Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009579.1 Hibiscus syriacus cultivar Beakdansim tig00116951_pilon, whole genome shotgun sequence
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: 6215474
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 17 of 29
Found at i:3128983 original size:25 final size:25
Alignment explanation
Indices: 3128955--3129005 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
3128945 TTAAACAAGC
*
3128955 ACAAATAATAATTATTTACACATCA
1 ACAAATAAGAATTATTTACACATCA
3128980 ACAAATAAGAATTATTTACACATCA
1 ACAAATAAGAATTATTTACACATCA
3129005 A
1 A
3129006 TTAAACAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.53, C:0.16, G:0.02, T:0.29
Consensus pattern (25 bp):
ACAAATAAGAATTATTTACACATCA
Found at i:3130456 original size:21 final size:21
Alignment explanation
Indices: 3130428--3130504 Score: 75
Period size: 21 Copynumber: 3.7 Consensus size: 21
3130418 ACGATAACAT
3130428 GGGCCTCTTGAACGGTGGGAG
1 GGGCCTCTTGAACGGTGGGAG
* * **
3130449 GGGACTCTTG-AGGGATGATAG
1 GGGCCTCTTGAACGG-TGGGAG
* *
3130470 GGGCCTCTTGAACGATAGGAG
1 GGGCCTCTTGAACGGTGGGAG
*
3130491 AGGCCTCTTGAACG
1 GGGCCTCTTGAACG
3130505 ATGACAGGTG
Statistics
Matches: 43, Mismatches: 11, Indels: 4
0.74 0.19 0.07
Matches are distributed among these distances:
20 3 0.07
21 38 0.88
22 2 0.05
ACGTcount: A:0.21, C:0.18, G:0.40, T:0.21
Consensus pattern (21 bp):
GGGCCTCTTGAACGGTGGGAG
Found at i:3130508 original size:42 final size:42
Alignment explanation
Indices: 3130428--3130508 Score: 108
Period size: 42 Copynumber: 1.9 Consensus size: 42
3130418 ACGATAACAT
* * * **
3130428 GGGCCTCTTGAACGGTGGGAGGGGACTCTTGAGGGATGATAG
1 GGGCCTCTTGAACGATAGGAGAGGACTCTTGAACGATGATAG
*
3130470 GGGCCTCTTGAACGATAGGAGAGGCCTCTTGAACGATGA
1 GGGCCTCTTGAACGATAGGAGAGGACTCTTGAACGATGA
3130509 CAGGTGAGTC
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 33 1.00
ACGTcount: A:0.22, C:0.17, G:0.40, T:0.21
Consensus pattern (42 bp):
GGGCCTCTTGAACGATAGGAGAGGACTCTTGAACGATGATAG
Found at i:3131016 original size:20 final size:21
Alignment explanation
Indices: 3130991--3131034 Score: 72
Period size: 20 Copynumber: 2.1 Consensus size: 21
3130981 ATAGTTTCTG
*
3130991 AAACTTAAAATCGCAACAC-A
1 AAACTTAAAAGCGCAACACGA
3131011 AAACTTAAAAGCGCAACACGA
1 AAACTTAAAAGCGCAACACGA
3131032 AAA
1 AAA
3131035 TGATTATCGC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 18 0.82
21 4 0.18
ACGTcount: A:0.57, C:0.23, G:0.09, T:0.11
Consensus pattern (21 bp):
AAACTTAAAAGCGCAACACGA
Found at i:3131045 original size:20 final size:20
Alignment explanation
Indices: 3131022--3131094 Score: 94
Period size: 20 Copynumber: 3.7 Consensus size: 20
3131012 AACTTAAAAG
* *
3131022 CGCAACACGAAAATGATTAT
1 CGCAACGCGAAAATGACTAT
**
3131042 CGCAACGCGAATTTGACTAT
1 CGCAACGCGAAAATGACTAT
3131062 CGCAACGCG-AAATGACTAT
1 CGCAACGCGAAAATGACTAT
*
3131081 CGCAACGAGAAAAT
1 CGCAACGCGAAAAT
3131095 CGCAACGCGA
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
19 16 0.36
20 29 0.64
ACGTcount: A:0.40, C:0.23, G:0.19, T:0.18
Consensus pattern (20 bp):
CGCAACGCGAAAATGACTAT
Found at i:3131118 original size:19 final size:19
Alignment explanation
Indices: 3131090--3131126 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
3131080 TCGCAACGAG
3131090 AAAATCGCAACGCGAAACC
1 AAAATCGCAACGCGAAACC
*
3131109 AAAATTGCAACGCGAAAC
1 AAAATCGCAACGCGAAAC
3131127 TAAATTCGCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.49, C:0.27, G:0.16, T:0.08
Consensus pattern (19 bp):
AAAATCGCAACGCGAAACC
Found at i:3131160 original size:20 final size:20
Alignment explanation
Indices: 3131131--3131237 Score: 100
Period size: 20 Copynumber: 5.7 Consensus size: 20
3131121 CGAAACTAAA
3131131 TTCGCGTTGCGATAGTCATT
1 TTCGCGTTGCGATAGTCATT
*
3131151 TTCGCATTGCGAT--T-A--
1 TTCGCGTTGCGATAGTCATT
* ** **
3131166 -TCCCGTTGATATAGTCAAA
1 TTCGCGTTGCGATAGTCATT
3131185 TTCGCGTTGCGATAGTCATT
1 TTCGCGTTGCGATAGTCATT
*
3131205 TTCGCGTTGCGATAGTCGTT
1 TTCGCGTTGCGATAGTCATT
*
3131225 TTCGCATTGCGAT
1 TTCGCGTTGCGAT
3131238 TATCCCGTTG
Statistics
Matches: 69, Mismatches: 12, Indels: 12
0.74 0.13 0.13
Matches are distributed among these distances:
14 8 0.12
16 1 0.01
17 2 0.03
18 1 0.01
20 57 0.83
ACGTcount: A:0.18, C:0.21, G:0.23, T:0.38
Consensus pattern (20 bp):
TTCGCGTTGCGATAGTCATT
Found at i:3131220 original size:74 final size:74
Alignment explanation
Indices: 3131131--3131270 Score: 246
Period size: 74 Copynumber: 1.9 Consensus size: 74
3131121 CGAAACTAAA
3131131 TTCGCGTTGCGATAGTCATTTTCGCATTGCGATTATCCCGTTGAT-ATAGTCAAATTCGCGTTGC
1 TTCGCGTTGCGATAGTCATTTTCGCATTGCGATTATCCCGTTG-TGATAGTCAAATTCGCGTTGC
3131195 GATAGTCATT
65 GATAGTCATT
* *
3131205 TTCGCGTTGCGATAGTCGTTTTCGCATTGCGATTATCCCGTTGTGATAGTCAAATTCGTGTTGCG
1 TTCGCGTTGCGATAGTCATTTTCGCATTGCGATTATCCCGTTGTGATAGTCAAATTCGCGTTGCG
3131270 A
66 A
3131271 CTATTCCTCT
Statistics
Matches: 63, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
73 1 0.02
74 62 0.98
ACGTcount: A:0.19, C:0.20, G:0.24, T:0.38
Consensus pattern (74 bp):
TTCGCGTTGCGATAGTCATTTTCGCATTGCGATTATCCCGTTGTGATAGTCAAATTCGCGTTGCG
ATAGTCATT
Found at i:3131269 original size:34 final size:34
Alignment explanation
Indices: 3131135--3131270 Score: 103
Period size: 34 Copynumber: 3.8 Consensus size: 34
3131125 ACTAAATTCG
* ** *
3131135 CGTTGCGATAGTCATTTTCGCATTGCGATTATCC
1 CGTTGTGATAGTCAAATTCGCGTTGCGATTATCC
*
3131169 CGTTGAT-ATAGTCAAATTCGCGTTGCGATAGTCATTTTCG
1 CGTTG-TGATAGTCAAATTCGCGTTGCGAT--T-A---TCC
* *** *
3131209 CGTTGCGATAGTCGTTTTCGCATTGCGATTATCC
1 CGTTGTGATAGTCAAATTCGCGTTGCGATTATCC
*
3131243 CGTTGTGATAGTCAAATTCGTGTTGCGA
1 CGTTGTGATAGTCAAATTCGCGTTGCGA
3131271 CTATTCCTCT
Statistics
Matches: 77, Mismatches: 17, Indels: 16
0.70 0.15 0.15
Matches are distributed among these distances:
34 48 0.62
36 1 0.01
37 2 0.03
38 1 0.01
40 25 0.32
ACGTcount: A:0.19, C:0.20, G:0.24, T:0.38
Consensus pattern (34 bp):
CGTTGTGATAGTCAAATTCGCGTTGCGATTATCC
Found at i:3133320 original size:20 final size:20
Alignment explanation
Indices: 3133271--3133311 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
3133261 TCTGAAACTT
3133271 AAAATCGCAACACGAAAATG
1 AAAATCGCAACACGAAAATG
3133291 AAAATCGCAACACGAAAATG
1 AAAATCGCAACACGAAAATG
3133311 A
1 A
3133312 TTATCGCAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.56, C:0.20, G:0.15, T:0.10
Consensus pattern (20 bp):
AAAATCGCAACACGAAAATG
Found at i:3133326 original size:20 final size:20
Alignment explanation
Indices: 3133274--3133320 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
3133264 GAAACTTAAA
*
3133274 ATCGCAACACGAAAATGAAA
1 ATCGCAACACGAAAATGAAT
*
3133294 ATCGCAACACGAAAATGATT
1 ATCGCAACACGAAAATGAAT
3133314 ATCGCAA
1 ATCGCAA
3133321 TGCGAATTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.49, C:0.21, G:0.15, T:0.15
Consensus pattern (20 bp):
ATCGCAACACGAAAATGAAT
Found at i:3133765 original size:22 final size:22
Alignment explanation
Indices: 3133738--3133807 Score: 113
Period size: 22 Copynumber: 3.2 Consensus size: 22
3133728 GGAGATAGAC
3133738 GGATTTCGTCGGAGATGGGGAT
1 GGATTTCGTCGGAGATGGGGAT
* *
3133760 GGATTTCGCCGGAAATGGGGAT
1 GGATTTCGTCGGAGATGGGGAT
*
3133782 GGATTTCGTCGGAGATGGGGAC
1 GGATTTCGTCGGAGATGGGGAT
3133804 GGAT
1 GGAT
3133808 GTTGCCGTAG
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 43 1.00
ACGTcount: A:0.20, C:0.11, G:0.44, T:0.24
Consensus pattern (22 bp):
GGATTTCGTCGGAGATGGGGAT
Found at i:3133996 original size:20 final size:20
Alignment explanation
Indices: 3133971--3134076 Score: 133
Period size: 20 Copynumber: 5.2 Consensus size: 20
3133961 TTATCGCAAC
*
3133971 GCGATAGTCAGAATCTCGTT
1 GCGATAGTCAGAATCGCGTT
3133991 GCGATAGTCAGAATCGCGTT
1 GCGATAGTCAGAATCGCGTT
**
3134011 GCGATCACGT-ATTATCGCGTT
1 GCGAT-A-GTCAGAATCGCGTT
*
3134032 GCGATAGTCCGAATCGCGTT
1 GCGATAGTCAGAATCGCGTT
*
3134052 GCGATAGTCAAAATCGCGTT
1 GCGATAGTCAGAATCGCGTT
*
3134072 ACGAT
1 GCGAT
3134077 CACGTATTAT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
19 2 0.03
20 55 0.74
21 15 0.20
22 2 0.03
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.27
Consensus pattern (20 bp):
GCGATAGTCAGAATCGCGTT
Found at i:3134036 original size:61 final size:61
Alignment explanation
Indices: 3133971--3134097 Score: 218
Period size: 61 Copynumber: 2.1 Consensus size: 61
3133961 TTATCGCAAC
* * *
3133971 GCGATAGTCAGAATCTCGTTGCGATAGTCAGAATCGCGTTGCGATCACGTATTATCGCGTT
1 GCGATAGTCAGAATCGCGTTGCGATAGTCAAAATCGCGTTACGATCACGTATTATCGCGTT
*
3134032 GCGATAGTCCGAATCGCGTTGCGATAGTCAAAATCGCGTTACGATCACGTATTATCGCGTT
1 GCGATAGTCAGAATCGCGTTGCGATAGTCAAAATCGCGTTACGATCACGTATTATCGCGTT
3134093 GCGAT
1 GCGAT
3134098 TTACATATTC
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
61 62 1.00
ACGTcount: A:0.24, C:0.22, G:0.26, T:0.28
Consensus pattern (61 bp):
GCGATAGTCAGAATCGCGTTGCGATAGTCAAAATCGCGTTACGATCACGTATTATCGCGTT
Found at i:3134114 original size:20 final size:20
Alignment explanation
Indices: 3134086--3134132 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
3134076 TCACGTATTA
*
3134086 TCGCGTTGCGATTTACATAT
1 TCGCATTGCGATTTACATAT
3134106 TCGCATTGCGATTTACATAT
1 TCGCATTGCGATTTACATAT
3134126 TCGCATT
1 TCGCATT
3134133 AAATCGCAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.21, C:0.21, G:0.17, T:0.40
Consensus pattern (20 bp):
