Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 73 of 410
Found at i:20616728 original size:28 final size:28
Alignment explanation
Indices: 20616683--20616737 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
20616673 GAAAACAATA
*
20616683 TTTTCTTTTAATTTTTTTATTCTTTTAC
1 TTTTCTTTTAATCTTTTTATTCTTTTAC
*
20616711 TTTTACTTTTAA-CTTTTTATTTTTTTA
1 TTTT-CTTTTAATCTTTTTATTCTTTTA
20616738 TTTAATTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 17 0.71
29 7 0.29
ACGTcount: A:0.16, C:0.09, G:0.00, T:0.75
Consensus pattern (28 bp):
TTTTCTTTTAATCTTTTTATTCTTTTAC
Found at i:20616794 original size:15 final size:13
Alignment explanation
Indices: 20616765--20616789 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
20616755 TTCATTGATT
20616765 AATTTTTTAAATC
1 AATTTTTTAAATC
20616778 AATTTTTTAAAT
1 AATTTTTTAAAT
20616790 ATCAAATTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (13 bp):
AATTTTTTAAATC
Found at i:20618655 original size:2 final size:2
Alignment explanation
Indices: 20618648--20618676 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
20618638 ATTAATTCAT
20618648 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
20618677 CTTTCATCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:20620196 original size:13 final size:13
Alignment explanation
Indices: 20620178--20620203 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
20620168 TACACCCCAC
20620178 TTAAAAAAAAAAA
1 TTAAAAAAAAAAA
20620191 TTAAAAAAAAAAA
1 TTAAAAAAAAAAA
20620204 CACGAAGTGA
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:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (13 bp):
TTAAAAAAAAAAA
Found at i:20622783 original size:32 final size:32
Alignment explanation
Indices: 20622741--20622801 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
20622731 TAATTAATTA
* *
20622741 GTTATCAAATT-AATTTAATTAATTTATAATGG
1 GTTATCAAATTCAA-ATAATCAATTTATAATGG
*
20622773 GTTATTAAATTCAAATAATCAATTTATAA
1 GTTATCAAATTCAAATAATCAATTTATAA
20622802 GTTTATGATG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
32 23 0.92
33 2 0.08
ACGTcount: A:0.44, C:0.05, G:0.07, T:0.44
Consensus pattern (32 bp):
GTTATCAAATTCAAATAATCAATTTATAATGG
Found at i:20624038 original size:2 final size:2
Alignment explanation
Indices: 20624031--20624064 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
20624021 TTTATTTTGT
20624031 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
20624065 GTTTATCCAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:20625053 original size:6 final size:6
Alignment explanation
Indices: 20625044--20625076 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
20625034 AAAAAAAAAA
20625044 AAGTAG AAGTAG AAGTAG AAGTAG AAGTAG AAG
1 AAGTAG AAGTAG AAGTAG AAGTAG AAGTAG AAG
20625077 GGGACCCATC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.33, T:0.15
Consensus pattern (6 bp):
AAGTAG
Found at i:20629903 original size:11 final size:11
Alignment explanation
Indices: 20629875--20629911 Score: 58
Period size: 11 Copynumber: 3.4 Consensus size: 11
20629865 ATAGAAAGTC
20629875 TTATTTT-ATT
1 TTATTTTGATT
20629885 TTATTTTTGATT
1 TTA-TTTTGATT
20629897 TTATTTTGATT
1 TTATTTTGATT
20629908 TTAT
1 TTAT
20629912 GTTAAATTAG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
10 3 0.12
11 16 0.64
12 6 0.24
ACGTcount: A:0.19, C:0.00, G:0.05, T:0.76
Consensus pattern (11 bp):
TTATTTTGATT
Found at i:20630732 original size:17 final size:18
Alignment explanation
Indices: 20630710--20630744 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
20630700 AAAATTCTGA
20630710 ATTTATTTCCAAT-TTAC
1 ATTTATTTCCAATATTAC
*
20630727 ATTTATTTTCAATATTAC
1 ATTTATTTCCAATATTAC
20630745 TCAATTGTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.31, C:0.14, G:0.00, T:0.54
Consensus pattern (18 bp):
ATTTATTTCCAATATTAC
Found at i:20632536 original size:18 final size:18
Alignment explanation
Indices: 20632513--20632548 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
20632503 ATTTTACTTT
*
20632513 TATTTTATTTTACCAATG
1 TATTTTATTTTAACAATG
20632531 TATTTTATTTTAACAATG
1 TATTTTATTTTAACAATG
20632549 ATTCGAGTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.31, C:0.08, G:0.06, T:0.56
Consensus pattern (18 bp):
TATTTTATTTTAACAATG
Found at i:20633417 original size:35 final size:35
Alignment explanation
Indices: 20633367--20633460 Score: 91
Period size: 35 Copynumber: 2.7 Consensus size: 35
20633357 ATTTCTTAGA
* * * * *
20633367 GTTCACATAATATATAAGCTCATATAGTACTTAAG
1 GTTCACATTACATATAAGCTCACATAATACCTAAG
* * *
20633402 GTTCGCATTACATAT-AGACTCGCATAATACCTAGG
1 GTTCACATTACATATAAG-CTCACATAATACCTAAG
*
20633437 GTTCACATTACATATAGGCTCACA
1 GTTCACATTACATATAAGCTCACA
20633461 CATGACACAT
Statistics
Matches: 46, Mismatches: 11, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
34 2 0.04
35 43 0.93
36 1 0.02
ACGTcount: A:0.35, C:0.20, G:0.14, T:0.31
Consensus pattern (35 bp):
GTTCACATTACATATAAGCTCACATAATACCTAAG
Found at i:20633774 original size:38 final size:38
Alignment explanation
Indices: 20633713--20633785 Score: 110
Period size: 38 Copynumber: 1.9 Consensus size: 38
20633703 TTCACATGTA
* * *
20633713 ATATTCTGACTCTCATGTAATAATTATAGGTGACTCGT
1 ATATACTGACTCTCATGTAATAATAACAGGTGACTCGT
*
20633751 ATATACTGATTCTCATGTAATAATAACAGGTGACT
1 ATATACTGACTCTCATGTAATAATAACAGGTGACT
20633786 TGCATAGCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 31 1.00
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.37
Consensus pattern (38 bp):
ATATACTGACTCTCATGTAATAATAACAGGTGACTCGT
Found at i:20637157 original size:30 final size:28
Alignment explanation
Indices: 20637091--20637158 Score: 73
Period size: 29 Copynumber: 2.3 Consensus size: 28
20637081 ACTTAACAAC
* * *
20637091 TTAATGACTTAAATAAATTTTTTTATTAG
1 TTAATGA-TCAAATAAATTTTTTAAATAG
*
20637120 TTCATGATCAAATGAAATTTTTTAAATAG
1 TTAATGATCAAAT-AAATTTTTTAAATAG
20637149 TTTAATGATC
1 -TTAATGATC
20637159 TTTTTATAAC
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
28 5 0.16
29 19 0.59
30 8 0.25
ACGTcount: A:0.38, C:0.06, G:0.09, T:0.47
Consensus pattern (28 bp):
TTAATGATCAAATAAATTTTTTAAATAG
Found at i:20644941 original size:46 final size:46
Alignment explanation
Indices: 20644859--20644981 Score: 133
Period size: 46 Copynumber: 2.7 Consensus size: 46
20644849 TCCCGAGGTT
* ** *
20644859 GATGCATGTCCCAGACATGTCTTACATTAACTCTCATC-TCAAT-GCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCACTCATCAT--ATGGCC
* * *
20644905 GATGCATGTCCCAGACATGTCTTACACTGGCACTCATGATGTGGCT
1 GATGCATGTCCCAGACATGTCTTACACTGGCACTCATCATATGGCC
* *
20644951 GATGCATGTCTCAGGCATGTCTTACACTGGC
1 GATGCATGTCCCAGACATGTCTTACACTGGC
20644982 TCACATACCA
Statistics
Matches: 66, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
45 1 0.02
46 64 0.97
47 1 0.02
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCACTCATCATATGGCC
Found at i:20646801 original size:20 final size:20
Alignment explanation
Indices: 20646776--20646816 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
20646766 TAACGATTGA
*
20646776 TATC-AAGATTTTGACAAGAT
1 TATCAAAGATTTAGA-AAGAT
20646796 TATCAAAGATTTAGAAAGAT
1 TATCAAAGATTTAGAAAGAT
20646816 T
1 T
20646817 TGAAGAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.44, C:0.07, G:0.15, T:0.34
Consensus pattern (20 bp):
TATCAAAGATTTAGAAAGAT
Found at i:20647417 original size:2 final size:2
Alignment explanation
Indices: 20647410--20647444 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
20647400 CTTAATAGTG
20647410 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
20647445 TGGGGATTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:20655276 original size:40 final size:40
Alignment explanation
Indices: 20655232--20655308 Score: 127
Period size: 40 Copynumber: 1.9 Consensus size: 40
20655222 ACACATCATG
* *
20655232 TGAGGATAAAATCGACCCACCCAGCCCTACACACCAAGTA
1 TGAGGATAAAATCAACCCACCCAACCCTACACACCAAGTA
*
20655272 TGAGGATAAAATCAACCCATCCAACCCTACACACCAA
1 TGAGGATAAAATCAACCCACCCAACCCTACACACCAA
20655309 ATGGTACCGT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.40, C:0.35, G:0.12, T:0.13
Consensus pattern (40 bp):
TGAGGATAAAATCAACCCACCCAACCCTACACACCAAGTA
Found at i:20668233 original size:18 final size:18
Alignment explanation
Indices: 20668192--20668235 Score: 63
Period size: 17 Copynumber: 2.5 Consensus size: 18
20668182 TATTTTTTAT
* *
20668192 ATTTAATTACTTTTATTG
1 ATTTAATTACATTTAATG
20668210 -TTTAATTACATTTAATG
1 ATTTAATTACATTTAATG
20668227 ATTTAATTA
1 ATTTAATTA
20668236 ATTATCGCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 15 0.65
18 8 0.35
ACGTcount: A:0.34, C:0.05, G:0.05, T:0.57
Consensus pattern (18 bp):
ATTTAATTACATTTAATG
Found at i:20669270 original size:17 final size:16
Alignment explanation
Indices: 20669250--20669323 Score: 55
Period size: 17 Copynumber: 4.6 Consensus size: 16
20669240 ATAGATTAAT
20669250 TTATATTTTATGTATCA
1 TTATATTTTAT-TATCA
**
20669267 TTATATTAAATTAT--
1 TTATATTTTATTATCA
* * *
20669281 TTAAACTTTATTTATTA
1 TTATATTTTA-TTATCA
20669298 TTATATTTTATATATCA
1 TTATATTTTAT-TATCA
20669315 TTA-ATTTTA
1 TTATATTTTA
20669324 CAAATGATTT
Statistics
Matches: 44, Mismatches: 9, Indels: 9
0.71 0.15 0.15
Matches are distributed among these distances:
14 6 0.14
15 4 0.09
16 10 0.23
17 24 0.55
ACGTcount: A:0.35, C:0.04, G:0.01, T:0.59
Consensus pattern (16 bp):
TTATATTTTATTATCA
Found at i:20681255 original size:22 final size:23
Alignment explanation
Indices: 20681193--20681256 Score: 67
Period size: 22 Copynumber: 2.8 Consensus size: 23
20681183 TAATCCTTTA
20681193 AAAATTATAAAAATATAGTCTATT
1 AAAATTATAAAAATATA-TCTATT
* * *
20681217 AAAATGATAAAATTATAT-TTTT
1 AAAATTATAAAAATATATCTATT
**
20681239 ACTATTATAAAAATATAT
1 AAAATTATAAAAATATAT
20681257 AACTTATTTT
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
22 17 0.52
23 1 0.03
24 15 0.45
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.41
Consensus pattern (23 bp):
AAAATTATAAAAATATATCTATT
Found at i:20683085 original size:25 final size:23
Alignment explanation
Indices: 20683049--20683112 Score: 66
Period size: 25 Copynumber: 2.9 Consensus size: 23
20683039 AATAAAAAAC
*
20683049 TTTAAAATATAATAAATCAAATACA
1 TTTAAAACATAA-AAA-CAAATACA
20683074 TTTAAAACATAAAAACAAAT--A
1 TTTAAAACATAAAAACAAATACA
20683095 -TTAAAAC--AAAAACAAATA
1 TTTAAAACATAAAAACAAATA
20683113 AAAAATAAGA
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
18 10 0.27
20 7 0.19
21 1 0.03
23 5 0.14
24 3 0.08
25 11 0.30
ACGTcount: A:0.66, C:0.09, G:0.00, T:0.25
Consensus pattern (23 bp):
TTTAAAACATAAAAACAAATACA
Found at i:20687660 original size:22 final size:21
Alignment explanation
Indices: 20687619--20687662 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
20687609 TGGTTGTTAT
*
20687619 ACACCTATAACAACACTTGAG
1 ACACCTATAAAAACACTTGAG
*
20687640 ACACCTATAATAAACATTTGAG
