Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr4
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: 30015117
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1306243 characters in sequence are not A, C, G, or T
File 40 of 85
Found at i:13471019 original size:8 final size:8
Alignment explanation
Indices: 13471006--13471033 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
13470996 ATATAAATCA
13471006 TCAACCAT
1 TCAACCAT
13471014 TCAACCAT
1 TCAACCAT
13471022 TCAACCAT
1 TCAACCAT
13471030 TCAA
1 TCAA
13471034 ACATGCATGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.39, C:0.36, G:0.00, T:0.25
Consensus pattern (8 bp):
TCAACCAT
Found at i:13472676 original size:23 final size:22
Alignment explanation
Indices: 13472646--13472723 Score: 86
Period size: 23 Copynumber: 3.4 Consensus size: 22
13472636 CATATTTATC
13472646 TTGGGCTTGAGCTCAAATTGATT
1 TTGGGCTTGAGCT-AAATTGATT
* * *
13472669 TTGGGCTTGAAAGCT-TATTTATC
1 TTGGGCTTG--AGCTAAATTGATT
13472692 TTGGGCTTGAGCTTAAATTGATT
1 TTGGGCTTGAGC-TAAATTGATT
13472715 TTGGGCTTG
1 TTGGGCTTG
13472724 GAAGCTTTCT
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
21 3 0.07
22 1 0.02
23 37 0.82
25 4 0.09
ACGTcount: A:0.19, C:0.12, G:0.27, T:0.42
Consensus pattern (22 bp):
TTGGGCTTGAGCTAAATTGATT
Found at i:13472690 original size:46 final size:46
Alignment explanation
Indices: 13472638--13472730 Score: 168
Period size: 46 Copynumber: 2.0 Consensus size: 46
13472628 TATTTAATCA
13472638 TATTTATCTTGGGCTTGAGCTCAAATTGATTTTGGGCTTGAAAGCT
1 TATTTATCTTGGGCTTGAGCTCAAATTGATTTTGGGCTTGAAAGCT
* *
13472684 TATTTATCTTGGGCTTGAGCTTAAATTGATTTTGGGCTTGGAAGCT
1 TATTTATCTTGGGCTTGAGCTCAAATTGATTTTGGGCTTGAAAGCT
13472730 T
1 T
13472731 TCTCGAGTTT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.20, C:0.12, G:0.25, T:0.43
Consensus pattern (46 bp):
TATTTATCTTGGGCTTGAGCTCAAATTGATTTTGGGCTTGAAAGCT
Found at i:13480786 original size:21 final size:21
Alignment explanation
Indices: 13480760--13480808 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
13480750 GAAGTTGATC
13480760 TGTTGTTTTCAATACTTAAGG
1 TGTTGTTTTCAATACTTAAGG
13480781 TGTTGTTTTCAATACTTAAGG
1 TGTTGTTTTCAATACTTAAGG
13480802 TGCTTGT
1 TG-TTGT
13480809 AATCAAACAT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 23 0.85
22 4 0.15
ACGTcount: A:0.20, C:0.10, G:0.20, T:0.49
Consensus pattern (21 bp):
TGTTGTTTTCAATACTTAAGG
Found at i:13480814 original size:22 final size:21
Alignment explanation
Indices: 13480768--13480814 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
13480758 TCTGTTGTTT
**
13480768 TCAATACTTAAGGTGTTGTTT
1 TCAATACTTAAGGTGTTGTAA
13480789 TCAATACTTAAGGTGCTTGTAA
1 TCAATACTTAAGGTG-TTGTAA
13480811 TCAA
1 TCAA
13480815 ACATTTTTAC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 15 0.65
22 8 0.35
ACGTcount: A:0.30, C:0.13, G:0.17, T:0.40
Consensus pattern (21 bp):
TCAATACTTAAGGTGTTGTAA
Found at i:13483286 original size:22 final size:20
Alignment explanation
Indices: 13483237--13483275 Score: 71
Period size: 19 Copynumber: 2.0 Consensus size: 20
13483227 ATATATATAT
13483237 ATTTAAAACAATATTGATAA
1 ATTTAAAACAATATTGATAA
13483257 ATTTAAAAC-ATATTGATAA
1 ATTTAAAACAATATTGATAA
13483276 TAATTTTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.54, C:0.05, G:0.05, T:0.36
Consensus pattern (20 bp):
ATTTAAAACAATATTGATAA
Found at i:13485223 original size:44 final size:44
Alignment explanation
Indices: 13485167--13485537 Score: 295
Period size: 44 Copynumber: 8.5 Consensus size: 44
13485157 GTTCGATCTG
* * * *
13485167 CTCCACTACTGCTTAGGGAGATAAGATTTGTAATTTTCAACTTA
1 CTCCACTACTGCTCAGGGAGATAAGATCTGTAATCTTCAACCTA
* * ** * * ** * ** *
13485211 CTCCACTGCTGCTCAGAGAGGCATG-GCTGGGGA-CTTCGATATG
1 CTCCACTACTGCTCAGGGAGATAAGATCT-GTAATCTTCAACCTA
* * *
13485254 CTCCACTACTTCTTAGGGAGATAAGATCTGTAATTTTCAACCTA
1 CTCCACTACTGCTCAGGGAGATAAGATCTGTAATCTTCAACCTA
* * * ** * * *
13485298 CTCCACTGCTGCTCAGGGAGACAAG-GCTGGGGA-CTTCGATCTG
1 CTCCACTACTGCTCAGGGAGATAAGATCT-GTAATCTTCAACCTA
* *
13485341 CTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTA
1 CTCCACTACTGCTCAGGGAGATAAGATCTGTAATCTTCAACCTA
* **
13485385 CTCCACTACTGCTCAGGGAGATAAGGTCTACAATCTTCAACCTA
1 CTCCACTACTGCTCAGGGAGATAAGATCTGTAATCTTCAACCTA
* * ** * *
13485429 CTCCACTGCTGCTCAGGGAGATAAG-GCTTGCCATCTTCGATCC-G
1 CTCCACTACTGCTCAGGGAGATAAGATC-TGTAATCTTC-AACCTA
* * *
13485473 CTCCACTACTGCTTAGGGAGATAATATCTGTAATTTTCAACCTA
1 CTCCACTACTGCTCAGGGAGATAAGATCTGTAATCTTCAACCTA
13485517 CTCCACTACTGCTCAGGGAGA
1 CTCCACTACTGCTCAGGGAGA
13485538 CAAGGCTGGA
Statistics
Matches: 245, Mismatches: 72, Indels: 20
0.73 0.21 0.06
Matches are distributed among these distances:
43 62 0.25
44 179 0.73
45 4 0.02
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.28
Consensus pattern (44 bp):
CTCCACTACTGCTCAGGGAGATAAGATCTGTAATCTTCAACCTA
Found at i:13485258 original size:87 final size:87
Alignment explanation
Indices: 13485158--13485410 Score: 416
Period size: 87 Copynumber: 2.9 Consensus size: 87
13485148 GACTTGGGTG
* *
13485158 TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATTTGTAATTTTCAACTTACTCCACTGCTGC
1 TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTGCTGC
* *
13485223 TCAGAGAGGCATGGCTGGGGAC
66 TCAGAGAGACAAGGCTGGGGAC
* *
13485245 TTCGATATGCTCCACTACTTCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTGCTGC
1 TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTGCTGC
*
13485310 TCAGGGAGACAAGGCTGGGGAC
66 TCAGAGAGACAAGGCTGGGGAC
*
13485332 TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTACTGC
1 TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTGCTGC
* *
13485397 TCAGGGAGATAAGG
66 TCAGAGAGACAAGG
13485411 TCTACAATCT
Statistics
Matches: 155, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
87 155 1.00
ACGTcount: A:0.25, C:0.24, G:0.23, T:0.29
Consensus pattern (87 bp):
TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTGCTGC
TCAGAGAGACAAGGCTGGGGAC
Found at i:13485478 original size:88 final size:87
Alignment explanation
Indices: 13485385--13485588 Score: 264
Period size: 88 Copynumber: 2.3 Consensus size: 87
13485375 TTTCAACCTA
* * *
13485385 CTCCACTACTGCTCAGGGAGATAAGGTCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGA
1 CTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCACTACTGCTCAGGGAGA
* * *
13485450 TAAGGCTTGCCATCTTCGATCCG
66 CAAGGCTGGACA-CTTCGATCCG
* ** *
13485473 CTCCACTACTGCTTAGGGAGATAATATCTGTAATTTTCAACCTACTCCACTACTGCTCAGGGAGA
1 CTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCACTACTGCTCAGGGAGA
* * *
13485538 CAAGGCTGGAGACTTTGATCTG
66 CAAGGCTGGACACTTCGATCCG
* *
13485560 CACAACTACTGCTTAGGGAGATAAGATCT
1 CTCCACTACTGCTTAGGGAGATAAGATCT
13485589 GCTTCTTCGG
Statistics
Matches: 100, Mismatches: 16, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
87 34 0.34
88 66 0.66
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.26
Consensus pattern (87 bp):
CTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCACTACTGCTCAGGGAGA
CAAGGCTGGACACTTCGATCCG
Found at i:13485508 original size:219 final size:218
Alignment explanation
Indices: 13485167--13485589 Score: 630
Period size: 219 Copynumber: 1.9 Consensus size: 218
13485157 GTTCGATCTG
* * ** * * *
13485167 CTCCACTACTGCTTAGGGAGATAAGATTTGTAATTTTCAACTTACTCCACTGCTGCTCAGAGAGG
1 CTCCACTACTGCTCAGGGAGATAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAGAGAGA
* ** * *
13485232 CATGGCTGGGGACTTCGATATGCTCCACTACTTCTTAGGGAGATAAGATCTGTAATTTTCAACCT
66 CAAGGCTGGCCACTTCGATACGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCT
* * * *
13485297 ACTCCACTGCTGCTCAGGGAGACAAGGCTGGGGACTTCGATCTGCTCCACTACTGCTTAGGGAGA
131 ACTCCACTACTGCTCAGGGAGACAAGGCTGGAGACTTCGATCTGCACAACTACTGCTTAGGGAGA
13485362 TAAGATCTGTAATTTTCAACCTA
196 TAAGATCTGTAATTTTCAACCTA
* *
13485385 CTCCACTACTGCTCAGGGAGATAAGGTCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGA
1 CTCCACTACTGCTCAGGGAGATAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAGAGAGA
* * * *
13485450 TAAGGCTTGCCATCTTCGATCCGCTCCACTACTGCTTAGGGAGATAATATCTGTAATTTTCAACC
66 CAAGGCTGGCCA-CTTCGATACGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACC
*
13485515 TACTCCACTACTGCTCAGGGAGACAAGGCTGGAGACTTTGATCTGCACAACTACTGCTTAGGGAG
130 TACTCCACTACTGCTCAGGGAGACAAGGCTGGAGACTTCGATCTGCACAACTACTGCTTAGGGAG
13485580 ATAAGATCTG
195 ATAAGATCTG
13485590 CTTCTTCGGT
Statistics
Matches: 181, Mismatches: 23, Indels: 1
0.88 0.11 0.00
Matches are distributed among these distances:
218 63 0.35
219 118 0.65
ACGTcount: A:0.26, C:0.25, G:0.22, T:0.28
Consensus pattern (218 bp):
CTCCACTACTGCTCAGGGAGATAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAGAGAGA
CAAGGCTGGCCACTTCGATACGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCT
ACTCCACTACTGCTCAGGGAGACAAGGCTGGAGACTTCGATCTGCACAACTACTGCTTAGGGAGA
TAAGATCTGTAATTTTCAACCTA
Found at i:13485521 original size:132 final size:131
Alignment explanation
Indices: 13485254--13485542 Score: 452
Period size: 132 Copynumber: 2.2 Consensus size: 131
13485244 CTTCGATATG
* * * ** *
13485254 CTCCACTACTTCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTGCTGCTCAGGGAGA
1 CTCCACTACTGCTCAGGGAGATAAGGTCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGA
** *
13485319 CAAGGCTGGGGACTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCT
66 CAAGGCTGGCCACTTCGATCCGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCT
13485384 A
131 A
13485385 CTCCACTACTGCTCAGGGAGATAAGGTCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGA
1 CTCCACTACTGCTCAGGGAGATAAGGTCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGA
* * *
13485450 TAAGGCTTGCCATCTTCGATCCGCTCCACTACTGCTTAGGGAGATAATATCTGTAATTTTCAACC
66 CAAGGCTGGCCA-CTTCGATCCGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACC
13485515 TA
130 TA
*
13485517 CTCCACTACTGCTCAGGGAGACAAGG
1 CTCCACTACTGCTCAGGGAGATAAGG
13485543 CTGGAGACTT
Statistics
Matches: 144, Mismatches: 13, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
131 67 0.47
132 77 0.53
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.27
Consensus pattern (131 bp):
CTCCACTACTGCTCAGGGAGATAAGGTCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGA
CAAGGCTGGCCACTTCGATCCGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCT
A
Found at i:13485790 original size:216 final size:216
Alignment explanation
Indices: 13485554--13485977 Score: 776
Period size: 216 Copynumber: 2.0 Consensus size: 216
13485544 TGGAGACTTT
13485554 GATCTGCACAACTACTGCTTAGGGAGATAAGATCTGCTTCTTCGGTCTGCTCCGCTGCAACCTCA
1 GATCTGCACAACTACTGCTTAGGGAGATAAGATCTGCTTCTTCGGTCTGCTCCGCTGCAACCTCA
13485619 AGGAGATAAGACCTGATGCGATCTACTCTACTGCAAATTCAGAGAGATAAGATCTTTTATTTTAA
66 AGGAGATAAGACCTGATGCGATCTACTCTACTGCAAATTCAGAGAGATAAGATCTTTTATTTTAA
*
13485684 TCCACTCCACTGCAACTTCAGGGAGATAGGATTACTGGCTTCAATCTGATCCACTACTACTTAGG
131 TCCACTCCACTGCAACTTCAGAGAGATAGGATTACTGGCTTCAATCTGATCCACTACTACTTAGG
13485749 GAGATAAGATCTGCCATCTTC
196 GAGATAAGATCTGCCATCTTC
* * * *
13485770 GATCTGCTCTACTACTGCTTAGGGAGATAAGATTTGCTTCTTTGGTCTGCTCCGCTGCAACCTCA
1 GATCTGCACAACTACTGCTTAGGGAGATAAGATCTGCTTCTTCGGTCTGCTCCGCTGCAACCTCA
*
13485835 GGGAGATAAGACCTGATGCGATCTACTCTACTGCAAATTCAGAGAGATAAGATCTTTTATTTTAA
66 AGGAGATAAGACCTGATGCGATCTACTCTACTGCAAATTCAGAGAGATAAGATCTTTTATTTTAA
* *