TCGCATTGCGATTTACATAT
Found at i:3134235 original size:19 final size:19
Alignment explanation
Indices: 3134201--3134249 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 19
3134191 TGGAAACTGA
*
3134201 ATTGCGATAATAGAGATCGC
1 ATTGCGAT-TTAGAGATCGC
*
3134221 GTTGCGATTTAGAGATCGC
1 ATTGCGATTTAGAGATCGC
3134240 ATTGCGATTT
1 ATTGCGATTT
3134250 TGTTGGTCAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 19 0.73
20 7 0.27
ACGTcount: A:0.27, C:0.14, G:0.27, T:0.33
Consensus pattern (19 bp):
ATTGCGATTTAGAGATCGC
Found at i:3138764 original size:21 final size:21
Alignment explanation
Indices: 3138731--3138779 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 21
3138721 AATTTATTCA
*
3138731 AAAATATT-TAAAA-TGAATT
1 AAAATATTGTAAAATTGAAAT
3138750 AAAATATTGTAAAAATTGAAAT
1 AAAATATTGT-AAAATTGAAAT
3138772 AAAA-ATTG
1 AAAATATTG
3138780 ATTTAACCGC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
19 8 0.31
20 1 0.04
21 8 0.31
22 9 0.35
ACGTcount: A:0.59, C:0.00, G:0.08, T:0.33
Consensus pattern (21 bp):
AAAATATTGTAAAATTGAAAT
Found at i:3146959 original size:26 final size:26
Alignment explanation
Indices: 3146925--3146984 Score: 111
Period size: 26 Copynumber: 2.3 Consensus size: 26
3146915 TTCCCTAGCC
3146925 ATTTTTGCCTTCAATTCTTCAATATG
1 ATTTTTGCCTTCAATTCTTCAATATG
3146951 ATTTTTGCCTTCAATTCTTCAATATG
1 ATTTTTGCCTTCAATTCTTCAATATG
*
3146977 ATATTTGC
1 ATTTTTGC
3146985 ACATAATGAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.23, C:0.18, G:0.08, T:0.50
Consensus pattern (26 bp):
ATTTTTGCCTTCAATTCTTCAATATG
Found at i:3157167 original size:2 final size:2
Alignment explanation
Indices: 3157160--3157185 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
3157150 ATAATTTCTC
3157160 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
3157186 ATCCAAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:3161322 original size:52 final size:52
Alignment explanation
Indices: 3161256--3161364 Score: 184
Period size: 52 Copynumber: 2.1 Consensus size: 52
3161246 AAAATTAATC
*
3161256 ACTA-AAATTATCAATTTATAATAAATTAATCACTCACCATTAAATATTGTT
1 ACTATAAATTATCAATTTATAATAAATTAATCACTCACCATTAAATATGGTT
**
3161307 ACTATAAATTATCAATTTATAATAAATTAATCACTCGTCATTAAATATGGTT
1 ACTATAAATTATCAATTTATAATAAATTAATCACTCACCATTAAATATGGTT
3161359 ACTATA
1 ACTATA
3161365 GTACCAAAAT
Statistics
Matches: 54, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
51 4 0.07
52 50 0.93
ACGTcount: A:0.44, C:0.13, G:0.04, T:0.39
Consensus pattern (52 bp):
ACTATAAATTATCAATTTATAATAAATTAATCACTCACCATTAAATATGGTT
Found at i:3166045 original size:15 final size:15
Alignment explanation
Indices: 3166008--3166056 Score: 66
Period size: 15 Copynumber: 3.3 Consensus size: 15
3165998 AAAAAAGAAA
3166008 ATAAATAATAAATAA-
1 ATAAAT-ATAAATAAT
3166023 ATAAATATAAATAAT
1 ATAAATATAAATAAT
3166038 ATAAATAT-AATATAT
1 ATAAATATAAATA-AT
3166053 ATAA
1 ATAA
3166057 TGTAAAGAGA
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
14 12 0.38
15 20 0.62
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
ATAAATATAAATAAT
Found at i:3166049 original size:11 final size:11
Alignment explanation
Indices: 3166008--3166051 Score: 51
Period size: 11 Copynumber: 4.3 Consensus size: 11
3165998 AAAAAAGAAA
3166008 ATAAATAATAA-
1 ATAAAT-ATAAT
3166019 ATAAATA-AAT
1 ATAAATATAAT
3166029 AT-AA-ATAAT
1 ATAAATATAAT
3166038 ATAAATATAAT
1 ATAAATATAAT
3166049 ATA
1 ATA
3166052 TATAATGTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
8 1 0.03
9 9 0.31
10 5 0.17
11 14 0.48
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (11 bp):
ATAAATATAAT
Found at i:3166251 original size:38 final size:38
Alignment explanation
Indices: 3166096--3166271 Score: 212
Period size: 38 Copynumber: 4.6 Consensus size: 38
3166086 CAAGCATATA
* * * * *
3166096 ATAATATAATATGTTTTAAAAAAACATTTTTAAAATTAT
1 ATAATAT-ATATATTTTCAAAAATCATTTTCAAAACTAT
*
3166135 ATATATATATATATATATTCAAAAATTATTTTCAAAACTAT
1 ATA-ATATATATAT-T-TTCAAAAATCATTTTCAAAACTAT
* *
3166176 AT-A-ATATATGTTTTCAAAAATTAATTTTCAAAACTAT
1 ATAATATATATATTTTCAAAAA-TCATTTTCAAAACTAT
*
3166213 ATAATATATATATTTTCAAAAATCGTTTTCAAAACTAT
1 ATAATATATATATTTTCAAAAATCATTTTCAAAACTAT
3166251 ATAATATATATATTTTCAAAA
1 ATAATATATATATTTTCAAAA
3166272 TTATATAATA
Statistics
Matches: 120, Mismatches: 11, Indels: 13
0.83 0.08 0.09
Matches are distributed among these distances:
36 8 0.07
37 18 0.15
38 43 0.36
39 25 0.21
40 5 0.04
41 21 0.17
ACGTcount: A:0.48, C:0.07, G:0.02, T:0.43
Consensus pattern (38 bp):
ATAATATATATATTTTCAAAAATCATTTTCAAAACTAT
Found at i:3166258 original size:75 final size:77
Alignment explanation
Indices: 3166104--3166259 Score: 221
Period size: 75 Copynumber: 2.1 Consensus size: 77
3166094 TAATAATATA
* * *
3166104 ATATGTTTTAAAAAAACATTTTTAAAATTATATATATATATATATATATTCAAAAATTATTTTCA
1 ATATGTTTTAAAAAAACATTTTCAAAACTATATATATATATATATATATTCAAAAATCATTTTCA
3166169 AAACTATATAAT
66 AAACTATATAAT
* *
3166181 ATATGTTTTCAAAAATTA-ATTTTCAAAACTATATA-ATATATATAT-T-TTCAAAAATCGTTTT
1 ATATGTTTT-AAAAA-AACATTTTCAAAACTATATATATATATATATATATTCAAAAATCATTTT
3166242 CAAAACTATATAAT
64 CAAAACTATATAAT
3166256 ATAT
1 ATAT
3166260 ATATTTTCAA
Statistics
Matches: 72, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
75 31 0.43
76 1 0.01
77 19 0.26
78 20 0.28
79 1 0.01
ACGTcount: A:0.47, C:0.07, G:0.02, T:0.44
Consensus pattern (77 bp):
ATATGTTTTAAAAAAACATTTTCAAAACTATATATATATATATATATATTCAAAAATCATTTTCA
AAACTATATAAT
Found at i:3166267 original size:25 final size:25
Alignment explanation
Indices: 3166238--3166296 Score: 109
Period size: 25 Copynumber: 2.4 Consensus size: 25
3166228 TCAAAAATCG
3166238 TTTTCAAAACTATATAATATATATA
1 TTTTCAAAACTATATAATATATATA
*
3166263 TTTTCAAAATTATATAATATATATA
1 TTTTCAAAACTATATAATATATATA
3166288 TTTTCAAAA
1 TTTTCAAAA
3166297 ATAGATTTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.46
Consensus pattern (25 bp):
TTTTCAAAACTATATAATATATATA
Found at i:3166305 original size:102 final size:100
Alignment explanation
Indices: 3166161--3166379 Score: 266
Period size: 102 Copynumber: 2.2 Consensus size: 100
3166151 ATTCAAAAAT
* * *
3166161 TATTTTCAAAACTATATAATATATGTTTTCAAAAATTAA-TTTTCAAAACTATATAATATATATA
1 TATTTTCAAAATTATATAATATATATTTTCAAAAATTAATTTTTAAAAACTATAT-AT-TATATA
* *
3166225 TTTTCAAAAATCGTTTTC-AAAACTATATAATATATA
64 TTTTCAAAAACCATTTTCAAAAACTATATAATATATA
*
3166261 TATTTTCAAAATTATATAATATATATATTTTCAAAAA-TAGATTTTTTAAAAAGTATATATTATA
1 TATTTTCAAAATTATAT-A-ATATATATTTTCAAAAATTA-A-TTTTTAAAAACTATATATTATA
* *
3166325 TGTTTTCAAAAACCATTTTCTAAAAACTATATATTATATA
62 TATTTTCAAAAACCATTTTC-AAAAACTATATAATATATA
*
3166365 T-TTTTAAAAATTATA
1 TATTTTCAAAATTATA
3166380 ATATATTAAA
Statistics
Matches: 103, Mismatches: 9, Indels: 11
0.84 0.07 0.09
Matches are distributed among these distances:
100 16 0.16
101 3 0.03
102 38 0.37
103 15 0.15
104 31 0.30
ACGTcount: A:0.46, C:0.07, G:0.02, T:0.45
Consensus pattern (100 bp):
TATTTTCAAAATTATATAATATATATTTTCAAAAATTAATTTTTAAAAACTATATATTATATATT
TTCAAAAACCATTTTCAAAAACTATATAATATATA
Found at i:3166325 original size:39 final size:39
Alignment explanation
Indices: 3166263--3166375 Score: 129
Period size: 38 Copynumber: 2.9 Consensus size: 39
3166253 AATATATATA
* * *
3166263 TTTTCAAAATTATATAATATATATATTTTCAAAAATAGATT
1 TTTTAAAAACTATAT-AT-TATATATTTTCAAAAATACATT
* * *
3166304 TTTTAAAAAGTATATATTATATGTTTTCAAAAA-CCATT
1 TTTTAAAAACTATATATTATATATTTTCAAAAATACATT
* *
3166342 TTCTAAAAACTATATATTATATATTTTTAAAAAT
1 TTTTAAAAACTATATATTATATATTTTCAAAAAT
3166376 TATAATATAT
Statistics
Matches: 62, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
38 32 0.52
39 15 0.24
40 2 0.03
41 13 0.21
ACGTcount: A:0.45, C:0.06, G:0.03, T:0.46
Consensus pattern (39 bp):
TTTTAAAAACTATATATTATATATTTTCAAAAATACATT
Found at i:3182417 original size:22 final size:22
Alignment explanation
Indices: 3182389--3182443 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
3182379 TCACCACTGA
*
3182389 AGCACCAAGGTACATATACAAG
1 AGCACCAAGGCACATATACAAG
*
3182411 AGCACCAAGGCACCTATACAAG
1 AGCACCAAGGCACATATACAAG
3182433 AGCACCAAGGC
1 AGCACCAAGGC
3182444 GACAATAACT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.42, C:0.29, G:0.20, T:0.09
Consensus pattern (22 bp):
AGCACCAAGGCACATATACAAG
Found at i:3186117 original size:16 final size:16
Alignment explanation
Indices: 3186096--3186126 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
3186086 ATAAATAAAT
3186096 GAACATAAACGAACAC
1 GAACATAAACGAACAC
3186112 GAACATAAACGAACA
1 GAACATAAACGAACA
3186127 AAATTTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.58, C:0.23, G:0.13, T:0.06
Consensus pattern (16 bp):
GAACATAAACGAACAC
Found at i:3186219 original size:16 final size:16
Alignment explanation
Indices: 3186198--3186255 Score: 82
Period size: 16 Copynumber: 3.6 Consensus size: 16
3186188 TAAATAAACA
3186198 AACATAAACGAACAC-
1 AACATAAACGAACACG
*
3186213 AATCATAAACAAACACG
1 AA-CATAAACGAACACG
*
3186230 AACATAAATGAACACG
1 AACATAAACGAACACG
3186246 AACATAAACG
1 AACATAAACG
3186256 TTGGAGACCC
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
15 2 0.05
16 33 0.89
17 2 0.05
ACGTcount: A:0.59, C:0.22, G:0.09, T:0.10
Consensus pattern (16 bp):
AACATAAACGAACACG
Found at i:3186494 original size:23 final size:23
Alignment explanation
