TCTAATATTTTTATTTAAA
1 TCTAATATTTTTATTTAAA
118654036 CTCTCTAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (19 bp):
TCTAATATTTTTATTTAAA
Found at i:118655434 original size:33 final size:33
Alignment explanation
Indices: 118655379--118655443 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
118655369 TGGGACCTAA
118655379 ATTTTTTTATTCAATTCAGTACCTAAACTTGAC
1 ATTTTTTTATTCAATTCAGTACCTAAACTTGAC
**
118655412 ATTTTTTT-TTCTAATTTGGTACCTAAACTTGA
1 ATTTTTTTATTC-AATTCAGTACCTAAACTTGA
118655444 TAGCTTTTCT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 3 0.10
33 26 0.90
ACGTcount: A:0.28, C:0.15, G:0.08, T:0.49
Consensus pattern (33 bp):
ATTTTTTTATTCAATTCAGTACCTAAACTTGAC
Found at i:118659601 original size:33 final size:35
Alignment explanation
Indices: 118659536--118659601 Score: 82
Period size: 34 Copynumber: 1.9 Consensus size: 35
118659526 ATGTGAAATT
* * *
118659536 ATATATTTGTTTTATAATTTTGTAATATTATAATA
1 ATATATTTGTTTTAAAAATTTGTAATACTATAATA
*
118659571 ATAT-TTTGTTTTAAAAATTT-TATTACTATAA
1 ATATATTTGTTTTAAAAATTTGTAATACTATAA
118659602 CTTAAAAATA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
33 9 0.33
34 14 0.52
35 4 0.15
ACGTcount: A:0.38, C:0.02, G:0.05, T:0.56
Consensus pattern (35 bp):
ATATATTTGTTTTAAAAATTTGTAATACTATAATA
Found at i:118664865 original size:3 final size:3
Alignment explanation
Indices: 118664857--118664902 Score: 65
Period size: 3 Copynumber: 14.3 Consensus size: 3
118664847 AAGGCTCGAT
118664857 TTA TTA TTA TTA TTA TTA TTA TTAA TTA TTAA TTA TTAA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TT-A TTA TT-A TTA TT-A TTA TTA T
118664903 ATACTTTCTT
Statistics
Matches: 40, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
3 31 0.77
4 9 0.22
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:118664886 original size:7 final size:7
Alignment explanation
Indices: 118664857--118664901 Score: 69
Period size: 7 Copynumber: 6.9 Consensus size: 7
118664847 AAGGCTCGAT
118664857 TTATT-A
1 TTATTAA
118664863 TTATT-A
1 TTATTAA
118664869 TTATT-A
1 TTATTAA
118664875 TTATTAA
1 TTATTAA
118664882 TTATTAA
1 TTATTAA
118664889 TTATTAA
1 TTATTAA
118664896 TTATTA
1 TTATTA
118664902 TATACTTTCT
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 17 0.45
7 21 0.55
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (7 bp):
TTATTAA
Found at i:118666343 original size:24 final size:25
Alignment explanation
Indices: 118666314--118666426 Score: 74
Period size: 24 Copynumber: 4.6 Consensus size: 25
118666304 TATATTTAAA
*
118666314 TAATTAAATATAGTTTATA-TATTC
1 TAATTAAATATAATTTATAGTATTC
* **
118666338 TAATTAAATTTAATAAATAGTCAATATC
1 TAATTAAATATAATTTATAGT--AT-TC
* *
118666366 TAATTACAA-AT-ATTTA-ATTATTA
1 TAATTA-AATATAATTTATAGTATTC
* *
118666389 TATTTAAATAAAATTTATA-TATTC
1 TAATTAAATATAATTTATAGTATTC
*
118666413 TAATTAAATTTAAT
1 TAATTAAATATAAT
118666427 AAAATTAATA
Statistics
Matches: 66, Mismatches: 15, Indels: 16
0.68 0.15 0.16
Matches are distributed among these distances:
22 2 0.03
23 7 0.11
24 37 0.56
25 2 0.03
26 2 0.03
27 5 0.08
28 9 0.14
29 2 0.03
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (25 bp):
TAATTAAATATAATTTATAGTATTC
Found at i:118671261 original size:12 final size:12
Alignment explanation
Indices: 118671241--118671270 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
118671231 AATTATTTTT
*
118671241 TTAAATAAAATA
1 TTAATTAAAATA
118671253 TTAATTAAAATA
1 TTAATTAAAATA
118671265 TTAATT
1 TTAATT
118671271 TTTAAACATG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (12 bp):
TTAATTAAAATA
Found at i:118676723 original size:22 final size:22
Alignment explanation
Indices: 118676698--118676742 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
118676688 TTCCATGTAC
118676698 TTATACTTATTTCGTTTATCTA
1 TTATACTTATTTCGTTTATCTA
*
118676720 TTATATTTATTTCGTTTATCTA
1 TTATACTTATTTCGTTTATCTA
118676742 T
1 T
118676743 CTTCATAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.22, C:0.11, G:0.04, T:0.62
Consensus pattern (22 bp):
TTATACTTATTTCGTTTATCTA
Found at i:118677140 original size:46 final size:46
Alignment explanation
Indices: 118676921--118677146 Score: 283
Period size: 46 Copynumber: 4.9 Consensus size: 46
118676911 TTGACATGAG
* * * * **
118676921 GCCATAGTGTCTTTCAACTATAGTCTTACTCATTTTC-TATCATATT