13485900 TCCACTCCACTGCAACTTCAGAGAGATAGGATTACTGGCTTCAATCTGCTCCACTACTGCTTAGG
131 TCCACTCCACTGCAACTTCAGAGAGATAGGATTACTGGCTTCAATCTGATCCACTACTACTTAGG
13485965 GAGATAAGATCTG
196 GAGATAAGATCTG
13485978 TAATTTCATT
Statistics
Matches: 200, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
216 200 1.00
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.29
Consensus pattern (216 bp):
GATCTGCACAACTACTGCTTAGGGAGATAAGATCTGCTTCTTCGGTCTGCTCCGCTGCAACCTCA
AGGAGATAAGACCTGATGCGATCTACTCTACTGCAAATTCAGAGAGATAAGATCTTTTATTTTAA
TCCACTCCACTGCAACTTCAGAGAGATAGGATTACTGGCTTCAATCTGATCCACTACTACTTAGG
GAGATAAGATCTGCCATCTTC
Found at i:13495130 original size:34 final size:34
Alignment explanation
Indices: 13495091--13495241 Score: 122
Period size: 41 Copynumber: 4.0 Consensus size: 34
13495081 AACAGATTCA
*
13495091 CCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
1 CCGGCACTTAGCCTGCTAGGCTTATAACCTGATT
*
13495125 CCGGCACTTAGCCTGCTAGGTTTATAACCTGAATCAGAT
1 CCGGCACTTAGCCTGCTAGGCTTATAACCTG-AT----T
* * *
13495164 CACCGACGCTTAGCCTGCTAGGTTTATAACCTGATTCAGAT
1 --CCGGCACTTAGCCTGCTAGGCTTATAACCTGA-T----T
*
13495205 CACCGGCACTTAGCCTGCTAGGTTTATAACCTGATT
1 --CCGGCACTTAGCCTGCTAGGCTTATAACCTGATT
13495241 C
1 C
13495242 AGATCACCGG
Statistics
Matches: 103, Mismatches: 6, Indels: 16
0.82 0.05 0.13
Matches are distributed among these distances:
34 30 0.29
35 2 0.02
36 1 0.01
39 1 0.01
40 2 0.02
41 67 0.65
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.29
Consensus pattern (34 bp):
CCGGCACTTAGCCTGCTAGGCTTATAACCTGATT
Found at i:13495188 original size:41 final size:41
Alignment explanation
Indices: 13495125--13495266 Score: 257
Period size: 41 Copynumber: 3.5 Consensus size: 41
13495115 TAGCCTGATT
*
13495125 CCGGCACTTAGCCTGCTAGGTTTATAACCTGAATCAGATCA
1 CCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGATCA
* *
13495166 CCGACGCTTAGCCTGCTAGGTTTATAACCTGATTCAGATCA
1 CCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGATCA
13495207 CCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGATCA
1 CCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGATCA
13495248 CCGGCACTTAGCCTGCTAG
1 CCGGCACTTAGCCTGCTAG
13495267 ACGTATAGTC
Statistics
Matches: 96, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 96 1.00
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.27
Consensus pattern (41 bp):
CCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGATCA
Found at i:13496774 original size:3 final size:3
Alignment explanation
Indices: 13496766--13497322 Score: 1114
Period size: 3 Copynumber: 185.7 Consensus size: 3
13496756 GGTCTTTTCT
13496766 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
13496814 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
13496862 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
13496910 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
13496958 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
13497006 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
13497054 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
13497102 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
13497150 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
13497198 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
13497246 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
13497294 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
13497323 TAGGAATCAA
Statistics
Matches: 554, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 554 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:13508437 original size:22 final size:20
Alignment explanation
Indices: 13508388--13508426 Score: 71
Period size: 19 Copynumber: 2.0 Consensus size: 20
13508378 TTATATATAT
13508388 ATTTAAAACAATATTGATAA
1 ATTTAAAACAATATTGATAA
13508408 ATTTAAAAC-ATATTGATAA
1 ATTTAAAACAATATTGATAA
13508427 TAATTTTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.54, C:0.05, G:0.05, T:0.36
Consensus pattern (20 bp):
ATTTAAAACAATATTGATAA
Found at i:13512579 original size:46 final size:46
Alignment explanation
Indices: 13512503--13512606 Score: 163
Period size: 46 Copynumber: 2.3 Consensus size: 46
13512493 ATTCTGATTC
*
13512503 TGATTCGCATATTAAGTATGCCACTTTGTTAAACCAAAAATAAAGA
1 TGATTCGCATATTAAGTATGCCACTGTGTTAAACCAAAAATAAAGA
* * *
13512549 TGATTCGCATGTTAAGTATGGCACTGTGTTAAACCAAAAATAAATA
1 TGATTCGCATATTAAGTATGCCACTGTGTTAAACCAAAAATAAAGA
*
13512595 TGATTCACATAT
1 TGATTCGCATAT
13512607 AAAGACTGCA
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 52 1.00
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.32
Consensus pattern (46 bp):
TGATTCGCATATTAAGTATGCCACTGTGTTAAACCAAAAATAAAGA
Found at i:13515257 original size:16 final size:15
Alignment explanation
Indices: 13515238--13515267 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
13515228 TTAATTTCAT
13515238 TTGCATTTAGATTAAC
1 TTGCATTTAG-TTAAC
13515254 TTGCATTTAGTTAA
1 TTGCATTTAGTTAA
13515268 TTAATTTAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.30, C:0.10, G:0.13, T:0.47
Consensus pattern (15 bp):
TTGCATTTAGTTAAC
Found at i:13516615 original size:28 final size:28
Alignment explanation
Indices: 13516583--13516657 Score: 91
Period size: 28 Copynumber: 2.7 Consensus size: 28
13516573 ACAGTATCAA
13516583 TGTGGGCTTTAGCCCAATATA-ATAACAG
1 TGTGGGCTTTAGCCCAATATAGA-AACAG
* * *
13516611 TGTGGGCCTTAGCCCAAAATAGAATCAG
1 TGTGGGCTTTAGCCCAATATAGAAACAG
13516639 TGTGGG-TCTTAGCCCAATA
1 TGTGGGCT-TTAGCCCAATA
13516658 CAGTAACAAT
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
28 39 0.98
29 1 0.03
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (28 bp):
TGTGGGCTTTAGCCCAATATAGAAACAG
Found at i:13516665 original size:56 final size:56
Alignment explanation
Indices: 13516546--13516665 Score: 136
Period size: 56 Copynumber: 2.2 Consensus size: 56
13516536 CTATTCAGTG
* * * *
13516546 ACAGT-ACAGTGTAGGCCTTATCCTAATACAGTATCAATGTGGGCTTTAGCCCAAT
1 ACAGTAACAGTGTAGGCCTTAGCCCAAAACAGAATCAATGTGGGCTTTAGCCCAAT
* * * * *
13516601 ATAATAACAGTGTGGGCCTTAGCCCAAAATAGAATCAGTGTGGG-TCTTAGCCCAAT
1 ACAGTAACAGTGTAGGCCTTAGCCCAAAACAGAATCAATGTGGGCT-TTAGCCCAAT
13516657 ACAGTAACA
1 ACAGTAACA
13516666 ATGCAGTGCA
Statistics
Matches: 52, Mismatches: 11, Indels: 3
0.79 0.17 0.05
Matches are distributed among these distances:
55 4 0.08
56 48 0.92
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.26
Consensus pattern (56 bp):
ACAGTAACAGTGTAGGCCTTAGCCCAAAACAGAATCAATGTGGGCTTTAGCCCAAT
Found at i:13516799 original size:26 final size:26
Alignment explanation
Indices: 13516770--13516824 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
13516760 AACACACCAA
13516770 TATCGCAGTAAAGCTGCCAGTAACAG
1 TATCGCAGTAAAGCTGCCAGTAACAG
13516796 TATCGCAGTAAAGCTGCCAGTAACAG
1 TATCGCAGTAAAGCTGCCAGTAACAG
13516822 TAT
1 TAT
13516825 ATGTGGCAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.35, C:0.22, G:0.22, T:0.22
Consensus pattern (26 bp):
TATCGCAGTAAAGCTGCCAGTAACAG
Found at i:13517067 original size:27 final size:27
Alignment explanation
Indices: 13517029--13517418 Score: 424
Period size: 27 Copynumber: 14.4 Consensus size: 27
13517019 GGCCATAACA
* *
13517029 GTCATTTTACCCTGTGGGGGTATTTTG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * *
13517056 GTCATTTCACCCTATAGGGGTATTTCA
1 GTCATTTTACCCTATGGGGGTATTTCG
* * *
13517083 GTTATTTTACCCTATAGAGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* *
13517110 ATCATTTTACCCTATGGGGGTATTTCA
1 GTCATTTTACCCTATGGGGGTATTTCG
13517137 GTCATTTTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * *
13517164 GTTATTTTACCCTATGAGGGTATTTCA
1 GTCATTTTACCCTATGGGGGTATTTCG
* *
13517191 GTCATTTTACCCTATGGGAGTATTTTG
1 GTCATTTTACCCTATGGGGGTATTTCG
**
13517218 GTCATTTTACCCTATAAGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * * *
13517245 GTGATTTTACCATATGGGGCTATTTCA
1 GTCATTTTACCCTATGGGGGTATTTCG
*
13517272 GTCATTTTACCCTATGGAGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* *
13517299 ATCATTTTACCCTATGGGGGTATTTCA
1 GTCATTTTACCCTATGGGGGTATTTCG
* *
13517326 GTCATTTTACCCTATGAGGGTATTTCA
1 GTCATTTTACCCTATGGGGGTATTTCG
* * * ** *
13517353 ATCATTTT-CATCTATTAGGGGTAAAAT-A
1 GTCATTTTAC-CCTA-TGGGGGT-ATTTCG
* * *
13517381 GTCATTTTACCCTTTAGGGGTATTTTG
1 GTCATTTTACCCTATGGGGGTATTTCG
13517408 GTCATTTTACC
1 GTCATTTTACC
13517419 TATTTTGGGG
Statistics
Matches: 302, Mismatches: 56, Indels: 10
0.82 0.15 0.03
Matches are distributed among these distances:
26 3 0.01
27 281 0.93
28 15 0.05
29 3 0.01
ACGTcount: A:0.21, C:0.17, G:0.20, T:0.42
Consensus pattern (27 bp):
GTCATTTTACCCTATGGGGGTATTTCG
Found at i:13520264 original size:26 final size:26
Alignment explanation
Indices: 13520214--13520294 Score: 85
Period size: 26 Copynumber: 3.2 Consensus size: 26
13520204 TACAGTTTCC
* **
13520214 GTGATTAATGTCCCAACAAACTATCT
1 GTGATTAATGTCCCAGCGGACTATCT
* * *
13520240 GTGATTAGTGTCTCAGCGGATTATC-
1 GTGATTAATGTCCCAGCGGACTATCT
*
13520265 CT-ATTAATGTCCCAGCGGACTATCT
1 GTGATTAATGTCCCAGCGGACTATCT
13520290 GTGAT
1 GTGAT
13520295 GCCAAAGTGT
Statistics
Matches: 42, Mismatches: 11, Indels: 4
0.74 0.19 0.07
Matches are distributed among these distances:
24 19 0.45
25 2 0.05
26 21 0.50
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.33
Consensus pattern (26 bp):
GTGATTAATGTCCCAGCGGACTATCT
Found at i:13520275 original size:24 final size:24
Alignment explanation
Indices: 13520243--13520288 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
13520233 ACTATCTGTG
* * *
13520243 ATTAGTGTCTCAGCGGATTATCCT
1 ATTAATGTCCCAGCGGACTATCCT
13520267 ATTAATGTCCCAGCGGACTATC
1 ATTAATGTCCCAGCGGACTATC
13520289 TGTGATGCCA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.33
Consensus pattern (24 bp):
ATTAATGTCCCAGCGGACTATCCT
Found at i:13530951 original size:26 final size:26
Alignment explanation
Indices: 13530881--13530952 Score: 81
Period size: 26 Copynumber: 2.8 Consensus size: 26
13530871 AATATCACAG
* * * *
13530881 CAAAGCTGCAAGTAATAATAACGCAG
1 CAAAGCTGCCAGTAACAGTAACGCAA
* * *
13530907 CAAGGCTGCCAGTATCAGTAACGGAA
1 CAAAGCTGCCAGTAACAGTAACGCAA
13530933 CAAAGCTGCCAGTAACAGTA
1 CAAAGCTGCCAGTAACAGTA
13530953 TATGTGGCAT
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
26 37 1.00
ACGTcount: A:0.40, C:0.22, G:0.22, T:0.15
Consensus pattern (26 bp):
CAAAGCTGCCAGTAACAGTAACGCAA
Found at i:13531152 original size:27 final size:27
Alignment explanation
Indices: 13531103--13531221 Score: 139
Period size: 27 Copynumber: 4.4 Consensus size: 27
13531093 TCATACATAA
*
13531103 CAGTCATTTTACCCTATGGGGGTATTT
1 CAGTCATTTTACCCTTTGGGGGTATTT
* * **
13531130 TAGTCATTTTACACTTTAAGGGTATTT
1 CAGTCATTTTACCCTTTGGGGGTATTT
*
13531157 CAGTCATTTTACCCTTCGGGGGTATTT
1 CAGTCATTTTACCCTTTGGGGGTATTT
* * * *
13531184 CGGTCATTTTACCCTTCGAGTGTATTT
1 CAGTCATTTTACCCTTTGGGGGTATTT
*
13531211 CAATCATTTTA
1 CAGTCATTTTA
13531222 AGCCCATTCG
Statistics
Matches: 77, Mismatches: 15, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 77 1.00
ACGTcount: A:0.20, C:0.18, G:0.18, T:0.44
Consensus pattern (27 bp):
CAGTCATTTTACCCTTTGGGGGTATTT
Found at i:13531190 original size:54 final size:54
Alignment explanation
Indices: 13531103--13531221 Score: 159
Period size: 54 Copynumber: 2.2 Consensus size: 54
13531093 TCATACATAA
* *
13531103 CAGTCATTTTACCCTATGGGGGTATTTTAGTCATTTTACACTTTAAGGGTATTT