Indices: 3186467--3186520 Score: 81
Period size: 23 Copynumber: 2.3 Consensus size: 23
3186457 CTTGAGACTC
* * *
3186467 GAGCTCGATTGAAGCTTGATTCT
1 GAGCTCGAGTCAAGCTCGATTCT
3186490 GAGCTCGAGTCAAGCTCGATTCT
1 GAGCTCGAGTCAAGCTCGATTCT
3186513 GAGCTCGA
1 GAGCTCGA
3186521 CATTTCCTCA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (23 bp):
GAGCTCGAGTCAAGCTCGATTCT
Found at i:3186519 original size:12 final size:12
Alignment explanation
Indices: 3186467--3186520 Score: 51
Period size: 12 Copynumber: 4.7 Consensus size: 12
3186457 CTTGAGACTC
3186467 GAGCTCGA-T-T
1 GAGCTCGATTCT
*
3186477 GAAGCTTGATTCT
1 G-AGCTCGATTCT
*
3186490 GAGCTCGAGTC-
1 GAGCTCGATTCT
*
3186501 AAGCTCGATTCT
1 GAGCTCGATTCT
3186513 GAGCTCGA
1 GAGCTCGA
3186521 CATTTCCTCA
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
10 1 0.03
11 15 0.44
12 16 0.47
13 2 0.06
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (12 bp):
GAGCTCGATTCT
Found at i:3187407 original size:14 final size:14
Alignment explanation
Indices: 3187390--3187421 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
3187380 AATGAACATA
*
3187390 AACGAACATAACCG
1 AACGAACATAAACG
3187404 AACGAACATAAACG
1 AACGAACATAAACG
3187418 AACG
1 AACG
3187422 TTCACGAACG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.53, C:0.25, G:0.16, T:0.06
Consensus pattern (14 bp):
AACGAACATAAACG
Found at i:3188219 original size:10 final size:10
Alignment explanation
Indices: 3188185--3188339 Score: 64
Period size: 10 Copynumber: 14.6 Consensus size: 10
3188175 TGTTGTTGTG
3188185 GTTTATGTTC
1 GTTTATGTTC
* *
3188195 GTTTACGCTC
1 GTTTATGTTC
3188205 GTTTATGTTC
1 GTTTATGTTC
*
3188215 ATTTATTGTGTTC
1 GTTTA---TGTTC
* *
3188228 GTTTATGATG
1 GTTTATGTTC
*
3188238 GTTCAT-TTGC
1 GTTTATGTT-C
*
3188248 G-TT-CGTTC
1 GTTTATGTTC
*
3188256 GTTTGTGTTC
1 GTTTATGTTC
* *
3188266 GTTTAAGTTT
1 GTTTATGTTC
* *
3188276 GTTCATATTC
1 GTTTATGTTC
*
3188286 GTTTAAATCCGTTT
1 GTTT--AT--GTTC
3188300 GTTTATGTTC
1 GTTTATGTTC
3188310 GTTTAAATCCGTTC
1 GTTT--AT--GTTC
3188324 GTTTATGTTC
1 GTTTATGTTC
3188334 GTTTAT
1 GTTTAT
3188340 TTGTGTTCAT
Statistics
Matches: 105, Mismatches: 25, Indels: 30
0.66 0.16 0.19
Matches are distributed among these distances:
8 2 0.02
9 6 0.06
10 66 0.63
12 8 0.08
13 9 0.09
14 14 0.13
ACGTcount: A:0.14, C:0.13, G:0.19, T:0.54
Consensus pattern (10 bp):
GTTTATGTTC
Found at i:3188299 original size:24 final size:24
Alignment explanation
Indices: 3188272--3188338 Score: 107
Period size: 24 Copynumber: 2.8 Consensus size: 24
3188262 GTTCGTTTAA
* *
3188272 GTTTGTTCATATTCGTTTAAATCC
1 GTTTGTTTATGTTCGTTTAAATCC
3188296 GTTTGTTTATGTTCGTTTAAATCC
1 GTTTGTTTATGTTCGTTTAAATCC
*
3188320 GTTCGTTTATGTTCGTTTA
1 GTTTGTTTATGTTCGTTTA
3188339 TTTGTGTTCA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 40 1.00
ACGTcount: A:0.16, C:0.13, G:0.16, T:0.54
Consensus pattern (24 bp):
GTTTGTTTATGTTCGTTTAAATCC
Found at i:3188303 original size:14 final size:14
Alignment explanation
Indices: 3188283--3188328 Score: 55
Period size: 14 Copynumber: 3.6 Consensus size: 14
3188273 TTTGTTCATA
3188283 TTCGTTTAAATCCG
1 TTCGTTTAAATCCG
*
3188297 TTTGTTT--AT--G
1 TTCGTTTAAATCCG
3188307 TTCGTTTAAATCCG
1 TTCGTTTAAATCCG
3188321 TTCGTTTA
1 TTCGTTTA
3188329 TGTTCGTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 8
0.72 0.06 0.22
Matches are distributed among these distances:
10 7 0.27
12 4 0.15
14 15 0.58
ACGTcount: A:0.17, C:0.15, G:0.15, T:0.52
Consensus pattern (14 bp):
TTCGTTTAAATCCG
Found at i:3188347 original size:24 final size:23
Alignment explanation
Indices: 3188203--3188353 Score: 65
Period size: 24 Copynumber: 6.3 Consensus size: 23
3188193 TCGTTTACGC
*
3188203 TCGTTTATGTTCATTTATTGTGT
1 TCGTTTATGTTCGTTTATTGTGT
* * *
3188226 TCGTTTATGATGGTTCATTTGCGTTCGT
1 TCGTTTATGTTCGTTTA-TT--G-T-GT
* *
3188254 TCGTTTGTGTTCGTTTA-AGT-T
1 TCGTTTATGTTCGTTTATTGTGT
* * * **
3188275 T-GTTCATATTCGTTTAAATCCGT
1 TCGTTTATGTTCGTTT-ATTGTGT
* * **
3188298 TTGTTTATGTTCGTTTAAATCCGT
1 TCGTTTATGTTCGTTT-ATTGTGT
3188322 TCGTTTATGTTCGTTTATTTGTGT
1 TCGTTTATGTTCGTTTA-TTGTGT
*
3188346 TCATTTAT
1 TCGTTTAT
3188354 TATTTAAATG
Statistics
Matches: 96, Mismatches: 22, Indels: 19
0.70 0.16 0.14
Matches are distributed among these distances:
20 11 0.11
21 3 0.03
23 17 0.18
24 48 0.50
26 1 0.01
27 1 0.01
28 15 0.16
ACGTcount: A:0.14, C:0.12, G:0.19, T:0.56
Consensus pattern (23 bp):
TCGTTTATGTTCGTTTATTGTGT
Found at i:3190681 original size:20 final size:20
Alignment explanation
Indices: 3190652--3190691 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
3190642 CAATATAACA
3190652 AATTTAAATTTGACAAAACC
1 AATTTAAATTTGACAAAACC
*
3190672 AATTTTAATTTGACAAAACC
1 AATTTAAATTTGACAAAACC
3190692 TATAAAGATC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.47, C:0.15, G:0.05, T:0.33
Consensus pattern (20 bp):
AATTTAAATTTGACAAAACC
Found at i:3191033 original size:194 final size:194
Alignment explanation
Indices: 3190525--3191169 Score: 873
Period size: 194 Copynumber: 3.3 Consensus size: 194
3190515 AAGTAGACAT
* ** * * *
3190525 GTATCGATATCTTTATAAGTATATGTATAAAAGTATCGATATTTTAGTAATTTAAAATAATTGCA
1 GTATCGATATGTTTATAAGTATATGTACCAAAGTATCGATACTTTAGGAATTTAAAAGAATTGCA
* * **
3190590 ATAATAACGACTATAAAATATCGATACCTTAGACACATGTATCGATACATGACAATATAACAAAT
66 ATAATAGCGCCTATAAAATATCGATACCTTAGACACATGTATCGATACATGACAATATAACAGGT
* * * * * * *
3190655 TTAAATTTGACAAAACCAATTTTAATTTGACAAAACCTATAAAGATCTACTGGAATGGTTGACAT
131 TGAAATTTGACAAAACCGATTTTAATTTGACAAAACATGTAAAGAGCTACCGGAATTGTTGA-A-
3190720 TTA
194 --A
* * *
3190723 -TATCAATACT-TTTATAAGTATATGTACCAAAGTATCGGTACTTTAGGAATTTAAAAGAATTGT
1 GTATCGATA-TGTTTATAAGTATATGTACCAAAGTATCGATACTTTAGGAATTTAAAAGAATTGC
* * * * *
3190786 AATAATAGCACTTATAAAGTATCGATACCTTAGACACATGTAACGAAACATGACAATATAACAGG
65 AATAATAGCGCCTATAAAATATCGATACCTTAGACACATGTATCGATACATGACAATATAACAGG
*
3190851 TTGAAATTTGACAAAACCGATTTTAATTTGACAAAACATGTAAAAAGCTACCGGAATTGTTGAAA
130 TTGAAATTTGACAAAACCGATTTTAATTTGACAAAACATGTAAAGAGCTACCGGAATTGTTGAAA
* * *
3190916 GTATCGATATGTTTAAAAGTATATGTACCAAAGTATCGATATTTTAGGAATTTAAAAGAATTACA
1 GTATCGATATGTTTATAAGTATATGTACCAAAGTATCGATACTTTAGGAATTTAAAAGAATTGCA
* *
3190981 ATAATAGCGCCTATAAAATATCAATACCTTAGACACATGTATCGATACATGACAATATAACGGGT
66 ATAATAGCGCCTATAAAATATCGATACCTTAGACACATGTATCGATACATGACAATATAACAGGT
* * * * *
3191046 TGAAATTTGACAAAACCGATTTAAATTTGCCAAAA-TTGGTAAAGAGCTACCAGAATTGTCGAAA
131 TGAAATTTGACAAAACCGATTTTAATTTGACAAAACAT-GTAAAGAGCTACCGGAATTGTTGAAA
* *
3191110 TTATCGATATGTTTATAAGTATATGTACCATAGTATCGATACTTTAGGAATTTAAAAGAA
1 GTATCGATATGTTTATAAGTATATGTACCAAAGTATCGATACTTTAGGAATTTAAAAGAA
3191170 ATGAAAAAAG
Statistics
Matches: 395, Mismatches: 48, Indels: 12
0.87 0.11 0.03
Matches are distributed among these distances:
193 3 0.01
194 226 0.57
196 1 0.00
197 164 0.42
198 1 0.00
ACGTcount: A:0.42, C:0.12, G:0.14, T:0.32
Consensus pattern (194 bp):
GTATCGATATGTTTATAAGTATATGTACCAAAGTATCGATACTTTAGGAATTTAAAAGAATTGCA
ATAATAGCGCCTATAAAATATCGATACCTTAGACACATGTATCGATACATGACAATATAACAGGT
TGAAATTTGACAAAACCGATTTTAATTTGACAAAACATGTAAAGAGCTACCGGAATTGTTGAAA
Found at i:3191666 original size:118 final size:118
Alignment explanation
Indices: 3191527--3191807 Score: 386
Period size: 118 Copynumber: 2.4 Consensus size: 118
3191517 ACAAATTAAG
* * * *
3191527 TAATTAACCTATTTTATTATCGTCAGATTTCTAAGGCCCCATTAACTTTAAACAGTCA-TTACCT
1 TAATTAACATATTTTGTTATCGTCAGATTTCTAAGGCCCCATCAACTTTAAACA-TCAGCTACCT
* * * *
3191591 ATTATATTAAATAAGTGTTACTTGTTATGTTATTATGGTTGATAATGTTTCTAG
65 ATTACATTAAATAAGAGTTACTTGTTATATTATTATGGTTGATAATGTTTCTAA
* * * *
3191645 TGATTAACATATTTTGTTATCGTCAGATTTCTAAGGCCCCATCAGCTTTAAACATGAGCTACTTA
1 TAATTAACATATTTTGTTATCGTCAGATTTCTAAGGCCCCATCAACTTTAAACATCAGCTACCTA
3191710 TTACATTAAATAAGAGTTACTTGTTATATTATTATGGTTGATAATGTTTCTAA
66 TTACATTAAATAAGAGTTACTTGTTATATTATTATGGTTGATAATGTTTCTAA
* * * *
3191763 TAATTAA-TTGGTTTTGTTATCGTCAGATTTCTGAGGCTCCATCAA
1 TAATTAACAT-ATTTTGTTATCGTCAGATTTCTAAGGCCCCATCAA
3191808 ATTAAAATTT
Statistics
Matches: 143, Mismatches: 18, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
117 3 0.02
118 140 0.98
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.43
Consensus pattern (118 bp):
TAATTAACATATTTTGTTATCGTCAGATTTCTAAGGCCCCATCAACTTTAAACATCAGCTACCTA
TTACATTAAATAAGAGTTACTTGTTATATTATTATGGTTGATAATGTTTCTAA
Found at i:3202185 original size:23 final size:23
Alignment explanation
Indices: 3202150--3202196 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
3202140 GATCAGACTG
*
3202150 TATAACACGTTTTCCTT-TGTCTT
1 TATAACACATTTT-CTTATGTCTT
*
3202173 TATAGCACATTTTCTTATGTCTT
1 TATAACACATTTTCTTATGTCTT
3202196 T
1 T
3202197 TGTTTTTCAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 3 0.14
23 18 0.86
ACGTcount: A:0.19, C:0.19, G:0.09, T:0.53
Consensus pattern (23 bp):
TATAACACATTTTCTTATGTCTT
Found at i:3203215 original size:13 final size:14
Alignment explanation
Indices: 3203197--3203225 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
3203187 GTTTAATTTC
3203197 TAGAGT-TTAAAAA
1 TAGAGTATTAAAAA
3203210 TAGAGTATTAAAAA
1 TAGAGTATTAAAAA
3203224 TA
1 TA
3203226 AGGATTGTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.40
14 9 0.60
ACGTcount: A:0.55, C:0.00, G:0.14, T:0.31
Consensus pattern (14 bp):
TAGAGTATTAAAAA