1 GCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCATATCACGTT
* * * *
118676967 GCCATGATATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGTT
1 GCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCACGTT
*
118677013 GCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCACGTT
1 GCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCACGTT
* * *
118677059 GCCATGGTATCTTTTAACCATGGTCTTACACATTTCATATCAGGTT
1 GCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCACGTT
* * *
118677105 GCCATGGTATCTTTCAACCATGATCTTACACATTTCAGATCA
1 GCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCA
118677147 GAGAGCACAC
Statistics
Matches: 159, Mismatches: 20, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
45 4 0.03
46 155 0.97
ACGTcount: A:0.23, C:0.23, G:0.12, T:0.41
Consensus pattern (46 bp):
GCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCACGTT
Found at i:118679233 original size:11 final size:11
Alignment explanation
Indices: 118679217--118679276 Score: 57
Period size: 11 Copynumber: 5.2 Consensus size: 11
118679207 CTTTATATAC
118679217 TAATAAAATAA
1 TAATAAAATAA
118679228 TAATAAAATAA
1 TAATAAAATAA
* *
118679239 TAAAAAAAATATCT
1 T-AATAAAATA--A
* *
118679253 TATTAAAATAT
1 TAATAAAATAA
118679264 TAATAAAATAA
1 TAATAAAATAA
118679275 TA
1 TA
118679277 TTTATCTAAT
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
11 24 0.60
12 8 0.20
13 7 0.17
14 1 0.03
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.32
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:118679261 original size:25 final size:26
Alignment explanation
Indices: 118679217--118679281 Score: 70
Period size: 25 Copynumber: 2.7 Consensus size: 26
118679207 CTTTATATAC
118679217 TAATAAAATAATA---A-TAAAATAA
1 TAATAAAATAATATTTATTAAAATAA
*
118679239 TAA-AAAA-AATATCTTATTAAAATAT
1 TAATAAAATAATAT-TTATTAAAATAA
118679264 TAATAAAATAATATTTAT
1 TAATAAAATAATATTTAT
118679282 CTAATTAAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
20 4 0.11
21 4 0.11
22 3 0.09
24 1 0.03
25 10 0.29
26 8 0.23
27 5 0.14
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (26 bp):
TAATAAAATAATATTTATTAAAATAA
Found at i:118685931 original size:16 final size:16
Alignment explanation
Indices: 118685893--118685934 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
118685883 TAAAGGATTA
*
118685893 TACAAAATCTTCAATTC
1 TACAAAATC-TCAACTC
*
118685910 TA-AAAATCTCAACTG
1 TACAAAATCTCAACTC
118685925 TACAAAATCT
1 TACAAAATCT
118685935 AGAATCAAGC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
15 7 0.32
16 13 0.59
17 2 0.09
ACGTcount: A:0.45, C:0.21, G:0.02, T:0.31
Consensus pattern (16 bp):
TACAAAATCTCAACTC
Found at i:118685988 original size:12 final size:12
Alignment explanation
Indices: 118685973--118685997 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
118685963 GAAAGTTCAA
118685973 AATCATCAGAAG
1 AATCATCAGAAG
118685985 AATCATCAGAAG
1 AATCATCAGAAG
118685997 A
1 A
118685998 GTCTGAATTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.16, G:0.16, T:0.16
Consensus pattern (12 bp):
AATCATCAGAAG
Found at i:118693270 original size:51 final size:51
Alignment explanation
Indices: 118693175--118693289 Score: 144
Period size: 51 Copynumber: 2.3 Consensus size: 51
118693165 AAGTATTGCA
*
118693175 GGCTAAATTTGTTAAATCAAGATCAAATTACTAAAATATATAAATGTT-ATG
1 GGCTAAATTTGTTAAATCAAGACCAAATTACTAAAATATATAAATGTTGA-G
* * * * *
118693226 GGCTAAATATGTTAAATCAAGACCAAATTGAC-AGAATGTGTAAATTTTGAG
1 GGCTAAATTTGTTAAATCAAGACCAAATT-ACTAAAATATATAAATGTTGAG
118693277 GGCTAAATTTGTT
1 GGCTAAATTTGTT
118693290 TTTATAAAAT
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
51 52 0.95
52 3 0.05
ACGTcount: A:0.41, C:0.09, G:0.17, T:0.34
Consensus pattern (51 bp):
GGCTAAATTTGTTAAATCAAGACCAAATTACTAAAATATATAAATGTTGAG
Found at i:118695857 original size:41 final size:41
Alignment explanation
Indices: 118695800--118695880 Score: 153
Period size: 41 Copynumber: 2.0 Consensus size: 41
118695790 TGTATCCTTA
118695800 ATTTAATCATCAAAATTTATCTTCAATTTCCTTTTCATAGT
1 ATTTAATCATCAAAATTTATCTTCAATTTCCTTTTCATAGT
*
118695841 ATTTAATCATCAAAATTTGTCTTCAATTTCCTTTTCATAG
1 ATTTAATCATCAAAATTTATCTTCAATTTCCTTTTCATAG
118695881 ATTCCTTTAA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.31, C:0.17, G:0.04, T:0.48
Consensus pattern (41 bp):
ATTTAATCATCAAAATTTATCTTCAATTTCCTTTTCATAGT
Done.