1 ACACCTATAA-AAACACTTGAG
20687662 A
1 A
20687663 TTTAGGTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.45, C:0.23, G:0.09, T:0.23
Consensus pattern (21 bp):
ACACCTATAAAAACACTTGAG
Found at i:20688703 original size:19 final size:19
Alignment explanation
Indices: 20688675--20688733 Score: 66
Period size: 19 Copynumber: 3.0 Consensus size: 19
20688665 GCATTTAATT
*
20688675 AATTTGAAAAAATATTAAA
1 AATTTTAAAAAATATTAAA
20688694 AATTTT-AAAAATATATAAA
1 AATTTTAAAAAATAT-TAAA
*
20688713 AGTTTTTAAAAAATAATTAAA
1 A-ATTTTAAAAAAT-ATTAAA
20688734 TGCTGATGTG
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
18 8 0.24
19 10 0.29
20 4 0.12
21 10 0.29
22 2 0.06
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (19 bp):
AATTTTAAAAAATATTAAA
Found at i:20690844 original size:195 final size:196
Alignment explanation
Indices: 20690512--20690911 Score: 640
Period size: 195 Copynumber: 2.0 Consensus size: 196
20690502 GAAGATACCC
** * **
20690512 CACAATTTTGTTAATACTGCAAATTTCACAAAGCATTGAGAAGCCAACATTCCTAGCTCCATGGT
1 CACAATTCCGTTAATACTGCAAATTCCACAAAGCATTGAGAAGCCAACATTCCTAGCTCCATGAC
* *
20690577 AGTCCCGAATAGCTCCACCTGGCCTAGCTCTCTCACCTAAAAAGGCTCAACTACCACCAACATTC
66 AGTCCCGAATAGCTCCACCTGCCCTAGCTCTCTCACATAAAAAGGCTCAACTACCACCAACATTC
* *
20690642 AACTTAAACCAATCATATGGAGGTTTCTCCCAACTTAGCATCACAATACTC-TTTTCCTTATCAT
131 AACTTAAACCAATCATATAGAGGTTTCTCCCAACTTAGCATCACAATACTCTTTTTCCTTAGCAT
20690706 A
196 A
* * *
20690707 CACAATTCCGTTAATACTGTAAATTCCACAAAGGATTGAGAAGCCAACATTCTTAGCTCCATGAC
1 CACAATTCCGTTAATACTGCAAATTCCACAAAGCATTGAGAAGCCAACATTCCTAGCTCCATGAC
*
20690772 AGTCCCGAATAGCTCCACCTGCCCTAGCTCTCTCACATAAAAAGGCTCAACTACCATCAACATTC
66 AGTCCCGAATAGCTCCACCTGCCCTAGCTCTCTCACATAAAAAGGCTCAACTACCACCAACATTC
* *
20690837 AACTTAAACCAATCCTGTAGAGGTTTCTCCCAACTTAGCATCACAATACTCTTTTTCCTTAGCAT
131 AACTTAAACCAATCATATAGAGGTTTCTCCCAACTTAGCATCACAATACTCTTTTTCCTTAGCAT
20690902 A
196 A
*
20690903 GACTAATTC
1 CAC-AATTC
20690912 ATACAAAATT
Statistics
Matches: 187, Mismatches: 16, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
195 167 0.89
196 15 0.08
197 5 0.03
ACGTcount: A:0.32, C:0.29, G:0.11, T:0.28
Consensus pattern (196 bp):
CACAATTCCGTTAATACTGCAAATTCCACAAAGCATTGAGAAGCCAACATTCCTAGCTCCATGAC
AGTCCCGAATAGCTCCACCTGCCCTAGCTCTCTCACATAAAAAGGCTCAACTACCACCAACATTC
AACTTAAACCAATCATATAGAGGTTTCTCCCAACTTAGCATCACAATACTCTTTTTCCTTAGCAT
A
Found at i:20692690 original size:13 final size:14
Alignment explanation
Indices: 20692653--20692689 Score: 74
Period size: 14 Copynumber: 2.6 Consensus size: 14
20692643 TAAAAGTGAG
20692653 AAAAGAAAAATTCA
1 AAAAGAAAAATTCA
20692667 AAAAGAAAAATTCA
1 AAAAGAAAAATTCA
20692681 AAAAGAAAA
1 AAAAGAAAA
20692690 TCAAAAGAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.76, C:0.05, G:0.08, T:0.11
Consensus pattern (14 bp):
AAAAGAAAAATTCA
Found at i:20695979 original size:53 final size:53
Alignment explanation
Indices: 20695854--20696005 Score: 214
Period size: 53 Copynumber: 2.8 Consensus size: 53
20695844 GACGGTTAAG
*
20695854 GATACCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGCAAA
1 GATACCATGTAAGACCATGTCAAGACATGGCATTGGTGAGTT-C-ATAAGGCAAA
* * * *
20695909 GGTCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGCAAA
1 GATACCATGTAAGACCATGTCAAGACATGGCATTGGTGAGTTCATAAGGCAAA
* * *
20695962 GATACCACGTAAGACCATGTCAAGACATGGCAATGGTAAGTTCA
1 GATACCATGTAAGACCATGTCAAGACATGGCATTGGTGAGTTCA
20696006 AAAAGAAAAA
Statistics
Matches: 85, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
53 47 0.55
54 1 0.01
55 37 0.44
ACGTcount: A:0.35, C:0.19, G:0.24, T:0.22
Consensus pattern (53 bp):
GATACCATGTAAGACCATGTCAAGACATGGCATTGGTGAGTTCATAAGGCAAA
Found at i:20699849 original size:19 final size:19
Alignment explanation
Indices: 20699814--20699864 Score: 70
Period size: 18 Copynumber: 2.7 Consensus size: 19
20699804 GAAATGACAA
20699814 AGATGAGAAAT-AAATATG
1 AGATGAGAAATGAAATATG
20699832 AGATGAGAAATGAAATATG
1 AGATGAGAAATGAAATATG
20699851 A-ATTGATGAAATGA
1 AGA-TGA-GAAATGA
20699865 TATGTGAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
18 12 0.40
19 11 0.37
20 7 0.23
ACGTcount: A:0.53, C:0.00, G:0.24, T:0.24
Consensus pattern (19 bp):
AGATGAGAAATGAAATATG
Found at i:20700842 original size:50 final size:51
Alignment explanation
Indices: 20700788--20700898 Score: 127
Period size: 54 Copynumber: 2.1 Consensus size: 51
20700778 CTGTGTGACC
*
20700788 CAAGTTAATGAATT-GGGCAAAGACAC-GAGCTGGGACATGATCGTGTGTCT
1 CAAGTTAATGAATTAGGGCAAAGACACAG-GCTGGGACACGATCGTGTGTCT
* * * *
20700838 CAAGTTAGTGAGTTACACGGGTAGAGACACAGGCTGGGACACGATCGTGTGTCT
1 CAAGTTAATGAATT--A-GGGCAAAGACACAGGCTGGGACACGATCGTGTGTCT
20700892 CAAGTTA
1 CAAGTTA
20700899 GTGAGTTACA
Statistics
Matches: 51, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
50 12 0.24
54 38 0.75
55 1 0.02
ACGTcount: A:0.29, C:0.17, G:0.31, T:0.23
Consensus pattern (51 bp):
CAAGTTAATGAATTAGGGCAAAGACACAGGCTGGGACACGATCGTGTGTCT
Found at i:20700918 original size:54 final size:54
Alignment explanation
Indices: 20700808--20700920 Score: 174
Period size: 54 Copynumber: 2.1 Consensus size: 54
20700798 AATTGGGCAA
* ** *
20700808 AGACACGAGCTGGGACATGATCGTGTGTCTCAAGTTAGTGAGTTACACGGGTAG
1 AGACACGAGCTGGGACACGATCGTGTGTCTCAAGTTAGTGAGTTACACAAGCAG
20700862 AGACAC-AGGCTGGGACACGATCGTGTGTCTCAAGTTAGTGAGTTACACAAGCAG
1 AGACACGA-GCTGGGACACGATCGTGTGTCTCAAGTTAGTGAGTTACACAAGCAG
20700916 AGACA
1 AGACA
20700921 TGGGCTAGGA
Statistics
Matches: 54, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
53 1 0.02
54 53 0.98
ACGTcount: A:0.29, C:0.19, G:0.31, T:0.21
Consensus pattern (54 bp):
AGACACGAGCTGGGACACGATCGTGTGTCTCAAGTTAGTGAGTTACACAAGCAG
Found at i:20700932 original size:54 final size:54
Alignment explanation
Indices: 20700820--20700933 Score: 165
Period size: 54 Copynumber: 2.1 Consensus size: 54
20700810 ACACGAGCTG
* ** * *
20700820 GGACATGATCGTGTGTCTCAAGTTAGTGAGTTACACGGGTAGAGACACAGGCTG
1 GGACACGATCGTGTGTCTCAAGTTAGTGAGTTACACAAGCAGAGACACAGGCTA
**
20700874 GGACACGATCGTGTGTCTCAAGTTAGTGAGTTACACAAGCAGAGACATGGGCTA
1 GGACACGATCGTGTGTCTCAAGTTAGTGAGTTACACAAGCAGAGACACAGGCTA
20700928 GGACAC
1 GGACAC
20700934 AGCCCTGTGT
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.28, C:0.18, G:0.32, T:0.22
Consensus pattern (54 bp):
GGACACGATCGTGTGTCTCAAGTTAGTGAGTTACACAAGCAGAGACACAGGCTA
Found at i:20702735 original size:2 final size:2
Alignment explanation
Indices: 20702728--20702782 Score: 110
Period size: 2 Copynumber: 27.5 Consensus size: 2
20702718 AAACAAGCAA
20702728 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
20702770 AG AG AG AG AG AG A
1 AG AG AG AG AG AG A
20702783 AAGAAAGCTC
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:20707462 original size:21 final size:20
Alignment explanation
Indices: 20707427--20707474 Score: 71
Period size: 21 Copynumber: 2.4 Consensus size: 20
20707417 CATGTATTAG
*
20707427 ATATTAAATAGATATTTATT
1 ATATTAAAAAGATATTTATT
20707447 ATATTATAAAAGATATTTATT
1 ATATTA-AAAAGATATTTATT
20707468 A-ATTAAA
1 ATATTAAA
20707475 TAATTATATT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 2 0.08
20 10 0.38
21 14 0.54
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (20 bp):
ATATTAAAAAGATATTTATT
Found at i:20709715 original size:46 final size:46
Alignment explanation
Indices: 20709648--20709832 Score: 271
Period size: 46 Copynumber: 4.0 Consensus size: 46
20709638 AGTGTGCTCT
20709648 CTGATATGAAATGTATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTATAAGACCATGGTTGAAAGATACCATGGCAAC
*
20709694 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTATAAGACCATGGTTGAAAGATACCATGGCAAC
* *
20709740 CTGATATGAAATGTGTAAGACTATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTATAAGACCATGGTTGAAAGATACCATGGCAAC
* *** ** *
20709786 ATGACGGGAAAATAAATAAGAACATGGTTGAAAGATACCATGGCAAC
1 CTGATATG-AAATGTATAAGACCATGGTTGAAAGATACCATGGCAAC
20709833 ATTGTAACAT
Statistics
Matches: 127, Mismatches: 11, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
46 94 0.74
47 33 0.26
ACGTcount: A:0.40, C:0.14, G:0.23, T:0.23
Consensus pattern (46 bp):
CTGATATGAAATGTATAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:20709834 original size:24 final size:24
Alignment explanation
Indices: 20709762--20709834 Score: 64
Period size: 24 Copynumber: 3.1 Consensus size: 24
20709752 GTGTAAGACT
20709762 ATGGTTGAAAGATACCATGGCAAC
1 ATGGTTGAAAGATACCATGGCAAC
* * *
20709786 ATGACG-GGAAA-ATA-AATAAG-AAC
1 ATG--GTTGAAAGATACCAT-GGCAAC
20709809 ATGGTTGAAAGATACCATGGCAAC
1 ATGGTTGAAAGATACCATGGCAAC
20709833 AT
1 AT
20709835 TGTAACATCC
Statistics
Matches: 36, Mismatches: 6, Indels: 14
0.64 0.11 0.25
Matches are distributed among these distances:
21 1 0.03
22 4 0.11
23 12 0.33
24 14 0.39
25 4 0.11
26 1 0.03
ACGTcount: A:0.44, C:0.14, G:0.23, T:0.19
Consensus pattern (24 bp):
ATGGTTGAAAGATACCATGGCAAC
Found at i:20713995 original size:35 final size:35
Alignment explanation
Indices: 20713949--20714025 Score: 138
Period size: 35 Copynumber: 2.2 Consensus size: 35
20713939 ATTAGATGCG
20713949 GAAGG-TTAGCTAAATCCATTATTGGAGATTGCCA
1 GAAGGTTTAGCTAAATCCATTATTGGAGATTGCCA
*
20713983 GAAGGTTTAGCTAAATCCATTATTGGAGATTTCCA
1 GAAGGTTTAGCTAAATCCATTATTGGAGATTGCCA
20714018 GAAGGTTT
1 GAAGGTTT
20714026 TGTTCTTCTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
34 5 0.12
35 36 0.88
ACGTcount: A:0.31, C:0.13, G:0.23, T:0.32
Consensus pattern (35 bp):
GAAGGTTTAGCTAAATCCATTATTGGAGATTGCCA
Found at i:20715100 original size:26 final size:26
Alignment explanation
Indices: 20715064--20715115 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
20715054 TATTCCAAGG
20715064 TATGATGCCTCATGGCATGCTACAAA
1 TATGATGCCTCATGGCATGCTACAAA
20715090 TATGATGCCTCATGGCATGCTACAAA
1 TATGATGCCTCATGGCATGCTACAAA
20715116 CTCTACTACC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (26 bp):
TATGATGCCTCATGGCATGCTACAAA
Found at i:20716211 original size:21 final size:21
Alignment explanation
Indices: 20716187--20716226 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
20716177 TAAAAGTTAA
*
20716187 AAGTTAAAAGTCAAAACCATT
1 AAGTTAAAAGGCAAAACCATT
20716208 AAGTTAAAAGGCAAAACCA
1 AAGTTAAAAGGCAAAACCA
20716227 AATAATCTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.55, C:0.15, G:0.12, T:0.17
Consensus pattern (21 bp):
AAGTTAAAAGGCAAAACCATT
Found at i:20720286 original size:40 final size:40
Alignment explanation
Indices: 20720222--20720297 Score: 100
Period size: 40 Copynumber: 1.9 Consensus size: 40
20720212 ACGATGTTTG
* *
20720222 GCACTTAGTGTGCGTTTGAAAATAGCTTCGGTTATAAATA
1 GCACTTAGTGTGCGATTGAAAATAGCTTCGGCTATAAATA
* *
20720262 GCACTTAGTGTGCGAATTG-GAATAGTTTCGGCTATA
1 GCACTTAGTGTGCG-ATTGAAAATAGCTTCGGCTATA
20720298 TGAGGCACTA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
40 28 0.90
41 3 0.10
ACGTcount: A:0.28, C:0.13, G:0.25, T:0.34
Consensus pattern (40 bp):