Found at i:3204943 original size:2 final size:2
Alignment explanation
Indices: 3204936--3204984 Score: 89
Period size: 2 Copynumber: 24.5 Consensus size: 2
3204926 AGAGGATTAA
3204936 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
3204978 GT AT AT A
1 AT AT AT A
3204985 GTTATTAATT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:3205374 original size:6 final size:6
Alignment explanation
Indices: 3205349--3205386 Score: 55
Period size: 6 Copynumber: 6.8 Consensus size: 6
3205339 CCATTAACTT
3205349 AATA-A AATA-A AATA-A AATATA AATATA AATATA AATAT
1 AATATA AATATA AATATA AATATA AATATA AATATA AATAT
3205387 GACTAATAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 14 0.44
6 18 0.56
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (6 bp):
AATATA
Found at i:3213332 original size:30 final size:30
Alignment explanation
Indices: 3213298--3213390 Score: 89
Period size: 30 Copynumber: 3.1 Consensus size: 30
3213288 ACAATGTCTC
*
3213298 TAAATTTTGACCCTATTTTAAATTGATCCT
1 TAAATTTTGACCCTATTTTAAATTAATCCT
* *** * * *
3213328 TAAATTTTTAAAATATTTTATATCAATTCT
1 TAAATTTTGACCCTATTTTAAATTAATCCT
* *
3213358 CAAATTTTGACCCTATTTTAAATTAGT-CT
1 TAAATTTTGACCCTATTTTAAATTAATCCT
3213387 TAAA
1 TAAA
3213391 CTTTAAAATA
Statistics
Matches: 46, Mismatches: 17, Indels: 1
0.72 0.27 0.02
Matches are distributed among these distances:
29 5 0.11
30 41 0.89
ACGTcount: A:0.35, C:0.13, G:0.04, T:0.47
Consensus pattern (30 bp):
TAAATTTTGACCCTATTTTAAATTAATCCT
Found at i:3213365 original size:60 final size:60
Alignment explanation
Indices: 3213289--3213408 Score: 183
Period size: 60 Copynumber: 2.0 Consensus size: 60
3213279 TAATTGCAAA
*
3213289 CAATGTCTCTAAATTTTGACCCTATTTTAAATT-GATCCTTAAATTTTTAAAATATTTTATAT
1 CAATGTCTCTAAATTTTGACCCTATTTTAAATTAG-T-CTTAAA-CTTTAAAATATTTTATAT
3213351 CAAT-TCTC-AAATTTTGACCCTATTTTAAATTAGTCTTAAACTTTAAAATATTTTATAT
1 CAATGTCTCTAAATTTTGACCCTATTTTAAATTAGTCTTAAACTTTAAAATATTTTATAT
3213409 TAGTCCTTAA
Statistics
Matches: 56, Mismatches: 1, Indels: 6
0.89 0.02 0.10
Matches are distributed among these distances:
58 17 0.30
59 6 0.11
60 24 0.43
61 5 0.09
62 4 0.07
ACGTcount: A:0.35, C:0.13, G:0.04, T:0.47
Consensus pattern (60 bp):
CAATGTCTCTAAATTTTGACCCTATTTTAAATTAGTCTTAAACTTTAAAATATTTTATAT
Found at i:3214161 original size:2 final size:2
Alignment explanation
Indices: 3214154--3214205 Score: 95
Period size: 2 Copynumber: 26.0 Consensus size: 2
3214144 GTACGATGGG
3214154 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
3214196 GT AT AT AT AT
1 AT AT AT AT AT
3214206 CACTAGCACA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3215172 original size:17 final size:18
Alignment explanation
Indices: 3215140--3215190 Score: 52
Period size: 17 Copynumber: 2.9 Consensus size: 18
3215130 ATTAATTAAT
* *
3215140 ACTAATAGAATGGAAAAG
1 ACTAATATAATAGAAAAG
* *
3215158 -GTAATATATTAG-AAAG
1 ACTAATATAATAGAAAAG
3215174 ACTAATATAATAGAAAA
1 ACTAATATAATAGAAAA
3215191 AATTGTCTTT
Statistics
Matches: 25, Mismatches: 6, Indels: 4
0.71 0.17 0.11
Matches are distributed among these distances:
16 4 0.16
17 18 0.72
18 3 0.12
ACGTcount: A:0.57, C:0.04, G:0.16, T:0.24
Consensus pattern (18 bp):
ACTAATATAATAGAAAAG
Found at i:3221514 original size:2 final size:2
Alignment explanation
Indices: 3221507--3221536 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
3221497 CAACCCTATT
3221507 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3221537 AAGCCAAGGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:3224954 original size:22 final size:22
Alignment explanation
Indices: 3224929--3224981 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 22
3224919 TTATTATTTA
*
3224929 TATATATTTTTA-TTACTATAAT
1 TATATATTTATATTTACTAT-AT
* * *
3224951 TATATGTTTATATTTATTATTT
1 TATATATTTATATTTACTATAT
3224973 TATATATTT
1 TATATATTT
3224982 CATTTATTTT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
22 19 0.76
23 6 0.24
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (22 bp):
TATATATTTATATTTACTATAT
Found at i:3224990 original size:18 final size:16
Alignment explanation
Indices: 3224909--3224991 Score: 61
Period size: 16 Copynumber: 5.2 Consensus size: 16
3224899 TTTTAATTCT
3224909 TTTTCATATA-TTATTA
1 TTTT-ATATATTTATTA
3224925 TTTATATATATTT-TTA
1 TTT-TATATATTTATTA
*
3224941 --TTACTATAATTA-TA
1 TTTTA-TATATTTATTA
*
3224955 TGTT-TATATTTATTA
1 TTTTATATATTTATTA
3224970 TTTTATATATTTCATTTA
1 TTTTATATATTT-A-TTA
3224988 TTTT
1 TTTT
3224992 TTATTTTTTT
Statistics
Matches: 54, Mismatches: 3, Indels: 18
0.72 0.04 0.24
Matches are distributed among these distances:
13 2 0.04
14 16 0.30
15 5 0.09
16 20 0.37
17 4 0.07
18 7 0.13
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.65
Consensus pattern (16 bp):
TTTTATATATTTATTA
Found at i:3225060 original size:2 final size:2
Alignment explanation
Indices: 3225053--3225097 Score: 76
Period size: 2 Copynumber: 23.5 Consensus size: 2
3225043 TTTTATGTAT
3225053 TA TA TA TA TA TA TA TA TA TA -A TA TA TA TA TA T- TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3225093 TA TA T
1 TA TA T
3225098 TTGTTTTTTT
Statistics
Matches: 41, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
1 2 0.05
2 39 0.95
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:3225078 original size:13 final size:12
Alignment explanation
Indices: 3225053--3225097 Score: 76
Period size: 11 Copynumber: 3.9 Consensus size: 12
3225043 TTTTATGTAT
3225053 TATATATATATA
1 TATATATATATA
3225065 TATATATA-ATA
1 TATATATATATA
3225076 TATATATAT-TA
1 TATATATATATA
3225087 TATATATATAT
1 TATATATATAT
3225098 TTGTTTTTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
11 22 0.71
12 9 0.29
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (12 bp):
TATATATATATA
Found at i:3225098 original size:13 final size:13
Alignment explanation
Indices: 3225053--3225098 Score: 76
Period size: 13 Copynumber: 3.6 Consensus size: 13
3225043 TTTTATGTAT
3225053 TATATA-TATATA
1 TATATATTATATA
*
3225065 TATATATAATATA
1 TATATATTATATA
3225078 TATATATTATATA
1 TATATATTATATA
3225091 TATATATT
1 TATATATT
3225099 TGTTTTTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
12 6 0.19
13 25 0.81
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
TATATATTATATA
Found at i:3225776 original size:11 final size:11
Alignment explanation
Indices: 3225760--3225787 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
3225750 TAGTTAGACT
3225760 AATAATATTAA
1 AATAATATTAA
3225771 AATAATATTAA
1 AATAATATTAA
3225782 AATAAT
1 AATAAT
3225788 TTTATATTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (11 bp):
AATAATATTAA
Found at i:3235351 original size:15 final size:16
Alignment explanation
Indices: 3235313--3235356 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 16
3235303 CAAATAAACC
*
3235313 CTAATAATAATTATTA
1 CTAATAATAATAATTA
3235329 CTAA-AATAATAATT-
1 CTAATAATAATAATTA
*
3235343 GTAATAATAATAAT
1 CTAATAATAATAAT
3235357 AATCCAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 3 0.12
15 18 0.72
16 4 0.16
ACGTcount: A:0.55, C:0.05, G:0.02, T:0.39
Consensus pattern (16 bp):
CTAATAATAATAATTA
Found at i:3235354 original size:18 final size:19
Alignment explanation
Indices: 3235314--3235359 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 19
3235304 AAATAAACCC
* *
3235314 TAATAATAATTATTACTAA
1 TAATAATAATTAGTAATAA
3235333 -AATAATAATT-GTAATAA
1 TAATAATAATTAGTAATAA
3235350 TAATAATAAT
1 TAATAATAAT
3235360 CCAAATTGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 5 0.21
18 19 0.79
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (19 bp):
TAATAATAATTAGTAATAA
Found at i:3238904 original size:21 final size:21
Alignment explanation
Indices: 3238880--3238920 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
3238870 TCAGTTCCCT
*
3238880 TCAATAAAATCCTTCTTCTTC
1 TCAATAAAATCCTTCATCTTC
* *
3238901 TCAATTAAATTCTTCATCTT
1 TCAATAAAATCCTTCATCTT
3238921 TATTCTCATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.46
Consensus pattern (21 bp):
TCAATAAAATCCTTCATCTTC
Found at i:3240289 original size:23 final size:23
Alignment explanation
Indices: 3240259--3240305 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
3240249 GTCCCTGCTT
3240259 CATCGGAGGAAGAATAGAGAAAG
1 CATCGGAGGAAGAATAGAGAAAG
3240282 CATCGGAGGAAGAATAGAGAAAG
1 CATCGGAGGAAGAATAGAGAAAG
3240305 C
1 C
3240306 CCTCTCCAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.47, C:0.11, G:0.34, T:0.09
Consensus pattern (23 bp):
CATCGGAGGAAGAATAGAGAAAG
Found at i:3243637 original size:21 final size:21
Alignment explanation
Indices: 3243573--3243655 Score: 55
Period size: 21 Copynumber: 4.0 Consensus size: 21
3243563 ATTATTTTAT
3243573 TATTTT-TAATTTTATTAAAT-
1 TATTTTATAATTTT-TTAAATA
* * *
3243593 TAATTTTATTA-TTCTAAAATTA
1 T-ATTTTATAATTTTTTAAA-TA
3243615 TATTTTATAATTTTTTAAATA
1 TATTTTATAATTTTTTAAATA
* ** *
3243636 TAATGAATAATGTTTTAAAT
1 TATTTTATAATTTTTTAAAT
3243656 TGGGAAGAGA
Statistics
Matches: 48, Mismatches: 10, Indels: 9
0.72 0.15 0.13
Matches are distributed among these distances:
20 5 0.10
21 34 0.71
22 9 0.19
ACGTcount: A:0.40, C:0.01, G:0.02, T:0.57
Consensus pattern (21 bp):
TATTTTATAATTTTTTAAATA
Found at i:3247434 original size:64 final size:61
Alignment explanation
Indices: 3247347--3247506 Score: 194