1 CAGTCATTTTACCCTATGGGGGTATTTCAGTCATTTTACACTTCAAGGGTATTT
* * * *
13531157 CAGTCATTTTACCCT-TCGGGGGTATTTCGGTCATTTTACCCTTCGAGTGTATTT
1 CAGTCATTTTACCCTAT-GGGGGTATTTCAGTCATTTTACACTTCAAGGGTATTT
*
13531211 CAATCATTTTA
1 CAGTCATTTTA
13531222 AGCCCATTCG
Statistics
Matches: 57, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
53 1 0.02
54 56 0.98
ACGTcount: A:0.20, C:0.18, G:0.18, T:0.44
Consensus pattern (54 bp):
CAGTCATTTTACCCTATGGGGGTATTTCAGTCATTTTACACTTCAAGGGTATTT
Found at i:13548256 original size:137 final size:139
Alignment explanation
Indices: 13548087--13548769 Score: 1060
Period size: 137 Copynumber: 4.9 Consensus size: 139
13548077 TTATATGTAC
*
13548087 AAATTTGATTCATACAAAATATTAATTGTATATATTTTATCGAATTTATTAATATAAACATTTAT
1 AAATTTGATTCATACAAAATATTAATTGTATATATTTTATCGAATTTATTAATATAAACAGTTAT
* * *
13548152 ATTAATTAATTTCGGTCAAAATATAAAAGATATGAAAATTAACATT-ATTTGGAAATAATATAAT
66 ATTAATTAATTTCGGTCAAAATATAAAAGAAATGAAAATTAATATTCTTTTGGAAA-AATATAAT
13548216 TAATATAT-T
130 TAATATATAT
* * *
13548225 -AATTTGATTCATACAAAATATTAATTTTATATATTTTATTGAATTTATTGATATAAACAGTTAT
1 AAATTTGATTCATACAAAATATTAATTGTATATATTTTATCGAATTTATTAATATAAACAGTTAT
* *
13548289 ATTAATTAATTTTGGTCAAAATATAAAA-AAACTGGAAATTAATATTCTTTTGGAAAAATATAAT
66 ATTAATTAATTTCGGTCAAAATATAAAAGAAA-TGAAAATTAATATTCTTTTGGAAAAATATAAT
13548353 TAATATATAT
130 TAATATATAT
*
13548363 AAATTTGATTCATACAAAATATTAATTGTATATATTTTATCGAATTTATTAATATAAACATTTAT
1 AAATTTGATTCATACAAAATATTAATTGTATATATTTTATCGAATTTATTAATATAAACAGTTAT
* * *
13548428 ATTAATTAATTTCGGTCAAAATATAAAAGATATGAAAATTAACATT-ATTTGGAAATAATATAAT
66 ATTAATTAATTTCGGTCAAAATATAAAAGAAATGAAAATTAATATTCTTTTGGAAA-AATATAAT
13548492 TAATATAT-T
130 TAATATATAT
* * *
13548501 -AATTTGATTCATACAAAATATTAATTTTATATATTTTATTGAATTTATTGATATAAACAGTTAT
1 AAATTTGATTCATACAAAATATTAATTGTATATATTTTATCGAATTTATTAATATAAACAGTTAT
* *
13548565 ATTAATTAATTTTGGTCAAAATATAAAA-AAACTGGAAATTAATATTCTTTTGGAAAAATATAAT
66 ATTAATTAATTTCGGTCAAAATATAAAAGAAA-TGAAAATTAATATTCTTTTGGAAAAATATAAT
13548629 TAATATATAT
130 TAATATATAT
*
13548639 AAATTTGATTCATACAAAATATTAATTGTATATATTTTATCAAATTTATTAATATAAACAGTTAT
1 AAATTTGATTCATACAAAATATTAATTGTATATATTTTATCGAATTTATTAATATAAACAGTTAT
* *
13548704 ATTAATTACTTTCGGTCAAAATATAAAAGACAT-AGAAATTAATATTCTTTTGGAAAGAATATAA
66 ATTAATTAATTTCGGTCAAAATATAAAAGAAATGA-AAATTAATATTCTTTTGGAAA-AATATAA
13548768 TT
129 TT
13548770 CATTTTTCTA
Statistics
Matches: 497, Mismatches: 35, Indels: 24
0.89 0.06 0.04
Matches are distributed among these distances:
136 4 0.01
137 230 0.46
138 27 0.05
139 223 0.45
140 13 0.03
ACGTcount: A:0.46, C:0.05, G:0.07, T:0.42
Consensus pattern (139 bp):
AAATTTGATTCATACAAAATATTAATTGTATATATTTTATCGAATTTATTAATATAAACAGTTAT
ATTAATTAATTTCGGTCAAAATATAAAAGAAATGAAAATTAATATTCTTTTGGAAAAATATAATT
AATATATAT
Found at i:13548580 original size:276 final size:276
Alignment explanation
Indices: 13548087--13548769 Score: 1278
Period size: 276 Copynumber: 2.5 Consensus size: 276
13548077 TTATATGTAC
13548087 AAATTTGATTCATACAAAATATTAATTGTATATATTTTATCGAATTTATTAATATAAACATTTAT
1 AAATTTGATTCATACAAAATATTAATTGTATATATTTTATCGAATTTATTAATATAAACATTTAT
13548152 ATTAATTAATTTCGGTCAAAATATAAAAGATATGAAAATTAACATTATTTGGAAATAATATAATT
66 ATTAATTAATTTCGGTCAAAATATAAAAGATATGAAAATTAACATTATTTGGAAATAATATAATT
13548217 AATATATTAATTTGATTCATACAAAATATTAATTTTATATATTTTATTGAATTTATTGATATAAA
131 AATATATTAATTTGATTCATACAAAATATTAATTTTATATATTTTATTGAATTTATTGATATAAA
13548282 CAGTTATATTAATTAATTTTGGTCAAAATATAAAAAAACTGGAAATTAATATTCTTTTGGAAAAA
196 CAGTTATATTAATTAATTTTGGTCAAAATATAAAAAAACTGGAAATTAATATTCTTTTGGAAAAA
13548347 TATAATTAATATATAT
261 TATAATTAATATATAT
13548363 AAATTTGATTCATACAAAATATTAATTGTATATATTTTATCGAATTTATTAATATAAACATTTAT
1 AAATTTGATTCATACAAAATATTAATTGTATATATTTTATCGAATTTATTAATATAAACATTTAT
13548428 ATTAATTAATTTCGGTCAAAATATAAAAGATATGAAAATTAACATTATTTGGAAATAATATAATT
66 ATTAATTAATTTCGGTCAAAATATAAAAGATATGAAAATTAACATTATTTGGAAATAATATAATT
13548493 AATATATTAATTTGATTCATACAAAATATTAATTTTATATATTTTATTGAATTTATTGATATAAA
131 AATATATTAATTTGATTCATACAAAATATTAATTTTATATATTTTATTGAATTTATTGATATAAA
13548558 CAGTTATATTAATTAATTTTGGTCAAAATATAAAAAAACTGGAAATTAATATTCTTTTGGAAAAA
196 CAGTTATATTAATTAATTTTGGTCAAAATATAAAAAAACTGGAAATTAATATTCTTTTGGAAAAA
13548623 TATAATTAATATATAT
261 TATAATTAATATATAT
* *
13548639 AAATTTGATTCATACAAAATATTAATTGTATATATTTTATCAAATTTATTAATATAAACAGTTAT
1 AAATTTGATTCATACAAAATATTAATTGTATATATTTTATCGAATTTATTAATATAAACATTTAT
* * * * *
13548704 ATTAATTACTTTCGGTCAAAATATAAAAGACAT-AGAAATTAATATTCTTTTGGAAAGAATATAA
66 ATTAATTAATTTCGGTCAAAATATAAAAGATATGA-AAATTAACATT-ATTTGGAAATAATATAA
13548768 TT
129 TT
13548770 CATTTTTCTA
Statistics
Matches: 398, Mismatches: 7, Indels: 3
0.98 0.02 0.01
Matches are distributed among these distances:
275 1 0.00
276 380 0.95
277 17 0.04
ACGTcount: A:0.46, C:0.05, G:0.07, T:0.42
Consensus pattern (276 bp):
AAATTTGATTCATACAAAATATTAATTGTATATATTTTATCGAATTTATTAATATAAACATTTAT
ATTAATTAATTTCGGTCAAAATATAAAAGATATGAAAATTAACATTATTTGGAAATAATATAATT
AATATATTAATTTGATTCATACAAAATATTAATTTTATATATTTTATTGAATTTATTGATATAAA
CAGTTATATTAATTAATTTTGGTCAAAATATAAAAAAACTGGAAATTAATATTCTTTTGGAAAAA
TATAATTAATATATAT
Found at i:13551008 original size:53 final size:53
Alignment explanation
Indices: 13550951--13551058 Score: 189
Period size: 53 Copynumber: 2.0 Consensus size: 53
13550941 TTAGGCATCC
* *
13550951 ATAACACCAAACATGTTCTTAATTAGCCATTTCAATAGCTAATCATTAGCCAT
1 ATAACACCAAACATGTTATTAATTAGCCATTTCAATAGCTAACCATTAGCCAT
*
13551004 ATAACACCAAACATGTTATTAATTAGTCATTTCAATAGCTAACCATTAGCCAT
1 ATAACACCAAACATGTTATTAATTAGCCATTTCAATAGCTAACCATTAGCCAT
13551057 AT
1 AT
13551059 CATATAAACA
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
53 52 1.00
ACGTcount: A:0.39, C:0.21, G:0.07, T:0.32
Consensus pattern (53 bp):
ATAACACCAAACATGTTATTAATTAGCCATTTCAATAGCTAACCATTAGCCAT
Found at i:13551365 original size:12 final size:12
Alignment explanation
Indices: 13551350--13551378 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
13551340 TTACTTACTC
13551350 ACTTACTTGTTT
1 ACTTACTTGTTT
13551362 ACTTACTTGTTT
1 ACTTACTTGTTT
13551374 ACTTA
1 ACTTA
13551379 AATAACTCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.21, C:0.17, G:0.07, T:0.55
Consensus pattern (12 bp):
ACTTACTTGTTT
Found at i:13556003 original size:23 final size:23
Alignment explanation
Indices: 13555977--13556031 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
13555967 AAAGCATGTA
* *
13555977 TGGCATTTTCTATGATGCT-TTTG
1 TGGCATATTCTATGAAG-TATTTG
*
13556000 TGGCGTATTCTATGAAGTATTTG
1 TGGCATATTCTATGAAGTATTTG
13556023 TGGCATATT
1 TGGCATATT
13556032 ATGTGGAGCC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
22 1 0.04
23 26 0.96
ACGTcount: A:0.18, C:0.11, G:0.24, T:0.47
Consensus pattern (23 bp):
TGGCATATTCTATGAAGTATTTG
Found at i:13557852 original size:15 final size:16
Alignment explanation
Indices: 13557832--13557876 Score: 58
Period size: 15 Copynumber: 2.9 Consensus size: 16
13557822 ATGAGTTGTT
13557832 ATATTTAAAATTA-AA
1 ATATTTAAAATTATAA
*
13557847 ATATTTATAACTTATAA
1 ATATTTA-AAATTATAA
13557864 A-ATTTAAAATTAT
1 ATATTTAAAATTAT
13557877 TTGAATTCGT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
15 13 0.50
16 10 0.38
17 3 0.12
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (16 bp):
ATATTTAAAATTATAA
Found at i:13558556 original size:2 final size:2
Alignment explanation
Indices: 13558543--13558573 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
13558533 AAACATGTAC
*
13558543 AT AT AT AC AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
13558574 ACTTAAGAAA
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:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:13565570 original size:81 final size:81
Alignment explanation
Indices: 13565478--13565639 Score: 288
Period size: 81 Copynumber: 2.0 Consensus size: 81
13565468 TTTTCTTCAG
**
13565478 TTTGTCGTATCAAATCAACATTGAATAATTTTTTCCACTAAGCTCAGTCTAGTACAAAGGAGTTC
1 TTTGTCGTATCAAATCAACACCGAATAATTTTTTCCACTAAGCTCAGTCTAGTACAAAGGAGTTC
13565543 AACACTTTTGACCATA
66 AACACTTTTGACCATA
*
13565559 TTTGTCGTATCAAATCAACACCGAATAATTTTTTCCACTAAGCTCAGTCTAGTACAACGGAGTTC
1 TTTGTCGTATCAAATCAACACCGAATAATTTTTTCCACTAAGCTCAGTCTAGTACAAAGGAGTTC
*
13565624 GACACTTTTGACCATA
66 AACACTTTTGACCATA
13565640 CAAAACTTTA
Statistics
Matches: 77, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
81 77 1.00
ACGTcount: A:0.32, C:0.22, G:0.13, T:0.33
Consensus pattern (81 bp):
TTTGTCGTATCAAATCAACACCGAATAATTTTTTCCACTAAGCTCAGTCTAGTACAAAGGAGTTC
AACACTTTTGACCATA
Found at i:13576541 original size:26 final size:26
Alignment explanation
Indices: 13576505--13576599 Score: 145
Period size: 26 Copynumber: 3.7 Consensus size: 26
13576495 TTTACATCAT
13576505 TGCTCACACGAGCTGTGAAATGGGCC
1 TGCTCACACGAGCTGTGAAATGGGCC
*
13576531 TGCTCACACGAGCTGTGACATGGGCC
1 TGCTCACACGAGCTGTGAAATGGGCC
* * *
13576557 TTCTCACACGAGTTGTGAAATGGGTC
1 TGCTCACACGAGCTGTGAAATGGGCC
*
13576583 TGCTCACACGAGTTGTG
1 TGCTCACACGAGCTGTG
13576600 GGTTAGAACG
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 63 1.00
ACGTcount: A:0.21, C:0.25, G:0.29, T:0.24
Consensus pattern (26 bp):
TGCTCACACGAGCTGTGAAATGGGCC
Found at i:13586782 original size:51 final size:51
Alignment explanation
Indices: 13586706--13586943 Score: 253
Period size: 51 Copynumber: 4.7 Consensus size: 51
13586696 GAGAAACTCA
* ** *
13586706 TGTGTAGTACTATGTGCAGGCTACTATGAGTATAAAATAGTTATGGTCACG
1 TGTGTAGTACTATGTGCAGGCTACTATGTGTACCAAATAGTAATGGTCACG
* * *** *
13586757 TGTGTAGTACTATGTGCAGGCTACTACGTGCACTGGATGGTAATGGTCA-G
1 TGTGTAGTACTATGTGCAGGCTACTATGTGTACCAAATAGTAATGGTCACG
* * **
13586807 ATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGTTTTGGTCACG
1 -TGTGTAGTACTATGTGCAGGCTACTATGTGTACCAAATAGTAATGGTCACG
* * * * *
13586859 TGTGTAATACTATGTGCAGGCTAGTAAGTGTACCAAATGGTAATGGTCACA
1 TGTGTAGTACTATGTGCAGGCTACTATGTGTACCAAATAGTAATGGTCACG
* * * *
13586910 TGTGTAGCACTAAGTGTAGGCCACTATGTGTACC
1 TGTGTAGTACTATGTGCAGGCTACTATGTGTACC
13586944 GGATAGCTTT
Statistics
Matches: 152, Mismatches: 33, Indels: 4
0.80 0.17 0.02
Matches are distributed among these distances:
50 1 0.01
51 150 0.99
52 1 0.01
ACGTcount: A:0.26, C:0.15, G:0.27, T:0.31
Consensus pattern (51 bp):
TGTGTAGTACTATGTGCAGGCTACTATGTGTACCAAATAGTAATGGTCACG
Found at i:13586881 original size:102 final size:102
Alignment explanation
Indices: 13586704--13586954 Score: 331
Period size: 102 Copynumber: 2.5 Consensus size: 102
13586694 ATGAGAAACT
* * ** * * *
13586704 CATGTGTAGTACTATGTGCAGGCTACTATGAGTATAAAATAGTTATGGTCACGTGTGTAGTACTA
1 CATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGTTTTGGTCACGTGTGTAATACTA
* ***
13586769 TGTGCAGGCTACTACGTGCACTGGATGGTAATGGTCA
66 TGTGCAGGCTACTAAGTGCACCAAATGGTAATGGTCA
*
13586806 GATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGTTTTGGTCACGTGTGTAATACTA
1 CATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGTTTTGGTCACGTGTGTAATACTA
* *
13586871 TGTGCAGGCTAGTAAGTGTACCAAATGGTAATGGTCA
66 TGTGCAGGCTACTAAGTGCACCAAATGGTAATGGTCA
* * * * *
13586908 CATGTGTAGCACTAAGTGTAGGCCACTATGTGTACCGGATAGCTTTG
1 CATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGTTTTG
13586955 ATCATAAGGG
Statistics
Matches: 129, Mismatches: 20, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
102 129 1.00
ACGTcount: A:0.26, C:0.15, G:0.27, T:0.31