GCACTTAGTGTGCGATTGAAAATAGCTTCGGCTATAAATA
Found at i:20723297 original size:16 final size:17
Alignment explanation
Indices: 20723276--20723315 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
20723266 TTTAGTTTCA
* *
20723276 TAGTTTTTAGT-TAGTT
1 TAGTTTTTACTGTAGCT
20723292 TAGTTTTTACTGTAGCT
1 TAGTTTTTACTGTAGCT
20723309 TAGTTTT
1 TAGTTTT
20723316 ATTTACATGT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 10 0.48
17 11 0.52
ACGTcount: A:0.17, C:0.05, G:0.17, T:0.60
Consensus pattern (17 bp):
TAGTTTTTACTGTAGCT
Found at i:20728372 original size:16 final size:17
Alignment explanation
Indices: 20728353--20728386 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
20728343 CAAATTAATT
*
20728353 AATTT-AAATATAAAAA
1 AATTTAAAAAATAAAAA
20728369 AATTTAAAAAATAAAAA
1 AATTTAAAAAATAAAAA
20728386 A
1 A
20728387 TTTTGACACA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (17 bp):
AATTTAAAAAATAAAAA
Found at i:20728783 original size:19 final size:19
Alignment explanation
Indices: 20728755--20728797 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
20728745 GTGCATCATT
*
20728755 ATACTGGCACAC-ATAGTGC
1 ATACTAGCACACGA-AGTGC
20728774 ATACTAGCACACGAAGTGC
1 ATACTAGCACACGAAGTGC
20728793 ATACT
1 ATACT
20728798 GCTATATAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 21 0.95
20 1 0.05
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.21
Consensus pattern (19 bp):
ATACTAGCACACGAAGTGC
Found at i:20729492 original size:16 final size:17
Alignment explanation
Indices: 20729463--20729507 Score: 65
Period size: 16 Copynumber: 2.7 Consensus size: 17
20729453 TATCAGAAAC
*
20729463 TAAATAATTAAAATAAA
1 TAAATAACTAAAATAAA
20729480 TAAATAA-TAAAATAAA
1 TAAATAACTAAAATAAA
*
20729496 CAAATAACTAAA
1 TAAATAACTAAA
20729508 CCAGTTAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
16 15 0.58
17 11 0.42
ACGTcount: A:0.71, C:0.04, G:0.00, T:0.24
Consensus pattern (17 bp):
TAAATAACTAAAATAAA
Found at i:20735343 original size:15 final size:15
Alignment explanation
Indices: 20735319--20735381 Score: 51
Period size: 15 Copynumber: 4.2 Consensus size: 15
20735309 ATCTCCTAAC
*
20735319 TTTTCCTTTATTTTA
1 TTTTCATTTATTTTA
*
20735334 TTTTCATTTACTTTTT
1 TTTTCATTTA-TTTTA
20735350 TTATTC-TTTATTTGT-
1 TT-TTCATTTATTT-TA
*
20735365 TTTTTA-TTATTTTA
1 TTTTCATTTATTTTA
20735379 TTT
1 TTT
20735382 CCAGCTTACT
Statistics
Matches: 40, Mismatches: 3, Indels: 11
0.74 0.06 0.20
Matches are distributed among these distances:
13 1 0.03
14 11 0.28
15 14 0.35
16 11 0.28
17 3 0.08
ACGTcount: A:0.14, C:0.08, G:0.02, T:0.76
Consensus pattern (15 bp):
TTTTCATTTATTTTA
Found at i:20735353 original size:19 final size:18
Alignment explanation
Indices: 20735324--20735381 Score: 53
Period size: 20 Copynumber: 2.9 Consensus size: 18
20735314 CTAACTTTTC
20735324 CTTTATTTTATTTTCATTTA
1 CTTT-TTTTATTTT-ATTTA
*
20735344 CTTTTTTTATTCTTTATTTG
1 CTTTTTTTA-T-TTTATTTA
*
20735364 TTTTTTATTATTTTATTT
1 CTTTTT-TTATTTTATTT
20735382 CCAGCTTACT
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
19 12 0.36
20 15 0.45
21 6 0.18
ACGTcount: A:0.16, C:0.07, G:0.02, T:0.76
Consensus pattern (18 bp):
CTTTTTTTATTTTATTTA
Found at i:20737931 original size:51 final size:51
Alignment explanation
Indices: 20737867--20738092 Score: 287
Period size: 51 Copynumber: 4.7 Consensus size: 51
20737857 TGGAAACATG
* *
20737867 ATCTTAAAAGATATGATTTTATAATCTTAGAGATCTTAGATATGATATGGA
1 ATCTTATAAGATATGATATTATAATCTTAGAGATCTTAGATATGATATGGA
*
20737918 ATCTTATAAGATATTATATTATAATCTTAGAGATCTTAGATATGATAT-G-
1 ATCTTATAAGATATGATATTATAATCTTAGAGATCTTAGATATGATATGGA
20737967 -----AT---AT-T-ATATTATAATCTTAGAGATCTTAGATATGATATGGA
1 ATCTTATAAGATATGATATTATAATCTTAGAGATCTTAGATATGATATGGA
* * *
20738008 ATCTTATAAGATATTATATTATATTCTTAGAGATCTTAGATATGATATGTA
1 ATCTTATAAGATATGATATTATAATCTTAGAGATCTTAGATATGATATGGA
* * *
20738059 ATCTTAAAAGATATGATTTTATATTCTTAGAGAT
1 ATCTTATAAGATATGATATTATAATCTTAGAGAT
20738093 TTGATTTGTA
Statistics
Matches: 155, Mismatches: 8, Indels: 24
0.83 0.04 0.13
Matches are distributed among these distances:
39 33 0.21
40 2 0.01
41 2 0.01
44 2 0.01
46 2 0.01
49 2 0.01
50 2 0.01
51 110 0.71
ACGTcount: A:0.38, C:0.06, G:0.13, T:0.42
Consensus pattern (51 bp):
ATCTTATAAGATATGATATTATAATCTTAGAGATCTTAGATATGATATGGA
Found at i:20737973 original size:39 final size:39
Alignment explanation
Indices: 20737927--20738005 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
20737917 AATCTTATAA
20737927 GATATTATATTATAATCTTAGAGATCTTAGATATGATAT
1 GATATTATATTATAATCTTAGAGATCTTAGATATGATAT
20737966 GATATTATATTATAATCTTAGAGATCTTAGATATGATAT
1 GATATTATATTATAATCTTAGAGATCTTAGATATGATAT
20738005 G
1 G
20738006 GAATCTTATA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.38, C:0.05, G:0.14, T:0.43
Consensus pattern (39 bp):
GATATTATATTATAATCTTAGAGATCTTAGATATGATAT
Found at i:20738022 original size:90 final size:90
Alignment explanation
Indices: 20737876--20738056 Score: 335
Period size: 90 Copynumber: 2.0 Consensus size: 90
20737866 GATCTTAAAA
*
20737876 GATATGATTTTATAATCTTAGAGATCTTAGATATGATATGGAATCTTATAAGATATTATATTATA
1 GATATGATATTATAATCTTAGAGATCTTAGATATGATATGGAATCTTATAAGATATTATATTATA
20737941 ATCTTAGAGATCTTAGATATGATAT
66 ATCTTAGAGATCTTAGATATGATAT
*
20737966 GATATTATATTATAATCTTAGAGATCTTAGATATGATATGGAATCTTATAAGATATTATATTATA
1 GATATGATATTATAATCTTAGAGATCTTAGATATGATATGGAATCTTATAAGATATTATATTATA
*
20738031 TTCTTAGAGATCTTAGATATGATAT
66 ATCTTAGAGATCTTAGATATGATAT
20738056 G
1 G
20738057 TAATCTTAAA
Statistics
Matches: 88, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
90 88 1.00
ACGTcount: A:0.38, C:0.06, G:0.14, T:0.43
Consensus pattern (90 bp):
GATATGATATTATAATCTTAGAGATCTTAGATATGATATGGAATCTTATAAGATATTATATTATA
ATCTTAGAGATCTTAGATATGATAT
Found at i:20741002 original size:38 final size:38
Alignment explanation
Indices: 20740954--20741077 Score: 158
Period size: 38 Copynumber: 3.2 Consensus size: 38
20740944 GGCACGAAGG
* * * *
20740954 CCCGAATATAATACCAGCACTAGGCCTGCGGGATTTAT
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
*
20740992 CCCGGATATAATACCAACACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
** *
20741030 CCCGGATATTTTACCAGCACGAAGCCTGCGGGTCTTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGG-ATTTAA
20741069 GCCCGGATA
1 -CCCGGATA
20741078 CACATCAAAT
Statistics
Matches: 75, Mismatches: 9, Indels: 2
0.87 0.10 0.02
Matches are distributed among these distances:
38 62 0.83
39 5 0.07
40 8 0.11
ACGTcount: A:0.28, C:0.27, G:0.23, T:0.22
Consensus pattern (38 bp):
CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
Found at i:20745713 original size:47 final size:47
Alignment explanation
Indices: 20745638--20745748 Score: 161
Period size: 47 Copynumber: 2.4 Consensus size: 47
20745628 CCCCTCGGGA
* * *
20745638 CTTATCACATT-TATACACTTTCATATTCATCGCATTGGCCATTCGGC
1 CTTATCAC-TTATATACACTTTCACATTCATCACATCGGCCATTCGGC
*
20745685 CTTATCACTTATATACACTTTGACATTCATCACATCGGCCATTCGGC
1 CTTATCACTTATATACACTTTCACATTCATCACATCGGCCATTCGGC
*
20745732 CTTATCACATATATACA
1 CTTATCACTTATATACA
20745749 TCTCATACAT
Statistics
Matches: 58, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
46 2 0.03
47 56 0.97
ACGTcount: A:0.27, C:0.28, G:0.09, T:0.36
Consensus pattern (47 bp):
CTTATCACTTATATACACTTTCACATTCATCACATCGGCCATTCGGC
Found at i:20745804 original size:46 final size:46
Alignment explanation
Indices: 20745748--20745887 Score: 253
Period size: 46 Copynumber: 3.0 Consensus size: 46
20745738 ACATATATAC
* *
20745748 ATCTCATACATGTTTCATACTAGCCATTTGGCTTTACCACACATAT
1 ATCTCATACATATTTCACACTAGCCATTTGGCTTTACCACACATAT
20745794 ATCTCATACATATTTCACACTAGCCATTTGGCTTTACCACACATAT
1 ATCTCATACATATTTCACACTAGCCATTTGGCTTTACCACACATAT
*
20745840 ATCACATACATATTTCACACTAGCCATTTGGCTTTACCACACATAT
1 ATCTCATACATATTTCACACTAGCCATTTGGCTTTACCACACATAT
20745886 AT
1 AT
20745888 ATATTTAACT
Statistics
Matches: 91, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
46 91 1.00
ACGTcount: A:0.31, C:0.27, G:0.07, T:0.35
Consensus pattern (46 bp):
ATCTCATACATATTTCACACTAGCCATTTGGCTTTACCACACATAT
Found at i:20748639 original size:40 final size:40
Alignment explanation
Indices: 20748590--20748694 Score: 115
Period size: 40 Copynumber: 2.6 Consensus size: 40
20748580 GACTCGCTCG
* * *
20748590 ATTGTCTTCGGGACATAGCCCGG-TTATAGTGATTCACACA
1 ATTGCCTTCGGGACATAGCCCGGATT-TAGTAACTCACACA
*
20748630 ATTGCCTTCGGGA-ATTAGCCCGGATTTAGTAACTCGCACA
1 ATTGCCTTCGGGACA-TAGCCCGGATTTAGTAACTCACACA
** *
20748670 AAAGCCTTCGGGACTTAGCCCGGAT
1 ATTGCCTTCGGGACATAGCCCGGAT
20748695 ACCATTCGAA
Statistics
Matches: 55, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
39 1 0.02
40 52 0.95
41 2 0.04
ACGTcount: A:0.25, C:0.25, G:0.24, T:0.27
Consensus pattern (40 bp):
ATTGCCTTCGGGACATAGCCCGGATTTAGTAACTCACACA
Found at i:20749403 original size:40 final size:40
Alignment explanation
Indices: 20749354--20749621 Score: 439
Period size: 40 Copynumber: 6.7 Consensus size: 40
20749344 CCAGCATGAT
* *
20749354 TGCTCTTCGGGACCTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
*
20749394 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
* * *
20749434 TGCTCTTCGGAACTTAGTCCGGATACGTCACTAGCATGAA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
*
20749474 TGCTCTTCGGAACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
*
20749514 TGCTCTTCGGAACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
*
20749554 TGCTCTTCGGAACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
*
20749594 TGCTCTTCGGGACTTAGCCCGGAT-CATC
1 TGCTCTTCGGAACTTAGCCCGGATACATC
20749622 GTCGAGACCT
Statistics
Matches: 217, Mismatches: 11, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
39 3 0.01
40 214 0.99
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
Found at i:20752251 original size:47 final size:47
Alignment explanation
Indices: 20752176--20752286 Score: 161
Period size: 47 Copynumber: 2.4 Consensus size: 47
20752166 CCCCTCGGGA
* * *
20752176 CTTATCACATT-TATACACTTTCATATTCATCGCATTGGCCATTCGGC
1 CTTATCAC-TTATATACACTTTCACATTCATCACATCGGCCATTCGGC
*
20752223 CTTATCACTTATATACACTTTGACATTCATCACATCGGCCATTCGGC
1 CTTATCACTTATATACACTTTCACATTCATCACATCGGCCATTCGGC
*
20752270 CTTATCACATATATACA
1 CTTATCACTTATATACA
20752287 TCTCATACAT
Statistics
Matches: 58, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
46 2 0.03
47 56 0.97
ACGTcount: A:0.27, C:0.28, G:0.09, T:0.36
Consensus pattern (47 bp):
CTTATCACTTATATACACTTTCACATTCATCACATCGGCCATTCGGC
Found at i:20752342 original size:46 final size:46
Alignment explanation
Indices: 20752290--20752471 Score: 337
Period size: 46 Copynumber: 4.0 Consensus size: 46
20752280 ATATACATCT
* * *
20752290 CATACATGTTTCATACTAGCCATTTGGCTTTACCACACATATATCT
1 CATACATATTTCACACTAGCCATTTGGCTTTACCACACATATATCA
20752336 CATACATATTTCACACTAGCCATTTGGCTTTACCACACATATATCA
1 CATACATATTTCACACTAGCCATTTGGCTTTACCACACATATATCA