Period size: 64 Copynumber: 2.5 Consensus size: 61
3247337 GATATTCAAA
* *
3247347 GGGTACCGATACCTTCAGGAGTGTATCGATACCCCCTTGAAATGGAGAAATTTCGAATGTAATTT
1 GGGTACCGATACC-T-AGGAGTGTATCGATACCCCCTTAAAAT-GA-AAACTTCGAATGTAATTT
**
3247412 GGGTTTCGATACCTAGGCAGTGTATCGATACGCCCCCTTAAAATGAAAACTTCGAATGTAATTT
1 GGGTACCGATACCTAGG-AGTGTATCGATA--CCCCCTTAAAATGAAAACTTCGAATGTAATTT
* *
3247476 GGGTACCGATACATAGGTAGTGTATTGATAC
1 GGGTACCGATACCTAGG-AGTGTATCGATAC
3247507 ATACATTAAG
Statistics
Matches: 83, Mismatches: 9, Indels: 9
0.82 0.09 0.09
Matches are distributed among these distances:
62 1 0.01
63 3 0.04
64 55 0.66
65 13 0.16
66 11 0.13
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.29
Consensus pattern (61 bp):
GGGTACCGATACCTAGGAGTGTATCGATACCCCCTTAAAATGAAAACTTCGAATGTAATTT
Found at i:3248123 original size:22 final size:22
Alignment explanation
Indices: 3248092--3248142 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
3248082 AGTCTAGGGT
*
3248092 TTCATAGGTCATTCGGGACATA
1 TTCATAGGTCATTAGGGACATA
* * *
3248114 TTCATGGGTCTTTAGGGACAAA
1 TTCATAGGTCATTAGGGACATA
3248136 TCTCATA
1 T-TCATA
3248143 TGCCACTCAG
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
22 19 0.83
23 4 0.17
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.33
Consensus pattern (22 bp):
TTCATAGGTCATTAGGGACATA
Found at i:3250153 original size:14 final size:14
Alignment explanation
Indices: 3250129--3250165 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
3250119 TACATAAAAT
3250129 ATTTACTGCCACAAA
1 ATTT-CTGCCACAAA
3250144 ATTTCTGCCACAAA
1 ATTTCTGCCACAAA
3250158 ATTTCTGC
1 ATTTCTGC
3250166 AACCTTGTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
14 18 0.82
15 4 0.18
ACGTcount: A:0.32, C:0.27, G:0.08, T:0.32
Consensus pattern (14 bp):
ATTTCTGCCACAAA
Found at i:3260178 original size:6 final size:6
Alignment explanation
Indices: 3260148--3260193 Score: 56
Period size: 6 Copynumber: 7.7 Consensus size: 6
3260138 CTTTTAAGGA
* * **
3260148 TTTATT TTTACT TTTAAT TAAAAT TTTAAT TTTAAT TTTAAT TTTA
1 TTTAAT TTTAAT TTTAAT TTTAAT TTTAAT TTTAAT TTTAAT TTTA
3260194 GAATTATTAA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (6 bp):
TTTAAT
Found at i:3260317 original size:27 final size:25
Alignment explanation
Indices: 3260287--3260343 Score: 71
Period size: 25 Copynumber: 2.2 Consensus size: 25
3260277 TATAAAAATT
*
3260287 TAAAATATTAAGAAATATATTTAAACA
1 TAAAATAATAA-AAATATATTTAAA-A
*
3260314 TAAAA-AATAAAAATATATTTTAAA
1 TAAAATAATAAAAATATATTTAAAA
3260338 TAAAAT
1 TAAAAT
3260344 GTAGGAAGAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
24 6 0.22
25 12 0.44
26 4 0.15
27 5 0.19
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (25 bp):
TAAAATAATAAAAATATATTTAAAA
Found at i:3260460 original size:51 final size:51
Alignment explanation
Indices: 3260404--3260506 Score: 206
Period size: 51 Copynumber: 2.0 Consensus size: 51
3260394 TTTTAACCAT
3260404 TGCAAAATTCTAAAGAAAATTGAAATTATCATGGTAATAATTTGATACTGG
1 TGCAAAATTCTAAAGAAAATTGAAATTATCATGGTAATAATTTGATACTGG
3260455 TGCAAAATTCTAAAGAAAATTGAAATTATCATGGTAATAATTTGATACTGG
1 TGCAAAATTCTAAAGAAAATTGAAATTATCATGGTAATAATTTGATACTGG
3260506 T
1 T
3260507 AAGATTTTTT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.43, C:0.08, G:0.16, T:0.34
Consensus pattern (51 bp):
TGCAAAATTCTAAAGAAAATTGAAATTATCATGGTAATAATTTGATACTGG
Found at i:3260979 original size:3 final size:3
Alignment explanation
Indices: 3260971--3261063 Score: 186
Period size: 3 Copynumber: 31.0 Consensus size: 3
3260961 TCTAGGAGCG
3260971 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
3261019 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
3261064 AAAGTAATTG
Statistics
Matches: 90, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 90 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
CTT
Found at i:3261822 original size:20 final size:20
Alignment explanation
Indices: 3261797--3261846 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
3261787 ACGAAATAAA
3261797 AATCGCAACGC-GATCTCCAG
1 AATCGCAACGCAGATC-CCAG
** *
3261817 AATCGCAAATCAGTTCCCAG
1 AATCGCAACGCAGATCCCAG
3261837 AATCGCAACG
1 AATCGCAACG
3261847 TGATTATGAA
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
20 21 0.88
21 3 0.12
ACGTcount: A:0.34, C:0.32, G:0.18, T:0.16
Consensus pattern (20 bp):
AATCGCAACGCAGATCCCAG
Found at i:3261887 original size:21 final size:21
Alignment explanation
Indices: 3261835--3261888 Score: 90
Period size: 21 Copynumber: 2.6 Consensus size: 21
3261825 ATCAGTTCCC
* *
3261835 AGAATCGCAACGTGATTATGA
1 AGAATCGCAATGCGATTATGA
3261856 AGAATCGCAATGCGATTATGA
1 AGAATCGCAATGCGATTATGA
3261877 AGAATCGCAATG
1 AGAATCGCAATG
3261889 AGATAGTACA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.22
Consensus pattern (21 bp):
AGAATCGCAATGCGATTATGA
Found at i:3261949 original size:20 final size:20
Alignment explanation
Indices: 3261921--3262195 Score: 141
Period size: 20 Copynumber: 13.7 Consensus size: 20
3261911 GATTTTCCAT
* *
3261921 AATCACAACGCGAATATGAA
1 AATCGCAACGCGAATACGAA
* *
3261941 AATCGCAACGCGAACA-TATA
1 AATCGCAACGCGAATACGA-A
* * *
3261961 AATCGTAACGCG-ATTCTGAC
1 AATCGCAACGCGAATAC-GAA
* * * *
3261981 TATCGCAACGAGTATCCGTAA
1 AATCGCAACGCGAATACG-AA
* * * *
3262002 AATCGTAACGCGTATCCGTA
1 AATCGCAACGCGAATACGAA
3262022 AATCGCAACGAC-AATACGTAA
1 AATCGCAACG-CGAATACG-AA
* * *
3262043 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGAATACGAA
* *
3262063 AATCGCAACGAGAATACGTA
1 AATCGCAACGCGAATACGAA
* *
3262083 AATCGCAACGCGTAT-CTGTA
1 AATCGCAACGCGAATAC-GAA
* *
3262103 AATCGCAACGAGAATACGTA
1 AATCGCAACGCGAATACGAA
* * * * * *
3262123 AATCGAAATGTGTATCCGTA
1 AATCGCAACGCGAATACGAA
3262143 AATCGCAACGAC-AATACGTAA
1 AATCGCAACG-CGAATACG-AA
3262164 AATCGCAACGCG-AT-CGATA
1 AATCGCAACGCGAATACGA-A
*
3262183 ATTCGCAACGCGA
1 AATCGCAACGCGA
3262196 TCTCCGGTAT
Statistics
Matches: 197, Mismatches: 43, Indels: 30
0.73 0.16 0.11
Matches are distributed among these distances:
18 1 0.01
19 17 0.09
20 131 0.66
21 48 0.24
ACGTcount: A:0.39, C:0.24, G:0.19, T:0.19
Consensus pattern (20 bp):
AATCGCAACGCGAATACGAA
Found at i:3262097 original size:40 final size:41
Alignment explanation
Indices: 3261982--3262192 Score: 295
Period size: 40 Copynumber: 5.2 Consensus size: 41
3261972 GATTCTGACT
* * *
3261982 ATCGCAACGAGTATCCGTAAAATCGTAACGCGTATCCGTAA
1 ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
*
3262023 ATCGCAACGACAATACGTAAAATCGCAACGCGTATCCGTAA
1 ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
*
3262064 ATCGCAACGAGAATACGT-AAATCGCAACGCGTATCTGTAA
1 ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
* * *
3262104 ATCGCAACGAGAATACGT-AAATCGAAATGTGTATCCGTAA
1 ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
*
3262144 ATCGCAACGACAATACGTAAAATCGCAACGCG-AT-CGATAA
1 ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCG-TAA
*
3262184 TTCGCAACG
1 ATCGCAACG
3262193 CGATCTCCGG
Statistics
Matches: 153, Mismatches: 15, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
39 2 0.01
40 87 0.57
41 64 0.42
ACGTcount: A:0.38, C:0.24, G:0.19, T:0.19
Consensus pattern (41 bp):
ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
Found at i:3262274 original size:21 final size:21
Alignment explanation
Indices: 3262245--3262289 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
3262235 ATTCTGACTA
3262245 TCGCATTGCGATTTCCCAAAT
1 TCGCATTGCGATTTCCCAAAT
* * *
3262266 TCGCGTTGCGATTTTCCTAAT
1 TCGCATTGCGATTTCCCAAAT
3262287 TCG
1 TCG
3262290 AAATGCGAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.18, C:0.27, G:0.18, T:0.38
Consensus pattern (21 bp):
TCGCATTGCGATTTCCCAAAT
Found at i:3262362 original size:20 final size:20
Alignment explanation
Indices: 3262302--3262354 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
3262292 ATGCGAATAC
3262302 GTAAATCGCAACGCGAATCT
1 GTAAATCGCAACGCGAATCT
*
3262322 GTAAATCGCAATGCGAATCT
1 GTAAATCGCAACGCGAATCT
*
3262342 GTAAATCTCAACG
1 GTAAATCGCAACG
3262355 AGATTCTGAC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.36, C:0.23, G:0.19, T:0.23
Consensus pattern (20 bp):
GTAAATCGCAACGCGAATCT
Found at i:3262766 original size:94 final size:93
Alignment explanation
Indices: 3262622--3262836 Score: 349
Period size: 94 Copynumber: 2.3 Consensus size: 93
3262612 AATTTACAAT
*
3262622 AATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTC
1 AATTGGCAGCAACCGAATAAATTTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTC
* * *
3262687 ATAGTGTTAAATAATACACAGTTTAGCAG
65 ACAGTGTTAAAGAATAAACAGTTTAGCAG
*
3262716 AATTGACAGCAACCGAATAAATTTACTTCAACCAAAAGACAAAACAAAAGACAAATACTAACTTC
1 AATTGGCAGCAACCGAATAAATTTACTTCAACCAAAAGACAAAAC-AAAGACAAATACTAACTTC
3262781 ACAGTGTTAAAGAATAAACAGTTTAGCAG
65 ACAGTGTTAAAGAATAAACAGTTTAGCAG
* *
3262810 TATTGGCAACAACCGAATAAATTTACT
1 AATTGGCAGCAACCGAATAAATTTACT
3262837 AAGCAATCTA
Statistics
Matches: 112, Mismatches: 8, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
93 19 0.17
94 93 0.83
ACGTcount: A:0.47, C:0.19, G:0.12, T:0.22
Consensus pattern (93 bp):
AATTGGCAGCAACCGAATAAATTTACTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCA
CAGTGTTAAAGAATAAACAGTTTAGCAG
Found at i:3264557 original size:20 final size:20
Alignment explanation
Indices: 3264534--3264589 Score: 80