Consensus pattern (102 bp):
CATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGTTTTGGTCACGTGTGTAATACTA
TGTGCAGGCTACTAAGTGCACCAAATGGTAATGGTCA
Found at i:13595817 original size:29 final size:29
Alignment explanation
Indices: 13595785--13595854 Score: 90
Period size: 29 Copynumber: 2.4 Consensus size: 29
13595775 GACTATCCAA
13595785 TATGAAAAGGGATAGCTATGGCT-ACCGAT
1 TATGAAAAGGGATAGCTATGG-TGACCGAT
* * *
13595814 TATGAAAAGGGATAGTTTTGGTGATCGAT
1 TATGAAAAGGGATAGCTATGGTGACCGAT
13595843 TATG-AAAGGGAT
1 TATGAAAAGGGAT
13595855 GGTGATGACC
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
28 9 0.24
29 28 0.76
ACGTcount: A:0.34, C:0.07, G:0.30, T:0.29
Consensus pattern (29 bp):
TATGAAAAGGGATAGCTATGGTGACCGAT
Found at i:13598494 original size:18 final size:18
Alignment explanation
Indices: 13598471--13598505 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
13598461 TAATCAATAT
13598471 TTTTTTCTTCTTTTTTTA
1 TTTTTTCTTCTTTTTTTA
13598489 TTTTTTCTTCTTTTTTT
1 TTTTTTCTTCTTTTTTT
13598506 TTTCAATTTT
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:0.03, C:0.11, G:0.00, T:0.86
Consensus pattern (18 bp):
TTTTTTCTTCTTTTTTTA
Found at i:13598502 original size:15 final size:14
Alignment explanation
Indices: 13598470--13598509 Score: 53
Period size: 15 Copynumber: 2.8 Consensus size: 14
13598460 ATAATCAATA
* *
13598470 TTTTTTTCTTCTTT
1 TTTTTTTTTTCTTC
13598484 TTTTATTTTTTCTTC
1 TTTT-TTTTTTCTTC
13598499 TTTTTTTTTTC
1 TTTTTTTTTTC
13598510 AATTTTTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
14 11 0.48
15 12 0.52
ACGTcount: A:0.03, C:0.12, G:0.00, T:0.85
Consensus pattern (14 bp):
TTTTTTTTTTCTTC
Found at i:13606177 original size:15 final size:15
Alignment explanation
Indices: 13606157--13606186 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
13606147 ACACATTGAA
13606157 ATTAGACATCATATC
1 ATTAGACATCATATC
*
13606172 ATTAGAGATCATATC
1 ATTAGACATCATATC
13606187 CAAAAGGGTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.17, G:0.10, T:0.33
Consensus pattern (15 bp):
ATTAGACATCATATC
Found at i:13616181 original size:27 final size:27
Alignment explanation
Indices: 13615977--13616411 Score: 393
Period size: 27 Copynumber: 16.1 Consensus size: 27
13615967 GGGTATAACA
*
13615977 GTCATTTTACCCTAT-GGGGGTATTTCG
1 GTCATTTTACCCT-TCGAGGGTATTTCG
* * **
13616004 GTCATTTTA-CCTATTGGGGGTATTTAA
1 GTCATTTTACCCT-TCGAGGGTATTTCG
*
13616031 GCCATTTTACCCTTC-AGGGGTATTTCG
1 GTCATTTTACCCTTCGA-GGGTATTTCG
* * * *
13616058 ATCATTTTACCCCTCGGGGGTATTTTG
1 GTCATTTTACCCTTCGAGGGTATTTCG
* *
13616085 CTCATTTTACCCTTAG-GGGCTATTTCG
1 GTCATTTTACCCTTCGAGGG-TATTTCG
* *
13616112 GTCATTTTAACCTATAG-GGGTATTTCG
1 GTCATTTTACCCT-TCGAGGGTATTTCG
*
13616139 ATCATTTTACCCTTCGAGGGTATTTCG
1 GTCATTTTACCCTTCGAGGGTATTTCG
* * *
13616166 GTCATTTTATCTTTCGAGGGTATTTCT
1 GTCATTTTACCCTTCGAGGGTATTTCG
* *
13616193 TTCATTTTACCCTTCG-GAGGTATTTTG
1 GTCATTTTACCCTTCGAG-GGTATTTCG
* * *
13616220 ATCATTTTACCCCTCAAGGGTATTTCG
1 GTCATTTTACCCTTCGAGGGTATTTCG
* * *
13616247 ATCATTTTACTCTTC-AGAGGTATTTTG
1 GTCATTTTACCCTTCGAG-GGTATTTCG
* * * *
13616274 ATCATTTTACCCCTCAAGGGTATTTTG
1 GTCATTTTACCCTTCGAGGGTATTTCG
* * *
13616301 GTCATTTTACCTTTCGGGGGTATGTT-A
1 GTCATTTTACCCTTCGAGGGTAT-TTCG
* *
13616328 GTCATTTTACCCTTCGGGGGTATTTTG
1 GTCATTTTACCCTTCGAGGGTATTTCG
*
13616355 GTCACTTTACCCTTCGAGGGTATTTCG
1 GTCATTTTACCCTTCGAGGGTATTTCG
* *
13616382 GTCAATTTACCCTTCG-GGCTATTTCG
1 GTCATTTTACCCTTCGAGGGTATTTCG
13616408 GTCA
1 GTCA
13616412 CTTGCCCACG
Statistics
Matches: 343, Mismatches: 52, Indels: 27
0.81 0.12 0.06
Matches are distributed among these distances:
26 28 0.08
27 301 0.88
28 14 0.04
ACGTcount: A:0.17, C:0.20, G:0.20, T:0.42
Consensus pattern (27 bp):
GTCATTTTACCCTTCGAGGGTATTTCG
Found at i:13634399 original size:27 final size:28
Alignment explanation
Indices: 13634369--13634430 Score: 72
Period size: 27 Copynumber: 2.2 Consensus size: 28
13634359 CCGACTCTTA
* * *
13634369 GGGGTATAACAGTCATTTTATCTTTCG-
1 GGGGTATAACAATCATTTTACCCTTCGC
**
13634396 GGGGTATTTCAATCATTTTACCCTTCGC
1 GGGGTATAACAATCATTTTACCCTTCGC
13634424 GGGGTAT
1 GGGGTAT
13634431 TTTGGTCATT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
27 22 0.76
28 7 0.24
ACGTcount: A:0.19, C:0.18, G:0.24, T:0.39
Consensus pattern (28 bp):
GGGGTATAACAATCATTTTACCCTTCGC
Found at i:13634462 original size:27 final size:27
Alignment explanation
Indices: 13634380--13634754 Score: 312
Period size: 27 Copynumber: 14.0 Consensus size: 27
13634370 GGGTATAACA
* * *
13634380 GTCATTTTATCTTTCGGGGGTATTTCA
1 GTCATTTTACCCTTCGGGGGTATTTCG
* *
13634407 ATCATTTTACCCTTCGCGGGGTATTTTG
1 GTCATTTTACCCTTCG-GGGGTATTTCG
* *
13634435 GTCATTTTACCCTGCGGGGGTATTTTG
1 GTCATTTTACCCTTCGGGGGTATTTCG
* **
13634462 GTCATTTTACCCTTCGAGGGTATTTTA
1 GTCATTTTACCCTTCGGGGGTATTTCG
* * *
13634489 GTTATTTTACCCTT-TGGGGTATTTCA
1 GTCATTTTACCCTTCGGGGGTATTTCG
* * * *
13634515 GTCATTTTACCGTTCAGAGGTATTTCA
1 GTCATTTTACCCTTCGGGGGTATTTCG
* **
13634542 GTGA-TTTACCCTTCGAAGGTATTTCG
1 GTCATTTTACCCTTCGGGGGTATTTCG
* * * *
13634568 GTAAGTTTACCTTTCGGGTGTATTTCG
1 GTCATTTTACCCTTCGGGGGTATTTCG
* * *
13634595 ATCATTTTACTCTTC-AGGGTATTTCG
1 GTCATTTTACCCTTCGGGGGTATTTCG
* * * * *
13634621 GTCATTTTATCCATCGAGGATATTTTTG
1 GTCATTTTACCCTTCGGGGGTA-TTTCG
*
13634649 G-CATTTTATCCTAT-GGGGGTATTTCG
1 GTCATTTTACCCT-TCGGGGGTATTTCG
* * * *
13634675 GCCAATTTACCTTTCGAGGGTAGTTT-G
1 GTCATTTTACCCTTCGGGGGTA-TTTCG
*
13634702 GTCATTTTACCCTTCGAGGGTATTTCG
1 GTCATTTTACCCTTCGGGGGTATTTCG
* *
13634729 GTCATTTTACCCGTCAGGGGTATTTC
1 GTCATTTTACCCTTCGGGGGTATTTC
13634755 AGTTATTTCC
Statistics
Matches: 283, Mismatches: 55, Indels: 20
0.79 0.15 0.06
Matches are distributed among these distances:
26 71 0.25
27 180 0.64
28 32 0.11
ACGTcount: A:0.17, C:0.18, G:0.22, T:0.43
Consensus pattern (27 bp):
GTCATTTTACCCTTCGGGGGTATTTCG
Found at i:13634671 original size:80 final size:79
Alignment explanation
Indices: 13634410--13634726 Score: 252
Period size: 80 Copynumber: 3.9 Consensus size: 79
13634400 TATTTCAATC
* * * * * *
13634410 ATTTTACCCTTCGCGGGGTATTTTGGTCATTTTACCCTGCGGGGGTATTTTGGTCATTTTACCCT
1 ATTTTA-CCTT-G-GGGGTATTTCGATCATTTTACCGTTCGAGGGTATTTCGGTCATTTTACCCT
**
13634475 TCGAGGGTATTTTAGTT
63 TCGAGGGTATTTTAGGA
* * *
13634492 ATTTTACCCTTTGGGGTATTTC-AGTCATTTTACCGTTC-AGAGGTATTTCAGTGA-TTTACCCT
1 ATTTTA-CCTTGGGGGTATTTCGA-TCATTTTACCGTTCGAG-GGTATTTCGGTCATTTTACCCT
* *
13634554 TCGAAGGTA-TTTCGGTA
63 TCGAGGGTATTTTAGG-A
* * * *
13634571 AGTTTACCTTTCGGGTGTATTTCGATCATTTTACTC-TTC-AGGGTATTTCGGTCATTTTATCCA
1 ATTTTACC-TT-GGGGGTATTTCGATCATTTTAC-CGTTCGAGGGTATTTCGGTCATTTTACCCT
* * *
13634634 TCGAGGATATTTTTGGC
63 TCGAGGGTATTTTAGGA
** * *
13634651 ATTTTATCCTATGGGGGTATTTCGGCCAATTTACCTTTCGAGGGTAGTTT-GGTCATTTTACCCT
1 ATTTTA-CCT-TGGGGGTATTTCGATCATTTTACCGTTCGAGGGTA-TTTCGGTCATTTTACCCT
13634715 TCGAGGGTATTT
63 TCGAGGGTATTT
13634727 CGGTCATTTT
Statistics
Matches: 189, Mismatches: 32, Indels: 29
0.76 0.13 0.12
Matches are distributed among these distances:
78 6 0.03
79 36 0.19
80 94 0.50
81 39 0.21
82 14 0.07
ACGTcount: A:0.17, C:0.18, G:0.22, T:0.43
Consensus pattern (79 bp):
ATTTTACCTTGGGGGTATTTCGATCATTTTACCGTTCGAGGGTATTTCGGTCATTTTACCCTTCG
AGGGTATTTTAGGA
Found at i:13641665 original size:20 final size:20
Alignment explanation
Indices: 13641642--13641706 Score: 51
Period size: 20 Copynumber: 3.2 Consensus size: 20
13641632 CACTTACGTG
13641642 CCCCCGTTTGTACTTCAGTA
1 CCCCCGTTTGTACTTCAGTA
*** * *
13641662 CCCCTAAATTGCACTTACA-TG
1 CCCC-CGTTTGTACTT-CAGTA
*
13641683 CCCCCGTTTGTACTTCGGTA
1 CCCCCGTTTGTACTTCAGTA
13641703 CCCC
1 CCCC
13641707 TTAATTACAC
Statistics
Matches: 31, Mismatches: 11, Indels: 6
0.65 0.23 0.12
Matches are distributed among these distances:
19 1 0.03
20 16 0.52
21 12 0.39
22 2 0.06
ACGTcount: A:0.17, C:0.38, G:0.14, T:0.31
Consensus pattern (20 bp):
CCCCCGTTTGTACTTCAGTA
Found at i:13641685 original size:41 final size:40
Alignment explanation
Indices: 13641627--13641781 Score: 193
Period size: 41 Copynumber: 3.8 Consensus size: 40
13641617 CTATTCTCTG
*
13641627 AATTGCACTTACGTGCCCCCGTTTGTACTTCAGTACCCCTA
1 AATTGCACTTACATGCCCCCGTTTGTACTTC-GTACCCCTA
*
13641668 AATTGCACTTACATGCCCCCGTTTGTACTTCGGTACCCCTT
1 AATTGCACTTACATGCCCCCGTTTGTACTTC-GTACCCCTA
* * **
13641709 AATTACACTTACATGTCCCTATTTGTACTTCGATACCCCTA
1 AATTGCACTTACATGCCCCCGTTTGTACTTCG-TACCCCTA
* * * *
13641750 AATTGAACTTACGTGCCCCTGTTTGTGCTTCG
1 AATTGCACTTACATGCCCCCGTTTGTACTTCG
13641782 GTAACCTGAA
Statistics
Matches: 99, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
40 1 0.01
41 98 0.99
ACGTcount: A:0.20, C:0.31, G:0.14, T:0.35
Consensus pattern (40 bp):
AATTGCACTTACATGCCCCCGTTTGTACTTCGTACCCCTA
Found at i:13642625 original size:12 final size:12
Alignment explanation
Indices: 13642608--13642637 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
13642598 TTAGTGAGTT
13642608 ACACGGCCTAGC
1 ACACGGCCTAGC
*
13642620 ACACGGCCTGGC
1 ACACGGCCTAGC
13642632 ACACGG
1 ACACGG
13642638 GCGTGTGACC
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:0.23, C:0.40, G:0.30, T:0.07
Consensus pattern (12 bp):
ACACGGCCTAGC
Found at i:13643792 original size:25 final size:25
Alignment explanation
Indices: 13643757--13643876 Score: 170
Period size: 25 Copynumber: 4.8 Consensus size: 25
13643747 TTATCAATAC
*
13643757 GCCATAAAGGCTTCATTTCAGATAT
1 GCCACAAAGGCTTCATTTCAGATAT
*
13643782 GCCACAGAGGCTTCATTTCAGATAT
1 GCCACAAAGGCTTCATTTCAGATAT
* * *
13643807 GCCACAAAGGCTTTATTTCAAATAC
1 GCCACAAAGGCTTCATTTCAGATAT
*
13643832 GCCACAAATGCTTCATTTCAGATAT
1 GCCACAAAGGCTTCATTTCAGATAT
13643857 GCCACAAAGGAC-TCATTTCA
1 GCCACAAAGG-CTTCATTTCA
13643877 AATACAATAA
Statistics
Matches: 83, Mismatches: 11, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
25 82 0.99
26 1 0.01
ACGTcount: A:0.33, C:0.24, G:0.15, T:0.28
Consensus pattern (25 bp):
GCCACAAAGGCTTCATTTCAGATAT
Found at i:13643891 original size:75 final size:75
Alignment explanation
Indices: 13643752--13643894 Score: 189
Period size: 75 Copynumber: 1.9 Consensus size: 75
13643742 AAGAGTTATC
* * * *** *
13643752 AATACGCCATAAAGGCTTCATTTCAGATATGCCACAGAGGCTTCATTTCAGATATGCCACAAAGG
1 AATACGCCACAAAGGCTTCATTTCAGATATGCCACAAAGGCTTCATTTCAAATACAACAAAAAGG
13643817 CTTTATTTCA
66 CTTTATTTCA
* *
13643827 AATACGCCACAAATGCTTCATTTCAGATATGCCACAAAGGAC-TCATTTCAAATACAATAAAAAG
1 AATACGCCACAAAGGCTTCATTTCAGATATGCCACAAAGG-CTTCATTTCAAATACAACAAAAAG
13643891 GCTT
65 GCTT
13643895 CCATTTATTG
Statistics
Matches: 58, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
75 57 0.98
76 1 0.02
ACGTcount: A:0.36, C:0.22, G:0.14, T:0.27
Consensus pattern (75 bp):
AATACGCCACAAAGGCTTCATTTCAGATATGCCACAAAGGCTTCATTTCAAATACAACAAAAAGG
CTTTATTTCA
Found at i:13643895 original size:50 final size:50
Alignment explanation
Indices: 13643757--13643900 Score: 146
Period size: 50 Copynumber: 2.9 Consensus size: 50
13643747 TTATCAATAC
* * *** * *
13643757 GCCATAAAGGCTTCATTTCAGATATGCCACAGAGGCTTCATTTCAGATAT
1 GCCACAAAGGCTTCATTTCAAATACAACAAAAAGGCTTCATTTCAGATAT
* ** * *
13643807 GCCACAAAGGCTTTATTTCAAATACGCCACAAATGCTTCATTTCAGATAT
1 GCCACAAAGGCTTCATTTCAAATACAACAAAAAGGCTTCATTTCAGATAT
*
13643857 GCCACAAAGGAC-TCATTTCAAATACAATAAAAAGGCTTCCATTT
1 GCCACAAAGG-CTTCATTTCAAATACAACAAAAAGGCTT-CATTT
13643901 ATTGATGTGT