20752382 CATACATATTTCACACTAGCCATTTGGCTTTACCACACATATATCA
1 CATACATATTTCACACTAGCCATTTGGCTTTACCACACATATATCA
20752428 CATACATATTTCACACTAGCCATTTGGCTTTACCACACATATAT
1 CATACATATTTCACACTAGCCATTTGGCTTTACCACACATATAT
20752472 ATATTTAACT
Statistics
Matches: 133, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 133 1.00
ACGTcount: A:0.31, C:0.27, G:0.07, T:0.34
Consensus pattern (46 bp):
CATACATATTTCACACTAGCCATTTGGCTTTACCACACATATATCA
Found at i:20757052 original size:12 final size:12
Alignment explanation
Indices: 20757035--20757064 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
20757025 CGCCACGTTC
*
20757035 TATCTTTTCATT
1 TATCTTTCCATT
20757047 TATCTTTCCATT
1 TATCTTTCCATT
20757059 TATCTT
1 TATCTT
20757065 CTTTATTCAC
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:0.17, C:0.20, G:0.00, T:0.63
Consensus pattern (12 bp):
TATCTTTCCATT
Found at i:20762357 original size:14 final size:14
Alignment explanation
Indices: 20762338--20762365 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
20762328 ATAAGTCGAG
20762338 TCTCGCAGGAGTGA
1 TCTCGCAGGAGTGA
20762352 TCTCGCAGGAGTGA
1 TCTCGCAGGAGTGA
20762366 CACGGCACAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.21, G:0.36, T:0.21
Consensus pattern (14 bp):
TCTCGCAGGAGTGA
Found at i:20764223 original size:47 final size:46
Alignment explanation
Indices: 20764028--20764338 Score: 215
Period size: 47 Copynumber: 6.6 Consensus size: 46
20764018 TTGCCAATGT
* * * * *
20764028 CATGTTCCAAACATGATCTTACATTGGCTAGCATCATCCAGGCCGATG
1 CATGTCCCAGACATG-TCTTACACTGGC-ATCATCATCGAGGCCGATG
* * * * *
20764076 CCATGTCCCAGACATGGTCTTATACTAGCTCTCTTAT-ATACG-TGCTGATG
1 -CATGTCCCAGACAT-GTCTTACACTGGC-ATC--ATCAT-CGAGGCCGATG
* * * * *
20764126 CATGTCCCAAACATGTCTTACACTAGCA-CAAC-TCTTA-GTCGATG
1 CATGTCCCAGACATGTCTTACACTGGCATCATCATC-GAGGCCGATG
** *
20764170 TGTGTCCCAGACACGTCTTACACTGGCTATCATCATCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGC-ATCATCATCGAGGCCGATG
* * *
20764217 CATGTCCCAGACATGTCTTACACTGGCATTCATC-TCTACGCCAATG
1 CATGTCCCAGACATGTCTTACACTGGCA-TCATCATCGAGGCCGATG
* * *
20764263 TCATGTCCCAGACATGGTCTTATACTGGCACTCATAAT--ATGGCCAATG
1 -CATGTCCCAGACAT-GTCTTACACTGGCA-TCATCATCGA-GGCCGATG
20764311 CATGTCCCAGACATGTCTTACACTGGCA
1 CATGTCCCAGACATGTCTTACACTGGCA
20764339 CATAAGAAAT
Statistics
Matches: 210, Mismatches: 36, Indels: 35
0.75 0.13 0.12
Matches are distributed among these distances:
43 1 0.00
44 29 0.14
45 1 0.00
46 28 0.13
47 66 0.31
48 36 0.17
49 37 0.18
50 9 0.04
51 3 0.01
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTGGCATCATCATCGAGGCCGATG
Found at i:20764316 original size:94 final size:91
Alignment explanation
Indices: 20764077--20764340 Score: 284
Period size: 94 Copynumber: 2.8 Consensus size: 91
20764067 AGGCCGATGC
* * * * *
20764077 CATGTCCCAGACATGGTCTTATACTAGCTCTCTTATATACGTGCTGATGCATGTCCCAAACATGT
1 CATGTCCCAGACATGGTCTTATACTGGCACTCATA-ATA-G-GCCGATGCATGTCCCAGACATGT
* * *
20764142 CTTACACTAGCACAACTCTTAGTCGATGT
63 CTTACACTGGCACAACTCTTAGCCAATGT
* * * *
20764171 -GTGTCCCAGACA-CGTCTTACACTGGCTA-TCATCATCGAGGCCGATGCATGTCCCAGACATGT
1 CATGTCCCAGACATGGTCTTATACTGGC-ACTCATAAT--AGGCCGATGCATGTCCCAGACATGT
*
20764233 CTTACACTGGCATTCATCTC-TACGCCAATGT
63 CTTACACTGGCA--CAACTCTTA-GCCAATGT
*
20764264 CATGTCCCAGACATGGTCTTATACTGGCACTCATAATATGGCCAATGCATGTCCCAGACATGTCT
1 CATGTCCCAGACATGGTCTTATACTGGCACTCATAATA-GGCCGATGCATGTCCCAGACATGTCT
20764329 TACACTGGCACA
65 TACACTGGCACA
20764341 TAAGAAATCT
Statistics
Matches: 142, Mismatches: 18, Indels: 22
0.78 0.10 0.12
Matches are distributed among these distances:
91 34 0.24
92 19 0.13
93 24 0.17
94 47 0.33
95 18 0.13
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (91 bp):
CATGTCCCAGACATGGTCTTATACTGGCACTCATAATAGGCCGATGCATGTCCCAGACATGTCTT
ACACTGGCACAACTCTTAGCCAATGT
Found at i:20766865 original size:46 final size:48
Alignment explanation
Indices: 20766663--20766886 Score: 199
Period size: 46 Copynumber: 4.8 Consensus size: 48
20766653 AAGCTGACGC
* * ** *
20766663 CATGTCCCAGATAGGTCTTACACTAGCT-TGTGTATCGCAAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCT-CATATCTCAAGGCCGATG
* * * * * ** *
20766711 TATGTTCTAGACATGTCTTACACTAGCTCTC--GTCTCAATGTAGACG
1 CATGTCCCAGACATGTCTTACACTAGCTCTCATATCTCAAGGCCGATG
* * *
20766757 CATGTCCCAGACATTTCTTACACTGGCT-TAAATATCTCAAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCT-CATATCTCAAGGCCGATG
* ** *
20766805 CATGCCCCAGACATGTCTTACACTAGCTCTCATA-CT-GTGGCTGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCTCATATCTCAAGGCCGATG
*
20766851 CATGTCCCAGACATGTCTTACACTAGCTCACATATC
1 CATGTCCCAGACATGTCTTACACTAGCTCTCATATC
20766887 ACCCATTATC
Statistics
Matches: 138, Mismatches: 32, Indels: 13
0.75 0.17 0.07
Matches are distributed among these distances:
45 1 0.01
46 71 0.51
47 3 0.02
48 61 0.44
49 2 0.01
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.29
Consensus pattern (48 bp):
CATGTCCCAGACATGTCTTACACTAGCTCTCATATCTCAAGGCCGATG
Found at i:20766886 original size:94 final size:93
Alignment explanation
Indices: 20766658--20766878 Score: 248
Period size: 94 Copynumber: 2.3 Consensus size: 93
20766648 ACTACAAGCT
* * *** * ** *
20766658 GACGCCATGTCCCAGATAGGTCTTACACTAGCTTGTGTATCGCAAGGCCGATGTATGTTCTAGAC
1 GACG-CATGTCCCAGACATGTCTTACACTAGCTTAAATATCGCAAGGCCGATGCATGCCCCAGAC
*
20766723 ATGTCTTACACTAGCTCTCGTCTCAATGTA
65 ATGTCTTACACTAGCTCTCATCT-AATGTA
* * *
20766753 GACGCATGTCCCAGACATTTCTTACACTGGCTTAAATATCTCAAGGCCGATGCATGCCCCAGACA
1 GACGCATGTCCCAGACATGTCTTACACTAGCTTAAATATCGCAAGGCCGATGCATGCCCCAGACA
*
20766818 TGTCTTACACTAGCTCTCATACT-GTGGCT-
66 TGTCTTACACTAGCTCTCAT-CTAAT-G-TA
*
20766847 GATGCATGTCCCAGACATGTCTTACACTAGCT
1 GACGCATGTCCCAGACATGTCTTACACTAGCT
20766879 CACATATCAC
Statistics
Matches: 106, Mismatches: 17, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
93 1 0.01
94 98 0.92
95 7 0.07
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (93 bp):
GACGCATGTCCCAGACATGTCTTACACTAGCTTAAATATCGCAAGGCCGATGCATGCCCCAGACA
TGTCTTACACTAGCTCTCATCTAATGTA
Found at i:20775714 original size:3 final size:3
Alignment explanation
Indices: 20775706--20775730 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
20775696 AAAACCCTTC
20775706 GTT GTT GTT GTT GTT GTT GTT GTT G
1 GTT GTT GTT GTT GTT GTT GTT GTT G
20775731 AGATGAATCG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.00, G:0.36, T:0.64
Consensus pattern (3 bp):
GTT
Found at i:20777134 original size:2 final size:2
Alignment explanation
Indices: 20777123--20777155 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
20777113 ACAGTCTGCA
20777123 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
20777156 GGTCCTTGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:20781217 original size:16 final size:18
Alignment explanation
Indices: 20781196--20781228 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
20781186 AATTTATGTA
20781196 TATTA-TTAA-TTTATAC
1 TATTATTTAAGTTTATAC
20781212 TATTATTTAAGTTTATA
1 TATTATTTAAGTTTATA
20781229 ATTAATTTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 4 0.27
18 6 0.40
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.58
Consensus pattern (18 bp):
TATTATTTAAGTTTATAC
Found at i:20781985 original size:3 final size:3
Alignment explanation
Indices: 20781977--20782001 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
20781967 AAAACCCTTC
20781977 GTT GTT GTT GTT GTT GTT GTT GTT G
1 GTT GTT GTT GTT GTT GTT GTT GTT G
20782002 AGATGAATCG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.00, G:0.36, T:0.64
Consensus pattern (3 bp):
GTT
Found at i:20785583 original size:30 final size:30
Alignment explanation
Indices: 20785549--20785614 Score: 73
Period size: 31 Copynumber: 2.2 Consensus size: 30
20785539 TTCAAATACT
*
20785549 AAATTGGGTACCCA-ACTAA-AAATAAGTATC
1 AAATTGGATA-CCATACTAAGAAA-AAGTATC
*
20785579 AAATTTGGATACCATATTAAGAAAAAGTATC
1 AAA-TTGGATACCATACTAAGAAAAAGTATC
20785610 AAATT
1 AAATT
20785615 CAAGTACCAA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
30 8 0.26
31 20 0.65
32 3 0.10
ACGTcount: A:0.48, C:0.12, G:0.12, T:0.27
Consensus pattern (30 bp):
AAATTGGATACCATACTAAGAAAAAGTATC
Found at i:20792533 original size:4 final size:4
Alignment explanation
Indices: 20792524--20792576 Score: 52
Period size: 4 Copynumber: 13.2 Consensus size: 4
20792514 TTTTCCTTTG
* * * * * *
20792524 TATT TATT TATC TATT TATA TATT TATA CATT TATC TATT TATT TCTT
1 TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT
20792572 TATT T
1 TATT T
20792577 CTTTTTGTGT
Statistics
Matches: 37, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
4 37 1.00
ACGTcount: A:0.26, C:0.08, G:0.00, T:0.66
Consensus pattern (4 bp):
TATT
Found at i:20792788 original size:3 final size:3
Alignment explanation
Indices: 20792782--20792827 Score: 60
Period size: 3 Copynumber: 15.3 Consensus size: 3
20792772 TTTATGTGCA
20792782 TAT TAT TAT TAT TAT TATT TAT T-T TAT TATT TAT T-T TAT TAT TAT
1 TAT TAT TAT TAT TAT TA-T TAT TAT TAT TA-T TAT TAT TAT TAT TAT
20792827 T
1 T
20792828 TTTTCCTTTG
Statistics
Matches: 39, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
2 4 0.10
3 29 0.74
4 6 0.15
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (3 bp):
TAT
Found at i:20792802 original size:27 final size:27
Alignment explanation
Indices: 20792772--20792828 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 27
20792762 GTAATCTTTT
20792772 TTTATGTGCA-TA-TTATTATTATTATTA
1 TTTAT-TGCATTATTTATT-TTATTATTA
**
20792799 TTTATTTTATTATTTATTTTATTATTA
1 TTTATTGCATTATTTATTTTATTATTA
20792826 TTT
1 TTT
20792829 TTTCCTTTGA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
26 2 0.08
27 19 0.73
28 5 0.19
ACGTcount: A:0.26, C:0.02, G:0.04, T:0.68
Consensus pattern (27 bp):
TTTATTGCATTATTTATTTTATTATTA
Found at i:20792830 original size:12 final size:12
Alignment explanation
Indices: 20792782--20792829 Score: 73
Period size: 12 Copynumber: 4.1 Consensus size: 12
20792772 TTTATGTGCA
20792782 TATTA-TTATTAT
1 TATTATTTATT-T
20792794 TATTATTTATTT
1 TATTATTTATTT
20792806 TATTATTTATTT
1 TATTATTTATTT
20792818 TATTA-TTATTT
1 TATTATTTATTT
20792829 T
1 T
20792830 TTCCTTTGAT
Statistics
Matches: 35, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
11 7 0.20
12 23 0.66
13 5 0.14
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (12 bp):
TATTATTTATTT
Found at i:20797870 original size:47 final size:46
Alignment explanation
Indices: 20797750--20797876 Score: 123
Period size: 46 Copynumber: 2.7 Consensus size: 46
20797740 ATAATCTCAC
* * * * *
20797750 CCATAATGAACTCGGAACGCAACTCAACGAGCTCGGGTGTTCGCAT
1 CCATAATAAACTCGGAAAGCAACTCAACGAGTTCAGATGTTCGCAT
* * *
20797796 CCATAATGAACTCGGAGCA-CAAATCAACGAGTTCAGATGCTT-GCAT
1 CCATAATAAACTCGGA-AAGCAACTCAACGAGTTCAGATG-TTCGCAT
* *
20797842 CTATACGTAAACTCGGAAAGCAACTCAACGAGTTC
1 CCATA-ATAAACTCGGAAAGCAACTCAACGAGTTC