Period size: 20 Copynumber: 2.8 Consensus size: 20
3264524 TAAAATGAAA
3264534 ATCGCAACGAGAGAATGACT
1 ATCGCAACGAGAGAATGACT
3264554 ATCGCAATGCG-GA-AATGACT
1 ATCGCAA--CGAGAGAATGACT
3264574 ATCGCAACGAGAGAAT
1 ATCGCAACGAGAGAAT
3264590 CGCAACGCGA
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
18 2 0.06
19 2 0.06
20 24 0.75
21 2 0.06
22 2 0.06
ACGTcount: A:0.39, C:0.20, G:0.25, T:0.16
Consensus pattern (20 bp):
ATCGCAACGAGAGAATGACT
Found at i:3264687 original size:20 final size:18
Alignment explanation
Indices: 3264645--3264693 Score: 62
Period size: 18 Copynumber: 2.6 Consensus size: 18
3264635 CGATTCTCTC
**
3264645 GTTGCGATAGTCATTTTT
1 GTTGCGATTTTCATTTTT
3264663 GTTGCGATTTTCATTTTCAT
1 GTTGCGATTTTCATTTT--T
3264683 GTTGCGATTTT
1 GTTGCGATTTT
3264694 AAGTTTAGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
18 15 0.56
20 12 0.44
ACGTcount: A:0.14, C:0.12, G:0.20, T:0.53
Consensus pattern (18 bp):
GTTGCGATTTTCATTTTT
Found at i:3265272 original size:20 final size:20
Alignment explanation
Indices: 3265246--3265373 Score: 118
Period size: 20 Copynumber: 6.5 Consensus size: 20
3265236 TAAAAATCGC
3265246 GTTGCGATTTACGGATACGT
1 GTTGCGATTTACGGATACGT
* *
3265266 ATTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGT
* * * *
3265286 ATTTCGATTTACGTATTC-T
1 GTTGCGATTTACGGATACGT
* **
3265305 CGTTGCGATTTACAGATACAC
1 -GTTGCGATTTACGGATACGT
* *
3265326 GTTGCGATTTACGTATTC-T
1 GTTGCGATTTACGGATACGT
3265345 CGTTGCGATTTACGGATACG-
1 -GTTGCGATTTACGGATACGT
3265365 GTTGCGATT
1 GTTGCGATT
3265374 CTGGAAAATC
Statistics
Matches: 86, Mismatches: 18, Indels: 9
0.76 0.16 0.08
Matches are distributed among these distances:
19 9 0.10
20 77 0.90
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.38
Consensus pattern (20 bp):
GTTGCGATTTACGGATACGT
Found at i:3265311 original size:40 final size:40
Alignment explanation
Indices: 3265267--3265373 Score: 162
Period size: 40 Copynumber: 2.7 Consensus size: 40
3265257 CGGATACGTA
*
3265267 TTGCGATTTACGGATACGCATTTCGATTTACGTATTCTCG
1 TTGCGATTTACGGATACGCATTGCGATTTACGTATTCTCG
* * *
3265307 TTGCGATTTACAGATACACGTTGCGATTTACGTATTCTCG
1 TTGCGATTTACGGATACGCATTGCGATTTACGTATTCTCG
*
3265347 TTGCGATTTACGGATACG-GTTGCGATT
1 TTGCGATTTACGGATACGCATTGCGATT
3265374 CTGGAAAATC
Statistics
Matches: 61, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 9 0.15
40 52 0.85
ACGTcount: A:0.21, C:0.19, G:0.22, T:0.38
Consensus pattern (40 bp):
TTGCGATTTACGGATACGCATTGCGATTTACGTATTCTCG
Found at i:3265354 original size:60 final size:60
Alignment explanation
Indices: 3265245--3265358 Score: 147
Period size: 60 Copynumber: 1.9 Consensus size: 60
3265235 TTAAAAATCG
* ** *
3265245 CGTTGCGATTTACGGATACGTATTGCGATTTACGGATACGCATTTCGATTTACGTATTCT
1 CGTTGCGATTTACAGATACACATTGCGATTTACGGATACGCATTGCGATTTACGTATTCT
* * * * *
3265305 CGTTGCGATTTACAGATACACGTTGCGATTTACGTATTCTCGTTGCGATTTACG
1 CGTTGCGATTTACAGATACACATTGCGATTTACGGATACGCATTGCGATTTACG
3265359 GATACGGTTG
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
60 45 1.00
ACGTcount: A:0.21, C:0.19, G:0.22, T:0.38
Consensus pattern (60 bp):
CGTTGCGATTTACAGATACACATTGCGATTTACGGATACGCATTGCGATTTACGTATTCT
Found at i:3265437 original size:21 final size:21
Alignment explanation
Indices: 3265402--3265459 Score: 89
Period size: 21 Copynumber: 2.8 Consensus size: 21
3265392 AATTTATACT
* *
3265402 ATCGCATTACGATTCTTCATA
1 ATCGCGTTGCGATTCTTCATA
*
3265423 ATTGCGTTGCGATTCTTCATA
1 ATCGCGTTGCGATTCTTCATA
3265444 ATCGCGTTGCGATTCT
1 ATCGCGTTGCGATTCT
3265460 GGGAACTGAT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.21, C:0.22, G:0.17, T:0.40
Consensus pattern (21 bp):
ATCGCGTTGCGATTCTTCATA
Found at i:3265493 original size:20 final size:20
Alignment explanation
Indices: 3265426--3265495 Score: 54
Period size: 20 Copynumber: 3.5 Consensus size: 20
3265416 CTTCATAATT
*
3265426 GCGTTGCGATTCTTCATA-ATC
1 GCGTTGCGATTC-TGA-AGATC
* *
3265447 GCGTTGCGATTCTG-GGAAC
1 GCGTTGCGATTCTGAAGATC
**
3265466 TGATTTGCGATTCTGAAGATC
1 -GCGTTGCGATTCTGAAGATC
3265487 GCGTTGCGA
1 GCGTTGCGA
3265496 ATTTTATTTC
Statistics
Matches: 37, Mismatches: 9, Indels: 7
0.70 0.17 0.13
Matches are distributed among these distances:
19 2 0.05
20 20 0.54
21 15 0.41
ACGTcount: A:0.19, C:0.20, G:0.29, T:0.33
Consensus pattern (20 bp):
GCGTTGCGATTCTGAAGATC
Found at i:3284699 original size:58 final size:58
Alignment explanation
Indices: 3284609--3284783 Score: 305
Period size: 58 Copynumber: 3.0 Consensus size: 58
3284599 ATGCTTTTTC
* * * * *
3284609 TTTTTACCTTTTTGCTCTGACTACATCTTGGATTCTCTTCTGCAATGTATACTTTCTT
1 TTTTTACCTTTTTACTGTGACTGCCTCATGGATTCTCTTCTGCAATGTATACTTTCTT
3284667 TTTTTACCTTTTTACTGTGACTGCCTCATGGATTCTCTTCTGCAATGTATACTTTCTT
1 TTTTTACCTTTTTACTGTGACTGCCTCATGGATTCTCTTCTGCAATGTATACTTTCTT
3284725 TTTTTACCTTTTTACTGTGACTGCCTCATGGATTCTCTTCTGCAATGTATACTTTCTT
1 TTTTTACCTTTTTACTGTGACTGCCTCATGGATTCTCTTCTGCAATGTATACTTTCTT
3284783 T
1 T
3284784 ATAGCTAGAA
Statistics
Matches: 112, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
58 112 1.00
ACGTcount: A:0.15, C:0.22, G:0.11, T:0.51
Consensus pattern (58 bp):
TTTTTACCTTTTTACTGTGACTGCCTCATGGATTCTCTTCTGCAATGTATACTTTCTT
Found at i:3289011 original size:21 final size:20
Alignment explanation
Indices: 3288973--3289011 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
3288963 GTGTTATCTA
**
3288973 AAATATTATTTTTTTATTAG
1 AAATATTATTTTACTATTAG
3288993 AAATATTCATTTTACTATT
1 AAATATT-ATTTTACTATT
3289012 TAAAAATCGG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.36, C:0.05, G:0.03, T:0.56
Consensus pattern (20 bp):
AAATATTATTTTACTATTAG
Found at i:3289086 original size:45 final size:43
Alignment explanation
Indices: 3289018--3289130 Score: 140
Period size: 45 Copynumber: 2.5 Consensus size: 43
3289008 TATTTAAAAA
* *
3289018 TCGGTAGAAAAATAACATGTTAGGTA-GTACACAATATTAACATTT
1 TCGGTAGAAAAATAATATTTTAGGTACGT-C-CAATATTAACA-TT
3289063 TCGGTAGTAAAAA-AATATTTTAGGTAGCGTCCAATATTAACATT
1 TCGGTAG-AAAAATAATATTTTAGGTA-CGTCCAATATTAACATT
3289107 TCTGGTAGAAAAATAATATTTTAG
1 TC-GGTAGAAAAATAATATTTTAG
3289131 TTAGCATTTT
Statistics
Matches: 61, Mismatches: 2, Indels: 10
0.84 0.03 0.14
Matches are distributed among these distances:
44 9 0.15
45 44 0.72
46 6 0.10
47 2 0.03
ACGTcount: A:0.41, C:0.10, G:0.16, T:0.34
Consensus pattern (43 bp):
TCGGTAGAAAAATAATATTTTAGGTACGTCCAATATTAACATT
Found at i:3289570 original size:19 final size:19
Alignment explanation
Indices: 3289518--3289570 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
3289508 TCATATATTT
3289518 AATTTAATAAAAAAAACTTA
1 AATTTAA-AAAAAAAACTTA
* *
3289538 AATGTCAAATAAAAAA-TTA
1 AAT-TTAAAAAAAAAACTTA
*
3289557 AATTTAAAAGAAAA
1 AATTTAAAAAAAAA
3289571 TAAATATAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
18 8 0.30
19 6 0.22
20 10 0.37
21 3 0.11
ACGTcount: A:0.66, C:0.04, G:0.04, T:0.26
Consensus pattern (19 bp):
AATTTAAAAAAAAAACTTA
Found at i:3294746 original size:19 final size:19
Alignment explanation
Indices: 3294724--3294765 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
3294714 ATATTTAATT
3294724 TTTATATAAATTAGAAAAG
1 TTTATATAAATTAGAAAAG
* *
3294743 TTTATATAAATTATAAAAT
1 TTTATATAAATTAGAAAAG
3294762 TTTA
1 TTTA
3294766 AAAATTTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (19 bp):
TTTATATAAATTAGAAAAG
Found at i:3299298 original size:26 final size:27
Alignment explanation
Indices: 3299243--3299301 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
3299233 AATATTGTTG
* * *
3299243 AATTT-AATTCGACATAAAATTTTATT
1 AATTTGAATTCGAAATAAAAATTTATA
3299269 AATTTGAATTCGAAATAAAAATTTA-A
1 AATTTGAATTCGAAATAAAAATTTATA
3299295 AATTTGA
1 AATTTGA
3299302 CTCAAAATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 12 0.41
27 17 0.59
ACGTcount: A:0.47, C:0.05, G:0.07, T:0.41
Consensus pattern (27 bp):
AATTTGAATTCGAAATAAAAATTTATA
Found at i:3303274 original size:2 final size:2
Alignment explanation
Indices: 3303267--3303317 Score: 84
Period size: 2 Copynumber: 25.5 Consensus size: 2
3303257 ATCAATTTTA
*
3303267 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
3303309 AC AT AT AT A
1 AT AT AT AT A
3303318 ATACGCATGA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:3303503 original size:27 final size:25
Alignment explanation
Indices: 3303471--3303584 Score: 85
Period size: 27 Copynumber: 4.5 Consensus size: 25
3303461 TCATAAAAAT
3303471 AAATAATATTATTAAATTATTAAT-
1 AAATAATATTATTAAATTATTAATA
*
3303495 -AAT-ATA-TAATAAATTATTAATA
1 AAATAATATTATTAAATTATTAATA
* * * *
3303517 AATTTTATATTATT-TATTAATTTCATA
1 AA-ATAATATTATTAAATT-A-TTAATA
3303544 GAAATAATATTATTAAATTATTAATA
1 -AAATAATATTATTAAATTATTAATA
*
3303570 ATGAAAAATATTATT
1 A--AATAATATTATT
3303585 TATATATTTA
Statistics
Matches: 69, Mismatches: 10, Indels: 19
0.70 0.10 0.19
Matches are distributed among these distances:
21 14 0.20
22 3 0.04
23 4 0.06
24 1 0.01
25 7 0.10
26 9 0.13
27 26 0.38
28 5 0.07
ACGTcount: A:0.51, C:0.01, G:0.02, T:0.46
Consensus pattern (25 bp):
AAATAATATTATTAAATTATTAATA
Found at i:3303509 original size:21 final size:20
Alignment explanation
Indices: 3303472--3303517 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 20
3303462 CATAAAAATA
*
3303472 AATAATATTATTAAATTATT
1 AATAATATTAATAAATTATT
3303492 AATAATATATAATAAATTATT