Statistics
Matches: 80, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
50 74 0.93
51 6 0.08
ACGTcount: A:0.35, C:0.23, G:0.14, T:0.28
Consensus pattern (50 bp):
GCCACAAAGGCTTCATTTCAAATACAACAAAAAGGCTTCATTTCAGATAT
Found at i:13647845 original size:20 final size:20
Alignment explanation
Indices: 13647820--13647861 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
13647810 CTTGTATGGG
13647820 TTTGCACTTCGATGCCACTA
1 TTTGCACTTCGATGCCACTA
* *
13647840 TTTGCACTTCGGTGCCTCTA
1 TTTGCACTTCGATGCCACTA
13647860 TT
1 TT
13647862 AGCATTTCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.14, C:0.29, G:0.17, T:0.40
Consensus pattern (20 bp):
TTTGCACTTCGATGCCACTA
Found at i:13651983 original size:20 final size:20
Alignment explanation
Indices: 13651952--13652003 Score: 86
Period size: 20 Copynumber: 2.5 Consensus size: 20
13651942 TGAACCACTT
13651952 CAAGCACATATAAATAAGTCA
1 CAAGC-CATATAAATAAGTCA
13651973 CAAGCCATATAAATAAGTCA
1 CAAGCCATATAAATAAGTCA
*
13651993 TAAGCCATATA
1 CAAGCCATATA
13652004 TTTATAGTAC
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
20 25 0.83
21 5 0.17
ACGTcount: A:0.50, C:0.19, G:0.10, T:0.21
Consensus pattern (20 bp):
CAAGCCATATAAATAAGTCA
Found at i:13652998 original size:20 final size:20
Alignment explanation
Indices: 13652970--13653019 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
13652960 CTAACAAAGG
* * *
13652970 CACCGAAGTGTAAGCAGAGA
1 CACCAAAGTGCAAACAGAGA
*
13652990 CACCAAAGTGCAAACAGAGG
1 CACCAAAGTGCAAACAGAGA
13653010 CACCAAAGTG
1 CACCAAAGTG
13653020 AAATCTTGTA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.42, C:0.24, G:0.26, T:0.08
Consensus pattern (20 bp):
CACCAAAGTGCAAACAGAGA
Found at i:13658793 original size:26 final size:27
Alignment explanation
Indices: 13658764--13658833 Score: 108
Period size: 26 Copynumber: 2.7 Consensus size: 27
13658754 ACATAGTTGC
*
13658764 TCACATGAGCTGTGAAATAGGTATG-T
1 TCACACGAGCTGTGAAATAGGTATGCT
13658790 TCACACGAGCTGTGAAATAGGTATGCT
1 TCACACGAGCTGTGAAATAGGTATGCT
*
13658817 T-ACACGAGTTGTGAAAT
1 TCACACGAGCTGTGAAAT
13658834 GGGCCTGCTC
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
26 39 0.95
27 2 0.05
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.29
Consensus pattern (27 bp):
TCACACGAGCTGTGAAATAGGTATGCT
Found at i:13658842 original size:26 final size:26
Alignment explanation
Indices: 13658761--13658847 Score: 102
Period size: 26 Copynumber: 3.3 Consensus size: 26
13658751 TATACATAGT
* *
13658761 TGCTCACATGAGCTGTGAAATAGGTA
1 TGCTCACACGAGCTGTGAAATAGGCA
* *
13658787 TGTTCACACGAGCTGTGAAATAGGTA
1 TGCTCACACGAGCTGTGAAATAGGCA
* * * *
13658813 TGCTTACACGAGTTGTGAAATGGGCC
1 TGCTCACACGAGCTGTGAAATAGGCA
13658839 TGCTCACAC
1 TGCTCACAC
13658848 AAGCAACAGG
Statistics
Matches: 52, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 52 1.00
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (26 bp):
TGCTCACACGAGCTGTGAAATAGGCA
Found at i:13660892 original size:15 final size:15
Alignment explanation
Indices: 13660874--13660904 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
13660864 AAACCTGTAA
*
13660874 AAATTAAATTAAACT
1 AAATTAAATAAAACT
13660889 AAATTAAATAAAACT
1 AAATTAAATAAAACT
13660904 A
1 A
13660905 CTAAGTAAAA
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:0.06, G:0.00, T:0.29
Consensus pattern (15 bp):
AAATTAAATAAAACT
Found at i:13678485 original size:159 final size:159
Alignment explanation
Indices: 13678196--13678514 Score: 638
Period size: 159 Copynumber: 2.0 Consensus size: 159
13678186 TATTTCTGCA
13678196 TGTTTTGTTGCAATCTTTGCGGATATGGAGGTGATGGAACTTTCGGTTGAACCAGACAACTTTTC
1 TGTTTTGTTGCAATCTTTGCGGATATGGAGGTGATGGAACTTTCGGTTGAACCAGACAACTTTTC
13678261 TGAGTAGGTAAATTTGCATCCAAAGAAGATGTTAAAATATCTGAATTCACTAAGTCAGGGTTTAC
66 TGAGTAGGTAAATTTGCATCCAAAGAAGATGTTAAAATATCTGAATTCACTAAGTCAGGGTTTAC
13678326 CTTGTCAGACTTTGTATATTTTGATTCAT
131 CTTGTCAGACTTTGTATATTTTGATTCAT
13678355 TGTTTTGTTGCAATCTTTGCGGATATGGAGGTGATGGAACTTTCGGTTGAACCAGACAACTTTTC
1 TGTTTTGTTGCAATCTTTGCGGATATGGAGGTGATGGAACTTTCGGTTGAACCAGACAACTTTTC
13678420 TGAGTAGGTAAATTTGCATCCAAAGAAGATGTTAAAATATCTGAATTCACTAAGTCAGGGTTTAC
66 TGAGTAGGTAAATTTGCATCCAAAGAAGATGTTAAAATATCTGAATTCACTAAGTCAGGGTTTAC
13678485 CTTGTCAGACTTTGTATATTTTGATTCAT
131 CTTGTCAGACTTTGTATATTTTGATTCAT
13678514 T
1 T
13678515 TGGTGTACGA
Statistics
Matches: 160, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
159 160 1.00
ACGTcount: A:0.28, C:0.14, G:0.21, T:0.37
Consensus pattern (159 bp):
TGTTTTGTTGCAATCTTTGCGGATATGGAGGTGATGGAACTTTCGGTTGAACCAGACAACTTTTC
TGAGTAGGTAAATTTGCATCCAAAGAAGATGTTAAAATATCTGAATTCACTAAGTCAGGGTTTAC
CTTGTCAGACTTTGTATATTTTGATTCAT
Found at i:13681924 original size:22 final size:22
Alignment explanation
Indices: 13681899--13681958 Score: 93
Period size: 22 Copynumber: 2.7 Consensus size: 22
13681889 GAACAAGCCA
*
13681899 CCACTAATTTGCATATGAACTG
1 CCACTAATTTGCAGATGAACTG
13681921 CCACTAATTTGCAGATGAACTG
1 CCACTAATTTGCAGATGAACTG
* *
13681943 CCACTAGTTTGTAGAT
1 CCACTAATTTGCAGAT
13681959 AAGCTACCAC
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.32
Consensus pattern (22 bp):
CCACTAATTTGCAGATGAACTG
Found at i:13681968 original size:22 final size:22
Alignment explanation
Indices: 13681898--13681969 Score: 83
Period size: 22 Copynumber: 3.3 Consensus size: 22
13681888 TGAACAAGCC
*
13681898 ACCACTAATTTGCATATGAACT
1 ACCACTAATTTGCAGATGAACT
*
13681920 GCCACTAATTTGCAGATGAACT
1 ACCACTAATTTGCAGATGAACT
* * *
13681942 GCCACTAGTTTGTAGAT-AAGCT
1 ACCACTAATTTGCAGATGAA-CT
13681964 ACCACT
1 ACCACT
13681970 GATAACACTT
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
21 2 0.05
22 42 0.95
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.29
Consensus pattern (22 bp):
ACCACTAATTTGCAGATGAACT
Found at i:13682018 original size:28 final size:29
Alignment explanation
Indices: 13681950--13682018 Score: 70
Period size: 29 Copynumber: 2.4 Consensus size: 29
13681940 CTGCCACTAG
* *
13681950 TTTGTAGATAAGCTACCACTGATAACACT
1 TTTGTAGACAAGCCACCACTGATAACACT
***
13681979 TTTGT-GAACAAGCCACCACTGATTTGA-T
1 TTTGTAG-ACAAGCCACCACTGATAACACT
13682007 TTTGTAGACAAG
1 TTTGTAGACAAG
13682019 GTATGATTGA
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
28 12 0.36
29 21 0.64
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.32
Consensus pattern (29 bp):
TTTGTAGACAAGCCACCACTGATAACACT
Found at i:13713274 original size:33 final size:34
Alignment explanation
Indices: 13713232--13713371 Score: 168
Period size: 27 Copynumber: 4.6 Consensus size: 34
13713222 CAGATGCGGT
13713232 GGAATCAGCACTTAGCAACCACCAAT-GAATAGG
1 GGAATCAGCACTTAGCAACCACCAATCGAATAGG
13713265 GGAATCAGCACTTAGCAACC-CC--TCG----GG
1 GGAATCAGCACTTAGCAACCACCAATCGAATAGG
13713292 GGAATCAGCACTTAGCAACCACCAAT-GAATAGG
1 GGAATCAGCACTTAGCAACCACCAATCGAATAGG
13713325 GGAATCAGCACTTAGCAACC-CC--TCG----GG
1 GGAATCAGCACTTAGCAACCACCAATCGAATAGG
13713352 GGAATCAGCACTTAGCAACC
1 GGAATCAGCACTTAGCAACC
13713372 CCCTTTCACT
Statistics
Matches: 98, Mismatches: 0, Indels: 24
0.80 0.00 0.20
Matches are distributed among these distances:
27 44 0.45
28 2 0.02
29 1 0.01
30 3 0.03
31 2 0.02
32 4 0.04
33 42 0.43
ACGTcount: A:0.34, C:0.29, G:0.23, T:0.15
Consensus pattern (34 bp):
GGAATCAGCACTTAGCAACCACCAATCGAATAGG
Found at i:13713305 original size:102 final size:102
Alignment explanation
Indices: 13713126--13713311 Score: 291
Period size: 102 Copynumber: 1.8 Consensus size: 102
13713116 TAACCGTTAT
* * * * *
13713126 CGGTGGATTCCGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACACAGTAACCCCTTGGGG
1 CGGTGGAATCAGCACTTAGCAACCACCAATGAATAGGGGAATCAGCACACAGCAACCCCTCGGGG
13713191 GAATCAAAACTTAGCAACCCCCTTCCCATTTCAGATG
66 GAATCAAAACTTAGCAACCCCCTTCCCATTTCAGATG
**
13713228 CGGTGGAATCAGCACTTAGCAACCACCAATGAATAGGGGAATCAGCACTTAGCAACCCCTCGGGG
1 CGGTGGAATCAGCACTTAGCAACCACCAATGAATAGGGGAATCAGCACACAGCAACCCCTCGGGG
**
13713293 GAATCAGCACTTAGCAACC
66 GAATCAAAACTTAGCAACC
13713312 ACCAATGAAT
Statistics
Matches: 75, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
102 75 1.00
ACGTcount: A:0.31, C:0.30, G:0.22, T:0.18
Consensus pattern (102 bp):
CGGTGGAATCAGCACTTAGCAACCACCAATGAATAGGGGAATCAGCACACAGCAACCCCTCGGGG
GAATCAAAACTTAGCAACCCCCTTCCCATTTCAGATG
Found at i:13713325 original size:60 final size:60
Alignment explanation
Indices: 13713232--13713371 Score: 280
Period size: 60 Copynumber: 2.3 Consensus size: 60
13713222 CAGATGCGGT
13713232 GGAATCAGCACTTAGCAACCACCAATGAATAGGGGAATCAGCACTTAGCAACCCCTCGGG
1 GGAATCAGCACTTAGCAACCACCAATGAATAGGGGAATCAGCACTTAGCAACCCCTCGGG
13713292 GGAATCAGCACTTAGCAACCACCAATGAATAGGGGAATCAGCACTTAGCAACCCCTCGGG
1 GGAATCAGCACTTAGCAACCACCAATGAATAGGGGAATCAGCACTTAGCAACCCCTCGGG
13713352 GGAATCAGCACTTAGCAACC
1 GGAATCAGCACTTAGCAACC
13713372 CCCTTTCACT
Statistics
Matches: 80, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 80 1.00
ACGTcount: A:0.34, C:0.29, G:0.23, T:0.15
Consensus pattern (60 bp):
GGAATCAGCACTTAGCAACCACCAATGAATAGGGGAATCAGCACTTAGCAACCCCTCGGG
Found at i:13720916 original size:21 final size:22
Alignment explanation
Indices: 13720887--13720928 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
13720877 TGCATGTGGC
*
13720887 TATACAA-TTGTTTGCAATGGG
1 TATACAATTTATTTGCAATGGG
*
13720908 TATATAATTTATTTGCAATGG
1 TATACAATTTATTTGCAATGG
13720929 CTCCATCTAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.31, C:0.07, G:0.19, T:0.43
Consensus pattern (22 bp):
TATACAATTTATTTGCAATGGG
Found at i:13725166 original size:15 final size:16
Alignment explanation
Indices: 13725148--13725182 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
13725138 ATTATTAAGA
*
13725148 ATTTT-ATTAAATTAT
1 ATTTTAATTAAAATAT
13725163 ATTTTAATTAAAATAT
1 ATTTTAATTAAAATAT
13725179 ATTT
1 ATTT
13725183 AATAATAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
ATTTTAATTAAAATAT
Found at i:13725299 original size:155 final size:155
Alignment explanation
Indices: 13725017--13726068 Score: 2068
Period size: 155 Copynumber: 6.8 Consensus size: 155
13725007 TCTATGACTG
13725017 AAAATATATTTAATAATAATTATGTTTAAATATGATTAAATTATTTATTATTGATAATAATAATC
1 AAAATATATTTAATAATAATTATGTTTAAATATGATTAAATTATTTATTATTGATAATAATAATC
13725082 TTATTAAAATTTAAATAACAATAACAATAATAATTTACCAAAATAAATTTCTGCTAATTATTAAG
66 TTATTAAAATTTAAATAACAATAACAATAATAATTTACCAAAATAAATTTCTGCTAATTATTAAG
13725147 AATTTTATTAAATTATATTTTAATT
131 AATTTTATTAAATTATATTTTAATT
13725172 AAAATATATTTAATAATAATTATGTTTAAATATGATTAAATTATTTATTATTGATAATAATAATC
1 AAAATATATTTAATAATAATTATGTTTAAATATGATTAAATTATTTATTATTGATAATAATAATC
13725237 TTATTAAAATTTAAATAACAATAACAATAATAATTTACCAAAATAAATTTCTGCTAATTATTAAG
66 TTATTAAAATTTAAATAACAATAACAATAATAATTTACCAAAATAAATTTCTGCTAATTATTAAG
13725302 AATTTTATTAAATTATATTTTAATT
131 AATTTTATTAAATTATATTTTAATT
13725327 AAAATATATTTAATAATAATTATGTTTAAATATGATTAAATTATTTATTATTGATAATAATAATC
1 AAAATATATTTAATAATAATTATGTTTAAATATGATTAAATTATTTATTATTGATAATAATAATC
13725392 TTATTAAAATTTAAATAACAATAACAATAATAATTTACCAAAATAAATTTCTGCTAATTATTAAG
66 TTATTAAAATTTAAATAACAATAACAATAATAATTTACCAAAATAAATTTCTGCTAATTATTAAG
13725457 AATTTTATTAAATTATATTTTAATT
131 AATTTTATTAAATTATATTTTAATT
13725482 AAAATATATTTAATAATAATTATGTTTAAATATGATTAAATTATTTATTATTGATAATAATAATC
1 AAAATATATTTAATAATAATTATGTTTAAATATGATTAAATTATTTATTATTGATAATAATAATC