20797877 GAATGCCTCA
Statistics
Matches: 66, Mismatches: 11, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
46 41 0.62
47 25 0.38
ACGTcount: A:0.33, C:0.26, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAATAAACTCGGAAAGCAACTCAACGAGTTCAGATGTTCGCAT
Found at i:20804032 original size:21 final size:21
Alignment explanation
Indices: 20804008--20804051 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
20803998 AAGTCAATTC
*
20804008 CATGTCCCAAACAAGGTCTTA
1 CATGTCCCAAACAAGGTATTA
* *
20804029 CATGTCCCAGACATGGTATTA
1 CATGTCCCAAACAAGGTATTA
20804050 CA
1 CA
20804052 CTGACTATCG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.25
Consensus pattern (21 bp):
CATGTCCCAAACAAGGTATTA
Found at i:20807201 original size:44 final size:43
Alignment explanation
Indices: 20807138--20807982 Score: 520
Period size: 44 Copynumber: 18.6 Consensus size: 43
20807128 CATTATGGCG
* * ** *
20807138 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAAATTGAAGCCACT
1 AATCTTATCT-CCTGAAGTTGCAGTGGAGCAGATTGAAGATACA
* *
20807182 AATCTTATCTTCCTGAAGTTGCGGTAGAGCAGATTGAAGCA-ACA
1 AATCTTATC-TCCTGAAGTTGCAGTGGAGCAGATTGAAG-ATACA
* *
20807226 AATCCTATACCCCTGAAGTTGCAGTGG-G-ATGGATTGAA-ATCATCA
1 AATCTTAT-CTCCTGAAGTTGCAGTGGAGCA--GATTGAAGAT-A-CA
* *
20807271 TGGCGAATCTTATCTCCCTGAAGTTGCAATGGAGCAGATTGAAGCTA-A
1 -----AATCTTATCT-CCTGAAGTTGCAGTGGAGCAGATTGAAGATACA
* * * * ***
20807319 TAATCTTATCTCCTTAAATTTGTAGTGGAGCATATTGAAGATGGG
1 -AATCTTATCTCC-TGAAGTTGCAGTGGAGCAGATTGAAGATACA
* * * * * *
20807364 AATCTTGTTTCCCTGAAGTTGCAGTGGAACAAATTAAAATTTCAAGTTACA
1 AATCTTATCT-CCTGAAGTTGCAGTGGAGC------AGA-TTGAAGATACA
* * * *
20807415 AATCTTATCTCTCTGAAGTTGTAGTAGAGCAGATTAAAGTTACA
1 AATCTTATCTC-CTGAAGTTGCAGTGGAGCAGATTGAAGATACA
*
20807459 AATCTTATCTCCCTGAAGCTGCAGTGGAGCAGATTGAAGATAGCA
1 AATCTTATCT-CCTGAAGTTGCAGTGGAGCAGATTGAAGATA-CA
* * * * *
20807504 AATCTTATCTCTCTAAAGTTGCAGTAGAGCGGGTTAAAGATATCA
1 AATCTTATCTC-CTGAAGTTGCAGTGGAGCAGATTGAAGATA-CA
** * * * *
20807549 AATCTTATCTCTCAAAAGTTGTAGTAGAGTAGATTGAAGTTACA
1 AATCTTATCTC-CTGAAGTTGCAGTGGAGCAGATTGAAGATACA
* *
20807593 AATCTTATCTCACTGAAGTTG-TGATGGAGCAGATTGAAGATATAA
1 AATCTTATCTC-CTGAAGTTGCAG-TGGAGCAGATTGAAGATA-CA
20807638 AATCTTATCTCACTGAAGTTGC-GATGGAGCAGATTGAAGATATCA
1 AATCTTATCTC-CTGAAGTTGCAG-TGGAGCAGATTGAAGATA-CA
* * * *
20807683 AATCTTATCTCTTTGAAGTTGCAGTAGAGTAGATTGAAGTTACA
1 AATCTTATCTC-CTGAAGTTGCAGTGGAGCAGATTGAAGATACA
* *
20807727 AATCTTATCTCCCTGAAGTTGCAGTAGAGTAGATTGAAGATAGCA
1 AATCTTATCT-CCTGAAGTTGCAGTGGAGCAGATTGAAGATA-CA
* * ** * *
20807772 AATCTTATCTCCCTAAAGTTGCAATGGAAAATATTGAAGATAACG
1 AATCTTATCT-CCTGAAGTTGCAGTGGAGCAGATTGAAGAT-ACA
** * *
20807817 AATCTTAGT-TCCCCAAAGTTGCAGTGGAACAGATTAAAGCTACAAGTTACA
1 AATCTTA-TCT-CCTGAAGTTGCAGTGGAGCAGATT---G----AAGATACA
* * * * *
20807868 ACTCTTATCTCCATGAAGTTGTAGTGAAGCAGATTGAAGATGCG
1 AATCTTATCTCC-TGAAGTTGCAGTGGAGCAGATTGAAGATACA
* * * **
20807912 AATCTTATTTCCCTGAAGTTGTAGTGGAGTAGATTGAAGCGACA
1 AATCTTATCT-CCTGAAGTTGCAGTGGAGCAGATTGAAGATACA
*
20807956 AATCCTATAC-CTCTGAAGTTGCAGTGG
1 AATCTTAT-CTC-CTGAAGTTGCAGTGG
20807983 GTTAGAATGG
Statistics
Matches: 640, Mismatches: 110, Indels: 102
0.75 0.13 0.12
Matches are distributed among these distances:
42 2 0.00
43 5 0.01
44 297 0.46
45 231 0.36
46 3 0.00
48 3 0.00
49 1 0.00
50 36 0.06
51 57 0.09
52 5 0.01
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.30
Consensus pattern (43 bp):
AATCTTATCTCCTGAAGTTGCAGTGGAGCAGATTGAAGATACA
Found at i:20807390 original size:138 final size:138
Alignment explanation
Indices: 20807087--20807358 Score: 393
Period size: 138 Copynumber: 2.0 Consensus size: 138
20807077 GAGAAACCAT
* * *
20807087 AAATCTTATACCCTTGAAGTTGCAGTGGGATGGATTAAAATCATTATGGCGAATCTTATCTCCCT
1 AAATCCTATACCCCTGAAGTTGCAGTGGGATGGATTAAAATCATCATGGCGAATCTTATCTCCCT
* * * *
20807152 AAAGTTGCAGTGGAGCAAATTGAAGCCACTAATCTTATCTTCCTGAAGTTGCGGTAGAGCAGATT
66 AAAGTTGCAATGGAGCAAATTGAAGCCAATAATCTTATCTTCCTAAAGTTGCAGTAGAGCAGATT
20807217 GAAGCAAC
131 GAAGCAAC
*
20807225 AAATCCTATACCCCTGAAGTTGCAGTGGGATGGATTGAAATCATCATGGCGAATCTTATCTCCCT
1 AAATCCTATACCCCTGAAGTTGCAGTGGGATGGATTAAAATCATCATGGCGAATCTTATCTCCCT
* * * * * * *
20807290 GAAGTTGCAATGGAGCAGATTGAAGCTAATAATCTTATC-TCCTTAAATTTGTAGTGGAGCATAT
66 AAAGTTGCAATGGAGCAAATTGAAGCCAATAATCTTATCTTCC-TAAAGTTGCAGTAGAGCAGAT
20807354 TGAAG
130 TGAAG
20807359 ATGGGAATCT
Statistics
Matches: 118, Mismatches: 15, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
137 3 0.03
138 115 0.97
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.30
Consensus pattern (138 bp):
AAATCCTATACCCCTGAAGTTGCAGTGGGATGGATTAAAATCATCATGGCGAATCTTATCTCCCT
AAAGTTGCAATGGAGCAAATTGAAGCCAATAATCTTATCTTCCTAAAGTTGCAGTAGAGCAGATT
GAAGCAAC
Found at i:20807527 original size:45 final size:44
Alignment explanation
Indices: 20807411--20807982 Score: 486
Period size: 45 Copynumber: 12.7 Consensus size: 44
20807401 AATTTCAAGT
* * * * *
20807411 TACAAATCTTATCTCTCTGAAGTTGTAGTAGAGCAGATTAAAGT
1 TACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGA
*
20807455 TACAAATCTTATCTCCCTGAAGCTGCAGTGGAGCAGATTGAAGA
1 TACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGA
* * * * * *
20807499 TAGCAAATCTTATCTCTCTAAAGTTGCAGTAGAGCGGGTTAAAGA
1 TA-CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGA
* ** * * * *
20807544 TATCAAATCTTATCTCTCAAAAGTTGTAGTAGAGTAGATTGAAGT
1 TA-CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGA
* *
20807589 TACAAATCTTATCTCACTGAAGTTG-TGATGGAGCAGATTGAAGA
1 TACAAATCTTATCTCCCTGAAGTTGCAG-TGGAGCAGATTGAAGA
* *
20807633 TATAAAATCTTATCTCACTGAAGTTGC-GATGGAGCAGATTGAAGA
1 TA-CAAATCTTATCTCCCTGAAGTTGCAG-TGGAGCAGATTGAAGA
** * * *
20807678 TATCAAATCTTATCTCTTTGAAGTTGCAGTAGAGTAGATTGAAGT
1 TA-CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGA
* *
20807723 TACAAATCTTATCTCCCTGAAGTTGCAGTAGAGTAGATTGAAGA
1 TACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGA
* * ** *
20807767 TAGCAAATCTTATCTCCCTAAAGTTGCAATGGAAAATATTGAAGA
1 TA-CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGA
* ** * *
20807812 TAACGAATCTTAGT-TCCCCAAAGTTGCAGTGGAACAGATTAAAGCTACAAGT
1 T-ACAAATCTTA-TCTCCCTGAAGTTGCAGTGGAGCAGATT---G----AAGA
* * * *
20807864 TACAACTCTTATCTCCATGAAGTTGTAGTGAAGCAGATTGAAGA
1 TACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGA
* * * * * *
20807908 TGCGAATCTTATTTCCCTGAAGTTGTAGTGGAGTAGATTGAAGC
1 TACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGA
* * *
20807952 GACAAATCCTATAC-CTCTGAAGTTGCAGTGG
1 TACAAATCTTAT-CTCCCTGAAGTTGCAGTGG
20807983 GTTAGAATGG
Statistics
Matches: 437, Mismatches: 74, Indels: 34
0.80 0.14 0.06
Matches are distributed among these distances:
43 1 0.00
44 178 0.41
45 220 0.50
46 3 0.01
48 2 0.00
50 1 0.00
51 28 0.06
52 4 0.01
ACGTcount: A:0.34, C:0.15, G:0.21, T:0.30
Consensus pattern (44 bp):
TACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGA
Found at i:20807541 original size:89 final size:89
Alignment explanation
Indices: 20807138--20807794 Score: 460
Period size: 89 Copynumber: 7.3 Consensus size: 89
20807128 CATTATGGCG
* * * * * ** * *
20807138 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAAATTGAAGCCACTAATCTTATCTTCCTGAAGTTG
1 AATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAGTTACAAATCTTATCTCCCTGAAGTTG
*
20807203 CGGTAGAGCAGATTGAAGCA-A-CA
66 CAGTAGAGCAGATTGAAG-ATAGCA
* * * *
20807226 AATCCTATAC-CCCTGAAGTTGCAGT-G-GGATGGATTGAAA-TCATCATGGCGAATCTTATCTC
1 AATCTTAT-CTCTCTGAAGTTGCAGTAGAGCA--GATT-AAAGT--T-A---CAAATCTTATCTC
* * *
20807287 CCTGAAGTTGCAATGGAGCAGATTGAAGCTA--A
56 CCTGAAGTTGCAGTAGAGCAGATTGAAGATAGCA
* * * * * * * *** * *
20807319 TAATCTTATCTC-CTTAAATTTGTAGTGGAGCATATTGAAGATGGGAATCTTGTTTCCCTGAAGT
1 -AATCTTATCTCTC-TGAAGTTGCAGTAGAGCAGATTAAAGTTACAAATCTTATCTCCCTGAAGT
* * * *
20807383 TGCAGTGGAACAAATT-AAAATTTCAAGTTACA
64 TGCAGTAGAGCAGATTGAAGA--T--AG---CA
* *
20807415 AATCTTATCTCTCTGAAGTTGTAGTAGAGCAGATTAAAGTTACAAATCTTATCTCCCTGAAGCTG
1 AATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAGTTACAAATCTTATCTCCCTGAAGTTG
*
20807480 CAGTGGAGCAGATTGAAGATAGCA
66 CAGTAGAGCAGATTGAAGATAGCA
* * * * * **
20807504 AATCTTATCTCTCTAAAGTTGCAGTAGAGCGGGTTAAAGATATCAAATCTTATCTCTCAAAAGTT
1 AATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAGTTA-CAAATCTTATCTCCCTGAAGTT
* * *
20807569 GTAGTAGAGTAGATTGAAGTTA-CA
65 GCAGTAGAGCAGATTGAAGATAGCA
* * * * *
20807593 AATCTTATCTCACTGAAGTTG-TGATGGAGCAGATTGAAGATATA-AAATCTTATCTCACTGAAG
1 AATCTTATCTCTCTGAAGTTGCAG-TAGAGCAGATTAAAG-T-TACAAATCTTATCTCCCTGAAG
* *
20807656 TTGC-GATGGAGCAGATTGAAGATATCA
63 TTGCAG-TAGAGCAGATTGAAGATAGCA
* * *
20807683 AATCTTATCTCTTTGAAGTTGCAGTAGAGTAGATTGAAGTTACAAATCTTATCTCCCTGAAGTTG
1 AATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAGTTACAAATCTTATCTCCCTGAAGTTG
*
20807748 CAGTAGAGTAGATTGAAGATAGCA
66 CAGTAGAGCAGATTGAAGATAGCA
* *
20807772 AATCTTATCTCCCTAAAGTTGCA
1 AATCTTATCTCTCTGAAGTTGCA
20807795 ATGGAAAATA
Statistics
Matches: 447, Mismatches: 85, Indels: 73
0.74 0.14 0.12
Matches are distributed among these distances:
86 2 0.00
87 3 0.01
88 59 0.13
89 170 0.38
90 71 0.16
91 5 0.01
92 3 0.01
93 5 0.01
94 58 0.13
95 64 0.14
96 7 0.02
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.31
Consensus pattern (89 bp):
AATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAGTTACAAATCTTATCTCCCTGAAGTTG
CAGTAGAGCAGATTGAAGATAGCA
Found at i:20807799 original size:134 final size:134
Alignment explanation
Indices: 20807138--20807980 Score: 634
Period size: 134 Copynumber: 6.2 Consensus size: 134
20807128 CATTATGGCG
* * * * ** * *
20807138 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAAATTGAAGCCACTAATCTTATCTTCCTGAAGTTG
1 AATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTGAAGTTACAAATCTTATCTCCCTGAAGTTG
* * * * *
20807203 CGGTAGAGCAGATTGAAGCA-A-CAAATCCTATAC-CCCTGAAGTTGCAGTGG-G-ATGGATTGA
66 CAGTGGAGCAGATTGAAG-ATAGCAAATCTTAT-CTCCCTAAAGTTGCAATGGAGCA--GATTGA
20807263 A-ATCATCA
127 AGAT-ATCA
* * * * * *
20807271 TGGCGAATCTTATCTCCCTGAAGTTGCAATGGAGCAGATTGAAGCTA-ATAATCTTATCTCCTTA
1 -----AATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTGAAGTTACA-AATCTTATCTCCCTG
* * * ** * * * * * *
20807335 AATTTGTAGTGGAGCATATTGAAGAT-GGGAATCTTGTTTCCCTGAAGTTGCAGTGGAACAAATT
60 AAGTTGCAGTGGAGCAGATTGAAGATAGCAAATCTTATCTCCCTAAAGTTGCAATGGAGCAGATT
*
20807399 -AAAATTTCAAGTTACA
125 GAAGA--T--A--T-CA
* * *
20807415 AATCTTATCTCTCTGAAGTTGTAGTAGAGCAGATTAAAGTTACAAATCTTATCTCCCTGAAGCTG
1 AATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTGAAGTTACAAATCTTATCTCCCTGAAGTTG
* * * * * *
20807480 CAGTGGAGCAGATTGAAGATAGCAAATCTTATCTCTCTAAAGTTGCAGTAGAGCGGGTTAAAGAT
66 CAGTGGAGCAGATTGAAGATAGCAAATCTTATCTCCCTAAAGTTGCAATGGAGCAGATTGAAGAT
20807545 ATCA
131 ATCA
** * * *
20807549 AATCTTATCTCTCAAAAGTTGTAGTAGAGTAGATTGAAGTTACAAATCTTATCTCACTGAAGTTG
1 AATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTGAAGTTACAAATCTTATCTCCCTGAAGTTG