1 AATAATAT-TAATAAATTATT
3303513 AATAA
1 AATAA
3303518 ATTTTATATT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 8 0.33
21 16 0.67
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (20 bp):
AATAATATTAATAAATTATT
Found at i:3303517 original size:11 final size:11
Alignment explanation
Indices: 3303477--3303520 Score: 56
Period size: 11 Copynumber: 4.1 Consensus size: 11
3303467 AAATAAATAA
*
3303477 TATTATTAAAT
1 TATTAATAAAT
3303488 TATTAAT-AA-
1 TATTAATAAAT
3303497 TATATAATAAAT
1 TAT-TAATAAAT
3303509 TATTAATAAAT
1 TATTAATAAAT
3303520 T
1 T
3303521 TTATATTATT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
9 3 0.10
10 6 0.21
11 17 0.59
12 3 0.10
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (11 bp):
TATTAATAAAT
Found at i:3303592 original size:27 final size:29
Alignment explanation
Indices: 3303544--3303597 Score: 69
Period size: 27 Copynumber: 1.9 Consensus size: 29
3303534 TAATTTCATA
3303544 GAAATAATATTATTAAATTA-TTAATAAT
1 GAAATAATATTATTAAATTATTTAATAAT
*
3303572 GAAA-AATATTATT-TATATATTTAATA
1 GAAATAATATTATTAAAT-TATTTAATA
3303598 TTAATATAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
26 2 0.09
27 11 0.48
28 10 0.43
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.44
Consensus pattern (29 bp):
GAAATAATATTATTAAATTATTTAATAAT
Found at i:3303642 original size:23 final size:24
Alignment explanation
Indices: 3303595--3303667 Score: 80
Period size: 23 Copynumber: 3.1 Consensus size: 24
3303585 TATATATTTA
*
3303595 ATATTAATATAATA-ATCTAATAAT
1 ATATTAATATAATATATTTAA-AAT
*
3303619 ATTTTAATA-AATATATTTAAAAT
1 ATATTAATATAATATATTTAAAAT
* *
3303642 ATACTAA-ATAATATTTTTAAAAT
1 ATATTAATATAATATATTTAAAAT
3303665 ATA
1 ATA
3303668 ATATAACACT
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
22 1 0.02
23 28 0.67
24 13 0.31
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (24 bp):
ATATTAATATAATATATTTAAAAT
Found at i:3303673 original size:21 final size:21
Alignment explanation
Indices: 3303586--3303673 Score: 65
Period size: 23 Copynumber: 4.0 Consensus size: 21
3303576 AATATTATTT
*
3303586 ATATATTTAATAT-TAATATA
1 ATATATTTAAAATATAATATA
*
3303606 ATA-ATCTAATAATATTTTAATA-A
1 ATATATTTAA-AATA---TAATATA
*
3303629 ATATATTTAAAATATACTAAATA
1 ATATATTTAAAATATA--ATATA
*
3303652 ATATTTTTAAAATATAATATA
1 ATATATTTAAAATATAATATA
3303673 A
1 A
3303674 CACTATTACT
Statistics
Matches: 53, Mismatches: 6, Indels: 17
0.70 0.08 0.22
Matches are distributed among these distances:
19 5 0.09
20 7 0.13
21 5 0.09
22 2 0.04
23 24 0.45
24 10 0.19
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (21 bp):
ATATATTTAAAATATAATATA
Found at i:3304112 original size:16 final size:16
Alignment explanation
Indices: 3304074--3304112 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
3304064 TTATAAGTAC
3304074 ATATATACTTATACAT
1 ATATATACTTATACAT
* *
3304090 ATGTATACTTATACCT
1 ATATATACTTATACAT
3304106 ATATATA
1 ATATATA
3304113 TATAATTACA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.41, C:0.13, G:0.03, T:0.44
Consensus pattern (16 bp):
ATATATACTTATACAT
Found at i:3304148 original size:2 final size:2
Alignment explanation
Indices: 3304143--3304277 Score: 75
Period size: 2 Copynumber: 67.5 Consensus size: 2
3304133 TAAAAGCATC
** * * *
3304143 TA TA TA TA TA GG TA TG TA TA TA AA TA TA TA TA -A GTA TA CA -A
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA
* * *
3304184 AA TA -A TA TA TA GTA TT TA TA TA TA TA TA TA TA -A GTA TA TA CA
1 TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA
* * *
3304226 TA -A GCA TA TA TA -A GTA TA TA TA AA TGA TG TA TA TA TA TA TA
1 TA TA -TA TA TA TA TA -TA TA TA TA TA T-A TA TA TA TA TA TA TA
3304267 TA TA TA TA TA T
1 TA TA TA TA TA T
3304278 CATTAAACAT
Statistics
Matches: 102, Mismatches: 19, Indels: 24
0.70 0.13 0.17
Matches are distributed among these distances:
1 6 0.06
2 88 0.86
3 8 0.08
ACGTcount: A:0.49, C:0.02, G:0.07, T:0.41
Consensus pattern (2 bp):
TA
Found at i:3304237 original size:63 final size:63
Alignment explanation
Indices: 3304143--3304277 Score: 173
Period size: 63 Copynumber: 2.1 Consensus size: 63
3304133 TAAAAGCATC
* * * * *
3304143 TATATATATAGGTATGTATATAAATATATATAAGTATACA-AAATAATATATAGTATTTATATA
1 TATATATATAAGTATATACATAAACATATATAAGTATACATAAATAATATATA-TATATATATA
* * * *
3304206 TATATATATAAGTATATACATAAGCATATATAAGTATATATAAATGATGTATATATATATATA
1 TATATATATAAGTATATACATAAACATATATAAGTATACATAAATAATATATATATATATATA
3304269 TATATATAT
1 TATATATAT
3304278 CATTAAACAT
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
63 52 0.84
64 10 0.16
ACGTcount: A:0.49, C:0.02, G:0.07, T:0.41
Consensus pattern (63 bp):
TATATATATAAGTATATACATAAACATATATAAGTATACATAAATAATATATATATATATATA
Found at i:3305472 original size:2 final size:2
Alignment explanation
Indices: 3305465--3305509 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
3305455 ACTCATGTGA
3305465 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3305507 AT A
1 AT A
3305510 AGTTTATTGT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:3315594 original size:30 final size:30
Alignment explanation
Indices: 3315560--3315629 Score: 88
Period size: 30 Copynumber: 2.3 Consensus size: 30
3315550 TTATGGAAGA
* *
3315560 GTGTGGAATCATCTGGATTATT-TTGGAGAT
1 GTGTGGAATCATCTAGAATATTATT-GAGAT
* *
3315590 GTGTGGAATCCTCTAGAATATTATTTAGAT
1 GTGTGGAATCATCTAGAATATTATTGAGAT
3315620 GTGTGGAATC
1 GTGTGGAATC
3315630 TTATGGAAGA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
30 33 0.94
31 2 0.06
ACGTcount: A:0.26, C:0.09, G:0.27, T:0.39
Consensus pattern (30 bp):
GTGTGGAATCATCTAGAATATTATTGAGAT
Found at i:3315643 original size:20 final size:20
Alignment explanation
Indices: 3315620--3315667 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
3315610 TTATTTAGAT
*
3315620 GTGTGGAATCTTATGGAAGA
1 GTGTGGAACCTTATGGAAGA
*
3315640 GTGTGGAACCTTATGGGAGA
1 GTGTGGAACCTTATGGAAGA
*
3315660 GTATGGAA
1 GTGTGGAA
3315668 GAATATAGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.29, C:0.06, G:0.38, T:0.27
Consensus pattern (20 bp):
GTGTGGAACCTTATGGAAGA
Found at i:3324778 original size:29 final size:29
Alignment explanation
Indices: 3324746--3324804 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
3324736 TATGCATAAT
* *
3324746 AAAATGTTTATACCTTAATATTTGGTTAA
1 AAAATGTTTATACCCTAACATTTGGTTAA
3324775 AAAATGTTTATACCCTAACATTTGGTTAA
1 AAAATGTTTATACCCTAACATTTGGTTAA
3324804 A
1 A
3324805 TTACAAGTCA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.39, C:0.10, G:0.10, T:0.41
Consensus pattern (29 bp):
AAAATGTTTATACCCTAACATTTGGTTAA
Found at i:3326033 original size:16 final size:15
Alignment explanation
Indices: 3326012--3326041 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
3326002 TTATGTTTGA
3326012 TATTTAAATAATTATT
1 TATTTAAA-AATTATT
3326028 TATTTAAAAATTAT
1 TATTTAAAAATTAT
3326042 ATAAAGATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
TATTTAAAAATTATT
Found at i:3338154 original size:15 final size:15
Alignment explanation
Indices: 3338134--3338162 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
3338124 CAACCATATT
3338134 AGGGACTTAAACAAA
1 AGGGACTTAAACAAA
3338149 AGGGACTTAAACAA
1 AGGGACTTAAACAA
3338163 TAACAAAAAT
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:0.14, G:0.21, T:0.14
Consensus pattern (15 bp):
AGGGACTTAAACAAA
Found at i:3338533 original size:15 final size:15
Alignment explanation
Indices: 3338513--3338541 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
3338503 CAACCATATT
3338513 AGGGACTTAAACAAA
1 AGGGACTTAAACAAA
3338528 AGGGACTTAAACAA
1 AGGGACTTAAACAA
3338542 TAACAAAAAT
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:0.14, G:0.21, T:0.14
Consensus pattern (15 bp):
AGGGACTTAAACAAA
Found at i:3341195 original size:2 final size:2
Alignment explanation
Indices: 3341188--3341213 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
3341178 TTAGGATGGC
3341188 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
3341214 TAATAATACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3345257 original size:17 final size:17
Alignment explanation
Indices: 3345237--3345271 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
3345227 GATTCTCGAA
3345237 ACACCCCCTTTCTGTTT
1 ACACCCCCTTTCTGTTT
3345254 ACACCCCCTTTCTGTTT
1 ACACCCCCTTTCTGTTT
3345271 A
1 A
3345272 TTTTTATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.14, C:0.40, G:0.06, T:0.40
Consensus pattern (17 bp):
ACACCCCCTTTCTGTTT
Found at i:3350674 original size:3 final size:3
Alignment explanation
Indices: 3350661--3350714 Score: 101
Period size: 3 Copynumber: 18.3 Consensus size: 3
3350651 ATGTGTTCAT
3350661 ATA AT- ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
3350708 ATA ATA A
1 ATA ATA A
3350715 CATACATACA
Statistics
Matches: 50, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.04
3 48 0.96
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:3350901 original size:23 final size:25
Alignment explanation
Indices: 3350851--3350901 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 25
3350841 TTTATGTTTA
3350851 TATATAATAATATGAATAGTTATATT
1 TATATAATAATATGAATA-TTATATT
3350877 TATATAATATATAT-AAT-TTAT-TT
1 TATATAATA-ATATGAATATTATATT
3350900 TA
1 TA
3350902 AATGAATAGG
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