13725547 TTATTAAAATTTAAATAACAATAACAATAATAATTTACCAAAATAAATTTCTGCTAATTATTAAG
66 TTATTAAAATTTAAATAACAATAACAATAATAATTTACCAAAATAAATTTCTGCTAATTATTAAG
13725612 AATTTTATTAAATTATATTTTAATT
131 AATTTTATTAAATTATATTTTAATT
13725637 AAAATATATTTAATAATAATTATGTTTAAATATGATTAAATTATTTATTATTGATAATAATAATC
1 AAAATATATTTAATAATAATTATGTTTAAATATGATTAAATTATTTATTATTGATAATAATAATC
13725702 TTATTAAAATTTAAATAACAATAACAATAATAATTTACCAAAATAAATTTCTGCTAATTATTAAG
66 TTATTAAAATTTAAATAACAATAACAATAATAATTTACCAAAATAAATTTCTGCTAATTATTAAG
13725767 AATTTTATTAAATTATATTTTAATT
131 AATTTTATTAAATTATATTTTAATT
13725792 AAAATATATTTAATAATAATTATGTTTAAATATGATTAAATTATTTATTATTGATAATAATAATC
1 AAAATATATTTAATAATAATTATGTTTAAATATGATTAAATTATTTATTATTGATAATAATAATC
13725857 TTATTAAAATTTAAATAACAATAACAATAATAATTTACCAAAATAAATTTCTGCTAATTATTAAG
66 TTATTAAAATTTAAATAACAATAACAATAATAATTTACCAAAATAAATTTCTGCTAATTATTAAG
13725922 AATTTTATTAAATTATATTTTAATT
131 AATTTTATTAAATTATATTTTAATT
13725947 AAAATATATTTAATAATAATTATGTTTAAATATGATTAAATTATTTATTATTGATAATAATAATC
1 AAAATATATTTAATAATAATTATGTTTAAATATGATTAAATTATTTATTATTGATAATAATAATC
* * * *
13726012 TTATTAAAATTTAAATAACAATAACAATAATCATTTACCCAAACAAATTTATGCTAA
66 TTATTAAAATTTAAATAACAATAACAATAATAATTTACCAAAATAAATTTCTGCTAA
13726069 GGGTATTCTA
Statistics
Matches: 893, Mismatches: 4, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
155 893 1.00
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.44
Consensus pattern (155 bp):
AAAATATATTTAATAATAATTATGTTTAAATATGATTAAATTATTTATTATTGATAATAATAATC
TTATTAAAATTTAAATAACAATAACAATAATAATTTACCAAAATAAATTTCTGCTAATTATTAAG
AATTTTATTAAATTATATTTTAATT
Found at i:13725321 original size:15 final size:16
Alignment explanation
Indices: 13725303--13725337 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
13725293 ATTATTAAGA
*
13725303 ATTTT-ATTAAATTAT
1 ATTTTAATTAAAATAT
13725318 ATTTTAATTAAAATAT
1 ATTTTAATTAAAATAT
13725334 ATTT
1 ATTT
13725338 AATAATAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
ATTTTAATTAAAATAT
Found at i:13725476 original size:15 final size:16
Alignment explanation
Indices: 13725458--13725492 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
13725448 ATTATTAAGA
*
13725458 ATTTT-ATTAAATTAT
1 ATTTTAATTAAAATAT
13725473 ATTTTAATTAAAATAT
1 ATTTTAATTAAAATAT
13725489 ATTT
1 ATTT
13725493 AATAATAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
ATTTTAATTAAAATAT
Found at i:13725631 original size:15 final size:16
Alignment explanation
Indices: 13725613--13725647 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
13725603 ATTATTAAGA
*
13725613 ATTTT-ATTAAATTAT
1 ATTTTAATTAAAATAT
13725628 ATTTTAATTAAAATAT
1 ATTTTAATTAAAATAT
13725644 ATTT
1 ATTT
13725648 AATAATAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
ATTTTAATTAAAATAT
Found at i:13725786 original size:15 final size:16
Alignment explanation
Indices: 13725768--13725802 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
13725758 ATTATTAAGA
*
13725768 ATTTT-ATTAAATTAT
1 ATTTTAATTAAAATAT
13725783 ATTTTAATTAAAATAT
1 ATTTTAATTAAAATAT
13725799 ATTT
1 ATTT
13725803 AATAATAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
ATTTTAATTAAAATAT
Found at i:13725941 original size:15 final size:16
Alignment explanation
Indices: 13725923--13725957 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
13725913 ATTATTAAGA
*
13725923 ATTTT-ATTAAATTAT
1 ATTTTAATTAAAATAT
13725938 ATTTTAATTAAAATAT
1 ATTTTAATTAAAATAT
13725954 ATTT
1 ATTT
13725958 AATAATAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
ATTTTAATTAAAATAT
Found at i:13726201 original size:45 final size:44
Alignment explanation
Indices: 13726101--13726210 Score: 133
Period size: 45 Copynumber: 2.6 Consensus size: 44
13726091 TTTTCCATTA
13726101 TGCTATTACACCTCTATT-C----CATTCAACCAAACATAAGAT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACATAAGAT
* * *
13726140 TACTATTACGCCTCTATTCCATTACATTCAACCAAACAGT-TGATT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACA-TAAGA-T
13726185 TGCTATTACACCTCTATTCCATTACA
1 TGCTATTACACCTCTATTCCATTACA
13726211 CCTCTAATCC
Statistics
Matches: 59, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
39 16 0.27
40 1 0.02
44 16 0.27
45 26 0.44
ACGTcount: A:0.32, C:0.28, G:0.05, T:0.35
Consensus pattern (44 bp):
TGCTATTACACCTCTATTCCATTACATTCAACCAAACATAAGAT
Found at i:13726238 original size:16 final size:16
Alignment explanation
Indices: 13726191--13726240 Score: 82
Period size: 16 Copynumber: 3.1 Consensus size: 16
13726181 GATTTGCTAT
* *
13726191 TACACCTCTATTCCAT
1 TACACCTCTAATCCAA
13726207 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
13726223 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
13726239 TA
1 TA
13726241 TAGCGAACCA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.34, C:0.36, G:0.00, T:0.30
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:13729207 original size:15 final size:16
Alignment explanation
Indices: 13729187--13729216 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
13729177 GTTGAAACTT
13729187 TTTAAAATAA-AATTA
1 TTTAAAATAATAATTA
13729202 TTTAAAATAATAATT
1 TTTAAAATAATAATT
13729217 TAATAATACA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
TTTAAAATAATAATTA
Found at i:13732581 original size:102 final size:103
Alignment explanation
Indices: 13732464--13732668 Score: 403
Period size: 102 Copynumber: 2.0 Consensus size: 103
13732454 CGTAATATAA
13732464 AATGTAATTTTATTACTAGTCATTCTTAAATTATTTTAGACCATGTTTGTAATCTTAAATTTTAG
1 AATGTAATTTTATTACTAGTCATTCTTAAATTATTTTAGACCATGTTTGTAATCTTAAATTTTAG
13732529 ATCAATATATATTTTTTATCTTAATT-ATTTAAGTTTT
66 ATCAATATATATTTTTTATCTTAATTAATTTAAGTTTT
13732566 AATGTAATTTTATTACTAGTCATTCTTAAATTATTTTAGACCATGTTTGTAATCTTAAATTTTAG
1 AATGTAATTTTATTACTAGTCATTCTTAAATTATTTTAGACCATGTTTGTAATCTTAAATTTTAG
13732631 ATCAATATATATTTTTTATCTTAATTAATTTAAGTTTT
66 ATCAATATATATTTTTTATCTTAATTAATTTAAGTTTT
13732669 TTTCTCAAAT
Statistics
Matches: 102, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
102 91 0.89
103 11 0.11
ACGTcount: A:0.33, C:0.08, G:0.07, T:0.53
Consensus pattern (103 bp):
AATGTAATTTTATTACTAGTCATTCTTAAATTATTTTAGACCATGTTTGTAATCTTAAATTTTAG
ATCAATATATATTTTTTATCTTAATTAATTTAAGTTTT
Found at i:13734996 original size:17 final size:17
Alignment explanation
Indices: 13734974--13735015 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
13734964 AAATATTGAC
*
13734974 ATAAAAAA-ATTAAAAT
1 ATAAAAAAGATAAAAAT
13734990 ATGAAAAAAGATAAAAAT
1 AT-AAAAAAGATAAAAAT
13735008 ATAAAAAA
1 ATAAAAAA
13735016 TATATTTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 2 0.09
17 12 0.52
18 9 0.39
ACGTcount: A:0.76, C:0.00, G:0.05, T:0.19
Consensus pattern (17 bp):
ATAAAAAAGATAAAAAT
Found at i:13734997 original size:18 final size:17
Alignment explanation
Indices: 13734976--13735015 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
13734966 ATATTGACAT
*
13734976 AAAAAAATTAAAATATGA
1 AAAAAAATAAAAATAT-A
*
13734994 AAAAAGATAAAAATATA
1 AAAAAAATAAAAATATA
13735011 AAAAA
1 AAAAA
13735016 TATATTTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 6 0.30
18 14 0.70
ACGTcount: A:0.78, C:0.00, G:0.05, T:0.17
Consensus pattern (17 bp):
AAAAAAATAAAAATATA
Found at i:13735144 original size:18 final size:17
Alignment explanation
Indices: 13735114--13735164 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 17
13735104 ATGAGTTCAT
13735114 AATTTTTATGAATTTTATA
1 AATTTTTA-GAATTTTA-A
13735133 AATTTTTAGAATTATTAA
1 AATTTTTAGAATT-TTAA
* *
13735151 TATTTTTATAATTT
1 AATTTTTAGAATTT
13735165 CACACTCATT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
17 1 0.03
18 17 0.59
19 11 0.38
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (17 bp):
AATTTTTAGAATTTTAA
Found at i:13746767 original size:30 final size:30
Alignment explanation
Indices: 13746710--13746767 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
13746700 GCCTTTTGAA
* *
13746710 AATATTTACAAAAAGAGACATCTAATTTCT
1 AATATTTACAAAAAGAGACACCAAATTTCT
13746740 AATATTTACAAAAAGAG-CAACCAAATTT
1 AATATTTACAAAAAGAGAC-ACCAAATTT
13746768 TGAAAACAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 1 0.04
30 24 0.96
ACGTcount: A:0.50, C:0.14, G:0.07, T:0.29
Consensus pattern (30 bp):
AATATTTACAAAAAGAGACACCAAATTTCT
Found at i:13753022 original size:22 final size:22
Alignment explanation
Indices: 13752989--13753043 Score: 94
Period size: 22 Copynumber: 2.5 Consensus size: 22
13752979 AATAAAGGGG
*
13752989 TTTTTTT-AAACCTAGAAACAA
1 TTTTTTTCCAACCTAGAAACAA
13753010 TTTTTTTCCAACCTAGAAACAA
1 TTTTTTTCCAACCTAGAAACAA
13753032 TTTTTTTCCAAC
1 TTTTTTTCCAAC
13753044 GAGTTCAATT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
21 7 0.22
22 25 0.78
ACGTcount: A:0.35, C:0.20, G:0.04, T:0.42
Consensus pattern (22 bp):
TTTTTTTCCAACCTAGAAACAA
Found at i:13759766 original size:48 final size:48
Alignment explanation
Indices: 13759695--13759887 Score: 228
Period size: 48 Copynumber: 4.0 Consensus size: 48
13759685 TATGCATACT
*
13759695 GATATTCTGTTATGATACAAGGGTGGCATGGACTGTGTGCAGGCCACC
1 GATATTCTGTTATGATACAAGGGTGGCACGGACTGTGTGCAGGCCACC
* *
13759743 GATATTCTGTTACGATACAAGGGTGGCACGGACTGTGTGCTGGCCACC
1 GATATTCTGTTATGATACAAGGGTGGCACGGACTGTGTGCAGGCCACC
* * * *
13759791 -AT-TGACCTGTTAAGATACAAGGGTGGCACGGACTATGTGCAAGCCACC
1 GATAT--TCTGTTATGATACAAGGGTGGCACGGACTGTGTGCAGGCCACC
* * * * * * *
13759839 GAGAATCTGTTATTACACAAAGGTGGTACGGACTGTGTGCAGACCACC
1 GATATTCTGTTATGATACAAGGGTGGCACGGACTGTGTGCAGGCCACC
13759887 G
1 G
13759888 CGAAATCTGT
Statistics
Matches: 122, Mismatches: 19, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
46 1 0.01
47 2 0.02
48 118 0.97
49 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.30, T:0.24
Consensus pattern (48 bp):
GATATTCTGTTATGATACAAGGGTGGCACGGACTGTGTGCAGGCCACC
Found at i:13759870 original size:96 final size:96
Alignment explanation
Indices: 13759701--13759878 Score: 257
Period size: 96 Copynumber: 1.9 Consensus size: 96
13759691 TACTGATATT
* * * * * * * *
13759701 CTGTTATGATACAAGGGTGGCATGGACTGTGTGCAGGCCACCGATATTCTGTTACGATACAAGGG
1 CTGTTAAGATACAAGGGTGGCACGGACTATGTGCAAGCCACCGAGAATCTGTTACGACACAAAGG
13759766 TGGCACGGACTGTGTGCTGGCCACCATTGAC
66 TGGCACGGACTGTGTGCTGGCCACCATTGAC
**
13759797 CTGTTAAGATACAAGGGTGGCACGGACTATGTGCAAGCCACCGAGAATCTGTTATTACACAAAGG
1 CTGTTAAGATACAAGGGTGGCACGGACTATGTGCAAGCCACCGAGAATCTGTTACGACACAAAGG
*
13759862 TGGTACGGACTGTGTGC
66 TGGCACGGACTGTGTGC
13759879 AGACCACCGC
Statistics
Matches: 71, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
96 71 1.00
ACGTcount: A:0.25, C:0.21, G:0.30, T:0.24
Consensus pattern (96 bp):
CTGTTAAGATACAAGGGTGGCACGGACTATGTGCAAGCCACCGAGAATCTGTTACGACACAAAGG
TGGCACGGACTGTGTGCTGGCCACCATTGAC
Found at i:13766270 original size:29 final size:31
Alignment explanation
Indices: 13766228--13766289 Score: 76
Period size: 29 Copynumber: 2.1 Consensus size: 31
13766218 ATTTCTGAGC
13766228 TTTAGGGCAAAAAT-GTAAATATG-CAAAAG
1 TTTAGGGCAAAAATAGTAAATATGCCAAAAG
* *
13766257 TTTAGGG-ACAAAATAGTAATTTTGCCAAAAG
1 TTTAGGGCA-AAAATAGTAAATATGCCAAAAG
13766288 TT
1 TT
13766290 GAGTTGAGGA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
28 1 0.04
29 12 0.43
30 7 0.25
31 8 0.29
ACGTcount: A:0.44, C:0.08, G:0.19, T:0.29
Consensus pattern (31 bp):
TTTAGGGCAAAAATAGTAAATATGCCAAAAG
Found at i:13766558 original size:48 final size:48