* ** * * *
20807614 -TGATGGAGCAGATTGAAGATATAAAATCTTATCTCACTGAAGTTGCGATGGAGCAGATTGAAGA
66 CAG-TGGAGCAGATTGAAGATAGCAAATCTTATCTCCCTAAAGTTGCAATGGAGCAGATTGAAGA
20807678 TATCA
130 TATCA
* *
20807683 AATCTTATCTCTTTGAAGTTGCAGTAGAGTAGATTGAAGTTACAAATCTTATCTCCCTGAAGTTG
1 AATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTGAAGTTACAAATCTTATCTCCCTGAAGTTG
* * ** *
20807748 CAGTAGAGTAGATTGAAGATAGCAAATCTTATCTCCCTAAAGTTGCAATGGAAAATATTGAAGAT
66 CAGTGGAGCAGATTGAAGATAGCAAATCTTATCTCCCTAAAGTTGCAATGGAGCAGATTGAAGAT
* *
20807813 AACG
131 ATCA
* ** * * * *
20807817 AATCTTAGT-TCCCCAAAGTTGCAGTGGAACAGATTAAAGCTACAAGTTACAACTCTTATCTCCA
1 AATCTTA-TCTCTCTGAAGTTGCAGTAGAGCAGATT---G----AAGTTACAAATCTTATCTCCC
* * * * * * * *
20807881 TGAAGTTGTAGTGAAGCAGATTGAAGAT-GCGAATCTTATTTCCCTGAAGTTGTAGTGGAGTAGA
58 TGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAATCTTATCTCCCTAAAGTTGCAATGGAGCAGA
**
20807945 TTGAAGCGA-CA
123 TTGAAGATATCA
*
20807956 AATCCTATAC-CTCTGAAGTTGCAGT
1 AATCTTAT-CTCTCTGAAGTTGCAGT
20807981 GGGTTAGAAT
Statistics
Matches: 569, Mismatches: 108, Indels: 55
0.78 0.15 0.08
Matches are distributed among these distances:
133 1 0.00
134 257 0.45
135 3 0.01
137 5 0.01
138 97 0.17
139 91 0.16
140 65 0.11
141 47 0.08
143 1 0.00
144 2 0.00
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.30
Consensus pattern (134 bp):
AATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTGAAGTTACAAATCTTATCTCCCTGAAGTTG
CAGTGGAGCAGATTGAAGATAGCAAATCTTATCTCCCTAAAGTTGCAATGGAGCAGATTGAAGAT
ATCA
Found at i:20809586 original size:3 final size:3
Alignment explanation
Indices: 20809578--20809665 Score: 151
Period size: 3 Copynumber: 29.3 Consensus size: 3
20809568 TCTTTCTCAC
20809578 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
20809626 TAT TAT TAT TAT T-T TAT CTAT CAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT T
20809666 TTTTTTTTTT
Statistics
Matches: 81, Mismatches: 2, Indels: 4
0.93 0.02 0.05
Matches are distributed among these distances:
2 2 0.02
3 76 0.94
4 3 0.04
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:20809859 original size:3 final size:3
Alignment explanation
Indices: 20809851--20809932 Score: 123
Period size: 3 Copynumber: 27.7 Consensus size: 3
20809841 GCATATTTTG
20809851 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
* *
20809899 TTA TTA TTA TTA TCA TTGT TTA TT- TT- TTA TTA TT
1 TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TT
20809933 TTCCTTTGAT
Statistics
Matches: 73, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
2 4 0.05
3 67 0.92
4 2 0.03
ACGTcount: A:0.29, C:0.01, G:0.01, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:20811099 original size:25 final size:25
Alignment explanation
Indices: 20811067--20811118 Score: 61
Period size: 27 Copynumber: 2.0 Consensus size: 25
20811057 ATTTTTTGTC
*
20811067 AAATATAG-GTACCAAATTGGAAAA
1 AAATATAGAGTACCAAATTAGAAAA
*
20811091 AAATAATAGATGTACCATATTAGAAAA
1 AAAT-ATAGA-GTACCAAATTAGAAAA
20811118 A
1 A
20811119 GTATCAAACT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 4 0.17
25 4 0.17
27 15 0.65
ACGTcount: A:0.56, C:0.08, G:0.13, T:0.23
Consensus pattern (25 bp):
AAATATAGAGTACCAAATTAGAAAA
Found at i:20813588 original size:14 final size:14
Alignment explanation
Indices: 20813548--20813590 Score: 52
Period size: 13 Copynumber: 3.0 Consensus size: 14
20813538 CTAATAGTAA
*
20813548 TTCATGCAATCTATTT
1 TTCATCCAATC-A-TT
20813564 TTCATCC-ATCATT
1 TTCATCCAATCATT
20813577 TTCATCCAATCATT
1 TTCATCCAATCATT
20813591 AAAATAGTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
13 9 0.36
14 7 0.28
15 3 0.12
16 6 0.24
ACGTcount: A:0.26, C:0.26, G:0.02, T:0.47
Consensus pattern (14 bp):
TTCATCCAATCATT
Found at i:20815421 original size:7 final size:7
Alignment explanation
Indices: 20815409--20815443 Score: 70
Period size: 7 Copynumber: 5.0 Consensus size: 7
20815399 CTCATGTCTA
20815409 TATAGAT
1 TATAGAT
20815416 TATAGAT
1 TATAGAT
20815423 TATAGAT
1 TATAGAT
20815430 TATAGAT
1 TATAGAT
20815437 TATAGAT
1 TATAGAT
20815444 AGATTTTAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.43, C:0.00, G:0.14, T:0.43
Consensus pattern (7 bp):
TATAGAT
Found at i:20822970 original size:3 final size:3
Alignment explanation
Indices: 20822962--20823021 Score: 120
Period size: 3 Copynumber: 20.0 Consensus size: 3
20822952 TATTTGTACA
20822962 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
20823010 TAT TAT TAT TAT
1 TAT TAT TAT TAT
20823022 CATTTGTTTA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 57 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:20823888 original size:75 final size:75
Alignment explanation
Indices: 20823765--20823991 Score: 235
Period size: 76 Copynumber: 3.0 Consensus size: 75
20823755 TGGTTTCGAC
* ** ** * * * *
20823765 AATTATAATCATCGGTATATCCGACTAGCACTAGGTGCAACTTCTGTCAATTTATTTGACTAGTG
1 AATTATAATCGTCGGTATATCCGACTAGTGCTAGGCACAACTTTTGTCAGTTTGTCTGACTAGTG
20823830 TTGG-ACACAT
66 TTGGCACAC-T
20823840 AATTATAATCGTCGGTATATCCGACTAGTGCTAGGCACAACTTTTGTCAGTTTGTCTGACTAGTG
1 AATTATAATCGTCGGTATATCCGACTAGTGCTAGGCACAACTTTTGTCAGTTTGTCTGACTAGTG
*
20823905 CTAGGCACACT
66 -TTGGCACACT
* * * * * *
20823916 -CTCTATATTTGTCAGT-TCATCCAACTAGTGCTGGGCACAACTTTTGTCAGTTTGTCTGACTAG
1 AAT-TATAATCGTCGGTAT-ATCCGACTAGTGCTAGGCACAACTTTTGTCAGTTTGTCTGACTAG
*
20823979 TGCTGGGCACACT
64 TG-TTGGCACACT
20823992 CTCTATATTT
Statistics
Matches: 131, Mismatches: 17, Indels: 7
0.85 0.11 0.05
Matches are distributed among these distances:
75 58 0.44
76 69 0.53
77 4 0.03
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.34
Consensus pattern (75 bp):
AATTATAATCGTCGGTATATCCGACTAGTGCTAGGCACAACTTTTGTCAGTTTGTCTGACTAGTG
TTGGCACACT
Found at i:20823908 original size:35 final size:35
Alignment explanation
Indices: 20823862--20823989 Score: 139
Period size: 35 Copynumber: 3.5 Consensus size: 35
20823852 CGGTATATCC
20823862 GACTAGTGCTAGGCACAACTTTTGTCAGTTTGTCT
1 GACTAGTGCTAGGCACAACTTTTGTCAGTTTGTCT
* ** *
20823897 GACTAGTGCTAGGCACACTCTCTATATTTGTCAGTTCATCC
1 GACTAGTGCTAGGCACA---AC--T-TTTGTCAGTTTGTCT
* *
20823938 AACTAGTGCTGGGCACAACTTTTGTCAGTTTGTCT
1 GACTAGTGCTAGGCACAACTTTTGTCAGTTTGTCT
*
20823973 GACTAGTGCTGGGCACA
1 GACTAGTGCTAGGCACA
20823990 CTCTCTATAT
Statistics
Matches: 76, Mismatches: 11, Indels: 12
0.77 0.11 0.12
Matches are distributed among these distances:
35 45 0.59
36 1 0.01
38 2 0.03
40 1 0.01
41 27 0.36
ACGTcount: A:0.21, C:0.23, G:0.23, T:0.34
Consensus pattern (35 bp):
GACTAGTGCTAGGCACAACTTTTGTCAGTTTGTCT
Found at i:20823943 original size:41 final size:41
Alignment explanation
Indices: 20823898--20824030 Score: 161
Period size: 41 Copynumber: 3.4 Consensus size: 41
20823888 AGTTTGTCTG
*
20823898 ACTAGTGCTAGGCACACTCTCTATATTTGTCAGTTCATCCA
1 ACTAGTGCTGGGCACACTCTCTATATTTGTCAGTTCATCCA
* ** **
20823939 ACTAGTGCTGGGCACA---AC--T-TTTGTCAGTTTGTCTG
1 ACTAGTGCTGGGCACACTCTCTATATTTGTCAGTTCATCCA
20823974 ACTAGTGCTGGGCACACTCTCTATATTTGTCAGTTCATCCA
1 ACTAGTGCTGGGCACACTCTCTATATTTGTCAGTTCATCCA
*
20824015 ACTAGCGCTGGGCACA
1 ACTAGTGCTGGGCACA
20824031 AAGTTTAGTT
Statistics
Matches: 74, Mismatches: 12, Indels: 12
0.76 0.12 0.12
Matches are distributed among these distances:
35 28 0.38
36 1 0.01
38 2 0.03
40 1 0.01
41 42 0.57
ACGTcount: A:0.22, C:0.26, G:0.20, T:0.32
Consensus pattern (41 bp):
ACTAGTGCTGGGCACACTCTCTATATTTGTCAGTTCATCCA
Found at i:20823957 original size:76 final size:76
Alignment explanation
Indices: 20823858--20824031 Score: 312
Period size: 76 Copynumber: 2.3 Consensus size: 76
20823848 TCGTCGGTAT
* *
20823858 ATCCGACTAGTGCTAGGCACAACTTTTGTCAGTTTGTCTGACTAGTGCTAGGCACACTCTCTATA
1 ATCCAACTAGTGCTGGGCACAACTTTTGTCAGTTTGTCTGACTAGTGCTAGGCACACTCTCTATA
20823923 TTTGTCAGTTC
66 TTTGTCAGTTC
*
20823934 ATCCAACTAGTGCTGGGCACAACTTTTGTCAGTTTGTCTGACTAGTGCTGGGCACACTCTCTATA
1 ATCCAACTAGTGCTGGGCACAACTTTTGTCAGTTTGTCTGACTAGTGCTAGGCACACTCTCTATA
20823999 TTTGTCAGTTC
66 TTTGTCAGTTC
*
20824010 ATCCAACTAGCGCTGGGCACAA
1 ATCCAACTAGTGCTGGGCACAA
20824032 AGTTTAGTTA
Statistics
Matches: 94, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
76 94 1.00
ACGTcount: A:0.22, C:0.25, G:0.21, T:0.33
Consensus pattern (76 bp):
ATCCAACTAGTGCTGGGCACAACTTTTGTCAGTTTGTCTGACTAGTGCTAGGCACACTCTCTATA
TTTGTCAGTTC
Found at i:20826633 original size:34 final size:34
Alignment explanation
Indices: 20826579--20826657 Score: 104
Period size: 34 Copynumber: 2.3 Consensus size: 34
20826569 ATCTCAGTAT
* *
20826579 AGTATCAAATATGCAGTAGGGCTTTAGCCCATAAC
1 AGTATC-AGTATGCAGTAGGGATTTAGCCCATAAC
* *
20826614 AGTATCAGTATGCATTAGGGATTTAGCCCATTAC
1 AGTATCAGTATGCAGTAGGGATTTAGCCCATAAC
*
20826648 AGTATTAGTA
1 AGTATCAGTA
20826658 GCAATCATGC
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
34 33 0.85
35 6 0.15
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.30
Consensus pattern (34 bp):
AGTATCAGTATGCAGTAGGGATTTAGCCCATAAC
Found at i:20827140 original size:18 final size:18
Alignment explanation
Indices: 20827106--20827140 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
20827096 CAAATGGCCT
* *
20827106 GCCCGTGTGGGCTCACAC
1 GCCCGTGTGGCCCCACAC
20827124 GCCCGTGTGGCCCCACA
1 GCCCGTGTGGCCCCACA
20827141 ACCCAATTTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.11, C:0.43, G:0.31, T:0.14
Consensus pattern (18 bp):
GCCCGTGTGGCCCCACAC
Found at i:20837507 original size:13 final size:13
Alignment explanation
Indices: 20837489--20837535 Score: 53
Period size: 13 Copynumber: 3.8 Consensus size: 13
20837479 TTCTTCATTA
20837489 CTTTTGAAAAGTG
1 CTTTTGAAAAGTG
* *
20837502 CTTTTGAGAAGTA
1 CTTTTGAAAAGTG
*
20837515 CTTTTGAGAAGTG
1 CTTTTGAAAAGTG
20837528 -TTTT-AAAA
1 CTTTTGAAAA
20837536 AAATTTAAGT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
11 3 0.10
12 4 0.13
13 23 0.77
ACGTcount: A:0.32, C:0.06, G:0.21, T:0.40
Consensus pattern (13 bp):
CTTTTGAAAAGTG
Found at i:20842271 original size:24 final size:25
Alignment explanation
Indices: 20842241--20842289 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 25
20842231 CAAGTGAGCC
*
20842241 ATATTAGGAAGCTCA-TAAGAGCTT
1 ATATTAGGAAGCTCACGAAGAGCTT
*
20842265 ATATTAGGATGCTCACGAAGAGCTT
1 ATATTAGGAAGCTCACGAAGAGCTT
20842290 CGTTTGTGTC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 14 0.64
25 8 0.36
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (25 bp):
ATATTAGGAAGCTCACGAAGAGCTT
Found at i:20847939 original size:38 final size:38
Alignment explanation
Indices: 20847897--20848105 Score: 233
Period size: 38 Copynumber: 5.5 Consensus size: 38
20847887 GCAGGCTATA
*
20847897 TGCTGGAATTATATCCGGGATAAATCCCGCAGGCTTCG
1 TGCTGGAATTATATCCGGGTTAAATCCCGCAGGCTTCG
** * *
20847935 TGCTGGTAA-TATATTTGGGTTAAATCCTGCAGGCTTTG
1 TGCTGG-AATTATATCCGGGTTAAATCCCGCAGGCTTCG
* * *
20847973 TGCTGGTATTATATCCGGGATAAATCTCGCAGGCTTCG
1 TGCTGGAATTATATCCGGGTTAAATCCCGCAGGCTTCG
*