23 4 0.17
24 4 0.17
26 12 0.50
27 4 0.17
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (25 bp):
TATATAATAATATGAATATTATATT
Found at i:3358765 original size:23 final size:23
Alignment explanation
Indices: 3358725--3358768 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
3358715 GGTTCCAGGA
* *
3358725 GAGGGAGAGGGACTGGAGCGAAG
1 GAGGGAGAGAGACGGGAGCGAAG
*
3358748 GAGGGAGAGAGTCGGGAGCGA
1 GAGGGAGAGAGACGGGAGCGA
3358769 GCGAACCGGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.30, C:0.09, G:0.57, T:0.05
Consensus pattern (23 bp):
GAGGGAGAGAGACGGGAGCGAAG
Found at i:3364218 original size:21 final size:21
Alignment explanation
Indices: 3364192--3364232 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
3364182 CTGACTCCTC
*
3364192 GTTGTCATCATCATCGTCGTT
1 GTTGTCATCACCATCGTCGTT
*
3364213 GTTGTCGTCACCATCGTCGT
1 GTTGTCATCACCATCGTCGT
3364233 CGTCGTAGTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.12, C:0.27, G:0.22, T:0.39
Consensus pattern (21 bp):
GTTGTCATCACCATCGTCGTT
Found at i:3364237 original size:18 final size:18
Alignment explanation
Indices: 3364216--3364275 Score: 75
Period size: 18 Copynumber: 3.2 Consensus size: 18
3364206 CGTCGTTGTT
3364216 GTCGTCACCATCGTCGTC
1 GTCGTCACCATCGTCGTC
* *
3364234 GTCGTAGTCACTATCGTCTTC
1 GTC---GTCACCATCGTCGTC
3364255 GTCGTCACCATCGTCGTC
1 GTCGTCACCATCGTCGTC
3364273 GTC
1 GTC
3364276 ATCGTCCTGA
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
18 19 0.54
21 16 0.46
ACGTcount: A:0.12, C:0.35, G:0.22, T:0.32
Consensus pattern (18 bp):
GTCGTCACCATCGTCGTC
Found at i:3364243 original size:21 final size:21
Alignment explanation
Indices: 3364203--3364281 Score: 92
Period size: 21 Copynumber: 3.9 Consensus size: 21
3364193 TTGTCATCAT
* *
3364203 CATCGTCGTTGTTGTCGTCAC
1 CATCGTCGTCGTCGTCGTCAC
*
3364224 CATCGTCGTCGTCGTAGTCAC
1 CATCGTCGTCGTCGTCGTCAC
*
3364245 TATCGTC-T--TCGTCGTCAC
1 CATCGTCGTCGTCGTCGTCAC
*
3364263 CATCGTCGTCGTCATCGTC
1 CATCGTCGTCGTCGTCGTC
3364282 CTGAGCATGT
Statistics
Matches: 48, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
18 15 0.31
19 1 0.02
20 1 0.02
21 31 0.65
ACGTcount: A:0.11, C:0.33, G:0.22, T:0.34
Consensus pattern (21 bp):
CATCGTCGTCGTCGTCGTCAC
Found at i:3364653 original size:18 final size:18
Alignment explanation
Indices: 3364630--3364664 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
3364620 GCGATGGTGG
3364630 CATCATATATGGCTGCGA
1 CATCATATATGGCTGCGA
*
3364648 CATCATATATGGTTGCG
1 CATCATATATGGCTGCG
3364665 GTGGTTGCTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.26, C:0.20, G:0.23, T:0.31
Consensus pattern (18 bp):
CATCATATATGGCTGCGA
Found at i:3366416 original size:99 final size:102
Alignment explanation
Indices: 3366155--3366435 Score: 304
Period size: 99 Copynumber: 2.8 Consensus size: 102
3366145 AATTAATTCT
*
3366155 TAATAATCATGCATTAAATAAATCAACT-A-ATTATTACTAATATTAAA-AATTAAAACGTTAAA
1 TAATAATCATGCA-TAAATAAATCAACTAATATTATTAATAAT-TTAAATAATTAAAACGTT-AA
**
3366217 ATGTTACCGTATCAGCAAGTGTCGAGATATTTAATTCTTAATC
63 ATGTTACCGTATCA-CAAGAATCGAGA-A-TTAATTCTTAATC
* *
3366260 TAATAATCACGCATTAAAT-AA--AACTAAT-TTACTAAT-A-TTAAACTAATTAAAACGTTAAA
1 TAATAATCATGCA-TAAATAAATCAACTAATATTATTAATAATTTAAA-TAATTAAAACGTTAAA
3366319 TGTTACCGTATCA-AA-AATCGAG-A-T-ATTCTTAATC
64 TGTTACCGTATCACAAGAATCGAGAATTAATTCTTAATC
3366353 TAAATCAATCATGCA-AAATAAATCAACTAATATTATTAATAATTTAAATTAATTAAAACGTTAA
1 T-AAT-AATCATGCATAAATAAATCAACTAATATTATTAATAATTTAAA-TAATTAAAACGTTAA
3366417 ATGTTACCGTATCAGCAAG
63 ATGTTACCGTATCA-CAAG
3366436 TGTAGAGATA
Statistics
Matches: 153, Mismatches: 8, Indels: 33
0.79 0.04 0.17
Matches are distributed among these distances:
93 15 0.10
94 6 0.04
95 8 0.05
96 8 0.05
97 7 0.05
98 6 0.04
99 36 0.24
100 5 0.03
101 18 0.12
102 17 0.11
103 7 0.05
104 2 0.01
105 18 0.12
ACGTcount: A:0.46, C:0.13, G:0.07, T:0.34
Consensus pattern (102 bp):
TAATAATCATGCATAAATAAATCAACTAATATTATTAATAATTTAAATAATTAAAACGTTAAATG
TTACCGTATCACAAGAATCGAGAATTAATTCTTAATC
Found at i:3367424 original size:27 final size:28
Alignment explanation
Indices: 3367359--3367600 Score: 118
Period size: 27 Copynumber: 8.8 Consensus size: 28
3367349 CCAGAATTTA
* *
3367359 GATTGAAGCACAGAGGTGCTCAGTCATA
1 GATTGAAGCACAGAGGTGCTCAGTCCTC
**
3367387 G-TTGGCTGCACAGAGGTG-TCAGTCCTC
1 GATT-GAAGCACAGAGGTGCTCAGTCCTC
* *
3367414 GATTGAAGCACAGAGGTGCTCAATCATC
1 GATTGAAGCACAGAGGTGCTCAGTCCTC
*
3367442 --TTAGCTA-CACAGAGGTG-TCAG--CTC
1 GATT-G-AAGCACAGAGGTGCTCAGTCCTC
* * *
3367466 G-CTGAAGCACAGAGGTGCTCAGTCAATTT
1 GATTGAAGCACAGAGGTGCTCAGTC--CTC
** * * *
3367495 TTTTTAACTGCACATAGGTG-TCAGTTCTC
1 GATTGAA--GCACAGAGGTGCTCAGTCCTC
*
3367524 GATTGAAGCACAGAGGTGCTCAATCACT-
1 GATTGAAGCACAGAGGTGCTCAGTC-CTC
* *
3367552 -TTTGGCTA-CACAGAGGTG-TCAG-CTCTC
1 GATT-G-AAGCACAGAGGTGCTCAGTC-CTC
3367579 GATTGAAGCACAGAGGTGCTCA
1 GATTGAAGCACAGAGGTGCTCA
3367601 ATCGTTAATT
Statistics
Matches: 157, Mismatches: 34, Indels: 46
0.66 0.14 0.19
Matches are distributed among these distances:
23 1 0.01
24 13 0.08
25 5 0.03
26 9 0.06
27 59 0.38
28 43 0.27
29 9 0.06
30 3 0.02
31 5 0.03
32 10 0.06
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (28 bp):
GATTGAAGCACAGAGGTGCTCAGTCCTC
Found at i:3367426 original size:55 final size:54
Alignment explanation
Indices: 3367359--3367603 Score: 280
Period size: 55 Copynumber: 4.5 Consensus size: 54
3367349 CCAGAATTTA
* ** * *
3367359 GATTGAAGCACAGAGGTGCTCAGTCATAGTTGGCTGCACAGAGGTGTCAGTCCTC
1 GATTGAAGCACAGAGGTGCTCAATCATTTTTAGCTACACAGAGGTGTCAG-CCTC
*
3367414 GATTGAAGCACAGAGGTGCTCAATCA-TCTTAGCTACACAGAGGTGTCAG-CTC
1 GATTGAAGCACAGAGGTGCTCAATCATTTTTAGCTACACAGAGGTGTCAGCCTC
* * * * * *
3367466 G-CTGAAGCACAGAGGTGCTCAGTCAATTTTTTTTAACTGCACATAGGTGTCAGTTCTC
1 GATTGAAGCACAGAGGTGCTCAATC-A---TTTTTAGCTACACAGAGGTGTCAG-CCTC
* *
3367524 GATTGAAGCACAGAGGTGCTCAATCACTTTTGGCTACACAGAGGTGTCAGCTCTC
1 GATTGAAGCACAGAGGTGCTCAATCATTTTTAGCTACACAGAGGTGTCAGC-CTC
3367579 GATTGAAGCACAGAGGTGCTCAATC
1 GATTGAAGCACAGAGGTGCTCAATC
3367604 GTTAATTCTA
Statistics
Matches: 162, Mismatches: 19, Indels: 18
0.81 0.10 0.09
Matches are distributed among these distances:
51 21 0.13
52 5 0.03
54 19 0.12
55 72 0.44
56 19 0.12
58 5 0.03
59 21 0.13
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (54 bp):
GATTGAAGCACAGAGGTGCTCAATCATTTTTAGCTACACAGAGGTGTCAGCCTC
Found at i:3367515 original size:110 final size:113
Alignment explanation
Indices: 3367392--3367600 Score: 343
Period size: 110 Copynumber: 1.9 Consensus size: 113
3367382 TCATAGTTGG
3367392 CTGCACAGAGGTGTCAGTCCTCGATTGAAGCACAGAGGTGCTCAATCA-TCTTAGCTACACAGAG
1 CTGCACAGAGGTGTCAGTCCTCGATTGAAGCACAGAGGTGCTCAATCACTCTTAGCTACACAGAG
3367456 GTGTCAG-CTCG-CTGAAGCACAGAGGTGCTCAGTCAATTTTTTTTAA
66 GTGTCAGCCTCGACTGAAGCACAGAGGTGCTCAGTCAATTTTTTTTAA
* * * *
3367502 CTGCACATAGGTGTCAGTTCTCGATTGAAGCACAGAGGTGCTCAATCACTTTTGGCTACACAGAG
1 CTGCACAGAGGTGTCAGTCCTCGATTGAAGCACAGAGGTGCTCAATCACTCTTAGCTACACAGAG
*
3367567 GTGTCAGCTCTCGATTGAAGCACAGAGGTGCTCA
66 GTGTCAGC-CTCGACTGAAGCACAGAGGTGCTCA
3367601 ATCGTTAATT
Statistics
Matches: 90, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
110 46 0.51
111 21 0.23
113 4 0.04
114 19 0.21
ACGTcount: A:0.26, C:0.23, G:0.25, T:0.26
Consensus pattern (113 bp):
CTGCACAGAGGTGTCAGTCCTCGATTGAAGCACAGAGGTGCTCAATCACTCTTAGCTACACAGAG
GTGTCAGCCTCGACTGAAGCACAGAGGTGCTCAGTCAATTTTTTTTAA
Found at i:3367602 original size:110 final size:107
Alignment explanation
Indices: 3367359--3367603 Score: 321
Period size: 110 Copynumber: 2.2 Consensus size: 107
3367349 CCAGAATTTA
* **
3367359 GATTGAAGCACAGAGGTGCTCAGTCATAGTTGGCTGCACAGAGGTGTCAGTCCTCGATTGAAGCA
1 GATTGAAGCACAGAGGTGCTCAATCATAGTTAACTGCACAGAGGTGTCAGTCCTCGATTGAAGCA
3367424 CAGAGGTGCTCAATCATCTTAGCTACACAGAGGTGTCAGCTC
66 CAGAGGTGCTCAATCATCTTAGCTACACAGAGGTGTCAGCTC
* * ** * *
3367466 G-CTGAAGCACAGAGGTGCTCAGTCAATTTTTTTTAACTGCACATAGGTGTCAGTTCTCGATTGA
1 GATTGAAGCACAGAGGTGCTCAATC-A---TAGTTAACTGCACAGAGGTGTCAGTCCTCGATTGA
* *
3367530 AGCACAGAGGTGCTCAATCACTTTTGGCTACACAGAGGTGTCAGCTCTC
62 AGCACAGAGGTGCTCAATCA-TCTTAGCTACACAGAGGTGTCAG--CTC
3367579 GATTGAAGCACAGAGGTGCTCAATC
1 GATTGAAGCACAGAGGTGCTCAATC
3367604 GTTAATTCTA
Statistics
Matches: 119, Mismatches: 11, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
106 22 0.18
107 2 0.02
110 49 0.41
111 21 0.18
113 4 0.03
114 21 0.18
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (107 bp):
GATTGAAGCACAGAGGTGCTCAATCATAGTTAACTGCACAGAGGTGTCAGTCCTCGATTGAAGCA
CAGAGGTGCTCAATCATCTTAGCTACACAGAGGTGTCAGCTC
Found at i:3380520 original size:2 final size:2
Alignment explanation
Indices: 3380513--3380540 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
3380503 AATATCGACA
3380513 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3380541 CTGTCGAAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3381565 original size:14 final size:15
Alignment explanation
Indices: 3381548--3381585 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
3381538 AATTCAAATG
3381548 AAAATCAAATATATA
1 AAAATCAAATATATA
*
3381563 AAAATCAAATCTAT-
1 AAAATCAAATATATA
3381577 AAAATCAAA
1 AAAATCAAA
3381586 AATAATTCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 9 0.41
15 13 0.59
ACGTcount: A:0.66, C:0.11, G:0.00, T:0.24
Consensus pattern (15 bp):
AAAATCAAATATATA
Done.