Alignment explanation
Indices: 13766485--13766630 Score: 156
Period size: 48 Copynumber: 3.0 Consensus size: 48
13766475 TACTTTGCGT
**
13766485 ACCGATATTCTGTTATGATACAAGGGTGGCACAGACTGTGTACAGGCC
1 ACCGATATTCTGTTACAATACAAGGGTGGCACAGACTGTGTACAGGCC
* *
13766533 ACCGATATTCTGTTACAATTA-AAGGGTGGCACGGACTGTGTGCAGGCC
1 ACCGATATTCTGTTACAA-TACAAGGGTGGCACAGACTGTGTACAGGCC
* * * *
13766581 ACC-AT-TGACCTGTTA-AGATACAAGGGTGGCACGGACTATGTGCAGGCC
1 ACCGATAT--TCTGTTACA-ATACAAGGGTGGCACAGACTGTGTACAGGCC
13766629 AC
1 AC
13766631 TGAGAATCTA
Statistics
Matches: 87, Mismatches: 6, Indels: 10
0.84 0.06 0.10
Matches are distributed among these distances:
46 1 0.01
47 5 0.06
48 79 0.91
49 2 0.02
ACGTcount: A:0.27, C:0.22, G:0.28, T:0.23
Consensus pattern (48 bp):
ACCGATATTCTGTTACAATACAAGGGTGGCACAGACTGTGTACAGGCC
Found at i:13769649 original size:25 final size:24
Alignment explanation
Indices: 13769607--13769653 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 24
13769597 TACCTTTTTG
*
13769607 CTCTCCTCTCTTTTTTTTGATATAC
1 CTCTCCCCTCTTTTTTTT-ATATAC
13769632 CTCTCCCCT-TTTTCTTTTATAT
1 CTCTCCCCTCTTTT-TTTTATAT
13769654 TAGGGTCCTC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 8 0.40
25 12 0.60
ACGTcount: A:0.11, C:0.30, G:0.02, T:0.57
Consensus pattern (24 bp):
CTCTCCCCTCTTTTTTTTATATAC
Found at i:13799382 original size:42 final size:41
Alignment explanation
Indices: 13799336--13799433 Score: 124
Period size: 42 Copynumber: 2.3 Consensus size: 41
13799326 ATGGCCAAGC
*
13799336 CACACACTCGTGTGCCAAGCAGTGTACCCTTCGAAATAACCT
1 CACACAC-CGTGTGCCAAGCAGTGTACCCTTCAAAATAACCT
* * * *
13799378 CACACGCCCGTGTGCTAGGCCGTGTACCCTTCAAAATAACCT
1 CACAC-ACCGTGTGCCAAGCAGTGTACCCTTCAAAATAACCT
13799420 CACACAGCCGTGTG
1 CACACA-CCGTGTG
13799434 TGAGGCCGTG
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
42 47 0.98
43 1 0.02
ACGTcount: A:0.26, C:0.35, G:0.19, T:0.20
Consensus pattern (41 bp):
CACACACCGTGTGCCAAGCAGTGTACCCTTCAAAATAACCT
Found at i:13799440 original size:42 final size:42
Alignment explanation
Indices: 13799357--13799444 Score: 135
Period size: 42 Copynumber: 2.1 Consensus size: 42
13799347 GTGCCAAGCA
*
13799357 GTGTACCCTTCGAAATAACCTCACACGCCCGTGTGCTAGGCC
1 GTGTACCCTTCAAAATAACCTCACACGCCCGTGTGCTAGGCC
13799399 GTGTACCCTTCAAAATAACCTCACACAG-CCGTGTG-TGAGGCC
1 GTGTACCCTTCAAAATAACCTCACAC-GCCCGTGTGCT-AGGCC
13799441 GTGT
1 GTGT
13799445 GTTAGGCCGT
Statistics
Matches: 43, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
41 1 0.02
42 41 0.95
43 1 0.02
ACGTcount: A:0.23, C:0.32, G:0.23, T:0.23
Consensus pattern (42 bp):
GTGTACCCTTCAAAATAACCTCACACGCCCGTGTGCTAGGCC
Found at i:13799443 original size:12 final size:12
Alignment explanation
Indices: 13799426--13799456 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
13799416 ACCTCACACA
13799426 GCCGTGTGTGAG
1 GCCGTGTGTGAG
*
13799438 GCCGTGTGTTAG
1 GCCGTGTGTGAG
13799450 GCCGTGT
1 GCCGTGT
13799457 AAAAACCTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.06, C:0.19, G:0.45, T:0.29
Consensus pattern (12 bp):
GCCGTGTGTGAG
Found at i:13802050 original size:13 final size:13
Alignment explanation
Indices: 13802032--13802057 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
13802022 AATAAATTAT
13802032 ATGTTAGCTGTAG
1 ATGTTAGCTGTAG
13802045 ATGTTAGCTGTAG
1 ATGTTAGCTGTAG
13802058 TATTTGCCTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.08, G:0.31, T:0.38
Consensus pattern (13 bp):
ATGTTAGCTGTAG
Found at i:13805270 original size:84 final size:83
Alignment explanation
Indices: 13805130--13805299 Score: 241
Period size: 84 Copynumber: 2.0 Consensus size: 83
13805120 GGAGGTCCAG
* * * *
13805130 ACAGAGTTTACGCATTAGAGAGCCCCAAAGTAGAGAGGCCACGTATAACATCCCTAACTCGTATC
1 ACAGAGTTTACACATTAGAGAGCCCCAAACTAGAGAGGCCACGTATAACACCCCTAACCCGTATC
* *
13805195 CATCACTAGAATAGGGTT
66 CATAACCAGAATAGGGTT
* * * *
13805213 ACAGAGTTTACACAGTTAGGGAGCCCCGAACTAGAGAGGCCATGTGTAACACCCCTAACCCGTAT
1 ACAGAGTTTACACA-TTAGAGAGCCCCAAACTAGAGAGGCCACGTATAACACCCCTAACCCGTAT
13805278 CCATAACCAGAATAGGGTT
65 CCATAACCAGAATAGGGTT
13805297 ACA
1 ACA
13805300 AATCATTACA
Statistics
Matches: 76, Mismatches: 10, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
83 13 0.17
84 63 0.83
ACGTcount: A:0.34, C:0.25, G:0.21, T:0.20
Consensus pattern (83 bp):
ACAGAGTTTACACATTAGAGAGCCCCAAACTAGAGAGGCCACGTATAACACCCCTAACCCGTATC
CATAACCAGAATAGGGTT
Found at i:13811472 original size:20 final size:21
Alignment explanation
Indices: 13811441--13811479 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
13811431 TTTATGGTTT
13811441 TAAATAATTTTTGGGTAAAAA
1 TAAATAATTTTTGGGTAAAAA
*
13811462 TAAAT-ATTTTTGGTTAAA
1 TAAATAATTTTTGGGTAAA
13811480 TTGGAATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.44, C:0.00, G:0.13, T:0.44
Consensus pattern (21 bp):
TAAATAATTTTTGGGTAAAAA
Found at i:13823324 original size:27 final size:27
Alignment explanation
Indices: 13823294--13823382 Score: 110
Period size: 27 Copynumber: 3.3 Consensus size: 27
13823284 TGAAGACCAA
* * *
13823294 CTCGCCAAGCTTACTTGCGAACACCTG
1 CTCGCCAAGCCTACTGGTGAACACCTG
13823321 CTCGCCAAGCCTACTGGTGAACA-CTG
1 CTCGCCAAGCCTACTGGTGAACACCTG
*
13823347 ACTCACCAAGCCTACTGGTGAAC-CCTTG
1 -CTCGCCAAGCCTACTGGTGAACACC-TG
13823375 CTCGCCAA
1 CTCGCCAA
13823383 TTCCATTGGC
Statistics
Matches: 54, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
26 3 0.06
27 49 0.91
28 2 0.04
ACGTcount: A:0.24, C:0.37, G:0.19, T:0.20
Consensus pattern (27 bp):
CTCGCCAAGCCTACTGGTGAACACCTG
Found at i:13823466 original size:27 final size:27
Alignment explanation
Indices: 13823298--13823476 Score: 78
Period size: 27 Copynumber: 6.6 Consensus size: 27
13823288 GACCAACTCG
* * *
13823298 CCAAGCTTACTTGCGAACACCT-GCTCG
1 CCAAGTTTACTGGCGAACA-CTAGCTCA
** *
13823325 CCAAGCCTACTGGTGAACACT-GACTCA
1 CCAAGTTTACTGGCGAACACTAG-CTCA
** * * * *
13823352 CCAAGCCTACTGGTGAACCCTTGCTCG
1 CCAAGTTTACTGGCGAACACTAGCTCA
* * * *
13823379 CCAA-TTCCATTGGCAAACCCCTA-CTCA
1 CCAAGTT-TACTGGCGAA-CACTAGCTCA
** * * *
13823406 CCAAGTCCACTAGCAAACACCAGCTCA
1 CCAAGTTTACTGGCGAACACTAGCTCA
*
13823433 TCAAGTTTACTGGCGAACACTAGCTCA
1 CCAAGTTTACTGGCGAACACTAGCTCA
*
13823460 CCAAGTTCAACTGGCGA
1 CCAAGTT-TACTGGCGA
13823477 GCTCTAACTT
Statistics
Matches: 118, Mismatches: 27, Indels: 13
0.75 0.17 0.08
Matches are distributed among these distances:
26 6 0.05
27 98 0.83
28 14 0.12
ACGTcount: A:0.28, C:0.35, G:0.17, T:0.20
Consensus pattern (27 bp):
CCAAGTTTACTGGCGAACACTAGCTCA
Found at i:13827042 original size:26 final size:26
Alignment explanation
Indices: 13826947--13827042 Score: 113
Period size: 26 Copynumber: 3.7 Consensus size: 26
13826937 TTTTACATCG
* * *
13826947 TTGCTCATAGGAGTTGTGAAATGGG-
1 TTGCTCACACGAGCTGTGAAATGGGC
* *
13826972 TCTGCTCACATGAGCGGTGAAATGGGC
1 T-TGCTCACACGAGCTGTGAAATGGGC
*
13826999 TTACTCACACGAGCTGTGAAATGGGC
1 TTGCTCACACGAGCTGTGAAATGGGC
*
13827025 TTGCTCACACGAGTTGTG
1 TTGCTCACACGAGCTGTG
13827043 GGTCGAAATG
Statistics
Matches: 60, Mismatches: 9, Indels: 3
0.83 0.12 0.04
Matches are distributed among these distances:
25 1 0.02
26 58 0.97
27 1 0.02
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.27
Consensus pattern (26 bp):
TTGCTCACACGAGCTGTGAAATGGGC
Found at i:13827730 original size:12 final size:13
Alignment explanation
Indices: 13827703--13827731 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
13827693 ATTGGTAAAT
13827703 TTATCAAAATTAC
1 TTATCAAAATTAC
13827716 TTATCAAAA-TAC
1 TTATCAAAATTAC
13827728 TTAT
1 TTAT
13827732 AAATAATAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.44
13 9 0.56
ACGTcount: A:0.45, C:0.14, G:0.00, T:0.41
Consensus pattern (13 bp):
TTATCAAAATTAC
Found at i:13836859 original size:41 final size:39
Alignment explanation
Indices: 13836793--13836924 Score: 138
Period size: 41 Copynumber: 3.2 Consensus size: 39
13836783 ACCAAAGTGT
* * *
13836793 AAACAAGGTCACGTATATGTTATTTAGGGGTATCGAAGTAC
1 AAACAGGGGCACGTATGTG-TATTTAGGGGTA-CGAAGTAC
* * *
13836834 AAACAGTGGCACGTATGTGTAATTTAGAGGTACCAAAGTAC
1 AAACAGGGGCACGTATGTGT-ATTTAGGGGTA-CGAAGTAC
* *
13836875 AAATAGGGGCACGTATGTGCTATTTAAGGGTACTGAAGTAC
1 AAACAGGGGCACGTATGTG-TATTTAGGGGTAC-GAAGTAC
13836916 AAACAGGGG
1 AAACAGGGG
13836925 ATAATTCAAT
Statistics
Matches: 75, Mismatches: 13, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
40 2 0.03
41 72 0.96
42 1 0.01
ACGTcount: A:0.35, C:0.13, G:0.27, T:0.25
Consensus pattern (39 bp):
AAACAGGGGCACGTATGTGTATTTAGGGGTACGAAGTAC
Found at i:13839089 original size:9 final size:9
Alignment explanation
Indices: 13839071--13839189 Score: 104
Period size: 9 Copynumber: 13.6 Consensus size: 9
13839061 TTTGGTTAAA
*
13839071 AATTAACCG
1 AATTACCCG
13839080 AATTACCCG
1 AATTACCCG
13839089 AATTACCCG
1 AATTACCCG
*
13839098 AATTAACCG
1 AATTACCCG
*
13839107 AATTACTCG
1 AATTACCCG
* *
13839116 AATTAACCA
1 AATTACCCG
*
13839125 AATTAACC-
1 AATTACCCG
13839133 AATT----G
1 AATTACCCG
*
13839138 AATCACTACCG
1 AATTAC--CCG
13839149 AATTACCCG
1 AATTACCCG
13839158 AATTACCCG
1 AATTACCCG
*
13839167 AATTAACCG
1 AATTACCCG
*
13839176 AATTACTCG
1 AATTACCCG
13839185 AATTA
1 AATTA
13839190 ACCAAATTAA
Statistics
Matches: 91, Mismatches: 12, Indels: 14
0.78 0.10 0.12
Matches are distributed among these distances:
5 3 0.03
8 4 0.04
9 78 0.86
11 6 0.07
ACGTcount: A:0.40, C:0.25, G:0.09, T:0.25
Consensus pattern (9 bp):
AATTACCCG
Found at i:13839098 original size:18 final size:18
Alignment explanation
Indices: 13839071--13839198 Score: 129
Period size: 18 Copynumber: 7.3 Consensus size: 18
13839061 TTTGGTTAAA
* *
13839071 AATTAACCGAATTACCCG
1 AATTACCCGAATTAACCG
13839089 AATTACCCGAATTAACCG
1 AATTACCCGAATTAACCG
* *
13839107 AATTACTCGAATTAACCA
1 AATTACCCGAATTAACCG
* *
13839125 AATTAACC-AATTGAATC-
1 AATTACCCGAATT-AACCG
* *
13839142 -ACTA-CCGAATTACCCG
1 AATTACCCGAATTAACCG
13839158 AATTACCCGAATTAACCG
1 AATTACCCGAATTAACCG
* *
13839176 AATTACTCGAATTAACCA
1 AATTACCCGAATTAACCG
13839194 AATTA
1 AATTA
13839199 ACCAAATTGA
Statistics
Matches: 91, Mismatches: 14, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
15 4 0.04
16 7 0.08
17 7 0.08
18 73 0.80
ACGTcount: A:0.41, C:0.25, G:0.09, T:0.25
Consensus pattern (18 bp):
AATTACCCGAATTAACCG
Found at i:13839161 original size:69 final size:70
Alignment explanation
Indices: 13839076--13839216 Score: 275
Period size: 69 Copynumber: 2.0 Consensus size: 70
13839066 TTAAAAATTA
13839076 ACCGAATTACCCGAATTACCCGAATTAACCGAATTACTCGAATTAACCAAATTAACC-AATTGAA
1 ACCGAATTACCCGAATTACCCGAATTAACCGAATTACTCGAATTAACCAAATTAACCAAATTGAA
13839140 TCACT
66 TCACT
13839145 ACCGAATTACCCGAATTACCCGAATTAACCGAATTACTCGAATTAACCAAATTAACCAAATTGAA
1 ACCGAATTACCCGAATTACCCGAATTAACCGAATTACTCGAATTAACCAAATTAACCAAATTGAA
13839210 TCACT
66 TCACT
13839215 AC
1 AC
13839217 ATAATTAAAT
Statistics
Matches: 71, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
69 57 0.80
70 14 0.20
ACGTcount: A:0.41, C:0.26, G:0.09, T:0.24
Consensus pattern (70 bp):
ACCGAATTACCCGAATTACCCGAATTAACCGAATTACTCGAATTAACCAAATTAACCAAATTGAA
TCACT
Found at i:13839353 original size:18 final size:18
Alignment explanation
Indices: 13839313--13839356 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
13839303 TAATTTTATG
**
13839313 ATTGGGTTGGGTTGGGTA
1 ATTGGGTTGGGTTGAATA