20848011 TGCTGGTAA-TATATCCGAGTTAAATCCCGCAGGCTTCG
1 TGCTGG-AATTATATCCGGGTTAAATCCCGCAGGCTTCG
* * ** * *
20848049 TGCGGGTATTATATCCGGGTTAAATCCCATAGGCCTAG
1 TGCTGGAATTATATCCGGGTTAAATCCCGCAGGCTTCG
* *
20848087 TGCTGGTATTATATTCGGG
1 TGCTGGAATTATATCCGGG
20848106 CCTTTGAGCC
Statistics
Matches: 142, Mismatches: 25, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
37 2 0.01
38 137 0.96
39 3 0.02
ACGTcount: A:0.22, C:0.20, G:0.26, T:0.32
Consensus pattern (38 bp):
TGCTGGAATTATATCCGGGTTAAATCCCGCAGGCTTCG
Found at i:20848010 original size:76 final size:76
Alignment explanation
Indices: 20847884--20848103 Score: 296
Period size: 76 Copynumber: 2.9 Consensus size: 76
20847874 GGCTTAAAGA
* * *
20847884 CCTGCAGGCTATATGCTGGAATTATATCCGGGATAAATCCCGCAGGCTTCGTGCTGGTAATATAT
1 CCTGCAGGCTTTGTGCTGGTATTATATCCGGGATAAATCCCGCAGGCTTCGTGCTGGTAATATAT
* *
20847949 TTGGGTTAAAT
66 TCGAGTTAAAT
*
20847960 CCTGCAGGCTTTGTGCTGGTATTATATCCGGGATAAATCTCGCAGGCTTCGTGCTGGTAATATAT
1 CCTGCAGGCTTTGTGCTGGTATTATATCCGGGATAAATCCCGCAGGCTTCGTGCTGGTAATATAT
*
20848025 CCGAGTTAAAT
66 TCGAGTTAAAT
* * * * ** * * *
20848036 CCCGCAGGCTTCGTGCGGGTATTATATCCGGGTTAAATCCCATAGGCCTAGTGCTGGTATTATAT
1 CCTGCAGGCTTTGTGCTGGTATTATATCCGGGATAAATCCCGCAGGCTTCGTGCTGGTAATATAT
20848101 TCG
66 TCG
20848104 GGCCTTTGAG
Statistics
Matches: 126, Mismatches: 18, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
76 126 1.00
ACGTcount: A:0.22, C:0.20, G:0.25, T:0.32
Consensus pattern (76 bp):
CCTGCAGGCTTTGTGCTGGTATTATATCCGGGATAAATCCCGCAGGCTTCGTGCTGGTAATATAT
TCGAGTTAAAT
Found at i:20848090 original size:114 final size:114
Alignment explanation
Indices: 20847897--20848105 Score: 294
Period size: 114 Copynumber: 1.8 Consensus size: 114
20847887 GCAGGCTATA
* * **
20847897 TGCTGGAATTATATCCGGGATAAATCCCGCAGGCTTCGTGCTGGTAATATATTTGGGTTAAATCC
1 TGCTGGAATTATATCCGAGATAAATCCCGCAGGCTTCGTGCGGGTAATATATCCGGGTTAAATCC
** * *
20847962 TGCAGGCTTTGTGCTGGTATTATATCCGGGATAAATCTCGCAGGCTTCG
66 CACAGGCCTAGTGCTGGTATTATATCCGGGATAAATCTCGCAGGCTTCG
* *
20848011 TGCTGGTAA-TATATCCGAGTTAAATCCCGCAGGCTTCGTGCGGGTATTATATCCGGGTTAAATC
1 TGCTGG-AATTATATCCGAGATAAATCCCGCAGGCTTCGTGCGGGTAATATATCCGGGTTAAATC
* *
20848075 CCATAGGCCTAGTGCTGGTATTATATTCGGG
65 CCACAGGCCTAGTGCTGGTATTATATCCGGG
20848106 CCTTTGAGCC
Statistics
Matches: 82, Mismatches: 12, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
114 80 0.98
115 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.26, T:0.32
Consensus pattern (114 bp):
TGCTGGAATTATATCCGAGATAAATCCCGCAGGCTTCGTGCGGGTAATATATCCGGGTTAAATCC
CACAGGCCTAGTGCTGGTATTATATCCGGGATAAATCTCGCAGGCTTCG
Found at i:20854433 original size:15 final size:17
Alignment explanation
Indices: 20854403--20854434 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
20854393 ATTTGTATTC
20854403 ATATTGTCATTGAATTG
1 ATATTGTCATTGAATTG
20854420 ATATTGT-A-TGAATTG
1 ATATTGTCATTGAATTG
20854435 TTAAGTTATA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 1 0.07
17 7 0.47
ACGTcount: A:0.31, C:0.03, G:0.19, T:0.47
Consensus pattern (17 bp):
ATATTGTCATTGAATTG
Found at i:20854612 original size:47 final size:46
Alignment explanation
Indices: 20854544--20854850 Score: 200
Period size: 47 Copynumber: 6.6 Consensus size: 46
20854534 TGATTTGTGC
20854544 GCCAGTGTAAGACATGTCTGGGACATGCTTCGGCCACATTATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCTTCGGCCACATTATGAGA
* * * *
20854590 GCCAGTGTAA-ATCCATGTCTGGGACATGGCATCGG-CATCCA-GACGAGG
1 GCCAGTGTAAGA--CATGTCTGGGACAT-GCTTCGGCCA--CATTATGAGA
* * * * *
20854638 GCTAGTGTAAGACATGTCTGGGACATGCTCCAGCCATATTATGAGT
1 GCCAGTGTAAGACATGTCTGGGACATGCTTCGGCCACATTATGAGA
* * * *
20854684 GCTAGAGTAAGACATGTCTGGGACATGCATT-GGCCTCGA-CA-GAGGTA
1 GCCAGTGTAAGACATGTCTGGGACATGC-TTCGGCCAC-ATTATGA-G-A
* * ** * * * *
20854731 GCCAGTGTAAGACGTGTCTGGGACACGCAGCGGCTA-A-GA-GTTGT
1 GCCAGTGTAAGACATGTCTGGGACATGCTTCGGCCACATTATG-AGA
* * * *
20854775 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCGCGCATATATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCTTCGGC-CACAT-TATGAGA
*
20854823 GCCAGTGTAAGACCATGTCTAGGACATG
1 GCCAGTGTAAGA-CATGTCTGGGACATG
20854851 ACATTGACAA
Statistics
Matches: 199, Mismatches: 42, Indels: 37
0.72 0.15 0.13
Matches are distributed among these distances:
44 29 0.15
45 8 0.04
46 51 0.26
47 61 0.31
48 32 0.16
49 18 0.09
ACGTcount: A:0.26, C:0.21, G:0.30, T:0.22
Consensus pattern (46 bp):
GCCAGTGTAAGACATGTCTGGGACATGCTTCGGCCACATTATGAGA
Found at i:20854699 original size:46 final size:44
Alignment explanation
Indices: 20854547--20854711 Score: 154
Period size: 46 Copynumber: 3.6 Consensus size: 44
20854537 TTTGTGCGCC
* *
20854547 AGTGTAAGACATGTCTGGGACATGCTTCGGCCACATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGC-TC-GCCATATTATGAGAGCT
* * * *
20854593 AGTGTAA-ATCCATGTCTGGGACATGGCATCGGCATCCA-GACGAGGGCT
1 AGTGTAAGA--CATGTCTGGGACAT-GC-TCGCCAT--ATTATGAGAGCT
*
20854641 AGTGTAAGACATGTCTGGGACATGCTCCAGCCATATTATGAGTGCT
1 AGTGTAAGACATGTCTGGGACATGCT-C-GCCATATTATGAGAGCT
*
20854687 AGAGTAAGACATGTCTGGGACATGC
1 AGTGTAAGACATGTCTGGGACATGC
20854712 ATTGGCCTCG
Statistics
Matches: 98, Mismatches: 12, Indels: 18
0.77 0.09 0.14
Matches are distributed among these distances:
45 3 0.03
46 41 0.42
47 35 0.36
48 17 0.17
49 2 0.02
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.24
Consensus pattern (44 bp):
AGTGTAAGACATGTCTGGGACATGCTCGCCATATTATGAGAGCT
Found at i:20854793 original size:44 final size:45
Alignment explanation
Indices: 20854634--20854799 Score: 128
Period size: 46 Copynumber: 3.7 Consensus size: 45
20854624 GCATCCAGAC
* ** * *
20854634 GAGG-GCTAGTGTAAGACATGTCTGGGACATGCTCCAGCCAT-ATTA
1 GAGGTGCTAGTGTAAGACATGTCTGGGACACGCAGCGGCC-TCA-CA
* * **
20854679 TGA-GTGCTAGAGTAAGACATGTCTGGGACATGCATTGGCCTCGACA
1 -GAGGTGCTAGTGTAAGACATGTCTGGGACACGCAGCGGCCTC-ACA
* *
20854725 GAGGTAGCCAGTGTAAGACGTGTCTGGGACACGCAGCGG-CT-A-A
1 GAGGT-GCTAGTGTAAGACATGTCTGGGACACGCAGCGGCCTCACA
20854768 GAGTTGTGCTAGTGTAAGACATGTCTGGGACA
1 GAG--GTGCTAGTGTAAGACATGTCTGGGACA
20854800 TGCATCAGCG
Statistics
Matches: 99, Mismatches: 14, Indels: 16
0.77 0.11 0.12
Matches are distributed among these distances:
43 4 0.04
44 24 0.24
45 6 0.06
46 37 0.37
47 28 0.28
ACGTcount: A:0.26, C:0.19, G:0.33, T:0.23
Consensus pattern (45 bp):
GAGGTGCTAGTGTAAGACATGTCTGGGACACGCAGCGGCCTCACA
Found at i:20857158 original size:16 final size:16
Alignment explanation
Indices: 20857139--20857178 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
20857129 TTCGAGTGAG
*
20857139 ATTGAATTCGAATCGA
1 ATTGAATCCGAATCGA
*
20857155 ATTGAATCCGAATTGA
1 ATTGAATCCGAATCGA
20857171 ATTGAATC
1 ATTGAATC
20857179 AAATATATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.38, C:0.12, G:0.17, T:0.33
Consensus pattern (16 bp):
ATTGAATCCGAATCGA
Found at i:20857541 original size:21 final size:21
Alignment explanation
Indices: 20857490--20857548 Score: 56
Period size: 21 Copynumber: 3.0 Consensus size: 21
20857480 TGACGTGATC
20857490 AATAATTCAATTAATA-GAATA
1 AATAATTCAA-TAATATGAATA
*
20857511 AA-AATT---TAATATGATTA
1 AATAATTCAATAATATGAATA
*
20857528 AATAATTCAATAATATAAATA
1 AATAATTCAATAATATGAATA
20857549 GTAGAACATG
Statistics
Matches: 30, Mismatches: 3, Indels: 10
0.70 0.07 0.23
Matches are distributed among these distances:
16 5 0.17
17 6 0.20
18 4 0.13
20 4 0.13
21 11 0.37
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.36
Consensus pattern (21 bp):
AATAATTCAATAATATGAATA
Found at i:20865170 original size:6 final size:6
Alignment explanation
Indices: 20865161--20865222 Score: 72
Period size: 6 Copynumber: 10.3 Consensus size: 6
20865151 ACATAAAAGG
* * *
20865161 AAAAAT AAAAAT -AAAAT AAAAGAT AAAAAT AAAGAT AAACAT AAACAT
1 AAAAAT AAAAAT AAAAAT AAAA-AT AAAAAT AAAAAT AAAAAT AAAAAT
*
20865209 AAACAT AAAAAT AA
1 AAAAAT AAAAAT AA
20865223 TCGGACTCAA
Statistics
Matches: 51, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
5 5 0.10
6 40 0.78
7 6 0.12
ACGTcount: A:0.76, C:0.05, G:0.03, T:0.16
Consensus pattern (6 bp):
AAAAAT
Found at i:20865174 original size:18 final size:18
Alignment explanation
Indices: 20865153--20865211 Score: 59
Period size: 18 Copynumber: 3.3 Consensus size: 18
20865143 CAAAATAGAC
20865153 ATAAAAGGAAAA-ATAAAA
1 ATAAAA-GAAAAGATAAAA
*
20865171 ATAAAATAAAAGATAAAA
1 ATAAAAGAAAAGATAAAA
* *
20865189 AT-AAAGATAAACATAAAC
1 ATAAAAGA-AAAGATAAAA
20865207 ATAAA
1 ATAAA
20865212 CATAAAAATA
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
17 8 0.24
18 24 0.71
19 2 0.06
ACGTcount: A:0.75, C:0.03, G:0.07, T:0.15
Consensus pattern (18 bp):
ATAAAAGAAAAGATAAAA
Found at i:20868128 original size:31 final size:31
Alignment explanation
Indices: 20868093--20868154 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
20868083 GGCAACACGA
20868093 GGGTCTACTTCATCTAACAGTACTTTGTCTC
1 GGGTCTACTTCATCTAACAGTACTTTGTCTC
*
20868124 GGGTCTACTTCATCTAACAGTACTTTTTCTC
1 GGGTCTACTTCATCTAACAGTACTTTGTCTC
20868155 CAACCTTAAG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.19, C:0.26, G:0.15, T:0.40
Consensus pattern (31 bp):
GGGTCTACTTCATCTAACAGTACTTTGTCTC
Found at i:20874738 original size:33 final size:35
Alignment explanation
Indices: 20874671--20874744 Score: 107
Period size: 33 Copynumber: 2.2 Consensus size: 35
20874661 CATGTGGGAG
* *
20874671 CTTGTACCAAATCCATTTGATCCTCGATTTAATTA
1 CTTGTACCAAAGCCATTTGATCCTCAATTTAATTA
*
20874706 CTTGTA-CAAAGCCATTTGAT-GTCAATTTAATTA
1 CTTGTACCAAAGCCATTTGATCCTCAATTTAATTA
20874739 CTTGTA
1 CTTGTA
20874745 AGTGGGTTTA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
33 17 0.47
34 13 0.36
35 6 0.17
ACGTcount: A:0.30, C:0.19, G:0.11, T:0.41
Consensus pattern (35 bp):
CTTGTACCAAAGCCATTTGATCCTCAATTTAATTA
Found at i:20880460 original size:40 final size:40
Alignment explanation
Indices: 20880415--20880582 Score: 178
Period size: 40 Copynumber: 4.2 Consensus size: 40
20880405 CGGAATACAA
20880415 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* * *
20880455 CCGGATAGAACGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
20880495 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
*** * ** * *
20880535 CCGGATATAATTTCCAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
20880575 CCGGATAT
1 CCGGATAT
20880583 CATTCAATTG
Statistics
Matches: 107, Mismatches: 18, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
39 3 0.03
40 102 0.95
41 2 0.02
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:20888424 original size:40 final size:40
Alignment explanation
Indices: 20888379--20888546 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
20888369 CGGAATACAA
20888379 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* ** *
20888419 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
20888459 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
*** * ** * *
20888499 CCGGATATAATTTCCAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