13839331 ATTGGGTTGGGTTGAATA
1 ATTGGGTTGGGTTGAATA
*
13839349 CTTGGGTT
1 ATTGGGTT
13839357 TAGATTGGGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.14, C:0.02, G:0.43, T:0.41
Consensus pattern (18 bp):
ATTGGGTTGGGTTGAATA
Found at i:13845307 original size:31 final size:31
Alignment explanation
Indices: 13845269--13845358 Score: 153
Period size: 32 Copynumber: 2.9 Consensus size: 31
13845259 AGGCAAATTA
13845269 CAAGAGTAATTGAATCCTAATAAAACTATTT
1 CAAGAGTAATTGAATCCTAATAAAACTATTT
*
13845300 CAAGAGTAATTGAATCCTAATAAAAACTCTTT
1 CAAGAGTAATTGAATCCTAAT-AAAACTATTT
*
13845332 AAAGAGTAATTGAATCCTAATAAAACT
1 CAAGAGTAATTGAATCCTAATAAAACT
13845359 CTTTAAAATT
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
31 27 0.48
32 29 0.52
ACGTcount: A:0.47, C:0.13, G:0.10, T:0.30
Consensus pattern (31 bp):
CAAGAGTAATTGAATCCTAATAAAACTATTT
Found at i:13845360 original size:31 final size:31
Alignment explanation
Indices: 13845270--13845365 Score: 165
Period size: 31 Copynumber: 3.1 Consensus size: 31
13845260 GGCAAATTAC
* *
13845270 AAGAGTAATTGAATCCTAATAAAACTATTTC
1 AAGAGTAATTGAATCCTAATAAAACTCTTTA
13845301 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
1 AAGAGTAATTGAATCCTAAT-AAAACTCTTTA
13845333 AAGAGTAATTGAATCCTAATAAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAACTCTTTA
13845364 AA
1 AA
13845366 ATTATCTAAG
Statistics
Matches: 62, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
31 33 0.53
32 29 0.47
ACGTcount: A:0.47, C:0.12, G:0.09, T:0.31
Consensus pattern (31 bp):
AAGAGTAATTGAATCCTAATAAAACTCTTTA
Found at i:13851221 original size:2 final size:2
Alignment explanation
Indices: 13851214--13851239 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
13851204 TTTAATTTTA
13851214 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
13851240 TTATTGATTT
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:13851813 original size:12 final size:12
Alignment explanation
Indices: 13851798--13851839 Score: 70
Period size: 11 Copynumber: 3.7 Consensus size: 12
13851788 ATTTGAAAAT
13851798 TTTTAAAAAGTA
1 TTTTAAAAAGTA
13851810 TTTT-AAAAGTA
1 TTTTAAAAAGTA
13851821 TTTTAAAAA-TA
1 TTTTAAAAAGTA
13851832 TTTTAAAA
1 TTTTAAAA
13851840 TTAAAAAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
11 21 0.72
12 8 0.28
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (12 bp):
TTTTAAAAAGTA
Found at i:13852506 original size:40 final size:39
Alignment explanation
Indices: 13852446--13852537 Score: 141
Period size: 40 Copynumber: 2.3 Consensus size: 39
13852436 NNNNNNNNNN
*
13852446 AAATT-AAAAAAATTAAAAAAAGTATTTTAAAAATATTTTA
1 AAATTAAAAAAAATT-AAAAAAGTA-TGTAAAAATATTTTA
13852486 AAATTTAAAAAAAATTAAAAAAGTATGTAAAAATATTTTA
1 AAA-TTAAAAAAAATTAAAAAAGTATGTAAAAATATTTTA
13852526 AAATTAAAAAAA
1 AAATTAAAAAAA
13852538 TAAATATATT
Statistics
Matches: 49, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
39 9 0.18
40 20 0.41
41 11 0.22
42 9 0.18
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (39 bp):
AAATTAAAAAAAATTAAAAAAGTATGTAAAAATATTTTA
Found at i:13853928 original size:12 final size:12
Alignment explanation
Indices: 13853911--13853935 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
13853901 GGTGATCATT
13853911 CGGTTAACCGAC
1 CGGTTAACCGAC
13853923 CGGTTAACCGAC
1 CGGTTAACCGAC
13853935 C
1 C
13853936 CGAAATAACA
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:0.24, C:0.36, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTTAACCGAC
Found at i:13854109 original size:9 final size:9
Alignment explanation
Indices: 13854098--13854156 Score: 82
Period size: 9 Copynumber: 6.6 Consensus size: 9
13854088 TTTGGTTAAA
*
13854098 AATTAACCA
1 AATTAACCG
*
13854107 AATTAATCG
1 AATTAACCG
13854116 AATTAACCG
1 AATTAACCG
*
13854125 AATTACCCG
1 AATTAACCG
*
13854134 AATTACCCG
1 AATTAACCG
13854143 AATTAACCG
1 AATTAACCG
13854152 AATTA
1 AATTA
13854157 NNNNNNNNNN
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 45 1.00
ACGTcount: A:0.44, C:0.22, G:0.08, T:0.25
Consensus pattern (9 bp):
AATTAACCG
Found at i:13858556 original size:17 final size:17
Alignment explanation
Indices: 13858534--13858566 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
13858524 ACCATGTGGC
*
13858534 TGGGCCGTGTAACTTAT
1 TGGGCCATGTAACTTAT
13858551 TGGGCCATGTAACTTA
1 TGGGCCATGTAACTTA
13858567 ATTGCCATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.21, C:0.18, G:0.27, T:0.33
Consensus pattern (17 bp):
TGGGCCATGTAACTTAT
Found at i:13860593 original size:15 final size:15
Alignment explanation
Indices: 13860573--13860603 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
13860563 GTGTTTAATG
13860573 TTATTTAACTTATTA
1 TTATTTAACTTATTA
13860588 TTATTTAACTTATTA
1 TTATTTAACTTATTA
13860603 T
1 T
13860604 AAGACCCATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.61
Consensus pattern (15 bp):
TTATTTAACTTATTA
Found at i:13861761 original size:29 final size:29
Alignment explanation
Indices: 13861728--13861814 Score: 81
Period size: 29 Copynumber: 3.1 Consensus size: 29
13861718 AAGGTGCATT
*
13861728 TAACAGAATCAGCCACAAGGGCTCACATA
1 TAACAAAATCAGCCACAAGGGCTCACATA
** * * *
13861757 TAACATACTTCA-CCACAAAGG--CGCATT
1 TAACA-AAATCAGCCACAAGGGCTCACATA
*
13861784 TGACAAAATCAGCCACAAGGGCTCACATA
1 TAACAAAATCAGCCACAAGGGCTCACATA
13861813 TA
1 TA
13861815 TCATACTTCC
Statistics
Matches: 41, Mismatches: 13, Indels: 8
0.66 0.21 0.13
Matches are distributed among these distances:
26 4 0.10
27 16 0.39
29 18 0.44
30 3 0.07
ACGTcount: A:0.40, C:0.28, G:0.15, T:0.17
Consensus pattern (29 bp):
TAACAAAATCAGCCACAAGGGCTCACATA
Found at i:13861794 original size:56 final size:56
Alignment explanation
Indices: 13861712--13861832 Score: 188
Period size: 56 Copynumber: 2.2 Consensus size: 56
13861702 TAGATAGATA
* *
13861712 ACCATAAAGGTGCATTTAACAGAATCAGCCACAAGGGCTCACATATAACATACTTC
1 ACCATAAAGGCGCATTTAACAAAATCAGCCACAAGGGCTCACATATAACATACTTC
* * *
13861768 ACCACAAAGGCGCATTTGACAAAATCAGCCACAAGGGCTCACATATATCATACTTC
1 ACCATAAAGGCGCATTTAACAAAATCAGCCACAAGGGCTCACATATAACATACTTC
*
13861824 CCCATAAAG
1 ACCATAAAG
13861833 ACTCTCATAT
Statistics
Matches: 58, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
56 58 1.00
ACGTcount: A:0.39, C:0.27, G:0.14, T:0.20
Consensus pattern (56 bp):
ACCATAAAGGCGCATTTAACAAAATCAGCCACAAGGGCTCACATATAACATACTTC
Found at i:13871271 original size:16 final size:16
Alignment explanation
Indices: 13871250--13871281 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
13871240 GTTTTGTTGC
*
13871250 TAATTTTACTTTTTCA
1 TAATTTCACTTTTTCA
13871266 TAATTTCACTTTTTCA
1 TAATTTCACTTTTTCA
13871282 CTTTCAATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.16, G:0.00, T:0.59
Consensus pattern (16 bp):
TAATTTCACTTTTTCA
Found at i:13871605 original size:50 final size:52
Alignment explanation
Indices: 13871426--13871619 Score: 227
Period size: 51 Copynumber: 3.8 Consensus size: 52
13871416 ATTAATGACA
* * *
13871426 CCGGTTCACATAGTAGCCTGCACATAATACTACAAATGTGACC-ATCACTAT
1 CCGGTACACATAGTAGCCTGCACATAGTACTACACATGTGACCTATCACTAT
* * * **
13871477 CCGATACACGTAGTAGCCTGCACATAGTACTACACACGTGA--TAGAAGCTAT
1 CCGGTACACATAGTAGCCTGCACATAGTACTACACATGTGACCTATCA-CTAT
* *
13871528 CCGGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACCTATCA-T-T
1 CCGGTACACATAGTAGCCTGCACATAGTACTACACATGTGACCTATCACTAT
* * *
13871578 CTGGTACACTTTGTAGCCTGCACATAGTACTACACATGTGAC
1 CCGGTACACATAGTAGCCTGCACATAGTACTACACATGTGAC
13871620 AATCACTTCC
Statistics
Matches: 119, Mismatches: 20, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
50 40 0.34
51 76 0.64
53 3 0.03
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (52 bp):
CCGGTACACATAGTAGCCTGCACATAGTACTACACATGTGACCTATCACTAT
Found at i:13871642 original size:101 final size:102
Alignment explanation
Indices: 13871429--13871620 Score: 253
Period size: 101 Copynumber: 1.9 Consensus size: 102
13871419 AATGACACCG
*
13871429 GTTCACATAGTAGCCTGCACATAATACTACAAATGTGACCATCACTATCCGATACACGTAGTAGC
1 GTTCACATAGTAGCCTGCACATAATACTACAAATGCGACCATCACTATCCGATACACGTAGTAGC
* *
13871494 CTGCACATAGTACTACACACGTGATAGAAGCTATCCG
66 CTGCACATAGTACTACACACGTGACAGAAGCTATCCC
* * * * * * * *
13871531 GTACGCATAGTAGCCTGCACATAGTACTACACATGCGACCTATCA-T-TCTGGTACACTTTGTAG
1 GTTCACATAGTAGCCTGCACATAATACTACAAATGCGACC-ATCACTATCCGATACACGTAGTAG
*
13871594 CCTGCACATAGTACTACACATGTGACA
65 CCTGCACATAGTACTACACACGTGACA
13871621 ATCACTTCCA
Statistics
Matches: 78, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
101 38 0.49
102 36 0.46
103 4 0.05
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (102 bp):
GTTCACATAGTAGCCTGCACATAATACTACAAATGCGACCATCACTATCCGATACACGTAGTAGC
CTGCACATAGTACTACACACGTGACAGAAGCTATCCC
Found at i:13879687 original size:52 final size:50
Alignment explanation
Indices: 13879567--13879689 Score: 174
Period size: 50 Copynumber: 2.4 Consensus size: 50
13879557 ATATTTAATA
* * *
13879567 AAGTCATGTATTATGTAACTCTCATGTTAGTTAAGTTTGCATCATAAATT
1 AAGTCATGCATTATGTAACTCCCATGTTAGTTAAGTTAGCATCATAAATT
* *
13879617 ATGACATGCATTATGTAACTCCCATGTTAGTTAAAGTTAGCATCATTAAATT
1 AAGTCATGCATTATGTAACTCCCATGTTAGTT-AAGTTAGCATCA-TAAATT
*
13879669 AAGTCATGCATTAAGTAACTC
1 AAGTCATGCATTATGTAACTC
13879690 ATTTGTTCAT
Statistics
Matches: 63, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
50 28 0.44
51 11 0.17
52 24 0.38
ACGTcount: A:0.34, C:0.15, G:0.14, T:0.37
Consensus pattern (50 bp):
AAGTCATGCATTATGTAACTCCCATGTTAGTTAAGTTAGCATCATAAATT
Found at i:13881887 original size:18 final size:18
Alignment explanation
Indices: 13881861--13881900 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
13881851 AAATGAGCGA
*
13881861 AAAATAAAAGAAAT-TGAG
1 AAAAGAAAA-AAATGTGAG
13881879 AAAAGAAAAAAATGTGAG
1 AAAAGAAAAAAATGTGAG
13881897 AAAA
1 AAAA
13881901 ATAAATTGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 4 0.20
18 16 0.80
ACGTcount: A:0.70, C:0.00, G:0.17, T:0.12
Consensus pattern (18 bp):
AAAAGAAAAAAATGTGAG
Found at i:13884018 original size:52 final size:50
Alignment explanation
Indices: 13883897--13884019 Score: 174
Period size: 50 Copynumber: 2.4 Consensus size: 50
13883887 ATATTTAATA
* *
13883897 AAGTCATGCATTCTGTAACTCTCATGTTAGTTAAGTTTGCATCATAAATT
1 AAGTCATGCATTATGTAACTCCCATGTTAGTTAAGTTTGCATCATAAATT
* *
13883947 ATGACATGCATTATGTAACTCCCATGTTAGTTAAAGTTTGCATCATTAAATT
1 AAGTCATGCATTATGTAACTCCCATGTTAGTT-AAGTTTGCATCA-TAAATT
* *
13883999 AAGTCATGTATTAAGTAACTC
1 AAGTCATGCATTATGTAACTC
13884020 ATTTGTTCAT
Statistics
Matches: 63, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
50 28 0.44
51 12 0.19
52 23 0.37
ACGTcount: A:0.33, C:0.15, G:0.14, T:0.38
Consensus pattern (50 bp):
AAGTCATGCATTATGTAACTCCCATGTTAGTTAAGTTTGCATCATAAATT
Found at i:13885784 original size:27 final size:25
Alignment explanation
Indices: 13885719--13885785 Score: 73
Period size: 25 Copynumber: 2.6 Consensus size: 25
13885709 ATGTACATAT
*
13885719 ATGCTCACATGAGCTATGAATAAGT
1 ATGCTCACATGAGCTATGAATAAGC
*
13885744 ATGCTCACACGAGCTATGAA-AATGGGC
1 ATGCTCACATGAGCTATGAATAA---GC
*
13885771 CTGCTCACATGAGCT
1 ATGCTCACATGAGCT
13885786 GTAGGTCGGA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
24 2 0.06
25 19 0.54
27 14 0.40
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.24
Consensus pattern (25 bp):
ATGCTCACATGAGCTATGAATAAGC
Done.