20888539 CCGGATAT
1 CCGGATAT
20888547 CATTCAATTG
Statistics
Matches: 105, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
39 3 0.03
40 100 0.95
41 2 0.02
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:20890017 original size:24 final size:24
Alignment explanation
Indices: 20889963--20890014 Score: 68
Period size: 28 Copynumber: 2.0 Consensus size: 24
20889953 TAGGAAGAAT
20889963 AAAGAAATGAAAAAAAAAAGAAAA
1 AAAGAAATGAAAAAAAAAAGAAAA
20889987 AAGAGAATATGAAGAAAAACAAAGAAAA
1 AA-AGAA-ATGAA-AAAAA-AAAGAAAA
20890015 GAAAAAAAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
24 2 0.08
25 4 0.17
26 5 0.21
27 5 0.21
28 8 0.33
ACGTcount: A:0.77, C:0.02, G:0.15, T:0.06
Consensus pattern (24 bp):
AAAGAAATGAAAAAAAAAAGAAAA
Found at i:20891215 original size:29 final size:29
Alignment explanation
Indices: 20891182--20891264 Score: 166
Period size: 29 Copynumber: 2.9 Consensus size: 29
20891172 GTGACGAGAT
20891182 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
20891211 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
20891240 TGGCACTAAGTGTGCATGCTGGAAA
1 TGGCACTAAGTGTGCATGCTGGAAA
20891265 AAATACGGCA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 54 1.00
ACGTcount: A:0.30, C:0.14, G:0.29, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:20891304 original size:59 final size:58
Alignment explanation
Indices: 20891178--20891313 Score: 159
Period size: 59 Copynumber: 2.3 Consensus size: 58
20891168 TACGGTGACG
* * *
20891178 AGAT-TGGCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAA
1 AGATATGGCACTAAGTGTGCATGCTGGAAAAATACGGCACTAAGTGTGCATGCTCGAA
* **
20891235 ATATATGGCACTAAGTGTGCATGCTGGAAAAAATACGGCACTGGGTGTGCGA-GCTCGAA
1 AGATATGGCACTAAGTGTGCATGCTGG-AAAAATACGGCACTAAGTGTGC-ATGCTCGAA
* * *
20891294 GGGTATGGCACTATGTGTGC
1 AGATATGGCACTAAGTGTGC
20891314 GGGCTTAAAT
Statistics
Matches: 66, Mismatches: 10, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
57 3 0.05
58 22 0.33
59 40 0.61
60 1 0.02
ACGTcount: A:0.28, C:0.15, G:0.32, T:0.25
Consensus pattern (58 bp):
AGATATGGCACTAAGTGTGCATGCTGGAAAAATACGGCACTAAGTGTGCATGCTCGAA
Found at i:20897932 original size:20 final size:20
Alignment explanation
Indices: 20897899--20897951 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
20897889 GGAAGAATAA
20897899 AGAAATGAAAAAAAA-AAAG
1 AGAAATGAAAAAAAACAAAG
*
20897918 AGAATATGAAGAAAAACAAAG
1 AGAA-ATGAAAAAAAACAAAG
20897939 A-AAA-GAAAAAAAA
1 AGAAATGAAAAAAAA
20897952 AGTGTTCATT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
18 8 0.27
19 5 0.17
20 12 0.40
21 5 0.17
ACGTcount: A:0.77, C:0.02, G:0.15, T:0.06
Consensus pattern (20 bp):
AGAAATGAAAAAAAACAAAG
Found at i:20899146 original size:29 final size:29
Alignment explanation
Indices: 20899113--20899195 Score: 166
Period size: 29 Copynumber: 2.9 Consensus size: 29
20899103 GTGACGAGAT
20899113 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
20899142 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
20899171 TGGCACTAAGTGTGCATGCTGGAAA
1 TGGCACTAAGTGTGCATGCTGGAAA
20899196 AAATACGGCA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 54 1.00
ACGTcount: A:0.30, C:0.14, G:0.29, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:20899235 original size:59 final size:58
Alignment explanation
Indices: 20899109--20899244 Score: 159
Period size: 59 Copynumber: 2.3 Consensus size: 58
20899099 TACGGTGACG
* * *
20899109 AGAT-TGGCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAA
1 AGATATGGCACTAAGTGTGCATGCTGGAAAAATACGGCACTAAGTGTGCATGCTCGAA
* **
20899166 ATATATGGCACTAAGTGTGCATGCTGGAAAAAATACGGCACTGGGTGTGCGA-GCTCGAA
1 AGATATGGCACTAAGTGTGCATGCTGG-AAAAATACGGCACTAAGTGTGC-ATGCTCGAA
* * *
20899225 GGGTATGGCACTATGTGTGC
1 AGATATGGCACTAAGTGTGC
20899245 GGGCTTAAAT
Statistics
Matches: 66, Mismatches: 10, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
57 3 0.05
58 22 0.33
59 40 0.61
60 1 0.02
ACGTcount: A:0.28, C:0.15, G:0.32, T:0.25
Consensus pattern (58 bp):
AGATATGGCACTAAGTGTGCATGCTGGAAAAATACGGCACTAAGTGTGCATGCTCGAA
Found at i:20907083 original size:38 final size:38
Alignment explanation
Indices: 20907029--20907322 Score: 219
Period size: 38 Copynumber: 7.0 Consensus size: 38
20907019 GAATGAAAAA
*
20907029 AACGTGGTGCTAAGTGGATATACCACGGTTATACGTGT
1 AACGTGGTGCTAAGTGGATATACCACGGTTATACATGT
* *
20907067 AATGTGGTGCTAAGTGGATATACCACGATTACACATATTGATACATGT
1 AACGTGGTGCTAAGTGGATATACCACG---------GTT-ATACATGT
* *
20907115 AACGTGGTGCTAAGTGGATATACCATGGTTACATATATTGATTCATT
1 AACGTGGTGCTAAGTGGATATACCACGGTT--ATACA-TG------T
*
20907162 AACGTGGTGCTAAGTGGATATACCACGGTTAAACATGT
1 AACGTGGTGCTAAGTGGATATACCACGGTTATACATGT
* * *
20907200 AACGTGGTGCTAAGTGGATATGCCAGGGTTACATATATTGATTCATT
1 AACGTGGTGCTAAGTGGATATACCACGGTT--ATACA-TG------T
* * *
20907247 AATGTGGTGCTAAGTGGATATATCACGGTTAAACATGT
1 AACGTGGTGCTAAGTGGATATACCACGGTTATACATGT
*
20907285 AACGTGGTGCTAAGTGGATATGCCACGGTTATACATGT
1 AACGTGGTGCTAAGTGGATATACCACGGTTATACATGT
20907323 TAATTTGAAA
Statistics
Matches: 204, Mismatches: 25, Indels: 54
0.72 0.09 0.19
Matches are distributed among these distances:
38 90 0.44
39 2 0.01
40 7 0.03
41 4 0.02
44 4 0.02
45 6 0.03
47 59 0.29
48 32 0.16
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.31
Consensus pattern (38 bp):
AACGTGGTGCTAAGTGGATATACCACGGTTATACATGT
Found at i:20907183 original size:47 final size:47
Alignment explanation
Indices: 20907070--20907277 Score: 263
Period size: 47 Copynumber: 4.6 Consensus size: 47
20907060 TACGTGTAAT
* * *
20907070 GTGGTGCTAAGTGGATATACCACGATTACACATATTGATACATGTAAC
1 GTGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCAT-TAAC
*
20907118 GTGGTGCTAAGTGGATATACCATGGTTACATATATTGATTCATTAAC
1 GTGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCATTAAC
*
20907165 GTGGTGCTAAGTGGATATACCACGGTTA-A-ACA-TG------TAAC
1 GTGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCATTAAC
* * *
20907203 GTGGTGCTAAGTGGATATGCCAGGGTTACATATATTGATTCATTAAT
1 GTGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCATTAAC
*
20907250 GTGGTGCTAAGTGGATATATCACGGTTA
1 GTGGTGCTAAGTGGATATACCACGGTTA
20907278 AACATGTAAC
Statistics
Matches: 138, Mismatches: 13, Indels: 19
0.81 0.08 0.11
Matches are distributed among these distances:
38 30 0.22
39 1 0.01
40 2 0.01
41 2 0.01
44 2 0.01
45 2 0.01
46 1 0.01
47 59 0.43
48 39 0.28
ACGTcount: A:0.30, C:0.13, G:0.25, T:0.32
Consensus pattern (47 bp):
GTGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCATTAAC
Found at i:20907254 original size:85 final size:85
Alignment explanation
Indices: 20907109--20907315 Score: 369
Period size: 85 Copynumber: 2.4 Consensus size: 85
20907099 ACATATTGAT
* *
20907109 ACATGTAACGTGGTGCTAAGTGGATATACCATGGTTACATATATTGATTCATTAACGTGGTGCTA
1 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTGGTGCTA
20907174 AGTGGATATACCACGGTTAA
66 AGTGGATATACCACGGTTAA
* *
20907194 ACATGTAACGTGGTGCTAAGTGGATATGCCAGGGTTACATATATTGATTCATTAATGTGGTGCTA
1 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTGGTGCTA
*
20907259 AGTGGATATATCACGGTTAA
66 AGTGGATATACCACGGTTAA
20907279 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTA
1 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTA
20907316 TACATGTTAA
Statistics
Matches: 117, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
85 117 1.00
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (85 bp):
ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTGGTGCTA
AGTGGATATACCACGGTTAA
Found at i:20914270 original size:43 final size:42
Alignment explanation
Indices: 20914192--20914273 Score: 101
Period size: 43 Copynumber: 1.9 Consensus size: 42
20914182 AACTCGTACA
* * * **
20914192 ATGCCATATCCCAGTTATGGTCTTACATGTTATCAAATATCG
1 ATGCCATAGCCCAGCTATGGTCTTACACGAAATCAAATATCG
*
20914234 ATGCCGATAGCCCAGCTATGGTCTTACGCGAAATCAAATA
1 ATGCC-ATAGCCCAGCTATGGTCTTACACGAAATCAAATA
20914274 ACAATGTAGA
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
42 5 0.15
43 28 0.85
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.29
Consensus pattern (42 bp):
ATGCCATAGCCCAGCTATGGTCTTACACGAAATCAAATATCG
Found at i:20917699 original size:26 final size:27
Alignment explanation
Indices: 20917670--20917726 Score: 71
Period size: 26 Copynumber: 2.1 Consensus size: 27
20917660 CAACCTTAAC
* * *
20917670 CCTAGGGGTATATCAGT-AATTTTCCT
1 CCTAAGGGTAAATCAGTAAATTTTCCA
*
20917696 CCTAAGGGTAAATCTGTAAATTTTCCA
1 CCTAAGGGTAAATCAGTAAATTTTCCA
20917723 CCTA
1 CCTA
20917727 TAAAGGTATT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 14 0.54
27 12 0.46
ACGTcount: A:0.28, C:0.21, G:0.16, T:0.35
Consensus pattern (27 bp):
CCTAAGGGTAAATCAGTAAATTTTCCA
Found at i:20917703 original size:27 final size:27
Alignment explanation
Indices: 20917675--20917747 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
20917665 TTAACCCTAG
*
20917675 GGGTATATCAGTAATTTTCCTCCTA-A
1 GGGTATATCAGTAATTTTCCACCTATA
* *
20917701 GGGTAAATCTGTAAATTTTCCACCTATAA
1 GGGTATATCAGT-AATTTTCCACCTAT-A
* *
20917730 AGGTATTTCAGTAATTTT
1 GGGTATATCAGTAATTTT
20917748 ATCAGTTTTA
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
26 10 0.27
27 12 0.32
28 6 0.16
29 9 0.24
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.40
Consensus pattern (27 bp):
GGGTATATCAGTAATTTTCCACCTATA
Found at i:20918984 original size:5 final size:5
Alignment explanation
Indices: 20918974--20919005 Score: 55
Period size: 5 Copynumber: 6.2 Consensus size: 5
20918964 GTAGATGAAG
20918974 AGAAA AGAAA AGAAA AGAAA AGAAGA AGAAA A
1 AGAAA AGAAA AGAAA AGAAA AGAA-A AGAAA A
20919006 AACTAAATCC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 21 0.81
6 5 0.19
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (5 bp):
AGAAA
Found at i:20918992 original size:15 final size:16
Alignment explanation
Indices: 20918950--20919005 Score: 62
Period size: 15 Copynumber: 3.6 Consensus size: 16
20918940 TATGGGGGAA
*
20918950 AAGAAGAAGAG-AAAG
1 AAGAAGAAAAGAAAAG
* * *
20918965 TAGATGAAGAGAAAAG
1 AAGAAGAAAAGAAAAG
20918981 AA-AAGAAAAGAAAAG
1 AAGAAGAAAAGAAAAG
20918996 AAGAAGAAAA
1 AAGAAGAAAA
20919006 AACTAAATCC
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
15 22 0.65
16 12 0.35
ACGTcount: A:0.70, C:0.00, G:0.27, T:0.04
Consensus pattern (16 bp):
AAGAAGAAAAGAAAAG
Found at i:20920004 original size:25 final size:26
Alignment explanation
Indices: 20919945--20920010 Score: 80
Period size: 25 Copynumber: 2.5 Consensus size: 26
20919935 TATTTTTTCC
*
20919945 TATCTAATAATAATAATTTTATAAATA
1 TATCTAATAATAA-AAATTTATAAATA
*
20919972 TATCTAATCATAAAAATTTA-AAATA
1 TATCTAATAATAAAAATTTATAAATA
* *
20919997 TCTGTAATAATAAA
1 TATCTAATAATAAA
20920011 TACAGTAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
25 16 0.47
26 6 0.18
27 12 0.35
ACGTcount: A:0.53, C:0.06, G:0.02, T:0.39
Consensus pattern (26 bp):
TATCTAATAATAAAAATTTATAAATA
Done.